7ASE

43S preinitiation complex from Trypanosoma cruzi with the kDDX60 helicase


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
V [auth F]SCOP2 FamilyRibosomal protein S2-like8102902 4003744 SCOP2 (2021-05-27)
V [auth F]SCOP2 SuperfamilySIS domain/Ribosomal protein S2-like8102903 3001397 SCOP2 (2021-05-27)
HA [auth O]SCOP2B SuperfamilyWinged helix DNA-binding domain8099472 3000034 SCOP2B (2021-05-27)
J [auth u]SCOP2B SuperfamilyS13-like H2TH domain8101629 3000053 SCOP2B (2021-05-27)
M [auth o]SCOP2B SuperfamilyRibosomal protein S78066023 3000799 SCOP2B (2021-05-27)
Q [auth t]SCOP2B SuperfamilyGlucocorticoid receptor-like (DNA-binding domain)8059226 3000068 SCOP2B (2021-05-27)
R [auth U]SCOP2 FamilyCold shock DNA-binding domain-like8102772 4001909 SCOP2 (2021-05-27)
R [auth U]SCOP2 SuperfamilyNucleic acid-binding proteins8102773 3000135 SCOP2 (2021-05-27)
S [auth v]SCOP2B SuperfamilyTranslational machinery components8099464 3000571 SCOP2B (2021-05-27)
X [auth g]SCOP2 FamilyRibosomal protein S21e8102792 4006215 SCOP2 (2021-05-27)
X [auth g]SCOP2 SuperfamilyGlucocorticoid receptor-like (DNA-binding domain)8102793 3000068 SCOP2 (2021-05-27)
Y [auth a]SCOP2B SuperfamilyWinged helix DNA-binding domain8099474 3000034 SCOP2B (2021-05-27)
AA [auth h]SCOP2B SuperfamilyL30e-like8099460 3001739 SCOP2B (2021-05-27)
EA [auth L]SCOP2B SuperfamilyRibosomal protein S108099462 3001336 SCOP2B (2021-05-27)
GA [auth N]SCOP2B SuperfamilyWinged helix DNA-binding domain8099478 3000034 SCOP2B (2021-05-27)
IA [auth b]SCOP2 FamilyRibosomal protein S88102906 4002027 SCOP2 (2021-05-27)
IA [auth b]SCOP2 SuperfamilyRibosomal protein S88102907 3000709 SCOP2 (2021-05-27)
JA [auth c]SCOP2B SuperfamilyRibosomal protein S30e-like8099466 3002190 SCOP2B (2021-05-27)
OA [auth Q]SCOP2 FamilyRibosomal protein S14p/S29e8102904 4003647 SCOP2 (2021-05-27)
OA [auth Q]SCOP2 SuperfamilyGlucocorticoid receptor-like (DNA-binding domain)8102905 3000068 SCOP2 (2021-05-27)
VA [auth W]SCOP2B SuperfamilyRibosomal S3Ae-like8059222 3002166 SCOP2B (2021-05-27)
H [auth p]SCOP2B SuperfamilyWD40 repeat-like8101627 3001694 SCOP2B (2021-05-27)
I [auth r]SCOP2B SuperfamilyRibosomal protein S5 domain 2-like8099470 3000100 SCOP2B (2021-05-27)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
F [auth j]PF01599e7asej1 A: few secondary structure elementsX: Rubredoxin-likeH: Rubredoxin-relatedT: Rubredoxin-relatedF: PF01599ECOD (1.6)
O [auth R]PF08069e7aseR1 A: alpha arraysX: HTHH: 40S ribosomal protein S13 N-terminal domain (From Topology)T: 40S ribosomal protein S13 N-terminal domainF: PF08069ECOD (1.6)
O [auth R]PF00312e7aseR2 A: alpha arraysX: S15/NS1 RNA-binding domain (From Topology)H: S15/NS1 RNA-binding domain (From Topology)T: S15/NS1 RNA-binding domainF: PF00312ECOD (1.6)
V [auth F]PF00318e7aseF1 A: a/b three-layered sandwichesX: Flavodoxin-likeH: Ribosomal protein S2/SIS domain (From Topology)T: Ribosomal protein S2/SIS domainF: PF00318ECOD (1.6)
Z [auth J]F_UNCLASSIFIEDe7aseJ1 A: a+b two layersX: Alpha-beta plaitsH: RNA-binding domain, RBD (From Topology)T: RNA-binding domain, RBDF: F_UNCLASSIFIEDECOD (1.6)
Z [auth J]PF00076e7aseJ3 A: a+b two layersX: Alpha-beta plaitsH: RNA-binding domain, RBD (From Topology)T: RNA-binding domain, RBDF: PF00076ECOD (1.6)
CA [auth P]PF01092e7aseP1 A: beta barrelsX: Ribosomal protein L25-likeH: Ribosomal protein L25-like (From Topology)T: Ribosomal protein L25-likeF: PF01092ECOD (1.6)
FA [auth M]PF00189e7aseM2 A: a+b two layersX: T-foldH: Ribosomal protein S3-C (From Topology)T: Ribosomal protein S3-CF: PF00189ECOD (1.6)
FA [auth M]PF07650e7aseM1 A: a+b two layersX: Alpha-lytic protease prodomain-likeH: KH-domainsT: Prokaryotic type KH domain (KH-domain type II)F: PF07650ECOD (1.6)
HA [auth O]PF01090e7aseO1 A: alpha arraysX: HTHH: HTHT: wingedF: PF01090ECOD (1.6)
J [auth u]PF00416e7aseu1 A: alpha arraysX: HhH/H2THH: H2TH (From Topology)T: H2THF: PF00416ECOD (1.6)
K [auth m]PF00164e7asem1 A: beta barrelsX: OB-foldH: Nucleic acid-binding proteins (From Topology)T: Nucleic acid-binding proteinsF: PF00164ECOD (1.6)
L [auth Z]PF01201e7aseZ1 A: beta barrelsX: Ribosomal protein L14-likeH: Ribosomal protein L14-related (From Topology)T: Ribosomal protein L14-relatedF: PF01201ECOD (1.6)
M [auth o]PF00177e7aseo1 A: alpha arraysX: Ribosomal protein S7 (From Topology)H: Ribosomal protein S7 (From Topology)T: Ribosomal protein S7F: PF00177ECOD (1.6)
