SMTL ID : 4q12.1

Crystal structure of a putative uncharacterized protein Rv3404c and likely sugar N-formyltransferase from Mycobacterium tuberculosis bound to uridine diphosphate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.85 Å

Oligo State

homo-dimer

Ligands

2 x UDP: URIDINE-5'-DIPHOSPHATE(Non-covalent)

UDP.1: 12 residues within 4Å: Chain A: N.31, H.84, K.86, F.114, Q.116, V.117, S.156, Y.160, F.200, H.226, F.229, N.231 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:F.114 Hydrogen bonds: A:N.31, A:Q.116, A:S.156, A:S.156, A:Y.160, A:N.231, A:N.231 Water bridges: A:K.86, A:K.86, A:K.86, A:K.86, A:F.114, A:F.114 Salt bridges: A:H.84, A:K.86 pi-Stacking: A:F.229 UDP.7: 11 residues within 4Å: Chain B: N.31, H.84, K.86, F.114, Q.116, S.156, Y.160, F.200, H.226, F.229, N.231 15 PLIP interactions: 15 interactions with chain B Hydrophobic interactions: B:F.114 Hydrogen bonds: B:N.31, B:Q.116, B:S.156, B:S.156, B:Y.160, B:H.226, B:N.231, B:N.231 Water bridges: B:D.30, B:K.86, B:K.86 Salt bridges: B:H.84, B:K.86 pi-Stacking: B:F.229

8 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.2: 7 residues within 4Å: Chain A: S.152, G.215, L.218, N.219, R.222 Chain B: L.208, F.234 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.152, A:N.219 Water bridges: A:G.215 EDO.3: 6 residues within 4Å: Chain A: I.94, V.97, R.98, C.99, E.132, I.133 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:I.94, A:C.99, A:E.132 EDO.4: 4 residues within 4Å: Chain A: L.28, D.30, S.53, C.85 No protein-ligand interaction detected (PLIP) EDO.5: 10 residues within 4Å: Chain A: C.85, Q.87, R.88, N.101, H.131, I.133, D.134, Q.136, L.137, D.138 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.134, A:D.138, A:D.138 Water bridges: A:D.134, A:H.139 EDO.8: 6 residues within 4Å: Chain B: I.94, V.97, R.98, C.99, E.132, I.133 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:I.94, B:C.99, B:E.132, B:I.133 EDO.9: 6 residues within 4Å: Chain A: F.234 Chain B: S.152, G.215, L.218, N.219, R.222 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.152, B:G.215, B:N.219 EDO.10: 4 residues within 4Å: Chain B: L.28, S.53, V.66, C.85 No protein-ligand interaction detected (PLIP) EDO.11: 8 residues within 4Å: Chain B: C.85, Q.87, N.101, H.131, I.133, Q.136, L.137, D.138 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:D.138, B:D.138, B:D.138 Water bridges: B:H.131, B:H.139

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

CL.6: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Edwards, T.E. et al., Crystal structure of a putative uncharacterized protein Rv3404c and likely sugar N-formyltransferase from Mycobacterium tuberculosis. To be Published

Release Date

2014-04-23

Peptides

Uncharacterized protein Rv3404c/MT3512: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Uncharacterized protein Rv3404c/MT3512

Related Entries With Identical Sequence