SMTL ID : 3af6.1

The crystal structure of an archaeal CPSF subunit, PH1404 from Pyrococcus horikoshii complexed with RNA-analog

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

monomer

Ligands

2 x SSU- SSU- SSU- SSU- SSU- SSU: 5'-R(*(SSU)P*(SSU)P*(SSU)P*(SSU)P*(SSU)P*(SSU))-3'(Non-covalent)

SSU-SSU-SSU-SSU-SSU-SSU.1: 18 residues within 4Å: Chain A: I.59, K.60, A.63, K.67, K.68, R.69, I.70, V.328, R.329, D.330, R.336, H.352, H.354, N.357, G.358, N.361, P.384, R.385 No protein-ligand interaction detected (PLIP) SSU-SSU-SSU-SSU-SSU-SSU.2: 4 residues within 4Å: Chain A: T.629, H.632, S.638, T.639 No protein-ligand interaction detected (PLIP)

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

SO4.3: 5 residues within 4Å: Chain A: R.202, Y.229, K.230, H.234, N.644 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.644, A:N.644 Salt bridges: A:R.202, A:K.230, A:H.234 SO4.4: 5 residues within 4Å: Chain A: T.209, D.210, F.213, Y.242, L.248 No protein-ligand interaction detected (PLIP) SO4.5: 7 residues within 4Å: Chain A: Y.325, N.341, L.376, E.377, E.474, Y.475, L.476 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.377 SO4.6: 9 residues within 4Å: Chain A: V.200, D.260, D.367, T.394, Y.550, H.594, H.618 Ligands: ZN.8, ZN.9 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:H.594, A:H.618 SO4.7: 3 residues within 4Å: Chain A: D.324, Y.325, E.474 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.325

2 x ZN: ZINC ION(Non-covalent)

ZN.8: 6 residues within 4Å: Chain A: H.256, H.258, H.344, D.367 Ligands: SO4.6, ZN.9 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.256, A:H.258, A:H.344, A:D.367 ZN.9: 6 residues within 4Å: Chain A: D.260, H.261, D.367, H.618 Ligands: SO4.6, ZN.8 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.260, A:H.261, A:D.367, A:H.618

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nishida, Y. et al., Crystal structure of an archaeal cleavage and polyadenylation specificity factor subunit from Pyrococcus horikoshii. Proteins (2010)

Release Date

2010-04-21

Peptides

Putative uncharacterized protein PH1404: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Putative uncharacterized protein PH1404

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