Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   D5R51_RS02020 Genome accession   NZ_LS997867
Coordinates   411086..412774 (-) Length   562 a.a.
NCBI ID   WP_000957200.1    Uniprot ID   A0A0H3AHY8
Organism   Vibrio paracholerae strain NCTC 30     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 406086..417774
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  D5R51_RS01995 (SAMEA104470976_00397) yacG 407153..407350 (-) 198 WP_000162865.1 DNA gyrase inhibitor YacG -
  D5R51_RS02000 (SAMEA104470976_00398) zapD 407507..408247 (-) 741 WP_119090808.1 cell division protein ZapD -
  D5R51_RS02005 (SAMEA104470976_00399) coaE 408279..408887 (-) 609 WP_162891880.1 dephospho-CoA kinase -
  D5R51_RS02010 (SAMEA104470976_00400) pilD 408884..409759 (-) 876 WP_000418747.1 A24 family peptidase Machinery gene
  D5R51_RS02015 (SAMEA104470976_00401) pilC 409817..411043 (-) 1227 WP_000648506.1 type II secretion system F family protein Machinery gene
  D5R51_RS02020 (SAMEA104470976_00402) pilB 411086..412774 (-) 1689 WP_000957200.1 type IV-A pilus assembly ATPase PilB Machinery gene
  D5R51_RS02025 (SAMEA104470976_00403) pilA 412781..413218 (-) 438 WP_119090810.1 type IV pilin protein Machinery gene
  D5R51_RS02030 (SAMEA104470976_00404) nadC 413463..414353 (-) 891 WP_119090811.1 carboxylating nicotinate-nucleotide diphosphorylase -
  D5R51_RS02040 (SAMEA104470976_00405) ampD 414655..415200 (+) 546 WP_119090812.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  D5R51_RS02045 (SAMEA104470976_00406) fldB 415469..415987 (-) 519 WP_000690112.1 flavodoxin FldB -
  D5R51_RS02050 (SAMEA104470976_00407) xerD 416125..417033 (+) 909 WP_001287470.1 site-specific tyrosine recombinase XerD -

Sequence

Protein


Download         Length: 562 a.a.        Molecular weight: 62150.20 Da        Isoelectric Point: 5.9053

>NTDB_id=1143335 D5R51_RS02020 WP_000957200.1 411086..412774(-) (pilB) [Vibrio paracholerae strain NCTC 30]
MLTNLVAILRQAELISATQEQAVVTQVSASGTSVPEALLELSIFHAQELTEQLSHIFGLPETDLSRYDYANLCQQLGLRE
LITRYDALPIAKQGNLLLLAVSDPTLLQAEEEFRFATGLQVELALADHRALQAAIRRLYGRSIQGAANQGKEISQDELAN
LVKVSDDELQSIEDLSQDDSPVSRFINQVLLDAVRKGASDIHFEPYENQYRIRLRCDGILVETQQPASHLSRRLAARIKI
LSKLDIAERRLPQDGRIKLRLSRDTAIDMRVSTLPTLWGEKIVLRLLDSSAANLDIDKLGYNPQQKQLYLNALKRPQGMI
LMTGPTGSGKTVSLYTGLRILNTSQINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLET
AEIAVKAAQTGHLVLSTLHTNSAAETVIRLANMGVEPFNLASSLSLIIAQRLARRLCKHCKIAVRPSALLQSQFAFQPNE
ILYEANAAGCNECTGGYSGRVGIYEVMAFNTELAEAIMQRASIHQIERLAKANGMQTLQESGLEKLREGITSFAELQRVL
YF

