Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   ABFU66_RS05160 Genome accession   NZ_CP155955
Coordinates   1225791..1227053 (-) Length   420 a.a.
NCBI ID   WP_228442817.1    Uniprot ID   -
Organism   Xanthomonas campestris pv. raphani strain bglFP 6809     
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)
ICE 1204966..1267592 1225791..1227053 within 0


Gene organization within MGE regions


Location: 1204966..1267592
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ABFU66_RS05050 (ABFU66_05040) - 1205757..1207157 (-) 1401 WP_323539561.1 site-specific integrase -
  ABFU66_RS05055 (ABFU66_05045) - 1207733..1208179 (-) 447 WP_014508731.1 hypothetical protein -
  ABFU66_RS05060 (ABFU66_05050) - 1208373..1208597 (+) 225 WP_039405436.1 hypothetical protein -
  ABFU66_RS05065 (ABFU66_05055) - 1209000..1209479 (+) 480 WP_323539562.1 RadC family protein -
  ABFU66_RS05070 (ABFU66_05060) - 1209559..1210251 (+) 693 WP_235900988.1 hypothetical protein -
  ABFU66_RS05075 (ABFU66_05065) - 1210244..1210507 (+) 264 WP_407472523.1 hypothetical protein -
  ABFU66_RS05080 - 1210552..1211664 (+) 1113 WP_407472524.1 XVIPCD domain-containing protein -
  ABFU66_RS05085 (ABFU66_05075) - 1211704..1211958 (-) 255 WP_151210286.1 hypothetical protein -
  ABFU66_RS05090 (ABFU66_05080) - 1212226..1213820 (+) 1595 Protein_987 MobA/MobL family protein -
  ABFU66_RS05095 (ABFU66_05085) - 1213872..1214213 (-) 342 WP_078590293.1 hypothetical protein -
  ABFU66_RS05100 (ABFU66_05090) - 1214988..1215266 (+) 279 WP_323539563.1 hypothetical protein -
  ABFU66_RS05105 (ABFU66_05095) - 1215557..1215787 (-) 231 WP_181920809.1 hypothetical protein -
  ABFU66_RS05110 (ABFU66_05100) - 1215851..1215997 (+) 147 WP_076054137.1 hypothetical protein -
  ABFU66_RS05115 (ABFU66_05105) - 1216181..1216576 (+) 396 WP_042594933.1 hypothetical protein -
  ABFU66_RS05120 (ABFU66_05110) - 1216667..1217059 (+) 393 WP_011038224.1 H-NS family nucleoid-associated regulatory protein -
  ABFU66_RS05125 (ABFU66_05115) glgX 1217585..1219714 (-) 2130 WP_228442816.1 glycogen debranching protein GlgX -
  ABFU66_RS05130 (ABFU66_05120) rimK 1220207..1221082 (+) 876 WP_116921527.1 30S ribosomal protein S6--L-glutamate ligase -
  ABFU66_RS05135 (ABFU66_05125) - 1221732..1222409 (+) 678 WP_003490678.1 response regulator transcription factor -
  ABFU66_RS05140 (ABFU66_05130) - 1222402..1223736 (+) 1335 WP_012437598.1 HAMP domain-containing sensor histidine kinase -
  ABFU66_RS05145 (ABFU66_05135) - 1223835..1224090 (-) 256 Protein_998 SymE family type I addiction module toxin -
  ABFU66_RS05150 (ABFU66_05140) coaE 1224284..1224907 (-) 624 WP_225042504.1 dephospho-CoA kinase -
  ABFU66_RS05155 (ABFU66_05145) - 1224921..1225784 (-) 864 WP_040940797.1 A24 family peptidase -
  ABFU66_RS05160 (ABFU66_05150) pilC 1225791..1227053 (-) 1263 WP_228442817.1 type II secretion system F family protein Machinery gene
  ABFU66_RS05165 (ABFU66_05155) pilA/pilAI 1227404..1227811 (+) 408 WP_228442818.1 pilin Machinery gene
  ABFU66_RS05170 (ABFU66_05160) - 1227944..1228330 (+) 387 WP_373046337.1 pilin -
  ABFU66_RS05175 (ABFU66_05165) - 1228389..1230209 (+) 1821 WP_323539564.1 hypothetical protein -
  ABFU66_RS05180 (ABFU66_05170) - 1230318..1231076 (+) 759 WP_228442820.1 class I SAM-dependent methyltransferase -
  ABFU66_RS05185 (ABFU66_05175) - 1231222..1232259 (+) 1038 WP_323539565.1 glycosyltransferase family 9 protein -
  ABFU66_RS05190 (ABFU66_05180) - 1232262..1233104 (-) 843 WP_228442822.1 glycosyltransferase -
  ABFU66_RS05195 (ABFU66_05185) - 1233098..1234270 (-) 1173 WP_228442823.1 glycosyltransferase -
  ABFU66_RS05200 (ABFU66_05190) - 1234255..1235118 (-) 864 WP_228442824.1 glycosyltransferase -
  ABFU66_RS05205 (ABFU66_05195) - 1235168..1236019 (-) 852 WP_108133901.1 glycosyltransferase family 2 protein -
  ABFU66_RS05210 (ABFU66_05200) pilB 1236175..1237911 (+) 1737 WP_040940802.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ABFU66_RS05215 (ABFU66_05205) pilR 1239296..1240690 (-) 1395 WP_012437607.1 sigma-54 dependent transcriptional regulator Regulator
  ABFU66_RS05220 (ABFU66_05210) - 1240899..1242509 (-) 1611 WP_228442825.1 PAS domain-containing sensor histidine kinase -
  ABFU66_RS05225 (ABFU66_05215) sucC 1242743..1243912 (+) 1170 WP_323539566.1 ADP-forming succinate--CoA ligase subunit beta -
  ABFU66_RS05230 (ABFU66_05220) sucD 1243937..1244812 (+) 876 WP_011038208.1 succinate--CoA ligase subunit alpha -
  ABFU66_RS05235 (ABFU66_05225) - 1244949..1245326 (+) 378 WP_019237352.1 CopG family ribbon-helix-helix protein -
  ABFU66_RS05240 (ABFU66_05230) - 1245330..1245632 (+) 303 WP_011038207.1 type II toxin-antitoxin system RelE/ParE family toxin -
  ABFU66_RS05245 (ABFU66_05235) - 1245632..1247287 (+) 1656 WP_228442826.1 NAD+ synthase -
  ABFU66_RS05250 (ABFU66_05240) - 1247281..1248267 (-) 987 WP_228442827.1 hypothetical protein -
  ABFU66_RS05255 (ABFU66_05245) - 1248718..1249599 (-) 882 WP_011038204.1 outer membrane protein assembly factor BamD -
  ABFU66_RS05260 (ABFU66_05250) rluD 1249722..1250717 (+) 996 WP_228442828.1 23S rRNA pseudouridine(1911/1915/1917) synthase RluD -
  ABFU66_RS05265 (ABFU66_05255) pgeF 1250719..1251519 (+) 801 WP_228442829.1 peptidoglycan editing factor PgeF -
  ABFU66_RS05270 (ABFU66_05260) - 1251540..1252046 (+) 507 WP_228442830.1 DUF4166 domain-containing protein -
  ABFU66_RS05275 (ABFU66_05265) - 1252033..1252452 (+) 420 WP_228442831.1 thiol-disulfide oxidoreductase DCC family protein -
  ABFU66_RS05280 (ABFU66_05270) - 1253086..1254954 (-) 1869 WP_228442832.1 methyl-accepting chemotaxis protein -
  ABFU66_RS05285 (ABFU66_05275) - 1255482..1257917 (-) 2436 WP_172666251.1 glucose/quinate/shikimate family membrane-bound PQQ-dependent dehydrogenase -
  ABFU66_RS05290 (ABFU66_05280) otsA 1258873..1260240 (-) 1368 WP_014508687.1 alpha,alpha-trehalose-phosphate synthase (UDP-forming) -
  ABFU66_RS05295 (ABFU66_05285) - 1260237..1262015 (-) 1779 WP_011038196.1 glycoside hydrolase family 15 protein -
  ABFU66_RS05300 (ABFU66_05290) otsB 1262065..1262787 (-) 723 WP_407472525.1 trehalose-phosphatase -
  ABFU66_RS05305 (ABFU66_05295) - 1263680..1266115 (-) 2436 WP_228443299.1 TonB-dependent siderophore receptor -
  ABFU66_RS05310 (ABFU66_05300) - 1266320..1266793 (+) 474 WP_012437623.1 DUF3574 domain-containing protein -

