Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   ABU640_RS02385 Genome accession   NZ_CP161854
Coordinates   502741..504429 (-) Length   562 a.a.
NCBI ID   WP_032481238.1    Uniprot ID   -
Organism   Vibrio cholerae strain C3616     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 497741..509429
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ABU640_RS02360 (ABU640_02360) yacG 498807..499004 (-) 198 WP_000162863.1 DNA gyrase inhibitor YacG -
  ABU640_RS02365 (ABU640_02365) zapD 499162..499902 (-) 741 WP_000207194.1 cell division protein ZapD -
  ABU640_RS02370 (ABU640_02370) coaE 499934..500542 (-) 609 WP_000011550.1 dephospho-CoA kinase -
  ABU640_RS02375 (ABU640_02375) pilD 500539..501414 (-) 876 WP_032476647.1 A24 family peptidase Machinery gene
  ABU640_RS02380 (ABU640_02380) pilC 501472..502698 (-) 1227 WP_000648512.1 type II secretion system F family protein Machinery gene
  ABU640_RS02385 (ABU640_02385) pilB 502741..504429 (-) 1689 WP_032481238.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ABU640_RS02390 (ABU640_02390) - 504429..504914 (-) 486 WP_000649332.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  ABU640_RS02395 (ABU640_02395) nadC 505159..506049 (-) 891 WP_000665269.1 carboxylating nicotinate-nucleotide diphosphorylase -
  ABU640_RS02400 (ABU640_02400) ampD 506351..506896 (+) 546 WP_000567314.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  ABU640_RS02405 (ABU640_02405) fldB 507175..507693 (-) 519 WP_000690112.1 flavodoxin FldB -
  ABU640_RS02410 (ABU640_02410) xerD 507831..508739 (+) 909 WP_001287472.1 site-specific tyrosine recombinase XerD -

Sequence

Protein


Download         Length: 562 a.a.        Molecular weight: 61973.08 Da        Isoelectric Point: 6.2588

>NTDB_id=1022760 ABU640_RS02385 WP_032481238.1 502741..504429(-) (pilB) [Vibrio cholerae strain C3616]
MLTNLVAILRQAELISATQEQAVVTQVSASGTSVPEALLGLGIFHAQELTEQLSHIFGLPATDLSRYDYAPLCQQLGLRE
LITRYDALPIAKQGNLLLLAVSDPTLLQAEEEFRFATGLQVELALADHRALQAAIRRLYGRSIQGAANQGKEISQDELAN
LVKVSDDELQSIEDLSQDDSPVSRFINQVLLDAVRKGASDIHFEPYENQYRIRLRCDGILVETQQPASHLSRRLAARIKI
LSKLDIAERRLPQDGRIKLRLSRDTAIDMRVSTLPTLWGEKIVLRLLDSSAANLDIDKLGYNPQQKQLYLNALKRPQGMI
LMTGPTGSGKTVSLYTGLRILNTSQINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLET
AEIAVKAAQTGHLVLSTLHTNSAAETVIRLANMGVEPFNLASSLSLIIAQRLARRLCKHCKIAVRPSALLQSQFAFQPNE
ILYEANAAGCNECTGGYSGRVGIYEVMAFNTELAEAIMQRASIHQIERLAKANGMQTLQESGLEKLREGITSFAELQRVL
YF

