SMTL ID : 2rfm.3 (3 other biounits)

Structure of a Thermophilic Ankyrin Repeat Protein

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

homo-tetramer

Ligands

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

SO4.1: 4 residues within 4Å: Chain A: N.79, R.80, L.81, G.82 Ligand excluded by PLIP SO4.2: 4 residues within 4Å: Chain A: G.178, R.179, Q.180, E.181 Ligand excluded by PLIP SO4.3: 1 residues within 4Å: Chain A: R.80 Ligand excluded by PLIP SO4.4: 4 residues within 4Å: Chain A: R.130, S.161, A.162, R.163 Ligand excluded by PLIP SO4.11: 4 residues within 4Å: Chain B: N.79, R.80, L.81, G.82 Ligand excluded by PLIP SO4.12: 5 residues within 4Å: Chain B: N.79, G.112, Y.113, S.114, E.115 Ligand excluded by PLIP SO4.13: 2 residues within 4Å: Chain B: R.130 Chain C: K.64 Ligand excluded by PLIP SO4.14: 3 residues within 4Å: Chain B: N.126, V.127, N.128 Ligand excluded by PLIP SO4.23: 4 residues within 4Å: Chain C: N.79, R.80, L.81, G.82 Ligand excluded by PLIP SO4.24: 4 residues within 4Å: Chain C: G.178, R.179, Q.180, E.181 Ligand excluded by PLIP SO4.25: 1 residues within 4Å: Chain C: R.80 Ligand excluded by PLIP SO4.26: 4 residues within 4Å: Chain C: R.130, S.161, A.162, R.163 Ligand excluded by PLIP SO4.33: 4 residues within 4Å: Chain D: N.79, R.80, L.81, G.82 Ligand excluded by PLIP SO4.34: 5 residues within 4Å: Chain D: N.79, G.112, Y.113, S.114, E.115 Ligand excluded by PLIP SO4.35: 2 residues within 4Å: Chain A: K.64 Chain D: R.130 Ligand excluded by PLIP SO4.36: 3 residues within 4Å: Chain D: N.126, V.127, N.128 Ligand excluded by PLIP

2 x 144: TRIS-HYDROXYMETHYL-METHYL-AMMONIUM(Non-covalent)

144.5: 6 residues within 4Å: Chain A: S.114, G.145, R.146, S.147, E.148, I.149 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:R.146, A:S.147, A:S.147, A:E.148, A:I.149 Water bridges: A:S.114 Salt bridges: A:E.148 144.27: 6 residues within 4Å: Chain C: S.114, G.145, R.146, S.147, E.148, I.149 8 PLIP interactions: 8 interactions with chain C Hydrogen bonds: C:R.146, C:S.147, C:S.147, C:E.148, C:I.149 Water bridges: C:Y.118, C:E.148 Salt bridges: C:E.148

8 x BU2: 1,3-BUTANEDIOL(Non-covalent)

BU2.6: 6 residues within 4Å: Chain A: K.77, N.78, F.111, Y.113 Chain B: R.179 Ligands: GOL.22 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:R.179, B:R.179, A:N.78 Water bridges: A:K.77 BU2.7: 3 residues within 4Å: Chain A: K.53, E.56, N.57 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:E.56 Hydrogen bonds: A:K.53 Water bridges: A:N.21 BU2.18: 7 residues within 4Å: Chain B: G.145, S.147, G.178, R.179, Q.180, E.181, V.182 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:Q.180, B:E.181 Hydrogen bonds: B:G.145, B:Q.180, B:E.181, B:V.182 Water bridges: B:S.147 BU2.19: 8 residues within 4Å: Chain B: L.27, R.28, N.29, Y.30, R.31, T.37, P.38, K.60 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:R.31, B:K.60 Water bridges: B:L.27, B:K.60 BU2.28: 6 residues within 4Å: Chain C: K.77, N.78, F.111, Y.113 Chain D: R.179 Ligands: GOL.44 4 PLIP interactions: 2 interactions with chain C, 2 interactions with chain D Hydrogen bonds: C:N.78, D:R.179, D:R.179 Water bridges: C:K.77 BU2.29: 3 residues within 4Å: Chain C: K.53, E.56, N.57 4 PLIP interactions: 4 interactions with chain C Hydrophobic interactions: C:E.56 Hydrogen bonds: C:K.53, C:E.56 Water bridges: C:N.21 BU2.40: 7 residues within 4Å: Chain D: G.145, S.147, G.178, R.179, Q.180, E.181, V.182 7 PLIP interactions: 7 interactions with chain D Hydrophobic interactions: D:Q.180, D:E.181 Hydrogen bonds: D:G.145, D:Q.180, D:E.181, D:V.182 Water bridges: D:S.147 BU2.41: 8 residues within 4Å: Chain D: L.27, R.28, N.29, Y.30, R.31, T.37, P.38, K.60 4 PLIP interactions: 4 interactions with chain D Hydrophobic interactions: D:R.31, D:K.60 Water bridges: D:L.27, D:K.60

