7PIL | pdb_00007pil

Cryo-EM structure of the Rhodobacter sphaeroides RC-LH1-PufXY monomer complex at 2.5 A


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
EA [auth M]SCOP2B SuperfamilyBacterial photosystem II reaction centre, L and M subunits 8099400 3000736 SCOP2B (2022-06-29)
DA [auth L]SCOP2B SuperfamilyBacterial photosystem II reaction centre, L and M subunits 8099398 3000736 SCOP2B (2022-06-29)
CA [auth H]SCOP2B SuperfamilyPhotosystem II reaction centre subunit H, transmembrane region 8100956 3000750 SCOP2B (2022-06-29)
CA [auth H]SCOP2B SuperfamilyPRC-barrel domain 8099396 3000637 SCOP2B (2022-06-29)
Z [auth BL]SCOP2B SuperfamilyLight-harvesting complex subunits 8076353 3000199 SCOP2B (2022-06-29)
Y [auth BK]SCOP2B SuperfamilyLight-harvesting complex subunits 8076353 3000199 SCOP2B (2022-06-29)
X [auth BJ]SCOP2B SuperfamilyLight-harvesting complex subunits 8076353 3000199 SCOP2B (2022-06-29)
W [auth BI]SCOP2B SuperfamilyLight-harvesting complex subunits 8076353 3000199 SCOP2B (2022-06-29)
V [auth BH]SCOP2B SuperfamilyLight-harvesting complex subunits 8076353 3000199 SCOP2B (2022-06-29)
U [auth BG]SCOP2B SuperfamilyLight-harvesting complex subunits 8076353 3000199 SCOP2B (2022-06-29)
T [auth BF]SCOP2B SuperfamilyLight-harvesting complex subunits 8076353 3000199 SCOP2B (2022-06-29)
S [auth BE]SCOP2B SuperfamilyLight-harvesting complex subunits 8076353 3000199 SCOP2B (2022-06-29)
R [auth BD]SCOP2B SuperfamilyLight-harvesting complex subunits 8076353 3000199 SCOP2B (2022-06-29)
Q [auth BC]SCOP2B SuperfamilyLight-harvesting complex subunits 8076353 3000199 SCOP2B (2022-06-29)
P [auth BB]SCOP2B SuperfamilyLight-harvesting complex subunits 8076353 3000199 SCOP2B (2022-06-29)
O [auth BA]SCOP2B SuperfamilyLight-harvesting complex subunits 8076353 3000199 SCOP2B (2022-06-29)
AA [auth BM]SCOP2B SuperfamilyLight-harvesting complex subunits 8076353 3000199 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
GA [auth X]Cation_ATPasee7pilX1 A: alpha bundlesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Cation_ATPaseECOD (develop294)
EA [auth M]Arm, ARM_PUBe7pilM1 A: alpha bundlesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Arm, ARM_PUBECOD (develop294)
DA [auth L]Arm, ARM_PUBe7pilL1 A: alpha bundlesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Arm, ARM_PUBECOD (develop294)
CA [auth H]Arm, ARM_PUBe7pilH1 A: alpha bundlesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Arm, ARM_PUBECOD (develop294)
Z [auth BL]Arm, ARM_PUBe7pilBL1 A: alpha bundlesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Arm, ARM_PUBECOD (develop294)
Y [auth BK]Arm, ARM_PUBe7pilBK1 A: alpha bundlesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Arm, ARM_PUBECOD (develop294)
X [auth BJ]Arm, ARM_PUBe7pilBJ1 A: alpha bundlesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Arm, ARM_PUBECOD (develop294)
W [auth BI]Arm, ARM_PUBe7pilBI1 A: alpha bundlesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Arm, ARM_PUBECOD (develop294)
V [auth BH]Arm, ARM_PUBe7pilBH1 A: alpha bundlesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Arm, ARM_PUBECOD (develop294)
U [auth BG]Arm, ARM_PUBe7pilBG1 A: alpha bundlesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Arm, ARM_PUBECOD (develop294)
T [auth BF]Arm, ARM_PUBe7pilBF1 A: alpha bundlesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Arm, ARM_PUBECOD (develop294)
S [auth BE]Arm, ARM_PUBe7pilBE1 A: alpha bundlesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Arm, ARM_PUBECOD (develop294)
R [auth BD]Arm, ARM_PUBe7pilBD1 A: alpha bundlesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Arm, ARM_PUBECOD (develop294)
Q [auth BC]Arm, ARM_PUBe7pilBC1 A: alpha bundlesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Arm, ARM_PUBECOD (develop294)
P [auth BB]Arm, ARM_PUBe7pilBB1 A: alpha bundlesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Arm, ARM_PUBECOD (develop294)
O [auth BA]Arm, ARM_PUBe7pilBA1 A: alpha bundlesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Arm, ARM_PUBECOD (develop294)
BA [auth BN]Arm, ARM_PUBe7pilBN1 A: alpha bundlesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Arm, ARM_PUBECOD (develop294)
AA [auth BM]Arm, ARM_PUBe7pilBM1 A: alpha bundlesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Arm, ARM_PUBECOD (develop294)
N [auth AN]Arm, ARM_PUBe7pilAN1 A: alpha bundlesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Arm, ARM_PUBECOD (develop294)
M [auth AM]Arm, ARM_PUBe7pilAM1 A: alpha bundlesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Arm, ARM_PUBECOD (develop294)
L [auth AL]Arm, ARM_PUBe7pilAL1 A: alpha bundlesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Arm, ARM_PUBECOD (develop294)
K [auth AK]Arm, ARM_PUBe7pilAK1 A: alpha bundlesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Arm, ARM_PUBECOD (develop294)
J [auth AJ]Arm, ARM_PUBe7pilAJ1 A: alpha bundlesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Arm, ARM_PUBECOD (develop294)
I [auth AI]Arm, ARM_PUBe7pilAI1 A: alpha bundlesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Arm, ARM_PUBECOD (develop294)
H [auth AH]Arm, ARM_PUBe7pilAH1 A: alpha bundlesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Arm, ARM_PUBECOD (develop294)
G [auth AG]Arm, ARM_PUBe7pilAG1 A: alpha bundlesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Arm, ARM_PUBECOD (develop294)
F [auth AF]Arm, ARM_PUBe7pilAF1 A: alpha bundlesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Arm, ARM_PUBECOD (develop294)
E [auth AE]Arm, ARM_PUBe7pilAE1 A: alpha bundlesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Arm, ARM_PUBECOD (develop294)
D [auth AD]Arm, ARM_PUBe7pilAD1 A: alpha bundlesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Arm, ARM_PUBECOD (develop294)
C [auth AC]Arm, ARM_PUBe7pilAC1 A: alpha bundlesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Arm, ARM_PUBECOD (develop294)
B [auth AB]Arm, ARM_PUBe7pilAB1 A: alpha bundlesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Arm, ARM_PUBECOD (develop294)
A [auth AA]Arm, ARM_PUBe7pilAA1 A: alpha bundlesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Arm, ARM_PUBECOD (develop294)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
GA [auth X]PF11511Intrinsic membrane protein PufX (RhodobacterPufX)Intrinsic membrane protein PufX- Family
EA [auth M]PF00124Photosynthetic reaction centre protein (Photo_RC)Photosynthetic reaction centre protein- Family
DA [auth L]PF00124Photosynthetic reaction centre protein (Photo_RC)Photosynthetic reaction centre protein- Family
CA [auth H]PF03967Photosynthetic reaction centre, H-chain N-terminal region (PRCH)Photosynthetic reaction centre, H-chain N-terminal region- Family
CA [auth H]PF05239PRC-barrel domain (PRC)PRC-barrel domainThe PRC-barrel is an all beta barrel domain found in photosystem reaction centre subunit H of the purple bacteria and RNA metabolism proteins of the RimM group. PRC-barrels are approximately 80 residues long, and found widely represented in bacteria, ...The PRC-barrel is an all beta barrel domain found in photosystem reaction centre subunit H of the purple bacteria and RNA metabolism proteins of the RimM group. PRC-barrels are approximately 80 residues long, and found widely represented in bacteria, archaea and plants. This domain is also present at the carboxyl terminus of the pan-bacterial protein RimM, which is involved in ribosomal maturation and processing of 16S rRNA. A family of small proteins conserved in all known euryarchaea are composed entirely of a single stand-alone copy of the domain [1].
Domain
PF00556Antenna complex alpha/beta subunit (LHC)Antenna complex alpha/beta subunitDomain
PF00556Antenna complex alpha/beta subunit (LHC)Antenna complex alpha/beta subunitDomain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
GA [auth X]Intrinsic membrane protein PufX-
FA [auth UU]RC-Y- - -
EA [auth M]Reaction center protein M chain
DA [auth L]Reaction center protein L chain
CA [auth H]Reaction center protein H chain
Light-harvesting protein B-875 beta chain
Light-harvesting protein B-875 alpha chain

