Endonuclease V from coliphage T4.

(Last Update: 04/21/00 )

SwissProt sequence END5_BPT4 is used as the master sequence for the alignments on this page.

Domains and features (from SwissProt)

ACT_SITE Glutamic acid (E) in column 23 is "general base in the beta-elimination reaction of the phosphodiester bond cleavage."

Protein sequences (names from NCBI's non-redundant data base):

See the alignment, as all sequences in the alignment are close homologs.

Structures in PDB:

2end; pdbsum entry
1enk; pdbsum entry
1enj; pdbsum entry
1eni; pdbsum entry
1vasA; pdbsum entry

Multiple alignment (using SAM-T99 method)

pretty-printed (human-readable)
gzipped A2M format (machine-readable)

Predicted secondary structure

CASP format
FASTA format
RDB format

True secondary structure from 2end PDB.

Potential Archea matches

Organism Score file Most likely homolog Alignment
Aeropyrum pernix aero.dist
no likely homologs
Archaeoglobus fulgidus aful.dist
no likely homologs
Methanobacterium thermoautotrophicum thermo.dist
no likely homologs
Methanococcus jannaschii jann.dist no likely homologs
Pyrococcus abyssi pabyssi.dist
no likely homologs
Pyrococcus horikoshii pyrohori.dist
no likely homologs

Predicted alignments to PDB files

see actual structures.

Predicted tertiary structure.

None yet---should there be links to sites like Swiss-Prot, or should we just do our own modeling?

What other information should be included in this?

This is a draft page with information about DNA-repair proteins. There is a lot more work to be done on these pages.
(icon needed) UCSC Center for Biomolecular Engineering slug icon to go to School of Engineering home page UCSC Engineering (icon needed) DNA repair main page
       

The Bioinformatics group at UCSC is supported in part by NSF grant BIR-9408579, NSF grant MIP-9488395, DOE grant DE-FG03-95ER62112, LACOR grant 4158U0015-3A-01, and by GANN and NSF graduate fellowships.

The DNA-repair pages are not currently funded, so development of them is very slow.

Questions about page content should be directed to

Kevin Karplus
Computer Engineering
University of California, Santa Cruz
Santa Cruz, CA 95064
USA
karplus@soe.ucsc.edu
(831) 459-4250