Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   ABFU69_RS05300 Genome accession   NZ_CP155936
Coordinates   1241098..1242357 (-) Length   419 a.a.
NCBI ID   WP_012437601.1    Uniprot ID   -
Organism   Xanthomonas campestris pv. campestris strain Xcc-G     
Function   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 1196862..1255509 1241098..1242357 within 0


Gene organization within MGE regions


Location: 1196862..1255509
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ABFU69_RS05055 (ABFU69_05055) - 1198466..1198894 (+) 429 WP_145998822.1 hypothetical protein -
  ABFU69_RS05060 (ABFU69_05060) - 1199279..1200067 (-) 789 WP_145998823.1 hypothetical protein -
  ABFU69_RS05065 (ABFU69_05065) - 1200141..1201034 (-) 894 WP_145998824.1 hypothetical protein -
  ABFU69_RS05070 (ABFU69_05070) - 1201200..1201580 (-) 381 WP_172973787.1 hypothetical protein -
  ABFU69_RS05075 (ABFU69_05075) - 1201577..1201891 (-) 315 WP_100666315.1 hypothetical protein -
  ABFU69_RS05080 (ABFU69_05080) - 1201941..1202702 (-) 762 WP_100666316.1 hypothetical protein -
  ABFU69_RS05085 (ABFU69_05085) - 1202880..1203179 (+) 300 WP_230428394.1 helix-turn-helix domain-containing protein -
  ABFU69_RS05090 (ABFU69_05090) - 1203191..1203679 (+) 489 WP_230431642.1 ADP-dependent glucokinase/phosphofructokinase -
  ABFU69_RS05095 (ABFU69_05095) - 1203684..1204136 (-) 453 WP_145998825.1 hypothetical protein -
  ABFU69_RS05100 (ABFU69_05100) - 1204339..1205739 (-) 1401 WP_100666320.1 site-specific integrase -
  ABFU69_RS05105 (ABFU69_05105) - 1206349..1206864 (-) 516 WP_100666321.1 hypothetical protein -
  ABFU69_RS05110 (ABFU69_05110) - 1206953..1207438 (+) 486 WP_145998826.1 hypothetical protein -
  ABFU69_RS05115 (ABFU69_05115) - 1207571..1209055 (-) 1485 WP_100666322.1 hypothetical protein -
  ABFU69_RS05120 (ABFU69_05120) - 1209135..1210100 (-) 966 WP_322633703.1 hypothetical protein -
  ABFU69_RS05125 (ABFU69_05125) - 1210490..1210750 (+) 261 WP_145998828.1 hypothetical protein -
  ABFU69_RS05130 (ABFU69_05130) - 1210737..1211234 (-) 498 WP_152091502.1 hypothetical protein -
  ABFU69_RS05135 (ABFU69_05135) - 1211344..1211874 (-) 531 WP_152091503.1 hypothetical protein -
  ABFU69_RS05140 (ABFU69_05140) - 1211909..1212721 (-) 813 WP_152091504.1 AbiJ-NTD4 domain-containing protein -
  ABFU69_RS05145 (ABFU69_05145) - 1212718..1213026 (-) 309 WP_152091505.1 hypothetical protein -
  ABFU69_RS05150 (ABFU69_05150) - 1213237..1213716 (+) 480 WP_152091506.1 RadC family protein -
  ABFU69_RS05155 (ABFU69_05155) - 1213785..1213961 (+) 177 WP_172973789.1 hypothetical protein -
  ABFU69_RS05160 (ABFU69_05160) - 1214181..1214822 (+) 642 WP_152091507.1 DUF1629 domain-containing protein -
  ABFU69_RS05165 (ABFU69_05165) - 1214858..1217443 (+) 2586 WP_218065346.1 XVIPCD domain-containing protein -
  ABFU69_RS05170 (ABFU69_05170) - 1217846..1218484 (-) 639 WP_232053528.1 hypothetical protein -
  ABFU69_RS05175 (ABFU69_05175) - 1218768..1219253 (-) 486 WP_152091557.1 hypothetical protein -
  ABFU69_RS05180 (ABFU69_05180) - 1219351..1219890 (+) 540 WP_322708843.1 hypothetical protein -
  ABFU69_RS05185 (ABFU69_05185) - 1219871..1220973 (+) 1103 Protein_1003 IS3-like element IS1404 family transposase -
  ABFU69_RS05190 (ABFU69_05190) - 1221310..1221468 (+) 159 WP_172973790.1 hypothetical protein -
  ABFU69_RS05195 (ABFU69_05195) - 1221585..1222340 (-) 756 WP_274503104.1 hypothetical protein -
