Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   RJD40_RS13000 Genome accession   NZ_CP134280
Coordinates   2881350..2883032 (+) Length   560 a.a.
NCBI ID   WP_418113554.1    Uniprot ID   -
Organism   Vibrio scophthalmi strain 21FBVib0106     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2876350..2888032
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RJD40_RS12985 (RJD40_12985) pncC 2877489..2877977 (-) 489 WP_418113552.1 nicotinamide-nucleotide amidase -
  RJD40_RS12990 (RJD40_12990) mutS 2878062..2880629 (+) 2568 WP_418113553.1 DNA mismatch repair protein MutS -
  RJD40_RS12995 (RJD40_12995) pilA 2880892..2881350 (+) 459 WP_065430953.1 pilin Machinery gene
  RJD40_RS13000 (RJD40_13000) pilB 2881350..2883032 (+) 1683 WP_418113554.1 type IV-A pilus assembly ATPase PilB Machinery gene
  RJD40_RS13005 (RJD40_13005) pilC 2883086..2884309 (+) 1224 WP_065430955.1 type II secretion system F family protein Machinery gene
  RJD40_RS13010 (RJD40_13010) pilD 2884415..2885284 (+) 870 WP_005593978.1 prepilin peptidase Machinery gene
  RJD40_RS13015 (RJD40_13015) coaE 2885289..2885897 (+) 609 WP_005593977.1 dephospho-CoA kinase -
  RJD40_RS13020 (RJD40_13020) zapD 2885932..2886672 (+) 741 WP_005593976.1 cell division protein ZapD -
  RJD40_RS13025 (RJD40_13025) yacG 2886748..2886942 (+) 195 WP_005593974.1 DNA gyrase inhibitor YacG -
  RJD40_RS13030 (RJD40_13030) rplS 2887239..2887592 (-) 354 WP_005593972.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 560 a.a.        Molecular weight: 61835.89 Da        Isoelectric Point: 6.8552

>NTDB_id=879651 RJD40_RS13000 WP_418113554.1 2881350..2883032(+) (pilB) [Vibrio scophthalmi strain 21FBVib0106]
MSHNLATLLSQQGLLAHTQVGQPPFTSNHPSGFDPSILEFISADKLAAVVSQLFKLPQVNIAHYEYRTVCEELGLSTLIQ
KHLSLPLAKTNGTLTLAVVDPTLDVIEDEFRFATGLQIELVVTDYNAIKKAIYALYGRSLQSTTTAKKEINALELAQLVN
VSEEEFGREEDLSQDDAPVSRYIHQILLEAIRKGASDIHFEPYEKHYRIRLRCDGLLVESHQPASQLGRRLSTRLKILAN
LDIAERRRPQDGRSKVKLNADSAVDMRISTLPTLWGEKVVLRLLESGINLLDIDRLGYSHQQKQHYLKALKQPQGLILFT
GPTGSGKTISLYSGLNLLNTTQVNIATAEDPVEINLSGINQVQIQPQIGFDFACALRSFLRQDPDIVMVGEIRDVETADI
AIKASQTGHLVLSTLHTNSAADTIVRLASMGIKTYDLAASLTLVMAQRLVRKLCAYCKEPAKRNIDAKDDLLGPVTDQQY
QANQHGCTQCNQGYQGRIGLFEVLPINAKLQQAILQCATAIEIETLAKNEGMMSLQQSGIAALNAGKTSRQELQRVLLFG

