SMTL ID : 5o5o.1

X-ray crystal structure of RapZ from Escherichia coli (P32 space group)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.40 Å

Oligo State

homo-tetramer

Ligands

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

SO4.1: 7 residues within 4Å: Chain A: N.188, H.190, C.247, T.248, G.249, H.252, R.253 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.188, A:T.248, A:T.248, A:G.249 Salt bridges: A:H.190, A:R.253 SO4.2: 7 residues within 4Å: Chain A: R.9, S.10, G.11, S.12, G.13, K.14, S.15 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:G.11, A:S.12, A:G.13, A:G.13, A:K.14, A:S.15 Salt bridges: A:K.14 SO4.3: 9 residues within 4Å: Chain B: N.188, H.190, C.247, T.248, G.249, G.250, K.251, H.252, R.253 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:N.188, B:T.248, B:G.249, B:G.250, B:K.251, B:H.252, B:R.253 Salt bridges: B:H.190, B:R.253 SO4.4: 6 residues within 4Å: Chain B: R.184, N.188, W.191, T.248, R.253 Chain C: T.150 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.188, B:T.248 Salt bridges: B:R.253 SO4.5: 6 residues within 4Å: Chain B: S.10, G.11, S.12, G.13, K.14, S.15 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:G.11, B:S.12, B:G.13, B:K.14, B:S.15, B:S.15 Salt bridges: B:K.14 SO4.6: 8 residues within 4Å: Chain C: N.188, H.190, C.247, T.248, G.249, G.250, H.252, R.253 7 PLIP interactions: 7 interactions with chain C Hydrogen bonds: C:T.248, C:G.249, C:G.250, C:K.251, C:R.253 Salt bridges: C:H.190, C:R.253 SO4.7: 7 residues within 4Å: Chain A: Y.220, R.223 Chain C: Y.96, R.101, L.102, H.103, N.109 8 PLIP interactions: 2 interactions with chain A, 6 interactions with chain C Hydrogen bonds: A:Y.220, C:Y.96, C:L.102, C:H.103, C:N.109, C:N.109 Salt bridges: A:R.223, C:R.101 SO4.8: 7 residues within 4Å: Chain C: R.9, S.10, G.11, S.12, G.13, K.14, S.15 7 PLIP interactions: 7 interactions with chain C Hydrogen bonds: C:G.11, C:S.12, C:G.13, C:K.14, C:S.15, C:S.15 Salt bridges: C:K.14 SO4.9: 9 residues within 4Å: Chain D: N.188, H.190, C.247, T.248, G.249, G.250, K.251, H.252, R.253 9 PLIP interactions: 9 interactions with chain D Hydrogen bonds: D:N.188, D:T.248, D:T.248, D:G.249, D:G.250, D:K.251, D:H.252 Salt bridges: D:H.190, D:R.253 SO4.10: 7 residues within 4Å: Chain B: Y.220, R.223 Chain D: R.101, L.102, H.103, K.108, N.109 6 PLIP interactions: 2 interactions with chain B, 4 interactions with chain D Hydrogen bonds: B:Y.220, D:L.102, D:H.103, D:N.109 Salt bridges: B:R.223, D:R.101 SO4.11: 5 residues within 4Å: Chain D: V.16, R.95, M.139, S.140, V.141 1 PLIP interactions: 1 interactions with chain D Salt bridges: D:R.95 SO4.12: 6 residues within 4Å: Chain D: R.9, G.11, S.12, G.13, K.14, S.15 7 PLIP interactions: 7 interactions with chain D Hydrogen bonds: D:G.11, D:S.12, D:G.13, D:K.14, D:S.15, D:S.15 Salt bridges: D:K.14

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gonzalez, G.M. et al., Structural insights into RapZ-mediated regulation of bacterial amino-sugar metabolism. Nucleic Acids Res. (2017)

Release Date

2017-08-30

Peptides

RNase adapter protein RapZ: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

RNase adapter protein RapZ

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