SMTL ID : 1ii0.3 (3 other biounits)

CRYSTAL STRUCTURE OF THE ESCHERICHIA COLI ARSENITE-TRANSLOCATING ATPASE

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-tetramer

Ligands

34 x CD: CADMIUM ION(Non-covalent)

CD.1: 6 residues within 4Å: Chain A: C.113, C.172, S.420, C.422 Ligands: CD.2, CL.10 Ligand excluded by PLIP CD.2: 6 residues within 4Å: Chain A: C.172, H.453, L.457 Ligands: CD.1, CL.10, CL.11 Ligand excluded by PLIP CD.3: 3 residues within 4Å: Chain A: C.113, H.148, S.420 Ligand excluded by PLIP CD.4: 4 residues within 4Å: Chain A: D.320 Chain B: H.585, H.587 Ligands: CL.12 Ligand excluded by PLIP CD.5: 2 residues within 4Å: Chain A: H.585, H.588 Ligand excluded by PLIP CD.6: 3 residues within 4Å: Chain A: H.584, H.586 Chain B: E.326 Ligand excluded by PLIP CD.7: 2 residues within 4Å: Chain A: E.168, H.397 Ligand excluded by PLIP CD.8: 4 residues within 4Å: Chain A: D.386, H.388 Chain D: D.386, H.388 Ligand excluded by PLIP CD.9: 2 residues within 4Å: Chain A: E.515, H.520 Ligand excluded by PLIP CD.18: 6 residues within 4Å: Chain B: C.113, C.172, S.420, C.422 Ligands: CD.19, CL.26 Ligand excluded by PLIP CD.19: 5 residues within 4Å: Chain B: C.172, H.453 Ligands: CD.18, CL.26, CL.27 Ligand excluded by PLIP CD.20: 4 residues within 4Å: Chain B: C.113, H.148, S.420 Ligands: CL.28 Ligand excluded by PLIP CD.21: 4 residues within 4Å: Chain A: H.587, H.589 Chain B: D.321, H.588 Ligand excluded by PLIP CD.22: 3 residues within 4Å: Chain A: E.326 Chain B: H.584, H.586 Ligand excluded by PLIP CD.23: 2 residues within 4Å: Chain B: E.168, H.397 Ligand excluded by PLIP CD.24: 1 residues within 4Å: Chain B: H.589 Ligand excluded by PLIP CD.25: 3 residues within 4Å: Chain B: E.515, H.520 Ligands: CL.29 Ligand excluded by PLIP CD.35: 6 residues within 4Å: Chain C: C.113, C.172, S.420, C.422 Ligands: CD.36, CL.44 Ligand excluded by PLIP CD.36: 6 residues within 4Å: Chain C: C.172, H.453, L.457 Ligands: CD.35, CL.44, CL.45 Ligand excluded by PLIP CD.37: 3 residues within 4Å: Chain C: C.113, H.148, S.420 Ligand excluded by PLIP CD.38: 4 residues within 4Å: Chain C: D.320 Chain D: H.585, H.587 Ligands: CL.46 Ligand excluded by PLIP CD.39: 2 residues within 4Å: Chain C: H.585, H.588 Ligand excluded by PLIP CD.40: 3 residues within 4Å: Chain C: H.584, H.586 Chain D: E.326 Ligand excluded by PLIP CD.41: 2 residues within 4Å: Chain C: E.168, H.397 Ligand excluded by PLIP CD.42: 4 residues within 4Å: Chain B: D.386, H.388 Chain C: D.386, H.388 Ligand excluded by PLIP CD.43: 2 residues within 4Å: Chain C: E.515, H.520 Ligand excluded by PLIP CD.52: 6 residues within 4Å: Chain D: C.113, C.172, S.420, C.422 Ligands: CD.53, CL.60 Ligand excluded by PLIP CD.53: 5 residues within 4Å: Chain D: C.172, H.453 Ligands: CD.52, CL.60, CL.61 Ligand excluded by PLIP CD.54: 4 residues within 4Å: Chain D: C.113, H.148, S.420 Ligands: CL.62 Ligand excluded by PLIP CD.55: 4 residues within 4Å: Chain C: H.587, H.589 Chain D: D.321, H.588 Ligand excluded by PLIP CD.56: 3 residues within 4Å: Chain C: E.326 Chain D: H.584, H.586 Ligand excluded by PLIP CD.57: 2 residues within 4Å: Chain D: E.168, H.397 Ligand excluded by PLIP CD.58: 1 residues within 4Å: Chain D: H.589 Ligand excluded by PLIP CD.59: 3 residues within 4Å: Chain D: E.515, H.520 Ligands: CL.63 Ligand excluded by PLIP

