Detailed information    

insolico Bioinformatically predicted

Overview

Name   comB4   Type   Machinery gene
Locus tag   LDM85_RS07250 Genome accession   NZ_AP024963
Coordinates   1508538..1510901 (-) Length   787 a.a.
NCBI ID   WP_223887499.1    Uniprot ID   -
Organism   Helicobacter pylori strain #5     
Function   transformation-associated type IV transport system (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1503538..1515901
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LDM85_RS07225 (OHP005_14590) lpxE 1504054..1504587 (+) 534 WP_223887940.1 lipid A 1-phosphatase LpxE -
  LDM85_RS07230 (OHP005_14600) nspC 1504597..1505814 (-) 1218 WP_223887497.1 carboxynorspermidine decarboxylase -
  LDM85_RS07235 (OHP005_14610) cheV1 1505811..1506776 (-) 966 WP_000785465.1 chemotaxis protein CheV1 -
  LDM85_RS07240 (OHP005_14620) - 1506877..1508217 (-) 1341 WP_223887498.1 COG3014 family protein -
  LDM85_RS07250 (OHP005_14630) comB4 1508538..1510901 (-) 2364 WP_223887499.1 VirB4 family type IV secretion/conjugal transfer ATPase Machinery gene
  LDM85_RS07255 (OHP005_14640) comB3 1510903..1511166 (-) 264 WP_120935524.1 competence protein ComB Machinery gene
  LDM85_RS07260 (OHP005_14650) comB2 1511166..1511447 (-) 282 WP_001272686.1 TrbC/VirB2 family protein Machinery gene
  LDM85_RS07265 (OHP005_14660) - 1511592..1512419 (-) 828 WP_223887500.1 DUF5718 family protein -
  LDM85_RS07270 (OHP005_14670) - 1512510..1513562 (-) 1053 WP_223887501.1 MnmA/TRMU family protein -
  LDM85_RS07275 (OHP005_14680) dnaG 1513559..1515238 (-) 1680 WP_223887502.1 DNA primase -
  LDM85_RS07280 (OHP005_14690) groES 1515513..1515869 (+) 357 WP_000671958.1 co-chaperone GroES -

Sequence

Protein


Download         Length: 787 a.a.        Molecular weight: 90247.97 Da        Isoelectric Point: 9.1913

>NTDB_id=89721 LDM85_RS07250 WP_223887499.1 1508538..1510901(-) (comB4) [Helicobacter pylori strain #5]
MLEKLLSAVKQKVSNYFLGVLPKSYSMSEENNILGLYDEHFLLTKNENLVGILRLEGVSYTHLSTEQLQDLFTERQMALD
SLEKVVARLVVKRRKIDHQQNIQTNSKYLQAILNQFENKEVYENQYFLVLESAHSLQGVLEHKKKSLMHANRENFKDILS
YKAHFLQETLKSLEIQLKNYAPKLLSSKEVLNFYAEYINGFDLPLKPLVGGYLSDSYIASSITFEKDYFIQESFNQKTYN
RLIGIKAYESERITSIAIGALLYQETPLDIIFSIEPMSVNKTLSFLKERAKFSMSNLVKNELLEYQELVKTKRLSMQKFA
LNILIKAPSLEDLDAQTSLVLGLLFKENLVGVIETFGLKGGYFSFFPERIHLNHRLRFLTSKALACLMVFERQNLGFKAN
SWGNSPLSVFKNLDYSPFLFNFHNQEVSHNNAKEIARVNGHTLIIGATGSGKSTLISFLMMSALKYQNMRLLAFDRMQGL
YSFTKFFKGHYHDGKSFSINPFCLEPNLQNLEFLQSFFLSMFDLAPSRDKEALEDMNAILSAIKSLYETLYPKAFSLLDF
KETLKRTSSNQLGLSLEPYLNNPLFNALNDAFNSRAFLNVINLDAITQNPKDLGLLAYYLFYKILEESRKNDSGFLVFLD
EFKSYVENDLLNAKINALITQARKANGVVVLALQDIYQLSGVKNAHSFLSNMGTLILYPQKNARELKHHFNVPLSETEIS
FLENTPLYARQVLVKNLGNGSSNMIDVNLEGLGRYLKIFNSDSSHVNKVKALQKDYPKEWREKLLKS

