Detailed information    

insolico Bioinformatically predicted

Overview

Name   comB4   Type   Machinery gene
Locus tag   D4L20_RS01020 Genome accession   NZ_CP032899
Coordinates   209092..211455 (+) Length   787 a.a.
NCBI ID   WP_139549214.1    Uniprot ID   -
Organism   Helicobacter pylori strain 478-A-EK1     
Function   transformation-associated type IV transport system (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 204092..216455
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  D4L20_RS00985 groES 204114..204470 (-) 357 WP_040157068.1 co-chaperone GroES -
  D4L20_RS00995 dnaG 204756..206435 (+) 1680 WP_139549212.1 DNA primase -
  D4L20_RS01000 - 206432..207484 (+) 1053 WP_139549213.1 MnmA/TRMU family protein -
  D4L20_RS01005 - 207574..208401 (+) 828 WP_042636802.1 DUF5718 family protein -
  D4L20_RS01010 comB2 208546..208827 (+) 282 WP_001272686.1 TrbC/VirB2 family protein Machinery gene
  D4L20_RS01015 comB3 208827..209090 (+) 264 WP_000584956.1 hypothetical protein Machinery gene
  D4L20_RS01020 comB4 209092..211455 (+) 2364 WP_139549214.1 VirB4 family type IV secretion/conjugal transfer ATPase Machinery gene
  D4L20_RS01030 - 211755..213095 (+) 1341 WP_180339067.1 COG3014 family protein -
  D4L20_RS01035 cheV1 213203..214168 (+) 966 WP_139549216.1 chemotaxis protein CheV1 -
  D4L20_RS01040 nspC 214165..215382 (+) 1218 WP_139549217.1 carboxynorspermidine decarboxylase -
  D4L20_RS01045 lpxE 215392..215925 (-) 534 WP_257535140.1 lipid A 1-phosphatase LpxE -

Sequence

Protein


Download         Length: 787 a.a.        Molecular weight: 90219.74 Da        Isoelectric Point: 8.7203

>NTDB_id=320056 D4L20_RS01020 WP_139549214.1 209092..211455(+) (comB4) [Helicobacter pylori strain 478-A-EK1]
MLEKLLSAIKQKISNYFLGVLPKSYSMSEENNILGLYDEHFLLTKNENLVGILRLEGVSYTHLSTEQLQDLFTERQMALD
SLEKVVARLVVKRRKIDHQQNIQADSKYLQAILNQFENKEVYENQYFLVLESAHSLQGVLEHKKKSLMHANRENFKDILS
YKAHFLQETLKSLEIQLKNYAPKLLSSKEVLNFYAEYINGFDLPLKPLVGGYLSDSYIASSITFEKDYFIQESFNQKTYN
RLIGIKAYESERITSIAVGALLYQETPLDIIFSIEPMSVHKTLSFLKERAKFSMSNLVKNELLEYQELVKTKRLSMQKFA
LNILIKATSLEDLDAQTSLILGLLFKENLVGVIETFGLKGGYFSFFPERIHLNHRLRFLTSKALACLMVFERQNLGFKAN
SWGNSPLSVFKNLDYSPFLFNFHNQEVSHNNAKETARVNGHTLIIGATGSGKSTLISFLMMSALKYQNMRLLAFDRMQGL
YSFTKFFKGHYHDGQSFSINPFCLEPNLQNLEFLQSFFLSMFDLAPSRDKEALEDMNAVFSAIKSLYETLYPKAFSLLDF
KETLKRTSSNQLGLSLDPYLNNPLFNALNDAFNSNAFLNVINLDAITQNPKDLGLLAYYLFYKILEESRKNDSGFLIFLD
EFKSYVENDLLNTKINALITQARKANGVVVLALQDIYQLSGVKNAHSFLSNMGTLILYPQKNARELKHNFNVPLSETEIS
FLENTPLYARQVLVKNLGNGNSNMIDVSLEGLGRYLKIFNSDSSHVNKVKALQKDYPTEWREKLLKS

