2b0d Summary

pdbe.org/2b0d
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EcoRV Restriction Endonuclease/GAATTC/Ca2+

The structure was published by Hiller, D.A., Rodriguez, A.M., and Perona, J.J., in 2005 in a paper entitled "Non-cognate Enzyme-DNA Complex: Structural and Kinetic Analysis of EcoRV Endonuclease Bound to the EcoRI Recognition Site GAATTC" (abstract).

This crystal structure was determined using X-ray diffraction at a resolution of 2.0 Å and deposited in 2005.

The experimental data on which the structure is based was also deposited.

This PDB entry contains a complex of 2 biomacromolecules, namely 5'-D(*AP*AP*AP*GP*AP*AP*TP*TP*CP*TP*T)-3' and Type II restriction enzyme EcoRV.

It also contains one or more heterogenic compounds (e.g., ligands, co-factors, ions, modified amino acids, etc.); see here for a complete list.

The molecule most likely forms heterotetramers.

The following tables show cross-reference information to other databases (to obtain a list of all PDB entries sharing the same property or classification, click on the magnifying glass icon):


Chain Name UniProt Name of source organism % of UniProt sequence present in the sample Residues in the sample molecules % of residues observed
A Type II restriction enzyme EcoRV P04390 (1-245) (T2E5_ECOLX)search Escherichia colisearch 100% 245 97%
B Type II restriction enzyme EcoRV P04390 (1-245) (T2E5_ECOLX)search Escherichia colisearch 100% 245 97%


This entry contains 1 unique UniProt protein:

UniProt accession Name Organism PDB
P04390 (1 - 245) Type II restriction enzyme EcoRV Escherichia coli

Chain Structural classification (SCOP) Structural classification (CATH) Sequence family (Pfam)
A, B (P04390) Restriction endonuclease EcoRVsearch ECO RV Endonuclease; Chain Asearch PF09233: Restriction endonuclease EcoRVsearch

Chain ID Molecular function (GO) Biological process (GO)
A, B (P04390) DNA bindingsearch endonuclease activitysearch Type II site-specific deoxyribonuclease activitysearch nuclease activitysearch metal ion bindingsearch hydrolase activitysearch nucleic acid phosphodiester bond hydrolysissearch DNA catabolic process, endonucleolyticsearch DNA restriction-modification systemsearch

Chain InterPro annotation
A, B Restriction endonuclease type II-likesearch DNA mismatch repair MutH/Restriction endonuclease, type IIsearch Restriction endonuclease, type II, EcoRVsearch Restriction endonuclease, type II, EcoRV, Proteobacteriasearch