PDBsum entry 3hw8

Transferase/DNA

PDB id: 3hw8

Contents

Protein chain

327 a.a. *

DNA/RNA

Ligands

D3T

EDO

Metals

_MG

_NA ×4

Waters ×331

* Residue conservation analysis

PDB id:

3hw8

Name:

Transferase/DNA

Title:

Ternary complex of DNA polymerase lambda of a two nucleotide gapped DNA substrate with a c in the scrunch site

Structure:

DNA polymerase lambda. Chain: a. Fragment: unp residues 242-575, 39 kda catalytic domain. Synonym: pol lambda, DNA polymerase kappa, DNA polymerase beta-2, pol beta2. Engineered: yes. Mutation: yes. 5'-d( Cp Gp Gp Cp Cp Ap Ap Tp Ap Cp Tp G)-3'. Chain: b.

Source:

Homo sapiens. Human. Organism_taxid: 9606. Gene: poll. Expressed in: escherichia coli. Expression_system_taxid: 562. Synthetic: yes. Synthetic: yes

Resolution:

1.95Å R-factor: 0.212 R-free: 0.233

Authors:

M.Garcia-Diaz,K.Bebenek,A.A.Larrea,J.M.Havener,L.Perera,J.M.Krahn, L.C.Pedersen,D.A.Ramsden,T.A.Kunkel

Key ref:

M.Garcia-Diaz et al. Scrunching durning DNA repair synthesis. To be published, .

Date:

17-Jun-09 Release date: 25-Aug-09

Protein chain

Q9UGP5  (DPOLL_HUMAN) -  DNA polymerase lambda from Homo sapiens

Seq: 575 a.a.

Struc: 327 a.a.*

* PDB and UniProt seqs differ at 1 residue position (black cross)

DNA/RNA chains

C-G-G-C-C-A-A-T-A-C-T-G 12 bases

C-A-G-T-A-T 6 bases

G-C-C-G 4 bases

Enzyme reactions

• Enzyme class 2: E.C.2.7.7.7 - DNA-directed Dna polymerase.
• Reaction: DNA(n) + a 2'-deoxyribonucleoside 5'-triphosphate = DNA(n+1) + diphosphate
• Enzyme class 3: E.C.4.2.99.- - ?????

Note, where more than one E.C. class is given (as above), each may correspond to a different protein domain or, in the case of polyprotein precursors, to a different mature protein.

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