6RQC | pdb_00006rqc

Cryo-EM structure of an MCM loading intermediate


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
BSCOP2B SuperfamilyRecA-like P-loop NTPases 8090226 3002019 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
I [auth 4]MCM_OBe6rqc44 A: beta barrelsX: OB-foldH: Nucleic acid-binding proteins (From Topology)T: Nucleic acid-binding proteinsF: MCM_OBECOD (1.6)
I [auth 4]MCM_Ce6rqc43 A: alpha arraysX: Histone-likeH: Histone-relatedT: AAA+ ATPase lid domainF: MCM_CECOD (1.6)
I [auth 4]MCM_Ne6rqc42 A: a+b complex topologyX: N-terminal subdomain in DNA replication initiator (cdc21/cdc54) (From Topology)H: N-terminal subdomain in DNA replication initiator (cdc21/cdc54) (From Topology)T: N-terminal subdomain in DNA replication initiator (cdc21/cdc54)F: MCM_NECOD (1.6)
I [auth 4]MCM_AAAe6rqc41 A: a/b three-layered sandwichesX: P-loop domains-likeH: P-loop domains-relatedT: P-loop containing nucleoside triphosphate hydrolasesF: MCM_AAAECOD (1.6)
I [auth 4]MCM_OB_1e6rqc45 A: few secondary structure elementsX: Rubredoxin-likeH: Rubredoxin-relatedT: Rubredoxin-relatedF: MCM_OB_1ECOD (1.6)
H [auth 3]MCM_OBe6rqc33 A: beta barrelsX: OB-foldH: Nucleic acid-binding proteins (From Topology)T: Nucleic acid-binding proteinsF: MCM_OBECOD (1.6)
H [auth 3]MCM_Ce6rqc32 A: alpha arraysX: Histone-likeH: Histone-relatedT: AAA+ ATPase lid domainF: MCM_CECOD (1.6)
H [auth 3]MCM_Ne6rqc34 A: a+b complex topologyX: N-terminal subdomain in DNA replication initiator (cdc21/cdc54) (From Topology)H: N-terminal subdomain in DNA replication initiator (cdc21/cdc54) (From Topology)T: N-terminal subdomain in DNA replication initiator (cdc21/cdc54)F: MCM_NECOD (1.6)
H [auth 3]MCM_AAAe6rqc31 A: a/b three-layered sandwichesX: P-loop domains-likeH: P-loop domains-relatedT: P-loop containing nucleoside triphosphate hydrolasesF: MCM_AAAECOD (1.6)
H [auth 3]KOG0479e6rqc35 A: few secondary structure elementsX: Rubredoxin-likeH: Rubredoxin-relatedT: Rubredoxin-relatedF: KOG0479ECOD (1.6)
G [auth 2]MCM_OBe6rqc21 A: beta barrelsX: OB-foldH: Nucleic acid-binding proteins (From Topology)T: Nucleic acid-binding proteinsF: MCM_OBECOD (1.6)
G [auth 2]MCM_Ce6rqc25 A: alpha arraysX: Histone-likeH: Histone-relatedT: AAA+ ATPase lid domainF: MCM_CECOD (1.6)
G [auth 2]MCM_Ne6rqc24 A: a+b complex topologyX: N-terminal subdomain in DNA replication initiator (cdc21/cdc54) (From Topology)H: N-terminal subdomain in DNA replication initiator (cdc21/cdc54) (From Topology)T: N-terminal subdomain in DNA replication initiator (cdc21/cdc54)F: MCM_NECOD (1.6)
G [auth 2]MCM_AAAe6rqc23 A: a/b three-layered sandwichesX: P-loop domains-likeH: P-loop domains-relatedT: P-loop containing nucleoside triphosphate hydrolasesF: MCM_AAAECOD (1.6)
G [auth 2]MCM_OB_4e6rqc22 A: few secondary structure elementsX: Rubredoxin-likeH: Rubredoxin-relatedT: Rubredoxin-relatedF: MCM_OB_4ECOD (1.6)
DORC4_C_Ce6rqcD3 A: alpha arraysX: HTHH: HTHT: wingedF: ORC4_C_CECOD (1.6)
DORC4_C_Ne6rqcD2 A: alpha arraysX: Histone-likeH: Histone-relatedT: AAA+ ATPase lid domainF: ORC4_C_NECOD (1.6)
DAAAe6rqcD1 A: a/b three-layered sandwichesX: P-loop domains-likeH: P-loop domains-relatedT: P-loop containing nucleoside triphosphate hydrolasesF: AAAECOD (1.6)
CKOG2538_3rde6rqcC3 A: alpha arraysX: HTHH: HTHT: wingedF: KOG2538_3rdECOD (1.6)
