SMTL ID : 4hme.1

Crystal structure of cold-adapted chitinase from Moritella marina with a reaction product - NAG2

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.07 Å

Oligo State

homo-dimer

Ligands

2 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)

NAG-NAG.1: 17 residues within 4Å: Chain A: Y.14, W.18, R.22, Y.24, F.48, G.95, A.96, D.129, E.131, Q.196, Y.198, N.199, D.256, A.257, A.258, W.289, W.293 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:Y.24 Water bridges: A:R.22, A:R.22, A:Y.24, A:G.95, A:A.96 NAG-NAG.7: 17 residues within 4Å: Chain B: Y.14, W.18, R.22, Y.24, F.48, G.95, A.96, D.129, E.131, Q.196, Y.198, N.199, D.256, A.257, A.258, W.289, W.293 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:Y.24 Water bridges: B:R.22, B:R.22, B:G.95, B:A.96

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

NA.2: 5 residues within 4Å: Chain A: T.2, N.83, G.122, F.123, D.124 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.2, A:N.83 NA.8: 5 residues within 4Å: Chain B: T.2, N.83, G.122, F.123, D.124 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.83, B:D.124

8 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 5 residues within 4Å: Chain A: D.487, T.501, H.502, N.503, G.504 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.487, A:N.503, A:N.503, A:G.504 GOL.4: 9 residues within 4Å: Chain A: T.174, G.204, L.205, R.237, N.238, Y.239 Chain B: T.174, N.176, G.177 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:T.174, B:N.176, A:D.203, A:N.238 GOL.5: 8 residues within 4Å: Chain A: Q.132, A.133, I.135, T.136, Y.172 Chain B: G.202, D.203, W.212 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:A.133, A:T.136, B:D.203 GOL.6: 3 residues within 4Å: Chain A: E.56, I.59, T.61 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.56 Water bridges: A:I.59, A:I.59 GOL.9: 5 residues within 4Å: Chain B: D.487, T.501, H.502, N.503, G.504 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:D.487, B:N.503, B:N.503, B:G.504 Water bridges: B:H.502, B:H.502 GOL.10: 9 residues within 4Å: Chain A: T.174, N.176, G.177 Chain B: T.174, G.204, L.205, R.237, N.238, Y.239 5 PLIP interactions: 2 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:T.174, A:N.176, B:D.203, B:N.238, B:Y.239 GOL.11: 8 residues within 4Å: Chain A: G.202, D.203, W.212 Chain B: Q.132, A.133, I.135, T.136, Y.172 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:A.133, B:T.136, A:D.203 GOL.12: 3 residues within 4Å: Chain B: E.56, I.59, T.61 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:E.56, B:E.56 Water bridges: B:I.59, B:I.59

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Malecki, P.H. et al., Structure of a complete four-domain chitinase from Moritella marina, a marine psychrophilic bacterium. Acta Crystallogr.,Sect.D (2013)

Release Date

2013-05-01

Peptides

Chitinase 60: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Chitinase 60

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