SMTL ID : 1j30.2 (1 other biounit)

The crystal structure of sulerythrin, a rubrerythrin-like protein from a strictly aerobic and thermoacidiphilic archaeon

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-hexamer

Ligands

6 x FE: FE (III) ION(Non-covalent)

FE.1: 6 residues within 4Å: Chain A: E.20, E.53, H.56 Chain B: E.126 Ligands: ZN.4, OXY.6 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain B Metal complexes: A:E.20, A:E.20, A:E.53, A:H.56, B:E.126 FE.5: 6 residues within 4Å: Chain A: E.126 Chain B: E.20, E.53, H.56 Ligands: ZN.2, OXY.3 5 PLIP interactions: 4 interactions with chain B, 1 interactions with chain A Metal complexes: B:E.20, B:E.20, B:E.53, B:H.56, A:E.126 FE.7: 6 residues within 4Å: Chain C: E.20, E.53, H.56 Chain D: E.126 Ligands: ZN.10, OXY.12 5 PLIP interactions: 4 interactions with chain C, 1 interactions with chain D Metal complexes: C:E.20, C:E.20, C:E.53, C:H.56, D:E.126 FE.11: 6 residues within 4Å: Chain C: E.126 Chain D: E.20, E.53, H.56 Ligands: ZN.8, OXY.9 5 PLIP interactions: 4 interactions with chain D, 1 interactions with chain C Metal complexes: D:E.20, D:E.20, D:E.53, D:H.56, C:E.126 FE.13: 6 residues within 4Å: Chain E: E.20, E.53, H.56 Chain F: E.126 Ligands: ZN.16, OXY.18 5 PLIP interactions: 4 interactions with chain E, 1 interactions with chain F Metal complexes: E:E.20, E:E.20, E:E.53, E:H.56, F:E.126 FE.17: 6 residues within 4Å: Chain E: E.126 Chain F: E.20, E.53, H.56 Ligands: ZN.14, OXY.15 5 PLIP interactions: 4 interactions with chain F, 1 interactions with chain E Metal complexes: F:E.20, F:E.20, F:E.53, F:H.56, E:E.126

6 x ZN: ZINC ION(Non-covalent)

ZN.2: 6 residues within 4Å: Chain A: E.92, E.126, H.129 Chain B: E.53 Ligands: OXY.3, FE.5 5 PLIP interactions: 1 interactions with chain B, 4 interactions with chain A Metal complexes: B:E.53, A:E.92, A:E.92, A:E.126, A:H.129 ZN.4: 6 residues within 4Å: Chain A: E.53 Chain B: E.92, E.126, H.129 Ligands: FE.1, OXY.6 5 PLIP interactions: 4 interactions with chain B, 1 interactions with chain A Metal complexes: B:E.92, B:E.92, B:E.126, B:H.129, A:E.53 ZN.8: 6 residues within 4Å: Chain C: E.92, E.126, H.129 Chain D: E.53 Ligands: OXY.9, FE.11 5 PLIP interactions: 4 interactions with chain C, 1 interactions with chain D Metal complexes: C:E.92, C:E.92, C:E.126, C:H.129, D:E.53 ZN.10: 6 residues within 4Å: Chain C: E.53 Chain D: E.92, E.126, H.129 Ligands: FE.7, OXY.12 5 PLIP interactions: 4 interactions with chain D, 1 interactions with chain C Metal complexes: D:E.92, D:E.92, D:E.126, D:H.129, C:E.53 ZN.14: 6 residues within 4Å: Chain E: E.92, E.126, H.129 Chain F: E.53 Ligands: OXY.15, FE.17 5 PLIP interactions: 1 interactions with chain F, 4 interactions with chain E Metal complexes: F:E.53, E:E.92, E:E.92, E:E.126, E:H.129 ZN.16: 6 residues within 4Å: Chain E: E.53 Chain F: E.92, E.126, H.129 Ligands: FE.13, OXY.18 5 PLIP interactions: 4 interactions with chain F, 1 interactions with chain E Metal complexes: F:E.92, F:E.92, F:E.126, F:H.129, E:E.53

6 x OXY: OXYGEN MOLECULE(Non-covalent)

OXY.3: 7 residues within 4Å: Chain A: E.92, E.95, E.126 Chain B: E.20, E.53 Ligands: ZN.2, FE.5 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.95 OXY.6: 7 residues within 4Å: Chain A: E.20, E.53 Chain B: E.92, E.95, E.126 Ligands: FE.1, ZN.4 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.95 OXY.9: 7 residues within 4Å: Chain C: E.92, E.95, E.126 Chain D: E.20, E.53 Ligands: ZN.8, FE.11 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:E.95 OXY.12: 7 residues within 4Å: Chain C: E.20, E.53 Chain D: E.92, E.95, E.126 Ligands: FE.7, ZN.10 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:E.95 OXY.15: 7 residues within 4Å: Chain E: E.92, E.95, E.126 Chain F: E.20, E.53 Ligands: ZN.14, FE.17 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:E.95, E:E.126 OXY.18: 7 residues within 4Å: Chain E: E.20, E.53 Chain F: E.92, E.95, E.126 Ligands: FE.13, ZN.16 2 PLIP interactions: 1 interactions with chain F, 1 interactions with chain E Hydrogen bonds: F:E.95, E:E.53

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fushinobu, S. et al., The Crystal Structure of Sulerythrin, A Rubrerythrin-like Protein from A Strictly Aerobic Archaeon, Sulfolobus tokodaii strain 7, shows unexpected domain swapping. Biochemistry (2003)

Release Date

2003-10-14

Peptides

144aa long hypothetical rubrerythrin: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

E
A

F
B

144aa long hypothetical rubrerythrin

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