6QG3 | pdb_00006qg3

Structure of eIF2B-eIF2 (phosphorylated at Ser51) complex (model B)


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
LSCOP2B SuperfamilyNucleic acid-binding proteins 8042149 3000135 SCOP2B (2022-06-29)
LSCOP2B SuperfamilyeIF2alpha middle domain-like 8042148 3001761 SCOP2B (2022-06-29)
KSCOP2B SuperfamilyeIF2alpha middle domain-like 8042148 3001761 SCOP2B (2022-06-29)
KSCOP2B SuperfamilyNucleic acid-binding proteins 8042149 3000135 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyNagB/RpiA/CoA transferase-like 8101523 3000693 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyNagB/RpiA/CoA transferase-like 8101523 3000693 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
Pe6qg3P1 A: Ten stranded beta/alpha barrelX: Ten stranded beta/alpha barrelH: Ten stranded beta/alpha barrelT: Peptidase_C1, Peptidase_C1_2F:ECOD (20:10:01)
O [auth N]e6qg3N1 A: Ten stranded beta/alpha barrelX: Ten stranded beta/alpha barrelH: Ten stranded beta/alpha barrelT: Peptidase_C1, Peptidase_C1_2F:ECOD (20:10:01)
Me6qg3M1 A: Ten stranded beta/alpha barrelX: Ten stranded beta/alpha barrelH: Ten stranded beta/alpha barrelT: Peptidase_C1, Peptidase_C1_2F:ECOD (20:10:01)
Le6qg3L1 A: Ten stranded beta/alpha barrelX: Ten stranded beta/alpha barrelH: Ten stranded beta/alpha barrelT: Peptidase_C1, Peptidase_C1_2F:ECOD (20:10:01)
Ke6qg3K1 A: Ten stranded beta/alpha barrelX: Ten stranded beta/alpha barrelH: Ten stranded beta/alpha barrelT: Peptidase_C1, Peptidase_C1_2F:ECOD (20:10:01)
Ie6qg3I1 A: Ten stranded beta/alpha barrelX: Ten stranded beta/alpha barrelH: Ten stranded beta/alpha barrelT: Peptidase_C1, Peptidase_C1_2F:ECOD (20:10:01)
Je6qg3J1 A: Ten stranded beta/alpha barrelX: Ten stranded beta/alpha barrelH: Ten stranded beta/alpha barrelT: Peptidase_C1, Peptidase_C1_2F:ECOD (20:10:01)
He6qg3H1 A: Ten stranded beta/alpha barrelX: Ten stranded beta/alpha barrelH: Ten stranded beta/alpha barrelT: Peptidase_C1, Peptidase_C1_2F:ECOD (20:10:01)
Ge6qg3G1 A: Ten stranded beta/alpha barrelX: Ten stranded beta/alpha barrelH: Ten stranded beta/alpha barrelT: Peptidase_C1, Peptidase_C1_2F:ECOD (20:10:01)
Fe6qg3F1 A: Ten stranded beta/alpha barrelX: Ten stranded beta/alpha barrelH: Ten stranded beta/alpha barrelT: Peptidase_C1, Peptidase_C1_2F:ECOD (20:10:01)
Ee6qg3E1 A: Ten stranded beta/alpha barrelX: Ten stranded beta/alpha barrelH: Ten stranded beta/alpha barrelT: Peptidase_C1, Peptidase_C1_2F:ECOD (20:10:01)
De6qg3D1 A: Ten stranded beta/alpha barrelX: Ten stranded beta/alpha barrelH: Ten stranded beta/alpha barrelT: Peptidase_C1, Peptidase_C1_2F:ECOD (20:10:01)
Be6qg3B1 A: Ten stranded beta/alpha barrelX: Ten stranded beta/alpha barrelH: Ten stranded beta/alpha barrelT: Peptidase_C1, Peptidase_C1_2F:ECOD (20:10:01)
Ae6qg3A1 A: Ten stranded beta/alpha barrelX: Ten stranded beta/alpha barrelH: Ten stranded beta/alpha barrelT: Peptidase_C1, Peptidase_C1_2F:ECOD (20:10:01)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
M,
O [auth N]
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
M,
O [auth N]
PF03144Elongation factor Tu domain 2 (GTP_EFTU_D2)Elongation factor Tu domain 2Elongation 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 ...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 elongation factor G and translation initiation factor IF-2. This domain is structurally related to Pfam:PF03143, and in fact has weak sequence matches to this domain.
Domain
M,
O [auth N]
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
K, L
PF07541Eukaryotic translation initiation factor 2 alpha subunit (EIF_2_alpha)Eukaryotic translation initiation factor 2 alpha subunit- Family
K, L
PF00575S1 RNA binding domain (S1)S1 RNA binding domainThe S1 domain occurs in a wide range of RNA associated proteins. It is structurally similar to cold shock protein which binds nucleic acids. The S1 domain has an OB-fold structure. Domain
I, J
PF00483Nucleotidyl transferase (NTP_transferase)Nucleotidyl transferase- Family
G, H
PF01008Initiation factor 2 subunit family (IF-2B)Initiation factor 2 subunit family- Family
E, F
PF25087GMPPB C-terminal domain (GMPPB_C)GMPPB C-terminal domain- Repeat
C, D
PF01008Initiation factor 2 subunit family (IF-2B)Initiation factor 2 subunit family- Family
A, B
PF01008Initiation factor 2 subunit family (IF-2B)Initiation factor 2 subunit family- Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
N [auth O],
P
Eukaryotic translation initiation factor 2 subunit beta
M,
O [auth N]
Eukaryotic translation initiation factor 2 subunit gamma
K, L
Eukaryotic translation initiation factor 2 subunit alpha
I, J
Translation initiation factor eIF-2B subunit epsilon
G, H
Translation initiation factor eIF-2B subunit delta
E, F
Translation initiation factor eIF-2B subunit gamma
C, D
Translation initiation factor eIF-2B subunit beta
A, B
Translation initiation factor eIF-2B subunit alpha

