SMTL ID : 3csw.1 (1 other biounit)

Crystal structure of a putative branched-chain amino acid aminotransferase (TM0831) from Thermotoga maritima at 2.15 A resolution

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

homo-tetramer

Ligands

2 x PLP: PYRIDOXAL-5'-PHOSPHATE(Non-covalent)

PLP.1: 17 residues within 4Å: Chain A: R.62, K.145, I.152, R.156, E.176, G.177, S.178, F.179, S.180, N.181, L.200, G.202, I.203, T.204, H.239, T.240 Ligands: UNL.2 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:I.152, A:L.200 Hydrogen bonds: A:Y.43, A:K.145, A:R.156, A:S.178, A:I.203, A:T.204, A:T.204, A:T.240 Water bridges: A:T.45, A:R.62, A:R.156, A:N.181, A:R.205 Salt bridges: A:R.62 PLP.12: 17 residues within 4Å: Chain C: R.62, K.145, I.152, R.156, E.176, G.177, S.178, F.179, S.180, N.181, L.200, G.202, I.203, T.204, H.239, T.240 Ligands: UNL.13 16 PLIP interactions: 16 interactions with chain C Hydrophobic interactions: C:I.152, C:L.200 Hydrogen bonds: C:Y.43, C:K.145, C:R.156, C:S.178, C:I.203, C:T.204, C:T.204, C:T.240 Water bridges: C:T.45, C:R.62, C:R.156, C:N.181, C:R.205 Salt bridges: C:R.62

4 x UNL: UNKNOWN LIGAND(Non-functional Binders)

UNL.2: 5 residues within 4Å: Chain A: T.45, H.239, T.240, S.241 Ligands: PLP.1 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:T.45, A:T.45, A:H.239, A:S.241, A:S.241 Water bridges: A:T.45 UNL.8: 4 residues within 4Å: Chain B: R.97, H.239, T.240, S.241 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:H.239, B:T.240, B:S.241, B:S.241, B:S.241, B:S.241 Water bridges: B:T.240 UNL.13: 5 residues within 4Å: Chain C: T.45, H.239, T.240, S.241 Ligands: PLP.12 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:R.97, C:S.241, C:S.241, C:S.241, C:S.241 Water bridges: C:T.45 UNL.19: 4 residues within 4Å: Chain D: R.97, H.239, T.240, S.241 6 PLIP interactions: 6 interactions with chain D Hydrogen bonds: D:H.239, D:T.240, D:S.241, D:S.241, D:S.241 Water bridges: D:T.240

4 x CIT: CITRIC ACID(Non-functional Binders)

CIT.3: 8 residues within 4Å: Chain A: N.131, V.132, L.154, R.157, E.158 Chain B: F.69, F.70 Ligands: MPD.11 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:N.131, A:E.158, B:F.69 Salt bridges: A:R.157 Hydrophobic interactions: B:F.69 CIT.9: 7 residues within 4Å: Chain B: R.134, P.136, D.137, L.138, L.170 Chain D: N.171 Ligands: CIT.20 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain D Hydrogen bonds: B:D.137, B:L.138, B:L.170, D:N.171 Water bridges: B:R.134 Salt bridges: B:R.134 CIT.14: 8 residues within 4Å: Chain C: N.131, V.132, L.154, R.157, E.158 Chain D: F.69, F.70 Ligands: MPD.22 5 PLIP interactions: 2 interactions with chain D, 3 interactions with chain C Hydrophobic interactions: D:F.69 Hydrogen bonds: D:F.69, C:N.131, C:E.158 Salt bridges: C:R.157 CIT.20: 7 residues within 4Å: Chain B: N.171 Chain D: R.134, P.136, D.137, L.138, L.170 Ligands: CIT.9 6 PLIP interactions: 5 interactions with chain D, 1 interactions with chain B Hydrogen bonds: D:D.137, D:L.138, D:L.170, B:N.171 Water bridges: D:R.134 Salt bridges: D:R.134

8 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.4: 7 residues within 4Å: Chain A: N.171, Q.173, D.196, S.197, V.223, W.225 Chain C: L.138 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:Q.173, A:V.223, A:V.223, A:W.225 Hydrogen bonds: A:Q.173 MPD.5: 7 residues within 4Å: Chain A: D.137, L.138, S.139, T.140, P.141 Chain B: N.131, V.132 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:D.137 Hydrophobic interactions: B:N.131 MPD.10: 5 residues within 4Å: Chain B: K.64, D.68, N.71, L.72, P.73 1 PLIP interactions: 1 interactions with chain B Water bridges: B:N.71 MPD.11: 7 residues within 4Å: Chain A: N.131 Chain B: D.137, L.138, S.139, T.140, P.141 Ligands: CIT.3 No protein-ligand interaction detected (PLIP) MPD.15: 7 residues within 4Å: Chain A: L.138 Chain C: N.171, Q.173, D.196, S.197, V.223, W.225 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:Q.173, C:V.223, C:V.223, C:W.225 Hydrogen bonds: C:Q.173 MPD.16: 7 residues within 4Å: Chain C: D.137, L.138, S.139, T.140, P.141 Chain D: N.131, V.132 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain D Hydrogen bonds: C:D.137 Hydrophobic interactions: D:N.131 MPD.21: 5 residues within 4Å: Chain D: K.64, D.68, N.71, L.72, P.73 1 PLIP interactions: 1 interactions with chain D Water bridges: D:N.71 MPD.22: 7 residues within 4Å: Chain C: N.131 Chain D: D.137, L.138, S.139, T.140, P.141 Ligands: CIT.14 No protein-ligand interaction detected (PLIP)

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

CL.6: 3 residues within 4Å: Chain B: V.125, E.126, Y.163 Ligand excluded by PLIP CL.7: 2 residues within 4Å: Chain B: R.133 Chain C: W.225 Ligand excluded by PLIP CL.17: 3 residues within 4Å: Chain D: V.125, E.126, Y.163 Ligand excluded by PLIP CL.18: 2 residues within 4Å: Chain A: W.225 Chain D: R.133 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Joint Center for Structural Genomics (JCSG), Crystal structure of a Putative Branched-Chain Amino Acid Aminotransferase (TM0831) from Thermotoga maritima at 2.15 A resolution. To be published

Release Date

2008-04-22

Peptides

Putative branched-chain-amino-acid aminotransferase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Putative branched-chain-amino-acid aminotransferase

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