CKOG2538_2nde6rqcC1 A: alpha arraysX: Histone-likeH: Histone-relatedT: AAA+ ATPase lid domainF: KOG2538_2ndECOD (1.6)
CKOG2538_1ste6rqcC2 A: a/b three-layered sandwichesX: P-loop domains-likeH: P-loop domains-relatedT: P-loop containing nucleoside triphosphate hydrolasesF: KOG2538_1stECOD (1.6)
L [auth 7]MCM_OBe6rqc71 A: beta barrelsX: OB-foldH: Nucleic acid-binding proteins (From Topology)T: Nucleic acid-binding proteinsF: MCM_OBECOD (1.6)
L [auth 7]MCM_Ce6rqc75 A: alpha arraysX: Histone-likeH: Histone-relatedT: AAA+ ATPase lid domainF: MCM_CECOD (1.6)
L [auth 7]MCM_N_1e6rqc74 A: a+b complex topologyX: N-terminal subdomain in DNA replication initiator (cdc21/cdc54) (From Topology)H: N-terminal subdomain in DNA replication initiator (cdc21/cdc54) (From Topology)T: N-terminal subdomain in DNA replication initiator (cdc21/cdc54)F: MCM_N_1ECOD (1.6)
L [auth 7]MCM_AAAe6rqc72 A: a/b three-layered sandwichesX: P-loop domains-likeH: P-loop domains-relatedT: P-loop containing nucleoside triphosphate hydrolasesF: MCM_AAAECOD (1.6)
L [auth 7]KOG0482e6rqc73 A: few secondary structure elementsX: Rubredoxin-likeH: Rubredoxin-relatedT: Rubredoxin-relatedF: KOG0482ECOD (1.6)
K [auth 6]MCM_OBe6rqc64 A: beta barrelsX: OB-foldH: Nucleic acid-binding proteins (From Topology)T: Nucleic acid-binding proteinsF: MCM_OBECOD (1.6)
K [auth 6]MCM_Ce6rqc62 A: alpha arraysX: Histone-likeH: Histone-relatedT: AAA+ ATPase lid domainF: MCM_CECOD (1.6)
K [auth 6]MCM_Ne6rqc61 A: a+b complex topologyX: N-terminal subdomain in DNA replication initiator (cdc21/cdc54) (From Topology)H: N-terminal subdomain in DNA replication initiator (cdc21/cdc54) (From Topology)T: N-terminal subdomain in DNA replication initiator (cdc21/cdc54)F: MCM_NECOD (1.6)
K [auth 6]MCM_AAAe6rqc63 A: a/b three-layered sandwichesX: P-loop domains-likeH: P-loop domains-relatedT: P-loop containing nucleoside triphosphate hydrolasesF: MCM_AAAECOD (1.6)
K [auth 6]MCM_OB_2e6rqc65 A: few secondary structure elementsX: Rubredoxin-likeH: Rubredoxin-relatedT: Rubredoxin-relatedF: MCM_OB_2ECOD (1.6)
J [auth 5]MCM_OBe6rqc55 A: beta barrelsX: OB-foldH: Nucleic acid-binding proteins (From Topology)T: Nucleic acid-binding proteinsF: MCM_OBECOD (1.6)
J [auth 5]MCM_Ce6rqc51 A: alpha arraysX: Histone-likeH: Histone-relatedT: AAA+ ATPase lid domainF: MCM_CECOD (1.6)
J [auth 5]MCM_Ne6rqc52 A: a+b complex topologyX: N-terminal subdomain in DNA replication initiator (cdc21/cdc54) (From Topology)H: N-terminal subdomain in DNA replication initiator (cdc21/cdc54) (From Topology)T: N-terminal subdomain in DNA replication initiator (cdc21/cdc54)F: MCM_NECOD (1.6)
J [auth 5]MCM_AAAe6rqc54 A: a/b three-layered sandwichesX: P-loop domains-likeH: P-loop domains-relatedT: P-loop containing nucleoside triphosphate hydrolasesF: MCM_AAAECOD (1.6)
J [auth 5]MCM_OB_2e6rqc53 A: few secondary structure elementsX: Rubredoxin-likeH: Rubredoxin-relatedT: Rubredoxin-relatedF: MCM_OB_2ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
I [auth 4]PF14551MCM N-terminal domain (MCM_N)MCM N-terminal domainThis family contains the N-terminal domain of MCM proteins. Domain
I [auth 4]PF00493MCM P-loop domain (MCM)MCM P-loop domainDomain
I [auth 4]PF17855MCM AAA-lid domain (MCM_lid)MCM AAA-lid domainThis entry represents the AAA-lid domain found in MCM proteins. Domain
