Detailed information    

insolico Bioinformatically predicted

Overview

Name   comB4   Type   Machinery gene
Locus tag   D4K40_RS07580 Genome accession   NZ_CP032902
Coordinates   1533329..1535692 (-) Length   787 a.a.
NCBI ID   WP_139521167.1    Uniprot ID   -
Organism   Helicobacter pylori strain 280-A-EK1     
Function   transformation-associated type IV transport system (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1528329..1540692
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  D4K40_RS07555 lpxE 1528838..1529374 (+) 537 WP_236637792.1 lipid A 1-phosphatase LpxE -
  D4K40_RS07560 nspC 1529408..1530625 (-) 1218 WP_139521164.1 carboxynorspermidine decarboxylase -
  D4K40_RS07565 cheV1 1530622..1531587 (-) 966 WP_139521165.1 chemotaxis protein CheV1 -
  D4K40_RS07570 - 1531687..1533027 (-) 1341 WP_201737293.1 COG3014 family protein -
  D4K40_RS07580 comB4 1533329..1535692 (-) 2364 WP_139521167.1 VirB4 family type IV secretion/conjugal transfer ATPase Machinery gene
  D4K40_RS07585 comB3 1535694..1535957 (-) 264 WP_000584956.1 hypothetical protein Machinery gene
  D4K40_RS07590 comB2 1535957..1536238 (-) 282 WP_001272690.1 TrbC/VirB2 family protein Machinery gene
  D4K40_RS07595 - 1536383..1537210 (-) 828 WP_139521168.1 DUF5718 family protein -
  D4K40_RS07600 - 1537300..1538352 (-) 1053 WP_139521169.1 MnmA/TRMU family protein -
  D4K40_RS07605 dnaG 1538349..1540028 (-) 1680 WP_139521170.1 DNA primase -
  D4K40_RS07615 groES 1540303..1540659 (+) 357 WP_000671934.1 co-chaperone GroES -

Sequence

Protein


Download         Length: 787 a.a.        Molecular weight: 90383.94 Da        Isoelectric Point: 8.7106

>NTDB_id=320133 D4K40_RS07580 WP_139521167.1 1533329..1535692(-) (comB4) [Helicobacter pylori strain 280-A-EK1]
MLEKLLNAVKQKVSNYFLGVLPKSYSMSEENNILGLYDEHFLLTKNENLVGILRLEGVSYTHLSTEQLQDLFTERQMALD
SLEKVVARLVVKRRKIDYKQNIQSDSQYLQAILNQFENKEVYENQYFLVLESTHSLQGVLEHKKKSLMHANKENFKDILS
YKAHFLQETLKSLEIQLKNYAPKLLSSKEVLNFYAEYINGFDLPLKPLVGGYLSDSYIASSITFEKDYFIQESFNQKTYN
RLIGIKAYESERITSIAVGALLYQETPLDIIFSIEPMSTHKTLSFLKERAKFSMSNLVKNELLEYQELVKTKRLSMQKFA
LNILIKAPSLEDLDAQTSLILGLLFKENLVGVIETFGLKGGYFSFFPERIHLNHRLRFLTSKALACLMVFERQNLGFKAN
SWGNSPLSVFKNLDYSPFLFNFHNQEVSHNNAKEIARVNGHTLIIGATGSGKSTLISFLMMSALKYQNMRLLAFDRMQGL
YSFTKFFKGHYHDGKSFSINPFCLEPNLQNLEFLQSFFLSMFDLAPSRDKEALEDMNAIFSAIKSLYETLYPKDFSLLDF
KETLKRTSSNQLSLSLEPYLNNPLFNALNDAFNSNAFLNVINLDAITQNPKDLGLLAYYLFYKILEESRKNDSGFLVFLD
EFKSYVENDLLNTKINALITQARKANGVVVLALQDIYQLSGVKNAHSFLSNMGTLILYPQKNARELKHHFNVPLSETEIS
FLENTPLYARQVLVKNLGNGNSNMIDVSLEGLGRYLKIFNSDSSHVNKVKALQKDYPTEWREKLLKS

