SMTL ID : 3pm9.1 (2 other biounits)

Crystal structure of a Putative dehydrogenase (RPA1076) from Rhodopseudomonas palustris CGA009 at 2.57 A resolution

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.57 Å

Oligo State

homo-dimer

Ligands

2 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)

FAD.1: 33 residues within 4Å: Chain A: P.80, Q.81, G.82, G.83, N.84, T.85, G.86, L.87, G.90, Q.91, L.102, A.122, L.144, G.145, A.146, C.150, T.151, G.153, G.154, N.155, S.157, T.158, A.160, G.161, E.211, G.212, G.215, I.216, I.217, E.434, H.435, N.471 Ligands: UNL.2 26 PLIP interactions: 26 interactions with chain A Hydrophobic interactions: A:L.87, A:L.87, A:A.146 Hydrogen bonds: A:G.82, A:G.83, A:N.84, A:T.85, A:T.85, A:T.85, A:T.85, A:G.86, A:G.90, A:Q.91, A:G.145, A:T.151, A:G.154, A:N.155, A:S.157, A:T.158, A:G.161, A:G.161, A:I.217, A:I.217, A:N.471 Water bridges: A:T.158, A:G.212 FAD.6: 34 residues within 4Å: Chain B: E.44, P.80, Q.81, G.82, G.83, N.84, T.85, G.86, L.87, G.90, Q.91, L.102, A.122, L.144, G.145, A.146, C.150, T.151, G.153, G.154, N.155, S.157, T.158, A.160, G.161, E.211, G.212, G.215, I.216, I.217, E.434, H.435, N.471 Ligands: UNL.7 26 PLIP interactions: 26 interactions with chain B Hydrophobic interactions: B:L.87, B:L.87, B:A.146 Hydrogen bonds: B:G.82, B:G.83, B:N.84, B:T.85, B:T.85, B:T.85, B:T.85, B:G.86, B:G.90, B:Q.91, B:G.145, B:T.151, B:G.154, B:N.155, B:S.157, B:G.161, B:G.161, B:I.217, B:I.217, B:N.471 Water bridges: B:T.151, B:T.158, B:G.212

2 x UNL: UNKNOWN LIGAND

UNL.2: 7 residues within 4Å: Chain A: R.338, H.388, N.393, H.395, E.434 Ligands: FAD.1, PO4.5 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.338, A:R.338, A:S.342, A:S.342, A:H.388 UNL.7: 6 residues within 4Å: Chain B: G.145, R.338, H.388, H.395, E.434 Ligands: FAD.6 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:G.145, B:R.338, B:R.338, B:H.388, B:H.388, B:H.395

6 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.3: 3 residues within 4Å: Chain A: T.61, R.109, E.179 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:E.179, A:E.179 Water bridges: A:T.61, A:T.61, A:T.61 Salt bridges: A:R.109 PO4.4: 5 residues within 4Å: Chain A: K.353, H.354, D.355, H.435, K.441 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.355, A:D.355 Salt bridges: A:H.435, A:K.441 PO4.5: 7 residues within 4Å: Chain A: S.342, Q.345, K.353, F.386, H.395, N.397 Ligands: UNL.2 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.342, A:Q.345, A:N.397 Salt bridges: A:H.395 PO4.8: 3 residues within 4Å: Chain B: T.61, R.109, E.179 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:T.61, B:E.179, B:E.179 Water bridges: B:T.61, B:R.109 Salt bridges: B:R.109 PO4.9: 6 residues within 4Å: Chain B: K.353, H.354, D.355, H.435, M.440, K.441 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:L.87, B:K.353, B:D.355 Salt bridges: B:H.435, B:K.441 PO4.10: 6 residues within 4Å: Chain B: S.342, Q.345, K.353, F.386, H.395, N.397 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.345, B:N.397

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Joint Center for Structural Genomics (JCSG), Crystal structure of a Putative dehydrogenase (RPA1076) from Rhodopseudomonas palustris CGA009 at 2.57 A resolution. To be published

Release Date

2010-12-15

Peptides

Putative oxidoreductase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Putative oxidoreductase

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