I [auth 4]PF17207MCM OB domain (MCM_OB)MCM OB domainThis family contains an OB-fold found within MCM proteins. This domain contains an insertion at the zinc binding motif [2]. Domain
H [auth 3]PF14551MCM N-terminal domain (MCM_N)MCM N-terminal domainThis family contains the N-terminal domain of MCM proteins. Domain
H [auth 3]PF00493MCM P-loop domain (MCM)MCM P-loop domainDomain
H [auth 3]PF17855MCM AAA-lid domain (MCM_lid)MCM AAA-lid domainThis entry represents the AAA-lid domain found in MCM proteins. Domain
H [auth 3]PF17207MCM OB domain (MCM_OB)MCM OB domainThis family contains an OB-fold found within MCM proteins. This domain contains an insertion at the zinc binding motif [2]. Domain
G [auth 2]PF14551MCM N-terminal domain (MCM_N)MCM N-terminal domainThis family contains the N-terminal domain of MCM proteins. Domain
G [auth 2]PF00493MCM P-loop domain (MCM)MCM P-loop domainDomain
G [auth 2]PF17855MCM AAA-lid domain (MCM_lid)MCM AAA-lid domainThis entry represents the AAA-lid domain found in MCM proteins. Domain
G [auth 2]PF17207MCM OB domain (MCM_OB)MCM OB domainThis family contains an OB-fold found within MCM proteins. This domain contains an insertion at the zinc binding motif [2]. Domain
PF05460Origin recognition complex subunit 6 (ORC6) (ORC6)Origin recognition complex subunit 6 (ORC6)- Family
PF13191AAA ATPase domain (AAA_16)AAA ATPase domainThis family of domains contain a P-loop motif that is characteristic of the AAA superfamily. Domain
PF21639ORC5, lid domain (ORC5_lid)ORC5, lid domainORC5 is a component of the origin recognition complex (ORC) that binds origins of replication. ORC is required to assemble the pre-replication complex necessary to initiate DNA replication. This is the lid domain, which with the N-terminal RecA-fold ...ORC5 is a component of the origin recognition complex (ORC) that binds origins of replication. ORC is required to assemble the pre-replication complex necessary to initiate DNA replication. This is the lid domain, which with the N-terminal RecA-fold domain, constitutes the well-known AAA+ domain [1].
Domain
PF14630Origin recognition complex (ORC) subunit 5 C-terminus (ORC5_C)Origin recognition complex (ORC) subunit 5 C-terminusThis entry represents the C-terminus of origin recognition complex subunit 5 [1,2], which consists of a winged helix domain (WHD). Domain
PF14629Origin recognition complex (ORC) subunit 4 C-terminus (ORC4_C)Origin recognition complex (ORC) subunit 4 C-terminus- Family
PF18137Origin recognition complex winged helix C-terminal (WHD_ORC)Origin recognition complex winged helix C-terminalThis is the C-terminal winged-helix (WH) DNA-binding domain of the origin recognition complex present in Drosophila melanogaster. The WH domain is responsible for recognizing origin sequences [1]. Domain
PF04084Origin recognition complex subunit 2 RecA-like domain (RecA-like_ORC2)Origin recognition complex subunit 2 RecA-like domainAll DNA replication initiation is driven by a single conserved eukaryotic initiator complex termed he origin recognition complex (ORC). The ORC is a six protein complex. This entry represents the RecA-like domain of ORC2 with no predicted ATPase acti ...All DNA replication initiation is driven by a single conserved eukaryotic initiator complex termed he origin recognition complex (ORC). The ORC is a six protein complex. This entry represents the RecA-like domain of ORC2 with no predicted ATPase activity [2].