14 x CL: CHLORIDE ION(Non-functional Binders)

CL.10: 8 residues within 4Å: Chain A: G.111, A.112, C.113, C.172, H.453 Ligands: CD.1, CD.2, CL.11 Ligand excluded by PLIP CL.11: 7 residues within 4Å: Chain A: Q.108, G.111, C.113, T.114, H.453 Ligands: CD.2, CL.10 Ligand excluded by PLIP CL.12: 7 residues within 4Å: Chain A: D.320, H.585, H.587, H.588 Chain B: H.585, H.587 Ligands: CD.4 Ligand excluded by PLIP CL.26: 8 residues within 4Å: Chain B: G.111, A.112, C.113, C.172, H.453 Ligands: CD.18, CD.19, CL.27 Ligand excluded by PLIP CL.27: 7 residues within 4Å: Chain B: Q.108, G.111, C.113, T.114, H.453 Ligands: CD.19, CL.26 Ligand excluded by PLIP CL.28: 5 residues within 4Å: Chain B: C.113, E.116, I.117, T.149 Ligands: CD.20 Ligand excluded by PLIP CL.29: 2 residues within 4Å: Chain B: E.515 Ligands: CD.25 Ligand excluded by PLIP CL.44: 8 residues within 4Å: Chain C: G.111, A.112, C.113, C.172, H.453 Ligands: CD.35, CD.36, CL.45 Ligand excluded by PLIP CL.45: 7 residues within 4Å: Chain C: Q.108, G.111, C.113, T.114, H.453 Ligands: CD.36, CL.44 Ligand excluded by PLIP CL.46: 7 residues within 4Å: Chain C: D.320, H.585, H.587, H.588 Chain D: H.585, H.587 Ligands: CD.38 Ligand excluded by PLIP CL.60: 8 residues within 4Å: Chain D: G.111, A.112, C.113, C.172, H.453 Ligands: CD.52, CD.53, CL.61 Ligand excluded by PLIP CL.61: 7 residues within 4Å: Chain D: Q.108, G.111, C.113, T.114, H.453 Ligands: CD.53, CL.60 Ligand excluded by PLIP CL.62: 5 residues within 4Å: Chain D: C.113, E.116, I.117, T.149 Ligands: CD.54 Ligand excluded by PLIP CL.63: 2 residues within 4Å: Chain D: E.515 Ligands: CD.59 Ligand excluded by PLIP

8 x MG: MAGNESIUM ION(Non-covalent)

MG.13: 4 residues within 4Å: Chain A: T.22, D.45, D.142 Ligands: ADP.15 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:T.22, A:D.45, H2O.4, H2O.5, H2O.6 MG.14: 3 residues within 4Å: Chain A: T.341, D.447 Ligands: ATP.16 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:T.341, H2O.2, H2O.4, H2O.6 MG.30: 4 residues within 4Å: Chain B: T.22, D.45, D.142 Ligands: ADP.32 5 PLIP interactions: 2 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:T.22, B:D.45, H2O.7, H2O.7, H2O.11 MG.31: 3 residues within 4Å: Chain B: T.341, D.447 Ligands: ATP.33 4 PLIP interactions: 1 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:T.341, H2O.8, H2O.9, H2O.11 MG.47: 4 residues within 4Å: Chain C: T.22, D.45, D.142 Ligands: ADP.49 5 PLIP interactions: 2 interactions with chain C, 3 Ligand-Water interactions Metal complexes: C:T.22, C:D.45, H2O.17, H2O.19, H2O.19 MG.48: 3 residues within 4Å: Chain C: T.341, D.447 Ligands: ATP.50 4 PLIP interactions: 1 interactions with chain C, 3 Ligand-Water interactions Metal complexes: C:T.341, H2O.16, H2O.17, H2O.20 MG.64: 4 residues within 4Å: Chain D: T.22, D.45, D.142 Ligands: ADP.66 5 PLIP interactions: 2 interactions with chain D, 3 Ligand-Water interactions Metal complexes: D:T.22, D:D.45, H2O.21, H2O.21, H2O.25 MG.65: 3 residues within 4Å: Chain D: T.341, D.447 Ligands: ATP.67 4 PLIP interactions: 1 interactions with chain D, 3 Ligand-Water interactions Metal complexes: D:T.341, H2O.22, H2O.22, H2O.24

