SMTL ID : 3tz6.1

Crystal structure of Aspartate semialdehyde dehydrogenase Complexed With inhibitor SMCS (CYS) And Phosphate From Mycobacterium tuberculosis H37Rv

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-dimer

Ligands

2 x CYS: CYSTEINE(Non-covalent)

CYS.1: 9 residues within 4Å: Chain A: N.128, C.129, Q.156, G.160, E.223, R.248, H.255, N.324 Ligands: SO4.5 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.128, A:Q.156, A:E.223 Salt bridges: A:R.248, A:H.255 CYS.11: 9 residues within 4Å: Chain B: N.128, C.129, Q.156, G.160, E.223, R.248, H.255, N.324 Ligands: SO4.15 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:N.128, B:Q.156, B:E.223 Water bridges: B:E.223 Salt bridges: B:R.248, B:H.255

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 5 residues within 4Å: Chain A: K.99, Q.225, R.228, F.229, R.232 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.99, A:K.99, A:R.228, A:R.232 GOL.3: 7 residues within 4Å: Chain A: G.187, G.188, L.190, F.192, P.201 Chain B: L.291, A.292 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:L.190 Water bridges: A:G.187, A:F.192, B:L.291, B:A.292 GOL.4: 5 residues within 4Å: Chain A: S.108, E.109, Q.335, E.338, L.339 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.108 Water bridges: A:Q.335 GOL.12: 5 residues within 4Å: Chain B: K.99, Q.225, R.228, F.229, R.232 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:K.99, B:K.99, B:R.228, B:R.232 GOL.13: 7 residues within 4Å: Chain A: L.291, A.292 Chain B: G.187, G.188, L.190, F.192, P.201 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:L.190 Water bridges: B:G.187, B:F.192, A:L.291, A:A.292 GOL.14: 5 residues within 4Å: Chain B: S.108, E.109, Q.335, E.338, L.339 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.108, B:E.338 Water bridges: B:Q.335

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

SO4.5: 5 residues within 4Å: Chain A: R.98, N.128, C.129, K.226 Ligands: CYS.1 11 PLIP interactions: 9 interactions with chain A, 2 Ligand-Ligand interactions Hydrogen bonds: A:N.128, A:C.129, C.1, C.1 Water bridges: A:N.93, A:N.93, A:R.98, A:K.226, A:K.226 Salt bridges: A:R.98, A:K.226 SO4.6: 5 residues within 4Å: Chain A: G.11, Q.12, V.13, S.159, G.162 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.12, A:Q.12, A:V.13 Water bridges: A:G.14, A:S.70 SO4.7: 1 residues within 4Å: Chain A: R.232 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.232, A:R.232 Salt bridges: A:R.232 SO4.8: 3 residues within 4Å: Chain A: H.117, R.119, L.340 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:H.117, A:R.119 SO4.9: 2 residues within 4Å: Chain A: E.270, R.273 3 PLIP interactions: 3 interactions with chain A Water bridges: A:E.270, A:E.274 Salt bridges: A:R.273 SO4.10: 2 residues within 4Å: Chain A: G.41, E.52 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.41 SO4.15: 5 residues within 4Å: Chain B: R.98, N.128, C.129, K.226 Ligands: CYS.11 11 PLIP interactions: 9 interactions with chain B, 2 Ligand-Ligand interactions Hydrogen bonds: B:N.128, B:C.129, C.11, C.11 Water bridges: B:N.93, B:N.93, B:R.98, B:K.226, B:K.226 Salt bridges: B:R.98, B:K.226 SO4.16: 5 residues within 4Å: Chain B: G.11, Q.12, V.13, S.159, G.162 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:Q.12, B:Q.12, B:V.13 Water bridges: B:G.14, B:S.70 SO4.17: 1 residues within 4Å: Chain B: R.232 3 PLIP interactions: 3 interactions with chain B Water bridges: B:R.232, B:R.232 Salt bridges: B:R.232 SO4.18: 3 residues within 4Å: Chain B: H.117, R.119, L.340 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:H.117, B:R.119 SO4.19: 2 residues within 4Å: Chain B: E.270, R.273 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:E.270 Water bridges: B:E.270, B:E.274 Salt bridges: B:R.273 SO4.20: 2 residues within 4Å: Chain B: G.41, E.52 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:G.41

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Vyas, R. et al., Structures of ternary complexes of aspartate-semialdehyde dehydrogenase (Rv3708c) from Mycobacterium tuberculosis H37Rv. Acta Crystallogr.,Sect.D (2012)

Release Date

2012-05-30

Peptides

Aspartate-semialdehyde dehydrogenase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Aspartate-semialdehyde dehydrogenase