Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   PCQ86_RS04875 Genome accession   NZ_CP115182
Coordinates   997010..998743 (-) Length   577 a.a.
NCBI ID   WP_012655751.1    Uniprot ID   A0A6M6IAK8
Organism   Diaphorobacter sp. ED-3     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 992010..1003743
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PCQ86_RS04845 - 992667..993113 (+) 447 WP_012655746.1 NUDIX domain-containing protein -
  PCQ86_RS04850 - 993183..993413 (-) 231 WP_270174994.1 DNA gyrase inhibitor YacG -
  PCQ86_RS04855 zapD 993420..994175 (-) 756 WP_172206340.1 cell division protein ZapD -
  PCQ86_RS04860 coaE 994266..994889 (-) 624 WP_172206343.1 dephospho-CoA kinase -
  PCQ86_RS04865 - 994891..995772 (-) 882 WP_270174995.1 A24 family peptidase -
  PCQ86_RS04870 pilC 995772..996989 (-) 1218 WP_012655750.1 type II secretion system F family protein Machinery gene
  PCQ86_RS04875 pilB 997010..998743 (-) 1734 WP_012655751.1 type IV-A pilus assembly ATPase PilB Machinery gene
  PCQ86_RS04885 - 999081..1000064 (-) 984 WP_270174996.1 polyprenyl synthetase family protein -
  PCQ86_RS04890 rplU 1000234..1000545 (+) 312 WP_012655753.1 50S ribosomal protein L21 -
  PCQ86_RS04895 rpmA 1000563..1000820 (+) 258 WP_270174997.1 50S ribosomal protein L27 -
  PCQ86_RS04900 obgE 1000967..1002040 (+) 1074 WP_012655754.1 GTPase ObgE -
  PCQ86_RS04905 proB 1002114..1003256 (+) 1143 WP_270174998.1 glutamate 5-kinase -

Sequence

Protein


Download         Length: 577 a.a.        Molecular weight: 63629.02 Da        Isoelectric Point: 5.3559

>NTDB_id=768679 PCQ86_RS04875 WP_012655751.1 997010..998743(-) (pilB) [Diaphorobacter sp. ED-3]
MAAIDTQKEAQPIALPGLARALMSVGKLDQKAAEEIYKKSQNSRSSFIAELTESKIITPSDLAHTVSTVFGAPLLDVDAI
DRQRIPKDLLDVKLCQSYKVIALSKRNNRLIVATADPTFQEAAEKIKFTTQMGVDWIIAEYDKLLRLIEASTKSGTETLD
GINSSNDFEFGDIPVDEAPDEDADNPAEVEDAPVVKFLHKMLLDAFNMRASDLHFEPYEHHYRVRFRIDGELREIASPPI
AIKEKLASRIKVISRLDISEKRVPQDGRMKLKVGPDRVIDFRVSTLPTLFGEKIVIRILDPSSAKLGIDALGYEPEEKER
LLQAINRPYGMILVTGPTGSGKTVSLYTCLNLLNKPGVNIATAEDPSEINLPGVNQVNVNEKAGLTFAVALKSFLRQDPD
IIMVGEIRDLETADISIKAAQTGHLVLSTLHTNDAPTTLTRMRNMGIAPFNIASSVILITAQRLARRLCPNCKAPVDIPH
ETLLEAGYRDEEIDGSWVTYRPVGCSACNNGYKGRVGIYQVMPVSEEIQRIILRDGSALEIAEQARLEGVRSLRESGLHK
AKMGLTSLEEVLAVTNE

