Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   D0784_RS13400 Genome accession   NZ_CP033134
Coordinates   2864864..2866549 (+) Length   561 a.a.
NCBI ID   WP_038891992.1    Uniprot ID   -
Organism   Vibrio campbellii strain 170502     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2859864..2871549
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  D0784_RS13375 (D0784_13370) pdhR 2861446..2862213 (-) 768 WP_005428674.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  D0784_RS13380 (D0784_13375) ampD 2862618..2863169 (-) 552 WP_122020019.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  D0784_RS13385 (D0784_13380) nadC 2863262..2864149 (+) 888 WP_077262200.1 carboxylating nicotinate-nucleotide diphosphorylase -
  D0784_RS13395 (D0784_13390) - 2864414..2864851 (+) 438 WP_122020021.1 type IV pilin protein -
  D0784_RS13400 (D0784_13395) pilB 2864864..2866549 (+) 1686 WP_038891992.1 type IV-A pilus assembly ATPase PilB Machinery gene
  D0784_RS13405 (D0784_13400) pilC 2866584..2867807 (+) 1224 WP_012128878.1 type II secretion system F family protein Machinery gene
  D0784_RS13410 (D0784_13405) pilD 2867880..2868749 (+) 870 WP_012128879.1 prepilin peptidase Machinery gene
  D0784_RS13415 (D0784_13410) coaE 2868750..2869364 (+) 615 WP_045369833.1 dephospho-CoA kinase -
  D0784_RS13420 (D0784_13415) zapD 2869392..2870132 (+) 741 WP_012128881.1 cell division protein ZapD -
  D0784_RS13425 (D0784_13420) yacG 2870195..2870389 (+) 195 WP_009707573.1 DNA gyrase inhibitor YacG -
  D0784_RS13435 (D0784_13430) rplS 2870848..2871201 (-) 354 WP_005379971.1 50S ribosomal protein L19 -

Sequence

Protein


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

>NTDB_id=321693 D0784_RS13400 WP_038891992.1 2864864..2866549(+) (pilB) [Vibrio campbellii strain 170502]
MLTNLSTVLRQAGILTFSQEESLLEQVKASGISMPEALLSSGFFQSHELTEHLSSVFGLSCTSLNQYEYASLCQTLGLRD
LITRHNALPLNRTSSTLILAVADPTNLQAEDDFRFATGLQVELVLADFRELTAAIRRLYGRSLGQEKSGLKEINQDELAG
LVDIGEDEIENIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYENMYRVRLRCDGILIEIQQPPSHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSAALDINKLGYSDSQKQLYLDALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKPEINISTAEDPVEINLPGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETVIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCRQPQEPNSQLQHIGITSTEQ
IFQANPDGCNECTHGYSGRTGIYEVMKFDESLSEALIKGASVHELEKLAIANGMQTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=321693 D0784_RS13400 WP_038891992.1 2864864..2866549(+) (pilB) [Vibrio campbellii strain 170502]
ATGCTAACCAACCTCTCAACAGTTCTTCGCCAAGCAGGGATACTCACCTTTTCCCAAGAAGAATCGTTACTTGAACAAGT
AAAAGCTTCTGGCATTTCGATGCCGGAGGCTTTACTCAGTTCTGGCTTTTTCCAATCTCATGAATTAACAGAACACCTAA
GCTCAGTATTCGGGCTTTCGTGCACTTCTCTCAATCAATACGAATACGCTTCGTTATGCCAAACGCTAGGTTTGCGAGAT
TTGATCACTCGGCATAATGCTCTGCCGCTTAATCGCACCTCTTCAACTTTGATTCTTGCAGTTGCCGATCCAACCAATCT
TCAAGCCGAAGACGACTTTCGTTTTGCTACCGGCTTACAAGTAGAGCTAGTTCTGGCGGATTTTCGAGAGCTGACAGCTG
CCATTCGGCGTTTGTATGGCCGATCGCTTGGGCAAGAAAAATCCGGTCTTAAAGAAATCAACCAAGATGAACTGGCGGGT
TTGGTTGATATTGGTGAGGATGAAATTGAGAACATCGAAGATCTCAGCCAAGACGAATCGCCGGTCAGTCGCTATATCAA
CCAAATTCTACTCGATGCTGTCCGTAAAGGGGCTTCCGATATTCACTTCGAGCCCTATGAAAACATGTACCGCGTGCGCT
TGCGTTGCGATGGCATCTTAATTGAAATTCAGCAGCCTCCGAGTCATTTAAGCCGTCGCCTTTCAGCTCGGATAAAAATC
TTATCTAAGCTTGATATCGCCGAGCGCCGTTTACCACAGGATGGGCGAATCAAGCTCAAATTAAACCAAGACACTGCAAT
TGATATGCGTGTCTCCACACTACCAACTCTGTTTGGGGAAAAGATTGTTCTGCGTTTGCTCGACAGCAGTTCTGCGGCAT
TAGATATCAATAAGCTCGGTTATAGCGACTCGCAGAAACAACTCTATTTGGATGCCCTGCGCCGTCCGCAAGGTATGATC
CTGATGACAGGCCCAACAGGTAGCGGTAAAACGGTCTCGCTCTACACTGGATTGAGCATTCTTAATAAACCAGAGATCAA
TATCTCAACCGCTGAAGATCCCGTTGAGATTAACCTACCCGGCATTAACCAAGTTCAAGTTCAGCCAAAGATCGGCTTTG
GTTTTGCAGAGGCGCTTCGCTCTTTCTTACGTCAAGACCCTGATGTAGTCATGGTGGGCGAGATCCGAGATCTCGACACA
GCAGAAATCGCGATCAAAGCATCACAGACTGGTCACTTAGTTCTCTCCACTTTGCACACGAACTCAGCTGCCGAGACTGT
CATTCGCTTGTCTAATATGGGCGTAGAAAGCTTTAATCTCGCCTCCTCTCTCAGTTTGATCATCGCCCAGCGTTTGGCTA
GAAAACTTTGTCCATATTGTAGACAACCTCAAGAGCCAAACAGCCAACTTCAACATATTGGAATCACCAGCACCGAACAG
ATCTTTCAAGCTAATCCCGACGGTTGTAACGAGTGTACCCATGGTTATTCAGGGCGAACAGGCATTTACGAAGTGATGAA
GTTTGATGAATCCCTTTCAGAAGCACTCATCAAAGGCGCTTCAGTACACGAATTAGAAAAACTCGCCATTGCCAATGGTA
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