Structure of PDB 3epo Chain B

Receptor sequence

>3epoB (length=526) Species: 155892 (Caulobacter vibrioides)

QSTIKAVAETISTGPIPGSRKVYQAGELFPELRVPFREVAVHPSANEPPV
TIYDPSGPYSDPAIQIDIEKGLPRTREALVVARGDVEEVADPRQVKPPEF
PGRKIYRAKPGKLVTQLEYARAGIITAEMEYVAIRENLRREQDRPCVRDG
EDFGASIPDFVTPEFVRQEIARGRAIIPANINHGELEPMAIGRNFLVKIN
ANIGNTVADEVDKLVWATRWGADTVMDLSTGRNIHNIRDWIIRNSSVPIG
TVPIYQALEKVNGVAEDLNWEVFRDTLIEQCEQGVDYFTIHAGVRLPFIP
MTAKRVTGIVSRGGSIMAKWCLAHHKENFLYERFDEICEIMRAYDVSFSL
GDGLRPGSTADANDEAQFSELRTLGELTKVAWKHGVQVMIEGPGHVAMHK
IKANMDEQLKHCHEAPFYTLGPLTTDIAPGYDHITSAIGAAMIGWFGTAM
LCYVTPKEHLGLPDRDDVKTGVITYKLAAHAADLAKGHPGAAMWDDAISR
ARFEFRWEDQFNLGLDPETARKFHDE

3D structure

• PDB: 3epo Reconstitution of ThiC in thiamine pyrimidine biosynthesis expands the radical SAM superfamily
• Chain: B
• Resolution: 2.1 Å

Enzymatic activity

• Enzyme Commision number: 4.1.99.17: phosphomethylpyrimidine synthase.

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	MP5	B	Y277 H313 S333 R334 G335 R377 E413 L442	Y255 H291 S311 R312 G313 R355 E391 L420

Gene Ontology

Molecular Function

• GO:0008270 zinc ion binding
• GO:0016829 lyase activity
• GO:0016830 carbon-carbon lyase activity
• GO:0046872 metal ion binding
• GO:0051536 iron-sulfur cluster binding
• GO:0051539 4 iron, 4 sulfur cluster binding
• GO:0070284 4-amino-5-hydroxymethyl-2-methylpyrimidine phosphate synthase activity

Biological Process

• GO:0009228 thiamine biosynthetic process
• GO:0009229 thiamine diphosphate biosynthetic process

Cellular Component

• GO:0005829 cytosol

External links

• PDB: RCSB:3epo, PDBe:3epo, PDBj:3epo
• PDBsum: 3epo
• PubMed: 18953358
• UniProt: Q9A6Q5|THIC_CAUVC Phosphomethylpyrimidine synthase (Gene Name=thiC)