Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   VIBHAR_RS16225 Genome accession   NC_009783
Coordinates   3522912..3524597 (+) Length   561 a.a.
NCBI ID   WP_012128877.1    Uniprot ID   -
Organism   Vibrio campbellii ATCC BAA-1116     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3517912..3529597
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VIBHAR_RS16205 (VIBHAR_03465) pdhR 3519512..3520279 (-) 768 WP_005428674.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  VIBHAR_RS16210 (VIBHAR_03466) ampD 3520684..3521235 (-) 552 WP_012128874.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  VIBHAR_RS16215 (VIBHAR_03467) nadC 3521328..3522215 (+) 888 WP_012128875.1 carboxylating nicotinate-nucleotide diphosphorylase -
  VIBHAR_RS16220 (VIBHAR_03468) - 3522480..3522905 (+) 426 WP_012128876.1 pilin -
  VIBHAR_RS16225 (VIBHAR_03469) pilB 3522912..3524597 (+) 1686 WP_012128877.1 type IV-A pilus assembly ATPase PilB Machinery gene
  VIBHAR_RS16230 (VIBHAR_03470) pilC 3524632..3525855 (+) 1224 WP_012128878.1 type II secretion system F family protein Machinery gene
  VIBHAR_RS16235 (VIBHAR_03471) pilD 3525928..3526797 (+) 870 WP_012128879.1 prepilin peptidase Machinery gene
  VIBHAR_RS16240 (VIBHAR_03472) coaE 3526798..3527412 (+) 615 WP_012128880.1 dephospho-CoA kinase -
  VIBHAR_RS16245 (VIBHAR_03473) zapD 3527440..3528180 (+) 741 WP_012128881.1 cell division protein ZapD -
  VIBHAR_RS16250 (VIBHAR_03474) yacG 3528243..3528437 (+) 195 WP_005534053.1 DNA gyrase inhibitor YacG -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62079.82 Da        Isoelectric Point: 5.1024

>NTDB_id=29035 VIBHAR_RS16225 WP_012128877.1 3522912..3524597(+) (pilB) [Vibrio campbellii ATCC BAA-1116]
MLTNLSTVLRQAGILTFSQEESLLEQAKASGISMPEALLSSGFFQSHELTEHLSSVFGLSCTSLNQYEYASLCQTLGLRD
LITRHNALPLNRTSSTLILAVADPTNLQAEDDFRFATGLQVELVLADFRELTAAIRRLYGRSLGQEKSGLKEINQDELAG
LVDIGEDEIENIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYENMYRVRLRCDGILIEIQQPPSHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSAALDINKLGYSDSQKQLYLDALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKPEINISTAEDPVEINLPGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETVIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCRQPQEPNNQLQHIGITSTEQ
IFQANPDGCNECTHGYSGRTGIYEVMKFDESLSEALIKGASVHELEKLAIANGMQTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=29035 VIBHAR_RS16225 WP_012128877.1 3522912..3524597(+) (pilB) [Vibrio campbellii ATCC BAA-1116]
GTGCTAACCAACCTCTCAACGGTTCTTCGCCAAGCAGGAATACTGACTTTTTCCCAAGAGGAATCGTTACTTGAGCAAGC
AAAAGCTTCTGGCATTTCGATGCCGGAGGCTTTGCTCAGTTCTGGCTTTTTCCAATCTCACGAATTGACAGAACACCTAA
GCTCAGTATTCGGGCTTTCTTGCACTTCTCTTAACCAATACGAATACGCTTCGCTATGCCAAACGCTTGGCTTACGCGAT
CTCATCACTCGCCATAACGCTTTACCGCTTAACCGCACCTCTTCAACTTTGATTCTCGCGGTAGCAGATCCAACCAACCT
TCAAGCCGAAGATGACTTTCGTTTTGCGACAGGCTTGCAAGTCGAGCTTGTCCTCGCTGACTTTCGTGAGCTAACAGCAG
CCATTCGACGTTTATATGGCCGATCGCTTGGGCAAGAAAAATCCGGTCTTAAAGAAATCAACCAAGATGAACTGGCGGGT
TTGGTTGATATTGGTGAGGATGAAATTGAGAACATCGAAGATCTCAGCCAAGATGAATCGCCGGTCAGTCGCTATATCAA
CCAAATTTTACTCGATGCTGTCCGTAAAGGGGCTTCAGATATTCATTTCGAACCCTACGAAAACATGTATCGAGTCCGTT
TACGCTGCGATGGCATCTTGATTGAAATTCAACAGCCACCTAGCCACTTAAGCCGTCGACTTTCCGCACGTATAAAAATC
CTATCTAAACTCGATATTGCTGAGCGCCGTTTGCCACAGGATGGGCGAATCAAGCTCAAATTAAACCAAGACACTGCAAT
TGATATGCGTGTCTCCACACTACCAACTCTTTTTGGGGAAAAGATTGTTCTGCGTTTGCTCGACAGCAGTTCTGCAGCAT
TAGATATCAATAAGCTAGGTTATAGCGACTCACAGAAACAACTTTATTTGGATGCCCTGCGCCGTCCGCAAGGTATGATC
CTGATGACAGGCCCAACAGGTAGCGGTAAAACGGTCTCGCTCTATACTGGATTGAGTATTCTTAATAAGCCAGAGATCAA
TATCTCAACCGCTGAAGATCCCGTTGAGATTAACCTGCCCGGCATTAACCAAGTTCAAGTTCAGCCAAAGATCGGCTTTG
GTTTTGCAGAAGCGCTCCGCTCTTTCTTACGTCAAGACCCTGATGTCGTCATGGTGGGCGAGATCCGAGATCTCGACACA
GCAGAAATCGCGATCAAAGCATCACAGACTGGCCACTTAGTTCTCTCCACTTTACACACAAACTCAGCTGCCGAGACTGT
TATTCGCTTGTCTAATATGGGCGTAGAAAGCTTTAACCTCGCCTCTTCTCTCAGTTTGATCATCGCCCAGCGTTTGGCTA
GAAAACTTTGTCCATATTGTAGACAACCTCAAGAGCCAAACAACCAACTTCAACATATTGGAATCACCAGCACCGAACAG
ATCTTTCAAGCTAATCCCGACGGTTGTAACGAGTGTACCCATGGTTATTCAGGGCGAACCGGCATTTACGAAGTGATGAA
GTTTGATGAATCCCTTTCAGAAGCACTCATCAAAGGCGCCTCGGTACACGAATTAGAAAAACTCGCCATTGCCAATGGTA
TGCAAACCTTACAAATGTCTGGCATCGAAAAACTCAAACAAGGCATTACCAGCTTCAGCGAATTGCAGCGCGTTCTCTAC
TTCTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(188-455)

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

(38-142)


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

98.93

100

0.989
  pilB Vibrio parahaemolyticus RIMD 2210633

90.553

100

0.906
  pilB Vibrio cholerae strain A1552

73.488

100

0.736
  pilB Acinetobacter baylyi ADP1

47.935

99.287

0.476
  pilB Acinetobacter baumannii D1279779

51.252

92.513

0.474
  pilB Legionella pneumophila strain ERS1305867

48.524

96.613

0.469
  pilF Neisseria gonorrhoeae MS11

43.44

100

0.437
  pilB/pilB1 Synechocystis sp. PCC 6803

37.037

100

0.392
  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