Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   ABFU77_RS05060 Genome accession   NZ_CP155972
Coordinates   1222370..1224106 (+) Length   578 a.a.
NCBI ID   WP_040940802.1    Uniprot ID   -
Organism   Xanthomonas campestris pv. raphani strain bglFP 6790     
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 1200573..1231827 1222370..1224106 within 0


Gene organization within MGE regions


Location: 1200573..1231827
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ABFU77_RS04945 (ABFU77_04930) - 1200573..1200719 (+) 147 WP_116889157.1 hypothetical protein -
  ABFU77_RS04950 (ABFU77_04935) - 1200904..1201299 (+) 396 WP_011038225.1 hypothetical protein -
  ABFU77_RS04955 (ABFU77_04940) - 1201390..1201782 (+) 393 WP_323542775.1 H-NS family nucleoid-associated regulatory protein -
  ABFU77_RS04960 (ABFU77_04945) glgX 1202311..1204440 (-) 2130 WP_228943906.1 glycogen debranching protein GlgX -
  ABFU77_RS04965 (ABFU77_04950) rimK 1204934..1205809 (+) 876 WP_076054142.1 30S ribosomal protein S6--L-glutamate ligase -
  ABFU77_RS04970 (ABFU77_04955) - 1206032..1206505 (+) 474 WP_012437597.1 hypothetical protein -
  ABFU77_RS04975 (ABFU77_04960) - 1206536..1207213 (+) 678 WP_003490678.1 response regulator transcription factor -
  ABFU77_RS04980 (ABFU77_04965) - 1207206..1208540 (+) 1335 WP_012437598.1 HAMP domain-containing sensor histidine kinase -
  ABFU77_RS04985 (ABFU77_04970) - 1208683..1209174 (-) 492 WP_323534157.1 GNAT family N-acetyltransferase -
  ABFU77_RS04990 (ABFU77_04975) - 1209171..1209461 (-) 291 WP_014508712.1 DUF1778 domain-containing protein -
  ABFU77_RS04995 (ABFU77_04980) - 1209536..1209937 (-) 402 WP_181921862.1 SymE family type I addiction module toxin -
  ABFU77_RS05000 (ABFU77_04985) coaE 1210469..1211092 (-) 624 WP_116901791.1 dephospho-CoA kinase -
  ABFU77_RS05005 (ABFU77_04990) - 1211106..1211969 (-) 864 WP_011038216.1 A24 family peptidase -
  ABFU77_RS05010 (ABFU77_04995) pilC 1211976..1213238 (-) 1263 WP_104570928.1 type II secretion system F family protein Machinery gene
  ABFU77_RS05015 (ABFU77_05000) pilA/pilAI 1213589..1213987 (+) 399 WP_104570927.1 pilin Machinery gene
  ABFU77_RS05020 (ABFU77_05005) - 1214088..1214510 (+) 423 WP_104570926.1 pilin -
  ABFU77_RS05025 (ABFU77_05010) - 1214569..1216389 (+) 1821 WP_147308815.1 hypothetical protein -
  ABFU77_RS05030 (ABFU77_05015) - 1216513..1217271 (+) 759 WP_323534158.1 class I SAM-dependent methyltransferase -
  ABFU77_RS05035 (ABFU77_05020) - 1217768..1218454 (+) 687 WP_258872788.1 glycosyltransferase family 9 protein -
  ABFU77_RS05040 (ABFU77_05025) - 1218457..1219299 (-) 843 WP_147308817.1 glycosyltransferase -
  ABFU77_RS05045 (ABFU77_05030) - 1219293..1220465 (-) 1173 WP_181920810.1 glycosyltransferase -
  ABFU77_RS05050 (ABFU77_05035) - 1220450..1221313 (-) 864 WP_116921534.1 glycosyltransferase -
  ABFU77_RS05055 (ABFU77_05040) - 1221363..1222214 (-) 852 WP_108133901.1 glycosyltransferase family 2 protein -
  ABFU77_RS05060 (ABFU77_05045) pilB 1222370..1224106 (+) 1737 WP_040940802.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ABFU77_RS05065 (ABFU77_05050) pilR 1225491..1226885 (-) 1395 WP_012437607.1 sigma-54 dependent transcriptional regulator Regulator
  ABFU77_RS05070 (ABFU77_05055) - 1227094..1228704 (-) 1611 WP_323534159.1 HAMP domain-containing sensor histidine kinase -
  ABFU77_RS05075 (ABFU77_05060) sucC 1228938..1230107 (+) 1170 WP_011038209.1 ADP-forming succinate--CoA ligase subunit beta -
  ABFU77_RS05080 (ABFU77_05065) sucD 1230132..1231007 (+) 876 WP_011038208.1 succinate--CoA ligase subunit alpha -
  ABFU77_RS05085 (ABFU77_05070) - 1231144..1231521 (+) 378 WP_323534162.1 DNA-binding protein -
  ABFU77_RS05090 (ABFU77_05075) - 1231525..1231827 (+) 303 WP_011038207.1 type II toxin-antitoxin system RelE/ParE family toxin -

Sequence

Protein


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

>NTDB_id=1000513 ABFU77_RS05060 WP_040940802.1 1222370..1224106(+) (pilB) [Xanthomonas campestris pv. raphani strain bglFP 6790]
MNAVISANLVGITGIARRLVQDGALDETAARTAMEQAASARVPLPQWFAERKLVTASQLAAANAVEFGMPLMDVSVFDAS
QNAVKLVSEELLQKYQVLPLFKRGNRLFVGVSNPTQTRALDDIKFHTNLVVEPILVDEDQIRRTLEQWQASNAALGSSMG
DDDEGMGDLDVSTGDEDMGAGGDSGVDAKGDDTPVVKFVNKVLVDAIRRGASDIHFEPYEDDYRVRLRIDGLLKNVAKAP
VKLSQRIAARLKVMSQLDIAEKRVPQDGRIKLNLSKTKQIDFRVSTLPTLFGEKVVLRILDASAAKLGIEKLGYEADQQK
LFLDAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNVKRGMTFAAALRSFLRQDP
DIIMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNNCKRKAPLP
EHALLAEGFTAEQIAAGIELYEAVGCDECTEGYKGRTGIYQVMPMTDEIGAIVLEGGNAMQIAEAAQRIGIRDLRQSALV
KAAHGVTSLAEINRVTKD

Nucleotide


Download         Length: 1737 bp        

>NTDB_id=1000513 ABFU77_RS05060 WP_040940802.1 1222370..1224106(+) (pilB) [Xanthomonas campestris pv. raphani strain bglFP 6790]
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