Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   C1N50_RS03085 Genome accession   NZ_CP026321
Coordinates   604424..606109 (-) Length   561 a.a.
NCBI ID   WP_038891992.1    Uniprot ID   -
Organism   Vibrio campbellii strain BoB-53     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 599424..611109
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  C1N50_RS03055 (C1N50_03055) rplS 599855..600208 (+) 354 WP_005379971.1 50S ribosomal protein L19 -
  C1N50_RS03060 (C1N50_03060) yacG 600584..600778 (-) 195 WP_005534053.1 DNA gyrase inhibitor YacG -
  C1N50_RS03065 (C1N50_03065) zapD 600841..601581 (-) 741 WP_012128881.1 cell division protein ZapD -
  C1N50_RS03070 (C1N50_03070) coaE 601609..602223 (-) 615 WP_103412701.1 dephospho-CoA kinase -
  C1N50_RS03075 (C1N50_03075) pilD 602224..603093 (-) 870 WP_050910736.1 A24 family peptidase Machinery gene
  C1N50_RS03080 (C1N50_03080) pilC 603166..604389 (-) 1224 WP_045395353.1 type II secretion system F family protein Machinery gene
  C1N50_RS03085 (C1N50_03085) pilB 604424..606109 (-) 1686 WP_038891992.1 type IV-A pilus assembly ATPase PilB Machinery gene
  C1N50_RS03090 (C1N50_03090) - 606113..606592 (-) 480 WP_103412702.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  C1N50_RS03100 (C1N50_03100) nadC 606858..607745 (-) 888 WP_012128875.1 carboxylating nicotinate-nucleotide diphosphorylase -
  C1N50_RS03105 (C1N50_03105) ampD 607838..608389 (+) 552 WP_051118345.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  C1N50_RS03110 (C1N50_03110) pdhR 608794..609561 (+) 768 WP_005428674.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62080.85 Da        Isoelectric Point: 5.1024

>NTDB_id=268127 C1N50_RS03085 WP_038891992.1 604424..606109(-) (pilB) [Vibrio campbellii strain BoB-53]
MLTNLSTVLRQAGILTFSQEESLLEQVKASGISMPEALLSSGFFQSHELTEHLSSVFGLSCTSLNQYEYASLCQTLGLRD
LITRHNALPLNRTSSTLILAVADPTNLQAEDDFRFATGLQVELVLADFRELTAAIRRLYGRSLGQEKSGLKEINQDELAG
LVDIGEDEIENIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYENMYRVRLRCDGILIEIQQPPSHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSAALDINKLGYSDSQKQLYLDALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKPEINISTAEDPVEINLPGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETVIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCRQPQEPNSQLQHIGITSTEQ
IFQANPDGCNECTHGYSGRTGIYEVMKFDESLSEALIKGASVHELEKLAIANGMQTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=268127 C1N50_RS03085 WP_038891992.1 604424..606109(-) (pilB) [Vibrio campbellii strain BoB-53]
ATGCTAACCAACCTCTCAACGGTTCTTCGCCAAGCTGGAATACTGACCTTTTCCCAAGAAGAATCGTTACTTGAACAAGT
AAAAGCTTCTGGCATTTCGATGCCGGAGGCTTTACTCAGTTCTGGCTTTTTCCAATCTCATGAATTAACGGAACACCTAA
GCTCAGTATTCGGGCTTTCTTGCACTTCTCTTAACCAATACGAATACGCTTCGCTATGCCAAACGCTTGGCTTACGCGAT
CTCATCACTCGCCATAACGCTTTGCCGCTTAACCGCACCTCTTCAACTTTGATTCTCGCGGTTGCTGACCCAACAAACCT
TCAAGCCGAAGATGACTTTCGTTTTGCGACAGGTTTGCAAGTCGAACTTGTCCTCGCTGACTTTCGCGAACTGACAGCAG
CCATTCGGCGTTTATATGGCCGATCGCTTGGGCAAGAAAAATCCGGTCTTAAAGAAATCAACCAAGATGAACTGGCGGGT
TTGGTTGATATTGGTGAGGATGAAATTGAGAACATCGAAGATCTCAGCCAAGATGAATCGCCGGTCAGTCGCTATATCAA
CCAAATTTTACTCGATGCTGTCCGTAAAGGGGCTTCCGATATTCACTTCGAGCCCTATGAAAACATGTACCGCGTGCGCT
TGCGTTGCGATGGCATCTTAATTGAAATTCAGCAGCCTCCGAGTCATTTAAGCCGTCGCCTTTCAGCTCGGATAAAAATC
TTATCTAAGCTTGATATCGCCGAGCGCCGTTTACCACAGGATGGGCGAATCAAGCTCAAATTAAACCAAGACACTGCAAT
TGATATGCGTGTCTCCACACTACCAACTCTGTTTGGGGAAAAGATTGTTCTGCGTTTGCTCGACAGCAGTTCTGCGGCAT
TAGATATCAATAAGCTCGGTTATAGCGACTCACAAAAACAACTTTATTTGGATGCCCTGCGCCGTCCGCAAGGTATGATC
CTGATGACAGGCCCAACAGGTAGCGGTAAAACGGTCTCGCTCTATACTGGATTGAGTATTCTTAATAAGCCAGAGATCAA
TATCTCAACCGCTGAAGATCCCGTTGAGATTAACCTGCCCGGCATTAACCAAGTTCAAGTTCAGCCAAAGATCGGCTTTG
GTTTTGCAGAAGCGCTCCGCTCTTTCTTACGTCAAGACCCTGATGTAGTCATGGTGGGCGAGATCCGAGATCTCGACACA
GCAGAAATCGCGATCAAAGCATCACAGACTGGCCACTTAGTTCTCTCCACTTTACACACAAACTCAGCTGCCGAGACTGT
TATTCGCTTGTCTAATATGGGCGTAGAAAGCTTTAACCTCGCCTCTTCTCTCAGTTTGATCATCGCCCAGCGTTTGGCTA
GAAAACTTTGTCCATATTGTAGACAACCTCAAGAGCCAAACAGCCAACTTCAACATATTGGAATCACCAGCACCGAACAG
ATCTTTCAAGCTAATCCCGACGGTTGTAACGAGTGTACCCATGGTTATTCAGGGCGAACCGGCATTTACGAAGTGATGAA
ATTTGATGAATCCCTTTCAGAAGCACTCATCAAAGGCGCTTCAGTACACGAATTAGAAAAACTCGCCATTGCCAATGGTA
TGCAAACCCTACAAATGTCTGGCATCGAAAAACTCAAACAAGGCATTACCAGCTTCAGCGAATTACAGCGCGTTCTCTAC
TTTTAA

Domains

Predicted by InterproScan.

Type II secretion system (T2SS), protein E, N-terminal domain (MshEN)

(38-142)

Type II/IV secretion system protein (T2SSE)

(188-455)


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
  pilB Vibrio campbellii strain DS40M4

99.287

100

0.993
  pilB Vibrio parahaemolyticus RIMD 2210633

90.731

100

0.907
  pilB Vibrio cholerae strain A1552

73.665

100

0.738
  pilB Legionella pneumophila strain ERS1305867

47.756

99.287

0.474
  pilB Acinetobacter baumannii D1279779

51.252

92.513

0.474
  pilB Acinetobacter baylyi ADP1

50.29

92.157

0.463
  pilF Neisseria gonorrhoeae MS11

43.617

100

0.439
  pilB/pilB1 Synechocystis sp. PCC 6803

37.205

100

0.394
  pilF Thermus thermophilus HB27

36.833

100

0.369
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.559

99.465

0.364

Multiple sequence alignment