1PYH

Crystal structure of RC-LH1 core complex from Rhodopseudomonas palustris

Structural Biology Knowledgebase: 1PYH SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 4.8 Å
  • R-Value Free: 0.491
  • R-Value Work: 0.467

Literature

Macromolecules
Sequence Display for 1PYH

Classification: PHOTOSYNTHESIS

Total Structure Weight: 177266.63

Macromolecule Entities
Molecule Chains Length Organism Details
Reaction center protein L chain A 281 Rhodopseudomonas palustris
Reaction center protein M chain B 302 Rhodopseudomonas palustris
Reaction center protein H chain C 241 Rhodopseudomonas palustris
Light-harvesting protein B-800/850, alpha chain 1, 3, 5..., 7, D, F, H, J, L, N, P, R, T, V, X, Z1, 3, 5, 7, D, F, H, J, L, N, P, R, T, V, X, Z 26 Rhodopseudomonas palustris
Light-harvesting protein B-800/850, beta chain 2, 4, 6..., 8, E, G, I, K, M, O, Q, S, U, W, Y2, 4, 6, 8, E, G, I, K, M, O, Q, S, U, W, Y 30 Rhodopseudomonas palustris

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
BCL
Query on BCL

1, 2, 3, 5, 6, 7, 8, A, B, D, E, F, G, H, I, J, K, L, M, N, P, R, S, T, U, V, W, Y BACTERIOCHLOROPHYLL A
C55 H74 Mg N4 O6
DSJXIQQMORJERS-RUUWGSCADZ
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
BPH
Query on BPH

A, B BACTERIOPHEOPHYTIN A
C55 H76 N4 O6
KWOZSBGNAHVCKG-SZQBJALDSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
FE
Query on FE

B FE (III) ION
Fe
VTLYFUHAOXGGBS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
UNK
Query on UNK
1, 2, 3, 4, 5, 6, 7, 8, A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X, Y, Z L-PEPTIDE LINKING C4 H9 N O2 --

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 4.8 Å
  • R-Value Free: 0.491
  • R-Value Work: 0.467
  • Space Group: P 1

Unit Cell:

Length (Å) Angle (°)
a = 76.04 α = 69.32
b = 119.02 β = 72.69
c = 130.43 γ = 66.52

Structure Validation

View Full Validation Report



Entry History

Deposition Data

  • Deposited Date: 2003-07-08
  • Released Date: 2004-03-02
  • Deposition author(s): Roszak, A.W., Howard, T.D., Southall, J., Gardiner, A.T., Law, C.J., Isaacs, N.W., Cogdell, R.J.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4