5YZG
The Cryo-EM Structure of Human Catalytic Step I Spliceosome (C complex) at 4.1 angstrom resolution
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
A | SCOP2B Superfamily | Ribonuclease H-like | 8041105 | 3000143 | SCOP2B (2022-06-29) |
A | SCOP2B Superfamily | JAB1/MPN domain-like | 8053277 | 3001105 | SCOP2B (2022-06-29) |
L | SCOP2B Superfamily | Homeodomain-like | 8089608 | 3000001 | SCOP2B (2022-06-29) |
P [auth O] | SCOP2B Superfamily | RNA-binding domain RBD | 8064957 | 3000110 | SCOP2B (2022-06-29) |
R | SCOP2B Superfamily | Pre-mRNA-processing protein 45-like | 8092740 | 3002618 | SCOP2B (2022-06-29) |
S | SCOP2B Superfamily | Cyclophilin-like | 8033930 | 3000168 | SCOP2B (2022-06-29) |
U [auth Q] | SCOP2B Superfamily | RecA-like P-loop NTPases | 8090871 | 3002019 | SCOP2B (2022-06-29) |
U [auth Q] | SCOP2B Superfamily | ARM repeat-like | 8090869 | 3000116 | SCOP2B (2022-06-29) |
U [auth Q] | SCOP2B Superfamily | Upf1 beta-barrel domain-like | 8090870 | 3002168 | SCOP2B (2022-06-29) |
U [auth Q] | SCOP2B Superfamily | RecA-like P-loop NTPases | 8090872 | 3002019 | SCOP2B (2022-06-29) |
FA [auth u] | SCOP2B Superfamily | RecA-like P-loop NTPases | 8042951 | 3002019 | SCOP2B (2022-06-29) |
FA [auth u] | SCOP2B Superfamily | RecA-like P-loop NTPases | 8042950 | 3002019 | SCOP2B (2022-06-29) |
GA [auth v] | SCOP2B Superfamily | Mago nashi protein | 8100388 | 3000634 | SCOP2B (2022-06-29) |
HA [auth w] | SCOP2B Superfamily | RNA-binding domain RBD | 8042953 | 3000110 | SCOP2B (2022-06-29) |
JA [auth h] | SCOP2B Superfamily | Sm-like ribonucleoproteins | 8041751 | 3000419 | SCOP2B (2022-06-29) |
SA [auth a] | SCOP2B Superfamily | Sm-like ribonucleoproteins | 8041751 | 3000419 | SCOP2B (2022-06-29) |
KA [auth i] | SCOP2B Superfamily | Sm-like ribonucleoproteins | 8041747 | 3000419 | SCOP2B (2022-06-29) |
TA [auth b] | SCOP2B Superfamily | Sm-like ribonucleoproteins | 8041747 | 3000419 | SCOP2B (2022-06-29) |
LA [auth j] | SCOP2B Superfamily | Sm-like ribonucleoproteins | 8041748 | 3000419 | SCOP2B (2022-06-29) |
UA [auth c] | SCOP2B Superfamily | Sm-like ribonucleoproteins | 8041748 | 3000419 | SCOP2B (2022-06-29) |
VA [auth d] | SCOP2B Superfamily | Sm-like ribonucleoproteins | 8041749 | 3000419 | SCOP2B (2022-06-29) |
MA [auth k] | SCOP2B Superfamily | Sm-like ribonucleoproteins | 8041749 | 3000419 | SCOP2B (2022-06-29) |
NA [auth m] | SCOP2B Superfamily | Sm-like ribonucleoproteins | 8063452 | 3000419 | SCOP2B (2022-06-29) |
WA [auth f] | SCOP2B Superfamily | Sm-like ribonucleoproteins | 8063452 | 3000419 | SCOP2B (2022-06-29) |
OA [auth l] | SCOP2B Superfamily | Sm-like ribonucleoproteins | 8063476 | 3000419 | SCOP2B (2022-06-29) |
XA [auth e] | SCOP2B Superfamily | Sm-like ribonucleoproteins | 8063476 | 3000419 | SCOP2B (2022-06-29) |
PA [auth n] | SCOP2B Superfamily | Sm-like ribonucleoproteins | 8063468 | 3000419 | SCOP2B (2022-06-29) |
YA [auth g] | SCOP2B Superfamily | Sm-like ribonucleoproteins | 8063468 | 3000419 | SCOP2B (2022-06-29) |
D | SCOP2B Superfamily | E set domains | 8055093 | 3000070 | SCOP2B (2022-06-29) |
D | SCOP2B Superfamily | Brl domain-like | 8036193 | 3000115 | SCOP2B (2022-06-29) |
QA [auth o] | SCOP2B Superfamily | L domain-like | 8043993 | 3001010 | SCOP2B (2022-06-29) |
RA [auth p] | SCOP2B Superfamily | RNA-binding domain RBD | 8035327 | 3000110 | SCOP2B (2022-06-29) |
ZA [auth 1] | SCOP2B Superfamily | Cyclophilin-like | 8035984 | 3000168 | SCOP2B (2022-06-29) |
ZA [auth 1] | SCOP2B Superfamily | RNA-binding domain RBD | 8039202 | 3000110 | SCOP2B (2022-06-29) |
AB [auth 2] | SCOP2B Superfamily | Cyclophilin-like | 8036491 | 3000168 | SCOP2B (2022-06-29) |
BB [auth 3] | SCOP2B Superfamily | Cyclophilin-like | 8065067 | 3000168 | SCOP2B (2022-06-29) |
