SMTL ID : 2dd4.1

Thiocyanate hydrolase (SCNase) from Thiobacillus thioparus recombinant apo-enzyme

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.06 Å

Oligo State

hetero-4-4-4-mer

Ligands

8 x FRU: beta-D-fructofuranose(Non-covalent)

FRU.1: 6 residues within 4Å: Chain B: H.10, L.13, G.14 Chain E: G.52, A.54 Chain F: R.157 8 PLIP interactions: 4 interactions with chain B, 2 interactions with chain F, 2 interactions with chain E Hydrogen bonds: B:H.10, B:H.10, F:R.157, F:R.157, E:G.52, E:A.54 Water bridges: B:G.14, B:E.59 FRU.2: 8 residues within 4Å: Chain B: D.97, V.98, R.118 Chain J: F.52 Chain K: P.47, C.96, D.97, G.99 10 PLIP interactions: 8 interactions with chain K, 1 interactions with chain J, 1 interactions with chain B Hydrogen bonds: K:C.96, K:D.97, B:R.118 Water bridges: K:T.44, K:R.45, K:D.97, K:Q.100, K:Q.100, K:Q.100, J:F.52 FRU.3: 3 residues within 4Å: Chain C: R.157 Chain E: H.10, L.13 6 PLIP interactions: 2 interactions with chain C, 4 interactions with chain E Hydrogen bonds: C:R.157, C:R.157 Water bridges: E:G.14, E:E.59, E:E.59, E:E.59 FRU.8: 6 residues within 4Å: Chain H: H.10, L.13, G.14 Chain K: G.52, A.54 Chain L: R.157 8 PLIP interactions: 2 interactions with chain K, 2 interactions with chain L, 4 interactions with chain H Hydrogen bonds: K:G.52, K:A.54, L:R.157, L:R.157, H:H.10, H:H.10 Water bridges: H:G.14, H:E.59 FRU.9: 10 residues within 4Å: Chain D: F.52 Chain E: R.45, P.47, C.96, D.97, G.99 Chain H: D.97, V.98, V.102, R.118 4 PLIP interactions: 3 interactions with chain H, 1 interactions with chain E Hydrogen bonds: H:V.98, H:R.118, H:R.118, E:R.45 FRU.10: 12 residues within 4Å: Chain E: D.97, V.98, V.102, R.118 Chain G: F.52 Chain H: Y.43, T.44, R.45, P.47, C.96, D.97, G.99 9 PLIP interactions: 1 interactions with chain E, 7 interactions with chain H, 1 interactions with chain G Hydrogen bonds: E:R.118, H:Y.43, H:C.96, H:D.97, H:G.99 Water bridges: H:R.45, H:D.97, H:Q.100, G:F.52 FRU.13: 3 residues within 4Å: Chain I: R.157 Chain K: H.10, L.13 7 PLIP interactions: 5 interactions with chain K, 2 interactions with chain I Hydrogen bonds: K:H.10, I:R.157, I:R.157 Water bridges: K:G.14, K:G.14, K:E.59, K:E.59 FRU.14: 8 residues within 4Å: Chain A: F.52 Chain B: P.47, C.96, D.97, G.99 Chain K: D.97, V.98, R.118 4 PLIP interactions: 2 interactions with chain K, 2 interactions with chain B Hydrogen bonds: K:R.118 Water bridges: K:D.97, B:T.44, B:R.45

8 x TLA: L(+)-TARTARIC ACID(Non-covalent)

TLA.4: 12 residues within 4Å: Chain B: R.90, R.91, Q.94, N.95, Y.108, W.112 Chain C: S.108, C.131, S.132, C.133, R.136, R.186 15 PLIP interactions: 7 interactions with chain B, 8 interactions with chain C Hydrogen bonds: B:R.91, B:Q.94, B:N.95, B:Y.108, C:S.108, C:S.132, C:S.132, C:R.136, C:R.186 Salt bridges: B:R.90, B:R.90, B:R.91, C:R.136 Water bridges: C:S.132, C:S.132 TLA.5: 2 residues within 4Å: Chain A: V.68 Chain C: R.177 6 PLIP interactions: 6 interactions with chain C Water bridges: C:Q.175, C:R.177, C:R.177, C:R.177, C:R.177 Salt bridges: C:R.177 TLA.6: 12 residues within 4Å: Chain E: R.90, R.91, Q.94, N.95, Y.108, W.112 Chain F: S.108, C.131, S.132, C.133, R.136, R.186 14 PLIP interactions: 9 interactions with chain F, 5 interactions with chain E Hydrogen bonds: F:S.108, F:S.132, F:S.132, F:R.136, F:R.186, E:R.91, E:N.95 Water bridges: F:S.132, F:S.132, F:R.136 Salt bridges: F:R.136, E:R.90, E:R.90, E:R.91 TLA.7: 2 residues within 4Å: Chain D: V.68 Chain F: R.177 6 PLIP interactions: 6 interactions with chain F Water bridges: F:Q.175, F:R.177, F:R.177, F:R.177, F:R.177 Salt bridges: F:R.177 TLA.11: 12 residues within 4Å: Chain H: R.90, R.91, Q.94, N.95, Y.108, W.112 Chain I: S.108, C.131, S.132, C.133, R.136, R.186 14 PLIP interactions: 7 interactions with chain I, 7 interactions with chain H Hydrogen bonds: I:S.108, I:S.132, I:R.136, I:R.186, H:R.91, H:Q.94, H:N.95 Water bridges: I:S.132, I:S.132, H:R.111 Salt bridges: I:R.136, H:R.90, H:R.90, H:R.91 TLA.12: 2 residues within 4Å: Chain G: V.68 Chain I: R.177 5 PLIP interactions: 5 interactions with chain I Water bridges: I:Q.175, I:R.177, I:R.177, I:R.177 Salt bridges: I:R.177 TLA.15: 12 residues within 4Å: Chain K: R.90, R.91, Q.94, N.95, Y.108, W.112 Chain L: S.108, C.131, S.132, C.133, R.136, R.186 13 PLIP interactions: 5 interactions with chain L, 8 interactions with chain K Hydrogen bonds: L:S.108, L:S.132, L:R.136, L:R.186, K:R.91, K:Q.94, K:N.95, K:Y.108, K:Y.108 Salt bridges: L:R.136, K:R.90, K:R.90, K:R.91 TLA.16: 2 residues within 4Å: Chain J: V.68 Chain L: R.177 7 PLIP interactions: 6 interactions with chain L, 1 interactions with chain J Water bridges: L:Q.175, L:R.177, L:R.177, L:R.177, L:R.177, J:V.68 Salt bridges: L:R.177

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Arakawa, T. et al., Structure of thiocyanate hydrolase: a new nitrile hydratase family protein with a novel five-coordinate cobalt(III) center. J.Mol.Biol. (2007)

Release Date

2007-01-30

Peptides

Thiocyanate hydrolase alpha subunit: ADGJ
Thiocyanate hydrolase beta subunit: BEHK
Thiocyanate hydrolase gamma subunit: CFIL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

D
D

G
G

J
J

B
B

E
E

H
H

K
K

C
C

F
F

I
I

L
L

Thiocyanate hydrolase alpha subunit

Thiocyanate hydrolase beta subunit

Thiocyanate hydrolase gamma subunit

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