Nucleotide


Download         Length: 1689 bp        

>NTDB_id=1143335 D5R51_RS02020 WP_000957200.1 411086..412774(-) (pilB) [Vibrio paracholerae strain NCTC 30]
ATGCTCACCAACCTTGTTGCTATCTTGCGTCAGGCTGAGTTAATCAGCGCAACGCAAGAACAAGCGGTGGTTACGCAGGT
TAGCGCTTCGGGGACTTCGGTGCCCGAGGCGCTGCTTGAGTTAAGTATTTTTCACGCCCAAGAACTGACCGAGCAACTGA
GCCATATTTTCGGATTGCCGGAAACCGACCTTAGCCGCTACGACTACGCCAACTTGTGCCAACAGCTGGGGCTGCGTGAA
CTGATTACCCGCTACGATGCCTTACCGATTGCCAAGCAAGGCAATTTACTGCTGCTGGCGGTCTCTGACCCGACCTTATT
GCAAGCCGAAGAAGAGTTTCGCTTTGCCACTGGACTACAAGTTGAACTGGCACTGGCCGATCACCGCGCACTGCAAGCGG
CGATTCGCCGTTTGTATGGCAGATCTATTCAAGGCGCAGCTAACCAAGGGAAAGAGATCAGCCAAGATGAGCTCGCCAAT
CTGGTTAAAGTCAGTGATGACGAACTGCAATCGATCGAAGATCTCAGCCAAGATGACTCGCCGGTTAGCCGCTTTATCAA
CCAAGTGCTGCTCGATGCGGTGCGCAAAGGCGCCTCCGATATTCATTTTGAGCCGTATGAAAACCAGTATCGGATCCGCC
TGCGCTGCGATGGGATCTTGGTCGAAACTCAGCAACCGGCTAGCCATTTAAGCCGCCGTTTAGCCGCGCGGATTAAAATT
CTCTCCAAATTAGATATTGCCGAGCGCCGTTTGCCGCAAGACGGGCGGATTAAACTGCGCCTAAGCCGCGATACCGCCAT
TGATATGCGTGTATCCACGCTTCCCACTTTATGGGGCGAAAAAATCGTGCTGCGTCTGCTCGATAGCAGCGCCGCCAATC
TGGATATTGATAAGCTCGGCTATAACCCGCAGCAAAAGCAGCTCTATCTCAATGCCCTGAAAAGACCGCAAGGGATGATT
TTAATGACAGGCCCCACCGGCAGCGGCAAAACAGTTTCGCTCTATACTGGGCTGCGCATTCTCAACACGTCACAGATCAA
TATCTCCACCGCGGAAGATCCGGTAGAAATTAACCTGTCTGGGATTAACCAAGTGCAAGTGCAGCCGAAAATCGGCTTTG
GCTTTGCCGAAGCGCTACGCTCGTTTCTGCGCCAAGACCCTGATGTAGTGATGGTCGGCGAAATACGCGATCTGGAAACC
GCAGAAATCGCGGTCAAAGCCGCGCAAACCGGCCACTTGGTGCTTTCCACCCTGCACACCAACTCAGCCGCCGAAACCGT
AATTCGTTTAGCCAATATGGGGGTGGAGCCGTTTAACCTCGCGTCATCACTCAGTTTAATCATCGCCCAACGCCTCGCGC
GCCGCTTGTGTAAACATTGCAAAATCGCGGTGCGCCCTTCTGCCCTATTGCAAAGCCAATTTGCGTTTCAGCCCAATGAA
ATCTTGTATGAAGCCAATGCGGCGGGGTGTAACGAGTGTACGGGCGGCTATTCAGGGCGCGTTGGGATCTATGAAGTGAT
GGCGTTTAATACCGAGCTGGCGGAGGCCATTATGCAACGCGCCAGCATTCATCAAATTGAACGTTTAGCCAAAGCCAATG
GCATGCAAACGTTGCAAGAGTCCGGCCTTGAAAAGCTGCGCGAAGGCATCACCAGCTTTGCCGAGCTGCAGCGTGTGCTC
TATTTTTAA

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
  AlphaFold DB A0A0H3AHY8

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

100

100

1
  pilB Vibrio parahaemolyticus RIMD 2210633

73.665

100

0.737
  pilB Vibrio campbellii strain DS40M4

73.488

100

0.735
  pilB Legionella pneumophila strain ERS1305867

50.741

96.085

0.488
  pilB Acinetobacter baylyi ADP1

50.484

91.993

0.464
  pilB Acinetobacter baumannii D1279779

50.29

91.993

0.463
  pilF Neisseria gonorrhoeae MS11

45.374

100

0.454
  pilB/pilB1 Synechocystis sp. PCC 6803

36.65

100

0.393
  pilF Thermus thermophilus HB27

40.111

96.263

0.386
  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