Structure of PDB 3n39 Chain A

Receptor sequence

>3n39A (length=282) Species: 83333 (Escherichia coli K-12)

SAINWNKISDDKDLEVWNRLTSNFWLPEKVPLSNDIPAWQTLTVVEQQLT
MRVFTGLTLLDTLQNVIGAPSLMPDALTPHEEAVLSNISFMEAVHARSYS
SIFSTLCQTKDVDAAYAWSEENAPLQRKAQIIQQHYRGDDPLKKKIASVF
LESFLFYSGFWLPMYFSSRGKLTNTADLIRLIIRDEAVHGYYIGYKYQKN
MEKISLGQREELKSFAFDLLLELYDNELQYTDELYAETPWADDVKAFLCY
NANKALMNLGYEPLFPAEMAEVNPAILAALSP

3D structure

• PDB: 3n39 Structural basis for activation of class Ib ribonucleotide reductase.
• Chain: A
• Resolution: 2.5 Å

Enzymatic activity

• Catalytic site (original residue number in PDB): Y105 D191
• Catalytic site (residue number reindexed from 1): Y99 D185
• Enzyme Commision number: 1.17.4.1: ribonucleoside-diphosphate reductase.

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	E98 E158 E192 H195	E92 E152 E186 H189
BS02	MN	A	D67 E98 H101 E158 E192	D61 E92 H95 E152 E186
BS03	FMN	A	R25 Y197	R19 Y191

Gene Ontology

Molecular Function

• GO:0004748 ribonucleoside-diphosphate reductase activity, thioredoxin disulfide as acceptor
• GO:0005515 protein binding
• GO:0016491 oxidoreductase activity
• GO:0030145 manganese ion binding
• GO:0046872 metal ion binding

Biological Process

• GO:0009185 ribonucleoside diphosphate metabolic process
• GO:0009263 deoxyribonucleotide biosynthetic process
• GO:0009265 2'-deoxyribonucleotide biosynthetic process

Cellular Component

• GO:0005971 ribonucleoside-diphosphate reductase complex

External links

• PDB: RCSB:3n39, PDBe:3n39, PDBj:3n39
• PDBsum: 3n39
• PubMed: 20688982
• UniProt: P37146|RIR4_ECOLI Ribonucleoside-diphosphate reductase 2 subunit beta (Gene Name=nrdF)