Detailed information    

insolico Bioinformatically predicted

Overview

Name   comB4   Type   Machinery gene
Locus tag   D4H18_RS07520 Genome accession   NZ_CP032912
Coordinates   1521264..1523627 (-) Length   787 a.a.
NCBI ID   WP_139523303.1    Uniprot ID   -
Organism   Helicobacter pylori strain 13-A-EK8     
Function   transformation-associated type IV transport system (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1516264..1528627
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  D4H18_RS07495 lpxE 1516765..1517298 (+) 534 WP_236637749.1 lipid A 1-phosphatase LpxE -
  D4H18_RS07500 nspC 1517321..1518538 (-) 1218 WP_139523300.1 carboxynorspermidine decarboxylase -
  D4H18_RS07505 cheV1 1518535..1519500 (-) 966 WP_000785463.1 chemotaxis protein CheV1 -
  D4H18_RS07510 - 1519602..1520942 (-) 1341 WP_201737551.1 hypothetical protein -
  D4H18_RS07520 comB4 1521264..1523627 (-) 2364 WP_139523303.1 VirB4 family type IV secretion/conjugal transfer ATPase Machinery gene
  D4H18_RS07525 comB3 1523629..1523892 (-) 264 WP_000584956.1 hypothetical protein Machinery gene
  D4H18_RS07530 comB2 1523892..1524173 (-) 282 WP_001279601.1 TrbC/VirB2 family protein Machinery gene
  D4H18_RS07535 - 1524319..1525146 (-) 828 WP_139523304.1 DUF5718 family protein -
  D4H18_RS07540 - 1525238..1526290 (-) 1053 WP_139523306.1 MnmA/TRMU family protein -
  D4H18_RS07545 dnaG 1526287..1527966 (-) 1680 WP_139523308.1 DNA primase -
  D4H18_RS07555 groES 1528252..1528608 (+) 357 WP_000671934.1 co-chaperone GroES -

Sequence

Protein


Download         Length: 787 a.a.        Molecular weight: 90236.85 Da        Isoelectric Point: 8.8717

>NTDB_id=320342 D4H18_RS07520 WP_139523303.1 1521264..1523627(-) (comB4) [Helicobacter pylori strain 13-A-EK8]
MLEKLLSAIKQKVSNYFLGVLPKSYSMSEENNILGLYDEHFLLTKNENLVGILRLEGVSYTHLSTEQLQDLFTERQMALD
SLEKVVARLVVKRRKIDHQQNIQADSKYLQAILNQFENKEVYENQYFLVLESTHSLQGVLEHKKKSLMHANRENFKDILS
YKTHFLQETLKSLEIQLKNYAPKLLSSKEVLNFYAEYINGFDLPLKPLVGGYLSDSYIASSITFEKDYFIQESFNQKTYN
RLIGIKAYESERITSIAIGVLLYQETPLDIIFSIEPMSVNKTLGFLKERAKFSMSNLVKSELLEYQELVKTKRLSMQKFA
LNILIKAPSLEDLDTQTSLVLGLLFKENLVGVIETFGLKGGYFSFFPERIHLNHRLRFLTSKALACLMVFERQNLGFKAN
SWGNSPLSVFKNLDYSPFLFNFHNQEVSHKNAKEIAKVNGHTLIIGATGSGKSTLISFLMMSALKYQNMRLLAFDRMQGL
YSFTKFFKGHYHDGQSFSINPFCLEPNLQNLEFLQSFFLSMLDLAPSRDKEALEDMNAVSGAIKSLYETLYPKDFSLLDF
KETLKRTSSNQLGLSLEPYLNNPLFNALNDAFNSNAFLNVINLDTITQNPKDLGLLAYYLFYKILEESRKNDSGFLVFLD
EFKSYVENDLLNTKINALITQARKANGVVVLALQDIYQLSGVKNAHSFLSNMGTLILYPQKNARELKRNFNVPLSETEIS
FLENTPLYARQVLVKNLGNGNSNMIDVSLESLGRYLKIFNSDSSHVNKVKALQKDYPTEWREKLLKS

