SMTL ID : 2g82.1 (1 other biounit)

High Resolution Structures of Thermus aquaticus Glyceraldehyde-3-Phosphate Dehydrogenase: Role of 220's Loop Motion in Catalysis

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

homo-tetramer

Ligands

4 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)

NAD.1: 25 residues within 4Å: Chain A: N.6, G.7, F.8, G.9, R.10, I.11, N.30, D.31, L.32, V.74, K.75, S.93, T.94, G.95, V.96, F.97, T.117, A.118, C.149, T.179, N.180, N.311, Y.315 Chain D: L.187, P.188 19 PLIP interactions: 19 interactions with chain A Hydrophobic interactions: A:I.11, A:I.11, A:Y.315 Hydrogen bonds: A:F.8, A:R.10, A:I.11, A:N.30, A:K.75, A:T.117, A:N.180, A:N.311 Water bridges: A:N.6, A:N.6, A:G.9, A:G.12, A:G.95, A:T.117, A:N.180, A:N.180 NAD.2: 25 residues within 4Å: Chain B: N.6, G.7, F.8, G.9, R.10, I.11, N.30, D.31, L.32, V.74, K.75, S.93, T.94, G.95, V.96, F.97, T.117, A.118, C.149, T.179, N.180, N.311, Y.315 Chain C: L.187, P.188 19 PLIP interactions: 19 interactions with chain B Hydrophobic interactions: B:I.11, B:I.11, B:Y.315 Hydrogen bonds: B:F.8, B:R.10, B:I.11, B:N.30, B:K.75, B:T.117, B:N.180, B:N.311 Water bridges: B:N.6, B:N.6, B:G.9, B:G.12, B:G.95, B:T.117, B:N.180, B:N.180 NAD.3: 25 residues within 4Å: Chain B: L.187, P.188 Chain C: N.6, G.7, F.8, G.9, R.10, I.11, N.30, D.31, L.32, V.74, K.75, S.93, T.94, G.95, V.96, F.97, T.117, A.118, C.149, T.179, N.180, N.311, Y.315 18 PLIP interactions: 18 interactions with chain C Hydrophobic interactions: C:I.11, C:I.11, C:Y.315 Hydrogen bonds: C:F.8, C:R.10, C:I.11, C:N.30, C:K.75, C:N.180, C:N.311 Water bridges: C:N.6, C:N.6, C:G.9, C:G.12, C:G.95, C:T.117, C:N.180, C:N.180 NAD.6: 24 residues within 4Å: Chain A: L.187, P.188 Chain D: N.6, G.7, F.8, G.9, R.10, I.11, N.30, D.31, L.32, V.74, K.75, S.93, T.94, G.95, F.97, T.117, A.118, C.149, T.179, N.180, N.311, Y.315 18 PLIP interactions: 18 interactions with chain D Hydrophobic interactions: D:I.11, D:I.11, D:Y.315 Hydrogen bonds: D:F.8, D:R.10, D:I.11, D:N.30, D:K.75, D:N.180, D:N.311 Water bridges: D:N.6, D:N.6, D:G.9, D:G.12, D:G.95, D:T.117, D:N.180, D:N.180

1 x IPA: ISOPROPYL ALCOHOL(Non-functional Binders)

IPA.4: 2 residues within 4Å: Chain C: E.248, T.250 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:E.248, C:T.250 Water bridges: C:V.249, C:A.298, C:G.300

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 6 residues within 4Å: Chain C: R.193, T.205, T.206 Chain D: E.276, K.294, L.295 5 PLIP interactions: 3 interactions with chain C, 2 interactions with chain D Hydrogen bonds: C:R.193, C:T.206, D:E.276, D:E.276 Water bridges: C:T.206 GOL.7: 6 residues within 4Å: Chain C: E.276, K.294, L.295 Chain D: R.193, T.205, T.206 5 PLIP interactions: 4 interactions with chain D, 1 interactions with chain C Hydrogen bonds: D:R.193, D:T.206, D:T.206, D:T.206, C:E.276

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jenkins, J.L. et al., High Resolution Structures of Thermus aquaticus Glyceraldehyde-3-Phosphate Dehydrogenase: Role of 220's Loop Motion in Catalysis. To be Published

Release Date

2007-03-13

Peptides

Glyceraldehyde-3-phosphate dehydrogenase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
O

B
P

C
Q

D
R

Glyceraldehyde-3-phosphate dehydrogenase

Related Entries With Identical Sequence