  ABFU69_RS05200 (ABFU69_05200) - 1222330..1222806 (-) 477 WP_152091510.1 hypothetical protein -
  ABFU69_RS05205 (ABFU69_05205) - 1222967..1224901 (-) 1935 WP_197737888.1 AAA family ATPase -
  ABFU69_RS05210 (ABFU69_05210) - 1225476..1225775 (-) 300 WP_100666201.1 conjugal transfer protein TraD -
  ABFU69_RS05215 (ABFU69_05215) - 1226042..1227637 (+) 1596 WP_100666199.1 MobA/MobL family protein -
  ABFU69_RS05220 (ABFU69_05220) - 1227690..1228031 (-) 342 WP_100666197.1 hypothetical protein -
  ABFU69_RS05225 (ABFU69_05225) - 1228725..1229153 (+) 429 WP_012437589.1 hypothetical protein -
  ABFU69_RS05230 (ABFU69_05230) - 1229396..1229626 (-) 231 WP_157382680.1 hypothetical protein -
  ABFU69_RS05235 (ABFU69_05235) - 1229690..1229836 (+) 147 WP_040940792.1 hypothetical protein -
  ABFU69_RS05240 (ABFU69_05240) - 1230021..1230416 (+) 396 WP_016945003.1 hypothetical protein -
  ABFU69_RS05245 (ABFU69_05245) - 1230507..1230899 (+) 393 WP_012437593.1 H-NS family nucleoid-associated regulatory protein -
  ABFU69_RS05250 (ABFU69_05250) glgX 1231433..1233562 (-) 2130 WP_016945001.1 glycogen debranching protein GlgX -
  ABFU69_RS05255 (ABFU69_05255) rimK 1234056..1234931 (+) 876 WP_016945000.1 30S ribosomal protein S6--L-glutamate ligase -
  ABFU69_RS05260 (ABFU69_05260) - 1235154..1235627 (+) 474 WP_012437597.1 hypothetical protein -
  ABFU69_RS05265 (ABFU69_05265) - 1235658..1236335 (+) 678 WP_003490678.1 response regulator transcription factor -
  ABFU69_RS05270 (ABFU69_05270) - 1236328..1237662 (+) 1335 WP_407472013.1 sensor histidine kinase -
  ABFU69_RS05275 (ABFU69_05275) - 1237805..1238296 (-) 492 WP_011038220.1 GNAT family N-acetyltransferase -
  ABFU69_RS05280 (ABFU69_05280) - 1238293..1238583 (-) 291 WP_011038219.1 DUF1778 domain-containing protein -
  ABFU69_RS05285 (ABFU69_05285) - 1238658..1239059 (-) 402 WP_012437599.1 SymE family type I addiction module toxin -
  ABFU69_RS05290 (ABFU69_05290) coaE 1239591..1240214 (-) 624 WP_011038217.1 dephospho-CoA kinase -
  ABFU69_RS05295 (ABFU69_05295) - 1240228..1241091 (-) 864 WP_012437600.1 A24 family peptidase -
  ABFU69_RS05300 (ABFU69_05300) pilC 1241098..1242357 (-) 1260 WP_012437601.1 type II secretion system F family protein Machinery gene
  ABFU69_RS05305 (ABFU69_05305) comP 1242709..1243122 (+) 414 WP_012437602.1 pilin Machinery gene
  ABFU69_RS05310 (ABFU69_05310) - 1243341..1244852 (+) 1512 WP_256729490.1 phosphoethanolamine transferase -
  ABFU69_RS05315 (ABFU69_05315) - 1244863..1245492 (+) 630 WP_012437604.1 hypothetical protein -
  ABFU69_RS05320 (ABFU69_05320) - 1245462..1246988 (+) 1527 WP_016944997.1 membrane protein -
  ABFU69_RS05325 (ABFU69_05325) pilB 1247023..1248756 (+) 1734 WP_012437606.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ABFU69_RS05330 (ABFU69_05330) pilR 1249173..1250567 (-) 1395 WP_012437607.1 sigma-54 dependent transcriptional regulator Regulator
  ABFU69_RS05335 (ABFU69_05335) - 1250776..1252386 (-) 1611 WP_012437608.1 PAS domain-containing sensor histidine kinase -
  ABFU69_RS05340 (ABFU69_05340) sucC 1252620..1253789 (+) 1170 WP_012437609.1 ADP-forming succinate--CoA ligase subunit beta -
  ABFU69_RS05345 (ABFU69_05345) sucD 1253814..1254689 (+) 876 WP_011038208.1 succinate--CoA ligase subunit alpha -
  ABFU69_RS05350 (ABFU69_05350) - 1254793..1255203 (+) 411 WP_029217117.1 CopG family ribbon-helix-helix protein -
  ABFU69_RS05355 (ABFU69_05355) - 1255207..1255509 (+) 303 WP_011038207.1 type II toxin-antitoxin system RelE/ParE family toxin -