Nucleotide


Download         Length: 2364 bp        

>NTDB_id=320133 D4K40_RS07580 WP_139521167.1 1533329..1535692(-) (comB4) [Helicobacter pylori strain 280-A-EK1]
ATGTTAGAAAAGCTTTTGAACGCTGTCAAACAAAAAGTTTCAAACTATTTTTTAGGGGTTTTGCCTAAAAGCTATTCTAT
GAGCGAAGAAAACAACATTTTAGGCTTGTATGATGAGCATTTTTTACTCACTAAAAACGAAAACTTAGTAGGCATCCTCC
GTTTAGAGGGGGTGAGTTACACCCATTTAAGCACAGAGCAATTGCAAGATCTTTTCACAGAGCGCCAGATGGCGTTGGAT
TCTTTAGAAAAGGTCGTGGCGCGCCTGGTGGTTAAAAGGCGTAAAATTGATTATAAACAAAACATTCAATCTGATTCTCA
ATACTTGCAAGCGATTTTGAATCAATTTGAAAACAAAGAAGTGTATGAGAATCAGTATTTTTTAGTTTTAGAAAGCACGC
ACTCTTTACAAGGTGTTTTGGAGCATAAGAAAAAATCTCTCATGCATGCCAATAAGGAAAATTTTAAGGATATTCTCTCT
TATAAAGCGCATTTTTTGCAAGAAACTTTAAAAAGCCTAGAAATCCAGCTCAAAAATTATGCCCCCAAACTCTTAAGCTC
CAAAGAGGTTTTGAATTTTTATGCAGAATACATTAACGGGTTTGATCTCCCTTTAAAACCCCTAGTAGGGGGGTATTTGA
GCGACAGCTATATCGCTAGCTCTATCACTTTTGAAAAAGATTATTTCATTCAAGAAAGCTTTAACCAAAAAACCTATAAC
CGCTTGATTGGCATTAAAGCTTATGAGAGCGAGCGCATCACTTCTATAGCGGTGGGAGCGCTTTTATACCAAGAAACGCC
ACTAGATATTATCTTTTCTATAGAGCCTATGAGCACACATAAAACGCTGAGTTTTTTAAAAGAACGAGCCAAGTTTAGCA
TGTCCAATCTCGTTAAAAACGAGCTGCTAGAATACCAAGAATTAGTCAAAACCAAACGCCTATCCATGCAAAAATTCGCC
CTAAACATTCTTATCAAAGCCCCTAGTTTAGAGGATTTAGACGCTCAAACCAGCTTAATTTTAGGGCTTTTATTTAAAGA
AAATTTAGTGGGCGTTATAGAAACTTTTGGCTTGAAAGGGGGGTATTTTTCCTTTTTCCCTGAACGCATCCATTTAAACC
ACCGCTTGCGTTTTTTAACCTCTAAAGCCCTAGCGTGTTTAATGGTGTTTGAAAGGCAAAATTTAGGCTTTAAGGCTAAT
TCATGGGGGAATAGCCCTTTGAGCGTGTTTAAAAATTTGGATTATTCCCCTTTTTTATTCAATTTCCACAACCAAGAAGT
GAGCCACAATAACGCTAAAGAGATCGCCAGAGTGAATGGGCATACTTTAATCATAGGGGCTACCGGGAGCGGTAAAAGCA
CGCTGATTAGCTTTTTAATGATGAGCGCTTTGAAATACCAAAACATGCGCCTTTTAGCCTTTGACAGGATGCAAGGCCTG
TATTCTTTCACAAAATTTTTTAAAGGGCATTACCATGACGGCAAATCTTTTAGCATCAACCCCTTTTGTTTAGAGCCTAA
TTTGCAGAATTTGGAATTTTTGCAATCCTTCTTTTTGAGCATGTTTGATCTTGCCCCTTCAAGGGATAAAGAAGCCTTAG
AAGACATGAATGCGATTTTTAGCGCGATTAAGAGCCTTTATGAGACTTTATACCCTAAAGATTTTAGTTTGCTAGACTTT
AAAGAAACGCTTAAAAGAACCTCATCTAACCAACTAAGCTTGAGCTTGGAGCCGTATTTGAATAACCCCCTTTTTAACGC
TTTGAATGACGCATTCAATTCCAACGCTTTTTTAAATGTAATCAACTTAGACGCTATCACCCAAAACCCCAAAGACTTAG
GACTTTTAGCCTATTACTTGTTTTATAAAATTTTAGAAGAATCCAGGAAAAACGACAGCGGTTTTTTGGTTTTTTTAGAC
GAGTTTAAATCCTATGTGGAAAACGATTTGTTAAACACTAAAATCAACGCTTTAATCACGCAAGCCAGAAAAGCTAATGG
CGTGGTGGTGTTGGCCTTGCAAGATATTTACCAATTAAGCGGGGTTAAAAACGCCCATAGTTTTTTAAGCAACATGGGGA
CTCTTATTTTGTATCCGCAAAAAAACGCTAGGGAGTTGAAACACCATTTCAATGTGCCTTTGAGCGAGACTGAAATTTCT
TTTTTAGAAAACACCCCTTTGTATGCCAGGCAGGTTTTAGTCAAAAATCTGGGTAATGGGAATTCTAACATGATTGATGT
GAGTTTGGAGGGTTTGGGGCGTTATTTGAAAATCTTTAATTCAGACTCTAGCCATGTGAATAAAGTGAAAGCGTTACAAA
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

97.332

100

0.973

Multiple sequence alignment