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PDBsum entry 3pcq

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protein ligands metals Protein-protein interface(s) links
Photosynthesis PDB id
3pcq
Jmol
Contents
Protein chains
740 a.a. *
739 a.a. *
80 a.a. *
138 a.a. *
69 a.a. *
141 a.a. *
38 a.a. *
41 a.a. *
46 a.a. *
151 a.a. *
31 a.a. *
29 a.a. *
Ligands
CLA ×96
PQN ×2
SF4 ×3
BCR ×22
LHG ×3
LMG
Metals
_CA
Waters ×200
* Residue conservation analysis
PDB id:
3pcq
Name: Photosynthesis
Title: Femtosecond x-ray protein nanocrystallography
Structure: Photosystem i p700 chlorophyll a apoprotein a1. Chain: a. Synonym: psaa. Photosystem i p700 chlorophyll a apoprotein a2. Chain: b. Synonym: psab. Photosystem i iron-sulfur center. Chain: c. Synonym: 9 kda polypeptide, psi-c, photosystem i subunit vi
Source: Thermosynechococcus elongatus. Organism_taxid: 197221. Strain: bp-1. Strain: bp-1
Resolution:
8.98Å     R-factor:   0.251     R-free:   0.232
Authors: H.N.Chapman,P.Fromme,A.Barty,T.A.White,R.A.Kirian,A.Aquila, M.S.Hunter,J.Schulz,D.P.Deponte,U.Weierstall,R.B.Doak,F.R.N A.V.Martin,I.Schlichting,L.Lomb,N.Coppola,R.L.Shoeman,S.W.E R.Hartmann,D.Rolles,A.Rudenko,L.Foucar,N.Kimmel,G.Weidenspo P.Holl,M.Liang,M.Barthelmess,C.Caleman,S.Boutet,M.J.Bogan, J.Krzywinski,C.Bostedt,S.Bajt,L.Gumprecht,B.Rudek,B.Erk,C.S A.Homke,C.Reich,D.Pietschner,L.Struder,G.Hauser,H.Gorke,J.U S.Herrmann,G.Schaller,F.Schopper,H.Soltau,K.-U.Kuhnel, M.Messerschmidt,J.D.Bozek,S.P.Hau-Riege,M.Frank,C.Y.Hampton
Key ref: H.N.Chapman et al. (2011). Femtosecond X-ray protein nanocrystallography. Nature, 470, 73-77. PubMed id: 21293373
Date:
21-Oct-10     Release date:   02-Feb-11    
PROCHECK
Go to PROCHECK summary
 Headers
 References

Protein chain
Pfam   ArchSchema ?
P0A405  (PSAA_THEEB) -  Photosystem I P700 chlorophyll a apoprotein A1
Seq:
Struc:
 
Seq:
Struc:
755 a.a.
740 a.a.
Protein chain
Pfam   ArchSchema ?
P0A407  (PSAB_THEEB) -  Photosystem I P700 chlorophyll a apoprotein A2
Seq:
Struc:
 
Seq:
Struc:
741 a.a.
739 a.a.
Protein chain
Pfam   ArchSchema ?
P0A415  (PSAC_THEEB) -  Photosystem I iron-sulfur center
Seq:
Struc:
81 a.a.
80 a.a.
Protein chain
Pfam   ArchSchema ?
P0A420  (PSAD_THEEB) -  Photosystem I reaction center subunit II
Seq:
Struc:
139 a.a.
138 a.a.
Protein chain
Pfam   ArchSchema ?
P0A423  (PSAE_THEEB) -  Photosystem I reaction center subunit IV
Seq:
Struc:
76 a.a.
69 a.a.
Protein chain
Pfam   ArchSchema ?
P0A401  (PSAF_THEEB) -  Photosystem I reaction center subunit III
Seq:
Struc:
164 a.a.
141 a.a.
Protein chain
Pfam   ArchSchema ?
P0A427  (PSAI_THEEB) -  Photosystem I reaction center subunit VIII
Seq:
Struc:
38 a.a.
38 a.a.
Protein chain
Pfam   ArchSchema ?
P0A429  (PSAJ_THEEB) -  Photosystem I reaction center subunit IX
Seq:
Struc:
41 a.a.
41 a.a.
Protein chain
Pfam   ArchSchema ?
P0A425  (PSAK_THEEB) -  Photosystem I reaction center subunit PsaK
Seq:
Struc:
83 a.a.
46 a.a.
Protein chain
Pfam   ArchSchema ?
Q8DGB4  (PSAL_THEEB) -  Photosystem I reaction center subunit XI
Seq:
Struc:
155 a.a.
151 a.a.*
Protein chain
Pfam   ArchSchema ?
P0A403  (PSAM_THEEB) -  Photosystem I reaction center subunit XII
Seq:
Struc:
31 a.a.
31 a.a.
Protein chain
Pfam   ArchSchema ?
Q8DKP6  (Q8DKP6_THEEB) -  Photosystem I 4.8K protein
Seq:
Struc:
39 a.a.
29 a.a.
Key:    PfamA domain  Secondary structure
* PDB and UniProt seqs differ at 1 residue position (black cross)

