Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB/ycgB   Type   Machinery gene
Locus tag   BW25113_RS06185 Genome accession   NZ_CP009273
Coordinates   1231165..1232697 (-) Length   510 a.a.
NCBI ID   WP_000190854.1    Uniprot ID   A0AA35AD48
Organism   Escherichia coli BW25113 strain K-12     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1226165..1237697
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  BW25113_RS06160 (BW25113_1183) umuD 1226223..1226642 (+) 420 WP_000897378.1 translesion error-prone DNA polymerase V autoproteolytic subunit -
  BW25113_RS06165 (BW25113_1184) umuC 1226642..1227910 (+) 1269 WP_000457616.1 DNA polymerase V catalytic protein -
  BW25113_RS06170 (BW25113_1185) dsbB 1227956..1228486 (-) 531 WP_000943459.1 disulfide bond formation protein DsbB -
  BW25113_RS06175 (BW25113_1186) nhaB 1228632..1230173 (-) 1542 WP_000406391.1 Na(+)/H(+) antiporter NhaB -
  BW25113_RS06180 (BW25113_1187) fadR 1230394..1231113 (+) 720 WP_000234823.1 fatty acid metabolism transcriptional regulator FadR -
  BW25113_RS06185 (BW25113_1188) pilB/ycgB 1231165..1232697 (-) 1533 WP_000190854.1 SpoVR family protein Machinery gene
  BW25113_RS06190 (BW25113_1189) dadA 1233027..1234325 (+) 1299 WP_001266908.1 D-amino acid dehydrogenase -
  BW25113_RS06195 (BW25113_1190) dadX 1234335..1235405 (+) 1071 WP_000197881.1 catabolic alanine racemase DadX -
  BW25113_RS06200 (BW25113_1191) cvrA 1235791..1237527 (-) 1737 WP_000340194.1 potassium/proton antiporter -

Regulatory network

Positive effect      
Negative effect
Regulator Target Regulation
  sxy/tfoX pilB/ycgB positive effect
  sxy/tfoX fimT/comN/ppdA positive effect
  sxy/tfoX comE1/ybaV positive effect
  sxy/tfoX pilN/comB/hofN positive effect
  sxy/tfoX pilO/comC/hofO positive effect
  sxy/tfoX pilB/hofB positive effect
  sxy/tfoX pilD/pppA positive effect
  sxy/tfoX rec2/ycaI positive effect
  sxy/tfoX pilP/comD/hofP positive effect
  sxy/tfoX comF/gntX positive effect
  sxy/tfoX pilM/comA/hofM positive effect
  sxy/tfoX pilA/ppdD positive effect
  sxy/tfoX fimU/comO/ppdB positive effect
  sxy/tfoX comP/ygdB positive effect
  sxy/tfoX pilV/comQ/ppdC positive effect
  sxy/tfoX ssb positive effect
  sxy/tfoX mshC/yggT positive effect
  sxy/tfoX pilQ/comE/hofQ positive effect
  sxy/tfoX dprA/smf positive effect
  sxy/tfoX pilT/yggR positive effect
  sxy/tfoX pilC/hofC positive effect
  sxy/tfoX comM/yifB positive effect

Sequence

Protein


Download         Length: 510 a.a.        Molecular weight: 60813.86 Da        Isoelectric Point: 5.8676

>NTDB_id=1450 BW25113_RS06185 WP_000190854.1 1231165..1232697(-) (pilB/ycgB) [Escherichia coli BW25113 strain K-12]
MATIDSMNKDTTRLSDGPDWTFDLLDVYLAEIDRVAKLYRLDTYPHQIEVITSEQMMDAYSSVGMPINYPHWSFGKKFIE
TERLYKHGQQGLAYEIVINSNPCIAYLMEENTITMQALVMAHACYGHNSFFKNNYLFRSWTDASSIVDYLIFARKYITEC
EERYGVDEVERLLDSCHALMNYGVDRYKRPQKISLQEEKARQKSREEYLQSQVNMLWRTLPKREEEKTVAEARRYPSEPQ
ENLLYFMEKNAPLLESWQREILRIVRKVSQYFYPQKQTQVMNEGWATFWHYTILNHLYDEGKVTERFMLEFLHSHTNVVF
QPPYNSPWYSGINPYALGFAMFQDIKRICQSPTEEDKYWFPDIAGSDWLETLHFAMRDFKDESFISQFLSPKVMRDFRFF
TVLDDDRHNYLEISAIHNEEGYREIRNRLSSQYNLSNLEPNIQIWNVDLRGDRSLTLRYIPHNRAPLDRGRKEVLKHVHR
LWGFDVMLEQQNEDGSIELLERCPPRMGNL

