SMTL ID : 2dd5.1

Thiocyanate hydrolase (SCNase) from Thiobacillus thioparus native holo-enzyme

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

hetero-4-4-4-mer

Ligands

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

SO4.1: 4 residues within 4Å: Chain A: P.49, D.50 Chain B: R.41 Chain K: R.139 10 PLIP interactions: 4 interactions with chain K, 5 interactions with chain A, 1 interactions with chain B Water bridges: K:R.139, K:R.139, K:R.139, A:D.47, A:D.50, A:L.51, A:L.51 Salt bridges: K:R.139, B:R.41 Hydrogen bonds: A:D.50 SO4.3: 9 residues within 4Å: Chain B: R.90, R.91, W.112 Chain C: S.108, C.131, S.132, C.133, R.136 Ligands: 3CO.2 8 PLIP interactions: 5 interactions with chain B, 3 interactions with chain C Hydrogen bonds: B:Y.108, C:S.132 Water bridges: B:R.90, B:Q.94, C:R.186 Salt bridges: B:R.90, B:R.91, C:R.136 SO4.4: 4 residues within 4Å: Chain D: P.49, D.50 Chain E: R.41 Chain H: R.139 11 PLIP interactions: 3 interactions with chain E, 3 interactions with chain D, 5 interactions with chain H Water bridges: E:R.41, E:R.41, D:L.51, H:R.139, H:R.139, H:R.139, H:R.139 Salt bridges: E:R.41, H:R.139 Hydrogen bonds: D:D.50, D:D.50 SO4.6: 9 residues within 4Å: Chain E: R.90, R.91, W.112 Chain F: S.108, C.131, S.132, C.133, R.136 Ligands: 3CO.5 6 PLIP interactions: 4 interactions with chain E, 2 interactions with chain F Water bridges: E:R.90, E:R.90, F:Y.134 Salt bridges: E:R.90, E:R.91, F:R.136 SO4.7: 4 residues within 4Å: Chain E: R.139 Chain G: P.49, D.50 Chain H: R.41 12 PLIP interactions: 3 interactions with chain H, 3 interactions with chain E, 6 interactions with chain G Water bridges: H:T.44, H:T.44, E:R.139, E:R.139, G:L.48, G:D.50, G:D.50, G:D.50, G:L.51 Salt bridges: H:R.41, E:R.139 Hydrogen bonds: G:D.50 SO4.9: 9 residues within 4Å: Chain H: R.90, R.91, W.112 Chain I: S.108, C.131, S.132, C.133, R.136 Ligands: 3CO.8 8 PLIP interactions: 3 interactions with chain I, 5 interactions with chain H Hydrogen bonds: I:S.132 Water bridges: I:Y.134, H:R.90, H:Q.94, H:Q.94 Salt bridges: I:R.136, H:R.90, H:R.91 SO4.10: 5 residues within 4Å: Chain H: E.65, L.70 Chain I: V.56, H.57, Q.141 3 PLIP interactions: 1 interactions with chain I, 2 interactions with chain H Salt bridges: I:H.57 Water bridges: H:E.65, H:E.65 SO4.11: 6 residues within 4Å: Chain I: Q.169, L.170, P.171 Chain L: Q.169, L.170, P.171 4 PLIP interactions: 2 interactions with chain L, 2 interactions with chain I Hydrogen bonds: L:Q.169, I:Q.169 Water bridges: L:S.172, I:S.172 SO4.12: 4 residues within 4Å: Chain B: R.139 Chain J: P.49, D.50 Chain K: R.41 12 PLIP interactions: 3 interactions with chain K, 5 interactions with chain B, 4 interactions with chain J Water bridges: K:T.44, K:T.44, B:R.139, B:R.139, B:R.139, B:R.139, J:D.50, J:D.50, J:L.51 Salt bridges: K:R.41, B:R.139 Hydrogen bonds: J:D.50 SO4.14: 9 residues within 4Å: Chain K: R.90, R.91, W.112 Chain L: S.108, C.131, S.132, C.133, R.136 Ligands: 3CO.13 8 PLIP interactions: 5 interactions with chain K, 3 interactions with chain L Water bridges: K:R.90, K:Q.94, K:Q.94, L:Y.134 Salt bridges: K:R.90, K:R.91, L:R.136 Hydrogen bonds: L:S.132 SO4.15: 4 residues within 4Å: Chain L: L.73, R.193, D.198, G.199 2 PLIP interactions: 2 interactions with chain L Hydrogen bonds: L:G.199 Salt bridges: L:R.193 SO4.16: 4 residues within 4Å: Chain K: E.65, L.70 Chain L: H.57, Q.141 2 PLIP interactions: 1 interactions with chain K, 1 interactions with chain L Hydrogen bonds: K:E.65 Salt bridges: L:H.57

4 x 3CO: COBALT (III) ION(Non-covalent)

3CO.2: 5 residues within 4Å: Chain C: C.128, C.131, S.132, C.133 Ligands: SO4.3 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:C.128 3CO.5: 5 residues within 4Å: Chain F: C.128, C.131, S.132, C.133 Ligands: SO4.6 1 PLIP interactions: 1 interactions with chain F Metal complexes: F:C.128 3CO.8: 5 residues within 4Å: Chain I: C.128, C.131, S.132, C.133 Ligands: SO4.9 1 PLIP interactions: 1 interactions with chain I Metal complexes: I:C.128 3CO.13: 5 residues within 4Å: Chain L: C.128, C.131, S.132, C.133 Ligands: SO4.14 1 PLIP interactions: 1 interactions with chain L Metal complexes: L:C.128

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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