SMTL ID : 6tv0.1

Serratia spp. cyanase hydratase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.96 Å

Oligo State

homo-10-mer

Ligands

5 x OXD: OXALIC ACID(Non-covalent)

OXD.1: 12 residues within 4Å: Chain A: I.119, S.121, A.122, I.123, L.150 Chain F: R.95 Chain G: R.95 Chain J: I.119, S.121, A.122, I.123, L.150 6 PLIP interactions: 1 interactions with chain J, 2 interactions with chain F, 2 interactions with chain G, 1 interactions with chain A Hydrogen bonds: J:A.122, A:A.122 Salt bridges: F:R.95, F:R.95, G:R.95, G:R.95 OXD.7: 10 residues within 4Å: Chain A: R.95 Chain C: R.95 Chain G: I.119, S.121, A.122, L.150 Chain I: I.119, S.121, A.122, L.150 6 PLIP interactions: 2 interactions with chain A, 2 interactions with chain C, 1 interactions with chain I, 1 interactions with chain G Salt bridges: A:R.95, A:R.95, C:R.95, C:R.95 Hydrogen bonds: I:A.122, G:A.122 OXD.8: 10 residues within 4Å: Chain B: I.119, S.121, A.122, L.150 Chain D: R.95 Chain E: I.119, S.121, A.122, L.150 Chain H: R.95 6 PLIP interactions: 1 interactions with chain E, 2 interactions with chain H, 1 interactions with chain B, 2 interactions with chain D Hydrogen bonds: E:A.122, B:A.122 Salt bridges: H:R.95, H:R.95, D:R.95, D:R.95 OXD.15: 10 residues within 4Å: Chain B: R.95 Chain C: I.119, S.121, A.122, L.150 Chain H: I.119, S.121, A.122, L.150 Chain I: R.95 6 PLIP interactions: 1 interactions with chain C, 2 interactions with chain I, 2 interactions with chain B, 1 interactions with chain H Hydrogen bonds: C:A.122, H:A.122 Salt bridges: I:R.95, I:R.95, B:R.95, B:R.95 OXD.33: 10 residues within 4Å: Chain D: I.119, S.121, A.122, L.150 Chain E: R.95 Chain F: I.119, S.121, A.122, L.150 Chain J: R.95 6 PLIP interactions: 1 interactions with chain D, 1 interactions with chain F, 2 interactions with chain J, 2 interactions with chain E Hydrogen bonds: D:A.122, F:A.122 Salt bridges: J:R.95, J:R.95, E:R.95, E:R.95

