SMTL ID : 4fi3.1

Structure of vitamin B12 transporter BtuCD-F in a nucleotide-bound state

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.47 Å

Oligo State

hetero-oligomer

Ligands

2 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER(Non-covalent)

ANP.1: 21 residues within 4Å: Chain C: R.15, P.34, N.35, G.36, A.37, G.38, K.39, S.40, T.41, Q.159, H.191 Chain D: R.122, N.125, Q.126, L.127, S.128, G.129, G.130, E.131, S.163 Ligands: MG.2 18 PLIP interactions: 10 interactions with chain C, 8 interactions with chain D Hydrogen bonds: C:P.34, C:G.36, C:A.37, C:G.38, C:K.39, C:K.39, C:S.40, C:T.41, C:Q.159, D:R.122, D:R.122, D:N.125, D:S.128, D:G.129, D:G.130, D:E.131, D:S.163 pi-Cation interactions: C:R.15 ANP.3: 21 residues within 4Å: Chain C: R.122, N.125, Q.126, L.127, S.128, G.129, G.130, E.131, S.163 Chain D: R.15, P.34, N.35, G.36, A.37, G.38, K.39, S.40, T.41, Q.159, H.191 Ligands: MG.4 20 PLIP interactions: 12 interactions with chain D, 8 interactions with chain C Hydrogen bonds: D:R.15, D:P.34, D:G.36, D:A.37, D:G.38, D:K.39, D:K.39, D:S.40, D:T.41, D:T.41, D:Q.159, C:R.122, C:R.122, C:N.125, C:S.128, C:G.129, C:G.130, C:E.131, C:S.163 pi-Cation interactions: D:R.15

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain C: S.40, Q.80, Q.159 Ligands: ANP.1 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:S.40 MG.4: 5 residues within 4Å: Chain D: S.40, Q.80, D.158, Q.159 Ligands: ANP.3 1 PLIP interactions: 1 interactions with chain D Metal complexes: D:S.40

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Korkhov, V.M. et al., Structure of AMP-PNP-bound vitamin B12 transporter BtuCD-F. Nature (2012)

Release Date

2012-09-19

Peptides

Vitamin B12 import system permease protein BtuC: AB
Vitamin B12 import ATP-binding protein BtuD: CD
Vitamin B12-binding protein: E

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
F

Membrane

We predict this structure to be a membrane protein.
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Vitamin B12 import system permease protein BtuC

Vitamin B12 import ATP-binding protein BtuD

Vitamin B12-binding protein

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