SMTL ID : 6y1u.1

Mycobacterium tuberculosis FtsZ-GDP in complex with 4-hydroxycoumarin

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.68 Å

Oligo State

homo-dimer

Ligands

21 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.1: 10 residues within 4Å: Chain A: G.202, L.203, G.263, G.264, S.265, L.267, I.272, T.293, V.294, I.295 Ligand excluded by PLIP DMS.2: 7 residues within 4Å: Chain A: K.12, E.36, V.54, L.89 Chain B: N.22, R.26 Ligands: DMS.12 Ligand excluded by PLIP DMS.3: 5 residues within 4Å: Chain A: R.119, R.152, C.155, D.156, G.219 Ligand excluded by PLIP DMS.4: 4 residues within 4Å: Chain A: L.8, A.9, D.94, F.208 Ligand excluded by PLIP DMS.5: 5 residues within 4Å: Chain A: A.44, L.48, D.57 Chain B: L.47 Ligands: 4HC.23 Ligand excluded by PLIP DMS.6: 5 residues within 4Å: Chain A: R.131, V.160, P.162, L.222, E.248 Ligand excluded by PLIP DMS.7: 9 residues within 4Å: Chain A: T.157, I.214, M.215, A.218, G.256, V.257, L.258, I.308, A.310 Ligand excluded by PLIP DMS.8: 3 residues within 4Å: Chain A: I.295, D.296, D.297 Ligand excluded by PLIP DMS.10: 9 residues within 4Å: Chain B: G.202, L.203, G.263, G.264, S.265, L.267, T.293, V.294, I.295 Ligand excluded by PLIP DMS.11: 6 residues within 4Å: Chain B: I.198, T.199, T.200, P.201, N.205, V.206 Ligand excluded by PLIP DMS.12: 5 residues within 4Å: Chain A: E.36 Chain B: N.22, N.25, R.26 Ligands: DMS.2 Ligand excluded by PLIP DMS.13: 1 residues within 4Å: Chain B: N.205 Ligand excluded by PLIP DMS.14: 4 residues within 4Å: Chain B: T.220, S.250, A.309, G.311 Ligand excluded by PLIP DMS.15: 2 residues within 4Å: Chain B: T.199, T.200 Ligand excluded by PLIP DMS.16: 7 residues within 4Å: Chain B: A.100, G.101, E.102, G.103, G.104, T.108, T.130 Ligand excluded by PLIP DMS.17: 4 residues within 4Å: Chain B: P.132, E.136, G.137, R.139 Ligand excluded by PLIP DMS.18: 2 residues within 4Å: Chain B: Y.7, D.94 Ligand excluded by PLIP DMS.19: 5 residues within 4Å: Chain B: I.28, F.37, D.51, A.52, D.53 Ligand excluded by PLIP DMS.20: 4 residues within 4Å: Chain B: N.189, Q.192, A.262, R.304 Ligand excluded by PLIP DMS.21: 6 residues within 4Å: Chain B: R.131, V.160, P.162, T.220, L.222, E.248 Ligand excluded by PLIP DMS.22: 6 residues within 4Å: Chain A: D.53, V.54, K.55 Chain B: M.49, S.50, D.51 Ligand excluded by PLIP

1 x GDP: GUANOSINE-5'-DIPHOSPHATE(Non-covalent)

GDP.9: 19 residues within 4Å: Chain A: G.17, G.18, G.19, N.22, A.68, G.101, E.102, G.104, G.105, T.106, G.107, P.132, E.136, R.140, N.163, F.180, A.183, D.184, L.187 23 PLIP interactions: 23 interactions with chain A Hydrogen bonds: A:G.18, A:G.19, A:N.22, A:A.68, A:G.105, A:T.106, A:T.106, A:G.107, A:E.136, A:R.140, A:R.140, A:N.163 Water bridges: A:G.101, A:G.104, A:T.106, A:T.108, A:T.130, A:T.130, A:R.140, A:R.140, A:F.180, A:D.184 Salt bridges: A:D.184

2 x 4HC: 4-HYDROXY-2H-CHROMEN-2-ONE(Non-covalent)

4HC.23: 10 residues within 4Å: Chain B: A.39, N.41, L.47, L.48, M.49, S.50, K.55, L.56, D.57 Ligands: DMS.5 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:A.39, B:N.41, B:L.47, B:K.55, B:K.55, B:D.57 Hydrogen bonds: B:S.50 Salt bridges: B:K.55 4HC.24: 7 residues within 4Å: Chain B: E.185, N.189, I.225, G.226, S.227, R.304, V.305 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:I.225, B:R.304 Water bridges: B:S.227 Salt bridges: B:R.304 pi-Cation interactions: B:R.304

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Alnami, A. et al., Conformational Flexibility of A Highly Conserved Helix Controls Cryptic Pocket Formation in FtsZ. J.Mol.Biol. (2021)

Release Date

2021-06-09

Peptides

Cell division protein FtsZ: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Cell division protein FtsZ

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