Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   H8Z71_RS05235 Genome accession   NZ_CP060465
Coordinates   1224940..1226676 (+) Length   578 a.a.
NCBI ID   WP_011052125.1    Uniprot ID   A0AAI7ZH88
Organism   Xanthomonas citri pv. citri strain DAR73886     
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 1227518..1249155 1224940..1226676 flank 842


Gene organization within MGE regions


Location: 1224940..1249155
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  H8Z71_RS05235 (H8Z71_05235) pilB 1224940..1226676 (+) 1737 WP_011052125.1 type IV-A pilus assembly ATPase PilB Machinery gene
  H8Z71_RS05240 (H8Z71_05240) pilB 1227170..1227289 (+) 120 WP_005915819.1 hypothetical protein Machinery gene
  H8Z71_RS05245 (H8Z71_05245) - 1227421..1227588 (+) 168 WP_015463523.1 hypothetical protein -
  H8Z71_RS05250 (H8Z71_05250) pilR 1227811..1229205 (-) 1395 WP_005930970.1 sigma-54 dependent transcriptional regulator Regulator
  H8Z71_RS05255 (H8Z71_05255) - 1229530..1231143 (-) 1614 WP_003488599.1 HAMP domain-containing sensor histidine kinase -
  H8Z71_RS05260 (H8Z71_05260) sucC 1231375..1232544 (+) 1170 WP_005915812.1 ADP-forming succinate--CoA ligase subunit beta -
  H8Z71_RS05265 (H8Z71_05265) sucD 1232569..1233444 (+) 876 WP_005921370.1 succinate--CoA ligase subunit alpha -
  H8Z71_RS23320 - 1233531..1234046 (+) 516 WP_011052123.1 hypothetical protein -
  H8Z71_RS05275 (H8Z71_05275) - 1234001..1235116 (-) 1116 WP_011052122.1 IS1595 family transposase -
  H8Z71_RS05280 (H8Z71_05280) - 1235344..1235628 (-) 285 WP_016849322.1 hypothetical protein -
  H8Z71_RS05285 (H8Z71_05285) - 1235733..1236539 (+) 807 WP_015463520.1 hypothetical protein -
  H8Z71_RS05290 (H8Z71_05290) xopAI 1236959..1237849 (-) 891 WP_076605129.1 type III secretion system effector XopAI -
  H8Z71_RS05295 (H8Z71_05295) - 1237983..1239085 (-) 1103 Protein_1041 DNA-binding protein -
  H8Z71_RS05300 (H8Z71_05300) xopE 1239416..1240492 (-) 1077 WP_041471283.1 XopE/AvrPphe family type III secretion system effector -
  H8Z71_RS05305 (H8Z71_05305) - 1240626..1241709 (-) 1084 Protein_1043 DNA-binding protein -
  H8Z71_RS05310 (H8Z71_05310) - 1241902..1243175 (+) 1274 Protein_1044 site-specific integrase -
  H8Z71_RS05315 (H8Z71_05315) - 1243184..1246174 (+) 2991 WP_015472512.1 Tn3 family transposase -
  H8Z71_RS05320 (H8Z71_05320) - 1246307..1247584 (+) 1278 WP_005919631.1 lytic murein transglycosylase -
  H8Z71_RS05325 (H8Z71_05325) avrXacE2 1247669..1248739 (+) 1071 WP_011052114.1 type III secretion system effector avirulence protein AvrXacE2 -

Sequence

Protein


Download         Length: 578 a.a.        Molecular weight: 62517.63 Da        Isoelectric Point: 5.4526

>NTDB_id=476263 H8Z71_RS05235 WP_011052125.1 1224940..1226676(+) (pilB) [Xanthomonas citri pv. citri strain DAR73886]
MNSVVTANLVGITGIARRLVQDGAVEEAVARSAMDQASAAKVPLPQWFAEKKLVTASQLAAANAVEFGMPLLDVSAFDAS
QNAVKLVSEELLQKHQVLPLFKRGNRLFVGVSNPTQTRALDDIKFHTNLVVEPILVDEDQIRRTLEQWQASNAALGSALG
DDEEGMGDLDVSAGDEDMGAGGDSGVDAKGDDTPVVKFVNKVLVDAIRRGASDIHFEPYEDDYRVRLRIDGLLKNVAKAP
VKLNQRIAARLKVMSQLDIAEKRVPQDGRIKLNLSKTKQIDFRVSTLPTLFGEKVVLRILDGSAAKLGIDKLGYEPDQQK
LFLEAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNNKRGMTFAAALRSFLRQDP
DIIMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNNCKRKSTLP
DNALLAEGFTPAQLAAGIELYEAVGCDECTEGYKGRTGIYQVMPMTDEIGAIVLEGGNAMQIAEAAQAIGIRDLRQSALM
KAANGVTSLAEINRVTKD

