PDBsum entry 2wsf

Photosynthesis

PDB id: 2wsf

Contents

Protein chains

165 a.a. *

176 a.a. *

153 a.a. *

166 a.a. *

730 a.a. *

733 a.a. *

81 a.a. *

138 a.a. *

65 a.a. *

154 a.a. *

95 a.a. *

69 a.a. *

30 a.a. *

42 a.a. *

84 a.a. *

162 a.a. *

85 a.a. *

53 a.a. *

Ligands

GLC-FRU ×13

CLA ×171

LMU ×48

BCR ×16

PQN ×2

SF4 ×3

LMG

CLA-CLA

UNL

* Residue conservation analysis

PDB id:

2wsf

Name:

Photosynthesis

Title:

Improved model of plant photosystem i

Structure:

At3g54890. Chain: 1. Synonym: lhca1. Type ii chlorophyll a/b binding protein from photosystem i. Chain: 2. Synonym: lhca2. Lhca3. Chain: 3. Chlorophyll a-b binding protein p4, chloroplastic.

Source:

Arabidopsis thaliana. Thale cress. Organism_taxid: 3702. Pisum sativum. Pea. Organism_taxid: 3888. Glycine max. Soybean. Organism_taxid: 3847.

Resolution:

3.48Å R-factor: 0.392 R-free: 0.425

Authors:

A.Amunts,H.Toporik,A.Borovikov,N.Nelson

Key ref:

A.Amunts et al. (2010). Structure determination and improved model of plant photosystem I. J Biol Chem, 285, 3478-3486. PubMed id: 19923216

Date:

05-Sep-09 Release date: 17-Nov-09

Protein chain

Q01667  (CAB6_ARATH) -  Chlorophyll a-b binding protein 6, chloroplastic from Arabidopsis thaliana

Seq: 241 a.a.

Struc: 165 a.a.

Protein chain

Q41038  (Q41038_PEA) -  Chlorophyll a-b binding protein, chloroplastic from Pisum sativum

Seq: 269 a.a.

Struc: 176 a.a.*

Protein chain

C6TEX2  (C6TEX2_SOYBN) -  Chlorophyll a-b binding protein, chloroplastic from Glycine max

Seq: 276 a.a.

Struc: 153 a.a.*

Protein chain

Q9SQL2  (CB24_PEA) -  Chlorophyll a-b binding protein P4, chloroplastic from Pisum sativum

Seq: 252 a.a.

Struc: 166 a.a.

Protein chain

P05310  (PSAA_PEA) -  Photosystem I P700 chlorophyll a apoprotein A1 from Pisum sativum

Seq: 758 a.a.

Struc: 730 a.a.

Protein chain

P05311  (PSAB_PEA) -  Photosystem I P700 chlorophyll a apoprotein A2 from Pisum sativum

Seq: 734 a.a.

Struc: 733 a.a.

Protein chain

P10793  (PSAC_PEA) -  Photosystem I iron-sulfur center from Pisum sativum

Seq: 81 a.a.

Struc: 81 a.a.

Protein chain

P12353  (PSAD_SPIOL) -  Photosystem I reaction center subunit II, chloroplastic from Spinacia oleracea

Seq: 212 a.a.

Struc: 138 a.a.

Protein chain

Q9S831  (PSAE1_ARATH) -  Photosystem I reaction center subunit IV A, chloroplastic from Arabidopsis thaliana

Seq: 143 a.a.

Struc: 65 a.a.

Protein chain

P12355  (PSAF_SPIOL) -  Photosystem I reaction center subunit III, chloroplastic from Spinacia oleracea

Seq: 231 a.a.

Struc: 154 a.a.

Protein chain

P12357  (PSAG_SPIOL) -  Photosystem I reaction center subunit V, chloroplastic from Spinacia oleracea

Seq: 167 a.a.

Struc: 95 a.a.

Protein chain

P22179  (PSAH_SPIOL) -  Photosystem I reaction center subunit VI, chloroplastic from Spinacia oleracea

Seq: 144 a.a.

Struc: 69 a.a.

Protein chain

P17227  (PSAI_PEA) -  Photosystem I reaction center subunit VIII from Pisum sativum

Seq: 40 a.a.

Struc: 30 a.a.

Protein chain

P17230  (PSAJ_SPIOL) -  Photosystem I reaction center subunit IX from Spinacia oleracea

Seq: 44 a.a.

Struc: 42 a.a.

Protein chain

P36886  (PSAK_HORVU) -  Photosystem I reaction center subunit psaK, chloroplastic from Hordeum vulgare

Seq: 131 a.a.

Struc: 84 a.a.

Protein chain

Q41385  (PSAL_SPIOL) -  Photosystem I reaction center subunit XI, chloroplastic from Spinacia oleracea

Seq: 216 a.a.

Struc: 162 a.a.

Protein chain

Q84U30  (Q84U30_PHAVU) -  Photosystem I reaction center subunit N, chloroplastic from Phaseolus vulgaris

Seq: 170 a.a.

Struc: 85 a.a.

Protein chain

No UniProt id for this chain

Struc: 53 a.a.

* PDB and UniProt seqs differ at 3 residue positions (black crosses)

Enzyme reactions

• Enzyme class: Chains A, B, C: E.C.1.97.1.12 - photosystem I.
• Reaction: reduced [plastocyanin] + hnu + oxidized [2Fe-2S]-[ferredoxin] = oxidized [plastocyanin] + reduced [2Fe-2S]-[ferredoxin]

J Biol Chem 285:3478-3486 (2010)

PubMed id: 19923216

Structure determination and improved model of plant photosystem I.

A.Amunts, H.Toporik, A.Borovikova, N.Nelson.

ABSTRACT

Photosystem I functions as a sunlight energy converter, catalyzing one of the initial steps in driving oxygenic photosynthesis in cyanobacteria, algae, and higher plants. Functionally, Photosystem I captures sunlight and transfers the excitation energy through an intricate and precisely organized antenna system, consisting of a pigment network, to the center of the molecule, where it is used in the transmembrane electron transfer reaction. Our current understanding of the sophisticated mechanisms underlying these processes has profited greatly from elucidation of the crystal structures of the Photosystem I complex. In this report, we describe the developments that ultimately led to enhanced structural information of plant Photosystem I. In addition, we report an improved crystallographic model at 3.3-A resolution, which allows analysis of the structure in more detail. An improved electron density map yielded identification and tracing of subunit PsaK. The location of an additional ten beta-carotenes as well as five chlorophylls and several loop regions, which were previously uninterpretable, are now modeled. This represents the most complete plant Photosystem I structure obtained thus far, revealing the locations of and interactions among 17 protein subunits and 193 non-covalently bound photochemical cofactors. Using the new crystal structure, we examine the network of contacts among the protein subunits from the structural perspective, which provide the basis for elucidating the functional organization of the complex.