SMTL ID : 2b3p.1

Crystal structure of a superfolder green fluorescent protein

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

monomer

Ligands

9 x CD: CADMIUM ION(Non-covalent)

CD.1: 3 residues within 4Å: Chain A: D.100, K.129 Ligands: ACY.15 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Ligand interactions Metal complexes: A:D.100, A:D.100, ACY.15 CD.2: 4 residues within 4Å: Chain A: D.74, H.75, H.229 Ligands: ACY.11 3 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions, 1 Ligand-Ligand interactions Metal complexes: A:D.74, H2O.5, ACY.11 CD.3: 1 residues within 4Å: Chain A: E.109 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.109, A:E.109 CD.4: 3 residues within 4Å: Chain A: E.17 Ligands: ACY.10, ACY.13 5 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions, 2 Ligand-Ligand interactions Metal complexes: A:E.17, A:E.17, H2O.6, ACY.10, ACY.13 CD.5: 1 residues within 4Å: Chain A: E.140 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.140, A:E.140, H2O.13 CD.6: 1 residues within 4Å: Chain A: E.130 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.130, H2O.6 CD.7: 1 residues within 4Å: Chain A: D.36 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.36 CD.8: 1 residues within 4Å: Chain A: E.32 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.32, A:E.32 CD.9: 5 residues within 4Å: Chain A: N.147, Y.149, F.163, K.164 Ligands: ACY.14 3 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions, 1 Ligand-Ligand interactions Metal complexes: A:N.147, H2O.4, ACY.14

6 x ACY: ACETIC ACID(Non-functional Binders)

ACY.10: 4 residues within 4Å: Chain A: E.17, R.120 Ligands: CD.4, ACY.13 4 PLIP interactions: 4 interactions with chain A Water bridges: A:E.17, A:R.30, A:R.120 Salt bridges: A:R.120 ACY.11: 4 residues within 4Å: Chain A: P.73, D.74, H.75 Ligands: CD.2 2 PLIP interactions: 2 interactions with chain A Water bridges: A:D.74 Salt bridges: A:H.75 ACY.12: 2 residues within 4Å: Chain A: I.126, D.127 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:I.126 Water bridges: A:D.127 ACY.13: 3 residues within 4Å: Chain A: E.17 Ligands: CD.4, ACY.10 No protein-ligand interaction detected (PLIP) ACY.14: 5 residues within 4Å: Chain A: H.146, N.147, Y.149, R.166 Ligands: CD.9 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.147, A:R.166 ACY.15: 2 residues within 4Å: Chain A: D.100 Ligands: CD.1 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pedelacq, J.D. et al., Engineering and characterization of a superfolder green fluorescent protein. Nat.Biotechnol. (2006)

Release Date

2005-11-08

Peptides

green fluorescent protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

green fluorescent protein