Domain Annotation: ECOD Classification ECOD Database Homepage
Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
A | PF10596,PF10597 | e5yzgA4 | A: alpha bundles | X: helical bundle domain in reverse transcriptase-like polymerases (From Topology) | H: helical bundle domain in reverse transcriptase-like polymerases (From Topology) | T: helical bundle domain in reverse transcriptase-like polymerases | F: PF10596,PF10597 | ECOD (1.6) |
A | PF08082,PF08083 | e5yzgA6 | A: alpha complex topology | X: Pre-mRNA-splicing factor 8 N-terminal domain (From Topology) | H: Pre-mRNA-splicing factor 8 N-terminal domain (From Topology) | T: Pre-mRNA-splicing factor 8 N-terminal domain | F: PF08082,PF08083 | ECOD (1.6) |
A | PF10598 | e5yzgA2 | A: a+b two layers | X: Alpha-beta plaits | H: Adenylyl and guanylyl cyclase catalytic domain-like | T: Adenylyl and guanylyl cyclase catalytic domain-like | F: PF10598 | ECOD (1.6) |
A | PF01398,PF08084 | e5yzgA3 | A: a+b three layers | X: Cytidine deaminase-like (From Topology) | H: Cytidine deaminase-like (From Topology) | T: Cytidine deaminase-like | F: PF01398,PF08084 | ECOD (1.6) |
A | PF10596 | e5yzgA1 | A: a/b three-layered sandwiches | X: Restriction endonuclease-like | H: Restriction endonuclease-like (From Topology) | T: Restriction endonuclease-like | F: PF10596 | ECOD (1.6) |
A | PF12134 | e5yzgA5 | A: mixed a+b and a/b | X: Ribonuclease H-like | H: Ribonuclease H-like (From Topology) | T: Ribonuclease H-like | F: PF12134 | ECOD (1.6) |
J | PF02184 | e5yzgJ1 | A: alpha superhelices | X: Repetitive alpha hairpins | H: ARM repeat (From Topology) | T: ARM repeat | F: PF02184 | ECOD (1.6) |
O [auth N] | PF01125 | e5yzgN1 | A: few secondary structure elements | X: Pre-mRNA-splicing factor BUD31 (From Topology) | H: Pre-mRNA-splicing factor BUD31 (From Topology) | T: Pre-mRNA-splicing factor BUD31 | F: PF01125 | ECOD (1.6) |
P [auth O] | PF00076 | e5yzgO2 | A: a+b two layers | X: Alpha-beta plaits | H: RNA-binding domain, RBD (From Topology) | T: RNA-binding domain, RBD | F: PF00076 | ECOD (1.6) |
P [auth O] | PF21369 | e5yzgO3 | A: few secondary structure elements | X: RING/U-box-like | H: RING/U-box-like | T: FYVE/PHD zinc finger | F: PF21369 | ECOD (1.6) |
P [auth O] | F_UNCLASSIFIED | e5yzgO1 | A: few secondary structure elements | X: CCCH zinc finger | H: CCCH zinc finger (From Topology) | T: CCCH zinc finger | F: F_UNCLASSIFIED | ECOD (1.6) |
S | PF00160 | e5yzgS1 | A: beta barrels | X: Cyclophilin-like (From Topology) | H: Cyclophilin-like (From Topology) | T: Cyclophilin-like | F: PF00160 | ECOD (1.6) |
T | PF00400 | e5yzgT1 | A: beta duplicates or obligate multimers | X: beta-propeller-like | H: beta-propeller | T: 7-bladed | F: PF00400 | ECOD (1.6) |
U [auth Q] | PF21143 | e5yzgQ4 | A: beta barrels | X: cradle loop barrel | H: RIFT-related | T: Alanine racemase-C | F: PF21143 | ECOD (1.6) |
U [auth Q] | PF16399 | e5yzgQ3 | A: alpha superhelices | X: Repetitive alpha hairpins | H: ARM repeat (From Topology) | T: ARM repeat | F: PF16399 | ECOD (1.6) |
U [auth Q] | PF21144 | e5yzgQ2 | A: a+b two layers | X: Spliceosomal helicase Aquarius insert domain (From Topology) | H: Spliceosomal helicase Aquarius insert domain (From Topology) | T: Spliceosomal helicase Aquarius insert domain | F: PF21144 | ECOD (1.6) |
U [auth Q] | PF13086 | e5yzgQ5 | A: a/b three-layered sandwiches | X: P-loop domains-like | H: P-loop domains-related | T: P-loop containing nucleoside triphosphate hydrolases | F: PF13086 | ECOD (1.6) |
U [auth Q] | PF13087 | e5yzgQ1 | A: a/b three-layered sandwiches | X: P-loop domains-like | H: P-loop domains-related | T: P-loop containing nucleoside triphosphate hydrolases | F: PF13087 | ECOD (1.6) |
