SMTL ID : 3nrd.3 (3 other biounits)

Crystal structure of a histidine triad (HIT) protein (SMc02904) from SINORHIZOBIUM MELILOTI 1021 at 2.06 A resolution

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.06 Å

Oligo State

homo-tetramer

Ligands

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 4 residues within 4Å: Chain A: P.35, T.75, W.119, F.127 1 PLIP interactions: 1 interactions with chain A Water bridges: A:T.75 GOL.2: 9 residues within 4Å: Chain A: R.10, L.11, D.14, M.29, I.88, V.89, H.93, H.95 Ligands: SO4.4 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.14, A:D.14, A:H.93 GOL.6: 5 residues within 4Å: Chain A: N.65, I.82 Chain B: V.49, T.61, T.64 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:T.64, B:T.64, A:N.65, A:N.65 Water bridges: B:T.61 GOL.7: 7 residues within 4Å: Chain B: R.10, L.11, D.14, I.88, V.89, H.93 Ligands: SO4.11 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.14, B:H.93

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

SO4.3: 3 residues within 4Å: Chain A: G.1, R.43, A.44 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:A.44 Water bridges: A:G.1, A:R.43 SO4.4: 8 residues within 4Å: Chain A: L.85, G.86, N.87, I.88, V.89, H.93, H.95 Ligands: GOL.2 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:L.85, A:G.86, A:N.87, A:I.88, A:V.89, A:V.89 Salt bridges: A:H.93, A:H.95 SO4.5: 5 residues within 4Å: Chain A: M.2, T.20, L.21, G.22, Q.42 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:L.21, A:Q.42 SO4.8: 6 residues within 4Å: Chain A: P.54, Q.57, A.58 Chain B: A.58, T.61, F.62 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.57 SO4.9: 5 residues within 4Å: Chain B: T.3, Q.42, R.43 Chain C: T.20, L.21 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain C Hydrogen bonds: B:R.43 Water bridges: C:Q.42, C:Q.42 SO4.10: 4 residues within 4Å: Chain B: M.2, T.3, R.43, A.44 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:T.3, B:A.44 Water bridges: B:T.4, B:A.44 SO4.11: 8 residues within 4Å: Chain B: L.85, G.86, N.87, I.88, V.89, H.93, H.95 Ligands: GOL.7 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:G.86, B:I.88, B:V.89 Water bridges: B:L.85, B:N.87, B:N.87 Salt bridges: B:H.93, B:H.95 SO4.12: 7 residues within 4Å: Chain C: L.85, G.86, N.87, I.88, V.89, H.93, H.95 9 PLIP interactions: 9 interactions with chain C Hydrogen bonds: C:G.86, C:I.88, C:V.89, C:V.89 Water bridges: C:L.85, C:N.87, C:N.87 Salt bridges: C:H.93, C:H.95 SO4.13: 4 residues within 4Å: Chain C: M.2, T.3, R.43, A.44 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:A.44 Water bridges: C:T.4, C:A.44 SO4.14: 2 residues within 4Å: Chain C: K.47, R.90 4 PLIP interactions: 4 interactions with chain C Water bridges: C:R.10, C:R.10, C:Q.91 Salt bridges: C:K.47 SO4.15: 6 residues within 4Å: Chain C: A.58, T.61, F.62 Chain D: P.54, Q.57, A.58 No protein-ligand interaction detected (PLIP) SO4.16: 3 residues within 4Å: Chain D: G.1, R.43, A.44 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:A.44 Water bridges: D:R.43 SO4.17: 7 residues within 4Å: Chain D: L.85, G.86, N.87, I.88, V.89, H.93, H.95 8 PLIP interactions: 8 interactions with chain D Hydrogen bonds: D:L.85, D:G.86, D:I.88, D:V.89 Water bridges: D:N.87, D:N.87 Salt bridges: D:H.93, D:H.95

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Joint Center for Structural Genomics (JCSG), Crystal structure of a histidine triad (HIT) protein (SMc02904) from SINORHIZOBIUM MELILOTI 1021 at 2.06 A resolution. To be published

Release Date

2010-07-28

Peptides

histidine triad (HIT) protein: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

histidine triad (HIT) protein

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