2AXT Electron Transport date Sep 06, 2005
title Crystal Structure Of Photosystem II From Thermosynechococcus
authors B.Loll, J.Kern, W.Saenger, A.Zouni, J.Biesiadka
compound source
Molecule: Photosystem Q(B) Protein
Chain: A, a
Fragment: Residues 1-344
Synonym: Reaction Centre Subunit D1, 32 Kda Thylakoid Membr Protein, Photosystem II Protein D1;
Organism_scientific: Thermosynechococcus Elongatus
Organism_taxid: 146786

Molecule: Cp47 Protein
Chain: B, b
Synonym: Antenna Subunit Cp47

Organism_scientific: Thermosynechococcus Elongatus
Organism_taxid: 197221
Strain: Bp-1

Molecule: Photosystem II Cp43 Protein
Chain: C, c
Synonym: Antenna Subunit Cp43

Organism_scientific: Thermosynechococcus Elongatus
Organism_taxid: 197221
Strain: Bp-1

Molecule: Photosystem II Reaction Center D2 Protein
Chain: D, d
Synonym: Reaction Centre Subunit D2

Organism_scientific: Thermosynechococcus Elongatus
Organism_taxid: 197221
Strain: Bp-1

Molecule: Cytochrome B559 Alpha Subunit
Chain: E, e
Synonym: Cyt B-559 Subunit Alpha, Psii Reaction Center Subu

Organism_scientific: Thermosynechococcus Elongatus
Organism_taxid: 146786

Molecule: Cytochrome B559 Beta Subunit
Chain: F, f
Synonym: Cyt B-559 Subunit Beta, Psii Reaction Center Subun

Organism_scientific: Thermosynechococcus Elongatus
Organism_taxid: 146786

Molecule: Photosystem II Reaction Center H Protein
Chain: H, h
Synonym: Subunit Psbh, Psii-H

Organism_scientific: Thermosynechococcus Elongatus
Organism_taxid: 146786

Molecule: Photosystem II Reaction Center I Protein
Chain: I, I
Synonym: Subunit Psbi, Psii 4.4 Kda Protein

Organism_scientific: Thermosynechococcus Elongatus
Organism_taxid: 146786

Molecule: Photosystem II Reaction Center J Protein
Chain: J, j
Synonym: Subunit Psbj

Organism_scientific: Thermosynechococcus Elongatus
Organism_taxid: 146786

Molecule: Photosystem II Reaction Center Protein K
Chain: K, k
Synonym: Subunit Psbk, Psii-K

Organism_scientific: Thermosynechococcus Elongatus
Organism_taxid: 146786

Molecule: Photosystem II Reaction Center L Protein
Chain: L, l
Synonym: Subunit Psbl, Psii-L, Psii 5 Kda Protein

Organism_scientific: Thermosynechococcus Elongatus
Organism_taxid: 146786

Molecule: Photosystem II Reaction Center M Protein
Chain: M, m
Synonym: Subunit Psbm, Psii-M

Organism_scientific: Thermosynechococcus Elongatus
Organism_taxid: 146786

Molecule: Photosystem II Manganese-Stabilizing Polypeptide
Chain: O, o
Synonym: Subunit Psbo, Msp

Organism_scientific: Thermosynechococcus Elongatus
Organism_taxid: 146786

Molecule: Photosystem II Reaction Center T Protein
Chain: T, t
Synonym: Subunit Psbt, Psii-T, Psii-Tc

Organism_scientific: Thermosynechococcus Elongatus
Organism_taxid: 146786

Molecule: Photosystem II 12 Kda Extrinsic Protein
Chain: U, u
Synonym: Subunit Psbu, Ps II Complex 12 Kda Extrinsic Prote U;

Organism_scientific: Thermosynechococcus Elongatus
Organism_taxid: 146786

Molecule: Cytochrome C-550
Chain: V, v
Synonym: Cyt C-550, Subunit Psbv, Cytochrome C550, Low Pote Cytochrome C;

Organism_scientific: Thermosynechococcus Elongatus
Organism_taxid: 146786

Molecule: Unassigned Subunits
Chain: X, x

Organism_scientific: Thermosynechococcus Elongatus
Organism_taxid: 146786

Molecule: Photosystem II Reaction Center Z Protein
Chain: Z, z
Synonym: Subunit Psbz

Organism_scientific: Thermosynechococcus Elongatus
Organism_taxid: 146786
symmetry Space Group: P 21 21 21
R_factor 0.234 R_Free 0.286
crystal
cell
length a length b length c angle alpha angle beta angle gamma
127.692 225.403 306.106 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.00 Å
ligand BCR, BCT, CA, CLA, DGD, FE2, HEM, LHG, LMT, MGE, OEC, PHO, PQ9, SQD enzyme
Gene
Ontology
ChainFunctionProcessComponent
B, b


E, e


F, f


H, h


I, i


K, k


L, l


M, m


O, o


T, t


Z, z


a, A


c, C


d, D


j, J


u, U


v, V


Primary referenceTowards complete cofactor arrangement in the 3.0 A resolution structure of photosystem II., Loll B, Kern J, Saenger W, Zouni A, Biesiadka J, Nature. 2005 Dec 15;438(7070):1040-4. PMID:16355230
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1035 Kb) [Save to disk]
  • Biological Unit Coordinates (2axt.pdb1.gz) 970 Kb
  • LPC: Ligand-Protein Contacts for 2AXT
  • CSU: Contacts of Structural Units for 2AXT
  • Likely Quarternary Molecular Structure file(s) for 2AXT
  • Structure Factors (1348 Kb)
  • Retrieve 2AXT in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2AXT from S2C, [Save to disk]
  • Re-refined 2axt structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2AXT in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 2AXT
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 2AXT, from MSDmotif at EBI
  • Fold representative 2axt from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2axt_K] [2axt_l] [2axt_i] [2axt_u] [2axt_H] [2axt_Z] [2axt_M] [2axt_L] [2axt_h] [2axt_E] [2axt_f] [2axt_F] [2axt_t] [2axt_c] [2axt_V] [2axt_x] [2axt_a] [2axt_j] [2axt_J] [2axt_z] [2axt_A] [2axt_B] [2axt_e] [2axt_m] [2axt_X] [2axt_I] [2axt_O] [2axt_k] [2axt_C] [2axt_b] [2axt_o] [2axt_T] [2axt_v] [2axt_U] [2axt_D] [2axt] [2axt_d]
  • SWISS-PROT database: [P0A386] [P0A444] [Q8CM25] [Q8DIP0] [Q8DIN9] [Q8DJ43] [Q8DJZ6] [P59087] [Q9F1K9] [Q8DIN8] [Q8DHA7] [P0A431] [Q8DIQ0] [Q9F1L5] [Q8DHJ2] [Q8DIF8] [Q9F1M3]
  • Domain organization of [CY550_THEEB] [PSBA1_THEEB] [PSBD_THEEB] [PSBE_THEEB] [PSBF_THEEB] [PSBH_THEEB] [PSBI_THEEB] [PSBJ_THEEB] [PSBK_THEEB] [PSBL_THEEB] [PSBM_THEEB] [PSBO_THEEB] [PSBT_THEEB] [PSBU_THEEB] [PSBZ_THEEB] [Q8DIF8_THEEB] [Q9F1M3_9CHRO] by SWISSPFAM
  • Other resources with information on 2AXT
  • Community annotation for 2AXT at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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