SMTL ID : 3m8d.1

Crystal structure of spin-labeled BtuB V10R1 with bound calcium and cyanocobalamin

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.44 Å

Oligo State

monomer

Ligands

1 x CNC: CYANOCOBALAMIN(Non-covalent)

CNC.1: 18 residues within 4Å: Chain A: N.57, Q.62, L.63, S.65, F.67, A.73, G.89, S.91, S.93, D.95, N.185, Y.229, D.230, N.276, T.289, R.497, Y.531, Y.579 17 PLIP interactions: 16 interactions with chain A, 1 Ligand-Ligand interactions Hydrophobic interactions: A:L.63, A:D.95, A:Y.229 Hydrogen bonds: A:N.57, A:L.63, A:S.65, A:S.91, A:S.91, A:S.91, A:T.289, A:R.497, A:R.497, A:Y.531, A:Y.579, A:Y.579 Salt bridges: A:R.497 Metal complexes: CNC.1

6 x C8E: (HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTANE(Non-functional Binders)

C8E.2: 8 residues within 4Å: Chain A: I.340, A.357, R.358, S.359, R.367, G.369, T.370 Ligands: C8E.7 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:I.340 C8E.3: 4 residues within 4Å: Chain A: I.380, Y.383, F.422, W.431 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:I.380, A:Y.383, A:Y.383, A:F.422, A:W.431 C8E.4: 5 residues within 4Å: Chain A: W.431, I.433, A.466, T.467, A.468 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:W.431, A:I.433 C8E.5: 9 residues within 4Å: Chain A: G.344, L.345, Q.346, F.353, E.354, G.355, A.356, Q.372, T.373 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.344, A:T.373 C8E.6: 4 residues within 4Å: Chain A: G.435, Y.436, R.437, G.463 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.463 C8E.7: 3 residues within 4Å: Chain A: A.357, W.371 Ligands: C8E.2 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:A.357, A:W.371

1 x MTN: S-[(1-oxyl-2,2,5,5-tetramethyl-2,5-dihydro-1H-pyrrol-3-yl)methyl] methanesulfonothioate(Non-covalent)

MTN.8: 10 residues within 4Å: Chain A: C.10, T.11, R.14, D.81, G.82, E.108, N.128, R.255, Q.264, I.266 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:D.81 Hydrogen bonds: A:R.255

3 x CA: CALCIUM ION(Non-covalent)

CA.9: 6 residues within 4Å: Chain A: D.179, Q.191, T.192, D.193, D.195, D.230 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.179, A:D.193, A:D.193, A:D.230, A:D.230 CA.10: 4 residues within 4Å: Chain A: D.193, D.195, Y.229, D.230 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.193, A:D.193, A:D.195, A:Y.229, A:D.230 CA.11: 2 residues within 4Å: Chain A: H.174, H.176 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:H.174, A:H.176

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Freed, D.M. et al., Conformational exchange in a membrane transport protein is altered in protein crystals. Biophys.J. (2010)

Release Date

2010-09-15

Peptides

Vitamin B12 transporter btuB: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Membrane

We predict this structure to be a membrane protein.
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Vitamin B12 transporter btuB

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