1JN3: DNA polymerase beta

Fidelity properties and structure of M282L mutator mutant of DNA polymerase: subtle structural changes influence the mechanism of nucleotide discrimination. Determined by X-ray diffraction at 2.35 Å resolution. Released 3 Aug 2001.

Method: X-ray diffraction
Resolution: 2.35 Å
Organism: Rattus norvegicus
Chains: 1
Atoms: 2,154
Mol. weight: 29.13 kDa
Released: 3 Aug 2001

Explore 1JN3 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

1JN3 contains 16 α-helices and 9 β-strands across 1 chain. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain A: 16 helices, 9 β-strands

Element	Residues	Length	Sheet
α-helix	92-100	9
α-helix	108-116	9
α-helix	122-126	5
α-helix	129-131	3
α-helix	134-141	8
α-helix	145-147	3
β-strand	150-151	2	1
α-helix	152-169	18
β-strand	174-177	4	2
α-helix	179-182	4
β-strand	187-188	2	1
β-strand	191-196	6	2
α-helix	208-220	13
β-strand	224-230	7	2
β-strand	234-239	6	2
α-helix	250-252	3
β-strand	253-259	7	2
α-helix	262-264	3
α-helix	265-271	7
α-helix	276-288	13
β-strand	291-293	3	3
β-strand	298-300	3	3
α-helix	310-312	3
α-helix	316-322	7
α-helix	330-332	3

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
DNA polymerase beta	A	protein	251	Rattus norvegicus	P06766 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>1JN3_1 DNA POLYMERASE BETA (chains A)
LEKIRQDDTSSSINFLTRVTGIGPSAARKLVDEGIKTLEDLRKNEDKLNHHQRIGLKYFE
DFEKRIPREEMLQMQDIVLNEVKKLDPEYIATVCGSFRRGAESSGDMDVLLTHPNFTSES
SKQPKLLHRVVEQLQKVRFITDTLSKGETKFMGVCQLPSENDENEYPHRRIDIRLIPKDQ
YYCGVLYFTGSDIFNKNLRAHALEKGFTINEYTIRPLGVTGVAGEPLPVDSEQDIFDYIQ
WRYREPKDRSE

Primary citation

A DNA polymerase beta mutator mutant with reduced nucleotide discrimination and increased protein stability. Shah, A.M., Conn, D.A., Li, S.-X. et al. Biochemistry (2001) 40:11372-11381. DOI 10.1021/bi010755y · PubMed

Other PDB entries of the same protein (UniProt P06766 (AlphaFold model), which also has an AlphaFold model), best resolution first:

2VAN 2.1 Å, Nucleotidyl Transfer Mechanism of Mismatched dNTP Incorporation by DNA Polymerase b by…
3UXO 2.1 Å, Crystal Structure of Rat DNA Polymerase Beta Mutator I260Q Apoenzyme
3V7J 2.25 Å, Co-crystal structure of Wild Type Rat polymerase beta: Enzyme-DNA binary complex
3V7K 2.27 Å, Co-crystal structure of K72E variant of rat polymerase beta: Enzyme-DNA binary complex
1BPB 2.3 Å, Crystal structure of rat DNA polymerase beta: evidence for a common polymerase mechanism
1RPL 2.3 Å, 2.3 Å crystal structure of the catalytic domain of DNA polymerase beta
1ZQW 2.3 Å, DNA polymerase beta (pol B) (E.C.2.7.7.7), 31-kd domain; soaked in the presence of cscl…
1ZQY 2.3 Å, DNA polymerase beta (pol B) (E.C.2.7.7.7), 31-kd domain; soaked in the presence of MGCL2…
3LQC 2.35 Å, X-ray crystal structure of oxidized XRCC1 bound to DNA pol beta Palm thumb domain
3V72 2.49 Å, Crystal Structure of Rat DNA polymerase beta Mutator E295K: Enzyme-dsDNA
1ZQX 2.5 Å, DNA polymerase beta (pol B) (E.C.2.7.7.7), 31-kd domain; soaked in the presence of kcl…
3UXN 2.5 Å, Crystal Structure of Rat DNA Polymerase Beta, Wild Type Apoenzyme

Browse structure collections

About this viewer

MolViewer shows 1JN3 directly in your browser with nothing to install. Switch between cartoon, ball-and-stick, spacefill and surface views, color by chain, secondary structure or B-factor, measure distances, angles and dihedrals, and share or embed the view.