6Z5S

RC-LH1(14)-W complex from Rhodopseudomonas palustris


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.65 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report



Literature

Structures of Rhodopseudomonas palustris RC-LH1 complexes with open or closed quinone channels

Swainsbury, D.J.K.Qian, P.Jackson, P.J.Faries, K.M.Niedzwiedzki, D.M.Farmer, D.A.Martin, E.C.Malone, L.A.Thompson, R.F.Ranson, N.A.Dickman, M.J.Canniffe, D.P.Holten, D.Kirmaier, C.Hitchcock, A.Hunter, C.N.

(2021) Sci Adv 


Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Light harvesting complex 1 Protein WW102Rhodopseudomonas palustris CGA009Mutation(s): 0 
Gene Names: RPA4402
Find proteins for Q6N1K3 (Rhodopseudomonas palustris (strain ATCC BAA-98 / CGA009))
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Go to UniProtKB:  Q6N1K3
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  • Reference Sequence
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Reaction center protein M chainM307Rhodopseudomonas palustris CGA009Mutation(s): 0 
Gene Names: pufMRPA1528
Find proteins for A0A4Z7 (Rhodopseudomonas palustris (strain ATCC BAA-98 / CGA009))
Explore A0A4Z7 
Go to UniProtKB:  A0A4Z7
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  • Reference Sequence
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Reaction center protein L chainL277Rhodopseudomonas palustris CGA009Mutation(s): 0 
Gene Names: pufLRPA1527
Find proteins for O83005 (Rhodopseudomonas palustris (strain ATCC BAA-98 / CGA009))
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
H subunit of photosynthetic reaction center complexH255Rhodopseudomonas palustris CGA009Mutation(s): 0 
Gene Names: puhARPA1548
Find proteins for A0A4Z9 (Rhodopseudomonas palustris (strain ATCC BAA-98 / CGA009))
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Go to UniProtKB:  A0A4Z9
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  • Reference Sequence
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
Light-harvesting complex 1 alpha chain135ACEGJNPRTVY63Rhodopseudomonas palustris CGA009Mutation(s): 0 
Gene Names: pufARPA1526
Find proteins for Q6N9L4 (Rhodopseudomonas palustris (strain ATCC BAA-98 / CGA009))
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
Light-harvesting complex 1 beta chain246BDFIKOQSUXZ65Rhodopseudomonas palustris CGA009Mutation(s): 0 
Gene Names: pufBRPA1525
Find proteins for Q6N9L5 (Rhodopseudomonas palustris (strain ATCC BAA-98 / CGA009))
Explore Q6N9L5 
Go to UniProtKB:  Q6N9L5
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  • Reference Sequence
Small Molecules
Ligands 10 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CDL
Query on CDL

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3, G, H, L, M
CARDIOLIPIN
C81 H156 O17 P2
XVTUQDWPJJBEHJ-KZCWQMDCSA-L
 Ligand Interaction
BCL
Query on BCL

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1, 2, 3, 4, 5, A, C, D, E, G, J, L, M, N, P, R, T, V, Y
BACTERIOCHLOROPHYLL A
C55 H74 Mg N4 O6
DSJXIQQMORJERS-RUUWGSCADZ
 Ligand Interaction
BPH
Query on BPH

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L, M
BACTERIOPHEOPHYTIN A
C55 H76 N4 O6
KWOZSBGNAHVCKG-SZQBJALDSA-N
 Ligand Interaction
U10
Query on U10

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1, L, M
UBIQUINONE-10
C59 H90 O4
ACTIUHUUMQJHFO-UPTCCGCDSA-N
 Ligand Interaction
6PL
Query on 6PL

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E, H, M
(4S,7R)-4-HYDROXY-N,N,N-TRIMETHYL-9-OXO-7-[(PALMITOYLOXY)METHYL]-3,5,8-TRIOXA-4-PHOSPHAHEXACOSAN-1-AMINIUM 4-OXIDE
C42 H85 N O8 P
PZNPLUBHRSSFHT-RRHRGVEJSA-O
 Ligand Interaction
PGT
Query on PGT

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P
(1S)-2-{[{[(2R)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL STEARATE
C40 H79 O10 P
KBPVYRBBONZJHF-AMAPPZPBSA-N
 Ligand Interaction
CRT
Query on CRT

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2, 3, B, D, F, I, K, O, Q, R, S, X, Z
SPIRILLOXANTHIN
C42 H60 O2
VAZQBTJCYODOSV-RISZBRKMSA-N
 Ligand Interaction
QAK
Query on QAK

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M
(6~{R},10~{S},14~{R},19~{R},23~{S},24~{E},27~{S},28~{E})-2,6,10,14,19,23,27,31-octamethyldotriaconta-24,28-dien-2-ol
C40 H78 O
NKXXNXZGYNRQNV-BTRAWPHCSA-N
 Ligand Interaction
LMT
Query on LMT

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2, 4, 6, B, D, F, I, J, K, L, M, O, Q, R, S, U, X, Z
DODECYL-BETA-D-MALTOSIDE
C24 H46 O11
NLEBIOOXCVAHBD-QKMCSOCLSA-N
 Ligand Interaction
FE
Query on FE

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M
FE (III) ION
Fe
VTLYFUHAOXGGBS-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
FME
Query on FME
1,3,5,A,C,E,G,J,N,P,R,T,V,YL-PEPTIDE LINKINGC6 H11 N O3 SMET
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.65 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Biotechnology and Biological Sciences Research Council (BBSRC)United KingdomBB/M000265/1

Revision History 

  • Version 1.0: 2021-01-13
    Type: Initial release