3LW5 Photosynthesis date Feb 23, 2010
title Improved Model Of Plant Photosystem I
authors N.Nelson, H.Toporik
compound source
Molecule: Photosystem I P700 Chlorophyll A Apoprotein A1
Chain: A
Fragment: Residues 21-758
Synonym: Psaa, Psi-A
Organism_scientific: Pisum Sativum
Organism_common: Pea
Organism_taxid: 3888

Molecule: Photosystem I P700 Chlorophyll A Apoprotein A2
Chain: B
Synonym: Psab, Psi-B

Organism_scientific: Pisum Sativum
Organism_common: Pea
Organism_taxid: 3888

Molecule: Photosystem I Iron-Sulfur Center
Chain: C
Synonym: Photosystem I Subunit Vii, 9 Kda Polypeptide, Psi-

Organism_scientific: Pisum Sativum
Organism_common: Pea
Organism_taxid: 3888

Molecule: Putative Uncharacterized Protein
Chain: D
Synonym: Photosystem I Subunit Psad

Organism_scientific: Pisum Sativum
Organism_common: Pea
Organism_taxid: 3888

Molecule: Putative Uncharacterized Protein
Chain: E

Organism_scientific: Pisum Sativum
Organism_common: Pea
Organism_taxid: 3888

Molecule: Photosystem I Reaction Center Subunit III, Chloro
Chain: F
Synonym: Light-Harvesting Complex I 17 Kda Protein, Psi-F

Organism_scientific: Pisum Sativum
Organism_common: Pea
Organism_taxid: 3888

Molecule: Putative Uncharacterized Protein
Chain: G

Organism_scientific: Pisum Sativum
Organism_common: Pea
Organism_taxid: 3888

Molecule: Putative Uncharacterized Protein
Chain: H

Organism_scientific: Pisum Sativum
Organism_common: Pea
Organism_taxid: 3888

Molecule: Photosystem I Reaction Center Subunit Viii
Chain: I
Fragment: Residues 1-30
Synonym: Psi-I

Organism_scientific: Pisum Sativum
Organism_common: Pea
Organism_taxid: 3888

Molecule: Photosystem I Reaction Center Subunit Ix
Chain: J
Synonym: Psi-J

Organism_scientific: Pisum Sativum
Organism_common: Pea
Organism_taxid: 3888

Molecule: Photosystem I Reaction Center Subunit X Psak
Chain: K

Organism_scientific: Pisum Sativum
Organism_common: Pea
Organism_taxid: 3888

Molecule: Putative Uncharacterized Protein
Chain: L

Organism_scientific: Pisum Sativum
Organism_common: Pea
Organism_taxid: 3888

Molecule: Photosystem I-N Subunit
Chain: N

Organism_scientific: Pisum Sativum
Organism_common: Pea
Organism_taxid: 3888

Molecule: Chain R
Chain: R

Organism_scientific: Unidentified
Organism_taxid: 32644

Molecule: At3g54890
Chain: 1

Organism_scientific: Pisum Sativum
Organism_common: Pea
Organism_taxid: 3888

Molecule: Type II Chlorophyll Ab Binding Protein From Phot
Chain: 2
Fragment: Residues 94-269

Organism_scientific: Pisum Sativum
Organism_common: Pea
Organism_taxid: 3888

Molecule: Chlorophyll A-B Binding Protein 3, Chloroplastic
Chain: 3
Fragment: Residues 84-255
Synonym: Lhcii Type III Cab-3

Organism_scientific: Pisum Sativum
Organism_common: Pea
Organism_taxid: 3888

Molecule: Chlorophyll A-B Binding Protein P4, Chloroplastic
Chain: 4
Fragment: Residues 81-246
Synonym: Lhci Type III Cab-P4

Organism_scientific: Pisum Sativum
Organism_common: Pea
Organism_taxid: 3888
symmetry Space Group: P 1 21 1
R_factor 0.349 R_Free 0.383
crystal
cell
length a length b length c angle alpha angle beta angle gamma
120.655 189.086 129.388 90.00 91.24 90.00
method X-Ray Diffractionresolution 3.30 Å
ligand BCR, CLA, LMG, LMU, PQN, SF4 enzyme
Gene
Ontology
ChainFunctionProcessComponent
1


2, 3, 4


A
  • electron transfer activity


  • B
  • electron transfer activity


  • C


    D


    E


    F


    G


    H


    I


    J


    K


    L


    N


    Primary referenceStructure determination and improved model of plant photosystem I., Amunts A, Toporik H, Borovikova A, Nelson N, J Biol Chem. 2009 Nov 18. PMID:19923216
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (796 Kb) [Save to disk]
  • Biological Unit Coordinates (3lw5.pdb1.gz) 703 Kb
  • LPC: Ligand-Protein Contacts for 3LW5
  • CSU: Contacts of Structural Units for 3LW5
  • Structure Factors (2383 Kb)
  • Retrieve 3LW5 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3LW5 from S2C, [Save to disk]
  • Re-refined 3lw5 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3LW5 in 3D
  • Proteopedia, because life has more than 2D.
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  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 3LW5
  • Ramachandran plot from PDBSum
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  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 3LW5, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3lw5_J] [3lw5_I] [3lw5_K] [3lw5_G] [3lw5_D] [3lw5_F] [3lw5_C] [3lw5_H] [3lw5_E] [3lw5_L] [3lw5_4] [3lw5] [3lw5_B] [3lw5_R] [3lw5_2] [3lw5_A] [3lw5_N] [3lw5_3] [3lw5_1]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3LW5
  • Community annotation for 3LW5 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
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