4AC5

Lipidic sponge phase crystal structure of the Bl. viridis reaction centre solved using serial femtosecond crystallography


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 8.2 Å
  • R-Value Free: 0.384
  • R-Value Work: 0.351

Literature

Macromolecules
Sequence Display for 4AC5

Classification: PHOTOSYNTHESIS

Total Structure Weight: 141824.00

Macromolecule Entities
Molecule Chains Length Organism Details
PHOTOSYNTHETIC REACTION CENTER CYTOCHROME C SUBUNIT C 336 Blastochloris viridis Gene Name(s): pufC cytC
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
REACTION CENTER PROTEIN H CHAIN H 258 Blastochloris viridis Gene Name(s): puhA
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
REACTION CENTER PROTEIN L CHAIN L 274 Blastochloris viridis Gene Name(s): pufL
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
REACTION CENTER PROTEIN M CHAIN M 324 Blastochloris viridis Gene Name(s): pufM
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Membrane Protein

Source: inferred by homology | Group: ALPHA-HELICAL

Subgroup Name: Photosynthetic Reaction Centers

Protein Name: Photosynthetic Reaction Center


Small Molecules
Ligands 6 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
BCB
Query on BCB

L, M BACTERIOCHLOROPHYLL B
C55 H72 Mg N4 O6
QNWPCDKNPGOYNP-LQPBATPMDK
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
BPB
Query on BPB

L, M BACTERIOPHEOPHYTIN B
C55 H74 N4 O6
SFKCKJXMIAKQMY-GTTFDWDMSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MQ7
Query on MQ7

M MENAQUINONE-7
C46 H64 O2
RAKQPZMEYJZGPI-LJWNYQGCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
HEM
Query on HEM

C PROTOPORPHYRIN IX CONTAINING FE
HEME (Synonym)
C34 H32 Fe N4 O4
KABFMIBPWCXCRK-RGGAHWMASA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NS5
Query on NS5

M 15-cis-1,2-dihydroneurosporene
C40 H60
NHKJSVKSSGKUCH-DBWJSHEJSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
FE2
Query on FE2

M FE (II) ION
Fe
CWYNVVGOOAEACU-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
FME
Query on FME
H, M L-PEPTIDE LINKING C6 H11 N O3 S MET

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 8.2 Å
  • R-Value Free: 0.384
  • R-Value Work: 0.351
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 57.50 α = 90.00
b = 84.60 β = 90.00
c = 375.80 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2011-12-14
  • Released Date: 2012-02-15
  • Deposition author(s): Johansson, L.C., Arnlund, D., White, T.A., Katona, G., DePonte, D.P., Weierstall, U., Doak, R.B., Shoeman, R.L., Lomb, L., Malmerberg, E., Davidsson, J., Nass, K., Liang, M., Andreasson, J., Aquila, A., Bajt, S., Barthelmess, M., Barty, A., Bogan, M.J., Bostedt, C., Bozek, J.D., Caleman, C., Coffee, R., Coppola, N., Ekeberg, T., Epp, S.W., Erk, B., Fleckenstein, H., Foucar, L., Graafsma, H., Gumprecht, L., Hajdu, J., Hampton, C.Y., Hartmann, R., Hartmann, A., Hauser, G., Hirsemann, H., Holl, P., Hunter, M.S., Kassemeyer, S., Kimmel, N., Kirian, R.A., Maia, F.R.N.C., Marchesini, S., Martin, A.V., Reich, C., Rolles, D., Rudek, B., Rudenko, A., Schlichting, I., Schulz, J., Seibert, M.M., Sierra, R., Soltau, H., Starodub, D., Stellato, F., Stern, S., Struder, L., Timneanu, N., Ullrich, J., Wahlgren, W.Y., Wang, X., Weidenspointner, G., Wunderer, C., Fromme, P., Chapman, H.N., Spence, J.C.H., Neutze, R.

Revision History

  • 2012-03-14
    Type: Other