Nucleotide


Download         Length: 2364 bp        

>NTDB_id=320056 D4L20_RS01020 WP_139549214.1 209092..211455(+) (comB4) [Helicobacter pylori strain 478-A-EK1]
ATGTTAGAAAAGCTTTTGAGCGCTATCAAACAAAAAATTTCAAACTATTTTTTAGGGGTTTTGCCTAAAAGCTATTCTAT
GAGCGAAGAAAACAACATTTTAGGCTTGTATGATGAGCATTTTTTACTCACTAAAAACGAAAATTTAGTGGGCATCCTCC
GTTTAGAAGGGGTTAGCTACACCCATTTAAGCACAGAGCAATTGCAAGATCTCTTCACCGAGCGCCAGATGGCGTTGGAT
TCTTTAGAAAAAGTCGTGGCGCGCTTGGTGGTTAAAAGGCGTAAAATTGATCACCAACAAAACATTCAAGCTGACTCTAA
ATACTTGCAAGCGATTTTGAATCAATTTGAAAACAAAGAAGTGTATGAAAATCAGTATTTTTTAGTTTTAGAAAGCGCGC
ATTCTTTACAGGGCGTTTTAGAGCATAAGAAAAAATCTCTCATGCATGCCAATAGGGAAAATTTTAAGGACATTCTCTCT
TATAAAGCGCATTTTTTGCAAGAAACTTTAAAAAGCTTAGAAATCCAGCTCAAAAATTATGCCCCCAAACTCTTAAGCTC
TAAAGAGGTTTTGAATTTTTATGCGGAATACATTAACGGGTTTGATCTCCCTTTAAAGCCCTTAGTAGGGGGGTATTTGA
GCGATAGCTATATCGCTAGTTCTATTACTTTTGAAAAAGATTATTTCATTCAAGAAAGCTTTAATCAAAAAACCTATAAC
CGCTTGATTGGCATTAAAGCTTATGAGAGCGAAAGGATCACTTCTATAGCGGTGGGAGCGCTTTTATACCAAGAGACGCC
ACTAGATATTATCTTTTCCATAGAACCTATGAGCGTGCATAAAACGCTGAGTTTTTTAAAAGAGAGAGCCAAGTTTAGCA
TGTCTAATCTCGTTAAAAACGAGCTGCTAGAATACCAAGAACTAGTCAAAACCAAACGCCTATCCATGCAAAAATTCGCC
CTAAACATTCTTATCAAAGCCACTAGTTTAGAGGATTTAGACGCTCAAACGAGCTTAATTTTAGGGCTTTTATTTAAAGA
AAACTTAGTGGGCGTTATAGAAACTTTTGGCTTGAAAGGGGGGTATTTTTCCTTTTTCCCTGAACGCATCCATTTAAACC
ACCGCTTGCGTTTTTTAACCTCTAAAGCCTTGGCGTGTTTAATGGTGTTTGAAAGGCAAAATTTAGGCTTTAAGGCTAAT
TCATGGGGGAATAGCCCTTTGAGCGTGTTTAAAAATTTGGATTATTCCCCTTTTTTATTCAATTTCCACAACCAAGAAGT
GAGCCACAATAACGCTAAAGAAACCGCTAGAGTGAATGGGCATACTCTAATCATAGGGGCTACTGGAAGCGGTAAAAGCA
CGCTGATTAGCTTTTTAATGATGAGCGCTTTGAAATACCAAAACATGCGCCTTTTAGCTTTTGACAGGATGCAGGGGCTG
TATTCTTTCACAAAATTTTTTAAAGGGCATTACCATGACGGCCAATCTTTTAGCATCAACCCCTTTTGTTTAGAGCCTAA
TTTGCAGAATTTAGAATTTTTGCAATCCTTCTTTTTGAGCATGTTTGATCTTGCCCCTTCAAGGGATAAAGAAGCCTTAG
AAGACATGAATGCGGTTTTTAGCGCGATTAAGAGCCTTTATGAGACCTTATACCCTAAAGCCTTTAGTTTGCTAGACTTT
AAAGAAACGCTTAAAAGAACCTCATCTAACCAATTGGGCTTGAGCTTGGATCCGTATTTGAATAACCCCCTTTTTAACGC
TTTGAATGACGCGTTCAATTCCAACGCTTTTTTAAATGTAATCAACTTAGACGCTATCACCCAAAACCCTAAAGACTTAG
GGCTTTTAGCCTATTACTTGTTTTATAAAATCTTAGAAGAATCCAGGAAAAACGACAGCGGCTTTTTGATTTTTTTAGAC
GAGTTTAAATCCTATGTGGAAAACGATTTATTGAACACCAAAATCAACGCTTTAATCACGCAAGCCAGAAAAGCTAATGG
CGTGGTGGTGTTGGCTTTGCAAGATATTTACCAATTAAGCGGGGTCAAAAACGCCCATAGTTTTTTAAGCAACATGGGGA
CTCTCATTTTGTATCCGCAAAAAAACGCTAGGGAGTTGAAACACAATTTTAATGTGCCTTTGAGCGAAACTGAAATTTCT
TTTTTAGAAAACACCCCTTTGTATGCCAGGCAGGTTTTAGTCAAAAATCTGGGTAATGGGAATTCTAACATGATTGATGT
GAGTTTGGAGGGCTTGGGGCGTTATTTGAAAATCTTTAATTCGGATTCTAGCCATGTGAATAAAGTGAAAGCGTTACAAA
AAGACTACCCTACAGAGTGGCGTGAAAAACTTTTGAAGAGCTAG

Domains

Predicted by InterproScan.

FtsK/SpoIIIE family (FtsK_SpoIIIE)

(425-466)

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