Domain
L [auth 7]PF14551MCM N-terminal domain (MCM_N)MCM N-terminal domainThis family contains the N-terminal domain of MCM proteins. Domain
L [auth 7]PF00493MCM P-loop domain (MCM)MCM P-loop domainDomain
L [auth 7]PF17855MCM AAA-lid domain (MCM_lid)MCM AAA-lid domainThis entry represents the AAA-lid domain found in MCM proteins. Domain
L [auth 7]PF17207MCM OB domain (MCM_OB)MCM OB domainThis family contains an OB-fold found within MCM proteins. This domain contains an insertion at the zinc binding motif [2]. Domain
K [auth 6]PF14551MCM N-terminal domain (MCM_N)MCM N-terminal domainThis family contains the N-terminal domain of MCM proteins. Domain
K [auth 6]PF00493MCM P-loop domain (MCM)MCM P-loop domainDomain
K [auth 6]PF17855MCM AAA-lid domain (MCM_lid)MCM AAA-lid domainThis entry represents the AAA-lid domain found in MCM proteins. Domain
K [auth 6]PF17207MCM OB domain (MCM_OB)MCM OB domainThis family contains an OB-fold found within MCM proteins. This domain contains an insertion at the zinc binding motif [2]. Domain
J [auth 5]PF14551MCM N-terminal domain (MCM_N)MCM N-terminal domainThis family contains the N-terminal domain of MCM proteins. Domain
J [auth 5]PF00493MCM P-loop domain (MCM)MCM P-loop domainDomain
J [auth 5]PF17855MCM AAA-lid domain (MCM_lid)MCM AAA-lid domainThis entry represents the AAA-lid domain found in MCM proteins. Domain
J [auth 5]PF17207MCM OB domain (MCM_OB)MCM OB domainThis family contains an OB-fold found within MCM proteins. This domain contains an insertion at the zinc binding motif [2]. Domain
PF21312Origin recognition complex subunit 1 C-terminal winged HTH domain (WHD_ORC1)Origin recognition complex subunit 1 C-terminal winged HTH domainThis entry represents the C-terminal winged helix-turn-helix domain found in the Origin recognition complex subunit 1 protein [1]. Domain
PF17872AAA lid domain (AAA_lid_10)AAA lid domainThis entry represents the alpha helical AAA+ lid domain that is found to the C-terminus of AAA domains. Domain
PF00004ATPase family associated with various cellular activities (AAA) (AAA)ATPase family associated with various cellular activities (AAA)AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes [2]. Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
I [auth 4]DNA replication licensing factor MCM4
H [auth 3]DNA replication licensing factor MCM3
G [auth 2]DNA replication licensing factor MCM2
Origin recognition complex subunit 6
Origin recognition complex subunit 5
Origin recognition complex subunit 4
Origin recognition complex subunit 3
Origin recognition complex subunit 2
N [auth Y]DNA (88-MER)---
M [auth X]DNA (88-MER)---
L [auth 7]DNA replication licensing factor MCM7
K [auth 6]DNA replication licensing factor MCM6
J [auth 5]Minichromosome maintenance protein 5
Origin recognition complex subunit 1

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
I [auth 4]IPR031327Mini-chromosome maintenance proteinFamily
I [auth 4]IPR018525Mini-chromosome maintenance, conserved siteConserved Site
I [auth 4]IPR001208MCM domainDomain
I [auth 4]IPR041562MCM, AAA-lid domainDomain
I [auth 4]IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
I [auth 4]IPR027925MCM, N-terminal domainDomain
I [auth 4]IPR036388Winged helix-like DNA-binding domain superfamilyHomologous Superfamily
I [auth 4]IPR008047Mini-chromosome maintenance complex protein 4Family
I [auth 4]IPR033762MCM OB domainDomain
I [auth 4]IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
H [auth 3]IPR031327Mini-chromosome maintenance proteinFamily
H [auth 3]IPR018525Mini-chromosome maintenance, conserved siteConserved Site
H [auth 3]IPR003593AAA+ ATPase domainDomain
H [auth 3]IPR001208MCM domainDomain
H [auth 3]IPR041562MCM, AAA-lid domainDomain
H [auth 3]IPR054007MCM3 winged helix domainDomain
H [auth 3]IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
