Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   ABFU58_RS05045 Genome accession   NZ_CP155980
Coordinates   1213658..1215394 (+) Length   578 a.a.
NCBI ID   WP_040940802.1    Uniprot ID   -
Organism   Xanthomonas campestris pv. raphani strain CFBP 6579     
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 1191815..1216379 1213658..1215394 within 0


Gene organization within MGE regions


Location: 1191815..1216379
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ABFU58_RS04935 (ABFU58_04930) - 1191932..1192078 (+) 147 WP_407466077.1 hypothetical protein -
  ABFU58_RS04940 (ABFU58_04935) - 1192263..1192658 (+) 396 WP_011038225.1 hypothetical protein -
  ABFU58_RS04945 (ABFU58_04940) - 1192749..1193141 (+) 393 WP_407466078.1 H-NS family nucleoid-associated regulatory protein -
  ABFU58_RS04950 (ABFU58_04945) glgX 1193677..1195806 (-) 2130 WP_407466079.1 glycogen debranching protein GlgX -
  ABFU58_RS04955 (ABFU58_04950) rimK 1196299..1197174 (+) 876 WP_407466081.1 30S ribosomal protein S6--L-glutamate ligase -
  ABFU58_RS04960 (ABFU58_04955) - 1197824..1198501 (+) 678 WP_003490678.1 response regulator transcription factor -
  ABFU58_RS04965 (ABFU58_04960) - 1198494..1199828 (+) 1335 WP_019237347.1 HAMP domain-containing sensor histidine kinase -
  ABFU58_RS04970 (ABFU58_04965) - 1199971..1200462 (-) 492 WP_407466082.1 GNAT family N-acetyltransferase -
  ABFU58_RS04975 (ABFU58_04970) - 1200459..1200749 (-) 291 WP_014508712.1 DUF1778 domain-containing protein -
  ABFU58_RS04980 (ABFU58_04975) - 1200824..1201225 (-) 402 Protein_966 SymE family type I addiction module toxin -
  ABFU58_RS04985 (ABFU58_04980) coaE 1201757..1202380 (-) 624 WP_115540885.1 dephospho-CoA kinase -
  ABFU58_RS04990 (ABFU58_04985) - 1202394..1203257 (-) 864 WP_011038216.1 A24 family peptidase -
  ABFU58_RS04995 (ABFU58_04990) pilC 1203264..1204526 (-) 1263 WP_104570928.1 type II secretion system F family protein Machinery gene
  ABFU58_RS05000 (ABFU58_04995) pilA/pilAI 1204877..1205275 (+) 399 WP_104570927.1 pilin Machinery gene
  ABFU58_RS05005 (ABFU58_05000) - 1205376..1205798 (+) 423 WP_104570926.1 pilin -
  ABFU58_RS05010 (ABFU58_05005) - 1205857..1207677 (+) 1821 WP_147308815.1 hypothetical protein -
  ABFU58_RS05015 (ABFU58_05010) - 1207801..1208559 (+) 759 WP_323534158.1 class I SAM-dependent methyltransferase -
  ABFU58_RS05020 (ABFU58_05015) - 1209056..1209742 (+) 687 WP_258872788.1 glycosyltransferase family 9 protein -
  ABFU58_RS05025 (ABFU58_05020) - 1209745..1210587 (-) 843 WP_147308817.1 glycosyltransferase -
  ABFU58_RS05030 (ABFU58_05025) - 1210581..1211753 (-) 1173 WP_181920810.1 glycosyltransferase -
  ABFU58_RS05035 (ABFU58_05030) - 1211738..1212601 (-) 864 WP_116921534.1 glycosyltransferase -
  ABFU58_RS05040 (ABFU58_05035) - 1212651..1213502 (-) 852 WP_108133901.1 glycosyltransferase family 2 protein -
  ABFU58_RS05045 (ABFU58_05040) pilB 1213658..1215394 (+) 1737 WP_040940802.1 type IV-A pilus assembly ATPase PilB Machinery gene

Sequence

Protein


Download         Length: 578 a.a.        Molecular weight: 62780.99 Da        Isoelectric Point: 5.6058

>NTDB_id=1000650 ABFU58_RS05045 WP_040940802.1 1213658..1215394(+) (pilB) [Xanthomonas campestris pv. raphani strain CFBP 6579]
MNAVISANLVGITGIARRLVQDGALDETAARTAMEQAASARVPLPQWFAERKLVTASQLAAANAVEFGMPLMDVSVFDAS
QNAVKLVSEELLQKYQVLPLFKRGNRLFVGVSNPTQTRALDDIKFHTNLVVEPILVDEDQIRRTLEQWQASNAALGSSMG
DDDEGMGDLDVSTGDEDMGAGGDSGVDAKGDDTPVVKFVNKVLVDAIRRGASDIHFEPYEDDYRVRLRIDGLLKNVAKAP
VKLSQRIAARLKVMSQLDIAEKRVPQDGRIKLNLSKTKQIDFRVSTLPTLFGEKVVLRILDASAAKLGIEKLGYEADQQK
LFLDAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNVKRGMTFAAALRSFLRQDP
DIIMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNNCKRKAPLP
EHALLAEGFTAEQIAAGIELYEAVGCDECTEGYKGRTGIYQVMPMTDEIGAIVLEGGNAMQIAEAAQRIGIRDLRQSALV
KAAHGVTSLAEINRVTKD

