7R7C | pdb_00007r7c

State E2 nucleolar 60S ribosomal biogenesis intermediate - L1 stalk local model


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
K [auth a]SCOP2B SuperfamilyRibosomal protein L1p/L10e-like 8098448 3001911 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
E [auth r]Ribosomal_S8ee7r7cr1 A: beta barrelsX: Ribosomal protein L14-likeH: Ribosomal protein L14-related (From Topology)T: Ribosomal protein L14-relatedF: Ribosomal_S8eECOD (1.6)
K [auth a]Ribosomal_L1_2nd_1e7r7ca2 A: a+b two layersX: a+b domain in Ribosomal protein L1 (From Topology)H: a+b domain in Ribosomal protein L1 (From Topology)T: a+b domain in Ribosomal protein L1F: Ribosomal_L1_2nd_1ECOD (1.6)
K [auth a]Ribosomal_L1_1st_1e7r7ca1 A: a/b three-layered sandwichesX: Flavodoxin-likeH: Rossmann-like domain in Ribosomal protein L1 (From Topology)T: Rossmann-like domain in Ribosomal protein L1F: Ribosomal_L1_1st_1ECOD (1.6)
B [auth l]PUAe7r7cl2 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: PUA domainF: PUAECOD (1.6)
B [auth l]KOG3492e7r7cl1 A: a+b two layersX: Cystatin-likeH: Pre-PUA domain (From Topology)T: Pre-PUA domainF: KOG3492ECOD (1.6)
H [auth A]Brixe7r7cA1 A: a/b three-layered sandwichesX: Anticodon-binding domain of Class II aaRS (From Topology)H: Anticodon-binding domain of Class II aaRS (From Topology)T: Anticodon-binding domain of Class II aaRSF: BrixECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

ChainDomainClassArchitectureTopologyHomologyProvenance Source (Version)
E [auth r]2.40.10.310 Mainly Beta Beta Barrel Thrombin, subunit H CATH (utative)
K [auth a]3.40.50.790 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold Ribosomal protein L1/L10, domain IICATH (utative)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
H [auth A]PF00687Ribosomal protein L1p/L10e family (Ribosomal_L1)Ribosomal protein L1p/L10e familyThis family includes prokaryotic L1 and eukaryotic L10. Domain
I [auth J]PF05890Eukaryotic rRNA processing protein EBP2 (Ebp2)Eukaryotic rRNA processing protein EBP2- Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
C [auth m]Ribosome biogenesis protein ERB1
E [auth r]Ribosome biogenesis protein NSA2 homolog-
G [auth 7]60S ribosomal subunit assembly/export protein LOC1
A [auth 1]25S rRNA---
J [auth b]Nucleolar GTP-binding protein 1
K [auth a]60S ribosomal protein L1-A
B [auth l]60S ribosome subunit biogenesis protein NIP7
D [auth q]25S rRNA (cytosine(2870)-C(5))-methyltransferase
F [auth w]27S pre-rRNA (guanosine(2922)-2'-O)-methyltransferase
H [auth A]Ribosome biogenesis protein BRX1
I [auth J]rRNA-processing protein EBP2

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
C [auth m]IPR019775WD40 repeat, conserved siteConserved Site
C [auth m]IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
C [auth m]IPR028598WD repeat BOP1/Erb1Family
C [auth m]IPR001680WD40 repeatRepeat
C [auth m]IPR012953BOP1, N-terminal domainDomain
C [auth m]IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
E [auth r]IPR039411Ribosomal biogenesis NSA2 familyFamily
E [auth r]IPR022309Ribosomal protein eS8/ribosomal biogenesis NSA2Family
G [auth 7]IPR03765060S ribosomal subunit assembly/export protein Loc1Family
J [auth b]IPR024926Nucleolar GTP-binding protein 1Family
J [auth b]IPR031167OBG-type guanine nucleotide-binding (G) domainDomain
J [auth b]IPR012973NOG, C-terminalDomain
J [auth b]IPR010674Nucleolar GTP-binding protein 1, Rossman-fold domainDomain
J [auth b]IPR041623NOG1, N-terminal helical domainDomain
J [auth b]IPR006073GTP binding domainDomain
J [auth b]IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
K [auth a]IPR050257Large ribosomal subunit protein eL8/uL1-likeFamily
K [auth a]IPR023673Large ribosomal subunit protein uL1, conserved siteConserved Site
K [auth a]IPR016095Large ribosomal subunit protein uL1, 3-layer alpha/beta-sandwich domainHomologous Superfamily
K [auth a]IPR023674Ribosomal protein uL1-likeHomologous Superfamily
K [auth a]IPR002143Large ribosomal subunit protein uL1Family
K [auth a]IPR028364Ribosomal protein uL1/ribosomal biogenesis proteinFamily
B [auth l]IPR015947PUA-like superfamilyHomologous Superfamily
B [auth l]IPR005155UPF0113, PUA domainDomain
B [auth l]IPR016686Ribosome biogenesis factor, NIP7Family
B [auth l]IPR036974PUA domain superfamilyHomologous Superfamily
B [auth l]IPR04059860S ribosome subunit biogenesis protein NIP7, pre-PUA domainDomain
B [auth l]IPR002478PUA domainDomain
B [auth l]IPR05535960S ribosome subunit biogenesis protein Nip7, pre-PUA domain, eukaryotesDomain
D [auth q]IPR018314RsmB/NOL1/NOP2-like, conserved siteConserved Site
D [auth q]IPR001678SAM-dependent methyltransferase RsmB-F/NOP2-type domainDomain
D [auth q]IPR029063S-adenosyl-L-methionine-dependent methyltransferase superfamilyHomologous Superfamily
D [auth q]IPR023267RNA (C5-cytosine) methyltransferaseFamily
D [auth q]IPR011023Nop2pDomain
D [auth q]IPR023273RNA (C5-cytosine) methyltransferase, NOP2Family
D [auth q]IPR049560SAM-dependent methyltransferase RsmB-F/NOP2-type, catalytic coreDomain
F [auth w]IPR024576Ribosomal RNA methyltransferase Spb1, domain of unknown function DUF3381Domain
F [auth w]IPR012920Ribosomal RNA methyltransferase, SPB1-like, C-terminalDomain
F [auth w]IPR029063S-adenosyl-L-methionine-dependent methyltransferase superfamilyHomologous Superfamily
F [auth w]IPR002877Ribosomal RNA methyltransferase, FtsJ domainDomain
F [auth w]IPR015507Ribosomal RNA large subunit methyltransferase EFamily
F [auth w]IPR028589AdoMet-dependent rRNA methyltransferase SPB1-likeFamily
F [auth w]IPR050082Ribosomal RNA large subunit methyltransferase RlmEFamily
H [auth A]IPR026532Ribosome biogenesis protein BRX1Family
H [auth A]IPR007109Brix domainDomain
I [auth J]IPR008610Eukaryotic rRNA processingFamily