8E5T | pdb_00008e5t

Yeast co-transcriptional Noc1-Noc2 RNP assembly checkpoint intermediate


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
CSCOP2B Superfamily60S ribosomal protein L4 C-terminal domain-like 8052815 3002143 SCOP2B (2022-06-29)
ESCOP2B SuperfamilyTranslation proteins SH3-like KOW motif containing domain 8053109 3000334 SCOP2B (2022-06-29)
L [auth Q]SCOP2B SuperfamilyRibosomal proteins L15p and L18e 8095970 3001045 SCOP2B (2022-06-29)
P [auth f]SCOP2B SuperfamilyTranslational proteins 8087451 3000811 SCOP2B (2022-06-29)
T [auth o]SCOP2B SuperfamilyRNA-binding domain, RBD 8061969 3000110 SCOP2B (2022-06-29)
GSCOP2B SuperfamilyL30e-like 8063962 3001739 SCOP2B (2022-06-29)
FSCOP2B SuperfamilyRibosomal protein L30p/L7e 8052917 3001378 SCOP2B (2022-06-29)
FSCOP2B SuperfamilyRibosomal L30p/L7e protein, N-terminal domain-lke 8052916 3002152 SCOP2B (2022-06-29)
Y [auth O]SCOP2B SuperfamilyRibosomal protein L13 8066053 3001134 SCOP2B (2022-06-29)
Q [auth i]SCOP2B SuperfamilyRibosomal protein L36e 8053115 3002161 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
CIon_transe8e5tC1 A: a/b three-layered sandwichesX: RNase A-likeH: RNase A-likeT: RNase A-likeF: Ion_transECOD (v294.1)
EIon_transe8e5tE1 A: a/b three-layered sandwichesX: RNase A-likeH: RNase A-likeT: RNase A-likeF: Ion_transECOD (v294.1)
H [auth K]Ion_transe8e5tK1 A: a/b three-layered sandwichesX: RNase A-likeH: RNase A-likeT: RNase A-likeF: Ion_transECOD (v294.1)
J [auth M]Ion_transe8e5tM1 A: a/b three-layered sandwichesX: RNase A-likeH: RNase A-likeT: RNase A-likeF: Ion_transECOD (v294.1)
K [auth N]Ion_transe8e5tN1 A: a/b three-layered sandwichesX: RNase A-likeH: RNase A-likeT: RNase A-likeF: Ion_transECOD (v294.1)
L [auth Q]Ion_transe8e5tQ1 A: a/b three-layered sandwichesX: RNase A-likeH: RNase A-likeT: RNase A-likeF: Ion_transECOD (v294.1)
M [auth S]Ion_transe8e5tS1 A: a/b three-layered sandwichesX: RNase A-likeH: RNase A-likeT: RNase A-likeF: Ion_transECOD (v294.1)
P [auth f]Ion_transe8e5tf1 A: a/b three-layered sandwichesX: RNase A-likeH: RNase A-likeT: RNase A-likeF: Ion_transECOD (v294.1)
U [auth p]Ion_transe8e5tp1 A: a/b three-layered sandwichesX: RNase A-likeH: RNase A-likeT: RNase A-likeF: Ion_transECOD (v294.1)
W [auth t]Ion_transe8e5tt1 A: a/b three-layered sandwichesX: RNase A-likeH: RNase A-likeT: RNase A-likeF: Ion_transECOD (v294.1)
X [auth z]Ion_transe8e5tz1 A: a/b three-layered sandwichesX: RNase A-likeH: RNase A-likeT: RNase A-likeF: Ion_transECOD (v294.1)
I [auth L]Ion_transe8e5tL1 A: a/b three-layered sandwichesX: RNase A-likeH: RNase A-likeT: RNase A-likeF: Ion_transECOD (v294.1)
GIon_transe8e5tG1 A: a/b three-layered sandwichesX: RNase A-likeH: RNase A-likeT: RNase A-likeF: Ion_transECOD (v294.1)
FIon_transe8e5tF1 A: a/b three-layered sandwichesX: RNase A-likeH: RNase A-likeT: RNase A-likeF: Ion_transECOD (v294.1)
DIon_transe8e5tD1 A: a/b three-layered sandwichesX: RNase A-likeH: RNase A-likeT: RNase A-likeF: Ion_transECOD (v294.1)
Y [auth O]Ion_transe8e5tO1 A: a/b three-layered sandwichesX: RNase A-likeH: RNase A-likeT: RNase A-likeF: Ion_transECOD (v294.1)
Q [auth i]Ion_transe8e5ti1 A: a/b three-layered sandwichesX: RNase A-likeH: RNase A-likeT: RNase A-likeF: Ion_transECOD (v294.1)
O [auth e]Ion_transe8e5te1 A: a/b three-layered sandwichesX: RNase A-likeH: RNase A-likeT: RNase A-likeF: Ion_transECOD (v294.1)
