Structure of PDB 3dvo Chain B

Receptor sequence

>3dvoB (length=336) Species: 1911 (Streptomyces griseus)

PFTYSIEATRNLATTERCIQDIRNAPVRNRSTQFQLAQQNMLAYTFGEVI
PGFASAGINGMDYRDVIGRPVENAVTEGTHFFRDDFRVDSNAKAKVAGDI
FEIVSSAVMWNCAARWNSLMVGEGWRSQPRYSRPTLSPSPRRQVAVLNLP
RSFDWVSLLVPESQEVIEEFRAGLRKDGLGLPTSTPDLAVVVLPEEFQND
EMWREEIAGLTRPNQILLSGAYQRLQGRVQPGEISLAVAFKRSLRSDRLY
QPLYEANVMQLLLEGKLGAPKVEFEVHTLAPEGTNAFVTYEAASLYGLAE
GAVHRAIRELYVPPTAADLARRFFAFLNERMELVNG

3D structure

• PDB: 3dvo The structure of SgrAI bound to DNA; recognition of an 8 base pair target.
• Chain: B
• Resolution: 1.892 Å

Enzymatic activity

• Enzyme Commision number: 3.1.21.4: type II site-specific deoxyribonuclease.

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	dna	B	A95 K96 G99 R152 S153 K242 R243 S244 R246 R249	A94 K95 G98 R151 S152 K241 R242 S243 R245 R248
BS02	dna	B	R31 T33 Q36 L37 Q39 Q40 D90 N92 A93 K96 R152 R246 S247 D248	R30 T32 Q35 L36 Q38 Q39 D89 N91 A92 K95 R151 R245 S246 D247
BS03	CA	B	D188 F241	D187 F240
BS04	CA	B	E103 N149 L150	E102 N148 L149

Gene Ontology

Molecular Function

• GO:0042802 identical protein binding
• GO:0046872 metal ion binding

External links

• PDB: RCSB:3dvo, PDBe:3dvo, PDBj:3dvo
• PDBsum: 3dvo
• PubMed: 18701646
• UniProt: Q9F6L0