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
GA [auth X]IPR020169Intrinsic membrane protein family, PufXFamily
EA [auth M]IPR036854Photosystem II protein D1/D2 superfamilyHomologous Superfamily
EA [auth M]IPR005781Photosynthetic reaction centre, M subunitFamily
EA [auth M]IPR000484Photosynthetic reaction centre, L/MFamily
EA [auth M]IPR055265Photosynthetic reaction centre, L/M, conserved siteConserved Site
DA [auth L]IPR036854Photosystem II protein D1/D2 superfamilyHomologous Superfamily
DA [auth L]IPR000484Photosynthetic reaction centre, L/MFamily
DA [auth L]IPR055265Photosynthetic reaction centre, L/M, conserved siteConserved Site
DA [auth L]IPR005871Photosynthetic reaction centre, L subunitFamily
CA [auth H]IPR014747Bacterial photosynthetic reaction centre, H-chain, C-terminalHomologous Superfamily
CA [auth H]IPR015810Photosynthetic reaction centre, H subunit, N-terminalDomain
CA [auth H]IPR005652Photosynthetic reaction centre, H subunitFamily
CA [auth H]IPR037097Photosynthetic reaction centre, H subunit, N-terminal domain superfamilyHomologous Superfamily
CA [auth H]IPR011033PRC-barrel-like superfamilyHomologous Superfamily
CA [auth H]IPR027275PRC-barrel domainDomain
IPR000066Antenna complex, alpha/beta subunitDomain
IPR023624Antenna complex, beta domain superfamilyHomologous Superfamily
IPR035889Light-harvesting complexHomologous Superfamily
IPR023623Antenna complex, beta subunit, conserved siteConserved Site
IPR002362Light-harvesting protein B beta chainFamily
IPR000066Antenna complex, alpha/beta subunitDomain
IPR018332Antenna complex, alpha subunitFamily
IPR002361Antenna complex, alpha subunit conserved siteConserved Site
IPR035889Light-harvesting complexHomologous Superfamily