Nucleotide


Download         Length: 2364 bp        

>NTDB_id=89721 LDM85_RS07250 WP_223887499.1 1508538..1510901(-) (comB4) [Helicobacter pylori strain #5]
ATGTTAGAAAAGCTTTTGAGTGCTGTCAAACAAAAAGTTTCAAACTATTTTTTAGGGGTTTTGCCTAAAAGCTATTCTAT
GAGCGAAGAAAACAACATTTTAGGCTTGTATGATGAGCATTTCTTGCTCACTAAAAACGAAAACTTAGTGGGTATTCTCC
GTTTAGAGGGGGTGAGTTACACCCATTTAAGCACAGAGCAATTGCAAGATCTCTTCACCGAGCGCCAAATGGCGTTGGAT
TCTTTAGAAAAAGTCGTGGCGCGCCTTGTGGTTAAAAGGCGTAAAATTGATCACCAACAAAACATTCAAACCAATTCCAA
ATACTTGCAAGCGATTTTGAATCAATTTGAAAATAAAGAAGTGTATGAAAATCAGTATTTTTTAGTTTTAGAAAGCGCAC
ATTCTTTACAGGGCGTTTTAGAGCATAAGAAAAAATCTCTTATGCATGCCAATAGGGAAAATTTTAAGGACATTCTCTCT
TATAAAGCGCATTTTTTGCAAGAAACTTTAAAAAGCTTAGAAATCCAGCTCAAAAACTACGCCCCCAAACTCTTAAGCTC
TAAAGAGGTTTTGAATTTTTATGCGGAATACATTAACGGGTTTGATCTCCCTTTAAAACCCCTAGTAGGAGGGTATTTGA
GCGATAGCTATATCGCTAGTTCTATCACTTTTGAAAAAGACTATTTCATTCAAGAGAGCTTTAATCAAAAAACCTATAAC
CGCTTGATTGGCATTAAAGCTTATGAGAGCGAGCGCATCACTTCTATAGCGATCGGAGCGCTTTTATACCAAGAAACGCC
TTTAGACATTATCTTTTCTATAGAGCCTATGAGTGTCAATAAAACGCTGAGTTTTTTAAAAGAGAGAGCCAAATTTAGCA
TGTCCAATCTCGTTAAAAACGAGCTATTAGAATACCAAGAACTGGTCAAAACCAAACGCCTATCCATGCAAAAATTCGCC
CTAAACATTCTTATCAAAGCCCCTAGTTTAGAGGATTTAGACGCTCAAACAAGCTTAGTTTTAGGGCTTTTATTTAAAGA
AAACTTAGTGGGCGTTATAGAAACTTTTGGCTTGAAAGGGGGGTATTTTTCCTTTTTCCCTGAACGCATCCATTTAAACC
ACCGCTTGCGTTTTTTAACCTCTAAAGCCCTAGCGTGTTTAATGGTGTTTGAAAGGCAAAATTTAGGTTTTAAGGCTAAT
TCATGGGGGAATAGTCCTTTGAGCGTGTTTAAAAATTTGGATTATTCCCCTTTTTTATTCAATTTCCACAACCAAGAAGT
GAGCCACAACAACGCTAAAGAAATCGCCAGAGTGAATGGGCATACCTTAATCATAGGGGCTACTGGGAGCGGTAAAAGCA
CGCTGATTAGCTTTTTAATGATGAGCGCTTTGAAATACCAAAACATGCGCCTTTTAGCATTTGATAGGATGCAAGGGTTG
TATTCTTTCACAAAATTTTTTAAAGGGCATTACCATGACGGCAAATCTTTTAGCATCAACCCCTTTTGTTTAGAACCTAA
TTTGCAGAATTTAGAATTTTTGCAATCCTTCTTTTTGAGCATGTTTGATCTTGCCCCTTCAAGGGATAAAGAAGCCTTAG
AAGACATGAATGCGATTTTGAGCGCGATTAAGAGCCTTTATGAGACTTTATACCCTAAAGCTTTTAGTTTGTTAGATTTT
AAAGAAACGCTTAAAAGAACCTCATCTAACCAATTGGGTTTGAGTTTAGAGCCGTATTTGAATAACCCCCTTTTTAACGC
TTTGAATGACGCGTTCAACTCAAGAGCTTTTTTAAATGTGATAAACCTAGATGCCATCACCCAAAACCCTAAAGACTTAG
GGCTTTTAGCCTATTATTTGTTTTATAAAATCTTAGAAGAATCCAGGAAAAACGACAGCGGTTTTTTGGTTTTTTTAGAC
GAGTTTAAATCCTATGTGGAGAACGATTTATTGAACGCTAAAATTAACGCTTTAATCACGCAAGCCAGAAAAGCTAATGG
CGTGGTGGTGTTAGCTTTGCAAGACATTTACCAATTAAGCGGGGTTAAAAACGCTCATAGTTTTTTAAGCAACATGGGGA
CTCTTATTTTGTACCCGCAAAAAAACGCTAGGGAGTTGAAACACCACTTCAATGTGCCTTTGAGCGAAACTGAAATTTCT
TTTTTAGAAAACACCCCTTTGTATGCCAGGCAGGTTTTAGTCAAAAATCTGGGTAATGGGAGTTCTAACATGATTGATGT
GAATTTGGAGGGTTTAGGGCGTTATTTAAAAATCTTTAATTCAGACTCTAGCCATGTGAATAAAGTGAAAGCGTTACAAA
AAGACTACCCTAAAGAGTGGCGTGAGAAACTTTTGAAGAGCTAG

Domains

Predicted by InterproScan.

FtsK/SpoIIIE family (FtsK_SpoIIIE)

(426-466)

CagE, TrbE, VirB family, component of type IV transporter system (CagE_TrbE_VirB)

(176-375)


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
  comB4 Helicobacter pylori 26695

97.459

100

0.975

Multiple sequence alignment