Detailed information    

insolico Bioinformatically predicted

Overview

Name   comL   Type   Machinery gene
Locus tag   TBD_RS04105 Genome accession   NC_007404
Coordinates   850817..851587 (-) Length   256 a.a.
NCBI ID   WP_337998338.1    Uniprot ID   -
Organism   Thiobacillus denitrificans ATCC 25259     
Function   DNA binding (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 845817..856587
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  TBD_RS04085 (Tbd_0805) sucC 846766..847926 (+) 1161 WP_011311317.1 ADP-forming succinate--CoA ligase subunit beta -
  TBD_RS04090 (Tbd_0806) sucD 847923..848816 (+) 894 WP_011311318.1 succinate--CoA ligase subunit alpha -
  TBD_RS04095 (Tbd_0807) - 848823..850436 (+) 1614 WP_011311319.1 NAD+ synthase -
  TBD_RS04100 (Tbd_0808) - 850433..850771 (+) 339 WP_011311320.1 P-II family nitrogen regulator -
  TBD_RS04105 (Tbd_0809) comL 850817..851587 (-) 771 WP_337998338.1 outer membrane protein assembly factor BamD Machinery gene
  TBD_RS04110 (Tbd_0810) rluD 851685..852638 (+) 954 WP_238376493.1 23S rRNA pseudouridine(1911/1915/1917) synthase RluD -
  TBD_RS04115 (Tbd_0811) pgeF 852686..853357 (+) 672 WP_011311323.1 peptidoglycan editing factor PgeF -
  TBD_RS04120 (Tbd_0812) - 853494..854414 (-) 921 WP_011311324.1 DNA ligase -
  TBD_RS04125 (Tbd_0813) - 854399..854884 (-) 486 WP_011311325.1 GNAT family N-acetyltransferase -
  TBD_RS04130 (Tbd_0814) nadC 854877..855722 (-) 846 WP_011311326.1 carboxylating nicotinate-nucleotide diphosphorylase -

Sequence

Protein


Download         Length: 256 a.a.        Molecular weight: 29042.09 Da        Isoelectric Point: 7.8212

>NTDB_id=24665 TBD_RS04105 WP_337998338.1 850817..851587(-) (comL) [Thiobacillus denitrificans ATCC 25259]
MLAAALALGGCGLLPEVKDETTGWSAQKLYAEAKDNLNEGNYERAVKLFETLESRYPFGRYAQQAQLEVAYAYYKDNEPI
SAVAACDRFIKLHPNHPNVDYAYYLKGLANFNDDLGLLGNLVDQDMSERDPRAARDAFLAFKELATRFPQSIYAADATAR
MKYLVNALANNEVHVAKYYLKRKAYVAAANRAKEVLKTYPEAPALEEALAIMALSYDRLKLPELRDDARRVLTLNFPNSK
YLQGVSIKEKAWYRFW

Nucleotide


Download         Length: 771 bp        

>NTDB_id=24665 TBD_RS04105 WP_337998338.1 850817..851587(-) (comL) [Thiobacillus denitrificans ATCC 25259]
TTGCTGGCAGCGGCGCTCGCGCTCGGCGGTTGCGGTCTGCTGCCCGAGGTCAAGGACGAGACCACGGGCTGGTCGGCGCA
GAAGCTCTATGCCGAGGCCAAGGACAACCTCAACGAGGGCAACTACGAACGCGCGGTCAAGCTCTTCGAAACGCTCGAAT
CGCGCTACCCCTTCGGCCGTTACGCGCAGCAGGCGCAACTCGAAGTCGCCTACGCCTATTACAAGGACAACGAGCCGATC
TCGGCGGTCGCCGCATGCGACCGTTTCATCAAGCTCCACCCCAACCACCCTAACGTCGATTACGCGTACTATCTGAAGGG
GCTGGCGAATTTTAACGACGACCTCGGTCTGCTGGGCAACCTCGTCGACCAGGACATGAGCGAGCGCGACCCGCGCGCCG
CACGGGACGCCTTCCTCGCGTTCAAGGAACTGGCCACGCGTTTCCCGCAGAGCATTTACGCGGCCGACGCGACCGCGCGG
ATGAAATACCTCGTCAACGCGCTCGCCAACAACGAGGTCCACGTTGCCAAGTACTATCTGAAGCGCAAGGCCTACGTCGC
GGCCGCGAACCGTGCCAAGGAAGTGCTGAAAACTTATCCCGAAGCGCCCGCGCTCGAAGAGGCGCTGGCGATCATGGCCT
TGTCCTACGACCGCCTCAAGCTGCCCGAATTGCGCGACGACGCGCGCCGGGTGCTGACGCTCAACTTCCCCAACAGCAAG
TATCTCCAGGGCGTGAGCATCAAGGAAAAGGCCTGGTACCGCTTCTGGTGA

Domains

Predicted by InterproScan.

Outer membrane lipoprotein (YfiO)

(26-228)


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
  comL Neisseria meningitidis MC58

53.668

100

0.543
  comL Neisseria gonorrhoeae MS11

52.896

100

0.535

Multiple sequence alignment