Structure of PDB 4lrb Chain A

Receptor sequence

>4lrbA (length=391) Species: 1396 (Bacillus cereus)

NKYKRIFLVVMDSVGIGEAPDAEQFGDLGSDTIGHIAEHMNGLQMPNMVK
LGLGNIREMKGISKVEKPLGYYTKMQEKSTGKDTMTGHWEIMGLYIDTPF
QVFPEGFPKELLDELEEKTGRKIIGNKPASGTEILDELGQEQMETGSLIV
YTGADSVLQIAAHEEVVPLDELYKICKIARELTLDEKYMVGRVIARPFVG
EPGNFTRTPNRHDYALKPFGRTVMNELKDSDYDVIAIGKISDIYDGEGVT
ESLRTKSNMDGMDKLVDTLNMDFTGLSFLNLVDFDALFGHRRDPQGYGEA
LQEYDARLPEVFAKLKEDDLLLITADHGNDPIHPGTDHTREYVPLLAYSP
SMKEGGQELPLRQTFADIGATVAENFGVKMPEYGTSFLNEL

3D structure

• PDB: 4lrb Bioretrosynthetic construction of a didanosine biosynthetic pathway.
• Chain: A
• Resolution: 2.0 Å

Enzymatic activity

• Enzyme Commision number: 5.4.2.7: phosphopentomutase.

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	MN	A	T85 D156 D286 H291 H339	T84 D155 D285 H290 H338
BS02	MN	A	D13 T85 D327 H328	D12 T84 D326 H327
BS03	MN	A	G27 D28 H334	G26 D27 H333
BS04	1X4	A	S131 Q160 R197 R208	S130 Q159 R196 R207

Gene Ontology

Molecular Function

• GO:0000287 magnesium ion binding
• GO:0003824 catalytic activity
• GO:0008973 phosphopentomutase activity
• GO:0016853 isomerase activity
• GO:0030145 manganese ion binding
• GO:0046872 metal ion binding

Biological Process

• GO:0006015 5-phosphoribose 1-diphosphate biosynthetic process
• GO:0006018 2-deoxyribose 1-phosphate catabolic process
• GO:0009117 nucleotide metabolic process
• GO:0043094 cellular metabolic compound salvage

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol

External links

• PDB: RCSB:4lrb, PDBe:4lrb, PDBj:4lrb
• PDBsum: 4lrb
• PubMed: 24657930
• UniProt: Q818Z9|DEOB_BACCR Phosphopentomutase (Gene Name=deoB)