H [auth 3]IPR027925MCM, N-terminal domainDomain
H [auth 3]IPR056575MCM3-like, winged helix domainDomain
H [auth 3]IPR008046DNA replication licensing factor Mcm3Family
H [auth 3]IPR033762MCM OB domainDomain
H [auth 3]IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
G [auth 2]IPR031327Mini-chromosome maintenance proteinFamily
G [auth 2]IPR018525Mini-chromosome maintenance, conserved siteConserved Site
G [auth 2]IPR001208MCM domainDomain
G [auth 2]IPR041562MCM, AAA-lid domainDomain
G [auth 2]IPR008045DNA replication licensing factor Mcm2Family
G [auth 2]IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
G [auth 2]IPR027925MCM, N-terminal domainDomain
G [auth 2]IPR033762MCM OB domainDomain
G [auth 2]IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
IPR008721ORC6, first cyclin-like domainDomain
IPR016811Origin recognition complex, subunit 6, fungiFamily
IPR048866ORC5, lid domainDomain
IPR047088Origin recognition complex subunit 5, C-terminalDomain
IPR041664Orc1-like, AAA ATPase domainDomain
IPR020796Origin recognition complex, subunit 5Family
IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
IPR032705Origin recognition complex subunit 4, C-terminalDomain
IPR016527Origin recognition complex subunit 4Family
IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
IPR020795Origin recognition complex, subunit 3Family
IPR018247EF-Hand 1, calcium-binding siteBinding Site
IPR040855Origin recognition complex subunit 3, winged helix C-terminalDomain
IPR045667Origin recognition complex subunit 3, N-terminalDomain
IPR007220Origin recognition complex, subunit 2Family
IPR056773Origin recognition complex subunit 2, winged-helix domainDomain
IPR056772Origin recognition complex subunit 2, RecA-like domainDomain
L [auth 7]IPR031327Mini-chromosome maintenance proteinFamily
L [auth 7]IPR008050DNA replication licensing factor Mcm7Family
L [auth 7]IPR018525Mini-chromosome maintenance, conserved siteConserved Site
L [auth 7]IPR003593AAA+ ATPase domainDomain
L [auth 7]IPR001208MCM domainDomain
L [auth 7]IPR041562MCM, AAA-lid domainDomain
L [auth 7]IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
L [auth 7]IPR027925MCM, N-terminal domainDomain
L [auth 7]IPR033762MCM OB domainDomain
L [auth 7]IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
K [auth 6]IPR008049DNA replication licensing factor Mcm6Family
K [auth 6]IPR041024Mcm6, C-terminal winged-helix domainDomain
K [auth 6]IPR031327Mini-chromosome maintenance proteinFamily
K [auth 6]IPR018525Mini-chromosome maintenance, conserved siteConserved Site
K [auth 6]IPR001208MCM domainDomain
K [auth 6]IPR041562MCM, AAA-lid domainDomain
K [auth 6]IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
K [auth 6]IPR027925MCM, N-terminal domainDomain
K [auth 6]IPR033762MCM OB domainDomain
K [auth 6]IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
J [auth 5]IPR031327Mini-chromosome maintenance proteinFamily
J [auth 5]IPR018525Mini-chromosome maintenance, conserved siteConserved Site
J [auth 5]IPR001208MCM domainDomain
J [auth 5]IPR041562MCM, AAA-lid domainDomain
J [auth 5]IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
J [auth 5]IPR054125MCM5, C-terminal domainDomain
J [auth 5]IPR027925MCM, N-terminal domainDomain
J [auth 5]IPR033762MCM OB domainDomain
J [auth 5]IPR008048DNA replication licensing factor Mcm5Family
J [auth 5]IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
IPR041083AAA lid domainDomain
IPR001025Bromo adjacent homology (BAH) domainDomain
IPR003593AAA+ ATPase domainDomain
IPR003959ATPase, AAA-type, coreDomain
IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
IPR043151Bromo adjacent homology (BAH) domain superfamilyHomologous Superfamily
IPR048867Origin recognition complex subunit 1, C-terminal domainDomain
IPR050311Origin recognition complex 1/Cell division control protein 6Family