N [auth b]Ion_transe8e5tb1 A: a/b three-layered sandwichesX: RNase A-likeH: RNase A-likeT: RNase A-likeF: Ion_transECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

ChainDomainClassArchitectureTopologyHomologyProvenance Source (Version)
K [auth N]3.40.1120.10 Alpha Beta 3-Layer(aba) Sandwich Ribosomal protein L15e Ribosomal protein L15CATH (utative)
D3.30.390.110 Alpha Beta 2-Layer Sandwich Enolase-like domain 1CATH (utative)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
A [auth 5]PF03914CBF/Mak21 family (CBF)CBF/Mak21 family- Repeat
B [auth 6]PF03715Noc2p family (Noc2)Noc2p family- Family
PF1437460S ribosomal protein L4 C-terminal domain (Ribos_L4_asso_C)60S ribosomal protein L4 C-terminal domainThis family is found at the very C-terminal of 60 ribosomal L4 proteins. Domain
PF00573Ribosomal protein L4/L1 family (Ribosomal_L4)Ribosomal protein L4/L1 family- Family
PF01159Ribosomal protein L6e (Ribosomal_L6e)Ribosomal protein L6e- Family
H [auth K]PF00687Ribosomal protein L1p/L10e family (Ribosomal_L1)Ribosomal protein L1p/L10e familyThis family includes prokaryotic L1 and eukaryotic L10. Domain
J [auth M]PF01929Ribosomal protein L14 (Ribosomal_L14e)Ribosomal protein L14- Family
J [auth M]PF00467KOW motif (KOW)KOW motif- Family
K [auth N]PF00827Ribosomal L15 (Ribosomal_L15e)Ribosomal L15- Family
M [auth S]PF01775Ribosomal proteins 50S-L18Ae/60S-L20/60S-L18A (Ribosomal_L18A)Ribosomal proteins 50S-L18Ae/60S-L20/60S-L18AThis family includes: archaeal 50S ribosomal protein L18Ae, often referred to as L20e or LX; fungal 60S ribosomal protein L20; and higher eukaryote 60S ribosomal protein L18A. Domain
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
PF08079Ribosomal L30 N-terminal domain (Ribosomal_L30_N)Ribosomal L30 N-terminal domainThis presumed domain is found at the N-terminus of Ribosomal L30 proteins and has been termed RL30NT or NUC018 [1]. Domain
PF00327Ribosomal protein L30p/L7e (Ribosomal_L30)Ribosomal protein L30p/L7eThis family includes prokaryotic L30 and eukaryotic L7. Domain
PF01247Ribosomal protein L35Ae (Ribosomal_L35Ae)Ribosomal protein L35AeThis entry represents the ribosomal eL33 previously known as L35A, eukaryotic and archaebacterial ribosomal proteins. Domain
PF01778Ribosomal L28e protein family (Ribosomal_L28e)Ribosomal L28e protein family- Family
Y [auth O]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
Y [auth O]PF00572Ribosomal protein L13 (Ribosomal_L13)Ribosomal protein L13- Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A [auth 5]Ribosome biogenesis protein MAK21
B [auth 6]NOC2 isoform 1
60S ribosomal protein L4-A
60S ribosomal protein L6-A
H [auth K]Proteasome-interacting protein CIC1
J [auth M]60S ribosomal protein L14-A
K [auth N]60S ribosomal protein L15-A
L [auth Q]60S ribosomal protein L18-A
M [auth S]60S ribosomal protein L20-A
P [auth f]60S ribosomal protein L33-A
S [auth n]Pescadillo homolog
T [auth o]Ribosome biogenesis protein 15
U [auth p]ATP-dependent RNA helicase HAS1
W [auth t]Ribosome biogenesis protein RLP7
X [auth z]Ribosomal RNA-processing protein 1-
I [auth L]60S ribosomal protein L13-A
60S ribosomal protein L8-A
60S ribosomal protein L7-A
Protein MAK16-
BA [auth 3]ITS2 ribosomal RNA---
AA [auth 2]5.8S ribosomal RNA---
Z [auth 1]25S ribosomal RNA---
