SMTL ID : 5mfe.4 (3 other biounits)

Designed armadillo repeat protein YIIIM5AII in complex with (RR)4 peptide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

monomer

Ligands

1 x ARG- ARG- ARG- ARG- ARG- ARG- ARG: (RR)4(Non-covalent)

ARG-ARG-ARG-ARG-ARG-ARG-ARG.1: 25 residues within 4Å: Chain A: R.26, S.29, Q.30, S.33, G.34, N.36, I.39, E.65, W.68, N.72, S.75, G.76, G.77, N.78, I.81, Q.106, W.110, S.113, N.114, S.117, G.118, E.149, W.152, N.156, W.194 26 PLIP interactions: 26 interactions with chain A Hydrophobic interactions: A:W.68, A:W.110 Hydrogen bonds: A:N.36, A:N.72, A:N.72, A:S.75, A:N.78, A:N.78, A:Q.106, A:S.113, A:S.113, A:N.114, A:N.114, A:S.117, A:N.156, A:N.156, A:W.194 Water bridges: A:N.36, A:N.78, A:N.78 Salt bridges: A:E.65, A:E.149, A:E.149 pi-Cation interactions: A:W.110, A:W.152, A:W.194

4 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.2: 2 residues within 4Å: Chain A: S.141, P.142 No protein-ligand interaction detected (PLIP) EDO.3: 1 residues within 4Å: Chain A: E.79 No protein-ligand interaction detected (PLIP) EDO.4: 2 residues within 4Å: Chain A: E.60, S.99 No protein-ligand interaction detected (PLIP) EDO.10: 4 residues within 4Å: Chain A: P.226, N.227, E.228 Ligands: CA.9 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.227, A:E.228

7 x CA: CALCIUM ION(Non-covalent)

CA.5: 2 residues within 4Å: Chain A: P.58, E.60 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:P.58, A:E.60, H2O.1 CA.6: 2 residues within 4Å: Chain A: E.275, E.278 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.275, H2O.4 CA.7: 3 residues within 4Å: Chain A: P.142, N.143, E.144 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:P.142, A:E.144, H2O.2, H2O.5 CA.8: 2 residues within 4Å: Chain A: P.184, E.186 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:P.184, A:E.186, H2O.2, H2O.4 CA.9: 3 residues within 4Å: Chain A: P.226, E.228 Ligands: EDO.10 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:P.226, A:E.228, H2O.4 CA.11: 2 residues within 4Å: Chain A: P.100, E.102 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:P.100, A:E.102, H2O.2 CA.12: 2 residues within 4Å: Chain A: P.16, Q.18 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:P.16

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hansen, S. et al., Curvature of designed armadillo repeat proteins allows modular peptide binding. J. Struct. Biol. (2018)

Release Date

2017-09-13

Peptides

YIIIM5AII: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

YIIIM5AII

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