SMTL ID : 6fua.1

ATP phosphoribosyltransferase (HisZG ATPPRT) from Psychrobacter arcticus in complex with PRPP and ADP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

hetero-4-4-mer

Ligands

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

CL.1: 2 residues within 4Å: Chain A: E.19, R.22 Ligand excluded by PLIP CL.2: 2 residues within 4Å: Chain B: Y.275, R.285 Ligand excluded by PLIP CL.3: 4 residues within 4Å: Chain B: L.189, K.193, Y.206, R.210 Ligand excluded by PLIP CL.9: 2 residues within 4Å: Chain E: E.19, R.22 Ligand excluded by PLIP CL.10: 2 residues within 4Å: Chain F: Y.275, R.285 Ligand excluded by PLIP CL.11: 4 residues within 4Å: Chain F: L.189, K.193, Y.206, R.210 Ligand excluded by PLIP

4 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.4: 13 residues within 4Å: Chain C: R.33, I.34, G.93, D.95, V.96, A.114, Q.115, C.116, V.178, D.180, V.199 Ligands: PRP.5, MG.6 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:R.33, C:D.95 Salt bridges: C:R.33 pi-Cation interactions: C:R.33, C:R.33 ADP.8: 13 residues within 4Å: Chain D: K.31, R.33, I.34, A.75, G.93, D.95, A.114, Q.115, C.116, K.138, V.178, D.180 Ligands: PRP.7 6 PLIP interactions: 6 interactions with chain D Hydrogen bonds: D:K.31, D:A.75, D:G.93, D:D.95 Salt bridges: D:K.138 pi-Cation interactions: D:R.33 ADP.12: 13 residues within 4Å: Chain G: R.33, I.34, G.93, D.95, V.96, A.114, Q.115, C.116, V.178, D.180, V.199 Ligands: PRP.13, MG.14 5 PLIP interactions: 5 interactions with chain G Hydrogen bonds: G:R.33, G:D.95 Salt bridges: G:R.33 pi-Cation interactions: G:R.33, G:R.33 ADP.16: 13 residues within 4Å: Chain H: K.31, R.33, I.34, A.75, G.93, D.95, A.114, Q.115, C.116, K.138, V.178, D.180 Ligands: PRP.15 6 PLIP interactions: 6 interactions with chain H Hydrogen bonds: H:K.31, H:A.75, H:G.93, H:D.95 Salt bridges: H:K.138 pi-Cation interactions: H:R.33

4 x PRP: 1-O-pyrophosphono-5-O-phosphono-alpha-D-ribofuranose(Non-covalent)

PRP.5: 11 residues within 4Å: Chain C: R.33, E.164, V.178, V.179, D.180, T.181, G.182, N.183, T.184 Ligands: ADP.4, MG.6 9 PLIP interactions: 9 interactions with chain C Hydrogen bonds: C:E.164, C:D.180, C:T.181, C:G.182, C:N.183, C:T.184, C:T.184 Salt bridges: C:R.33, C:R.33 PRP.7: 11 residues within 4Å: Chain D: R.33, E.164, D.177, V.178, V.179, D.180, T.181, G.182, N.183, T.184 Ligands: ADP.8 11 PLIP interactions: 11 interactions with chain D Hydrogen bonds: D:E.164, D:D.180, D:T.181, D:T.181, D:G.182, D:N.183, D:T.184, D:T.184, D:T.184 Salt bridges: D:R.33, D:R.33 PRP.13: 11 residues within 4Å: Chain G: R.33, E.164, V.178, V.179, D.180, T.181, G.182, N.183, T.184 Ligands: ADP.12, MG.14 8 PLIP interactions: 8 interactions with chain G Hydrogen bonds: G:E.164, G:D.180, G:T.181, G:G.182, G:N.183, G:T.184 Salt bridges: G:R.33, G:R.33 PRP.15: 11 residues within 4Å: Chain H: R.33, E.164, D.177, V.178, V.179, D.180, T.181, G.182, N.183, T.184 Ligands: ADP.16 10 PLIP interactions: 10 interactions with chain H Hydrogen bonds: H:E.164, H:D.180, H:T.181, H:G.182, H:N.183, H:T.184, H:T.184, H:T.184 Salt bridges: H:R.33, H:R.33

2 x MG: MAGNESIUM ION(Non-functional Binders)

MG.6: 2 residues within 4Å: Ligands: ADP.4, PRP.5 No protein-ligand interaction detected (PLIP) MG.14: 2 residues within 4Å: Ligands: ADP.12, PRP.13 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Alphey, M.S. et al., Catalytic and Anticatalytic Snapshots of a Short-Form ATP Phosphoribosyltransferase. Acs Catalysis (2018)

Release Date

2018-10-24

Peptides

ATP phosphoribosyltransferase regulatory subunit: ABEF
ATP phosphoribosyltransferase: CDGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

E
A

F
B

C
C

D
D

G
C

H
D

ATP phosphoribosyltransferase regulatory subunit

ATP phosphoribosyltransferase

Related Entries With Identical Sequence