Y [auth O]60S ribosomal protein L16-A
V [auth s]Ribosome biogenesis protein ERB1
R [auth m]rRNA-processing protein EBP2
Q [auth i]60S ribosomal protein L36-A
O [auth e]60S ribosomal protein L32
N [auth b]Ribosome biogenesis protein BRX1

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
A [auth 5]IPR040155CEBPZ/Mak21-likeFamily
A [auth 5]IPR016024Armadillo-type foldHomologous Superfamily
A [auth 5]IPR005612CCAAT-binding factorDomain
B [auth 6]IPR005343Nucleolar complex protein 2Family
IPR025755Large ribosomal subunit protein uL4, C-terminal domainDomain
IPR002136Large ribosomal subunit protein uL4Family
IPR013000Large ribosomal subunit protein uL4, eukaryota/archaea, conserved siteConserved Site
IPR045240Large ribosomal subunit protein uL4, eukaryota/archaeaFamily
IPR023574Large ribosomal subunit protein uL4 domain superfamilyHomologous Superfamily
IPR049633Large ribosomal subunit protein eL6, conserved siteConserved Site
IPR014722Large ribosomal subunit protein uL2, domain 2Homologous Superfamily
IPR041997Large ribosomal subunit protein eL6, KOW domainDomain
IPR008991Translation protein SH3-like domain superfamilyHomologous Superfamily
IPR000915Large ribosomal subunit protein eL6Family
H [auth K]IPR023674Ribosomal protein uL1-likeHomologous Superfamily
H [auth K]IPR028364Ribosomal protein uL1/ribosomal biogenesis proteinFamily
J [auth M]IPR014722Large ribosomal subunit protein uL2, domain 2Homologous Superfamily
J [auth M]IPR008991Translation protein SH3-like domain superfamilyHomologous Superfamily
J [auth M]IPR039660Large ribosomal subunit protein eL14Family
J [auth M]IPR002784Large ribosomal subunit protein eL14 domainDomain
J [auth M]IPR005824KOWDomain
K [auth N]IPR012678Ribosomal protein uL23/eL15/eS24 core domain superfamilyHomologous Superfamily
K [auth N]IPR020925Large ribosomal subunit protein eL15, conserved siteConserved Site
K [auth N]IPR024794Large ribosomal subunit protein eL15 core domain superfamilyHomologous Superfamily
K [auth N]IPR000439Large ribosomal subunit protein eL15Family
L [auth Q]IPR021131Large ribosomal subunit protein uL15/eL18Domain
L [auth Q]IPR021132Large ribosomal subunit protein eL18, conserved siteConserved Site
L [auth Q]IPR000039Large ribosomal subunit protein eL18Family
L [auth Q]IPR036227Large ribosomal subunit protein uL15/eL18 superfamilyHomologous Superfamily
M [auth S]IPR028877Large ribosomal subunit protein eL20Family
M [auth S]IPR023573Large ribosomal subunit protein eL20 domainDomain
M [auth S]IPR021138Large ribosomal subunit protein eL20, eukaryotaFamily
P [auth f]IPR038661Large ribosomal subunit protein eL33 superfamilyHomologous Superfamily
P [auth f]IPR009000Translation protein, beta-barrel domain superfamilyHomologous Superfamily
P [auth f]IPR001780Large ribosomal subunit protein eL33Family
P [auth f]IPR018266Large ribosomal subunit protein eL33, conserved siteConserved Site
S [auth n]IPR010613PescadilloFamily
S [auth n]IPR001357BRCT domainDomain
S [auth n]IPR036420BRCT domain superfamilyHomologous Superfamily
T [auth o]IPR000504RNA recognition motif domainDomain
T [auth o]IPR012677Nucleotide-binding alpha-beta plait domain superfamilyHomologous Superfamily
T [auth o]IPR034469Ribosome biogenesis protein 15, RNA recognition motifDomain
T [auth o]IPR035979RNA-binding domain superfamilyHomologous Superfamily
