SMTL ID : 4kag.1

Crystal structure analysis of a single amino acid deletion mutation in EGFP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.12 Å

Oligo State

monomer

Ligands

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

EDO.1: 5 residues within 4Å: Chain A: K.100, D.101, V.175, Q.176, L.177 Ligand excluded by PLIP EDO.2: 3 residues within 4Å: Chain A: M.77, D.195, G.226 Ligand excluded by PLIP EDO.3: 4 residues within 4Å: Chain A: R.72, P.74, D.75, K.78 Ligand excluded by PLIP EDO.4: 7 residues within 4Å: Chain A: F.98, F.99, K.100, K.165, L.177, D.179 Ligands: EDO.6 Ligand excluded by PLIP EDO.5: 6 residues within 4Å: Chain A: E.35, G.36, D.37, K.42, L.43, T.44 Ligand excluded by PLIP EDO.6: 4 residues within 4Å: Chain A: F.98, D.179, Y.181 Ligands: EDO.4 Ligand excluded by PLIP EDO.7: 6 residues within 4Å: Chain A: E.94, R.95, T.96, K.106, T.107 Ligands: TRS.19 Ligand excluded by PLIP EDO.8: 6 residues within 4Å: Chain A: E.18, L.19, S.29, V.30, S.31, T.50 Ligand excluded by PLIP EDO.9: 4 residues within 4Å: Chain A: R.108, E.110, R.121, E.123 Ligand excluded by PLIP EDO.10: 3 residues within 4Å: Chain A: E.114, G.115, D.116 Ligand excluded by PLIP EDO.11: 1 residues within 4Å: Chain A: Y.40 Ligand excluded by PLIP EDO.12: 5 residues within 4Å: Chain A: N.163, F.164, K.165, H.180, Y.181 Ligand excluded by PLIP EDO.13: 7 residues within 4Å: Chain A: S.85, A.86, M.87, E.89, G.188, G.189, V.191 Ligand excluded by PLIP EDO.14: 7 residues within 4Å: Chain A: K.207, D.208, P.209, E.211, K.212, R.213, H.215 Ligand excluded by PLIP EDO.15: 3 residues within 4Å: Chain A: S.200, T.223, A.225 Ligand excluded by PLIP EDO.21: 5 residues within 4Å: Chain A: P.57, W.58, P.59, H.138, Y.142 Ligand excluded by PLIP

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

SO4.16: 5 residues within 4Å: Chain A: S.146, H.147, N.148, Y.150, R.167 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:S.146, A:N.148, A:N.148 Water bridges: A:K.165, A:R.167, A:R.167 Salt bridges: A:R.167 SO4.17: 3 residues within 4Å: Chain A: P.88, F.113, G.115 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.115

3 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.18: 7 residues within 4Å: Chain A: D.20, G.21, D.22, E.123, L.124, K.125 Ligands: TRS.19 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:E.123, A:L.124, A:L.124 Water bridges: A:D.20, A:G.21 TRS.19: 8 residues within 4Å: Chain A: K.106, T.107, R.108, E.123, L.124, K.125 Ligands: EDO.7, TRS.18 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.106, A:K.106, A:T.107, A:R.108, A:K.125 TRS.20: 1 residues within 4Å: Chain A: Q.156 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Arpino, J.A. et al., Structural and dynamic changes associated with beneficial engineered single-amino-acid deletion mutations in enhanced green fluorescent protein. Acta Crystallogr.,Sect.D (2014)

Release Date

2014-08-06

Peptides

Green fluorescent protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Green fluorescent protein