4rno.1 | SWISS-MODEL Template Library

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SMTL ID : 4rno.1

Crystal structure of human polymerase eta extending an abasic site-dA pair by inserting dCTP opposite template G

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.82 Å

Oligo State

monomer

Ligands

1 x DA- DG- DC- DG- DT- DC- DA- DA: Nucleic acids Primar: AGCGTCAA(Non-covalent)

DA-DG-DC-DG-DT-DC-DA-DA.1:

27 residues within 4Å:

Chain A: S.116, D.118, E.119, K.227, I.258, R.259, S.260, L.261, G.262, G.263, K.264, L.265, R.380, S.383, L.384, R.385, R.386, C.387
Chain B: G.4, T.6, G.7, A.8, C.9, G.10, C.11, T.12
Ligands: DCP.2

Protein-ligand interaction information (PLIP) not available

1 x DCP: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE(Covalent)

DCP.2:

16 residues within 4Å:

Chain A: D.16, M.17, D.18, C.19, F.20, F.21, I.51, Y.55, R.58, R.64, I.117, D.118, K.234
Chain B: G.4
Ligands: DA-DG-DC-DG-DT-DC-DA-DA.1, CA.3

13 PLIP interactions:

13 interactions with chain A

Hydrophobic interactions: A:F.21
Hydrogen bonds: A:C.19, A:F.20, A:F.21
Water bridges: A:D.16, A:R.58, A:R.64
Salt bridges: A:R.58, A:R.58, A:R.64, A:R.64, A:K.234
pi-Cation interactions: A:R.64

1 x CA: CALCIUM ION(Non-covalent)

CA.3:

4 residues within 4Å:

Chain A: D.16, M.17, D.118
Ligands: DCP.2

4 PLIP interactions:

4 interactions with chain A

Metal complexes: A:D.16, A:D.16, A:M.17, A:D.118

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.4:

0 residues within 4Å:

(No contacts)

No protein-ligand interaction detected (PLIP)

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Patra, A. et al., Structural and Kinetic Analysis of Nucleoside Triphosphate Incorporation Opposite an Abasic Site by Human Translesion DNA Polymerase eta. J.Biol.Chem. (2015)

Release Date

2015-02-18

Peptides

DNA polymerase eta: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Export Alignment

Secondary Structure
NoneDSSPPSIPREDSSpro

Colour Scheme

Fade MismatchesEnhance Mismatches

ChainUnique ChainRainbow2° StructureBfactorBfactor RangeSOAEntropyClustalHydrophobicSizeChargedPolarProlineSer/ThrCysteineAliphaticAromaticNo Colour

Background

3D Viewer
NGLPV2D

DNA polymerase eta

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