Nucleotide


Download         Length: 1533 bp        

>NTDB_id=1450 BW25113_RS06185 WP_000190854.1 1231165..1232697(-) (pilB/ycgB) [Escherichia coli BW25113 strain K-12]
ATGGCGACGATCGATTCTATGAATAAGGACACCACACGTTTGAGCGATGGACCCGACTGGACGTTCGACCTGCTGGATGT
TTATCTGGCAGAGATAGACCGGGTGGCGAAACTCTACCGGCTGGATACCTACCCGCACCAGATTGAAGTGATAACCTCAG
AACAGATGATGGATGCCTACTCCAGCGTCGGCATGCCAATTAACTATCCGCACTGGTCATTCGGTAAAAAGTTTATCGAG
ACTGAACGGCTGTATAAGCACGGTCAGCAAGGACTGGCCTATGAAATCGTCATTAACTCTAACCCGTGTATCGCTTACCT
GATGGAAGAGAACACCATTACCATGCAAGCGCTGGTGATGGCTCATGCCTGCTATGGGCATAACTCTTTCTTCAAAAACA
ATTACTTATTCCGTAGCTGGACCGACGCCAGTTCGATTGTCGATTATCTGATTTTTGCCCGTAAATATATTACCGAGTGC
GAAGAGCGTTATGGCGTTGATGAAGTAGAACGGCTTCTGGACTCGTGCCACGCGCTGATGAACTACGGCGTGGACCGGTA
CAAACGCCCGCAAAAAATCTCGCTGCAAGAAGAGAAAGCCCGGCAGAAAAGTCGCGAAGAGTATCTGCAAAGTCAGGTCA
ATATGCTCTGGCGTACCCTGCCGAAGCGCGAGGAAGAGAAAACGGTTGCTGAAGCGCGCCGCTATCCGTCCGAACCACAA
GAAAACCTGCTCTATTTTATGGAGAAAAATGCGCCACTGCTGGAATCATGGCAGCGTGAAATCCTGCGTATTGTGCGTAA
GGTGAGCCAGTATTTTTATCCGCAAAAACAGACTCAGGTGATGAACGAAGGCTGGGCGACCTTCTGGCACTACACCATCC
TTAACCATCTGTATGATGAAGGGAAAGTAACGGAACGTTTTATGCTGGAGTTTTTGCACAGCCACACCAATGTGGTCTTC
CAGCCCCCCTATAACAGCCCGTGGTACAGCGGCATCAACCCGTATGCCCTCGGGTTCGCCATGTTCCAGGATATTAAACG
GATTTGTCAGTCGCCAACGGAAGAAGACAAATACTGGTTCCCGGATATCGCCGGTTCCGACTGGCTGGAAACGCTGCATT
TCGCGATGCGTGATTTCAAAGATGAGAGTTTTATCAGCCAGTTCCTGTCACCGAAAGTGATGCGTGATTTCCGCTTCTTC
ACCGTGCTGGATGACGATCGGCATAATTATCTGGAGATTTCCGCTATTCATAATGAAGAAGGTTATCGGGAGATCCGTAA
CCGGTTATCGTCGCAATATAACTTAAGTAATCTGGAGCCGAATATTCAGATCTGGAACGTGGATTTGCGCGGCGACCGTT
CGCTGACGCTGCGTTATATTCCACATAATCGCGCACCGCTGGATCGGGGGCGCAAAGAAGTCCTGAAGCATGTGCATCGC
CTGTGGGGATTTGATGTGATGCTCGAACAGCAAAACGAAGACGGCAGCATCGAGTTGCTGGAACGTTGCCCGCCAAGAAT
GGGAAATCTGTAA

Domains

Predicted by InterproScan.

SpoVR like protein (SpoVR)

(19-450)


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