N [auth q]PF01251e7aseq1 A: a+b two layersX: Alpha-lytic protease prodomain-likeH: 40S ribosomal protein S7-A (From Topology)T: 40S ribosomal protein S7-AF: PF01251ECOD (1.6)
P [auth S]PF01667e7aseS1 A: few secondary structure elementsX: Rubredoxin-likeH: Rubredoxin-relatedT: Rubredoxin-relatedF: PF01667ECOD (1.6)
Q [auth t]PF01283e7aset1 A: few secondary structure elementsX: Glucocorticoid receptor-likeH: LIM domain-likeT: LIM domain-likeF: PF01283ECOD (1.6)
R [auth U]PF01200e7aseU1 A: beta barrelsX: OB-foldH: Nucleic acid-binding proteins (From Topology)T: Nucleic acid-binding proteinsF: PF01200ECOD (1.6)
S [auth v]PF00411e7asev1 A: mixed a+b and a/bX: Ribonuclease H-likeH: Ribonuclease H-like (From Topology)T: Ribonuclease H-likeF: PF00411ECOD (1.6)
T [auth X]PF00366,PF16205e7aseX1 A: beta barrelsX: OB-foldH: Nucleic acid-binding proteins (From Topology)T: Nucleic acid-binding proteinsF: PF00366,PF16205ECOD (1.6)
U [auth B]PF00163,PF01479e7aseB1 A: a+b two layersX: beta-GraspH: Ubiquitin-relatedT: Alpha-L RNA-binding motifF: PF00163,PF01479ECOD (1.6)
W [auth d]PF03719e7ased3 A: a+b two layersX: Ribosomal protein S5 domain 2-like (From Topology)H: Ribosomal protein S5 domain 2-like (From Topology)T: Ribosomal protein S5 domain 2-likeF: PF03719ECOD (1.6)
W [auth d]PF00333e7ased2 A: a+b two layersX: dsRBD-likeH: dsRNA-binding domain-like (From Topology)T: dsRNA-binding domain-likeF: PF00333ECOD (1.6)
W [auth d]PF00333e7ased1 A: extended segmentsX: N-terminal region in 40S ribosomal protein rpS2 (S5p) (From Topology)H: N-terminal region in 40S ribosomal protein rpS2 (S5p) (From Topology)T: N-terminal region in 40S ribosomal protein rpS2 (S5p)F: PF00333ECOD (1.6)
X [auth g]PF01249e7aseg1 A: a+b two layersX: 40S ribosomal protein rpS21 (S21e) (From Topology)H: 40S ribosomal protein rpS21 (S21e) (From Topology)T: 40S ribosomal protein rpS21 (S21e)F: PF01249ECOD (1.6)
Y [auth a]PF03297e7asea1 A: alpha arraysX: HTHH: HTHT: wingedF: PF03297ECOD (1.6)
AA [auth h]PF01248e7aseh1 A: a+b three layersX: Bacillus chorismate mutase-likeH: L30e-like (From Topology)T: L30e-likeF: PF01248ECOD (1.6)
BA [auth 5]F_UNCLASSIFIEDe7ase53 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: Alanine racemase-CF: F_UNCLASSIFIEDECOD (1.6)
BA [auth 5]PF09173e7ase54 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: Aminomethyltransferase beta-barrel domainF: PF09173ECOD (1.6)
BA [auth 5]PF00009e7ase52 A: a/b three-layered sandwichesX: P-loop domains-likeH: P-loop domains-relatedT: P-loop containing nucleoside triphosphate hydrolasesF: PF00009ECOD (1.6)
BA [auth 5]F_UNCLASSIFIEDe7ase51 A: few secondary structure elementsX: Rubredoxin-likeH: Rubredoxin-relatedT: Rubredoxin-relatedF: F_UNCLASSIFIEDECOD (1.6)
DA [auth i]PF00833e7asei1 A: alpha arraysX: HTHH: HTHT: FF domainF: PF00833ECOD (1.6)
EA [auth L]PF00338e7aseL1 A: a+b two layersX: Alpha-beta plaitsH: Ribosomal protein S10 (From Topology)T: Ribosomal protein S10F: PF00338ECOD (1.6)
GA [auth N]PF03501e7aseN1 A: alpha arraysX: HTHH: HTHT: wingedF: PF03501ECOD (1.6)
IA [auth b]PF00410e7aseb2 A: a+b two layersX: R3H domain-likeH: Ribosomal protein S8, N-terminal domain (From Topology)T: Ribosomal protein S8, N-terminal domainF: PF00410ECOD (1.6)
IA [auth b]PF00410e7aseb1 A: a+b two layersX: Ribosomal protein S8, C-terminal domain (From Topology)H: Ribosomal protein S8, C-terminal domain (From Topology)T: Ribosomal protein S8, C-terminal domainF: PF00410ECOD (1.6)
JA [auth c]PF04758e7asec1 A: extended segmentsX: 40S ribosomal protein S30 (S30e) (From Topology)H: 40S ribosomal protein S30 (S30e) (From Topology)T: 40S ribosomal protein S30 (S30e)F: PF04758ECOD (1.6)
KA [auth V]PF01253e7aseV1 A: a+b two layersX: Glucose permease domain IIB-likeH: eIF1-like (From Topology)T: eIF1-likeF: PF01253ECOD (1.6)
MA [auth E]PF01399e7aseE2 A: alpha arraysX: HTHH: HTHT: wingedF: PF01399ECOD (1.6)
MA [auth E]F_UNCLASSIFIEDe7aseE1 A: alpha superhelicesX: Repetitive alpha hairpinsH: ARM repeat (From Topology)T: ARM repeatF: F_UNCLASSIFIEDECOD (1.6)
D [auth y]PF01282e7asey1 A: a+b two layersX: Alpha-beta plaitsH: Ribosomal proteins S24e, L23 and L15e (From Topology)T: Ribosomal proteins S24e, L23 and L15eF: PF01282ECOD (1.6)
NA [auth Y]F_UNCLASSIFIEDe7aseY1 A: alpha superhelicesX: Repetitive alpha hairpinsH: ARM repeat (From Topology)T: ARM repeatF: F_UNCLASSIFIEDECOD (1.6)
