Structure of PDB 3m6r Chain D

Receptor sequence
>3m6rD (length=180) Species: 3702 (Arabidopsis thaliana) [Search protein sequence]
MEIVEYPDPILRAKNKRIDIFDENLKNLVDAMFDVMYKTDMIGLSAPQVG
LNVQLMVFNPAGEPGEGKEIVLVNPKIKKYSDKLVPFDEGCLSFPGIYAE
VVRPQSVKIDARDITGERFSISLSRLPARIFQHEYDHLEGVLFFDRMTDQ
VLDSIREELEALEKKYEEKTGLPSPERVEA
3D structure
PDB3m6r Trapping conformational states along ligand-binding dynamics of peptide deformylase: the impact of induced fit on enzyme catalysis
ChainD
Resolution2.4 Å
3D
structure
Catalytic site residues are labeled in the structure
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Enzymatic activity
Catalytic site (original residue number in PDB) G43 Q48 C91 L92 H133 E134 H137
Catalytic site (residue number reindexed from 1) G43 Q48 C91 L92 H133 E134 H137
Enzyme Commision number 3.5.1.88: peptide deformylase.
Interaction with ligand
Site
#		 Ligand Ligand
chain		 Binding residues on receptor
(original residue number in PDB)		 Binding residues on receptor
(residue number reindexed from 1)		 Binding affinity
BS01 BB2 D M41 I42 G43 Q48 F87 D88 E89 G90 I130 H133 E134 H137 M41 I42 G43 Q48 F87 D88 E89 G90 I130 H133 E134 H137 MOAD: Kd=32nM
BS02 ZN D C91 H133 H137 C91 H133 H137
BS03 ZN D D30 D34 D30 D34
BS04 ZN D E157 E160 E157 E160
Gene Ontology
Molecular Function
GO:0042586 peptide deformylase activity

View graph for
Molecular Function
External links
PDB RCSB:3m6r, PDBe:3m6r, PDBj:3m6r
PDBsum3m6r
PubMed21629676
UniProtQ9FUZ2|DEF1B_ARATH Peptide deformylase 1B, chloroplastic/mitochondrial (Gene Name=PDF1B)

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