- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 3.20 Å
- Oligo State
- hetero-oligomer
- Ligands
- 35 x CLA: CHLOROPHYLL A(Non-covalent)
- 2 x PHO: PHEOPHYTIN A(Non-covalent)
PHO.4: 25 residues within 4Å:- Chain A: L.41, A.44, T.45, F.48, I.115, F.119, Y.126, Q.130, A.146, Y.147, P.150, F.158, M.172, L.174, G.175, P.279, V.283
- Chain D: L.205, A.208, L.209, A.212, I.213, F.257
- Ligands: CLA.1, CLA.2
15 PLIP interactions:13 interactions with chain A, 2 interactions with chain D- Hydrophobic interactions: A:L.41, A:A.44, A:F.48, A:F.48, A:I.115, A:A.146, A:Y.147, A:P.150, A:F.158, A:P.279, D:L.205, D:A.212
- Hydrogen bonds: A:Y.126, A:Q.130
- pi-Stacking: A:Y.147
PHO.41: 21 residues within 4Å:- Chain A: F.206, A.209, L.210, A.213, M.214, L.258, I.259
- Chain D: I.114, G.118, L.122, F.125, N.142, A.145, F.146, P.149, F.153, F.173, P.275, L.279
- Ligands: CLA.3, CLA.40
12 PLIP interactions:10 interactions with chain D, 2 interactions with chain A- Hydrophobic interactions: D:I.114, D:L.122, D:F.125, D:A.145, D:F.153, D:F.173, D:P.275, D:L.279, A:F.206, A:L.210
- Hydrogen bonds: D:N.142
- pi-Stacking: D:F.146
- 4 x MN: MANGANESE (II) ION(Non-covalent)
MN.6: 3 residues within 4Å:- Chain A: D.170, E.333
- Ligands: MN.8
4 PLIP interactions:4 interactions with chain A- Metal complexes: A:D.170, A:D.170, A:E.333, A:E.333
MN.7: 4 residues within 4Å:- Chain A: E.189, H.332
- Ligands: MN.8, MN.10
2 PLIP interactions:2 interactions with chain A- Metal complexes: A:E.189, A:H.332
MN.8: 6 residues within 4Å:- Chain A: D.170, E.189, E.333
- Ligands: MN.6, MN.7, MN.10
1 PLIP interactions:1 interactions with chain A- Metal complexes: A:D.170
MN.10: 3 residues within 4Å:- Chain A: D.170
- Ligands: MN.7, MN.8
No protein-ligand interaction detected (PLIP)- 1 x FE2: FE (II) ION(Non-covalent)
- 1 x PL9: 2,3-DIMETHYL-5-(3,7,11,15,19,23,27,31,35-NONAMETHYL-2,6,10,14,18,22,26,30,34-HEXATRIACONTANONAENYL-2,5-CYCLOHEXADIENE-1,4-DIONE-2,3-DIMETHYL-5-SOLANESYL-1,4-BENZOQUINONE(Non-covalent)
- 1 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Covalent)
HEM.44: 8 residues within 4Å:- Chain E: Y.19, H.23, T.26, I.27
- Chain F: W.19, H.23, A.26, V.27
11 PLIP interactions:6 interactions with chain F, 5 interactions with chain E,- Hydrophobic interactions: F:A.26, F:V.27, E:T.26, E:I.27
- pi-Stacking: F:W.19, F:H.23, F:H.23, E:Y.19, E:H.23, E:H.23
- Metal complexes: F:H.23
- 1 x BCR: BETA-CAROTENE(Non-covalent)
BCR.45: 11 residues within 4Å:- Chain D: Y.42, L.43, G.46, L.49, F.101, F.113
- Chain F: P.28, T.29, F.32, L.33, I.36
11 PLIP interactions:6 interactions with chain F, 5 interactions with chain D- Hydrophobic interactions: F:P.28, F:T.29, F:F.32, F:F.32, F:F.32, F:I.36, D:Y.42, D:L.43, D:L.49, D:L.49, D:F.101
- 1 x HEC: HEME C(Covalent)
HEC.46: 22 residues within 4Å:- Chain I: A.62, C.63, S.65, C.66, H.67, T.74, L.78, D.79, L.80, T.84, L.85, A.88, R.92, L.98, Y.101, M.102, Y.108, H.118, P.119, M.130, I.141, I.145
17 PLIP interactions:17 interactions with chain I,- Hydrophobic interactions: I:A.62, I:L.78, I:L.80, I:L.98, I:Y.101, I:P.119, I:I.141, I:I.145
- pi-Stacking: I:H.67, I:H.67, I:Y.101, I:H.118, I:H.118, I:H.118, I:H.118
- Metal complexes: I:H.67, I:H.118
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Biesiadka, J. et al., Crystal Structure of Cyanobacterial Photosystem II at 3.2 A Resolution: A Closer Look at the Mn- Cluster. Phys.Chem.Chem.Phys. (2004)
- Release Date
- 2004-12-21
- Peptides
- PHOTOSYSTEM Q(B) PROTEIN 1: A
PHOTOSYSTEM II CORE LIGHT HARVESTING PROTEIN: B
PHOTOSYSTEM II CP43 PROTEIN: C
PHOTOSYSTEM II REACTION CENTER D2 PROTEIN: D
CYTOCHROME B559 ALPHA SUBUNIT: E
CYTOCHROME B559 BETA SUBUNIT: F
PHOTOSYSTEM II MANGANESE-STABILIZING POLYPEPTIDE: G
PHOTOSYSTEM II 12 KDA EXTRINSIC PROTEIN: H
CYTOCHROME C-550: I
UNASSIGNED SUBUNITS: J - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
GB
HC
ID
JE
KF
LG
PH
SI
TJ
Y - Membrane
-
We predict this structure to be a membrane protein.