Nucleotide


Download         Length: 1683 bp        

>NTDB_id=879651 RJD40_RS13000 WP_418113554.1 2881350..2883032(+) (pilB) [Vibrio scophthalmi strain 21FBVib0106]
ATGAGTCATAATTTAGCGACGCTGCTTTCTCAACAAGGCCTACTTGCTCACACGCAAGTAGGCCAGCCACCTTTTACCTC
AAACCATCCTTCTGGCTTTGATCCGTCGATACTAGAATTCATTAGCGCAGATAAATTAGCCGCTGTGGTAAGCCAATTAT
TCAAACTGCCACAGGTTAATATTGCTCACTATGAGTATCGTACGGTTTGTGAAGAACTGGGGTTGAGTACACTGATCCAA
AAACACCTTTCATTACCACTTGCCAAAACCAATGGCACGCTCACGCTGGCAGTGGTCGATCCGACACTGGATGTGATTGA
AGACGAGTTTCGTTTTGCGACTGGATTGCAGATTGAATTAGTGGTGACTGACTACAATGCTATCAAGAAGGCCATTTATG
CCCTCTATGGCCGAAGCCTTCAATCCACCACAACCGCGAAGAAAGAGATCAATGCCCTCGAACTGGCACAGCTAGTGAAT
GTCAGCGAAGAGGAGTTTGGTCGAGAAGAAGATTTGAGCCAAGATGACGCCCCCGTCAGTCGCTACATTCATCAGATATT
ACTCGAGGCGATACGCAAAGGGGCTTCTGATATTCATTTTGAACCGTATGAAAAGCATTACCGGATTCGCCTACGCTGCG
ACGGACTACTCGTAGAAAGCCACCAGCCAGCTTCTCAACTTGGCCGCCGCCTCTCCACACGGTTGAAAATATTAGCCAAC
TTAGATATCGCTGAACGTCGACGACCGCAAGATGGCAGAAGCAAGGTGAAGCTAAATGCTGATAGCGCCGTGGATATGCG
AATCTCGACGCTACCCACTTTATGGGGTGAAAAGGTGGTGCTGCGATTATTGGAAAGCGGTATCAACCTGCTTGATATTG
ACCGACTCGGCTATAGCCACCAGCAAAAACAGCACTACTTAAAAGCACTCAAACAACCACAAGGGCTGATATTGTTTACT
GGCCCAACAGGCAGCGGTAAAACCATCTCACTCTATAGTGGGCTAAATCTTCTTAACACGACGCAAGTCAATATTGCCAC
CGCAGAAGATCCAGTAGAGATCAATCTCAGCGGTATCAATCAAGTCCAAATTCAACCGCAAATCGGCTTCGACTTCGCTT
GCGCACTGCGATCTTTTCTTCGTCAAGATCCAGATATTGTTATGGTCGGCGAAATTCGTGATGTTGAAACCGCTGACATT
GCGATCAAAGCGTCACAAACGGGCCACTTGGTTCTTTCCACTTTGCACACCAACTCCGCAGCTGACACCATCGTTCGTTT
AGCGAGTATGGGGATTAAAACTTATGATCTTGCCGCCTCACTGACGCTGGTGATGGCCCAGCGCTTAGTCAGAAAACTCT
GCGCGTATTGCAAAGAGCCAGCAAAACGAAACATCGATGCTAAGGACGATTTACTCGGACCCGTCACTGATCAGCAGTAT
CAAGCCAATCAGCACGGTTGTACTCAATGTAATCAGGGTTATCAAGGCCGAATAGGCTTGTTTGAAGTACTGCCAATAAA
CGCCAAACTGCAACAAGCGATATTGCAATGCGCGACTGCCATTGAGATTGAAACGCTCGCCAAAAATGAAGGCATGATGA
GCTTACAACAATCCGGTATTGCCGCACTCAACGCTGGCAAAACCAGTCGCCAAGAATTACAACGCGTGTTGCTATTTGGC
TAG

Domains

Predicted by InterproScan.

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

(39-139)

Type II/IV secretion system protein (T2SSE)

(185-452)


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

59.397

100

0.598
  pilB Vibrio cholerae strain A1552

58.437

100

0.588
  pilB Vibrio campbellii strain DS40M4

57.726

100

0.58
  pilB Legionella pneumophila strain ERS1305867

46.704

94.821

0.443
  pilB Acinetobacter baumannii D1279779

44.444

93.214

0.414
  pilB Acinetobacter baylyi ADP1

43.893

93.571

0.411
  pilF Neisseria gonorrhoeae MS11

43.378

93.036

0.404