Sequence

Protein


Download         Length: 419 a.a.        Molecular weight: 45885.30 Da        Isoelectric Point: 10.1819

>NTDB_id=999911 ABFU69_RS05300 WP_012437601.1 1241098..1242357(-) (pilC) [Xanthomonas campestris pv. campestris strain Xcc-G]
MSVARSAIKKQPVDRNTSMLQTFIWEGADKRGVKMKGEQTARNANMLRAELRRQGIVPSVVKQKPKPLFGAAGKKITPKD
IAFFSRQMATMMKSGVPIVSSLEIIGEGHKNPRMKKMVGQIRTDIEGGSSLYESISAHPVQFDELYRNLVRAGEGAGVLE
TVLDTVASYKENIEALKGKIKKAMFYPAMVVAVAIIVSAILLIFVVPQFEEVFKGFGAELPAFTQLLVNASRFMVSYWWL
MLVVAVGSVVGFIFAYKRSPRMQHGLDRLILKVPVIGQIMHNSAIARFARTTAVTFKAGVPLVEALGIVAGATGNKLYEE
AVFRMRDDVSVGYPVNMAMKQVNLFPHMVIQMTAIGEEAGALDAMLFKVAEYFEEEVNNAVDALSSLLEPLIMVFIGTIV
GGMVIGMYLPIFKLGAVVG

Nucleotide


Download         Length: 1260 bp        

>NTDB_id=999911 ABFU69_RS05300 WP_012437601.1 1241098..1242357(-) (pilC) [Xanthomonas campestris pv. campestris strain Xcc-G]
ATGTCAGTCGCGCGCAGCGCCATCAAGAAGCAACCAGTAGACCGGAACACCAGCATGCTGCAGACCTTCATCTGGGAAGG
GGCTGACAAGCGTGGTGTGAAGATGAAGGGAGAGCAGACAGCCCGTAACGCCAATATGTTGCGAGCAGAGCTGCGCCGTC
AGGGCATTGTGCCCAGCGTGGTGAAGCAAAAGCCGAAGCCTCTGTTCGGAGCGGCGGGGAAGAAAATCACCCCCAAAGAC
ATTGCGTTCTTTAGCCGTCAGATGGCGACGATGATGAAGTCGGGCGTGCCCATCGTCAGTTCTTTGGAGATCATTGGCGA
GGGACACAAGAACCCACGCATGAAAAAAATGGTCGGCCAGATCAGGACAGACATCGAGGGGGGATCCTCGCTCTACGAGT
CCATCAGCGCACATCCCGTTCAGTTTGACGAGCTCTACCGCAACCTTGTCCGCGCGGGCGAAGGCGCTGGCGTACTGGAG
ACAGTCCTCGACACGGTCGCTTCCTACAAAGAGAACATTGAAGCCCTAAAGGGCAAGATCAAAAAGGCAATGTTCTACCC
TGCCATGGTGGTTGCGGTGGCAATCATCGTGAGTGCGATTTTGCTCATCTTCGTGGTGCCTCAGTTCGAAGAGGTCTTCA
AGGGTTTCGGTGCCGAACTACCGGCATTCACTCAGCTCCTCGTCAACGCATCGCGCTTCATGGTCAGCTATTGGTGGTTG
ATGCTGGTAGTAGCGGTTGGATCTGTCGTTGGCTTCATCTTTGCCTACAAACGTTCTCCACGGATGCAGCATGGACTTGA
TCGATTGATCCTCAAGGTGCCCGTAATCGGGCAGATCATGCACAACAGTGCGATTGCACGCTTTGCACGGACAACTGCAG
TGACATTCAAGGCAGGCGTTCCTCTAGTGGAGGCACTTGGGATCGTAGCTGGCGCTACTGGCAATAAGCTTTATGAGGAG
GCTGTTTTCAGGATGCGGGACGATGTGTCTGTAGGTTACCCGGTCAACATGGCGATGAAACAGGTGAACCTATTTCCACA
TATGGTTATTCAAATGACTGCGATTGGCGAAGAAGCCGGCGCGCTTGATGCAATGCTCTTCAAAGTGGCTGAATACTTTG
AGGAAGAGGTCAATAATGCCGTGGACGCACTCAGCAGCCTGCTTGAACCACTGATCATGGTGTTCATTGGCACCATCGTC
GGCGGCATGGTCATCGGCATGTATCTTCCGATCTTCAAACTCGGCGCAGTGGTTGGATAA

Domains

Predicted by InterproScan.

Type II secretion system (T2SS), protein F (T2SSF)

(288-410)

Type II secretion system (T2SS), protein F (T2SSF)

(84-207)


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
  pilC Legionella pneumophila strain ERS1305867

53.202

96.897

0.516
  pilC Pseudomonas stutzeri DSM 10701

53.535

94.511

0.506
  pilC Acinetobacter baylyi ADP1

50.617

96.659

0.489
  pilC Acinetobacter baumannii D1279779

50.37

96.659

0.487
  pilG Neisseria gonorrhoeae MS11

44.03

95.943

0.422
  pilG Neisseria meningitidis 44/76-A

43.424

96.181

0.418
  pilC Vibrio cholerae strain A1552

40.25

95.465

0.384
  pilC Vibrio campbellii strain DS40M4

38.75

95.465

0.37
  pilC Thermus thermophilus HB27

37.94

94.988

0.36

Multiple sequence alignment