OA [auth Q]PF00253e7aseQ1 A: few secondary structure elementsX: Glucocorticoid receptor-likeH: LIM domain-likeT: LIM domain-likeF: PF00253ECOD (1.6)
PA [auth D]PF05162e7aseD1 A: extended segmentsX: Ribosomal protein L41-A (From Topology)H: Ribosomal protein L41-A (From Topology)T: Ribosomal protein L41-AF: PF05162ECOD (1.6)
QA [auth G]PF01398e7aseG1 A: a+b three layersX: Cytidine deaminase-like (From Topology)H: Cytidine deaminase-like (From Topology)T: Cytidine deaminase-likeF: PF01398ECOD (1.6)
QA [auth G]F_UNCLASSIFIEDe7aseG2 A: extended segmentsX: 26S proteasome regulatory subunit RPN8/RPN11 C-terminal domain (From Topology)H: 26S proteasome regulatory subunit RPN8/RPN11 C-terminal domain (From Topology)T: 26S proteasome regulatory subunit RPN8/RPN11 C-terminal domainF: F_UNCLASSIFIEDECOD (1.6)
RA [auth K]F_UNCLASSIFIEDe7aseK1 A: alpha arraysX: HTHH: HTHT: wingedF: F_UNCLASSIFIEDECOD (1.6)
RA [auth K]PF10075e7aseK2 A: alpha superhelicesX: Repetitive alpha hairpinsH: ARM repeat (From Topology)T: ARM repeatF: PF10075ECOD (1.6)
SA [auth T]PF00203e7aseT1 A: a+b two layersX: Ribosomal protein S19 (From Topology)H: Ribosomal protein S19 (From Topology)T: Ribosomal protein S19F: PF00203ECOD (1.6)
VA [auth W]PF01015e7aseW2 A: beta barrelsX: Ribosomal protein L25-likeH: 40S ribosomal protein S3A N-terminal domain (From Topology)T: 40S ribosomal protein S3A N-terminal domainF: PF01015ECOD (1.6)
VA [auth W]PF01015e7aseW1 A: a+b two layersX: T-foldH: 40S ribosomal protein S3A C-terminal domain (From Topology)T: 40S ribosomal protein S3A C-terminal domainF: PF01015ECOD (1.6)
E [auth s]PF00575e7ases3 A: beta barrelsX: OB-foldH: Nucleic acid-binding proteins (From Topology)T: Nucleic acid-binding proteinsF: PF00575ECOD (1.6)
E [auth s]F_UNCLASSIFIEDe7ases1 A: alpha arraysX: HhH/H2THH: eIF2alpha middle domain (From Topology)T: eIF2alpha middle domainF: F_UNCLASSIFIEDECOD (1.6)
E [auth s]PF07541e7ases2 A: a+b two layersX: Alpha-beta plaitsH: eIF-2-alpha, C-terminal domain (From Topology)T: eIF-2-alpha, C-terminal domainF: PF07541ECOD (1.6)
XA [auth H]F_UNCLASSIFIEDe7aseH1 A: a+b three layersX: Cytidine deaminase-like (From Topology)H: Cytidine deaminase-like (From Topology)T: Cytidine deaminase-likeF: F_UNCLASSIFIEDECOD (1.6)
ZA [auth l]PF00900e7asel3 A: beta barrelsX: OB-foldH: Nucleic acid-binding proteins (From Topology)T: Nucleic acid-binding proteinsF: PF00900ECOD (1.6)
ZA [auth l]PF00467,PF16121e7asel2 A: beta barrelsX: SH3H: SH3T: SH3F: PF00467,PF16121ECOD (1.6)
ZA [auth l]PF01479,PF08071e7asel1 A: a+b two layersX: beta-GraspH: Ubiquitin-relatedT: Alpha-L RNA-binding motifF: PF01479,PF08071ECOD (1.6)
H [auth p]PF00400e7asep1 A: beta duplicates or obligate multimersX: beta-propeller-likeH: beta-propellerT: 7-bladedF: PF00400ECOD (1.6)
I [auth r]PF00380e7aser1 A: a+b two layersX: Ribosomal protein S5 domain 2-like (From Topology)H: Ribosomal protein S5 domain 2-like (From Topology)T: Ribosomal protein S5 domain 2-likeF: PF00380ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
O [auth R]PF00380Ribosomal protein S9/S16 (Ribosomal_S9)Ribosomal protein S9/S16- Family
O [auth R]PF00312Ribosomal protein S15 (Ribosomal_S15)Ribosomal protein S15- Domain
V [auth F]PF00318Ribosomal protein S2 (Ribosomal_S2)Ribosomal protein S2- Family
V [auth F]PF23002ATP-dependent RNA helicase DDX60, PIN-like domain (PIN-like_DDX60)ATP-dependent RNA helicase DDX60, PIN-like domainThis domain is found N-terminal in the homologues of ATP-dependent RNA helicase DDX60 (also known as DEAD-box RNA helicase). This helicase binds ssRNA, dsRNA and dsDNA and can promote the binding of RIGI to dsRNA. DDX60 is non-essential in mammals [1 ...This domain is found N-terminal in the homologues of ATP-dependent RNA helicase DDX60 (also known as DEAD-box RNA helicase). This helicase binds ssRNA, dsRNA and dsDNA and can promote the binding of RIGI to dsRNA. DDX60 is non-essential in mammals [1] but it is required for the cell fitness in kinetoplastids and trypanosomatids and plays a specific role in translation initiation in these parasites [2]. In Trypanosoma cruzi, k-DDX60 binds both to the head and the body of the 40S ribosome subunit. It is also involved in the stabilization of the 43S PIC and the remodeling of the 43S PIC mRNA channel [2]. The domain represented by this entry adopts a globular structure with a significant structural similarity to PIN domains.
