Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   NI380_RS03210 Genome accession   NZ_CP099934
Coordinates   656295..657980 (-) Length   561 a.a.
NCBI ID   WP_020835398.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain BM26A     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 651295..662980
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NI380_RS03180 (NI380_03175) rplS 651737..652090 (+) 354 WP_005462554.1 50S ribosomal protein L19 -
  NI380_RS03185 (NI380_03180) yacG 652469..652663 (-) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  NI380_RS03190 (NI380_03185) zapD 652732..653472 (-) 741 WP_015297254.1 cell division protein ZapD -
  NI380_RS03195 (NI380_03190) coaE 653500..654114 (-) 615 WP_005480887.1 dephospho-CoA kinase -
  NI380_RS03200 (NI380_03195) pilD 654115..654984 (-) 870 WP_308386333.1 A24 family peptidase Machinery gene
  NI380_RS03205 (NI380_03200) - 655049..656271 (-) 1223 Protein_551 type II secretion system F family protein -
  NI380_RS03210 (NI380_03205) pilB 656295..657980 (-) 1686 WP_020835398.1 type IV-A pilus assembly ATPase PilB Machinery gene
  NI380_RS03215 (NI380_03210) pilA 657980..658384 (-) 405 WP_015297250.1 prepilin-type N-terminal cleavage/methylation domain-containing protein Machinery gene
  NI380_RS03220 (NI380_03215) nadC 658647..659534 (-) 888 WP_015297249.1 carboxylating nicotinate-nucleotide diphosphorylase -
  NI380_RS03225 (NI380_03220) ampD 659627..660178 (+) 552 WP_005484832.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  NI380_RS03230 (NI380_03225) pdhR 660584..661351 (+) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62218.06 Da        Isoelectric Point: 5.6500

>NTDB_id=702724 NI380_RS03210 WP_020835398.1 656295..657980(-) (pilB) [Vibrio parahaemolyticus strain BM26A]
MHTNLSTILRQSGLLSLTQEESLIEHVKASGISMPEALLSSGLLTSSELAEHLSSLFGLSQPELSQYEYASLCQQLGLRE
LITRHNALPLQRTPSTLLLAVADPTNQQAEDDFRFATGLQIELVLADFRQLSAAIRRLYGRSLSHEKSGLKEINQEELAN
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLGIQTTDN
IFKANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=702724 NI380_RS03210 WP_020835398.1 656295..657980(-) (pilB) [Vibrio parahaemolyticus strain BM26A]
ATGCACACCAACCTCTCTACGATTCTTCGCCAATCTGGATTACTTAGTTTAACCCAGGAAGAATCGTTAATAGAGCACGT
CAAAGCTTCTGGCATTTCGATGCCGGAAGCTTTACTCAGTTCTGGATTATTGACATCAAGCGAACTCGCTGAGCACTTAA
GTTCTCTCTTTGGTTTGAGTCAGCCCGAGTTATCTCAGTACGAGTACGCTTCGCTTTGTCAACAACTCGGTCTACGTGAA
TTAATCACTCGGCATAACGCACTCCCACTCCAGCGTACGCCTTCAACGTTATTATTAGCGGTTGCCGACCCCACGAACCA
ACAAGCAGAGGATGACTTCCGCTTTGCCACTGGTTTACAAATTGAATTGGTGTTAGCGGATTTTCGTCAACTCAGCGCGG
CAATTCGACGCTTATATGGTCGTTCATTGAGCCATGAGAAATCTGGATTAAAAGAGATCAACCAAGAAGAATTAGCCAAT
CTGGTCGACGTGGGCGCAGATGAAATCGACAACATTGAAGACTTGAGCCAAGACGAGTCGCCCGTCAGCCGTTACATAAA
CCAAATTCTGCTGGACGCTGTACGCAAAGGCGCATCCGATATCCACTTTGAACCTTATGAAAAGATGTACCGAGTTCGTC
TACGTTGCGATGGCATTTTGATAGAAACTCAGCAACCGCCAAATCACTTGAGTCGTCGCTTATCAGCTCGTATAAAAATT
CTCTCTAAACTTGATATTGCCGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACTGCGAT
TGATATGCGGGTATCTACGCTACCTACCTTGTTTGGAGAGAAAATCGTACTCCGACTGCTCGATAGCAGCTCTGCATCAC
TGGATATCGACAAGCTTGGTTATAGTGAGCAACAAAAACAGTTGTATTTAGAGGCTCTGCGTCGCCCACAAGGTATGATT
CTGATGACAGGCCCAACAGGAAGCGGCAAGACCGTTTCTCTGTACACTGGGCTAAGTATCCTCAATAAGCCAGAGATCAA
CATTTCCACGGCAGAAGACCCGGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAGGCTCTACGTTCTTTTCTGCGTCAAGACCCAGATGTAGTCATGGTGGGTGAGATTCGAGACCTAGATACT
GCGGAAATCGCGATTAAGGCGTCCCAAACCGGTCACTTAGTGCTCTCTACTTTGCATACCAACTCTGCGGCTGAAACCAT
CATTCGTTTATCAAACATGGGCGTAGAAAGTTTTAACCTCGCCTCTTCGCTTAGTTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTCGGCATTCAAACAACTGACAAC
ATCTTTAAAGCCAATCCAGATGGTTGCAACGAATGCACCCATGGTTATTCTGGCCGAACGGGTATCTATGAAGTCATGCG
CTTTGATGAATCTCTATCCGAAGCTCTTATTAAAGGAGCCTCGGTACATGAACTGGAAAAGCTTGCTATTGCGAACGGCA
TGAGCACCTTGCAAATGTCCGGAATAGAAAAACTCAAACAAGGCATCACAAGCTTTAGTGAGTTACAACGCGTGCTCTAT
TTCTAA

Domains

Predicted by InterproScan.

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

(38-144)

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 parahaemolyticus RIMD 2210633

97.148

100

0.971
  pilB Vibrio campbellii strain DS40M4

89.483

100

0.895
  pilB Vibrio cholerae strain A1552

73.843

100

0.74
  pilB Acinetobacter baumannii D1279779

51.81

93.583

0.485
  pilB Legionella pneumophila strain ERS1305867

48.561

99.109

0.481
  pilB Acinetobacter baylyi ADP1

50.484

92.157

0.465
  pilF Neisseria gonorrhoeae MS11

44.858

100

0.451
  pilB/pilB1 Synechocystis sp. PCC 6803

37.437

100

0.396
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

37.213

100

0.376
  pilF Thermus thermophilus HB27

36.879

100

0.371