SMTL ID : 1w5c.2 (1 other biounit)
Photosystem II from Thermosynechococcus elongatus
PHOTOSYSTEM Q(B) PROTEIN 1
PHOTOSYSTEM II CORE LIGHT HARVESTING PROTEIN
PHOTOSYSTEM II CP43 PROTEIN
PHOTOSYSTEM II REACTION CENTER D2 PROTEIN
CYTOCHROME B559 ALPHA SUBUNIT
CYTOCHROME B559 BETA SUBUNIT
PHOTOSYSTEM II MANGANESE-STABILIZING POLYPEPTIDE
PHOTOSYSTEM II 12 KDA EXTRINSIC PROTEIN
CYTOCHROME C-550
UNASSIGNED SUBUNITS
Related Entries With Identical Sequence
1izl.1 | 1s5l.1 | 1s5l.2 | 1w5c.1 | 2axt.1 | 3a0b.1 | 3a0h.1 | 3kzi.1 | 3wu2.1 | 4fby.1 | 4ixq.1 | 4ixr.1 | 4pj0.1 | 4tnh.1 | 4tni.1 | 4tnj.1 | 4tnk.1 | 4ub6.1 | 4ub6.2 | 4ub8.1 | 4ub8.2 | 4v62.1 | 4v62.2 | 4v82.1 | 5afu.1 | 5b5e.1 | 5b66.1 | 5gan.1 | 5gth.1 | 5gth.2 more...less...5gti.1 | 5gti.2 | 5kaf.1 | 5kai.1 | 5mx2.1 | 5mx2.2 | 5tis.1 | 5v2c.1 | 5ws5.1 | 5ws5.2 | 5ws6.1 | 5ws6.2 | 6gcs.1 | 6jlj.1 | 6jlk.1 | 6jll.1 | 6jlm.1 | 6jln.1 | 6jlo.1 | 6jlp.1 | 6w1o.1 | 6w1p.1 | 6w1q.1 | 6w1r.1 | 6w1t.1 | 6w1u.1 | 6w1v.1 | 7cji.1 | 7cjj.1 | 7cou.1 | 7dxa.1 | 7dxh.1 | 7eda.1 | 7l8g.1 | 7l8s.1 | 7n6g.54 | 7n6g.55 | 7nho.1 | 7nhp.1 | 7nhq.1 | 7rf1.1 | 7rf2.1 | 7rf3.1 | 7rf4.1 | 7rf5.1 | 7rf6.1 | 7rf7.1 | 7rf8.1 | 7utv.1 | 7yq2.1 | 7yq7.1 | 8ez5.1 | 8f4c.1 | 8f4d.1 | 8f4e.1 | 8f4f.1 | 8f4g.1 | 8f4h.1 | 8f4i.1 | 8f4j.1 | 8f4k.1 | 8gn0.1 | 8gn1.1 | 8gn2.1 | 8ir5.1 | 8ir6.1 | 8ir7.1 | 8ir8.1 | 8ir9.1 | 8ira.1 | 8irb.1 | 8irc.1 | 8ird.1 | 8ire.1 | 8irf.1 | 8irg.1 | 8irh.1 | 8iri.1 | 8t2e.1 | 9evx.1