SMTL ID : 1vr5.2 (1 other biounit)

Crystal structure of Oligopeptide ABC transporter, periplasmic oligopeptide-binding (TM1223) from THERMOTOGA MARITIMA at 1.73 A resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.73 Å

Oligo State

monomer

Ligands

1 x NA: SODIUM ION(Non-functional Binders)

NA.1: 5 residues within 4Å: Chain A: D.352, N.354, D.356, F.358, E.360 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.354, A:D.356, A:D.356, A:F.358

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 3 residues within 4Å: Chain A: P.115, N.118, R.139 Ligand excluded by PLIP

1 x ACT: ACETATE ION(Non-functional Binders)

ACT.3: 5 residues within 4Å: Chain A: P.36, W.37, A.39, A.41, N.530 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:A.41, A:N.530 Water bridges: A:A.41, A:N.530

14 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.4: 5 residues within 4Å: Chain A: G.427, V.428, G.531, W.532 Ligands: EDO.15 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.427 Water bridges: A:N.149, A:G.531 EDO.5: 5 residues within 4Å: Chain A: I.157, W.158, K.161, A.169, N.171 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.161 Water bridges: A:N.171 EDO.6: 6 residues within 4Å: Chain A: Y.113, P.115, V.116, W.119, E.142, M.146 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:W.119 Water bridges: A:S.112, A:R.139 EDO.7: 4 residues within 4Å: Chain A: E.510, T.514, N.515, W.516 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.510, A:N.515, A:W.516 EDO.8: 5 residues within 4Å: Chain A: F.52, F.61, G.69, Y.77, L.147 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.77 Water bridges: A:G.69, A:G.69 EDO.9: 5 residues within 4Å: Chain A: W.71, S.73, N.74, Y.140, N.474 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.73, A:N.474 EDO.10: 2 residues within 4Å: Chain A: W.37, Y.451 No protein-ligand interaction detected (PLIP) EDO.11: 2 residues within 4Å: Chain A: W.25, W.377 No protein-ligand interaction detected (PLIP) EDO.12: 4 residues within 4Å: Chain A: P.244, V.245, K.248, Y.261 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.261 Water bridges: A:Y.261 EDO.13: 4 residues within 4Å: Chain A: F.100, E.103, I.104, K.107 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.103 Water bridges: A:E.103, A:K.155 EDO.14: 3 residues within 4Å: Chain A: N.515, N.521, Y.523 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.515, A:N.515, A:N.521 EDO.15: 5 residues within 4Å: Chain A: F.424, T.425, T.426, G.427 Ligands: EDO.4 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:F.424, A:G.427, A:V.428 Water bridges: A:N.149, A:N.149 EDO.16: 2 residues within 4Å: Chain A: S.184, W.185 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:W.185 Water bridges: A:W.185, A:W.185 EDO.17: 5 residues within 4Å: Chain A: W.25, V.218, S.220, N.221, F.238 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.220 Water bridges: A:N.221

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Joint Center for Structural Genomics (JCSG), Crystal structure of Oligopeptide ABC transporter, periplasmic oligopeptide-binding (TM1223) from THERMOTOGA MARITIMA at 1.73 A resolution. To be published

Release Date

2005-03-08

Peptides

oligopeptide ABC transporter, periplasmic oligopeptide-binding protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

oligopeptide ABC transporter, periplasmic oligopeptide-binding protein

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