Nucleotide


Download         Length: 1737 bp        

>NTDB_id=476263 H8Z71_RS05235 WP_011052125.1 1224940..1226676(+) (pilB) [Xanthomonas citri pv. citri strain DAR73886]
ATGAATAGCGTCGTGACCGCAAATTTGGTTGGAATAACGGGCATCGCGCGTCGTCTGGTGCAAGACGGTGCGGTCGAAGA
AGCAGTTGCGCGATCTGCGATGGATCAGGCATCTGCGGCAAAGGTTCCTCTGCCGCAATGGTTTGCTGAGAAGAAGTTGG
TCACTGCTTCCCAGCTCGCCGCTGCGAATGCGGTCGAGTTCGGCATGCCACTGTTGGACGTGTCGGCGTTCGACGCCAGC
CAAAACGCGGTCAAGCTGGTAAGTGAGGAGCTACTTCAGAAGCACCAAGTGCTACCGCTGTTCAAGCGCGGCAACCGGCT
GTTCGTAGGGGTGAGCAATCCGACCCAGACCCGGGCGCTGGATGACATCAAGTTTCATACGAACTTGGTAGTCGAGCCCA
TCCTTGTGGATGAAGATCAGATCCGTCGCACCCTGGAGCAATGGCAGGCCAGCAATGCTGCGCTGGGCTCCGCGCTCGGT
GACGACGAGGAGGGCATGGGGGATCTGGACGTCTCGGCCGGCGACGAGGACATGGGCGCCGGCGGGGATTCCGGGGTTGA
TGCCAAGGGCGACGACACGCCGGTGGTGAAGTTCGTCAACAAGGTGCTGGTGGATGCGATCAGGCGGGGAGCCTCGGACA
TCCATTTCGAGCCGTATGAAGACGACTACCGGGTGCGCTTGCGCATCGATGGCTTGTTGAAGAACGTGGCCAAGGCGCCG
GTGAAGCTGAACCAGCGCATCGCAGCGCGGTTGAAGGTGATGTCGCAGCTGGATATCGCCGAGAAGCGGGTGCCGCAGGA
CGGGCGCATCAAGCTCAACCTGTCCAAGACCAAGCAGATCGACTTCCGTGTCAGCACCTTGCCGACCCTGTTCGGCGAGA
AGGTGGTGCTGCGTATCCTGGACGGCAGCGCGGCCAAGCTGGGCATCGACAAGCTGGGCTACGAGCCGGACCAACAGAAG
CTGTTCCTGGAAGCGATCCACAAGCCCTATGGCATGGTGCTGGTGACCGGGCCGACCGGCTCGGGCAAGACGGTGTCGTT
GTACACCGCGCTGGGAATTCTCAACGACGAGACGCGCAATATCTCCACCGCGGAGGATCCGGTCGAAATCCGCTTGCCTG
GCGTCAATCAGGTGCAGCAGAACAACAAGCGTGGCATGACCTTCGCCGCGGCTTTGCGCTCGTTCCTGCGCCAGGATCCG
GACATCATCATGGTCGGCGAAATCCGTGACCTGGAGACGGCCGAGATTGCGATCAAGGCGGCGCAGACGGGTCACATGGT
GCTGTCGACGTTGCACACCAACGATGCGCCGCAGACCATCGCACGTCTGATGAACATGGGCATCGCGCCCTACAACATCA
CCTCGTCGGTGACGCTGGTGATCGCGCAGCGGCTGGCGCGGCGCTTGTGCAACAACTGCAAGCGCAAGTCGACGCTGCCT
GACAACGCATTGCTGGCCGAAGGATTCACGCCTGCCCAGCTTGCCGCCGGGATCGAGCTGTATGAGGCGGTCGGTTGCGA
TGAGTGCACCGAAGGCTACAAGGGGCGTACCGGTATCTACCAGGTAATGCCGATGACCGACGAGATCGGCGCGATCGTGC
TGGAAGGCGGCAATGCGATGCAGATCGCCGAGGCCGCGCAGGCGATCGGTATCCGCGATTTGCGGCAGTCGGCGCTGATG
AAGGCTGCGAATGGGGTGACCAGCCTGGCCGAGATCAATCGTGTGACGAAGGACTAA

Domains

Predicted by InterproScan.

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

(49-153)

Type II/IV secretion system protein (T2SSE)

(201-468)


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

56.514

98.27

0.555
  pilB Acinetobacter baylyi ADP1

55.81

98.27

0.548
  pilB Legionella pneumophila strain ERS1305867

52.021

98.443

0.512
  pilB Vibrio cholerae strain A1552

49.306

99.654

0.491
  pilF Neisseria gonorrhoeae MS11

49.12

98.27

0.483
  pilB Vibrio parahaemolyticus RIMD 2210633

46.964

96.886

0.455
  pilB Vibrio campbellii strain DS40M4

45.518

98.443

0.448