Detailed information    

insolico Bioinformatically predicted

Overview

Name   uvrC   Type   Machinery gene
Locus tag   D4K40_RS04380 Genome accession   NZ_CP032902
Coordinates   888738..890522 (+) Length   594 a.a.
NCBI ID   WP_139520774.1    Uniprot ID   -
Organism   Helicobacter pylori strain 280-A-EK1     
Function   integration of short DNA fragment (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 883738..895522
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  D4K40_RS04350 motB 884504..885277 (+) 774 WP_139520772.1 flagellar motor protein MotB -
  D4K40_RS04355 - 885283..885720 (+) 438 WP_001900984.1 hypothetical protein -
  D4K40_RS04360 - 885789..887450 (+) 1662 WP_139521244.1 ABC transporter permease/substrate-binding protein -
  D4K40_RS04365 - 887452..888093 (+) 642 WP_139520773.1 ATP-binding cassette domain-containing protein -
  D4K40_RS04370 - 888105..888284 (-) 180 WP_000468793.1 hypothetical protein -
  D4K40_RS04375 - 888276..888737 (+) 462 WP_000437179.1 hypothetical protein -
  D4K40_RS04380 uvrC 888738..890522 (+) 1785 WP_139520774.1 excinuclease ABC subunit UvrC Machinery gene
  D4K40_RS04385 - 890533..891798 (+) 1266 WP_139520775.1 homoserine dehydrogenase -
  D4K40_RS04390 - 891798..892142 (+) 345 WP_001211718.1 YraN family protein -
  D4K40_RS04395 trxA 892231..892551 (+) 321 WP_000020199.1 thioredoxin -
  D4K40_RS04400 trxB 892556..893491 (+) 936 WP_139520776.1 thioredoxin-disulfide reductase -
  D4K40_RS04405 - 893863..894684 (+) 822 WP_139520777.1 glycosyltransferase family 25 protein -
  D4K40_RS04410 - 894896..895144 (-) 249 WP_000790557.1 RNA-binding protein -

Sequence

Protein


Download         Length: 594 a.a.        Molecular weight: 68661.80 Da        Isoelectric Point: 9.6704

>NTDB_id=320121 D4K40_RS04380 WP_139520774.1 888738..890522(+) (uvrC) [Helicobacter pylori strain 280-A-EK1]
MADLLSSLKNLSSSSGVYQYFDKNRQLLYIGKAKNLKKRIKSYFSIRNNEITPNHRASLRIQMMVKQIAFLETILVENEQ
DALILENSLIKQLKPKYNILLRDDKTYPYIYMDFSTDFPIPLITRKILKQPGVKYFGPFTSGAKDILDSLYELLPLVQKK
NCIKDKKACMFYQIERCKAPCEDKITKEEYSKIAKECLEMIENKDKLIKELELKMERLSNNLRFEEALIYRDRIAKIQKI
APFTCMDLAKLYDLDIFAFYGASNKAVLVKMFMRGGKIISSAFEKIHSINGFDTDEAMKQAIINHYQSHLPLMPEQILLS
ACSNEALKELQEFISHQYSKKIALSIPKKGDKLALIEIAMKNAQEIFSQEKTSNEDWILEEVRSLFNLECVPYRVEIFDT
SHHSNSQCVGGMVVYENNAFQKNSYRRYHLKGSNEYTQMSELLTRRALDFAKEPPPNLWVIDGGRAQLNIALEILKSSGS
FVEVIAISKEKRDSKAYRSKGGTKDIIHTPSDTFKLLPSDKRLQWVQKLRDESHRYAINFHRSTKLKNMKQIALLKEKGI
GEASVKKLLDYFGSFEAIEKASEQEKNAVLKKRI