4 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.15: 21 residues within 4Å: Chain A: K.16, G.17, G.18, V.19, G.20, K.21, T.22, S.23, N.235, G.236, F.276, L.277, Q.278, N.281, M.282, L.291, T.501, T.502, R.543 Ligands: MG.13, TAS.17 27 PLIP interactions: 27 interactions with chain A Hydrogen bonds: A:K.16, A:G.18, A:G.20, A:K.21, A:T.22, A:T.22, A:S.23, A:S.23, A:N.235, A:G.236, A:F.276, A:Q.278, A:M.282, A:M.282, A:T.501, A:T.502, A:R.543, A:R.543 Water bridges: A:K.21, A:K.21, A:N.49, A:N.49, A:N.281, A:N.281, A:N.281 Salt bridges: A:K.21 pi-Cation interactions: A:R.206 ADP.32: 21 residues within 4Å: Chain B: K.16, G.18, V.19, G.20, K.21, T.22, S.23, D.45, R.206, N.235, G.236, F.276, L.277, Q.278, N.281, M.282, T.501, T.502, R.543 Ligands: MG.30, TAS.34 28 PLIP interactions: 28 interactions with chain B Hydrogen bonds: B:K.16, B:G.18, B:G.20, B:G.20, B:K.21, B:T.22, B:S.23, B:S.23, B:N.235, B:G.236, B:F.276, B:Q.278, B:M.282, B:M.282, B:T.501, B:T.501, B:T.502, B:R.543, B:R.543 Water bridges: B:K.21, B:T.22, B:D.45, B:N.49, B:N.281, B:T.501, B:T.502 Salt bridges: B:K.21 pi-Cation interactions: B:R.206 ADP.49: 21 residues within 4Å: Chain C: K.16, G.17, G.18, V.19, G.20, K.21, T.22, S.23, N.235, G.236, F.276, L.277, Q.278, N.281, M.282, L.291, T.501, T.502, R.543 Ligands: MG.47, TAS.51 27 PLIP interactions: 27 interactions with chain C Hydrogen bonds: C:K.16, C:G.18, C:G.20, C:K.21, C:T.22, C:T.22, C:S.23, C:S.23, C:N.235, C:G.236, C:F.276, C:Q.278, C:M.282, C:M.282, C:T.501, C:T.502, C:R.543, C:R.543 Water bridges: C:K.21, C:K.21, C:N.49, C:N.49, C:N.281, C:N.281, C:N.281 Salt bridges: C:K.21 pi-Cation interactions: C:R.206 ADP.66: 21 residues within 4Å: Chain D: K.16, G.18, V.19, G.20, K.21, T.22, S.23, D.45, R.206, N.235, G.236, F.276, L.277, Q.278, N.281, M.282, T.501, T.502, R.543 Ligands: MG.64, TAS.68 29 PLIP interactions: 29 interactions with chain D Hydrogen bonds: D:K.16, D:G.18, D:G.20, D:G.20, D:K.21, D:T.22, D:S.23, D:S.23, D:N.235, D:G.236, D:F.276, D:Q.278, D:M.282, D:M.282, D:T.501, D:T.501, D:T.502, D:R.543, D:R.543 Water bridges: D:K.21, D:T.22, D:T.22, D:D.45, D:N.49, D:N.281, D:T.501, D:T.502 Salt bridges: D:K.21 pi-Cation interactions: D:R.206

