6KKM

Crystal structure of RbcL-Raf1 complex from Anabaena sp. PCC 7120

External Resource: Annotation


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

ChainsDomain InfoClassFoldSuperfamilyFamilyDomainSpeciesProvenance Source (Version)
E [auth A]d6kkma2 Alpha and beta proteins (a/b) TIM beta/alpha-barrel RuBisCo, C-terminal domain RuBisCo, large subunit, C-terminal domain automated matches Anabaena sp. PCC 7120 (Nostoc sp. PCC 7120 = FACHB-418 ) [TaxId: 103690 ], SCOPe (2.08)
E [auth A]d6kkma1 Alpha and beta proteins (a+b) Ferredoxin-like RuBisCO, large subunit, small (N-terminal) domain automated matches automated matches Anabaena sp. PCC 7120 (Nostoc sp. PCC 7120 = FACHB-418 ) [TaxId: 103690 ], SCOPe (2.08)
F [auth B]d6kkmb2 Alpha and beta proteins (a/b) TIM beta/alpha-barrel RuBisCo, C-terminal domain RuBisCo, large subunit, C-terminal domain automated matches Anabaena sp. PCC 7120 (Nostoc sp. PCC 7120 = FACHB-418 ) [TaxId: 103690 ], SCOPe (2.08)
F [auth B]d6kkmb1 Alpha and beta proteins (a+b) Ferredoxin-like RuBisCO, large subunit, small (N-terminal) domain automated matches automated matches Anabaena sp. PCC 7120 (Nostoc sp. PCC 7120 = FACHB-418 ) [TaxId: 103690 ], SCOPe (2.08)
G [auth C]d6kkmc2 Alpha and beta proteins (a/b) TIM beta/alpha-barrel RuBisCo, C-terminal domain RuBisCo, large subunit, C-terminal domain automated matches Anabaena sp. PCC 7120 (Nostoc sp. PCC 7120 = FACHB-418 ) [TaxId: 103690 ], SCOPe (2.08)
G [auth C]d6kkmc1 Alpha and beta proteins (a+b) Ferredoxin-like RuBisCO, large subunit, small (N-terminal) domain automated matches automated matches Anabaena sp. PCC 7120 (Nostoc sp. PCC 7120 = FACHB-418 ) [TaxId: 103690 ], SCOPe (2.08)
H [auth D]d6kkmd2 Alpha and beta proteins (a/b) TIM beta/alpha-barrel RuBisCo, C-terminal domain RuBisCo, large subunit, C-terminal domain automated matches Anabaena sp. PCC 7120 (Nostoc sp. PCC 7120 = FACHB-418 ) [TaxId: 103690 ], SCOPe (2.08)
H [auth D]d6kkmd1 Alpha and beta proteins (a+b) Ferredoxin-like RuBisCO, large subunit, small (N-terminal) domain automated matches automated matches Anabaena sp. PCC 7120 (Nostoc sp. PCC 7120 = FACHB-418 ) [TaxId: 103690 ], SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
A [auth E]PF18087e6kkmE3 A: beta barrelsX: SH3H: LexA/Signal peptidase (From Topology)T: LexA/Signal peptidaseF: PF18087ECOD (1.6)
A [auth E]PF18579e6kkmE2 A: alpha arraysX: HTHH: HTHT: tri-helicalF: PF18579ECOD (1.6)
A [auth E]PF18578e6kkmE1 A: alpha arraysX: KorB C-terminal domain-likeH: Helical domain of Rubisco accumulation factor 1 (From Topology)T: Helical domain of Rubisco accumulation factor 1F: PF18578ECOD (1.6)
B [auth F]PF18087e6kkmF1 A: beta barrelsX: SH3H: LexA/Signal peptidase (From Topology)T: LexA/Signal peptidaseF: PF18087ECOD (1.6)
B [auth F]PF18579e6kkmF3 A: alpha arraysX: HTHH: HTHT: tri-helicalF: PF18579ECOD (1.6)
B [auth F]PF18578e6kkmF2 A: alpha arraysX: KorB C-terminal domain-likeH: Helical domain of Rubisco accumulation factor 1 (From Topology)T: Helical domain of Rubisco accumulation factor 1F: PF18578ECOD (1.6)
C [auth G]PF18087e6kkmG1 A: beta barrelsX: SH3H: LexA/Signal peptidase (From Topology)T: LexA/Signal peptidaseF: PF18087ECOD (1.6)
C [auth G]PF18579e6kkmG3 A: alpha arraysX: HTHH: HTHT: tri-helicalF: PF18579ECOD (1.6)
C [auth G]PF18578e6kkmG2 A: alpha arraysX: KorB C-terminal domain-likeH: Helical domain of Rubisco accumulation factor 1 (From Topology)T: Helical domain of Rubisco accumulation factor 1F: PF18578ECOD (1.6)
D [auth H]PF18087e6kkmH1 A: beta barrelsX: SH3H: LexA/Signal peptidase (From Topology)T: LexA/Signal peptidaseF: PF18087ECOD (1.6)
D [auth H]PF18579e6kkmH3 A: alpha arraysX: HTHH: HTHT: tri-helicalF: PF18579ECOD (1.6)
D [auth H]PF18578e6kkmH2 A: alpha arraysX: KorB C-terminal domain-likeH: Helical domain of Rubisco accumulation factor 1 (From Topology)T: Helical domain of Rubisco accumulation factor 1F: PF18578ECOD (1.6)
E [auth A]PF02788e6kkmA1 A: a+b two layersX: Alpha-beta plaitsH: RuBisCO, large subunit, small (N-terminal) domain (From Topology)T: RuBisCO, large subunit, small (N-terminal) domainF: PF02788ECOD (1.6)
E [auth A]PF00016e6kkmA2 A: a/b barrelsX: TIM beta/alpha-barrelH: TIM barrels (From Topology)T: TIM barrelsF: PF00016ECOD (1.6)
F [auth B]PF02788e6kkmB2 A: a+b two layersX: Alpha-beta plaitsH: RuBisCO, large subunit, small (N-terminal) domain (From Topology)T: RuBisCO, large subunit, small (N-terminal) domainF: PF02788ECOD (1.6)
F [auth B]PF00016e6kkmB1 A: a/b barrelsX: TIM beta/alpha-barrelH: TIM barrels (From Topology)T: TIM barrelsF: PF00016ECOD (1.6)
G [auth C]PF02788e6kkmC1 A: a+b two layersX: Alpha-beta plaitsH: RuBisCO, large subunit, small (N-terminal) domain (From Topology)T: RuBisCO, large subunit, small (N-terminal) domainF: PF02788ECOD (1.6)
G [auth C]PF00016e6kkmC2 A: a/b barrelsX: TIM beta/alpha-barrelH: TIM barrels (From Topology)T: TIM barrelsF: PF00016ECOD (1.6)
H [auth D]PF02788e6kkmD1 A: a+b two layersX: Alpha-beta plaitsH: RuBisCO, large subunit, small (N-terminal) domain (From Topology)T: RuBisCO, large subunit, small (N-terminal) domainF: PF02788ECOD (1.6)
H [auth D]PF00016e6kkmD2 A: a/b barrelsX: TIM beta/alpha-barrelH: TIM barrels (From Topology)T: TIM barrelsF: PF00016ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

