Structure of PDB 2ivd Chain A

Receptor sequence

>2ivdA (length=449) Species: 34 (Myxococcus xanthus)

MNVAVVGGGISGLAVAHHLRSRGTDAVLLESSARLGGAVGTHALAGYLVE
QGPNSFLDREPATRALAAALNLEGRIRAADPAAKRRYVYTRGRLRSVPAS
PPAFLASDILPLGARLRVAGELFSRRAPEGVDESLAAFGRRHLGHRATQV
LLDAVQTGIYAGDVEQLSVAATFPMLVKMEREHRSLILGAIRAQKAQRQA
GTAPKLSGALSTFDGGLQVLIDALAASLGDAAHVGARVEGLAREGWRLII
EEHGRRAELSVAQVVLAAPAHATAKLLRPLDDALAALVAGIAYAPIAVVH
LGFDAGTLPAPDGFGFLVPAEEQRRMLGAIHASTTFPFRAEGGRVLYSCM
VGGARQPGLVEQDEDALAALAREELKALAGVTARPSFTRVFRWPLGIPQY
NLGHLERVAAIDAALQRLPGLHLIGNAYKGVGLNDCIRNAAQLADALVA

3D structure

• PDB: 2ivd Crystal Structure of Protoporphyrinogen Oxidase from Myxococcus Xanthus and its Complex with the Inhibitor Acifluorfen.
• Chain: A
• Resolution: 2.3 Å

Enzymatic activity

• Enzyme Commision number: 1.3.3.4: protoporphyrinogen oxidase.

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	ACJ	A	T166 G167 I168 F329 G330 F331 L332 M365	T157 G158 I159 F314 G315 F316 L317 M350
BS02	FAD	A	V15 G16 G18 I19 S20 L38 E39 S40 G46 A47 G61 P62 S64 V251 P284 I412 G440 N441 V446 G447 L448	V6 G7 G9 I10 S11 L29 E30 S31 G37 A38 G52 P53 S55 V238 P269 I397 G425 N426 V431 G432 L433

Gene Ontology

Molecular Function

• GO:0004729 oxygen-dependent protoporphyrinogen oxidase activity
• GO:0016491 oxidoreductase activity

Biological Process

• GO:0006779 porphyrin-containing compound biosynthetic process
• GO:0006782 protoporphyrinogen IX biosynthetic process
• GO:0006783 heme biosynthetic process

Cellular Component

• GO:0005737 cytoplasm
• GO:0005886 plasma membrane

External links

• PDB: RCSB:2ivd, PDBe:2ivd, PDBj:2ivd
• PDBsum: 2ivd
• PubMed: 17046834
• UniProt: P56601|PGOX_MYXXA Protoporphyrinogen oxidase (Gene Name=pgoX)