4 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.16: 18 residues within 4Å: Chain A: Q.208, S.210, K.335, G.336, G.337, V.338, G.339, K.340, T.341, T.342, N.527, N.528, V.565, P.566, L.568, P.572, L.581 Ligands: MG.14 20 PLIP interactions: 20 interactions with chain A Hydrogen bonds: A:Q.208, A:K.335, A:G.337, A:G.339, A:K.340, A:T.341, A:T.342, A:T.342, A:N.527, A:P.566, A:L.568 Water bridges: A:S.210, A:S.210, A:T.341, A:T.341, A:T.341, A:T.342, A:P.572 Salt bridges: A:K.340, A:K.340 ATP.33: 18 residues within 4Å: Chain B: Q.208, S.210, K.335, G.336, G.337, V.338, G.339, K.340, T.341, T.342, N.527, N.528, P.566, L.568, E.571, P.572, L.581 Ligands: MG.31 19 PLIP interactions: 19 interactions with chain B Hydrogen bonds: B:Q.208, B:K.335, B:G.337, B:G.339, B:K.340, B:T.341, B:T.341, B:T.342, B:T.342, B:N.527, B:N.528, B:N.528, B:P.566, B:L.568 Water bridges: B:S.210, B:S.210, B:T.341 Salt bridges: B:K.340, B:K.340 ATP.50: 18 residues within 4Å: Chain C: Q.208, S.210, K.335, G.336, G.337, V.338, G.339, K.340, T.341, T.342, N.527, N.528, V.565, P.566, L.568, P.572, L.581 Ligands: MG.48 20 PLIP interactions: 20 interactions with chain C Hydrogen bonds: C:Q.208, C:K.335, C:G.337, C:G.339, C:K.340, C:T.341, C:T.342, C:T.342, C:N.527, C:P.566, C:L.568 Water bridges: C:S.210, C:S.210, C:T.341, C:T.341, C:T.341, C:T.342, C:P.572 Salt bridges: C:K.340, C:K.340 ATP.67: 18 residues within 4Å: Chain D: Q.208, S.210, K.335, G.336, G.337, V.338, G.339, K.340, T.341, T.342, N.527, N.528, P.566, L.568, E.571, P.572, L.581 Ligands: MG.65 19 PLIP interactions: 19 interactions with chain D Hydrogen bonds: D:Q.208, D:K.335, D:G.337, D:G.339, D:K.340, D:T.341, D:T.341, D:T.342, D:T.342, D:N.527, D:N.528, D:N.528, D:P.566, D:L.568 Water bridges: D:S.210, D:S.210, D:T.341 Salt bridges: D:K.340, D:K.340

4 x TAS: TRIHYDROXYARSENITE(III)(Non-covalent)

TAS.17: 6 residues within 4Å: Chain A: G.18, R.206, L.277, E.500, R.543 Ligands: ADP.15 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.206, A:R.206, A:R.543 Water bridges: A:N.281 TAS.34: 4 residues within 4Å: Chain B: R.206, E.500, R.543 Ligands: ADP.32 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.206, B:R.206, B:R.543 Water bridges: B:N.281 TAS.51: 6 residues within 4Å: Chain C: G.18, R.206, L.277, E.500, R.543 Ligands: ADP.49 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:R.206, C:R.206, C:R.543 Water bridges: C:N.281 TAS.68: 4 residues within 4Å: Chain D: R.206, E.500, R.543 Ligands: ADP.66 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:R.206, D:R.206, D:R.543 Water bridges: D:N.281

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhou, T. et al., Conformational changes in four regions of the Escherichia coli ArsA ATPase link ATP hydrolysis to ion translocation. J.Biol.Chem. (2001)

Release Date

2001-09-12

Peptides

ARSENICAL PUMP-DRIVING ATPASE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

ARSENICAL PUMP-DRIVING ATPASE

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