SMTL ID : 1zt2.5 (4 other biounits)

Heterodimeric structure of the core primase.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.33 Å

Oligo State

hetero-2-2-mer

Ligands

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

SO4.1: 2 residues within 4Å: Chain A: H.164, K.165 Ligand excluded by PLIP SO4.2: 2 residues within 4Å: Chain A: R.95, H.99 Ligand excluded by PLIP SO4.3: 3 residues within 4Å: Chain C: K.300, N.302 Ligands: SO4.6 Ligand excluded by PLIP SO4.4: 2 residues within 4Å: Chain A: K.130, R.132 Ligand excluded by PLIP SO4.5: 4 residues within 4Å: Chain A: R.132, I.133, I.134, Q.135 Ligand excluded by PLIP SO4.6: 5 residues within 4Å: Chain A: I.199, P.200, E.201 Chain C: K.300 Ligands: SO4.3 Ligand excluded by PLIP SO4.7: 3 residues within 4Å: Chain A: N.102, E.103, K.172 Ligand excluded by PLIP SO4.8: 3 residues within 4Å: Chain A: K.81, R.84, R.85 Ligand excluded by PLIP SO4.10: 5 residues within 4Å: Chain B: S.173, N.175, R.176, H.253 Ligands: SO4.19 Ligand excluded by PLIP SO4.11: 3 residues within 4Å: Chain B: K.255, N.321 Ligands: SO4.22 Ligand excluded by PLIP SO4.12: 1 residues within 4Å: Chain B: R.303 Ligand excluded by PLIP SO4.13: 1 residues within 4Å: Chain B: K.109 Ligand excluded by PLIP SO4.14: 2 residues within 4Å: Chain B: T.47, Y.48 Ligand excluded by PLIP SO4.15: 3 residues within 4Å: Chain B: D.235, Q.237, R.244 Ligand excluded by PLIP SO4.16: 2 residues within 4Å: Chain B: T.289, R.303 Ligand excluded by PLIP SO4.17: 2 residues within 4Å: Chain B: G.9, Q.10 Ligand excluded by PLIP SO4.18: 2 residues within 4Å: Chain B: K.169, R.262 Ligand excluded by PLIP SO4.19: 4 residues within 4Å: Chain B: F.74, D.101, R.247 Ligands: SO4.10 Ligand excluded by PLIP SO4.20: 4 residues within 4Å: Chain B: M.33, S.56, S.57, E.58 Ligand excluded by PLIP SO4.21: 4 residues within 4Å: Chain B: A.122, V.123, V.124, S.125 Ligand excluded by PLIP SO4.22: 2 residues within 4Å: Chain B: K.255 Ligands: SO4.11 Ligand excluded by PLIP SO4.24: 1 residues within 4Å: Chain C: S.55 Ligand excluded by PLIP SO4.25: 5 residues within 4Å: Chain C: S.173, N.175, R.176, H.253 Ligands: SO4.28 Ligand excluded by PLIP SO4.26: 2 residues within 4Å: Chain C: K.169, R.262 Ligand excluded by PLIP SO4.27: 1 residues within 4Å: Chain C: R.303 Ligand excluded by PLIP SO4.28: 3 residues within 4Å: Chain C: R.247, H.253 Ligands: SO4.25 Ligand excluded by PLIP SO4.29: 1 residues within 4Å: Chain C: N.321 Ligand excluded by PLIP SO4.30: 5 residues within 4Å: Chain C: M.33, S.55, S.56, S.57, E.58 Ligand excluded by PLIP SO4.31: 1 residues within 4Å: Chain C: S.215 Ligand excluded by PLIP SO4.32: 4 residues within 4Å: Chain C: N.175, R.176, K.255, R.320 Ligand excluded by PLIP SO4.33: 1 residues within 4Å: Chain C: R.330 Ligand excluded by PLIP SO4.34: 3 residues within 4Å: Chain C: S.45, D.46, T.47 Ligand excluded by PLIP SO4.35: 2 residues within 4Å: Chain C: S.125, E.126 Ligand excluded by PLIP SO4.36: 3 residues within 4Å: Chain C: C.108, K.109, R.148 Ligand excluded by PLIP SO4.37: 3 residues within 4Å: Chain C: N.12, K.15, R.19 Ligand excluded by PLIP SO4.38: 4 residues within 4Å: Chain C: D.183, C.184, Y.185, G.186 Ligand excluded by PLIP SO4.39: 2 residues within 4Å: Chain D: R.95, W.156 Ligand excluded by PLIP SO4.40: 3 residues within 4Å: Chain D: N.102, E.103, K.172 Ligand excluded by PLIP SO4.41: 3 residues within 4Å: Chain D: I.199, P.200, E.201 Ligand excluded by PLIP

2 x ZN: ZINC ION(Non-covalent)

ZN.9: 4 residues within 4Å: Chain B: C.116, C.119, C.128, D.131 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.116, B:C.119, B:C.128, B:D.131 ZN.23: 4 residues within 4Å: Chain C: C.116, C.119, C.128, D.131 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:C.116, C:C.119, C:C.128, C:D.131

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lao-Sirieix, S.H. et al., Structure of the heterodimeric core primase. Nat.Struct.Mol.Biol. (2005)

Release Date

2005-11-08

Peptides

DNA primase large subunit: AD
DNA primase small subunit: BC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

D
D

B
A

C
C

DNA primase large subunit

DNA primase small subunit

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