ChainDomainClassArchitectureTopologyHomologyProvenance Source (Version)
E [auth A]3.30.70.150 Alpha Beta 2-Layer Sandwich Alpha-Beta Plaits RuBisCO large subunit, N-terminal domainCATH (utative)
E [auth A]3.20.20.110 Alpha Beta Alpha-Beta Barrel TIM Barrel Ribulose bisphosphate carboxylase, large subunit, C-terminal domainCATH (utative)
F [auth B]3.30.70.150 Alpha Beta 2-Layer Sandwich Alpha-Beta Plaits RuBisCO large subunit, N-terminal domainCATH (utative)
F [auth B]3.20.20.110 Alpha Beta Alpha-Beta Barrel TIM Barrel Ribulose bisphosphate carboxylase, large subunit, C-terminal domainCATH (utative)
G [auth C]3.30.70.150 Alpha Beta 2-Layer Sandwich Alpha-Beta Plaits RuBisCO large subunit, N-terminal domainCATH (utative)
G [auth C]3.20.20.110 Alpha Beta Alpha-Beta Barrel TIM Barrel Ribulose bisphosphate carboxylase, large subunit, C-terminal domainCATH (utative)
H [auth D]3.30.70.150 Alpha Beta 2-Layer Sandwich Alpha-Beta Plaits RuBisCO large subunit, N-terminal domainCATH (utative)
H [auth D]3.20.20.110 Alpha Beta Alpha-Beta Barrel TIM Barrel Ribulose bisphosphate carboxylase, large subunit, C-terminal domainCATH (utative)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
A [auth E],
B [auth F],
C [auth G],
D [auth H]		PF18087Rubisco Assembly chaperone C-terminal domain (RuBisCo_chap_C)Rubisco Assembly chaperone C-terminal domainThis is the C-terminal domain, also known as the beta domain, of Rubsico Assembly Chaperone protein (Raf1). Raf1 is necessary for rubisco to catalyze the rate-limiting step of carbon fixation through carboxylating the five-carbon sugar substrate rib ...This is the C-terminal domain, also known as the beta domain, of Rubsico Assembly Chaperone protein (Raf1). Raf1 is necessary for rubisco to catalyze the rate-limiting step of carbon fixation through carboxylating the five-carbon sugar substrate ribulose-1,5-bisphosphate. The beta domains primary function is dimerization, which is critical for Raf1 to achieve the necessary avidity for complex formation with RbcL (the large complex sub-unbit of Rubsico) assembly intermediates. The beta domain is also involved, to a small extent, in binding to RbcL with use of the lustiness near the beta domain's conserved top surface [1].
Domain
A [auth E],
B [auth F],
C [auth G],
D [auth H]		PF18579Rubisco accumulation factor 1 helix turn helix domain (Raf1_HTH)Rubisco accumulation factor 1 helix turn helix domainThis is helix turn helix domain found in alpha helical region of Rubisco accumulation factor1 (Raf1). Raf1 from Arabidopsis thaliana consists of an N-terminal alpha-domain, a flexible linker segment and a C-terminal beta-sheet domain that mediates di ...This is helix turn helix domain found in alpha helical region of Rubisco accumulation factor1 (Raf1). Raf1 from Arabidopsis thaliana consists of an N-terminal alpha-domain, a flexible linker segment and a C-terminal beta-sheet domain that mediates dimerization. The alpha-domains mediate the majority of functionally important contacts with RbcL (Rubisco large subunits) by bracketing each RbcL dimer at the top and bottom. The alpha-domain alone is essentially inactive [1].
Domain
A [auth E],
B [auth F],
C [auth G],
D [auth H]		PF18578Rubisco accumulation factor 1 alpha helical domain (Raf1_N)Rubisco accumulation factor 1 alpha helical domainThis is the N-terminal alpha helical domain found in Rubisco accumulation factor1 (Raf1). Raf1 from Arabidopsis thaliana consists of an N-terminal alpha-domain, a flexible linker segment and a C-terminal beta-sheet domain that mediates dimerization. ...This is the N-terminal alpha helical domain found in Rubisco accumulation factor1 (Raf1). Raf1 from Arabidopsis thaliana consists of an N-terminal alpha-domain, a flexible linker segment and a C-terminal beta-sheet domain that mediates dimerization. The alpha-domains mediate the majority of functionally important contacts with RbcL (Rubisco large subunits) by bracketing each RbcL dimer at the top and bottom. The alpha-domain alone is essentially inactive [1].
Domain
E [auth A],
F [auth B],
G [auth C],
H [auth D]		PF02788Ribulose bisphosphate carboxylase large chain, N-terminal domain (RuBisCO_large_N)Ribulose bisphosphate carboxylase large chain, N-terminal domainThe N-terminal domain of RuBisCO large chain adopts a ferredoxin-like fold.Domain
E [auth A],
F [auth B],
G [auth C],
H [auth D]		PF00016Ribulose bisphosphate carboxylase large chain, catalytic domain (RuBisCO_large)Ribulose bisphosphate carboxylase large chain, catalytic domainThe C-terminal domain of RuBisCO large chain is the catalytic domain adopting a TIM barrel fold.Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A [auth E],
B [auth F],
C [auth G],
D [auth H]		All5250 protein-
E [auth A],
F [auth B],
G [auth C],
H [auth D]		Ribulose bisphosphate carboxylase large chain