Domain
Z [auth J]PF00076RNA recognition motif (RRM_1)RNA recognition motifThe RRM motif (a.k.a. RRM, RBD, or RNP domain) is probably diagnostic of an RNA binding protein. RRMs are found in a variety of RNA binding proteins, including various hnRNP proteins, proteins implicated in regulation of alternative splicing, and pro ...The RRM motif (a.k.a. RRM, RBD, or RNP domain) is probably diagnostic of an RNA binding protein. RRMs are found in a variety of RNA binding proteins, including various hnRNP proteins, proteins implicated in regulation of alternative splicing, and protein components of snRNPs. The motif also appears in a few single stranded DNA binding proteins. The RRM structure consists of four strands and two helices arranged in an alpha/beta sandwich, with a third helix present during RNA binding in some cases The C-terminal beta strand (4th strand) and final helix are hard to align and have been omitted in the SEED alignment The LA proteins (Swiss:P05455) have an N terminal rrm which is included in the seed. There is a second region towards the C terminus that has some features characteristic of a rrm but does not appear to have the important structural core of a rrm. The LA proteins (Swiss:P05455) are one of the main autoantigens in Systemic lupus erythematosus (SLE), an autoimmune disease.
Domain
Z [auth J]PF01599Ribosomal protein S27a (Ribosomal_S27)Ribosomal protein S27aThis family of ribosomal proteins consists mainly of the 40S ribosomal protein S27a which is synthesised as a C-terminal extension of ubiquitin (CEP). The S27a domain compromises the C-terminal half of the protein. The synthesis of ribosomal proteins ...This family of ribosomal proteins consists mainly of the 40S ribosomal protein S27a which is synthesised as a C-terminal extension of ubiquitin (CEP). The S27a domain compromises the C-terminal half of the protein. The synthesis of ribosomal proteins as extensions of ubiquitin promotes their incorporation into nascent ribosomes by a transient metabolic stabilisation and is required for efficient ribosome biogenesis [3]. The ribosomal extension protein S27a contains a basic region that is proposed to form a zinc finger; its fusion gene is proposed as a mechanism to maintain a fixed ratio between ubiquitin necessary for degrading proteins and ribosomes a source of proteins [2].
Domain
CA [auth P]PF01092Ribosomal protein S6e (Ribosomal_S6e)Ribosomal protein S6e- Family
CA [auth P]PF00400WD domain, G-beta repeat (WD40)WD domain, G-beta repeat- Repeat
FA [auth M]PF07650KH domain (KH_2)KH domain- Domain
FA [auth M]PF00164Ribosomal protein S12/S23 (Ribosom_S12_S23)Ribosomal protein S12/S23- Family
FA [auth M]PF00189Ribosomal protein S3, C-terminal domain (Ribosomal_S3_C)Ribosomal protein S3, C-terminal domainThis family contains a central domain Pfam:PF00013, hence the amino and carboxyl terminal domains are stored separately. This is a minimal carboxyl-terminal domain. Some are much longer.Domain
HA [auth O]PF01090Ribosomal protein S19e (Ribosomal_S19e)Ribosomal protein S19e- Family
HA [auth O]PF00177Ribosomal protein S7p/S5e (Ribosomal_S7)Ribosomal protein S7p/S5eThis family contains ribosomal protein S7 from prokaryotes and S5 from eukaryotes.Domain
L [auth Z]PF01201Ribosomal protein S8e (Ribosomal_S8e)Ribosomal protein S8e- Family
P [auth S]PF01667Ribosomal protein S27 (Ribosomal_S27e)Ribosomal protein S27- Family
R [auth U]PF01200Ribosomal protein S28e (Ribosomal_S28e)Ribosomal protein S28e- Family
T [auth X]PF00366Ribosomal protein S17 (Ribosomal_S17)Ribosomal protein S17- Domain
T [auth X]PF16205Ribosomal_S17 N-terminal (Ribosomal_S17_N)Ribosomal_S17 N-terminal- Family
U [auth B]PF00163Ribosomal protein S4/S9 N-terminal domain (Ribosomal_S4)Ribosomal protein S4/S9 N-terminal domain- Family
U [auth B]PF00410Ribosomal protein S8 (Ribosomal_S8)Ribosomal protein S8- Domain
U [auth B]PF01479S4 domain (S4)S4 domainThe S4 domain is a small domain consisting of 60-65 amino acid residues that was detected in the bacterial ribosomal protein S4, eukaryotic ribosomal S9, two families of pseudouridine synthases, a novel family of predicted RNA methylases, a yeast pro ...The S4 domain is a small domain consisting of 60-65 amino acid residues that was detected in the bacterial ribosomal protein S4, eukaryotic ribosomal S9, two families of pseudouridine synthases, a novel family of predicted RNA methylases, a yeast protein containing a pseudouridine synthetase and a deaminase domain, bacterial tyrosyl-tRNA synthetases, and a number of uncharacterized, small proteins that may be involved in translation regulation [1]. The S4 domain probably mediates binding to RNA.