12 x GOL: GLYCEROL(Non-functional Binders)

GOL.8: 5 residues within 4Å: Chain A: Y.30, D.32, R.36 Chain B: R.175, I.176 6 PLIP interactions: 1 interactions with chain B, 5 interactions with chain A Hydrogen bonds: B:I.176, A:D.32, A:R.36 Water bridges: A:S.33, A:S.33, A:S.33 GOL.9: 3 residues within 4Å: Chain A: K.143, Y.144, F.177 7 PLIP interactions: 3 interactions with chain B, 4 interactions with chain A Water bridges: B:E.67, B:K.77, B:K.77, A:Y.144, A:Y.144, A:R.179, A:R.179 GOL.10: 8 residues within 4Å: Chain A: K.102, W.107, I.110, Y.144 Chain B: W.107, I.110, F.111, Y.144 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.144 Water bridges: A:Y.144 GOL.20: 4 residues within 4Å: Chain B: R.31, N.35, D.63, K.64 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:R.31, B:R.31, B:N.35, B:D.63, B:K.64, B:K.64 Water bridges: B:R.31, B:N.35 GOL.21: 7 residues within 4Å: Chain B: S.114, Y.118, G.145, R.146, S.147, E.148, I.149 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:S.114, B:R.146, B:S.147, B:E.148, B:I.149 Water bridges: B:G.145 GOL.22: 4 residues within 4Å: Chain B: K.143, Y.144, F.177 Ligands: BU2.6 9 PLIP interactions: 5 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:Y.144, B:Y.144 Water bridges: B:K.143, B:Y.144, B:R.179, A:E.67, A:K.77, A:K.77, A:K.77 GOL.30: 5 residues within 4Å: Chain C: Y.30, D.32, R.36 Chain D: R.175, I.176 6 PLIP interactions: 5 interactions with chain C, 1 interactions with chain D Hydrogen bonds: C:Y.30, C:R.36, D:I.176 Water bridges: C:S.33, C:S.33, C:S.33 GOL.31: 3 residues within 4Å: Chain C: K.143, Y.144, F.177 7 PLIP interactions: 4 interactions with chain C, 3 interactions with chain D Water bridges: C:Y.144, C:Y.144, C:R.179, C:R.179, D:E.67, D:K.77, D:K.77 GOL.32: 8 residues within 4Å: Chain C: K.102, W.107, I.110, Y.144 Chain D: W.107, I.110, F.111, Y.144 3 PLIP interactions: 2 interactions with chain C, 1 interactions with chain D Hydrogen bonds: C:Y.144 Water bridges: C:Y.144, D:Y.144 GOL.42: 4 residues within 4Å: Chain D: R.31, N.35, D.63, K.64 7 PLIP interactions: 7 interactions with chain D Hydrogen bonds: D:R.31, D:R.31, D:N.35, D:K.64, D:K.64 Water bridges: D:R.31, D:N.35 GOL.43: 7 residues within 4Å: Chain D: S.114, Y.118, G.145, R.146, S.147, E.148, I.149 8 PLIP interactions: 8 interactions with chain D Hydrogen bonds: D:S.114, D:Y.118, D:R.146, D:S.147, D:E.148, D:E.148, D:I.149 Water bridges: D:G.145 GOL.44: 4 residues within 4Å: Chain D: K.143, Y.144, F.177 Ligands: BU2.28 9 PLIP interactions: 5 interactions with chain D, 4 interactions with chain C Hydrogen bonds: D:Y.144 Water bridges: D:K.143, D:Y.144, D:Y.144, D:R.179, C:E.67, C:K.77, C:K.77, C:K.77

6 x CL: CHLORIDE ION(Non-functional Binders)

CL.15: 3 residues within 4Å: Chain B: K.64, T.96, K.97 Ligand excluded by PLIP CL.16: 2 residues within 4Å: Chain B: N.95, N.126 Ligand excluded by PLIP CL.17: 1 residues within 4Å: Chain B: R.80 Ligand excluded by PLIP CL.37: 3 residues within 4Å: Chain D: K.64, T.96, K.97 Ligand excluded by PLIP CL.38: 2 residues within 4Å: Chain D: N.95, N.126 Ligand excluded by PLIP CL.39: 1 residues within 4Å: Chain D: R.80 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Loew, C. et al., Structural insights into an equilibrium folding intermediate of an archaeal ankyrin repeat protein. Proc.Natl.Acad.Sci.Usa (2008)

Release Date

2008-03-11

Peptides

Putative ankyrin repeat protein TV1425: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Putative ankyrin repeat protein TV1425

Related Entries With Identical Sequence