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
A [auth E],
B [auth F],
C [auth G],
D [auth H]		IPR037494Rubisco accumulation factor 1Family
A [auth E],
B [auth F],
C [auth G],
D [auth H]		IPR040858Rubisco accumulation factor 1, C-terminalDomain
A [auth E],
B [auth F],
C [auth G],
D [auth H]		IPR041358Rubisco accumulation factor 1, alpha helical domainDomain
A [auth E],
B [auth F],
C [auth G],
D [auth H]		IPR046382Rubisco accumulation factor 1, cyanobacterialFamily
A [auth E],
B [auth F],
C [auth G],
D [auth H]		IPR040781Rubisco accumulation factor 1, helix turn helix domainDomain
E [auth A],
F [auth B],
G [auth C],
H [auth D]		IPR020888Ribulose bisphosphate carboxylase large subunit, type IFamily
E [auth A],
F [auth B],
G [auth C],
H [auth D]		IPR036376Ribulose bisphosphate carboxylase, large subunit, C-terminal domain superfamilyHomologous Superfamily
E [auth A],
F [auth B],
G [auth C],
H [auth D]		IPR020878Ribulose bisphosphate carboxylase, large chain, active siteActive Site
E [auth A],
F [auth B],
G [auth C],
H [auth D]		IPR000685Ribulose bisphosphate carboxylase, large subunit, C-terminalDomain
E [auth A],
F [auth B],
G [auth C],
H [auth D]		IPR033966RuBisCOFamily
E [auth A],
F [auth B],
G [auth C],
H [auth D]		IPR017443Ribulose bisphosphate carboxylase, large subunit, ferrodoxin-like N-terminalDomain
E [auth A],
F [auth B],
G [auth C],
H [auth D]		IPR036422RuBisCO large subunit, N-terminal domain superfamilyHomologous Superfamily