SMTL ID : 1rzq.1

Crystal Structure of C-Terminal Despentapeptide Nitrite Reductase from Achromobacter Cycloclastes at pH5.0

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-trimer

Ligands

6 x CU: COPPER (II) ION(Non-covalent)

CU.1: 4 residues within 4Å: Chain A: H.95, C.136, H.145, M.150 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.95, A:C.136, A:H.145 CU.2: 4 residues within 4Å: Chain A: D.98, H.100, H.135 Chain B: H.306 4 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: A:H.100, A:H.135, B:H.306, H2O.1 CU.8: 4 residues within 4Å: Chain B: H.95, C.136, H.145, M.150 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:H.95, B:C.136, B:H.145 CU.9: 4 residues within 4Å: Chain B: D.98, H.100, H.135 Chain C: H.306 4 PLIP interactions: 2 interactions with chain B, 1 interactions with chain C, 1 Ligand-Water interactions Metal complexes: B:H.100, B:H.135, C:H.306, H2O.12 CU.12: 4 residues within 4Å: Chain C: H.95, C.136, H.145, M.150 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:H.95, C:C.136, C:H.145 CU.13: 4 residues within 4Å: Chain A: H.306 Chain C: D.98, H.100, H.135 4 PLIP interactions: 2 interactions with chain C, 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: C:H.100, C:H.135, A:H.306, H2O.21

5 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 4 residues within 4Å: Chain A: F.24, K.174, Y.176, T.234 3 PLIP interactions: 3 interactions with chain A Water bridges: A:K.174, A:K.174 Salt bridges: A:K.174 SO4.4: 4 residues within 4Å: Chain A: T.228, G.229, D.230, H.231 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.230, A:H.231 Salt bridges: A:H.231 SO4.10: 3 residues within 4Å: Chain B: T.34, G.35, R.37 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:G.35 Water bridges: B:R.37 Salt bridges: B:R.37 SO4.11: 4 residues within 4Å: Chain B: T.228, G.229, H.319, K.321 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:G.229 Water bridges: B:T.228 Salt bridges: B:H.319, B:K.321 SO4.14: 4 residues within 4Å: Chain C: F.24, K.174, Y.176, T.234 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:T.234, C:T.234 Salt bridges: C:K.174

4 x ACY: ACETIC ACID(Non-functional Binders)

ACY.5: 9 residues within 4Å: Chain A: G.140, M.141, V.142, P.143, W.144, Y.203, V.207, M.210 Chain B: E.313 8 PLIP interactions: 5 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:P.143, A:V.207, B:E.313 Hydrogen bonds: A:W.144, B:E.313, B:E.313 Water bridges: A:V.142, A:Y.203 ACY.6: 7 residues within 4Å: Chain A: Y.193, T.216, H.217, V.224, E.313, L.314 Chain C: R.211 7 PLIP interactions: 3 interactions with chain A, 4 interactions with chain C Hydrophobic interactions: A:V.224 Hydrogen bonds: A:T.216 Salt bridges: A:H.217, C:R.211 Water bridges: C:R.211, C:R.211, C:R.211 ACY.7: 4 residues within 4Å: Chain A: T.228, G.229, H.319, K.321 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.229 Salt bridges: A:H.319, A:K.321 ACY.15: 4 residues within 4Å: Chain C: T.228, G.229, H.319, K.321 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:G.229 Salt bridges: C:H.319, C:K.321

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, H.T. et al., pH-profile crystal structure studies of C-terminal despentapeptide nitrite reductase from Achromobacter cycloclastes. Biochem.Biophys.Res.Commun. (2004)

Release Date

2004-03-30

Peptides

Copper-containing nitrite reductase: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Copper-containing nitrite reductase

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