W [auth V] | PF02847 | e5yzgV1 | A: alpha superhelices | X: Repetitive alpha hairpins | H: ARM repeat (From Topology) | T: ARM repeat | F: PF02847 | ECOD (1.6) |
W [auth V] | PF02854 | e5yzgV2 | A: alpha superhelices | X: Repetitive alpha hairpins | H: ARM repeat (From Topology) | T: ARM repeat | F: PF02854 | ECOD (1.6) |
AA [auth Z] | PF07717 | e5yzgZ1 | A: beta barrels | X: OB-fold | H: Nucleic acid-binding proteins (From Topology) | T: Nucleic acid-binding proteins | F: PF07717 | ECOD (1.6) |
AA [auth Z] | PF04408,PF21010 | e5yzgZ3 | A: alpha arrays | X: Sec63 N-terminal subdomain-like (From Topology) | H: Sec63 N-terminal subdomain-like (From Topology) | T: Sec63 N-terminal subdomain-like | F: PF04408,PF21010 | ECOD (1.6) |
AA [auth Z] | PF00270 | e5yzgZ4 | A: a/b three-layered sandwiches | X: P-loop domains-like | H: P-loop domains-related | T: P-loop containing nucleoside triphosphate hydrolases | F: PF00270 | ECOD (1.6) |
AA [auth Z] | PF00271 | e5yzgZ2 | A: a/b three-layered sandwiches | X: P-loop domains-like | H: P-loop domains-related | T: P-loop containing nucleoside triphosphate hydrolases | F: PF00271 | ECOD (1.6) |
DA [auth s] | PF00400,PF08606 | e5yzgs1 | A: beta duplicates or obligate multimers | X: beta-propeller-like | H: beta-propeller | T: 7-bladed | F: PF00400,PF08606 | ECOD (1.6) |
FA [auth u] | PF00270 | e5yzgu1 | A: a/b three-layered sandwiches | X: P-loop domains-like | H: P-loop domains-related | T: P-loop containing nucleoside triphosphate hydrolases | F: PF00270 | ECOD (1.6) |
FA [auth u] | PF00271 | e5yzgu2 | A: a/b three-layered sandwiches | X: P-loop domains-like | H: P-loop domains-related | T: P-loop containing nucleoside triphosphate hydrolases | F: PF00271 | ECOD (1.6) |
GA [auth v] | PF02792 | e5yzgv1 | A: a+b two layers | X: Mago nashi protein (From Topology) | H: Mago nashi protein (From Topology) | T: Mago nashi protein | F: PF02792 | ECOD (1.6) |
HA [auth w] | PF00076 | e5yzgw1 | A: a+b two layers | X: Alpha-beta plaits | H: RNA-binding domain, RBD (From Topology) | T: RNA-binding domain, RBD | F: PF00076 | ECOD (1.6) |
JA [auth h] | PF01423 | e5yzgh1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: PF01423 | ECOD (1.6) |
SA [auth a] | PF01423 | e5yzga1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: PF01423 | ECOD (1.6) |
KA [auth i] | PF01423 | e5yzgi1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: PF01423 | ECOD (1.6) |
TA [auth b] | PF01423 | e5yzgb1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: PF01423 | ECOD (1.6) |
LA [auth j] | PF01423 | e5yzgj1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: PF01423 | ECOD (1.6) |
UA [auth c] | PF01423 | e5yzgc1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: PF01423 | ECOD (1.6) |
VA [auth d] | PF01423 | e5yzgd1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: PF01423 | ECOD (1.6) |
MA [auth k] | PF01423 | e5yzgk1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: PF01423 | ECOD (1.6) |
NA [auth m] | PF01423 | e5yzgm1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: PF01423 | ECOD (1.6) |
WA [auth f] | PF01423 | e5yzgf1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: PF01423 | ECOD (1.6) |
OA [auth l] | PF01423 | e5yzgl1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: PF01423 | ECOD (1.6) |
XA [auth e] | PF01423 | e5yzge1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: PF01423 | ECOD (1.6) |
PA [auth n] | PF01423 | e5yzgn1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: PF01423 | ECOD (1.6) |
YA [auth g] | PF01423 | e5yzgg1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: PF01423 | ECOD (1.6) |