Nucleotide


Download         Length: 1785 bp        

>NTDB_id=320121 D4K40_RS04380 WP_139520774.1 888738..890522(+) (uvrC) [Helicobacter pylori strain 280-A-EK1]
ATGGCTGATTTATTGTCCAGTTTGAAAAACCTTTCTAGTAGCAGTGGCGTGTATCAATATTTTGATAAAAACCGCCAATT
ACTCTATATCGGTAAGGCGAAAAATTTAAAAAAACGCATCAAAAGCTATTTTTCCATCCGTAATAATGAAATCACGCCCA
ATCATCGCGCTAGCTTACGCATCCAAATGATGGTCAAACAAATCGCTTTTTTAGAAACCATTTTAGTGGAAAACGAGCAA
GACGCTTTGATTTTAGAAAATTCTTTAATCAAGCAGCTCAAGCCCAAATACAACATTCTTTTAAGAGACGATAAAACTTA
CCCTTATATTTACATGGATTTTTCCACTGATTTCCCTATCCCTTTAATCACACGAAAAATTTTAAAACAGCCTGGCGTTA
AATATTTTGGCCCTTTCACGAGCGGGGCTAAAGATATTTTAGACAGCTTGTATGAGTTGCTCCCGTTGGTTCAAAAGAAA
AATTGCATCAAGGATAAAAAGGCATGCATGTTTTATCAAATAGAGCGTTGTAAAGCCCCATGCGAGGATAAAATCACCAA
AGAAGAGTATTCAAAAATCGCTAAAGAATGTTTAGAAATGATTGAAAATAAAGACAAACTCATCAAAGAGCTTGAATTGA
AAATGGAGCGCCTTTCTAACAACTTGCGTTTTGAAGAAGCCCTCATTTACAGGGACAGGATTGCAAAAATCCAAAAAATC
GCCCCTTTCACTTGCATGGATTTGGCCAAACTCTATGATTTGGATATTTTTGCTTTTTATGGCGCAAGCAATAAGGCGGT
GTTAGTGAAAATGTTTATGCGTGGGGGTAAAATCATTTCTTCAGCGTTTGAAAAAATCCACTCCATTAATGGGTTTGACA
CTGATGAAGCGATGAAACAAGCCATTATCAATCATTACCAATCGCATTTGCCTTTGATGCCTGAACAAATCTTATTGAGC
GCTTGCTCTAATGAAGCGCTTAAAGAATTGCAAGAATTTATCTCTCATCAATACTCTAAAAAAATCGCTCTTAGCATTCC
TAAAAAAGGCGATAAGCTCGCTTTAATAGAAATCGCTATGAAAAACGCTCAAGAGATTTTTAGCCAAGAAAAAACCTCTA
ATGAAGATTGGATTTTAGAAGAGGTGCGATCGCTCTTTAATTTAGAGTGCGTGCCTTATAGGGTGGAAATCTTTGACACA
AGCCACCATTCAAACAGCCAATGCGTGGGGGGAATGGTCGTGTATGAAAACAACGCCTTCCAAAAAAATTCTTATCGGCG
CTACCATTTAAAAGGCTCTAACGAATACACTCAAATGAGCGAATTGCTCACCAGAAGGGCTTTAGACTTTGCTAAAGAGC
CACCGCCTAATTTGTGGGTGATCGATGGAGGGAGGGCGCAATTAAACATCGCTTTAGAAATTTTAAAAAGCAGCGGGAGT
TTTGTAGAAGTGATCGCTATTTCTAAAGAAAAAAGGGATTCTAAGGCTTATCGTTCTAAAGGGGGCACTAAAGACATTAT
CCATACGCCTAGCGATACTTTTAAATTGCTCCCTAGCGACAAACGCTTGCAGTGGGTGCAAAAATTGCGCGATGAAAGCC
ACCGGTATGCGATAAACTTCCATAGATCCACTAAACTTAAAAACATGAAACAAATCGCTCTTTTAAAAGAAAAGGGCATA
GGAGAAGCTAGCGTGAAAAAATTGTTGGATTATTTTGGGAGTTTTGAAGCGATAGAAAAAGCGAGCGAGCAGGAAAAAAA
CGCTGTTTTAAAAAAACGAATTTAA

Domains

Predicted by InterproScan.

UvrC RNAse H endonuclease domain (UvrC_RNaseH_dom)

(385-538)

UvrB/uvrC motif (UVR)

(205-239)

GIY-YIG catalytic domain (GIY-YIG)

(15-98)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure

Transmembrane helices

Transmembrane helices of protein were predicted by TMHMM 2.0 and visualized by seqviz and ECharts.


Visualization of predicted probability:


Similar proteins

Only experimentally validated proteins are listed.

Protein Organism Identities (%) Coverage (%) Ha-value
  uvrC Helicobacter pylori 26695

97.306

100

0.973

Multiple sequence alignment