SMTL ID : 3lho.1

Crystal structure of putative hydrolase (YP_751971.1) from Shewanella frigidimarina NCIMB 400 at 1.80 A resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

1 x NI: NICKEL (II) ION(Non-covalent)

NI.1: 5 residues within 4Å: Chain A: H.41, H.165, T.167, Q.210, E.235 6 PLIP interactions: 3 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:H.41, A:H.165, A:E.235, H2O.2, H2O.2, H2O.2

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

SO4.2: 4 residues within 4Å: Chain A: N.48, I.49, A.50, H.113 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:A.50 SO4.3: 3 residues within 4Å: Chain A: F.74, E.75, Q.76 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.75, A:Q.76 Water bridges: A:K.77 SO4.4: 4 residues within 4Å: Chain A: H.3, T.4, D.5, A.8 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.4, A:T.4, A:T.4, A:D.5 Salt bridges: A:H.3

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 5 residues within 4Å: Chain A: K.77, E.149, S.150, E.151, Y.152 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.149, A:S.150, A:E.151, A:Y.152 GOL.6: 3 residues within 4Å: Chain A: I.64, G.65, H.86 2 PLIP interactions: 2 interactions with chain A Water bridges: A:T.4, A:G.65 GOL.7: 6 residues within 4Å: Chain A: K.201, Q.210, S.211, S.212, F.233, E.235 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.210, A:S.212 Water bridges: A:S.212, A:S.212 GOL.8: 2 residues within 4Å: Chain A: A.50, K.51 3 PLIP interactions: 3 interactions with chain A Water bridges: A:K.51, A:K.51, A:K.51

2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.9: 5 residues within 4Å: Chain A: K.19, L.159, R.162, V.219, V.220 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.162, A:R.162 Water bridges: A:R.134, A:N.221 PEG.10: 7 residues within 4Å: Chain A: A.43, R.45, F.74, K.77, L.79, Y.152, N.164 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.45, A:K.77, A:N.164

1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.11: 6 residues within 4Å: Chain A: P.22, S.23, K.26, A.189, G.190, F.191 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.26

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Joint Center for Structural Genomics (JCSG), Crystal structure of putative hydrolase (YP_751971.1) from Shewanella frigidimarina NCIMB 400 at 1.80 A resolution. To be published

Release Date

2010-03-09

Peptides

Putative hydrolase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Putative hydrolase