D | PF02889 | e5yzgD1 | A: beta sandwiches | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: PF02889 | ECOD (1.6) |
D | F_UNCLASSIFIED | e5yzgD11 | A: alpha arrays | X: HTH | H: HTH | T: winged | F: F_UNCLASSIFIED | ECOD (1.6) |
D | F_UNCLASSIFIED | e5yzgD9 | A: alpha arrays | X: HhH/H2TH | H: SAM-like subdomain in Sec63-like proteins (From Topology) | T: SAM-like subdomain in Sec63-like proteins | F: F_UNCLASSIFIED | ECOD (1.6) |
D | PF02889 | e5yzgD5 | A: alpha arrays | X: Sec63 N-terminal subdomain-like (From Topology) | H: Sec63 N-terminal subdomain-like (From Topology) | T: Sec63 N-terminal subdomain-like | F: PF02889 | ECOD (1.6) |
D | PF18149 | e5yzgD2 | A: alpha arrays | X: PWI domain-like | H: PWI domain (From Topology) | T: PWI domain | F: PF18149 | ECOD (1.6) |
D | PF21188 | e5yzgD4 | A: alpha arrays | X: PWI domain-like | H: Pre-mRNA-splicing helicase BRR2 plug domain (From Topology) | T: Pre-mRNA-splicing helicase BRR2 plug domain | F: PF21188 | ECOD (1.6) |
D | PF00270 | e5yzgD10 | A: a/b three-layered sandwiches | X: P-loop domains-like | H: P-loop domains-related | T: P-loop containing nucleoside triphosphate hydrolases | F: PF00270 | ECOD (1.6) |
D | PF00271 | e5yzgD8 | A: a/b three-layered sandwiches | X: P-loop domains-like | H: P-loop domains-related | T: P-loop containing nucleoside triphosphate hydrolases | F: PF00271 | ECOD (1.6) |
D | F_UNCLASSIFIED | e5yzgD3 | A: extended segments | X: Pre-mRNA-splicing helicase BRR2 NC-clamp (From Topology) | H: Pre-mRNA-splicing helicase BRR2 NC-clamp (From Topology) | T: Pre-mRNA-splicing helicase BRR2 NC-clamp | F: F_UNCLASSIFIED | ECOD (1.6) |
QA [auth o] | PF14580 | e5yzgo1 | A: beta duplicates or obligate multimers | X: Single-stranded right-handed beta-helix | H: Leucine-rich repeats (From Topology) | T: Leucine-rich repeats | F: PF14580 | ECOD (1.6) |
RA [auth p] | PF00076 | e5yzgp1 | A: a+b two layers | X: Alpha-beta plaits | H: RNA-binding domain, RBD (From Topology) | T: RNA-binding domain, RBD | F: PF00076 | ECOD (1.6) |
ZA [auth 1] | PF00160 | e5yzg11 | A: beta barrels | X: Cyclophilin-like (From Topology) | H: Cyclophilin-like (From Topology) | T: Cyclophilin-like | F: PF00160 | ECOD (1.6) |
ZA [auth 1] | PF00076 | e5yzg12 | A: a+b two layers | X: Alpha-beta plaits | H: RNA-binding domain, RBD (From Topology) | T: RNA-binding domain, RBD | F: PF00076 | ECOD (1.6) |
AB [auth 2] | PF00160 | e5yzg21 | A: beta barrels | X: Cyclophilin-like (From Topology) | H: Cyclophilin-like (From Topology) | T: Cyclophilin-like | F: PF00160 | ECOD (1.6) |
AB [auth 2] | PF00400 | e5yzg22 | A: beta duplicates or obligate multimers | X: beta-propeller-like | H: beta-propeller | T: 8-bladed | F: PF00400 | ECOD (1.6) |
BB [auth 3] | PF00160 | e5yzg31 | A: beta barrels | X: Cyclophilin-like (From Topology) | H: Cyclophilin-like (From Topology) | T: Cyclophilin-like | F: PF00160 | ECOD (1.6) |
E | PF00400 | e5yzgE1 | A: beta duplicates or obligate multimers | X: beta-propeller-like | H: beta-propeller | T: 7-bladed | F: PF00400 | ECOD (1.6) |
I | F_UNCLASSIFIED | e5yzgI1 | A: alpha superhelices | X: Repetitive alpha hairpins | H: ARM repeat (From Topology) | T: ARM repeat | F: F_UNCLASSIFIED | ECOD (1.6) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
PF10597 | U5-snRNA binding site 2 of PrP8 (U5_2-snRNA_bdg) | U5-snRNA binding site 2 of PrP8 | The essential spliceosomal protein Prp8 interacts with U5 and U6 snRNAs and with specific pre-mRNA sequences that participate in catalysis [1]. This close association with crucial RNA sequences, together with extensive genetic evidence, suggests that ... | Domain | |
