Detailed information    

insolico Bioinformatically predicted

Overview

Name   comB4   Type   Machinery gene
Locus tag   LDM86_RS00490 Genome accession   NZ_AP024962
Coordinates   94827..97190 (+) Length   787 a.a.
NCBI ID   WP_223889222.1    Uniprot ID   -
Organism   Helicobacter pylori strain #3     
Function   transformation-associated type IV transport system (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 89827..102190
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LDM86_RS00460 (OHP003_00920) groES 89858..90214 (-) 357 WP_000671959.1 co-chaperone GroES -
  LDM86_RS00465 (OHP003_00930) dnaG 90489..92168 (+) 1680 WP_223889219.1 DNA primase -
  LDM86_RS00470 (OHP003_00940) - 92165..93217 (+) 1053 WP_223889220.1 MnmA/TRMU family protein -
  LDM86_RS00475 (OHP003_00950) - 93308..94135 (+) 828 WP_223889221.1 DUF5718 family protein -
  LDM86_RS00480 (OHP003_00960) comB2 94280..94561 (+) 282 WP_001272690.1 TrbC/VirB2 family protein Machinery gene
  LDM86_RS00485 (OHP003_00970) comB3 94561..94824 (+) 264 WP_000584953.1 hypothetical protein Machinery gene
  LDM86_RS00490 (OHP003_00980) comB4 94827..97190 (+) 2364 WP_223889222.1 VirB4 family type IV secretion/conjugal transfer ATPase Machinery gene
  LDM86_RS00500 (OHP003_00990) - 97510..98850 (+) 1341 WP_223889223.1 COG3014 family protein -
  LDM86_RS00505 (OHP003_01000) cheV1 98951..99916 (+) 966 WP_017281606.1 chemotaxis protein CheV1 -
  LDM86_RS00510 (OHP003_01010) nspC 99913..101130 (+) 1218 WP_223889224.1 carboxynorspermidine decarboxylase -
  LDM86_RS00515 (OHP003_01020) lpxE 101140..101673 (-) 534 WP_223889568.1 lipid A 1-phosphatase LpxE -

Sequence

Protein


Download         Length: 787 a.a.        Molecular weight: 90180.83 Da        Isoelectric Point: 8.8746

>NTDB_id=89686 LDM86_RS00490 WP_223889222.1 94827..97190(+) (comB4) [Helicobacter pylori strain #3]
MLEKLLSTIKQKVSNYFLGVLPKSYSMSEENNILGLYDEHFLLTKNENLVGILRLEGVSYTHLSTEQLQDLFTERQMALD
SLEKVVARLVVKRRKIDHQQNIQSDSKYLQAILNQFENKEVYENQYFLVLESAHSLQGVLEHKKKSLMHANRENFKDILS
YKVHFLQETLKSLEIQLKNYAPKLLSSKEVLNFYAEYINGFDLPLKPLVGGYLSDSYIASSITFEKDYFIQESFNQKTYN
RLIGIKAYESERITSIAIGALLYQETPLDIIFSIEPMSVNKTLSFLKERAKFSMSNLVKNELLEYQELVKTKRLSMQKFA
LNILIKAPSLEDLDAQTSLVLGLLFKENLVGVIETFGLKGGYFSFFPERIHLNHRLRFLTSKALACLMVFERQNLGFKAN
SWGNSPLSVFKNLDYSPFLFNFHNQEVSHNNAKEIARVNGHTLIIGATGSGKSTLISFLMMSALKYQNMRLLAFDRMQGL
YSFTKFFKGHYHDGKSFSINPFCLEPNLQNLEFLQSFFLSMFDLAPSRDKEALEDMNAILGAIKSLYETLYPKAFSLLDF
KETLKRTSSNQLGLSLEPYLNNPLFNALNDAFNSSAFLNVINLDAITQNPKDLGLLAYYLFYKILEESRKNDSGFLVFLD
EFKSYVENDLLNAKINALITQARKANGVVVLALQDIYQLSGVKNAHSFLSNMGTLILYPQKNARELKHHFNVPLSETEIS
FLENTPLYARQVLVKNLGNGSSNMIDVNLEGLGRYLKIFNSDSSHVNKVKALQKDYPTEWREKLLKS

