Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   ICJ04_RS04570 Genome accession   NZ_CP061204
Coordinates   1095069..1096793 (+) Length   574 a.a.
NCBI ID   WP_188326367.1    Uniprot ID   A0A7H1AP68
Organism   Stenotrophomonas sp. 169     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
Genomic island 1078761..1103181 1095069..1096793 within 0


Gene organization within MGE regions


Location: 1078761..1103181
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ICJ04_RS04510 (ICJ04_04510) - 1078761..1082015 (-) 3255 WP_188326355.1 transporter substrate-binding domain-containing protein -
  ICJ04_RS04515 (ICJ04_04515) rimK 1082309..1083187 (+) 879 WP_188326356.1 30S ribosomal protein S6--L-glutamate ligase -
  ICJ04_RS04520 (ICJ04_04520) - 1083537..1084031 (+) 495 WP_188326357.1 hypothetical protein -
  ICJ04_RS04525 (ICJ04_04525) - 1084178..1084855 (+) 678 WP_188326358.1 response regulator transcription factor -
  ICJ04_RS04530 (ICJ04_04530) - 1084848..1086191 (+) 1344 WP_188326359.1 HAMP domain-containing sensor histidine kinase -
  ICJ04_RS04535 (ICJ04_04535) - 1086301..1086714 (-) 414 WP_188326360.1 hypothetical protein -
  ICJ04_RS04540 (ICJ04_04540) - 1087158..1087508 (+) 351 WP_188326361.1 transcriptional regulator -
  ICJ04_RS04545 (ICJ04_04545) coaE 1087558..1088175 (-) 618 WP_188326362.1 dephospho-CoA kinase -
  ICJ04_RS04550 (ICJ04_04550) - 1088172..1089035 (-) 864 WP_188326363.1 A24 family peptidase -
  ICJ04_RS04555 (ICJ04_04555) pilC 1089039..1090298 (-) 1260 WP_188326364.1 type II secretion system F family protein Machinery gene
  ICJ04_RS04560 (ICJ04_04560) pilA 1090654..1091058 (+) 405 WP_188326365.1 pilin Machinery gene
  ICJ04_RS04565 (ICJ04_04565) - 1091336..1094383 (+) 3048 WP_188326366.1 fused MFS/spermidine synthase -
  ICJ04_RS04570 (ICJ04_04570) pilB 1095069..1096793 (+) 1725 WP_188326367.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ICJ04_RS04575 (ICJ04_04575) - 1096960..1097667 (+) 708 WP_188326368.1 YitT family protein -
  ICJ04_RS04580 (ICJ04_04580) - 1097797..1098333 (-) 537 WP_188326369.1 DNA-3-methyladenine glycosylase I -
  ICJ04_RS04585 (ICJ04_04585) - 1098330..1100126 (-) 1797 WP_188326370.1 DUF4153 domain-containing protein -
  ICJ04_RS04590 (ICJ04_04590) - 1100208..1100774 (+) 567 WP_188326371.1 YqgE/AlgH family protein -
  ICJ04_RS04595 (ICJ04_04595) ruvX 1100767..1101234 (+) 468 WP_188326372.1 Holliday junction resolvase RuvX -
  ICJ04_RS04600 (ICJ04_04600) - 1101251..1102201 (+) 951 WP_188326373.1 aspartate carbamoyltransferase catalytic subunit -
  ICJ04_RS04605 (ICJ04_04605) - 1102237..1103181 (-) 945 WP_188326374.1 hypothetical protein -

Sequence

Protein


Download         Length: 574 a.a.        Molecular weight: 62336.37 Da        Isoelectric Point: 6.0417

>NTDB_id=481331 ICJ04_RS04570 WP_188326367.1 1095069..1096793(+) (pilB) [Stenotrophomonas sp. 169]
MNAVATANLVGITGIARRLVQDGALDEAGARDAMAKATAARLPLPQWFAQNKVVTASQLAAANALEFGMPLFDVSVFDAN
QSAISLVSEELLRKHHVLPLFKRGGKLYVGTSNPTHSLDEIKFHTNLVVESILVDDDQIRRALEQWQTSHDSMTSSMGDD
DEGMANLEIGTDDDMAASDSGIDAKGDDTPVVKFVNKVLVDAIRKGASDIHFEPYEDDYRVRLRIDGLLKMVARAPVKLN
QRIAARLKVMAQLDIAEKRVPQDGRIKLNLSKTKQIDFRVSTLPTLFGEKVVLRILDGSAAKLGIDKLGYEADQQKLFLD
AIHKPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNNKRGMTFAAALRSFLRQDPDIIM
VGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNNCKRRTDLPAHAL
LAEGFTQAQLDAGIELYEAVGCDECTEGYKGRTGLYQVMPMTDEISTIILAGGNALQIADAAQAIGVNDLRQSALIKAGK
GVTSLAEINRVTKD