Domain
BA [auth 5]PF00009Elongation factor Tu GTP binding domain (GTP_EFTU)Elongation factor Tu GTP binding domainThis domain contains a P-loop motif, also found in several other families such as Pfam:PF00071, Pfam:PF00025 and Pfam:PF00063. Elongation factor Tu consists of three structural domains, this plus two C-terminal beta barrel domains.Domain
BA [auth 5]PF09173Initiation factor eIF2 gamma, C terminal (eIF2_C)Initiation factor eIF2 gamma, C terminalMembers of this family, which are found in the initiation factors eIF2 and EF-Tu, adopt a structure consisting of a beta barrel with Greek key topology. They are required for formation of the ternary complex with GTP and initiator tRNA [1].Domain
EA [auth L]PF00338Ribosomal protein S10p/S20e (Ribosomal_S10)Ribosomal protein S10p/S20eThis family includes small ribosomal subunit S10 from prokaryotes and S20 from eukaryotes.Domain
EA [auth L]PF00900Ribosomal family S4e (Ribosomal_S4e)Ribosomal family S4e- Family
EA [auth L]PF08071RS4NT (NUC023) domain (RS4NT)RS4NT (NUC023) domainThis is the N-terminal domain of Ribosomal S4 / S4e proteins. This domain is associated with S4 and KOW domains [1].Domain
EA [auth L]PF01479S4 domain (S4)S4 domainThe S4 domain is a small domain consisting of 60-65 amino acid residues that was detected in the bacterial ribosomal protein S4, eukaryotic ribosomal S9, two families of pseudouridine synthases, a novel family of predicted RNA methylases, a yeast pro ...The S4 domain is a small domain consisting of 60-65 amino acid residues that was detected in the bacterial ribosomal protein S4, eukaryotic ribosomal S9, two families of pseudouridine synthases, a novel family of predicted RNA methylases, a yeast protein containing a pseudouridine synthetase and a deaminase domain, bacterial tyrosyl-tRNA synthetases, and a number of uncharacterized, small proteins that may be involved in translation regulation [1]. The S4 domain probably mediates binding to RNA.
Domain
KA [auth V]PF01253Translation initiation factor SUI1 (SUI1)Translation initiation factor SUI1- Domain
KA [auth V]PF00411Ribosomal protein S11 (Ribosomal_S11)Ribosomal protein S11- Family
MA [auth E]PF01399PCI domain (PCI)PCI domainThis domain has also been called the PINT motif (Proteasome, Int-6, Nip-1 and TRIP-15) [1].Domain
NA [auth Y]PF01282Ribosomal protein S24e (Ribosomal_S24e)Ribosomal protein S24e- Family
OA [auth Q]PF01251Ribosomal protein S7e (Ribosomal_S7e)Ribosomal protein S7e- Family
OA [auth Q]PF00253Ribosomal protein S14p/S29e (Ribosomal_S14)Ribosomal protein S14p/S29e- Family
PA [auth D]PF05162Ribosomal protein L41 (Ribosomal_L41)Ribosomal protein L41- Family
QA [auth G]PF01249Ribosomal protein S21e (Ribosomal_S21e)Ribosomal protein S21e- Family
RA [auth K]PF10075CSN8/PSMD8/EIF3K family (CSN8_PSD8_EIF3K)CSN8/PSMD8/EIF3K family- Family
SA [auth T]PF01283Ribosomal protein S26e (Ribosomal_S26e)Ribosomal protein S26e- Family
SA [auth T]PF00203Ribosomal protein S19 (Ribosomal_S19)Ribosomal protein S19- Domain
TA [auth C]PF05470Eukaryotic translation initiation factor 3 subunit 8 N-terminus (eIF-3c_N)Eukaryotic translation initiation factor 3 subunit 8 N-terminus- Repeat
VA [auth W]PF01176Translation initiation factor 1A / IF-1 (eIF-1a)Translation initiation factor 1A / IF-1This family includes both the eukaryotic translation factor eIF-1A and the bacterial translation initiation factor IF-1.Domain
XA [auth H]PF01248Ribosomal protein L7Ae/L30e/S12e/Gadd45 family (Ribosomal_L7Ae)Ribosomal protein L7Ae/L30e/S12e/Gadd45 familyThis family includes: Ribosomal L7A from metazoa, Ribosomal L8-A and L8-B from fungi, 30S ribosomal protein HS6 from archaebacteria, 40S ribosomal protein S12 from eukaryotes, Ribosomal protein L30 from eukaryotes and archaebacteria. Gadd45 and MyD11 ...This family includes: Ribosomal L7A from metazoa, Ribosomal L8-A and L8-B from fungi, 30S ribosomal protein HS6 from archaebacteria, 40S ribosomal protein S12 from eukaryotes, Ribosomal protein L30 from eukaryotes and archaebacteria. Gadd45 and MyD118 [1].