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
N [auth O],
P
IPR016190Translation initiation factor IF2/IF5, zinc-bindingHomologous Superfamily
N [auth O],
P
IPR016189Translation initiation factor IF2/IF5, N-terminalHomologous Superfamily
N [auth O],
P
IPR002735Translation initiation factor IF2/IF5 domainDomain
N [auth O],
P
IPR045196Translation initiation factor IF2/IF5Family
M,
O [auth N]
IPR000795Translational (tr)-type GTP-binding domainDomain
M,
O [auth N]
IPR009001Translation elongation factor EF1A/initiation factor IF2gamma, C-terminalHomologous Superfamily
M,
O [auth N]
IPR004161Translation elongation factor EFTu-like, domain 2Domain
M,
O [auth N]
IPR050543Eukaryotic Initiation Factor 2 Gamma SubunitFamily
M,
O [auth N]
IPR044128Initiation factor eIF2 gamma, GTP-binding domainDomain
M,
O [auth N]
IPR015256Initiation factor eIF2 gamma, C-terminalDomain
M,
O [auth N]
IPR009000Translation protein, beta-barrel domain superfamilyHomologous Superfamily
M,
O [auth N]
IPR044127Initiation factor eIF2 gamma, domain 2Domain
M,
O [auth N]
IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
K, L
IPR003029S1 domainDomain
K, L
IPR044126IF2a, S1-like domainDomain
K, L
IPR024054Translation initiation factor 2, alpha subunit, middle domain superfamilyHomologous Superfamily
K, L
IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
K, L
IPR024055Translation initiation factor 2, alpha subunit, C-terminalHomologous Superfamily
K, L
IPR011488Translation initiation factor 2, alpha subunitFamily
I, J
IPR044123Translation initiation factor eIF-2B subunit epsilon, W2 domainDomain
I, J
IPR016024Armadillo-type foldHomologous Superfamily
I, J
IPR056764EIF2B subunit epsilon/gamma, LbH domainDomain
I, J
IPR003307W2 domainDomain
I, J
IPR035543Translation initiation factor eIF-2B subunit epsilon, N-terminalDomain
I, J
IPR011004Trimeric LpxA-like superfamilyHomologous Superfamily
I, J
IPR005835Nucleotidyl transferase domainDomain
I, J
IPR029044Nucleotide-diphospho-sugar transferasesHomologous Superfamily
I, J
IPR051956eIF2B Complex Subunit EpsilonFamily
G, H
IPR042529Initiation factor 2B-like, C-terminalHomologous Superfamily
G, H
IPR037171NagB/RpiA transferase-likeHomologous Superfamily
G, H
IPR000649Initiation factor 2B-relatedFamily
E, F
IPR051960Eukaryotic Initiation Factor 2B Subunit GammaFamily
E, F
IPR011004Trimeric LpxA-like superfamilyHomologous Superfamily
E, F
IPR029044Nucleotide-diphospho-sugar transferasesHomologous Superfamily
E, F
IPR056729Mannose-1-phosphate guanyltransferase, C-terminal domainDomain
C, D
IPR051855Eukaryotic initiation factor 2B subunit betaFamily
C, D
IPR000649Initiation factor 2B-relatedFamily
C, D
IPR027363Methylthioribose-1-phosphate isomerase, N-terminalHomologous Superfamily
C, D
IPR042529Initiation factor 2B-like, C-terminalHomologous Superfamily
C, D
IPR037171NagB/RpiA transferase-likeHomologous Superfamily
A, B
IPR000649Initiation factor 2B-relatedFamily
A, B
IPR051501Eukaryotic initiation factor 2B subunits alpha/beta/deltaFamily
A, B
IPR042529Initiation factor 2B-like, C-terminalHomologous Superfamily
A, B
IPR037171NagB/RpiA transferase-likeHomologous Superfamily
A, B
IPR042528Translation initiation factor eIF-2B subunit alpha, N-terminalHomologous Superfamily

Protein Modification Annotation

Modified Residue(s)
ChainResidue(s)Description
K, L
SEP Parent Component: SER

RESIDAA0037

PSI-MOD :  O-phospho-L-serine MOD:00046