PF10598 | RNA recognition motif of the spliceosomal PrP8 (RRM_4) | RNA recognition motif of the spliceosomal PrP8 | The large RNA-protein complex of the spliceosome catalyses pre-mRNA splicing. One of the most conserved core proteins is PrP8 which occupies a central position in the catalytic core of the spliceosome, and has been implicated in several crucial molec ... | Domain | |
PF10596 | U6-snRNA interacting domain of PrP8 (U6-snRNA_bdg) | U6-snRNA interacting domain of PrP8 | This domain incorporates the interacting site for the U6-snRNA as part of the U4/U6.U5 tri-snRNPs complex of the spliceosome, and is the prime candidate for the role of cofactor for the spliceosome's RNA core. The essential spliceosomal protein Prp8 ... | Domain | |
PF12134 | PRP8 domain IV core (PRP8_domainIV) | PRP8 domain IV core | This domain is found in eukaryotes, and is about 20 amino acids in length. It is found associated with Pfam:PF10597, Pfam:PF10596, Pfam:PF10598, Pfam:PF08083, Pfam:PF08082, Pfam:PF01398, Pfam:PF08084. There is a conserved LILR sequence motif. The dom ... | Domain | |
PF08082 | PRO8NT (NUC069), PrP8 N-terminal domain (PRO8NT) | PRO8NT (NUC069), PrP8 N-terminal domain | The PRO8NT domain is found at the N-terminus of pre-mRNA splicing factors of PRO8 family [1]. The NLS or nuclear localisation signal for these spliceosome proteins begins at the start and runs for 60 residues. N-terminal to this domain is a highly va ... | Domain | |
PF08083 | PROCN (NUC071) domain (PROCN) | PROCN (NUC071) domain | The PROCN domain is the central domain in pre-mRNA splicing factors of PRO8 family [1]. | Domain | |
PF08084 | PROCT (NUC072) domain (PROCT) | PROCT (NUC072) domain | The PROCT domain is the C-terminal domain in pre-mRNA splicing factors of PRO8 family [1]. | Domain | |
PF01398 | JAB1/Mov34/MPN/PAD-1 ubiquitin protease (JAB) | JAB1/Mov34/MPN/PAD-1 ubiquitin protease | - | Family | |
PF02184 | HAT (Half-A-TPR) repeat (HAT) | HAT (Half-A-TPR) repeat | - | Repeat | |
PF05700 | Breast carcinoma amplified sequence 2 (BCAS2) (BCAS2) | Breast carcinoma amplified sequence 2 (BCAS2) | - | Family | |
PF13921 | Myb-like DNA-binding domain (Myb_DNA-bind_6) | Myb-like DNA-binding domain | This family contains the DNA binding domains from Myb proteins, as well as the SANT domain family [1]. | Domain | |
M [auth y] | PF06246 | Isy1-like splicing family (Isy1) | Isy1-like splicing family | - | Family |
N [auth M] | PF08231 | SYF2 splicing factor (SYF2) | SYF2 splicing factor | Proteins in this family are involved in cell cycle progression and pre-mRNA splicing [1] [2]. | Domain |
O [auth N] | PF01125 | Pre-mRNA-splicing factor BUD31 (BUD31) | Pre-mRNA-splicing factor BUD31 | This entry includes Pre-mRNA-splicing factor BUD31, also known as G10 protein, and its homologues. BUD31 is involved in the pre-mRNA splicing process [1-3] and it is highly conserved in a wide range of eukaryotic species. Human BUD31 may play a role ... | Domain |
P [auth O] | PF00076 | RNA recognition motif (RRM_1) | RNA recognition motif | 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 pro ... | Domain |
P [auth O] | PF21369 | STL11, N-terminal (STL11_N) | STL11, N-terminal | This entry represents the N-terminal domain of STL11 from yeast and its homologues [1-4], such as RBM22 from human. This domain comprises a zinc finger, FYVE/PHD type. Members of this entry are involved in pre-mRNA splicing. | Domain |
Q [auth P] | PF04889 | Cwf15/Cwc15 cell cycle control protein (Cwf_Cwc_15) | Cwf15/Cwc15 cell cycle control protein | - | Family |
PF02731 | SKIP/SNW domain (SKIP_SNW) | SKIP/SNW domain | - | Family | |
PF00160 | Cyclophilin type peptidyl-prolyl cis-trans isomerase/CLD (Pro_isomerase) | Cyclophilin type peptidyl-prolyl cis-trans isomerase/CLD | The peptidyl-prolyl cis-trans isomerases, also known as cyclophilins, share this domain of about 109 amino acids. Cyclophilins have been found in all organisms studied so far and catalyse peptidyl-prolyl isomerisation during which the peptide bond pr ... | Domain | |
