SMTL ID : 5yk1.2 (1 other biounit)

The complex structure of Rv3197-AMPPNP from Mycobacterium tuberculosis

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-hexamer

Ligands

6 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER(Non-covalent)

ANP.1: 13 residues within 4Å: Chain A: A.141, S.142, A.143, S.144, V.148, A.160, K.162, Q.247, E.248, W.249, I.250, I.308, D.309 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:S.142, A:S.144, A:S.144, A:S.144, A:Q.247, A:I.250, A:D.309, A:D.309 Salt bridges: A:K.162 ANP.8: 13 residues within 4Å: Chain B: A.141, S.142, A.143, S.144, V.148, A.160, K.162, Q.247, E.248, W.249, I.250, I.308, D.309 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:S.142, B:S.144, B:S.144, B:S.144, B:Q.247, B:I.250, B:D.309, B:D.309 Salt bridges: B:K.162 ANP.15: 13 residues within 4Å: Chain C: A.141, S.142, A.143, S.144, V.148, A.160, K.162, Q.247, E.248, W.249, I.250, I.308, D.309 9 PLIP interactions: 9 interactions with chain C Hydrogen bonds: C:S.142, C:S.144, C:S.144, C:S.144, C:Q.247, C:I.250, C:D.309, C:D.309 Salt bridges: C:K.162 ANP.22: 13 residues within 4Å: Chain D: A.141, S.142, A.143, S.144, V.148, A.160, K.162, Q.247, E.248, W.249, I.250, I.308, D.309 10 PLIP interactions: 10 interactions with chain D Hydrogen bonds: D:S.142, D:S.144, D:S.144, D:S.144, D:Q.247, D:I.250, D:D.309, D:D.309, D:D.309 Salt bridges: D:K.162 ANP.29: 13 residues within 4Å: Chain E: A.141, S.142, A.143, S.144, V.148, A.160, K.162, Q.247, E.248, W.249, I.250, I.308, D.309 10 PLIP interactions: 10 interactions with chain E Hydrogen bonds: E:S.142, E:S.144, E:S.144, E:S.144, E:Q.247, E:I.250, E:D.309, E:D.309, E:D.309 Salt bridges: E:K.162 ANP.36: 13 residues within 4Å: Chain F: A.141, S.142, A.143, S.144, V.148, A.160, K.162, Q.247, E.248, W.249, I.250, I.308, D.309 10 PLIP interactions: 10 interactions with chain F Hydrogen bonds: F:S.142, F:S.144, F:S.144, F:S.144, F:Q.247, F:I.250, F:D.309, F:D.309, F:D.309 Salt bridges: F:K.162

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

SO4.2: 3 residues within 4Å: Chain A: Q.350, R.351, Q.403 Ligand excluded by PLIP SO4.3: 2 residues within 4Å: Chain A: R.131, W.153 Ligand excluded by PLIP SO4.4: 4 residues within 4Å: Chain A: V.195, Q.196, G.197 Chain D: R.393 Ligand excluded by PLIP SO4.5: 2 residues within 4Å: Chain A: K.103, R.118 Ligand excluded by PLIP SO4.6: 1 residues within 4Å: Chain A: R.213 Ligand excluded by PLIP SO4.9: 3 residues within 4Å: Chain B: Q.350, R.351, Q.403 Ligand excluded by PLIP SO4.10: 2 residues within 4Å: Chain B: R.131, W.153 Ligand excluded by PLIP SO4.11: 4 residues within 4Å: Chain B: V.195, Q.196, G.197 Chain F: R.393 Ligand excluded by PLIP SO4.12: 2 residues within 4Å: Chain B: K.103, R.118 Ligand excluded by PLIP SO4.13: 1 residues within 4Å: Chain B: R.213 Ligand excluded by PLIP SO4.16: 3 residues within 4Å: Chain C: Q.350, R.351, Q.403 Ligand excluded by PLIP SO4.17: 2 residues within 4Å: Chain C: R.131, W.153 Ligand excluded by PLIP SO4.18: 4 residues within 4Å: Chain C: V.195, Q.196, G.197 Chain E: R.393 Ligand excluded by PLIP SO4.19: 2 residues within 4Å: Chain C: K.103, R.118 Ligand excluded by PLIP SO4.20: 1 residues within 4Å: Chain C: R.213 Ligand excluded by PLIP SO4.23: 3 residues within 4Å: Chain D: Q.350, R.351, Q.403 Ligand excluded by PLIP SO4.24: 2 residues within 4Å: Chain D: R.131, W.153 Ligand excluded by PLIP SO4.25: 4 residues within 4Å: Chain A: R.393 Chain D: V.195, Q.196, G.197 Ligand excluded by PLIP SO4.26: 2 residues within 4Å: Chain D: K.103, R.118 Ligand excluded by PLIP SO4.27: 1 residues within 4Å: Chain D: R.213 Ligand excluded by PLIP SO4.30: 3 residues within 4Å: Chain E: Q.350, R.351, Q.403 Ligand excluded by PLIP SO4.31: 2 residues within 4Å: Chain E: R.131, W.153 Ligand excluded by PLIP SO4.32: 4 residues within 4Å: Chain C: R.393 Chain E: V.195, Q.196, G.197 Ligand excluded by PLIP SO4.33: 2 residues within 4Å: Chain E: K.103, R.118 Ligand excluded by PLIP SO4.34: 1 residues within 4Å: Chain E: R.213 Ligand excluded by PLIP SO4.37: 3 residues within 4Å: Chain F: Q.350, R.351, Q.403 Ligand excluded by PLIP SO4.38: 2 residues within 4Å: Chain F: R.131, W.153 Ligand excluded by PLIP SO4.39: 4 residues within 4Å: Chain B: R.393 Chain F: V.195, Q.196, G.197 Ligand excluded by PLIP SO4.40: 2 residues within 4Å: Chain F: K.103, R.118 Ligand excluded by PLIP SO4.41: 1 residues within 4Å: Chain F: R.213 Ligand excluded by PLIP

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.7: 5 residues within 4Å: Chain A: D.268, L.269, T.272, H.430, P.432 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.272, A:H.430 Water bridges: A:E.265, A:L.269 GOL.14: 5 residues within 4Å: Chain B: D.268, L.269, T.272, H.430, P.432 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:T.272, B:H.430 Water bridges: B:E.265, B:L.269 GOL.21: 5 residues within 4Å: Chain C: D.268, L.269, T.272, H.430, P.432 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:T.272, C:H.430 Water bridges: C:E.265, C:L.269 GOL.28: 5 residues within 4Å: Chain D: D.268, L.269, T.272, H.430, P.432 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:H.430 Water bridges: D:E.265, D:L.269 GOL.35: 5 residues within 4Å: Chain E: D.268, L.269, T.272, H.430, P.432 3 PLIP interactions: 3 interactions with chain E Hydrogen bonds: E:H.430 Water bridges: E:E.265, E:L.269 GOL.42: 5 residues within 4Å: Chain F: D.268, L.269, T.272, H.430, P.432 3 PLIP interactions: 3 interactions with chain F Hydrogen bonds: F:H.430 Water bridges: F:E.265, F:L.269

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, Q. et al., Discovery of the first macrolide antibiotic binding protein in Mycobacterium tuberculosis: a new antibiotic resistance drug target. Protein Cell (2018)

Release Date

2018-02-07

Peptides

Probable conserved ATP-binding protein ABC transporter: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

E
A

F
A

Probable conserved ATP-binding protein ABC transporter

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