 Enzyme reactions 
   Enzyme class: Chains A, B, C: E.C.1.97.1.12  - Photosystem I.
[IntEnz]   [ExPASy]   [KEGG]   [BRENDA]
      Reaction: Reduced plastocyanin + oxidized ferredoxin + light = oxidized plastocyanin + reduced ferredoxin
 Gene Ontology (GO) functional annotation 
  GO annot!
  Cellular component     membrane   6 terms 
  Biological process     oxidation-reduction process   4 terms 
  Biochemical function     electron carrier activity     7 terms  

 

 
Nature 470:73-77 (2011)
PubMed id: 21293373  
 
 
Femtosecond X-ray protein nanocrystallography.
H.N.Chapman, P.Fromme, A.Barty, T.A.White, R.A.Kirian, A.Aquila, M.S.Hunter, J.Schulz, D.P.DePonte, U.Weierstall, R.B.Doak, F.R.Maia, A.V.Martin, I.Schlichting, L.Lomb, N.Coppola, R.L.Shoeman, S.W.Epp, R.Hartmann, D.Rolles, A.Rudenko, L.Foucar, N.Kimmel, G.Weidenspointner, P.Holl, M.Liang, M.Barthelmess, C.Caleman, S.Boutet, M.J.Bogan, J.Krzywinski, C.Bostedt, S.Bajt, L.Gumprecht, B.Rudek, B.Erk, C.Schmidt, A.Hömke, C.Reich, D.Pietschner, L.Strüder, G.Hauser, H.Gorke, J.Ullrich, S.Herrmann, G.Schaller, F.Schopper, H.Soltau, K.U.Kühnel, M.Messerschmidt, J.D.Bozek, S.P.Hau-Riege, M.Frank, C.Y.Hampton, R.G.Sierra, D.Starodub, G.J.Williams, J.Hajdu, N.Timneanu, M.M.Seibert, J.Andreasson, A.Rocker, O.Jönsson, M.Svenda, S.Stern, K.Nass, R.Andritschke, C.D.Schröter, F.Krasniqi, M.Bott, K.E.Schmidt, X.Wang, I.Grotjohann, J.M.Holton, T.R.Barends, R.Neutze, S.Marchesini, R.Fromme, S.Schorb, D.Rupp, M.Adolph, T.Gorkhover, I.Andersson, H.Hirsemann, G.Potdevin, H.Graafsma, B.Nilsson, J.C.Spence.
 
  ABSTRACT  
 
No abstract given.

 

Literature references that cite this PDB file's key reference

  PubMed id Reference
23254650 E.F.Garman, and M.Weik (2013).
Radiation damage to biological macromolecules: some answers and more questions.
  J Synchrotron Radiat, 20, 1-6.  
23412475 I.Schlichting (2013).
Free-electron lasers and JSR.
  J Synchrotron Radiat, 20, 209-210.  
23250057 J.C.Spence (2013).
Lawrence Bragg, microdiffraction and X-ray lasers.
  Acta Crystallogr A, 69, 25-33.  
22398558 C.I.Blaga, J.Xu, A.D.DiChiara, E.Sistrunk, K.Zhang, P.Agostini, T.A.Miller, L.F.DiMauro, and C.D.Lin (2012).
Imaging ultrafast molecular dynamics with laser-induced electron diffraction.
  Nature, 483, 194-197.  
22338689 M.Schmidt, V.Šrajer, N.Purwar, and S.Tripathi (2012).
The kinetic dose limit in room-temperature time-resolved macromolecular crystallography.
  J Synchrotron Radiat, 19, 264-273.  
21574275 A.Doerr (2011).
Diffraction before destruction.
  Nat Methods, 8, 283.  
21525638 E.F.Garman, and M.Weik (2011).
Macromolecular crystallography radiation damage research: what's new?
  J Synchrotron Radiat, 18, 313-317.  
21685675 O.Ponomarenko, A.Y.Nikulin, H.O.Moser, P.Yang, and O.Sakata (2011).
Radiation-induced melting in coherent X-ray diffractive imaging at the nanoscale.
  J Synchrotron Radiat, 18, 580-594.  
21325716 R.A.Kirian, T.A.White, J.M.Holton, H.N.Chapman, P.Fromme, A.Barty, L.Lomb, A.Aquila, F.R.Maia, A.V.Martin, R.Fromme, X.Wang, M.S.Hunter, K.E.Schmidt, and J.C.Spence (2011).
Structure-factor analysis of femtosecond microdiffraction patterns from protein nanocrystals.
  Acta Crystallogr A, 67, 131-140.  
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