PF00400 | WD domain, G-beta repeat (WD40) | WD domain, G-beta repeat | - | Repeat | |
U [auth Q] | PF21144 | Intron-binding protein aquarius insert domain (Aquarius_N_3rd) | Intron-binding protein aquarius insert domain | This entry represents the insert domain of intron-binding protein aquarius, a splicing factor which links excision of introns from pre-mRNA with snoRP assembly [1,2]. | Domain |
U [auth Q] | PF21143 | Intron-binding protein aquarius, beta-barrel (Aquarius_N_2nd) | Intron-binding protein aquarius, beta-barrel | This entry represents the beta-barrel domain found at the N-terminal of intron-binding protein aquarius, a splicing factor which links excision of introns from pre-mRNA with snoRP assembly [1,2]. | Domain |
U [auth Q] | PF13086 | AAA domain (AAA_11) | AAA domain | This family of domains contain a P-loop motif that is characteristic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins. | Domain |
U [auth Q] | PF13087 | AAA domain (AAA_12) | AAA domain | This family of domains contain a P-loop motif that is characteristic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins. | Domain |
U [auth Q] | PF16399 | Intron-binding protein aquarius N-terminal (Aquarius_N_1st) | Intron-binding protein aquarius N-terminal | - | Repeat |
W [auth V] | PF02854 | MIF4G domain (MIF4G) | MIF4G domain | - | Repeat |
X [auth W] | PF00400 | WD domain, G-beta repeat (WD40) | WD domain, G-beta repeat | - | Repeat |
Y [auth X] | PF12542 | Pre-mRNA splicing factor (CWC25) | Pre-mRNA splicing factor | - | Family |
Y [auth X] | PF10197 | N-terminal domain of CBF1 interacting co-repressor CIR (Cir_N) | N-terminal domain of CBF1 interacting co-repressor CIR | This is a 45 residue conserved region at the N-terminal end of a family of proteins referred to as CIRs (CBF1-interacting co-repressors). CBF1 (centromere-binding factor 1) acts as a transcription factor that causes repression by binding specifically ... | Domain |
Z [auth Y] | PF04502 | Saf4/Yju2 protein (Saf4_Yju2) | Saf4/Yju2 protein | - | Family |
AA [auth Z] | PF04408 | Helicase associated domain (HA2), winged-helix (HA2_N) | Helicase associated domain (HA2), winged-helix | The helicase associated domain (HA2) has an all alpha-helical fold and consists of a N-terminal winged-helix (WH) domain and a C-terminal degenerate helical-bundle domain, referred to as the ratchet-like domain [1,2,3]. These domains collaborate wit ... | Domain |
AA [auth Z] | PF07717 | Oligonucleotide/oligosaccharide-binding (OB)-fold (OB_NTP_bind) | Oligonucleotide/oligosaccharide-binding (OB)-fold | This family is found towards the C-terminus of the DEAD-box helicases (Pfam:PF00270). In these helicases it is apparently always found in association with Pfam:PF04408. There do seem to be a couple of instances where it occurs by itself - e.g. Swiss: ... | Domain |
AA [auth Z] | PF00270 | DEAD/DEAH box helicase (DEAD) | DEAD/DEAH box helicase | Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome ... | Domain |
AA [auth Z] | PF00271 | Helicase conserved C-terminal domain (Helicase_C) | Helicase conserved C-terminal domain | The Prosite family is restricted to DEAD/H helicases, whereas this domain family is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase. | Domain |
AA [auth Z] | PF21010 | Helicase associated domain (HA2), ratchet-like (HA2_C) | Helicase associated domain (HA2), ratchet-like | The helicase associated domain (HA2) has an all alpha-helical fold and consists of a N-terminal winged-helix (WH) domain (Pfam:PF04408) and a C-terminal degenerate helical-bundle domain, referred to as the ratchet-like domain [1,2,3]. These domains c ... | Domain |
