Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   BA890_RS11960 Genome accession   NZ_CP016345
Coordinates   2643196..2644881 (+) Length   561 a.a.
NCBI ID   WP_020333948.1    Uniprot ID   -
Organism   Vibrio natriegens NBRC 15636 = ATCC 14048 = DSM 759 strain ATCC 14048     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2638196..2649881
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  BA890_RS11940 (BA890_11940) pdhR 2639768..2640535 (-) 768 WP_014232947.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  BA890_RS11945 (BA890_11945) ampD 2640945..2641490 (-) 546 WP_020333945.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  BA890_RS11950 (BA890_11950) nadC 2641583..2642470 (+) 888 WP_020333946.1 carboxylating nicotinate-nucleotide diphosphorylase -
  BA890_RS11955 (BA890_11955) pilA 2642737..2643195 (+) 459 WP_020333947.1 pilin Machinery gene
  BA890_RS11960 (BA890_11960) pilB 2643196..2644881 (+) 1686 WP_020333948.1 type IV-A pilus assembly ATPase PilB Machinery gene
  BA890_RS11965 (BA890_11965) pilC 2644912..2646135 (+) 1224 WP_020333949.1 type II secretion system F family protein Machinery gene
  BA890_RS11970 (BA890_11970) pilD 2646203..2647072 (+) 870 WP_020333950.1 prepilin peptidase Machinery gene
  BA890_RS11975 (BA890_11975) coaE 2647073..2647687 (+) 615 WP_020333951.1 dephospho-CoA kinase -
  BA890_RS11980 (BA890_11980) zapD 2647714..2648454 (+) 741 WP_020333952.1 cell division protein ZapD -
  BA890_RS11985 (BA890_11985) yacG 2648528..2648722 (+) 195 WP_014232956.1 DNA gyrase inhibitor YacG -
  BA890_RS11990 (BA890_11990) rplS 2649047..2649400 (-) 354 WP_005379971.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62140.90 Da        Isoelectric Point: 5.6544