Domain
YA [auth A]PF05091Eukaryotic translation initiation factor 3 subunit 7 (eIF-3) (eIF-3_zeta)Eukaryotic translation initiation factor 3 subunit 7 (eIF-3)- Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
F [auth j]60S ribosomal protein L40
O [auth R]40S ribosomal protein S13, putative
V [auth F]40S ribosomal protein SA
Z [auth J]RNA-binding protein, putative -
CA [auth P]40S ribosomal protein S6
FA [auth M]40S ribosomal protein S3, putative
HA [auth O]Ribosomal protein S19, putative
A [auth f]kDDX60 -
J [auth u]40S ribosomal protein S18, putative
K [auth m]40S ribosomal protein S23, putative
L [auth Z]40S ribosomal protein S8
M [auth o]40S ribosomal protein S5, putative
N [auth q]40S ribosomal protein S7
P [auth S]40S ribosomal protein S27, putative
Q [auth t]40S ribosomal protein S26
R [auth U]40S ribosomal protein S33
S [auth v]40S ribosomal protein S14, putative
B [auth 1]initiator tRNA-Met---
T [auth X]40S ribosomal protein S11, putative
U [auth B]Putative 40S ribosomal protein S9
W [auth d]40S ribosomal protein S2, putative
X [auth g]Putative 40S ribosomal protein S21
Y [auth a]40S ribosomal protein S25 -
AA [auth h]40S ribosomal protein S12
BA [auth 5]Eukaryotic translation initiation factor 2 subunit, putative
C [auth 0]18S---
DA [auth i]40S ribosomal protein S17, putative
EA [auth L]Ribosomal protein S20, putative
GA [auth N]40S ribosomal protein S10, putative -
IA [auth b]40S ribosomal protein S15a, putative
JA [auth c]40S ribosomal protein S30
KA [auth V]Protein translation factor SUI1 homolog, putative -
LA [auth w]Putative eukaryotic translation initiation factor 1A -
MA [auth E]Eukaryotic translation initiation factor 3 subunit E
D [auth y]40S ribosomal protein S24
NA [auth Y]Eukaryotic translation initiation factor 5, putative
OA [auth Q]Ribosomal protein S29, putative
PA [auth D]eL41
QA [auth G]JAB_MPN domain-containing protein - -
RA [auth K]CSN8_PSD8_EIF3K domain-containing protein
SA [auth T]40S ribosomal protein S15, putative
TA [auth C]Eukaryotic translation initiation factor 3 subunit 8, putative -
UA [auth 8]eIF3A
VA [auth W]40S ribosomal protein S3a-2
WA [auth I]Eukaryotic translation initiation factor 3 (EIF-3) interacting protein, putative -
E [auth s]Elongation initiation factor 2 alpha subunit, putative -
XA [auth H]eIF3H- - -
YA [auth A]Eukaryotic translation initiation factor 3 subunit 7-like protein, putative -
ZA [auth l]40S ribosomal protein S4
G [auth n]Translation initiation factor, putative
H [auth p]Guanine nucleotide-binding protein subunit beta-like protein
I [auth r]40S ribosomal protein S16, putative

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
F [auth j]IPR000626Ubiquitin-like domainDomain
F [auth j]IPR038582Small ribosomal subunit protein eS31 eukaryotic-type superfamilyHomologous Superfamily
F [auth j]IPR002906Small ribosomal subunit protein eS31Domain
F [auth j]IPR029071Ubiquitin-like domain superfamilyHomologous Superfamily
F [auth j]IPR011332Zinc-binding ribosomal proteinHomologous Superfamily
O [auth R]IPR012606Small ribosomal subunit protein uS15, N-terminalDomain
O [auth R]IPR009068uS15/NS1, RNA-binding domain superfamilyHomologous Superfamily
O [auth R]IPR023029Small ribosomal subunit protein uS15, archaea/eukaryotesFamily
O [auth R]IPR000589Small ribosomal subunit protein uS15Family
V [auth F]IPR005707Small ribosomal subunit protein uS2, eukaryotic/archaealFamily
V [auth F]IPR023591Small ribosomal subunit protein uS2, flavodoxin-like domain superfamilyHomologous Superfamily
V [auth F]IPR018130Small ribosomal subunit protein uS2, conserved siteConserved Site
V [auth F]IPR001865Small ribosomal subunit protein uS2Family
V [auth F]IPR027498Small ribosomal subunit protein uS2, eukaryoticFamily
Z [auth J]IPR012677Nucleotide-binding alpha-beta plait domain superfamilyHomologous Superfamily
Z [auth J]IPR000504RNA recognition motif domainDomain
Z [auth J]IPR035979RNA-binding domain superfamilyHomologous Superfamily
CA [auth P]IPR014401Small ribosomal subunit protein eS6-likeFamily
CA [auth P]IPR001377Small ribosomal subunit protein eS6Family
FA [auth M]IPR004044K Homology domain, type 2Domain
FA [auth M]IPR015946K homology domain-like, alpha/betaHomologous Superfamily
FA [auth M]IPR036419Ribosomal protein S3, C-terminal domain superfamilyHomologous Superfamily
FA [auth M]IPR001351Small ribosomal subunit protein uS3, C-terminalDomain
FA [auth M]IPR005703Small ribosomal subunit protein uS3, eukaryotic/archaealFamily
FA [auth M]IPR009019K homology domain superfamily, prokaryotic typeHomologous Superfamily
HA [auth O]IPR001266Small ribosomal subunit protein eS19Family
HA [auth O]IPR036388Winged helix-like DNA-binding domain superfamilyHomologous Superfamily
HA [auth O]IPR036390Winged helix DNA-binding domain superfamilyHomologous Superfamily
A [auth f]IPR001650Helicase, C-terminal domain-likeDomain
A [auth f]IPR014001Helicase superfamily 1/2, ATP-binding domainDomain
A [auth f]IPR011545DEAD/DEAH box helicase domainDomain
A [auth f]IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
J [auth u]IPR027437Small ribosomal subunit protein uS13, C-terminalHomologous Superfamily