BA [auth q], CA [auth r], DA [auth s], EA [auth t] | PF08606 | Prp19/Pso4-like (Prp19) | Prp19/Pso4-like | This regions is found specifically in PRP19-like protein. The region represented by this family covers the sequence implicated in self-interaction and a coiled-coiled motif [1]. PRP19-like proteins form an oligomer that is necessary ... | Domain |
BA [auth q], CA [auth r], DA [auth s], EA [auth t] | PF04564 | U-box domain (U-box) | U-box domain | The U-box is a domain of ~70 amino acids that is present in proteins from yeast to human. It consists of the beta-beta-alpha-beta-alpha- fold typical of U-box and RING domains. The central alpha helix is flanked by two prominent surface-exposed loop ... | Domain |
BA [auth q], CA [auth r], DA [auth s], EA [auth t] | PF00400 | WD domain, G-beta repeat (WD40) | WD domain, G-beta repeat | - | Repeat |
FA [auth u] | PF00270 | DEAD/DEAH box helicase (DEAD) | DEAD/DEAH box helicase | Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome ... | Domain |
FA [auth u] | PF00271 | Helicase conserved C-terminal domain (Helicase_C) | Helicase conserved C-terminal domain | The Prosite family is restricted to DEAD/H helicases, whereas this domain family is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase. | Domain |
PF00679 | Elongation factor G C-terminus (EFG_C) | Elongation factor G C-terminus | This domain includes the carboxyl terminal regions of Elongation factor G, elongation factor 2 and some tetracycline resistance proteins and adopt a ferredoxin-like fold. | Domain | |
PF00009 | Elongation factor Tu GTP binding domain (GTP_EFTU) | Elongation factor Tu GTP binding domain | This 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 | |
PF14492 | Elongation Factor G, domain III (EFG_III) | Elongation Factor G, domain III | This domain is found in Elongation Factor G. It shares a similar structure with domain V (Pfam:PF00679). Structural studies in drosophila indicate this is domain 3 [1]. | Domain | |
PF03144 | Elongation factor Tu domain 2 (GTP_EFTU_D2) | Elongation factor Tu domain 2 | Elongation factor Tu consists of three structural domains, this is the second domain. This domain adopts a beta barrel structure. This the second domain is involved in binding to charged tRNA [1]. This domain is also found in other proteins such as e ... | Domain | |
PF03764 | Elongation factor G, domain IV (EFG_IV) | Elongation factor G, domain IV | This domain is found in elongation factor G, elongation factor 2 and some tetracycline resistance proteins and adopts a ribosomal protein S5 domain 2-like fold. | Domain | |
GA [auth v] | PF02792 | Mago nashi protein (Mago_nashi) | Mago nashi protein | - | Family |
HA [auth w] | PF00076 | RNA recognition motif (RRM_1) | RNA recognition motif | 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 pro ... | Domain |
IA [auth x] | PF09405 | CASC3/Barentsz eIF4AIII binding (Btz) | CASC3/Barentsz eIF4AIII binding | This domain is found on CASC3 (cancer susceptibility candidate gene 3 protein) which is also known as Barentsz (Btz). CASC3 is a component of the EJC (exon junction complex) which is a complex that is involved in post-transcriptional regulation of m ... | Domain |
JA [auth h], SA [auth a] | PF01423 | LSM domain (LSM) | LSM domain | The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ... | Domain |
KA [auth i], TA [auth b] | PF01423 | LSM domain (LSM) | LSM domain | The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ... | Domain |
LA [auth j], UA [auth c] | PF01423 | LSM domain (LSM) | LSM domain | The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ... | Domain |