>NTDB_id=187122 BA890_RS11960 WP_020333948.1 2643196..2644881(+) (pilB) [Vibrio natriegens NBRC 15636 = ATCC 14048 = DSM 759 strain ATCC 14048]
MLFNLIGTLRNANLIIQHQEESLIEQVNASGISIPEALVNSGIFTSRELATHLSSIFGLPYEPLSNYDYSALCQKLGLRE
LITSHHALPLERTPSTLTLAIADPTNQQAEDDFRFATGLQIDLVITDFSELDAAIRRLYGRALGQERSGLKEINQEELAN
LVDVGADEIDNIEDLSQDQSPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPSHLSRRLSARIKI
LSKLDIAERRMPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSDQQKQLYLDALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKAAQTGHLVLSTLHTNSAAETVIRLTNMGVESYNLASSLSLVIAQRLARKLCSHCKQPQEVTAALQHIGIQATDQ
IYQANPNGCNHCTHGYSGRTGIYEVMRFDETLSEALIKGASVNQLEKLAIRNGMSTLQMSGIEKLKQGVTSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=187122 BA890_RS11960 WP_020333948.1 2643196..2644881(+) (pilB) [Vibrio natriegens NBRC 15636 = ATCC 14048 = DSM 759 strain ATCC 14048]
ATGTTATTCAACTTAATTGGGACTCTTCGTAATGCTAATCTGATTATCCAGCACCAAGAAGAGTCGTTAATAGAGCAAGT
CAACGCTTCTGGTATTTCGATACCGGAAGCGTTAGTCAATTCAGGCATATTTACCTCCAGAGAACTCGCCACTCATCTAA
GTTCAATCTTTGGTTTACCCTACGAACCGTTATCTAATTATGATTACAGCGCCCTGTGCCAAAAATTGGGGCTGCGCGAG
CTGATCACGAGTCATCATGCCCTGCCACTGGAGCGAACGCCTTCGACGTTAACTCTCGCTATTGCCGACCCAACTAACCA
ACAAGCAGAAGATGATTTTCGCTTTGCAACCGGATTGCAAATTGATCTCGTCATTACGGATTTTTCGGAGCTTGATGCTG
CGATTCGCCGTTTGTACGGTCGCGCGTTAGGTCAGGAGAGATCCGGCTTAAAAGAGATCAACCAAGAAGAGTTGGCTAAT
TTGGTTGACGTCGGTGCTGATGAAATCGATAACATCGAAGACTTAAGTCAGGACCAATCACCGGTTAGTCGCTATATCAA
CCAGATTTTATTGGATGCTGTACGTAAAGGGGCATCCGATATCCACTTTGAACCTTATGAAAAAATGTATCGGGTTCGGC
TGCGTTGTGACGGCATTCTAATTGAGACTCAACAGCCGCCAAGCCATTTAAGTCGACGCTTATCGGCTCGAATCAAAATT
CTGTCCAAGCTTGATATTGCTGAAAGGCGTATGCCGCAAGACGGTCGAATAAAGTTAAAGCTTAATCAAGACACTGCGAT
TGATATGCGAGTGTCCACCTTACCCACTCTATTCGGAGAAAAAATCGTATTGCGACTGCTCGACAGCAGCTCCGCTTCTC
TGGATATCGATAAACTAGGCTACAGTGACCAGCAAAAGCAGCTGTACTTAGATGCTCTGCGTCGTCCACAAGGCATGATT
TTAATGACCGGCCCAACCGGCAGCGGCAAAACCGTCTCGTTGTACACAGGGCTGAGCATACTCAATAAACCAGAGATCAA
TATTTCTACGGCTGAAGACCCGGTGGAAATCAACCTCTCCGGAATTAATCAGGTTCAGGTTCAACCCAAGATAGGCTTTG
GTTTCGCCGAGGCACTGCGCTCTTTCCTGCGTCAAGATCCTGATGTGGTCATGGTGGGAGAAATCCGCGATTTGGACACA
GCAGAAATCGCGATTAAGGCCGCACAAACCGGACACTTAGTCTTGTCGACACTCCACACAAATTCAGCCGCTGAAACCGT
TATCCGCCTAACGAATATGGGCGTTGAAAGCTACAACCTCGCCTCTTCGCTCAGCCTTGTTATTGCCCAGCGCTTAGCCC
GTAAACTTTGCTCGCACTGTAAGCAGCCTCAAGAGGTTACCGCCGCATTACAACATATTGGCATTCAAGCAACTGACCAG
ATTTATCAAGCTAACCCAAATGGCTGTAACCACTGTACACACGGCTATTCGGGAAGAACTGGCATCTATGAGGTGATGCG
TTTCGATGAAACCCTATCCGAAGCACTGATTAAAGGTGCCTCGGTAAATCAACTCGAAAAACTCGCCATCCGTAACGGGA
TGAGCACACTACAAATGTCAGGTATTGAAAAGCTTAAGCAAGGCGTCACAAGCTTTAGCGAACTGCAGCGCGTGCTCTAC
TTTTAA

Domains

Predicted by InterproScan.

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

(38-142)

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

86.988

100

0.87
  pilB Vibrio campbellii strain DS40M4

84.492

100

0.845
  pilB Vibrio cholerae strain A1552

72.42

100

0.725
  pilB Acinetobacter baumannii D1279779

51.923

92.692

0.481
  pilB Legionella pneumophila strain ERS1305867

48.799

96.435

0.471
  pilB Acinetobacter baylyi ADP1

50.484

92.157

0.465
  pilF Neisseria gonorrhoeae MS11

43.617

100

0.439
  pilB/pilB1 Synechocystis sp. PCC 6803

38.023

100

0.405
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.603

96.97

0.374
  pilF Thermus thermophilus HB27

37.112

97.504

0.362

Multiple sequence alignment