Nucleotide


Download         Length: 2364 bp        

>NTDB_id=89686 LDM86_RS00490 WP_223889222.1 94827..97190(+) (comB4) [Helicobacter pylori strain #3]
ATGTTAGAAAAGCTTTTGAGCACTATCAAACAAAAAGTTTCAAACTATTTTTTAGGGGTTTTGCCTAAAAGCTATTCTAT
GAGCGAAGAAAACAACATTTTAGGCTTGTATGATGAGCATTTTTTACTCACTAAAAACGAAAACTTAGTGGGAATTCTCC
GTTTAGAGGGGGTGAGTTACACCCATTTAAGCACAGAGCAATTGCAAGATCTCTTCACCGAGCGCCAAATGGCGTTGGAT
TCTTTAGAAAAAGTCGTGGCGCGCCTTGTGGTTAAAAGGCGTAAAATTGATCACCAACAAAACATTCAATCTGACTCTAA
ATACTTGCAAGCGATTTTGAATCAATTTGAAAATAAAGAAGTGTATGAAAATCAGTATTTTTTAGTTTTAGAAAGCGCGC
ACTCTTTACAAGGCGTTTTAGAGCATAAGAAAAAATCTCTTATGCATGCCAATAGGGAAAATTTTAAGGACATTCTCTCT
TATAAAGTGCATTTTTTGCAAGAAACTTTAAAAAGCTTAGAAATCCAGCTCAAAAACTACGCCCCCAAACTCTTAAGCTC
TAAAGAGGTTTTGAATTTTTATGCGGAATACATTAACGGGTTTGATCTCCCTTTAAAACCCTTAGTAGGGGGGTATTTGA
GCGACAGCTATATCGCTAGTTCTATCACTTTTGAAAAAGATTATTTCATTCAAGAAAGCTTTAATCAAAAAACCTATAAC
CGCTTGATTGGCATTAAAGCTTATGAGAGCGAGCGCATCACTTCTATAGCGATCGGAGCGCTTTTATACCAAGAAACGCC
TTTAGACATTATCTTTTCTATAGAGCCTATGAGCGTCAATAAAACGCTGAGTTTTTTAAAAGAAAGGGCCAAATTTAGCA
TGTCCAATCTCGTTAAAAACGAGCTGCTAGAATACCAAGAACTGGTCAAAACCAAACGCCTATCCATGCAAAAATTCGCC
CTAAACATTCTTATCAAAGCCCCTAGTTTAGAGGATTTAGACGCTCAAACAAGCTTAGTCTTAGGGCTTTTATTTAAAGA
AAACTTAGTGGGCGTTATAGAAACTTTTGGCTTGAAGGGGGGGTATTTTTCCTTTTTCCCTGAACGCATCCACTTAAACC
ACCGCTTGCGTTTTTTAACCTCTAAAGCCTTAGCGTGTTTAATGGTGTTTGAAAGGCAAAATTTAGGTTTTAAGGCTAAT
TCATGGGGGAATAGCCCTTTGAGCGTGTTTAAAAATTTGGATTATTCCCCTTTTTTATTCAATTTCCACAACCAAGAAGT
GAGCCACAACAACGCTAAAGAAATCGCCAGAGTGAATGGGCATACTTTAATTATAGGGGCTACTGGGAGCGGTAAAAGCA
CGCTAATTAGTTTTTTAATGATGAGCGCTTTGAAATACCAAAACATGCGCCTTTTAGCATTTGATAGGATGCAAGGGCTG
TATTCTTTCACAAAATTTTTTAAAGGGCATTACCATGACGGCAAATCTTTTAGCATCAACCCCTTTTGTTTAGAGCCTAA
TTTGCAGAATTTAGAATTTTTGCAATCCTTCTTTTTGAGCATGTTTGATCTTGCCCCTTCAAGGGATAAAGAAGCCTTAG
AAGACATGAATGCGATTTTGGGCGCGATTAAGAGCCTTTATGAGACTTTATACCCTAAAGCTTTTAGTTTGCTAGATTTT
AAAGAAACGCTTAAAAGAACCTCATCTAACCAATTGGGCTTGAGTTTAGAGCCGTATTTGAATAACCCCCTTTTTAACGC
TTTGAATGACGCGTTCAACTCAAGCGCTTTTTTAAATGTGATAAACCTAGATGCCATCACCCAAAACCCTAAAGACTTAG
GGCTTTTAGCCTATTATTTGTTTTATAAAATCTTAGAAGAATCCAGGAAAAACGACAGCGGTTTTTTGGTTTTTTTAGAC
GAGTTTAAATCCTATGTGGAAAACGATTTATTAAACGCTAAAATTAACGCTTTAATCACGCAAGCCAGAAAAGCTAATGG
CGTGGTGGTGCTGGCTTTGCAAGACATTTACCAATTAAGCGGGGTTAAAAACGCCCATAGTTTTTTAAGCAACATGGGGA
CTCTTATTTTGTACCCGCAAAAAAACGCTAGGGAGTTGAAACACCACTTCAATGTGCCTTTGAGCGAAACTGAAATTTCT
TTTTTAGAAAACACCCCTTTGTATGCCAGGCAGGTTTTAGTTAAAAATCTGGGTAACGGGAGTTCTAACATGATTGATGT
GAATTTGGAGGGTTTGGGGCGTTATTTGAAAATCTTTAATTCAGACTCTAGCCATGTGAATAAAGTGAAAGCGTTACAAA
AAGACTACCCTACAGAGTGGCGTGAGAAACTTTTGAAGAGCTAG

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

97.586

100

0.976

Multiple sequence alignment