Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   RHS39_RS13220 Genome accession   NZ_CP133900
Coordinates   2862695..2864380 (+) Length   561 a.a.
NCBI ID   WP_025789071.1    Uniprot ID   A0A7Z2MWJ0
Organism   Vibrio parahaemolyticus strain TW01     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2857695..2869380
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RHS39_RS13200 (RHS39_13200) pdhR 2859256..2860023 (-) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  RHS39_RS13205 (RHS39_13205) ampD 2860429..2860980 (-) 552 WP_005484832.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  RHS39_RS13210 (RHS39_13210) nadC 2861073..2861960 (+) 888 WP_025547616.1 carboxylating nicotinate-nucleotide diphosphorylase -
  RHS39_RS13215 (RHS39_13215) pilA 2862224..2862688 (+) 465 WP_025789070.1 prepilin-type N-terminal cleavage/methylation domain-containing protein Machinery gene
  RHS39_RS13220 (RHS39_13220) pilB 2862695..2864380 (+) 1686 WP_025789071.1 type IV-A pilus assembly ATPase PilB Machinery gene
  RHS39_RS13225 (RHS39_13225) pilC 2864405..2865628 (+) 1224 WP_005479682.1 type II secretion system F family protein Machinery gene
  RHS39_RS13230 (RHS39_13230) pilD 2865693..2866562 (+) 870 WP_025622886.1 A24 family peptidase Machinery gene
  RHS39_RS13235 (RHS39_13235) coaE 2866563..2867177 (+) 615 WP_025789072.1 dephospho-CoA kinase -
  RHS39_RS13240 (RHS39_13240) zapD 2867205..2867945 (+) 741 WP_005480890.1 cell division protein ZapD -
  RHS39_RS13245 (RHS39_13245) yacG 2868014..2868208 (+) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  RHS39_RS13250 (RHS39_13250) rplS 2868560..2868913 (-) 354 WP_005462554.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62328.19 Da        Isoelectric Point: 5.3998

>NTDB_id=877430 RHS39_RS13220 WP_025789071.1 2862695..2864380(+) (pilB) [Vibrio parahaemolyticus strain TW01]
MLTNLSTVLRQKGLLTFSQEESLIEQVKASGISMPEALLSSGFFTSSELAEHLSSIFGLSQPELSQYEYASLCQQLGLRE
LITRHNALPLHRTPSTLLLAVADPTNQQAEDDFRFATGLQVELVLADFRELSTAIRRLYGRSLSHEKSGLKEINQEELAS
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRIRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLLIAQRLARKLCPYCKQPQEHTVQLQHLGIQTTDN
IFKANPDGCNECTHGYSGRTGIYEVMCFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFNELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=877430 RHS39_RS13220 WP_025789071.1 2862695..2864380(+) (pilB) [Vibrio parahaemolyticus strain TW01]
CTGCTCACCAACCTCTCTACGGTTCTTCGTCAAAAAGGATTACTGACGTTTTCCCAAGAAGAATCGTTAATAGAGCAAGT
TAAAGCTTCTGGCATCTCGATGCCGGAAGCTTTACTCAGTTCTGGATTCTTCACATCAAGCGAACTGGCCGAGCACTTAA
GTTCTATTTTTGGCCTAAGTCAGCCCGAGTTATCTCAATATGAATATGCTTCGCTTTGCCAACAGCTCGGCCTACGTGAA
TTAATCACACGACATAATGCACTCCCACTCCACCGTACTCCTTCAACTTTATTATTAGCGGTTGCCGACCCCACGAATCA
ACAAGCTGAAGATGATTTCCGCTTTGCCACTGGTTTACAGGTTGAGTTGGTGTTGGCGGATTTTCGCGAACTCAGTACAG
CAATTCGACGCTTATATGGTCGTTCATTGAGTCATGAAAAGTCTGGGTTAAAAGAGATCAACCAAGAAGAACTAGCGAGT
CTGGTGGATGTCGGTGCAGATGAAATCGACAATATCGAAGACTTGAGCCAAGATGAGTCTCCTGTTAGCCGTTACATCAA
CCAAATTCTGTTGGACGCTGTGCGTAAAGGCGCATCCGATATCCACTTTGAGCCTTATGAAAAGATGTACCGAATTCGTC
TACGTTGCGATGGCATTTTGATCGAAACTCAGCAACCGCCAAATCACTTGAGTCGTCGCTTATCAGCTCGTATCAAAATT
CTCTCTAAACTTGATATTGCCGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACCGCGAT
TGATATGCGGGTATCCACGCTACCAACCTTGTTTGGAGAGAAAATCGTACTCCGACTCCTCGATAGCAGCTCTGCATCAC
TGGATATCGACAAGCTTGGTTATAGTGAGCAACAAAAACAGCTGTATTTAGAGGCTCTGCGTCGTCCACAAGGTATGATT
CTGATGACAGGTCCAACAGGAAGCGGCAAAACCGTTTCGTTGTACACTGGGCTAAATATTCTCAATAAACCAGAGATCAA
CATCTCCACAGCGGAAGACCCAGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAAGCACTACGTTCTTTTCTGCGTCAAGATCCCGATGTGGTCATGGTGGGTGAGATTCGAGACCTAGATACT
GCGGAAATCGCCATCAAGGCTTCCCAAACCGGTCACTTAGTGCTCTCTACTTTGCATACCAACTCTGCAGCTGAAACCAT
CATTCGCTTATCAAACATGGGCGTAGAAAGTTTTAACCTTGCCTCTTCGCTTAGCTTGCTTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTCGGCATTCAAACAACCGACAAC
ATTTTTAAAGCCAATCCAGATGGTTGCAACGAATGTACCCATGGTTATTCTGGCCGAACAGGTATCTATGAAGTCATGTG
CTTTGATGAATCTCTATCCGAAGCTCTTATTAAAGGAGCCTCGGTACATGAACTGGAAAAGCTTGCTATTGCGAACGGCA
TGAGCACCTTGCAAATGTCCGGAATAGAAAAACTCAAACAAGGCATCACAAGCTTTAATGAGTTACAACGCGTGCTCTAT
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)

(38-144)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB A0A7Z2MWJ0

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

98.574

100

0.986
  pilB Vibrio campbellii strain DS40M4

90.553

100

0.906
  pilB Vibrio cholerae strain A1552

73.843

100

0.74
  pilB Acinetobacter baumannii D1279779

51.128

94.831

0.485
  pilB Acinetobacter baylyi ADP1

47.935

99.287

0.476
  pilB Legionella pneumophila strain ERS1305867

48.983

96.435

0.472
  pilF Neisseria gonorrhoeae MS11

45.035

100

0.453
  pilB/pilB1 Synechocystis sp. PCC 6803

37.268

100

0.394
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.684

100

0.371
  pilF Thermus thermophilus HB27

36.219

100

0.365