3LME | pdb_00003lme

Structure of probable translation initiation inhibitor from (RPA2473) from Rhodopseudomonas palustris

External Resource: Annotation


Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

ChainsDomain InfoClassFoldSuperfamilyFamilyDomainSpeciesProvenance Source (Version)
Ad3lmea1 Alpha and beta proteins (a+b) Bacillus chorismate mutase-like YjgF-like automated matches automated matches (Rhodopseudomonas palustris ) [TaxId: 1076 ], SCOPe (2.08)
Ad3lmea2 Artifacts Tags Tags Tags N-terminal Tags (Rhodopseudomonas palustris ) [TaxId: 1076 ], SCOPe (2.08)
Bd3lmeb1 Alpha and beta proteins (a+b) Bacillus chorismate mutase-like YjgF-like automated matches automated matches (Rhodopseudomonas palustris ) [TaxId: 1076 ], SCOPe (2.08)
Bd3lmeb2 Artifacts Tags Tags Tags N-terminal Tags (Rhodopseudomonas palustris ) [TaxId: 1076 ], SCOPe (2.08)
Cd3lmec1 Alpha and beta proteins (a+b) Bacillus chorismate mutase-like YjgF-like automated matches automated matches (Rhodopseudomonas palustris ) [TaxId: 1076 ], SCOPe (2.08)
Cd3lmec2 Artifacts Tags Tags Tags N-terminal Tags (Rhodopseudomonas palustris ) [TaxId: 1076 ], SCOPe (2.08)
Dd3lmed1 Alpha and beta proteins (a+b) Bacillus chorismate mutase-like YjgF-like automated matches automated matches (Rhodopseudomonas palustris ) [TaxId: 1076 ], SCOPe (2.08)
Dd3lmed2 Artifacts Tags Tags Tags N-terminal Tags (Rhodopseudomonas palustris ) [TaxId: 1076 ], SCOPe (2.08)
Ed3lmee1 Alpha and beta proteins (a+b) Bacillus chorismate mutase-like YjgF-like automated matches automated matches (Rhodopseudomonas palustris ) [TaxId: 1076 ], SCOPe (2.08)
Ed3lmee2 Artifacts Tags Tags Tags N-terminal Tags (Rhodopseudomonas palustris ) [TaxId: 1076 ], SCOPe (2.08)
Hd3lmeh1 Alpha and beta proteins (a+b) Bacillus chorismate mutase-like YjgF-like automated matches automated matches (Rhodopseudomonas palustris ) [TaxId: 1076 ], SCOPe (2.08)
Hd3lmeh2 Artifacts Tags Tags Tags N-terminal Tags (Rhodopseudomonas palustris ) [TaxId: 1076 ], SCOPe (2.08)
Id3lmei1 Alpha and beta proteins (a+b) Bacillus chorismate mutase-like YjgF-like automated matches automated matches (Rhodopseudomonas palustris ) [TaxId: 1076 ], SCOPe (2.08)
Id3lmei2 Artifacts Tags Tags Tags N-terminal Tags (Rhodopseudomonas palustris ) [TaxId: 1076 ], SCOPe (2.08)
Jd3lmej1 Alpha and beta proteins (a+b) Bacillus chorismate mutase-like YjgF-like automated matches automated matches (Rhodopseudomonas palustris ) [TaxId: 1076 ], SCOPe (2.08)
Jd3lmej2 Artifacts Tags Tags Tags N-terminal Tags (Rhodopseudomonas palustris ) [TaxId: 1076 ], SCOPe (2.08)
Kd3lmek1 Alpha and beta proteins (a+b) Bacillus chorismate mutase-like YjgF-like automated matches automated matches (Rhodopseudomonas palustris ) [TaxId: 1076 ], SCOPe (2.08)
Kd3lmek2 Artifacts Tags Tags Tags N-terminal Tags (Rhodopseudomonas palustris ) [TaxId: 1076 ], SCOPe (2.08)
Ld3lmel1 Alpha and beta proteins (a+b) Bacillus chorismate mutase-like YjgF-like automated matches automated matches (Rhodopseudomonas palustris ) [TaxId: 1076 ], SCOPe (2.08)
Ld3lmel2 Artifacts Tags Tags Tags N-terminal Tags (Rhodopseudomonas palustris ) [TaxId: 1076 ], SCOPe (2.08)
Gd3lmeg1 Alpha and beta proteins (a+b) Bacillus chorismate mutase-like YjgF-like automated matches automated matches (Rhodopseudomonas palustris ) [TaxId: 1076 ], SCOPe (2.08)
Gd3lmeg2 Artifacts Tags Tags Tags N-terminal Tags (Rhodopseudomonas palustris ) [TaxId: 1076 ], SCOPe (2.08)
Fd3lmef1 Alpha and beta proteins (a+b) Bacillus chorismate mutase-like YjgF-like automated matches automated matches (Rhodopseudomonas palustris ) [TaxId: 1076 ], SCOPe (2.08)
Fd3lmef2 Artifacts Tags Tags Tags N-terminal Tags (Rhodopseudomonas palustris ) [TaxId: 1076 ], SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
ASCOP2B SuperfamilyYjgF-like 8059853 3001733 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyYjgF-like 8059853 3001733 SCOP2B (2022-06-29)
CSCOP2 FamilyYjgF/L-PSP 8059852 4001510 SCOP2 (2022-06-29)
CSCOP2 SuperfamilyYjgF-like 8059853 3001733 SCOP2 (2022-06-29)
DSCOP2B SuperfamilyYjgF-like 8059853 3001733 SCOP2B (2022-06-29)
ESCOP2B SuperfamilyYjgF-like 8059853 3001733 SCOP2B (2022-06-29)
HSCOP2B SuperfamilyYjgF-like 8059853 3001733 SCOP2B (2022-06-29)
ISCOP2B SuperfamilyYjgF-like 8059853 3001733 SCOP2B (2022-06-29)
JSCOP2B SuperfamilyYjgF-like 8059853 3001733 SCOP2B (2022-06-29)
KSCOP2B SuperfamilyYjgF-like 8059853 3001733 SCOP2B (2022-06-29)
LSCOP2B SuperfamilyYjgF-like 8059853 3001733 SCOP2B (2022-06-29)
GSCOP2B SuperfamilyYjgF-like 8059853 3001733 SCOP2B (2022-06-29)
FSCOP2B SuperfamilyYjgF-like 8059853 3001733 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
AecTbetaR2e3lmeA1 A: a/b three-layered sandwichesX: Immunoglobulin-like beta-sandwichH: HTHT: winged helix domainF: ecTbetaR2ECOD (v294.1)
BRVPe3lmeB1 A: a/b three-layered sandwichesX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: RVPECOD (v294.1)
CRVPe3lmeC1 A: a/b three-layered sandwichesX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: RVPECOD (v294.1)
DRVPe3lmeD1 A: a/b three-layered sandwichesX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: RVPECOD (v294.1)
ERVPe3lmeE1 A: a/b three-layered sandwichesX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: RVPECOD (v294.1)
HRVPe3lmeH1 A: a/b three-layered sandwichesX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: RVPECOD (v294.1)
IRVPe3lmeI1 A: a/b three-layered sandwichesX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: RVPECOD (v294.1)
JRVPe3lmeJ1 A: a/b three-layered sandwichesX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: RVPECOD (v294.1)
KRVPe3lmeK1 A: a/b three-layered sandwichesX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: RVPECOD (v294.1)
LRVPe3lmeL1 A: a/b three-layered sandwichesX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: RVPECOD (v294.1)
GRVPe3lmeG1 A: a/b three-layered sandwichesX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: RVPECOD (v294.1)
FRVPe3lmeF1 A: a/b three-layered sandwichesX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: RVPECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