Nucleotide


Download         Length: 1689 bp        

>NTDB_id=1022760 ABU640_RS02385 WP_032481238.1 502741..504429(-) (pilB) [Vibrio cholerae strain C3616]
ATGCTCACCAACCTTGTTGCTATCTTGCGTCAGGCTGAGTTAATCAGCGCGACGCAAGAACAAGCGGTGGTTACACAGGT
TAGCGCTTCGGGAACGTCGGTGCCTGAAGCGCTGCTTGGTTTAGGGATTTTTCACGCCCAAGAACTGACCGAACAACTGA
GCCATATTTTCGGTTTGCCGGCAACCGACCTTAGCCGCTACGACTACGCCCCCCTGTGTCAACAGCTTGGGCTGCGTGAA
CTGATAACCCGCTACGATGCCTTGCCGATTGCCAAGCAAGGCAATTTACTGCTGCTCGCGGTCTCTGACCCAACCTTACT
GCAAGCCGAAGAAGAGTTTCGTTTTGCCACAGGGCTGCAAGTTGAACTGGCACTGGCCGATCACCGTGCGCTGCAAGCCG
CGATTCGCCGTTTGTATGGCCGCTCAATTCAAGGCGCGGCCAACCAAGGGAAAGAGATCAGCCAAGATGAGCTCGCCAAT
CTGGTTAAAGTCAGTGATGACGAGCTGCAATCGATTGAAGATCTCAGCCAAGATGACTCTCCGGTTAGCCGCTTTATCAA
CCAAGTACTGCTCGATGCGGTGCGCAAAGGCGCCTCCGATATTCATTTTGAGCCGTATGAAAACCAGTATCGGATCCGCC
TGCGCTGTGATGGTATTTTGGTGGAAACTCAGCAACCGGCTAGCCATTTAAGCCGCCGTTTAGCCGCGCGGATTAAAATT
CTCTCCAAATTAGATATTGCCGAGCGCCGTTTGCCGCAAGACGGGCGAATTAAACTGCGCCTAAGCCGCGATACCGCGAT
TGATATGCGCGTTTCAACACTCCCAACCTTATGGGGAGAAAAAATCGTGCTGCGTCTGCTCGATAGCAGCGCCGCCAATC
TGGATATTGATAAGCTCGGCTATAACCCGCAGCAAAAGCAGCTCTACCTCAACGCCCTCAAAAGACCACAAGGGATGATC
TTGATGACAGGCCCCACCGGCAGCGGCAAAACTGTTTCGCTCTATACTGGGCTGCGCATTCTTAACACGTCACAGATCAA
TATCTCCACCGCGGAAGATCCGGTGGAAATTAACCTCTCTGGGATTAACCAAGTGCAAGTGCAGCCAAAAATCGGCTTTG
GCTTTGCCGAGGCGCTACGCTCGTTTCTGCGCCAAGACCCTGATGTAGTGATGGTCGGCGAAATACGCGATCTGGAAACC
GCAGAAATCGCGGTAAAAGCCGCGCAAACCGGCCACTTGGTGCTTTCCACCCTGCACACCAACTCGGCCGCTGAAACCGT
AATTCGTTTAGCGAATATGGGGGTGGAGCCGTTTAACCTCGCGTCATCACTCAGTTTAATCATCGCCCAACGCCTCGCGC
GCCGCCTATGTAAACATTGCAAAATCGCGGTGCGCCCTTCCGCCCTATTGCAAAGCCAATTTGCCTTTCAGCCCAATGAA
ATCTTGTATGAAGCGAATGCGGCGGGGTGTAACGAGTGTACGGGCGGCTATTCAGGGCGCGTTGGGATCTATGAAGTGAT
GGCGTTTAATACCGAGCTGGCGGAGGCCATTATGCAGCGCGCCAGCATTCATCAAATTGAACGTTTAGCCAAAGCCAATG
GCATGCAAACGTTGCAAGAGTCCGGCCTTGAAAAGCTGCGCGAAGGCATCACCAGCTTTGCCGAGCTGCAGCGTGTGCTC
TATTTTTAA

Domains

Predicted by InterproScan.

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

(41-141)

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 cholerae strain A1552

99.288

100

0.993
  pilB Vibrio parahaemolyticus RIMD 2210633

73.843

100

0.738
  pilB Vibrio campbellii strain DS40M4

73.665

100

0.737
  pilB Legionella pneumophila strain ERS1305867

51.81

93.416

0.484
  pilB Acinetobacter baylyi ADP1

50.484

91.993

0.464
  pilB Acinetobacter baumannii D1279779

50.29

91.993

0.463
  pilF Neisseria gonorrhoeae MS11

45.552

100

0.456
  pilB/pilB1 Synechocystis sp. PCC 6803

37.417

100

0.402
  pilF Thermus thermophilus HB27

39.187

96.263

0.377
  pilB Haemophilus influenzae 86-028NP

39.658

93.772

0.372
  pilB Haemophilus influenzae Rd KW20

39.279

93.772

0.368

Multiple sequence alignment