J [auth u]IPR001892Small ribosomal subunit protein uS13Family
J [auth u]IPR018269Small ribosomal subunit protein uS13, conserved siteConserved Site
J [auth u]IPR010979Small ribosomal subunit protein uS13-like, H2THHomologous Superfamily
K [auth m]IPR006032Small ribosomal subunit protein uS12Family
K [auth m]IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
K [auth m]IPR005680Small ribosomal subunit protein uS12, eukaryotic/archaealFamily
L [auth Z]IPR001047Small ribosomal subunit protein eS8Family
L [auth Z]IPR022309Ribosomal protein eS8/ribosomal biogenesis NSA2Family
L [auth Z]IPR018283Small ribosomal subunit protein eS8, conserved siteConserved Site
M [auth o]IPR020606Small ribosomal subunit protein uS7, conserved siteConserved Site
M [auth o]IPR000235Small ribosomal subunit protein uS7Family
M [auth o]IPR036823Small ribosomal subunit protein uS7 domain superfamilyHomologous Superfamily
M [auth o]IPR023798Small ribosomal subunit protein uS7 domainDomain
M [auth o]IPR005716Ribosomal protein uS7, eukaryotic/archaealFamily
N [auth q]IPR000554Small ribosomal subunit protein eS7Family
P [auth S]IPR023407Small ribosomal subunit protein eS27, zinc-binding domain superfamilyHomologous Superfamily
P [auth S]IPR000592Small ribosomal subunit protein eS27Family
P [auth S]IPR011332Zinc-binding ribosomal proteinHomologous Superfamily
Q [auth t]IPR038551Ribosomal protein eS26 superfamilyHomologous Superfamily
Q [auth t]IPR000892Small ribosomal subunit protein eS26Family
R [auth U]IPR028626Ribosomal protein eS28 conserved siteConserved Site
R [auth U]IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
R [auth U]IPR000289Small ribosomal subunit protein eS28Family
S [auth v]IPR001971Small ribosomal subunit protein uS11Family
S [auth v]IPR036967Small ribosomal subunit protein uS11 superfamilyHomologous Superfamily
S [auth v]IPR018102Small ribosomal subunit protein uS11, conserved siteConserved Site
T [auth X]IPR019979Small ribosomal subunit protein uS17, conserved siteConserved Site
T [auth X]IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
T [auth X]IPR000266Small ribosomal subunit protein uS17Family
T [auth X]IPR032440Small ribosomal subunit protein uS17, N-terminalDomain
U [auth B]IPR018079Small ribosomal subunit protein uS4, conserved siteConserved Site
U [auth B]IPR002942RNA-binding S4 domainDomain
U [auth B]IPR001912Small ribosomal subunit protein uS4, N-terminalDomain
U [auth B]IPR005710Small ribosomal subunit protein uS4, eukaryotic/archaealFamily
U [auth B]IPR036986RNA-binding S4 domain superfamilyHomologous Superfamily
U [auth B]IPR022801Small ribosomal subunit protein uS4Family
W [auth d]IPR000851Small ribosomal subunit protein uS5Family
W [auth d]IPR005711Small ribosomal subunit protein uS5, eukaryotic/archaealFamily
W [auth d]IPR005324Small ribosomal subunit protein uS5, C-terminalDomain
W [auth d]IPR013810Small ribosomal subunit protein uS5, N-terminalDomain
W [auth d]IPR020568Ribosomal protein uS5 domain 2-type superfamilyHomologous Superfamily
W [auth d]IPR018192Small ribosomal subunit protein uS5, N-terminal, conserved siteConserved Site
W [auth d]IPR014721Small ribosomal subunit protein uS5 domain 2-type fold, subgroupHomologous Superfamily
X [auth g]IPR038579Small ribosomal subunit protein eS21 superfamilyHomologous Superfamily
X [auth g]IPR001931Small ribosomal subunit protein eS21Family
Y [auth a]IPR004977Small ribosomal subunit protein eS25Family
AA [auth h]IPR000530Small ribosomal subunit protein eS12Family
AA [auth h]IPR004038Ribosomal protein eL8/eL30/eS12/Gadd45Domain
AA [auth h]IPR029064Ribosomal protein eL30-like superfamilyHomologous Superfamily
AA [auth h]IPR047860Small ribosomal subunit protein eS12, conserved siteConserved Site
BA [auth 5]IPR000795Translational (tr)-type GTP-binding domainDomain
BA [auth 5]IPR009001Translation elongation factor EF1A/initiation factor IF2gamma, C-terminalHomologous Superfamily
BA [auth 5]IPR044128Initiation factor eIF2 gamma, GTP-binding domainDomain
BA [auth 5]IPR015256Initiation factor eIF2 gamma, C-terminalDomain
BA [auth 5]IPR009000Translation protein, beta-barrel domain superfamilyHomologous Superfamily
BA [auth 5]IPR044127Initiation factor eIF2 gamma, domain 2Domain
BA [auth 5]IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
DA [auth i]IPR036401Small ribosomal subunit protein eS17 superfamilyHomologous Superfamily
DA [auth i]IPR001210Small ribosomal subunit protein eS17Family
EA [auth L]IPR001848Small ribosomal subunit protein uS10Family
EA [auth L]IPR027486Small ribosomal subunit protein uS10 domainDomain
EA [auth L]IPR036838Small ribosomal subunit protein uS10 domain superfamilyHomologous Superfamily
EA [auth L]IPR005729Small ribosomal subunit protein uS10, eukaryotic/archaealFamily
GA [auth N]IPR037447Small ribosomal subunit protein eS10Family
GA [auth N]IPR036388Winged helix-like DNA-binding domain superfamilyHomologous Superfamily
GA [auth N]IPR005326Plectin/eS10, N-terminalDomain
IA [auth b]IPR000630Small ribosomal subunit protein uS8Family
