SMTL ID : 3l9q.2 (1 other biounit)

Crystal structure of human polymerase alpha-primase p58 iron-sulfur cluster domain

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-dimer

Ligands

2 x SF4: IRON/SULFUR CLUSTER(Non-covalent)

SF4.1: 12 residues within 4Å: Chain A: P.16, P.17, C.18, C.98, I.101, C.115, P.116, F.117, Q.152, C.155, L.172, P.175 4 PLIP interactions: 4 interactions with chain A, Metal complexes: A:C.18, A:C.98, A:C.115, A:C.155 SF4.3: 11 residues within 4Å: Chain B: P.16, P.17, C.18, C.98, I.101, C.115, P.116, F.117, Q.152, C.155, P.175 4 PLIP interactions: 4 interactions with chain B, Metal complexes: B:C.18, B:C.98, B:C.115, B:C.155

5 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 3 residues within 4Å: Chain A: T.12, R.20, K.24 6 PLIP interactions: 6 interactions with chain A Water bridges: A:S.11, A:R.20, A:R.20, A:R.20, A:Y.132 Salt bridges: A:R.20 SO4.4: 3 residues within 4Å: Chain B: Q.60, E.61, F.62 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.61, B:F.62 Water bridges: B:E.61 SO4.5: 3 residues within 4Å: Chain B: T.12, R.20, K.24 6 PLIP interactions: 6 interactions with chain B Water bridges: B:R.20, B:R.20, B:R.20, B:R.20, B:Y.132 Salt bridges: B:R.20 SO4.6: 4 residues within 4Å: Chain B: H.31, R.33, H.34, R.37 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:H.34, B:R.37, B:R.37 SO4.7: 5 residues within 4Å: Chain B: K.45, T.50, R.81, S.83, F.84 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:T.50, B:T.50, B:F.84 Salt bridges: B:K.45, B:R.81

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Vaithiyalingam, S. et al., Insights into eukaryotic DNA priming from the structure and functional interactions of the 4Fe-4S cluster domain of human DNA primase. Proc.Natl.Acad.Sci.USA (2010)

Release Date

2010-07-14

Peptides

DNA primase large subunit: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

DNA primase large subunit

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