MA [auth k], VA [auth d] | PF01423 | LSM domain (LSM) | LSM domain | The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ... | Domain |
NA [auth m], WA [auth f] | PF01423 | LSM domain (LSM) | LSM domain | The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ... | Domain |
OA [auth l], XA [auth e] | PF01423 | LSM domain (LSM) | LSM domain | The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ... | Domain |
PA [auth n], YA [auth g] | PF01423 | LSM domain (LSM) | LSM domain | The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ... | Domain |
PF02889 | Sec63 Brl domain (Sec63) | Sec63 Brl domain | - | Family | |
PF21188 | Pre-mRNA-splicing helicase BRR2 plug domain (BRR2_plug) | Pre-mRNA-splicing helicase BRR2 plug domain | This entry represents the Plug domain from the Brr2 RNA helicase protein. The Brr2 helicase provides the key remodelling activity for spliceosome catalytic activation, during which it disrupts the U4/U6 di-snRNP (small nuclear RNA protein) [2]. The p ... | Domain | |
PF00270 | DEAD/DEAH box helicase (DEAD) | DEAD/DEAH box helicase | Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome ... | Domain | |
PF00271 | Helicase conserved C-terminal domain (Helicase_C) | Helicase conserved C-terminal domain | The Prosite family is restricted to DEAD/H helicases, whereas this domain family is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase. | Domain | |
PF18149 | N-terminal helicase PWI domain (Helicase_PWI) | N-terminal helicase PWI domain | This domain is found in spliceosomal RNA helicase Brr2. Brr2 is required for the assembly of a catalytically active spliceosome on a messenger RNA precursor. The domain is found in the N-terminal region and is non-canonically PWI-like. The PWI-like d ... | Domain | |
QA [auth o] | PF14580 | Leucine-rich repeat (LRR_9) | Leucine-rich repeat | - | Repeat |
RA [auth p] | PF00076 | RNA recognition motif (RRM_1) | RNA recognition motif | 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 pro ... | Domain |
ZA [auth 1] | PF00160 | Cyclophilin type peptidyl-prolyl cis-trans isomerase/CLD (Pro_isomerase) | Cyclophilin type peptidyl-prolyl cis-trans isomerase/CLD | The peptidyl-prolyl cis-trans isomerases, also known as cyclophilins, share this domain of about 109 amino acids. Cyclophilins have been found in all organisms studied so far and catalyse peptidyl-prolyl isomerisation during which the peptide bond pr ... | Domain |
ZA [auth 1] | PF00076 | RNA recognition motif (RRM_1) | RNA recognition motif | 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 pro ... | Domain |
AB [auth 2] | PF00160 | Cyclophilin type peptidyl-prolyl cis-trans isomerase/CLD (Pro_isomerase) | Cyclophilin type peptidyl-prolyl cis-trans isomerase/CLD | The peptidyl-prolyl cis-trans isomerases, also known as cyclophilins, share this domain of about 109 amino acids. Cyclophilins have been found in all organisms studied so far and catalyse peptidyl-prolyl isomerisation during which the peptide bond pr ... | Domain |
AB [auth 2] | PF00400 | WD domain, G-beta repeat (WD40) | WD domain, G-beta repeat | - | Repeat |
BB [auth 3] | PF00160 | Cyclophilin type peptidyl-prolyl cis-trans isomerase/CLD (Pro_isomerase) | Cyclophilin type peptidyl-prolyl cis-trans isomerase/CLD | The peptidyl-prolyl cis-trans isomerases, also known as cyclophilins, share this domain of about 109 amino acids. Cyclophilins have been found in all organisms studied so far and catalyse peptidyl-prolyl isomerisation during which the peptide bond pr ... | Domain |
PF00400 | WD domain, G-beta repeat (WD40) | WD domain, G-beta repeat | - | Repeat | |
PF13181 | Tetratricopeptide repeat (TPR_8) | Tetratricopeptide repeat | - | Repeat |