ChainDomainClassArchitectureTopologyHomologyProvenance Source (Version)
A3.30.1330.40 Alpha Beta 2-Layer Sandwich 60s Ribosomal Protein L30 Chain: ACATH (4.3.0)
B3.30.1330.40 Alpha Beta 2-Layer Sandwich 60s Ribosomal Protein L30 Chain: ACATH (4.3.0)
C3.30.1330.40 Alpha Beta 2-Layer Sandwich 60s Ribosomal Protein L30 Chain: ACATH (4.3.0)
D3.30.1330.40 Alpha Beta 2-Layer Sandwich 60s Ribosomal Protein L30 Chain: ACATH (4.3.0)
E3.30.1330.40 Alpha Beta 2-Layer Sandwich 60s Ribosomal Protein L30 Chain: ACATH (4.3.0)
H3.30.1330.40 Alpha Beta 2-Layer Sandwich 60s Ribosomal Protein L30 Chain: ACATH (4.3.0)
I3.30.1330.40 Alpha Beta 2-Layer Sandwich 60s Ribosomal Protein L30 Chain: ACATH (4.3.0)
J3.30.1330.40 Alpha Beta 2-Layer Sandwich 60s Ribosomal Protein L30 Chain: ACATH (4.3.0)
K3.30.1330.40 Alpha Beta 2-Layer Sandwich 60s Ribosomal Protein L30 Chain: ACATH (4.3.0)
L3.30.1330.40 Alpha Beta 2-Layer Sandwich 60s Ribosomal Protein L30 Chain: ACATH (4.3.0)
G3.30.1330.40 Alpha Beta 2-Layer Sandwich 60s Ribosomal Protein L30 Chain: ACATH (4.3.0)
F3.30.1330.40 Alpha Beta 2-Layer Sandwich 60s Ribosomal Protein L30 Chain: ACATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
A, B, C, D, E
PF01042Endoribonuclease L-PSP (Ribonuc_L-PSP)Endoribonuclease L-PSPEndoribonuclease active on single-stranded mRNA. Inhibits protein synthesis by cleavage of mRNA [1]. Previously thought to inhibit protein synthesis initiation [2]. This protein may also be involved in the regulation of purine biosynthesis [3]. Yjg ...Endoribonuclease active on single-stranded mRNA. Inhibits protein synthesis by cleavage of mRNA [1]. Previously thought to inhibit protein synthesis initiation [2]. This protein may also be involved in the regulation of purine biosynthesis [3]. YjgF (renamed RidA) family members are enamine/imine deaminases. They hydrolyze reactive intermediates released by PLP-dependent enzymes, including threonine dehydratase [5]. YjgF also prevents inhibition of transaminase B (IlvE) in Salmonella [4].
Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A, B, C, D, E
Possible translation initiation inhibitor -

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
A, B, C, D, E
IPR035959RutC-like superfamilyHomologous Superfamily
A, B, C, D, E
IPR006175YjgF/YER057c/UK114 familyFamily