Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   RJD38_RS04410 Genome accession   NZ_CP134271
Coordinates   997052..998734 (+) Length   560 a.a.
NCBI ID   WP_065545002.1    Uniprot ID   A0A1C7F7R8
Organism   Vibrio scophthalmi strain 20FBVib0200     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 992052..1003734
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RJD38_RS04395 (RJD38_04395) pncC 993191..993679 (-) 489 WP_367971403.1 nicotinamide-nucleotide amidase -
  RJD38_RS04400 (RJD38_04400) mutS 993764..996331 (+) 2568 WP_065545003.1 DNA mismatch repair protein MutS -
  RJD38_RS04405 (RJD38_04405) pilA 996594..997052 (+) 459 WP_065430953.1 pilin Machinery gene
  RJD38_RS04410 (RJD38_04410) pilB 997052..998734 (+) 1683 WP_065545002.1 type IV-A pilus assembly ATPase PilB Machinery gene
  RJD38_RS04415 (RJD38_04415) pilC 998788..1000011 (+) 1224 WP_065545001.1 type II secretion system F family protein Machinery gene
  RJD38_RS04420 (RJD38_04420) pilD 1000117..1000986 (+) 870 WP_065545000.1 prepilin peptidase Machinery gene
  RJD38_RS04425 (RJD38_04425) coaE 1000991..1001599 (+) 609 WP_065430956.1 dephospho-CoA kinase -
  RJD38_RS04430 (RJD38_04430) zapD 1001634..1002374 (+) 741 WP_005593976.1 cell division protein ZapD -
  RJD38_RS04435 (RJD38_04435) yacG 1002450..1002644 (+) 195 WP_005593974.1 DNA gyrase inhibitor YacG -
  RJD38_RS04440 (RJD38_04440) rplS 1002849..1003202 (-) 354 WP_005593972.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 560 a.a.        Molecular weight: 61817.92 Da        Isoelectric Point: 6.9266

>NTDB_id=879551 RJD38_RS04410 WP_065545002.1 997052..998734(+) (pilB) [Vibrio scophthalmi strain 20FBVib0200]
MSHHLATLLSQQGLLAHTQVGQPPFTSNHPSGFDPSILEFISADKLAAVVSQLFKLPQVNIAHYEYRTVCEELGLSTLIQ
KHLSLPLAKTNGTLTLAVVDPTLDVIEDEFRFATGLQIELVVTDYNAIKKAIYALYGRSLQSTTTAKKEINALELAQLVN
VSEEEFGREEDLSLDDAPVSRYIHQILLEAIRKGASDIHFEPYEKHYRIRLRCDGLLVESHQPASQLGRRLSTRLKILAN
LDIAERRRPQDGRSKVKLNADSAVDMRISTLPTLWGEKVVLRLLESGINLLDIDRLGYSHQQKQHYLKALKQPQGLILFT
GPTGSGKTISLYSGLNLLNTTQVNIATAEDPVEINLSGINQVQIQPQIGFDFACALRSFLRQDPDIVMVGEIRDVETADI
AIKASQTGHLVLSTLHTNSAADTIVRLASMGIKTYDLAASLTLVMAQRLVRKLCAHCKEPAKRNIDAKDDLLGPVTDQQY
QANQHGCTQCNQGYQGRIGLFEVLPINAKLQQAILQCATAIEIETLAKNEGMMSLQQSGIAALNAGKTSRQELQRVLLFG

Nucleotide


Download         Length: 1683 bp        

>NTDB_id=879551 RJD38_RS04410 WP_065545002.1 997052..998734(+) (pilB) [Vibrio scophthalmi strain 20FBVib0200]
ATGAGTCATCATTTAGCGACGCTGCTTTCTCAACAAGGCCTACTTGCTCACACGCAAGTAGGCCAGCCACCTTTTACCTC
AAACCATCCTTCTGGCTTTGATCCGTCGATACTAGAATTCATTAGCGCAGATAAATTAGCCGCTGTGGTAAGCCAATTAT
TCAAACTGCCACAGGTTAATATTGCTCACTATGAGTATCGTACGGTTTGTGAAGAACTGGGGTTGAGTACACTGATCCAA
AAACACCTTTCATTACCACTTGCCAAAACCAATGGCACGCTCACGCTGGCAGTGGTCGATCCGACACTGGATGTGATTGA
AGACGAGTTTCGTTTTGCGACTGGATTGCAGATTGAATTAGTGGTGACTGACTACAATGCTATCAAGAAGGCCATTTATG
CCCTCTATGGCCGAAGCCTTCAATCCACCACAACCGCGAAGAAAGAGATCAATGCCCTCGAACTGGCACAGCTAGTGAAT
GTCAGCGAAGAGGAGTTTGGTCGAGAAGAAGATTTGAGCCTAGATGACGCCCCCGTCAGTCGCTACATTCATCAGATATT
ACTCGAGGCGATACGCAAAGGGGCTTCTGATATTCATTTTGAACCGTATGAAAAGCATTACCGGATTCGCCTACGCTGCG
ACGGACTACTCGTAGAAAGCCACCAGCCAGCTTCTCAACTTGGCCGCCGCCTCTCCACACGGTTGAAAATATTAGCCAAC
TTAGATATCGCTGAACGTCGACGACCGCAAGATGGCAGAAGCAAGGTGAAGCTAAATGCTGATAGCGCCGTGGATATGCG
AATCTCGACGCTACCCACTTTATGGGGTGAAAAGGTGGTGCTGCGATTATTGGAAAGCGGTATCAACCTGCTTGATATTG
ACCGACTCGGCTATAGCCACCAGCAAAAACAGCACTACTTAAAAGCACTCAAACAACCACAAGGGCTGATATTGTTTACT
GGCCCAACAGGCAGCGGTAAAACCATCTCACTCTATAGTGGGCTAAATCTTCTTAACACGACGCAAGTCAATATTGCCAC
CGCAGAAGATCCAGTAGAGATCAATCTCAGCGGTATCAATCAAGTCCAAATTCAACCGCAAATCGGCTTCGACTTCGCTT
GCGCACTGCGATCTTTTCTTCGTCAAGATCCAGATATTGTTATGGTCGGCGAAATTCGTGATGTTGAAACCGCTGACATT
GCGATCAAAGCGTCACAAACGGGCCACTTGGTTCTTTCCACTTTGCACACCAACTCCGCAGCTGACACCATCGTTCGTTT
AGCGAGTATGGGGATTAAAACTTATGATCTTGCCGCCTCACTGACGCTGGTGATGGCCCAGCGCTTAGTCAGAAAACTCT
GCGCGCATTGCAAAGAGCCAGCAAAACGAAACATCGATGCTAAGGACGATTTACTCGGACCCGTCACTGATCAGCAGTAT
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
  AlphaFold DB A0A1C7F7R8

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

58.865

100

0.593
  pilB Vibrio cholerae strain A1552

58.259

100

0.586
  pilB Vibrio campbellii strain DS40M4

57.194

100

0.575
  pilB Legionella pneumophila strain ERS1305867

46.328

94.821

0.439
  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