SMTL ID : 2idx.1

Structure of Human ATP:Cobalamin adenosyltransferase bound to ATP.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-trimer

Ligands

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

SO4.1: 5 residues within 4Å: Chain A: H.54, T.55, F.56, Y.106, Y.172 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:T.55, A:T.55, A:T.55, A:F.56, A:Y.172 Salt bridges: A:H.54 SO4.6: 5 residues within 4Å: Chain B: G.53, H.54, T.55, F.56, Y.172 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:T.55, B:F.56, B:Y.172 Water bridges: B:T.55, B:Y.106 Salt bridges: B:H.54 SO4.9: 4 residues within 4Å: Chain C: H.54, T.55, F.56, Y.172 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:T.55, C:F.56 Water bridges: C:Y.172 Salt bridges: C:H.54

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

CL.2: 4 residues within 4Å: Chain A: R.137, R.141 Chain B: R.141 Chain C: R.141 Ligand excluded by PLIP

4 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)

MG.3: 3 residues within 4Å: Chain A: N.160 Chain C: K.24 Ligands: ATP.5 No protein-ligand interaction detected (PLIP) MG.4: 1 residues within 4Å: Ligands: ATP.5 No protein-ligand interaction detected (PLIP) MG.7: 3 residues within 4Å: Chain B: I.4 Chain C: D.164 Ligands: ATP.8 No protein-ligand interaction detected (PLIP) MG.10: 3 residues within 4Å: Chain B: K.24 Chain C: N.160 Ligands: ATP.8 No protein-ligand interaction detected (PLIP)

2 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.5: 15 residues within 4Å: Chain A: R.136, E.139, R.140, N.160 Chain C: K.7, T.8, G.9, F.13, S.14, S.15, K.24, F.29, G.33 Ligands: MG.3, MG.4 19 PLIP interactions: 8 interactions with chain C, 11 interactions with chain A Hydrogen bonds: C:G.9, C:S.14, C:S.15, A:R.136, A:R.136, A:R.140, A:N.160, A:N.160 Water bridges: C:T.8, C:T.8, C:K.24, A:R.136, A:N.160, A:N.160 Salt bridges: C:K.24, C:K.24, A:R.136 pi-Cation interactions: A:R.136, A:R.136 ATP.8: 16 residues within 4Å: Chain B: Y.5, T.6, K.7, T.8, G.9, F.13, S.14, S.15, K.24, F.29 Chain C: R.136, E.139, R.140, N.160 Ligands: MG.7, MG.10 22 PLIP interactions: 13 interactions with chain C, 9 interactions with chain B Hydrogen bonds: C:R.136, C:R.136, C:E.139, C:R.140, C:N.160, B:T.6, B:T.6, B:K.7, B:G.9, B:S.14, B:S.15 Water bridges: C:R.132, C:R.136, C:R.136, C:R.161, C:D.164, B:K.24 Salt bridges: C:R.136, B:K.24, B:K.24 pi-Cation interactions: C:R.136, C:R.136

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Schubert, H.L. et al., Structure of ATP-Bound Human ATP:Cobalamin Adenosyltransferase. Biochemistry (2006)

Release Date

2007-02-06

Peptides

Cob(I)yrinic acid a,c-diamide adenosyltransferase: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Cob(I)yrinic acid a,c-diamide adenosyltransferase

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