SMTL ID : 1zps.1

Crystal structure of Methanobacterium thermoautotrophicum phosphoribosyl-AMP cyclohydrolase HisI

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-dimer

Ligands

19 x CD: CADMIUM ION(Non-covalent)

CD.1: 5 residues within 4Å: Chain A: D.85, D.87, D.89 Ligands: CD.2, CD.4 Ligand excluded by PLIP CD.2: 5 residues within 4Å: Chain A: D.85, C.86 Chain B: C.109 Ligands: CD.1, CD.21 Ligand excluded by PLIP CD.3: 1 residues within 4Å: Chain A: H.57 Ligand excluded by PLIP CD.4: 4 residues within 4Å: Chain A: H.16, D.87, D.89 Ligands: CD.1 Ligand excluded by PLIP CD.5: 3 residues within 4Å: Chain A: E.35, R.107, D.124 Ligand excluded by PLIP CD.6: 1 residues within 4Å: Chain A: H.75 Ligand excluded by PLIP CD.7: 6 residues within 4Å: Chain A: C.102, H.103, C.109 Chain B: C.86 Ligands: ACY.10, CD.14 Ligand excluded by PLIP CD.8: 3 residues within 4Å: Chain A: E.45, R.48, E.52 Ligand excluded by PLIP CD.9: 1 residues within 4Å: Chain A: D.22 Ligand excluded by PLIP CD.12: 1 residues within 4Å: Chain B: E.52 Ligand excluded by PLIP CD.13: 3 residues within 4Å: Chain B: H.57 Ligands: ACY.22, ACY.23 Ligand excluded by PLIP CD.14: 7 residues within 4Å: Chain A: C.109 Chain B: D.85, C.86 Ligands: CD.7, ACY.10, ACY.11, CD.16 Ligand excluded by PLIP CD.15: 4 residues within 4Å: Chain B: H.16, D.89 Ligands: CD.16, ACY.24 Ligand excluded by PLIP CD.16: 6 residues within 4Å: Chain B: D.85, D.87, D.89 Ligands: ACY.11, CD.14, CD.15 Ligand excluded by PLIP CD.17: 3 residues within 4Å: Chain A: C.86 Chain B: H.103 Ligands: CD.21 Ligand excluded by PLIP CD.18: 1 residues within 4Å: Chain B: H.75 Ligand excluded by PLIP CD.19: 1 residues within 4Å: Chain B: E.35 Ligand excluded by PLIP CD.20: 1 residues within 4Å: Chain B: E.21 Ligand excluded by PLIP CD.21: 5 residues within 4Å: Chain A: C.86 Chain B: C.102, C.109 Ligands: CD.2, CD.17 Ligand excluded by PLIP

5 x ACY: ACETIC ACID(Non-functional Binders)

ACY.10: 8 residues within 4Å: Chain A: A.101, C.102, H.103, C.109 Chain B: C.86 Ligands: CD.7, ACY.11, CD.14 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.103 Water bridges: A:A.101 Salt bridges: A:H.103 ACY.11: 7 residues within 4Å: Chain A: M.38, V.39, W.67, C.109 Ligands: ACY.10, CD.14, CD.16 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:W.67 Water bridges: A:V.39, A:V.39 ACY.22: 4 residues within 4Å: Chain B: H.57, L.68 Ligands: CD.13, ACY.23 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:H.57 ACY.23: 6 residues within 4Å: Chain B: R.49, H.57, L.66, L.68 Ligands: CD.13, ACY.22 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:L.66 Salt bridges: B:R.49, B:H.57 ACY.24: 6 residues within 4Å: Chain A: T.61 Chain B: R.15, H.16, D.87, D.89 Ligands: CD.15 5 PLIP interactions: 1 interactions with chain A, 4 interactions with chain B Hydrogen bonds: A:T.61 Water bridges: B:R.15, B:D.87 Salt bridges: B:R.15, B:H.16

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sivaraman, J. et al., Crystal Structure of Methanobacterium thermoautotrophicum Phosphoribosyl-AMP Cyclohydrolase HisI. Biochemistry (2005)

Release Date

2005-08-30

Peptides

Phosphoribosyl-AMP cyclohydrolase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Phosphoribosyl-AMP cyclohydrolase