Nucleotide


Download         Length: 1734 bp        

>NTDB_id=768679 PCQ86_RS04875 WP_012655751.1 997010..998743(-) (pilB) [Diaphorobacter sp. ED-3]
ATGGCTGCTATCGACACACAGAAAGAAGCTCAACCGATTGCCCTACCCGGACTGGCGCGCGCGTTGATGTCTGTGGGCAA
ATTGGATCAAAAAGCGGCGGAAGAAATTTACAAAAAGTCACAAAATAGCCGCAGTAGCTTTATTGCAGAGCTCACGGAAT
CGAAAATCATCACGCCAAGTGATCTGGCCCATACGGTATCAACCGTATTTGGTGCCCCCTTGCTAGATGTCGATGCGATC
GACCGGCAGCGCATCCCCAAAGATCTGTTGGACGTCAAACTGTGCCAGTCCTACAAAGTCATCGCTCTCAGTAAGCGCAA
TAACCGGCTCATCGTCGCCACCGCGGATCCGACATTTCAAGAGGCCGCAGAAAAGATCAAGTTCACCACACAAATGGGGG
TGGACTGGATCATCGCGGAATATGACAAGCTGCTCCGCTTGATTGAGGCGAGCACGAAGAGCGGTACAGAAACGCTCGAC
GGCATCAACAGCAGTAATGATTTTGAGTTCGGCGATATTCCCGTTGATGAAGCTCCGGACGAGGATGCCGACAATCCCGC
GGAAGTCGAGGATGCTCCCGTTGTCAAATTTCTGCACAAGATGCTGCTGGATGCTTTCAATATGCGTGCATCCGATCTGC
ATTTTGAGCCCTATGAGCACCATTACCGTGTCCGCTTCCGCATAGATGGCGAATTGCGCGAAATCGCATCGCCGCCTATT
GCCATCAAGGAGAAGCTGGCCTCGCGCATCAAGGTGATCTCCCGCCTGGATATTTCGGAAAAACGCGTGCCCCAGGATGG
CCGCATGAAGCTCAAGGTTGGGCCGGACCGGGTTATCGATTTCCGCGTCAGCACCCTGCCTACGCTCTTTGGCGAGAAGA
TCGTGATCCGTATTCTCGATCCGAGCAGCGCCAAGCTGGGTATTGACGCACTGGGATATGAGCCCGAGGAAAAGGAGCGT
TTGCTGCAGGCCATCAACCGCCCTTATGGAATGATCTTGGTGACCGGACCCACGGGCTCCGGGAAGACCGTATCGCTCTA
CACATGTCTCAATCTTTTGAACAAGCCCGGCGTCAATATTGCGACCGCTGAGGACCCTTCGGAAATCAACCTCCCCGGTG
TGAACCAAGTCAACGTCAACGAGAAAGCCGGCCTCACGTTTGCCGTCGCGCTTAAGTCATTCCTTCGCCAAGATCCGGAC
ATCATCATGGTGGGTGAAATCCGGGATCTGGAAACGGCAGACATTTCAATCAAAGCCGCGCAGACGGGTCACTTGGTGCT
CTCTACCCTGCACACCAATGACGCTCCCACGACATTGACGCGCATGCGCAATATGGGCATCGCGCCCTTCAATATCGCAT
CCAGCGTGATTCTTATTACGGCGCAGCGACTGGCGCGTCGCTTGTGCCCCAATTGCAAGGCGCCCGTGGACATTCCGCAT
GAGACGCTGCTGGAGGCCGGCTACCGGGACGAGGAGATCGACGGCTCATGGGTTACCTACCGACCGGTGGGCTGCTCCGC
CTGCAATAACGGATACAAGGGGCGCGTGGGCATTTACCAGGTCATGCCGGTGTCCGAAGAAATCCAGCGCATCATCCTGC
GCGATGGAAGCGCACTGGAAATTGCCGAACAGGCACGCCTGGAAGGCGTCCGTTCTCTGCGTGAATCCGGGCTTCACAAG
GCAAAAATGGGATTGACCTCCTTGGAAGAGGTCTTGGCTGTCACCAACGAATAA

Domains

Predicted by InterproScan.

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

(51-150)

Type II/IV secretion system protein (T2SSE)

(200-467)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB A0A6M6IAK8

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 Acinetobacter baylyi ADP1

54.181

99.48

0.539
  pilB Acinetobacter baumannii D1279779

53.723

97.747

0.525
  pilF Neisseria gonorrhoeae MS11

52.389

97.92

0.513
  pilB Legionella pneumophila strain ERS1305867

49.912

97.92

0.489
  pilB Vibrio parahaemolyticus RIMD 2210633

45.714

97.054

0.444
  pilB Vibrio campbellii strain DS40M4

45.455

97.227

0.442
  pilB Vibrio cholerae strain A1552

46.881

91.681

0.43
  pilF Thermus thermophilus HB27

39.897

100

0.404
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

41.121

92.721

0.381