U [auth p]IPR000629ATP-dependent RNA helicase DEAD-box, conserved siteConserved Site
U [auth p]IPR014014RNA helicase, DEAD-box type, Q motifDomain
U [auth p]IPR025313ATP-dependent rRNA helicase SPB4-like, C-terminal extensionDomain
U [auth p]IPR011545DEAD/DEAH-box helicase domainDomain
U [auth p]IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
U [auth p]IPR001650Helicase, C-terminal domain-likeDomain
U [auth p]IPR014001Helicase superfamily 1/2, ATP-binding domainDomain
U [auth p]IPR044773DDX18/Has1, DEAD-box helicase domainDomain
W [auth t]IPR036919Large ribosomal subunit protein uL30, ferredoxin-like fold domain superfamilyHomologous Superfamily
W [auth t]IPR035808Large ribosomal subunit protein uL30, eukaryota/archaeaDomain
W [auth t]IPR039699Large ribosomal subunit protein uL30Family
W [auth t]IPR016082Large ribosomal subunit protein uL30-like, ferredoxin-like fold domainDomain
W [auth t]IPR018038Large ribosomal subunit protein uL30, conserved siteConserved Site
X [auth z]IPR010301Ribosomal RNA processing protein 1Family
I [auth L]IPR001380Large ribosomal subunit protein eL13Family
I [auth L]IPR018256Large ribosomal subunit protein eL13, conserved siteConserved Site
IPR050257Large ribosomal subunit protein eL8/uL1-likeFamily
IPR004038Ribosomal protein eL8/eL30/eS12/Gadd45Domain
IPR004037Large ribosomal subunit protein eL8-like, conserved siteConserved Site
IPR029064Ribosomal protein eL30-like superfamilyHomologous Superfamily
IPR018492Ribosomal protein eL8/Nhp2 familyFamily
IPR001921Large ribosomal subunit protein eL8, eukaryotaFamily
IPR036919Large ribosomal subunit protein uL30, ferredoxin-like fold domain superfamilyHomologous Superfamily
IPR035808Large ribosomal subunit protein uL30, eukaryota/archaeaDomain
IPR005998Large ribosomal subunit protein uL30, eukaryotaFamily
IPR039699Large ribosomal subunit protein uL30Family
IPR012988Large ribosomal subunit protein uL30, N-terminal, eukaryotaDomain
IPR016082Large ribosomal subunit protein uL30-like, ferredoxin-like fold domainDomain
IPR018038Large ribosomal subunit protein uL30, conserved siteConserved Site
IPR006958Mak16 proteinFamily
IPR029004Ribosomal eL28/Mak16Domain
Y [auth O]IPR023563Large ribosomal subunit protein uL13, conserved siteConserved Site
Y [auth O]IPR005822Large ribosomal subunit protein uL13Family
Y [auth O]IPR036899Large ribosomal subunit protein uL13 superfamilyHomologous Superfamily
Y [auth O]IPR005755Large ribosomal subunit protein uL13, eukaryota/archaeaFamily
V [auth s]IPR019775WD40 repeat, conserved siteConserved Site
V [auth s]IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
V [auth s]IPR028598WD repeat BOP1/Erb1Family
V [auth s]IPR001680WD40 repeatRepeat
V [auth s]IPR012953BOP1, N-terminal domainDomain
V [auth s]IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
R [auth m]IPR008610Eukaryotic rRNA processingFamily
Q [auth i]IPR000509Large ribosomal subunit protein eL36Family
Q [auth i]IPR038097Large ribosomal subunit protein eL36 domain superfamilyHomologous Superfamily
O [auth e]IPR036351Large ribosomal subunit protein eL32 superfamilyHomologous Superfamily
O [auth e]IPR001515Large ribosomal subunit protein eL32Family
O [auth e]IPR018263Large ribosomal subunit protein eL32, conserved siteConserved Site
N [auth b]IPR026532Ribosome biogenesis protein BRX1Family
N [auth b]IPR007109Brix domainDomain