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

Crystal structure of a truncated human Tudor-SN

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

8 x CIT: CITRIC ACID(Non-functional Binders)

CIT.1: 9 residues within 4Å: Chain A: F.217, S.218, R.221, R.244, G.245, R.247 Chain B: E.61, G.62, T.111 16 PLIP interactions: 11 interactions with chain A, 5 interactions with chain B Hydrogen bonds: A:R.244, A:G.245, B:G.62, B:T.111, B:T.111 Water bridges: A:F.217, A:S.218, A:S.218, A:R.221, A:R.413, A:R.413, B:E.112 Salt bridges: A:R.221, A:R.244, A:R.247 Hydrophobic interactions: B:T.111 CIT.2: 10 residues within 4Å: Chain A: I.55, R.56, R.59, Y.103, R.105, S.108, P.109, R.120, C.122, I.145 14 PLIP interactions: 13 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:R.105, A:P.109 Hydrogen bonds: A:I.55 Water bridges: A:R.59, A:R.59, A:R.105, A:R.105, A:S.108, B:E.261 Salt bridges: A:R.56, A:R.59, A:R.59, A:R.105, A:R.120 CIT.3: 5 residues within 4Å: Chain A: Q.24, N.98, T.100, T.126, H.157 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:T.126 Hydrogen bonds: A:N.98, A:T.100 Water bridges: A:N.98, A:T.100, A:S.156, A:H.157 Salt bridges: A:H.157 CIT.4: 7 residues within 4Å: Chain A: P.258, F.259, S.260, E.261, E.262 Chain B: R.148, Q.149 10 PLIP interactions: 2 interactions with chain B, 8 interactions with chain A Water bridges: B:R.148, A:S.260, A:S.260, A:E.262, A:E.262 Salt bridges: B:R.148 Hydrophobic interactions: A:F.259 Hydrogen bonds: A:F.259, A:E.261, A:E.262 CIT.5: 9 residues within 4Å: Chain A: E.61, G.62, T.111 Chain B: F.217, S.218, R.221, R.244, G.245, R.247 15 PLIP interactions: 11 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:R.244, B:G.245, A:G.62, A:T.111 Water bridges: B:F.217, B:S.218, B:S.218, B:R.221, B:R.413, B:R.413, A:E.112 Salt bridges: B:R.221, B:R.244, B:R.247 Hydrophobic interactions: A:T.111 CIT.6: 10 residues within 4Å: Chain B: I.55, R.56, R.59, Y.103, R.105, S.108, P.109, R.120, C.122, I.145 15 PLIP interactions: 14 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:R.105, B:P.109 Hydrogen bonds: B:I.55, B:Y.103 Water bridges: B:R.59, B:R.59, B:R.105, B:S.108, B:Y.147, A:E.261 Salt bridges: B:R.56, B:R.59, B:R.59, B:R.105, B:R.120 CIT.7: 5 residues within 4Å: Chain B: Q.24, N.98, T.100, T.126, H.157 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:T.126 Hydrogen bonds: B:N.98, B:T.100 Water bridges: B:N.98, B:T.100, B:S.156, B:H.157 Salt bridges: B:H.157 CIT.8: 7 residues within 4Å: Chain A: R.148, Q.149 Chain B: P.258, F.259, S.260, E.261, E.262 9 PLIP interactions: 8 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:F.259 Hydrogen bonds: B:F.259, B:E.261, B:E.262 Water bridges: B:E.255, B:S.260, B:S.260, B:E.262 Salt bridges: A:R.148

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, C.L. et al., Structural and functional insights into human Tudor-SN, a key component linking RNA interference and editing. Nucleic Acids Res. (2008)

Release Date

2008-08-26

Peptides

Staphylococcal nuclease domain-containing protein 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Staphylococcal nuclease domain-containing protein 1

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