Nucleotide


Download         Length: 1725 bp        

>NTDB_id=481331 ICJ04_RS04570 WP_188326367.1 1095069..1096793(+) (pilB) [Stenotrophomonas sp. 169]
ATGAACGCAGTTGCCACCGCTAACCTCGTCGGTATCACCGGCATCGCGCGCCGTCTGGTGCAGGACGGTGCGTTGGATGA
AGCCGGCGCCCGCGATGCGATGGCCAAGGCGACCGCTGCGCGGTTGCCGCTGCCGCAATGGTTCGCCCAGAACAAGGTCG
TCACCGCCTCGCAGCTCGCCGCGGCCAACGCGCTCGAGTTCGGCATGCCGCTGTTCGATGTCAGCGTGTTCGACGCCAAT
CAGAGCGCGATCAGCCTGGTCAGCGAGGAACTGCTGCGCAAGCATCACGTGTTGCCGCTGTTCAAGCGGGGCGGCAAGCT
GTACGTGGGCACCAGCAACCCCACCCATTCGCTGGACGAGATCAAGTTCCACACCAACCTGGTGGTGGAGTCGATCCTGG
TCGATGACGACCAGATCCGCCGGGCGCTGGAGCAGTGGCAGACCAGCCACGATTCGATGACCTCGTCCATGGGCGACGAC
GACGAGGGCATGGCGAACCTCGAGATCGGCACCGACGACGACATGGCGGCCAGCGACTCGGGCATCGACGCCAAGGGTGA
TGACACCCCGGTAGTGAAGTTCGTCAACAAGGTGCTGGTGGATGCAATCCGCAAGGGCGCGTCGGATATCCATTTCGAGC
CCTACGAAGATGACTATCGCGTGCGCCTGCGCATCGATGGCCTGCTGAAGATGGTGGCGCGTGCGCCGGTCAAGTTGAAC
CAGCGCATCGCGGCGCGCCTGAAAGTCATGGCGCAGCTGGATATCGCCGAAAAGCGCGTGCCGCAGGATGGGCGCATCAA
GCTCAACCTGAGCAAGACCAAGCAGATCGACTTCCGCGTCAGCACCCTGCCCACGCTGTTCGGTGAAAAGGTGGTGCTGC
GTATCCTGGACGGCAGTGCGGCCAAGCTGGGCATCGACAAGCTGGGCTATGAGGCCGATCAGCAGAAACTGTTCCTGGAC
GCCATCCACAAGCCGTACGGCATGGTGCTGGTGACGGGACCGACCGGCTCGGGCAAGACCGTGTCGCTGTACACCGCGCT
GGGCATCCTGAATGATGAAACGCGCAATATCTCCACGGCCGAAGATCCGGTGGAAATCCGCCTGCCCGGCGTGAACCAGG
TGCAGCAGAACAACAAGCGCGGCATGACGTTTGCCGCCGCGCTGCGTTCGTTCCTGCGCCAGGATCCGGACATCATCATG
GTCGGCGAAATCCGCGACCTGGAAACGGCCGAGATTGCGATCAAGGCGGCGCAGACCGGTCACATGGTGCTGTCCACGCT
GCATACCAATGACGCGCCGCAGACCATCGCACGCCTGATGAACATGGGCATCGCGCCGTACAACATCACCAGTTCGGTCA
CGCTGGTGATCGCCCAGCGCCTGGCGCGTCGCCTGTGCAACAACTGCAAGCGCCGCACCGACCTGCCGGCGCATGCCTTG
CTGGCCGAGGGCTTTACCCAGGCCCAGCTGGATGCGGGCATCGAACTGTATGAAGCGGTCGGCTGTGATGAGTGCACGGA
AGGCTACAAGGGCCGTACCGGCCTGTATCAGGTGATGCCGATGACCGATGAGATCTCGACGATCATCCTGGCTGGCGGCA
ACGCGCTGCAGATTGCCGATGCCGCCCAGGCGATCGGCGTGAATGACCTGCGCCAGTCCGCGTTGATCAAGGCTGGCAAG
GGCGTGACCAGCCTGGCTGAGATCAACCGCGTGACCAAGGACTGA

Domains

Predicted by InterproScan.

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

(49-150)

Type II/IV secretion system protein (T2SSE)

(197-464)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A0A7H1AP68

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 baumannii D1279779

55.459

100

0.557
  pilB Acinetobacter baylyi ADP1

55.124

98.606

0.544
  pilB Legionella pneumophila strain ERS1305867

53.439

98.78

0.528
  pilF Neisseria gonorrhoeae MS11

48.94

98.606

0.483
  pilB Vibrio cholerae strain A1552

49.265

94.774

0.467
  pilB Vibrio parahaemolyticus RIMD 2210633

46.057

97.213

0.448
  pilB Vibrio campbellii strain DS40M4

44.658

99.477

0.444
  pilB/pilB1 Synechocystis sp. PCC 6803

35.256

100

0.383