50 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 7 residues within 4Å: Chain A: P.151, T.152, K.153 Chain J: I.123, N.124, F.125 Ligands: GOL.52 Ligand excluded by PLIP GOL.3: 8 residues within 4Å: Chain A: H.50, A.122, I.123, F.125 Chain G: I.102, Y.103 Chain J: T.152, F.155 Ligand excluded by PLIP GOL.4: 6 residues within 4Å: Chain A: S.85, V.87, T.89 Chain C: Y.97 Chain I: P.84, G.86 Ligand excluded by PLIP GOL.5: 6 residues within 4Å: Chain A: T.1, P.51, L.52, P.53, Q.75 Chain J: D.117 Ligand excluded by PLIP GOL.6: 6 residues within 4Å: Chain A: D.69, R.72, L.73 Chain F: D.19, I.22, R.23 Ligand excluded by PLIP GOL.9: 8 residues within 4Å: Chain B: H.50, A.122, I.123, F.125 Chain E: T.152, F.155 Chain H: I.102, Y.103 Ligand excluded by PLIP GOL.10: 8 residues within 4Å: Chain B: P.151, T.152, K.153, F.155 Chain E: I.123, N.124, F.125 Ligands: GOL.27 Ligand excluded by PLIP GOL.11: 6 residues within 4Å: Chain B: S.85, V.87, T.89 Chain C: P.84, G.86 Chain I: Y.97 Ligand excluded by PLIP GOL.12: 6 residues within 4Å: Chain B: D.69, R.72, L.73 Chain D: D.19, I.22, R.23 Ligand excluded by PLIP GOL.13: 6 residues within 4Å: Chain B: T.1, P.51, Q.75, I.77 Chain E: D.117, P.154 Ligand excluded by PLIP GOL.14: 4 residues within 4Å: Chain B: D.19, R.23 Chain C: D.69, R.72 Ligand excluded by PLIP GOL.16: 8 residues within 4Å: Chain C: H.50, A.122, I.123, F.125 Chain H: T.152, F.155 Chain I: Y.103 Ligands: GOL.43 Ligand excluded by PLIP GOL.17: 6 residues within 4Å: Chain A: Y.97 Chain C: S.85, V.87, T.89 Chain G: P.84, G.86 Ligand excluded by PLIP GOL.18: 4 residues within 4Å: Chain C: D.19 Chain G: D.69, R.72, L.73 Ligand excluded by PLIP GOL.19: 6 residues within 4Å: Chain C: T.1, L.52, P.53, Q.75 Chain H: D.117, P.154 Ligand excluded by PLIP GOL.20: 8 residues within 4Å: Chain C: P.151, T.152, K.153, F.155 Chain H: I.123, N.124, F.125 Ligands: GOL.44 Ligand excluded by PLIP GOL.21: 8 residues within 4Å: Chain D: P.151, T.152, K.153, P.154, F.155 Chain F: I.123, N.124, F.125 Ligand excluded by PLIP GOL.22: 8 residues within 4Å: Chain D: H.50, A.122, I.123, F.125 Chain E: Y.103 Chain F: T.152, F.155 Ligands: GOL.23 Ligand excluded by PLIP GOL.23: 9 residues within 4Å: Chain D: I.123, N.124, F.125, K.126 Chain F: P.151, T.152, K.153, F.155 Ligands: GOL.22 Ligand excluded by PLIP GOL.24: 6 residues within 4Å: Chain B: P.84, G.86 Chain D: S.85, V.87, T.89 Chain H: Y.97 Ligand excluded by PLIP GOL.25: 6 residues within 4Å: Chain D: D.69, R.72, L.73 Chain J: D.19, I.22, R.23 Ligand excluded by PLIP GOL.26: 4 residues within 4Å: Chain D: T.1, L.52, Q.75 Chain F: D.117 Ligand excluded by PLIP GOL.27: 8 residues within 4Å: Chain B: T.152, F.155 Chain D: Y.103 Chain E: H.50, A.122, I.123, F.125 Ligands: GOL.10 Ligand excluded by PLIP GOL.28: 7 residues within 4Å: Chain B: I.123, N.124, F.125 Chain E: P.151, T.152, K.153, F.155 Ligand excluded by PLIP GOL.29: 4 residues within 4Å: Chain E: S.85, V.87 Chain F: P.84 Chain J: Y.97 Ligand excluded by PLIP GOL.30: 5 residues within 4Å: Chain E: D.69, R.72, L.73 Chain H: D.19, R.23 Ligand excluded by PLIP GOL.31: 6 residues within 4Å: Chain B: D.117 Chain E: T.1, P.51, L.52, P.53, Q.75 Ligand excluded by PLIP GOL.32: 5 residues within 4Å: Chain E: D.19, I.22, R.23 Chain F: D.69, R.72 Ligand excluded by PLIP GOL.34: 8 residues within 4Å: Chain D: T.152, F.155 Chain F: H.50, A.122, I.123, F.125 Chain J: I.102, Y.103 Ligand excluded by PLIP GOL.35: 6 residues within 4Å: Chain A: P.84, G.86 Chain F: S.85, V.87, T.89 Chain G: Y.97 Ligand excluded by PLIP GOL.36: 6 residues within 4Å: Chain D: D.117 Chain F: T.1, P.51, L.52, P.53, Q.75 Ligand excluded by PLIP GOL.37: 8 residues within 4Å: Chain G: P.151, T.152, K.153, F.155 Chain I: I.123, N.124, F.125 Ligands: GOL.49 Ligand excluded by PLIP GOL.38: 8 residues within 4Å: Chain A: Y.103 Chain G: H.50, A.122, I.123, F.125 Chain I: T.152, F.155 Ligands: GOL.50 Ligand excluded by PLIP GOL.39: 5 residues within 4Å: Chain F: Y.97 Chain G: S.85, V.87, T.89 Chain J: P.84 Ligand excluded by PLIP GOL.40: 5 residues within 4Å: Chain G: D.19, R.23 Chain J: D.69, R.72, L.73 Ligand excluded by PLIP GOL.41: 5 residues within 4Å: Chain G: T.1, P.51, L.52, Q.75 Chain I: D.117 Ligand excluded by PLIP GOL.42: 7 residues within 4Å: Chain G: D.117, T.152, P.154 Chain I: P.51, L.52, P.53, Q.75 Ligand excluded by PLIP GOL.43: 8 residues within 4Å: Chain C: I.123, N.124, F.125, K.126 Chain H: P.151, T.152, K.153 Ligands: GOL.16 Ligand excluded by PLIP GOL.44: 8 residues within 4Å: Chain B: Y.103 Chain C: T.152, F.155 Chain H: H.50, A.122, I.123, F.125 Ligands: GOL.20 Ligand excluded by PLIP GOL.45: 6 residues within 4Å: Chain D: Y.97 Chain E: P.84, G.86 Chain H: S.85, V.87, T.89 Ligand excluded by PLIP GOL.46: 6 residues within 4Å: Chain B: Y.97 Chain H: P.84, G.86 Chain I: S.85, V.87, T.89 Ligand excluded by PLIP GOL.47: 6 residues within 4Å: Chain H: D.69, R.72, L.73 Chain I: D.19, I.22, R.23 Ligand excluded by PLIP GOL.48: 5 residues within 4Å: Chain C: D.117 Chain H: T.1, P.51, L.52, Q.75 Ligand excluded by PLIP GOL.49: 9 residues within 4Å: Chain C: I.102, Y.103 Chain G: T.152, F.155 Chain I: H.50, A.122, I.123, F.125 Ligands: GOL.37 Ligand excluded by PLIP GOL.50: 8 residues within 4Å: Chain G: I.123, N.124, F.125 Chain I: P.151, T.152, K.153, F.155 Ligands: GOL.38 Ligand excluded by PLIP GOL.51: 4 residues within 4Å: Chain A: D.19, R.23 Chain I: D.69, R.72 Ligand excluded by PLIP GOL.52: 8 residues within 4Å: Chain A: T.152, F.155 Chain F: Y.103 Chain J: H.50, A.122, I.123, F.125 Ligands: GOL.2 Ligand excluded by PLIP GOL.53: 6 residues within 4Å: Chain A: I.123, N.124 Chain J: P.151, T.152, K.153, F.155 Ligand excluded by PLIP GOL.54: 6 residues within 4Å: Chain D: P.84, G.86 Chain E: Y.97 Chain J: S.85, V.87, T.89 Ligand excluded by PLIP GOL.55: 6 residues within 4Å: Chain A: D.117, P.154 Chain J: T.1, L.52, P.53, Q.75 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pederzoli, R. et al., Detecting the nature and solving the crystal structure of a contaminant protein from an opportunistic pathogen. Acta Crystallogr.,Sect.F (2020)

Release Date

2021-01-27

Peptides

Cyanate hydratase: ABCDEFGHIJ

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
G

H
H

I
I

J
J

Cyanate hydratase