SMTL ID : 6pub.1

Crystal Structure of the Type B Chloramphenicol Acetyltransferase from Vibrio cholerae in the Complex with Crystal Violet

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.43 Å

Oligo State

homo-trimer

Ligands

3 x CVI: CRYSTAL VIOLET(Non-covalent)

CVI.1: 14 residues within 4Å: Chain A: M.4, F.7, T.8, S.9, P.10, F.11, Y.36, Y.37 Chain C: Y.48, L.49, H.50, R.53, V.56, F.106 6 PLIP interactions: 3 interactions with chain C, 3 interactions with chain A Hydrophobic interactions: C:Y.48, C:H.50, A:F.7, A:F.7, A:F.11 pi-Stacking: C:H.50 CVI.15: 14 residues within 4Å: Chain A: Y.48, L.49, H.50, R.53, V.56, F.106 Chain B: M.4, F.7, T.8, S.9, P.10, F.11, Y.36, Y.37 6 PLIP interactions: 3 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:Y.48, A:H.50, B:F.7, B:F.7, B:F.11 pi-Stacking: A:H.50 CVI.29: 14 residues within 4Å: Chain B: Y.48, L.49, H.50, R.53, V.56, F.106 Chain C: M.4, F.7, T.8, S.9, P.10, F.11, Y.36, Y.37 6 PLIP interactions: 3 interactions with chain C, 3 interactions with chain B Hydrophobic interactions: C:F.7, C:F.7, C:F.11, B:Y.48, B:H.50 pi-Stacking: B:H.50

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

SO4.2: 3 residues within 4Å: Chain A: R.82, W.85, R.103 Ligand excluded by PLIP SO4.3: 3 residues within 4Å: Chain A: H.116, N.181 Ligands: SO4.5 Ligand excluded by PLIP SO4.4: 5 residues within 4Å: Chain A: P.15, D.17, Q.18, K.29, H.30 Ligand excluded by PLIP SO4.5: 9 residues within 4Å: Chain A: V.60, G.62, I.113, I.114, G.115, H.116, H.134 Ligands: SO4.3, CL.12 Ligand excluded by PLIP SO4.6: 8 residues within 4Å: Chain A: E.123, R.141 Chain B: E.123, R.141 Chain C: E.123, R.141 Ligands: SO4.20, SO4.34 Ligand excluded by PLIP SO4.7: 8 residues within 4Å: Chain A: W.182, W.186, E.189, S.190, L.202, N.205, W.206, K.209 Ligand excluded by PLIP SO4.13: 7 residues within 4Å: Chain A: G.77, N.78, Q.79, M.127 Chain B: W.119, S.140 Ligands: CL.24 Ligand excluded by PLIP SO4.14: 4 residues within 4Å: Chain A: H.161, I.162, K.163, F.164 Ligand excluded by PLIP SO4.16: 3 residues within 4Å: Chain B: R.82, W.85, R.103 Ligand excluded by PLIP SO4.17: 3 residues within 4Å: Chain B: H.116, N.181 Ligands: SO4.19 Ligand excluded by PLIP SO4.18: 5 residues within 4Å: Chain B: P.15, D.17, Q.18, K.29, H.30 Ligand excluded by PLIP SO4.19: 9 residues within 4Å: Chain B: V.60, G.62, I.113, I.114, G.115, H.116, H.134 Ligands: SO4.17, CL.26 Ligand excluded by PLIP SO4.20: 8 residues within 4Å: Chain A: E.123, R.141 Chain B: E.123, R.141 Chain C: E.123, R.141 Ligands: SO4.6, SO4.34 Ligand excluded by PLIP SO4.21: 8 residues within 4Å: Chain B: W.182, W.186, E.189, S.190, L.202, N.205, W.206, K.209 Ligand excluded by PLIP SO4.27: 7 residues within 4Å: Chain B: G.77, N.78, Q.79, M.127 Chain C: W.119, S.140 Ligands: CL.38 Ligand excluded by PLIP SO4.28: 4 residues within 4Å: Chain B: H.161, I.162, K.163, F.164 Ligand excluded by PLIP SO4.30: 3 residues within 4Å: Chain C: R.82, W.85, R.103 Ligand excluded by PLIP SO4.31: 3 residues within 4Å: Chain C: H.116, N.181 Ligands: SO4.33 Ligand excluded by PLIP SO4.32: 5 residues within 4Å: Chain C: P.15, D.17, Q.18, K.29, H.30 Ligand excluded by PLIP SO4.33: 9 residues within 4Å: Chain C: V.60, G.62, I.113, I.114, G.115, H.116, H.134 Ligands: SO4.31, CL.40 Ligand excluded by PLIP SO4.34: 8 residues within 4Å: Chain A: E.123, R.141 Chain B: E.123, R.141 Chain C: E.123, R.141 Ligands: SO4.6, SO4.20 Ligand excluded by PLIP SO4.35: 8 residues within 4Å: Chain C: W.182, W.186, E.189, S.190, L.202, N.205, W.206, K.209 Ligand excluded by PLIP SO4.41: 7 residues within 4Å: Chain A: W.119, S.140 Chain C: G.77, N.78, Q.79, M.127 Ligands: CL.10 Ligand excluded by PLIP SO4.42: 4 residues within 4Å: Chain C: H.161, I.162, K.163, F.164 Ligand excluded by PLIP

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

CL.8: 2 residues within 4Å: Chain A: K.160, H.161 Ligand excluded by PLIP CL.9: 5 residues within 4Å: Chain A: S.34, G.68, S.69 Chain C: Y.48, Q.79 Ligand excluded by PLIP CL.10: 3 residues within 4Å: Chain A: T.122 Chain C: Q.79 Ligands: SO4.41 Ligand excluded by PLIP CL.11: 2 residues within 4Å: Chain A: K.146, D.147 Ligand excluded by PLIP CL.12: 3 residues within 4Å: Chain A: I.132, H.134 Ligands: SO4.5 Ligand excluded by PLIP CL.22: 2 residues within 4Å: Chain B: K.160, H.161 Ligand excluded by PLIP CL.23: 5 residues within 4Å: Chain A: Y.48, Q.79 Chain B: S.34, G.68, S.69 Ligand excluded by PLIP CL.24: 3 residues within 4Å: Chain A: Q.79 Chain B: T.122 Ligands: SO4.13 Ligand excluded by PLIP CL.25: 2 residues within 4Å: Chain B: K.146, D.147 Ligand excluded by PLIP CL.26: 3 residues within 4Å: Chain B: I.132, H.134 Ligands: SO4.19 Ligand excluded by PLIP CL.36: 2 residues within 4Å: Chain C: K.160, H.161 Ligand excluded by PLIP CL.37: 5 residues within 4Å: Chain B: Y.48, Q.79 Chain C: S.34, G.68, S.69 Ligand excluded by PLIP CL.38: 3 residues within 4Å: Chain B: Q.79 Chain C: T.122 Ligands: SO4.27 Ligand excluded by PLIP CL.39: 2 residues within 4Å: Chain C: K.146, D.147 Ligand excluded by PLIP CL.40: 3 residues within 4Å: Chain C: I.132, H.134 Ligands: SO4.33 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kim, Y. et al., Crystal Structure of the Type B Chloramphenicol Acetyltransferase from Vibrio cholerae in the Complex with Crystal Violet. To Be Published

Release Date

2019-09-25

Peptides

Chloramphenicol acetyltransferase: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

Chloramphenicol acetyltransferase

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