Nucleotide


Download         Length: 2364 bp        

>NTDB_id=320342 D4H18_RS07520 WP_139523303.1 1521264..1523627(-) (comB4) [Helicobacter pylori strain 13-A-EK8]
ATGTTAGAAAAGCTTTTGAGCGCTATCAAACAAAAAGTTTCAAACTATTTTTTAGGGGTTTTGCCTAAAAGCTATTCCAT
GAGCGAAGAAAACAACATTTTAGGCTTGTATGATGAGCATTTCTTGCTCACTAAAAACGAAAACTTAGTGGGCATCCTCC
GTTTAGAAGGGGTGAGTTACACCCATTTAAGCACAGAGCAATTGCAAGATCTTTTCACCGAGCGCCAAATGGCGTTGGAT
TCTTTAGAAAAAGTCGTGGCGCGCCTTGTGGTTAAAAGGCGTAAAATTGATCACCAACAAAACATTCAAGCTGACTCTAA
ATACTTGCAAGCGATTTTGAATCAATTTGAAAACAAAGAAGTGTATGAAAATCAGTATTTTTTAGTTTTAGAAAGCACAC
ATTCTTTACAGGGCGTTTTAGAGCATAAGAAAAAATCCTTAATGCATGCCAATAGGGAAAATTTTAAGGACATCCTCTCT
TATAAAACGCATTTTTTGCAAGAAACTTTAAAAAGCTTAGAAATCCAGCTCAAAAATTATGCCCCCAAACTCTTAAGCTC
CAAAGAGGTTTTGAATTTTTATGCAGAATACATTAATGGGTTTGATCTCCCTTTAAAACCCCTAGTAGGGGGGTATTTGA
GCGATAGTTATATCGCTAGTTCTATCACTTTTGAAAAAGATTATTTCATTCAAGAAAGCTTTAATCAAAAAACCTATAAC
CGCTTGATTGGCATTAAAGCTTATGAGAGCGAGCGCATCACTTCTATAGCGATTGGAGTGCTTTTATACCAAGAAACGCC
CTTAGACATTATCTTTTCTATAGAGCCTATGAGCGTCAATAAAACGCTGGGTTTTTTAAAAGAGAGGGCCAAATTTAGCA
TGTCCAATCTCGTTAAAAGCGAGTTGCTAGAATACCAAGAACTAGTCAAAACCAAACGCCTATCCATGCAAAAATTCGCC
CTAAACATTCTTATCAAAGCCCCCAGTCTAGAGGATTTAGACACTCAAACGAGCTTAGTTTTAGGGCTTTTATTTAAAGA
AAACTTAGTGGGCGTTATAGAAACTTTTGGCTTGAAAGGGGGGTATTTTTCCTTTTTTCCTGAACGCATCCATTTAAACC
ACCGCTTGCGTTTTTTAACTTCTAAAGCCCTAGCGTGTTTGATGGTGTTTGAAAGGCAAAATTTAGGCTTTAAGGCTAAT
TCATGGGGGAATAGCCCTTTGAGCGTGTTTAAAAATTTGGATTATTCCCCTTTTTTATTCAATTTCCACAACCAAGAAGT
GAGCCACAAGAACGCTAAAGAAATCGCCAAAGTGAATGGGCATACTCTAATCATAGGGGCTACCGGGAGCGGTAAAAGCA
CGCTGATTAGTTTTTTAATGATGAGCGCTTTGAAATACCAAAACATGCGCCTTTTAGCTTTTGATAGGATGCAAGGGCTG
TATTCTTTCACCAAATTTTTTAAAGGGCATTACCATGACGGCCAATCTTTTAGCATCAATCCCTTTTGTTTAGAGCCTAA
TTTACAGAATTTAGAATTTTTGCAATCCTTCTTTTTGAGCATGTTGGATCTTGCCCCTTCAAGAGATAAAGAAGCCTTAG
AAGACATGAACGCGGTTTCTGGTGCGATTAAGAGCCTTTATGAGACCTTATACCCTAAAGATTTTAGTTTGCTAGACTTT
AAAGAAACGCTTAAAAGAACCTCATCTAACCAATTGGGCTTGAGTTTAGAGCCGTATTTGAATAACCCCCTTTTTAACGC
TTTGAATGACGCGTTCAATTCCAACGCTTTTTTGAATGTGATAAACCTGGACACCATCACCCAAAACCCCAAAGACTTAG
GGCTTTTAGCCTATTACTTGTTTTATAAAATCTTAGAAGAATCCAGGAAAAACGACAGCGGCTTTTTGGTTTTTTTAGAC
GAGTTTAAATCCTATGTGGAAAACGATTTATTGAACACTAAAATTAACGCTTTAATCACGCAAGCCAGAAAGGCTAATGG
CGTGGTGGTGTTGGCCTTGCAAGATATTTACCAATTAAGCGGGGTTAAAAACGCTCATAGTTTTTTGAGCAACATGGGGA
CTCTTATTTTGTATCCGCAAAAAAACGCTAGGGAATTGAAACGCAACTTCAATGTGCCTTTGAGCGAAACTGAAATTTCT
TTTTTAGAAAACACCCCTTTGTATGCCAGGCAGGTTTTAGTCAAAAATCTGGGTAACGGGAATTCTAACATGATTGATGT
GAGTTTAGAAAGTTTAGGGCGTTATTTGAAAATCTTTAATTCAGACTCTAGCCATGTGAATAAAGTGAAAGCGTTACAAA
AAGACTACCCTACAGAGTGGCGTGAGAAACTTTTGAAGAGTTAG

Domains

Predicted by InterproScan.

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

(176-375)

FtsK/SpoIIIE family (FtsK_SpoIIIE)

(427-466)


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

97.586

100

0.976

Multiple sequence alignment