PDBsum entry 8qw2

Transferase

PDB id: 8qw2

Contents

Protein chains

(+ 0 more) 152 a.a.

Ligands

UDP ×6

Metals

_MG ×6

Waters ×313

PDB id:

8qw2

Name:

Transferase

Title:

Human ndpk-c in complex with udp and mg2+

Structure:

Nucleoside diphosphate kinase 3. Chain: a, b, c, d, e, f. Engineered: yes

Source:

Homo sapiens. Human. Organism_taxid: 9606. Gene: nme3. Expressed in: escherichia coli. Expression_system_taxid: 562

Resolution:

1.87Å R-factor: 0.170 R-free: 0.203

Authors:

S.Werten,R.Amjadi,K.Scheffzek

Key ref:

R.Amjadi et al. (2024). Mechanistic insights into substrate recognition of hu nucleoside diphosphate kinase c based on nucleotide-I structural changes. Int j mol sci, 25, . PubMed id: 39337255

Date:

18-Oct-23 Release date: 18-Sep-24

Protein chains

Q13232  (NDK3_HUMAN) -  Nucleoside diphosphate kinase 3 from Homo sapiens

Seq: 169 a.a.

Struc: 152 a.a.

Enzyme reactions

• Enzyme class: E.C.2.7.4.6 - nucleoside-diphosphate kinase.
• Reaction:
  1. a ribonucleoside 5'-diphosphate + ATP = a ribonucleoside 5'-triphosphate + ADP
  2. a 2'-deoxyribonucleoside 5'-diphosphate + ATP = a 2'-deoxyribonucleoside 5'-triphosphate + ADP

ribonucleoside 5'-diphosphate + ATP = ribonucleoside 5'-triphosphate + ADP (Bound ligand (Het Group name = UDP) matches with 79.31% similarity)

2'-deoxyribonucleoside 5'-diphosphate + ATP = 2'-deoxyribonucleoside 5'-triphosphate + ADP (Bound ligand (Het Group name = UDP) matches with 79.31% similarity)

Molecule diagrams generated from .mol files obtained from the KEGG ftp site