Structure of PDB 5dwb Chain A

Receptor sequence
>5dwbA (length=278) Species: 53501 (Thalassovita gelatinovora) [Search protein sequence]
MRLDLDFGRGLVAHVMLDNVSEEQYQQISDYFVPLVNKPKLKSRDAIGQA
FVMATEVCPDANPSDLWHHVLYRIYIREKIGTDPSQSWVRTSGEAFEVAL
VERYNPVLARHGIRLTALFKGQKGLALTRMGVADRVGSRKVDVMIEKQGG
GRSPDAEGFGVVGGIHAKVSLAERVSDDIPASRIMMGEGLLSVLSTLDVK
SFPPPHGDLVNRGELGTPDRPSDKRNYIEGHGDFSACFSYNLRTSPSNAT
TPSGRHIYVSGFSGQDDEFTDYLVAQLA
3D structure
PDB5dwb Restriction endonuclease AgeI is a monomer which dimerizes to cleave DNA.
ChainA
Resolution2.4 Å
3D
structure
[Spin on]
[Spin off]
[Reset orientation]

[High quality]
[Low quality]

[White background]
[Black background]

[Download]
[Download structure with residue number starting from 1]
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 A K42 R44 T82 D83 Q86 S87 V89 R90 F119 K120 E173 F202 K224 K42 R44 T82 D83 Q86 S87 V89 R90 F119 K120 E173 F202 K224
BS02 dna A Y72 V89 R90 G93 K168 V169 S170 R174 K200 P203 Y72 V89 R90 G93 K168 V169 S170 R174 K200 P203
Gene Ontology
Molecular Function
GO:0004519 endonuclease activity
GO:0009036 type II site-specific deoxyribonuclease activity
Biological Process
GO:0009307 DNA restriction-modification system

View graph for
Molecular Function
View graph for
Biological Process
External links
PDB RCSB:5dwb, PDBe:5dwb, PDBj:5dwb
PDBsum5dwb
PubMed28039325
UniProtQ9KHV6|T2A1_THAGE Type II restriction enzyme AgeI (Gene Name=ageIR)

[Back to BioLiP]