Nucleotide


Download         Length: 1737 bp        

>NTDB_id=1000650 ABFU58_RS05045 WP_040940802.1 1213658..1215394(+) (pilB) [Xanthomonas campestris pv. raphani strain CFBP 6579]
ATGAACGCAGTGATCTCAGCCAATCTCGTTGGCATAACCGGCATAGCTCGTCGGCTGGTTCAAGACGGCGCACTTGATGA
AACGGCGGCCCGTACCGCCATGGAGCAAGCTGCTTCAGCCAGGGTTCCTCTGCCCCAGTGGTTTGCGGAGAGAAAGTTAG
TGACTGCATCCCAGCTTGCCGCCGCAAACGCGGTTGAGTTTGGCATGCCTCTGATGGACGTTTCCGTGTTCGATGCCAGC
CAGAACGCGGTCAAGCTGGTCAGCGAGGAGTTGCTCCAGAAGTACCAGGTGCTACCGCTGTTCAAGCGCGGCAACCGGTT
GTTCGTGGGGGTGAGCAATCCGACCCAGACCAGGGCGCTGGACGACATCAAGTTCCATACCAATCTGGTGGTCGAGCCGA
TCCTGGTCGACGAGGATCAGATCCGTCGCACCTTGGAGCAGTGGCAGGCCAGCAATGCGGCGCTTGGCTCGTCGATGGGT
GACGACGACGAGGGGATGGGGGATCTGGACGTCTCCACCGGCGACGAGGACATGGGCGCCGGCGGGGATTCCGGGGTCGA
TGCCAAGGGCGACGACACGCCGGTGGTGAAGTTCGTCAACAAGGTGCTGGTGGATGCGATCCGGCGGGGAGCGTCCGACA
TCCATTTCGAGCCGTACGAAGACGACTACCGGGTGCGCTTGCGGATCGATGGCCTCCTGAAGAATGTGGCCAAGGCGCCG
GTGAAGTTGAGCCAGCGCATTGCGGCGCGCCTGAAGGTGATGTCGCAGCTGGACATCGCCGAGAAGCGGGTGCCGCAGGA
TGGGCGCATCAAGCTCAACCTGTCCAAGACCAAGCAGATCGACTTCCGTGTGAGCACCTTGCCGACCCTGTTCGGCGAGA
AGGTGGTGCTGCGTATCCTGGACGCGAGTGCGGCCAAGCTGGGCATCGAGAAGCTGGGCTATGAGGCGGATCAGCAAAAG
CTGTTCCTGGATGCGATCCACAAGCCTTACGGCATGGTGCTGGTGACCGGGCCAACCGGTTCGGGCAAGACGGTGTCGTT
GTATACGGCGCTGGGCATCCTCAACGATGAGACGCGCAACATCTCCACGGCCGAGGATCCGGTCGAAATCCGCTTGCCTG
GTGTCAATCAGGTGCAGCAAAACGTCAAGCGCGGCATGACGTTTGCTGCGGCGTTGCGCTCGTTCCTGCGCCAGGATCCG
GACATCATCATGGTCGGCGAAATCCGCGACCTGGAGACGGCCGAGATTGCGATCAAGGCGGCGCAGACCGGTCACATGGT
GTTGTCGACGCTGCATACCAACGATGCGCCACAGACCATCGCGCGTCTGATGAACATGGGCATTGCGCCGTACAACATCA
CTTCGTCGGTGACCTTGGTCATTGCGCAGCGTCTGGCGCGGCGTTTGTGCAACAACTGCAAGCGCAAGGCGCCGCTGCCG
GAGCATGCGTTGCTGGCCGAAGGGTTTACCGCAGAGCAGATCGCTGCCGGAATCGAACTGTACGAGGCGGTCGGCTGCGA
TGAGTGCACCGAAGGCTACAAGGGGCGTACCGGTATCTACCAGGTGATGCCGATGACCGACGAGATCGGCGCGATCGTAC
TGGAAGGCGGCAACGCGATGCAGATCGCCGAGGCGGCGCAGAGGATCGGCATCCGCGATTTGCGGCAGTCGGCGCTGGTG
AAGGCGGCGCATGGGGTGACGAGCCTGGCGGAGATCAATCGGGTGACGAAGGACTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(201-468)

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

(50-153)


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 Acinetobacter baumannii D1279779

55.81

98.27

0.548
  pilB Acinetobacter baylyi ADP1

55.106

98.27

0.542
  pilB Legionella pneumophila strain ERS1305867

52.021

98.443

0.512
  pilB Vibrio cholerae strain A1552

49.043

99.481

0.488
  pilF Neisseria gonorrhoeae MS11

47.887

98.27

0.471
  pilB Vibrio campbellii strain DS40M4

45.694

98.443

0.45
  pilB Vibrio parahaemolyticus RIMD 2210633

45.745

97.578

0.446
  pilB/pilB1 Synechocystis sp. PCC 6803

35.61

100

0.379
  pilF Thermus thermophilus HB27

40.499

90.138

0.365

Multiple sequence alignment