SMTL ID : 8v4v.1

Nan Regulatory Protein Full-length from Streptococcus pneumoniae

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.95 Å

Oligo State

homo-tetramer

Ligands

4 x BMX: 2-acetamido-2-deoxy-6-O-phosphono-alpha-D-mannopyranose(Non-covalent)

BMX.1: 17 residues within 4Å: Chain A: T.132, G.133, S.134, S.135, F.178, S.179, L.180, S.181, G.182, T.184, I.187, Y.229 Chain B: R.148, Y.265, W.266 Chain C: D.160, W.164 15 PLIP interactions: 3 interactions with chain B, 12 interactions with chain A Hydrophobic interactions: B:W.266, A:Y.229 Hydrogen bonds: B:R.148, B:R.148, A:T.132, A:T.132, A:T.132, A:S.134, A:S.135, A:S.135, A:S.179, A:L.180, A:S.181, A:S.181, A:T.184 BMX.4: 18 residues within 4Å: Chain A: L.144, R.148, Y.265, W.266, Y.274 Chain B: T.132, G.133, S.134, S.135, F.178, S.179, L.180, S.181, G.182, T.184, I.187 Chain D: D.160, W.164 13 PLIP interactions: 9 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:T.132, B:S.134, B:S.135, B:S.135, B:S.179, B:L.180, B:S.181, B:S.181, B:T.184, A:R.148, A:R.148, A:Y.265 Hydrophobic interactions: A:W.266 BMX.6: 17 residues within 4Å: Chain A: D.160, W.164 Chain C: T.132, G.133, S.134, S.135, F.178, S.179, L.180, S.181, G.182, T.184, I.187, Y.229 Chain D: R.148, Y.265, W.266 15 PLIP interactions: 12 interactions with chain C, 3 interactions with chain D Hydrophobic interactions: C:Y.229, D:W.266 Hydrogen bonds: C:T.132, C:T.132, C:T.132, C:S.134, C:S.135, C:S.135, C:S.179, C:L.180, C:S.181, C:S.181, C:T.184, D:R.148, D:R.148 BMX.9: 18 residues within 4Å: Chain B: D.160, W.164 Chain C: L.144, R.148, Y.265, W.266, Y.274 Chain D: T.132, G.133, S.134, S.135, F.178, S.179, L.180, S.181, G.182, T.184, I.187 13 PLIP interactions: 4 interactions with chain C, 9 interactions with chain D Hydrophobic interactions: C:W.266 Hydrogen bonds: C:R.148, C:R.148, C:Y.265, D:T.132, D:S.134, D:S.135, D:S.135, D:S.179, D:L.180, D:S.181, D:S.181, D:T.184

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

CL.2: 4 residues within 4Å: Chain A: S.99, R.102 Chain B: S.99, R.102 Ligand excluded by PLIP CL.7: 4 residues within 4Å: Chain C: S.99, R.102 Chain D: S.99, R.102 Ligand excluded by PLIP

4 x NA: SODIUM ION(Non-functional Binders)

NA.3: 6 residues within 4Å: Chain A: S.97, H.224, S.225, Q.226, R.232, I.233 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.225, A:Q.226, A:I.233 NA.5: 6 residues within 4Å: Chain B: S.97, H.224, S.225, Q.226, R.232, I.233 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:S.97, B:S.225, B:Q.226, B:I.233 NA.8: 6 residues within 4Å: Chain C: S.97, H.224, S.225, Q.226, R.232, I.233 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:S.225, C:Q.226, C:I.233 NA.10: 6 residues within 4Å: Chain D: S.97, H.224, S.225, Q.226, R.232, I.233 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:S.97, D:S.225, D:Q.226, D:I.233

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wood, D.M. et al., Structure of full-length nan-regulatory protein (NanR) from Streptococcus pneumoniae. To Be Published

Release Date

2024-12-04

Peptides

Phosphosugar-binding transcriptional regulator: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

C
B

D
A

Phosphosugar-binding transcriptional regulator

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