IA [auth b]IPR047863Small ribosomal subunit protein uS8, conserved siteConserved Site
IA [auth b]IPR035987Small ribosomal subunit protein uS8 superfamilyHomologous Superfamily
JA [auth c]IPR006846Small ribosomal subunit protein eS30Family
KA [auth V]IPR005874Eukaryotic translation initiation factor SUI1Family
KA [auth V]IPR001950SUI1 domainDomain
KA [auth V]IPR036877SUI1 domain superfamilyHomologous Superfamily
LA [auth w]IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
LA [auth w]IPR006196RNA-binding domain, S1, IF1 typeDomain
LA [auth w]IPR001253Translation initiation factor 1A (eIF-1A)Family
MA [auth E]IPR000717Proteasome component (PCI) domainDomain
MA [auth E]IPR016650Eukaryotic translation initiation factor 3 subunit EFamily
MA [auth E]IPR019010Eukaryotic translation initiation factor 3 subunit E, N-terminalDomain
MA [auth E]IPR036390Winged helix DNA-binding domain superfamilyHomologous Superfamily
D [auth y]IPR001976Small ribosomal subunit protein eS24Family
D [auth y]IPR012678Ribosomal protein uL23/eL15/eS24 core domain superfamilyHomologous Superfamily
D [auth y]IPR018098Small ribosomal subunit protein eS24 conserved siteConserved Site
NA [auth Y]IPR016190Translation initiation factor IF2/IF5, zinc-bindingHomologous Superfamily
NA [auth Y]IPR002735Translation initiation factor IF2/IF5 domainDomain
NA [auth Y]IPR016189Translation initiation factor IF2/IF5, N-terminalHomologous Superfamily
NA [auth Y]IPR003307W2 domainDomain
NA [auth Y]IPR045196Translation initiation factor IF2/IF5Family
OA [auth Q]IPR001209Small ribosomal subunit protein uS14Family
OA [auth Q]IPR039744Small ribosomal subunit protein uS14, eukaryotes/archaeaFamily
OA [auth Q]IPR043140Small ribosomal subunit protein uS14 superfamilyHomologous Superfamily
PA [auth D]IPR007836Large ribosomal subunit protein eS32Family
QA [auth G]IPR000555JAB1/MPN/MOV34 metalloenzyme domainDomain
RA [auth K]IPR016020Translation initiation factor 3, subunit 12, N-terminal, eukaryoticHomologous Superfamily
RA [auth K]IPR016024Armadillo-type foldHomologous Superfamily
RA [auth K]IPR033464CSN8/PSMD8/EIF3KDomain
RA [auth K]IPR009374Eukaryotic translation initiation factor 3 subunit KFamily
SA [auth T]IPR002222Small ribosomal subunit protein uS19Family
SA [auth T]IPR023575Small ribosomal subunit protein uS19, superfamilyHomologous Superfamily
SA [auth T]IPR020934Small ribosomal subunit protein uS19, conserved siteConserved Site
SA [auth T]IPR005713Small ribosomal subunit protein uS19, eukaryotic/archaealFamily
TA [auth C]IPR027516Eukaryotic translation initiation factor 3 subunit CFamily
TA [auth C]IPR008905Eukaryotic translation initiation factor 3 subunit C, N-terminal domainDomain
UA [auth 8]IPR027512Eukaryotic translation initiation factor 3 subunit AFamily
VA [auth W]IPR001593Small ribosomal subunit protein eS1Family
VA [auth W]IPR027500Small ribosomal subunit protein eS1, eukaryotesFamily
WA [auth I]IPR019382Translation initiation factor 3 complex subunit LFamily
E [auth s]IPR003029S1 domainDomain
E [auth s]IPR044126IF2a, S1-like domainDomain
E [auth s]IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
E [auth s]IPR024055Translation initiation factor 2, alpha subunit, C-terminalHomologous Superfamily
E [auth s]IPR024054Translation initiation factor 2, alpha subunit, middle domain superfamilyHomologous Superfamily
E [auth s]IPR011488Translation initiation factor 2, alpha subunitFamily
YA [auth A]IPR007783Eukaryotic translation initiation factor 3 subunit DFamily
ZA [auth l]IPR013843Small ribosomal subunit protein eS4, N-terminalDomain
ZA [auth l]IPR032277Small ribosomal subunit protein eS4, C-terminal domainDomain
ZA [auth l]IPR002942RNA-binding S4 domainDomain
ZA [auth l]IPR013845Small ribosomal subunit protein eS4, central regionDomain
ZA [auth l]IPR000876Small ribosomal subunit protein eS4Family
ZA [auth l]IPR014722Large ribosomal subunit protein uL2, domain 2Homologous Superfamily
ZA [auth l]IPR038237Small ribosomal subunit protein eS4, central domain superfamilyHomologous Superfamily
ZA [auth l]IPR041982Small ribosomal subunit protein eS4, KOW domainDomain
ZA [auth l]IPR036986RNA-binding S4 domain superfamilyHomologous Superfamily
ZA [auth l]IPR005824KOWDomain
G [auth n]IPR016190Translation initiation factor IF2/IF5, zinc-bindingHomologous Superfamily
G [auth n]IPR002735Translation initiation factor IF2/IF5 domainDomain
G [auth n]IPR016189Translation initiation factor IF2/IF5, N-terminalHomologous Superfamily
G [auth n]IPR045196Translation initiation factor IF2/IF5Family
H [auth p]IPR019775WD40 repeat, conserved siteConserved Site
H [auth p]IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
H [auth p]IPR045223Small ribosomal subunit protein RACK1-likeFamily
H [auth p]IPR001680WD40 repeatRepeat
H [auth p]IPR020472G-protein beta WD-40 repeatRepeat
H [auth p]IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
I [auth r]IPR020568Ribosomal protein uS5 domain 2-type superfamilyHomologous Superfamily
I [auth r]IPR000754Small ribosomal subunit protein uS9Family
I [auth r]IPR014721Small ribosomal subunit protein uS5 domain 2-type fold, subgroupHomologous Superfamily