Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   ACKUBV_RS14555 Genome accession   NZ_CP176357
Coordinates   3053987..3055672 (-) Length   561 a.a.
NCBI ID   WP_069536419.1    Uniprot ID   A0AA47L6I2
Organism   Vibrio parahaemolyticus strain AG1     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3048987..3060672
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACKUBV_RS14525 (ACKUBV_14525) rplS 3049458..3049811 (+) 354 WP_005462554.1 50S ribosomal protein L19 -
  ACKUBV_RS14530 (ACKUBV_14530) yacG 3050160..3050354 (-) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  ACKUBV_RS14535 (ACKUBV_14535) zapD 3050423..3051163 (-) 741 WP_005480890.1 cell division protein ZapD -
  ACKUBV_RS14540 (ACKUBV_14540) coaE 3051191..3051805 (-) 615 WP_005480887.1 dephospho-CoA kinase -
  ACKUBV_RS14545 (ACKUBV_14545) pilD 3051806..3052675 (-) 870 WP_025533026.1 prepilin peptidase Machinery gene
  ACKUBV_RS14550 (ACKUBV_14550) pilC 3052740..3053963 (-) 1224 WP_005493981.1 type II secretion system F family protein Machinery gene
  ACKUBV_RS14555 (ACKUBV_14555) pilB 3053987..3055672 (-) 1686 WP_069536419.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ACKUBV_RS14560 (ACKUBV_14560) pilA 3055678..3056151 (-) 474 WP_069536420.1 pilin Machinery gene
  ACKUBV_RS14565 (ACKUBV_14565) nadC 3056415..3057302 (-) 888 WP_015297249.1 carboxylating nicotinate-nucleotide diphosphorylase -
  ACKUBV_RS14570 (ACKUBV_14570) ampD 3057395..3057946 (+) 552 WP_025554880.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  ACKUBV_RS14575 (ACKUBV_14575) pdhR 3058352..3059119 (+) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62319.21 Da        Isoelectric Point: 5.5375

>NTDB_id=1079733 ACKUBV_RS14555 WP_069536419.1 3053987..3055672(-) (pilB) [Vibrio parahaemolyticus strain AG1]
MLTNLSTVLRQKGLLTFSQEESLIEQVKASGISMPEALLSSGLFTSSELAEHLSSLFGLNQPELSQYEYASLCQQLGLRE
LITRHNALPLHRTPSTLLLAVADPTNQQAEDDFRFATGLQVELVLADFRQLSAAIRRLYGRAIGQERSQLKEINQEELAS
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLGIQTTDN
IFKANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=1079733 ACKUBV_RS14555 WP_069536419.1 3053987..3055672(-) (pilB) [Vibrio parahaemolyticus strain AG1]
ATGTTGACCAACCTCTCAACAGTTCTTCGCCAAAAAGGGTTACTGACCTTTTCCCAAGAAGAATCGTTAATAGAGCAAGT
CAAAGCTTCTGGCATCTCGATGCCGGAAGCTTTACTTAGTTCTGGATTATTTACATCAAGCGAACTCGCTGAGCACTTAA
GCTCTCTCTTTGGTTTGAATCAGCCCGAGTTATCTCAATATGAATATGCTTCGCTTTGCCAACAGCTCGGCCTACGTGAA
TTAATCACACGACATAATGCACTCCCACTCCACCGTACTCCTTCAACTTTATTATTAGCGGTTGCCGACCCTACGAACCA
ACAAGCAGAAGATGATTTCCGCTTTGCCACTGGGTTACAGGTTGAACTGGTCTTGGCGGATTTTCGTCAACTCAGCGCGG
CAATTCGTCGCTTGTACGGGCGTGCCATCGGTCAGGAACGCTCCCAACTCAAAGAGATCAACCAAGAAGAGCTAGCGAGT
CTGGTGGATGTCGGTGCAGATGAAATCGACAATATCGAAGACTTGAGCCAAGACGAGTCGCCCGTTAGCCGCTACATCAA
CCAAATTCTGTTGGACGCTGTACGCAAAGGCGCATCCGATATCCACTTTGAGCCTTATGAAAAGATGTACCGAGTTCGTC
TACGTTGCGATGGCATTTTGATCGAAACTCAGCAACCGCCAAATCACTTGAGTCGTCGCTTATCAGCTCGTATCAAAATT
CTCTCTAAACTTGATATTGCAGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACTGCGAT
TGATATGCGGGTATCTACGCTACCTACCTTGTTTGGAGAGAAAATCGTACTCCGACTGCTCGATAGCAGCTCTGCATCAC
TGGATATCGACAAGCTTGGTTATAGTGAGCAACAAAAACAGTTGTATTTAGAGGCTCTGCGTCGCCCACAAGGTATGATT
CTGATGACAGGCCCAACAGGAAGCGGCAAGACCGTTTCTCTGTACACTGGGCTAAGTATCCTCAATAAGCCAGAGATCAA
CATTTCCACGGCAGAAGACCCGGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAGGCTCTACGTTCTTTTCTGCGTCAAGACCCAGATGTAGTCATGGTGGGTGAGATTCGAGACCTAGATACT
GCGGAAATCGCGATTAAGGCGTCCCAAACCGGTCACTTAGTGCTCTCTACTTTGCATACCAACTCTGCGGCTGAAACCAT
CATTCGTTTATCAAACATGGGCGTAGAAAGTTTTAACCTCGCCTCTTCGCTTAGTTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTCGGCATTCAAACAACTGACAAC
ATCTTTAAAGCCAATCCAGATGGTTGCAACGAATGCACCCATGGTTATTCAGGCCGAACGGGTATCTATGAAGTCATGCG
CTTTGATGAATCTCTATCCGAAGCTCTTATTAAAGGAGCCTCGGTACATGAACTGGAAAAGCTTGCTATTGCGAACGGCA
TGAGCACCTTGCAAATGTCCGGAATAGAAAAACTCAAACAAGGCATCACAAGCTTTAGTGAGTTACAACGCGTGCTCTAT
TTCTAA

Domains

Predicted by InterproScan.

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

(38-141)

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

90.374

100

0.904
  pilB Vibrio cholerae strain A1552

74.021

100

0.742
  pilB Acinetobacter baumannii D1279779

51.521

93.761

0.483
  pilB Legionella pneumophila strain ERS1305867

48.98

96.078

0.471
  pilB Acinetobacter baylyi ADP1

50.677

92.157

0.467
  pilF Neisseria gonorrhoeae MS11

44.504

100

0.447
  pilB/pilB1 Synechocystis sp. PCC 6803

37.838

100

0.399
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.332

100

0.367
  pilF Thermus thermophilus HB27

36.525

100

0.367

Multiple sequence alignment