Sequence

Protein


Download         Length: 420 a.a.        Molecular weight: 45810.26 Da        Isoelectric Point: 10.2311

>NTDB_id=1000213 ABFU66_RS05160 WP_228442817.1 1225791..1227053(-) (pilC) [Xanthomonas campestris pv. raphani strain bglFP 6809]
MSAVRSTIKNKPASISAEQLMSPFVWEGTDKRGVKMKGEQVARNANMLRAELRRQGITPSVVKAKPKPLFGAAGKKITPK
EIAFFSRQMATMMKSGVPIVGSLEIIGNGHKNPRMKQMVGQIRTDIEGGSSLHEAISKHPVQFDELYRNLIKAGEGAGVL
ETVLDTIASYKENLEALKGKIKKALFYPAMVVAVALLVSSILLIWVVPQFEDVFKGFGAELPAFTQLIVNASRFMVSYWW
LMLLVIVGSIVGFIFAYKRSLAMQHGMDRLVLKVPIIGQIMHNSSIARFARTTAVTFKAGVPLVEALGIVAGATGNSVYE
KAVLRMREDVSVGYPVNVSMKQVNLFPHMVIQMTAIGEEAGALDAMLFKVAEYYEQEVNNAVDALSSLIEPLIMVFIGTV
VGGMVIGMYLPIFKLASVVG

Nucleotide


Download         Length: 1263 bp        

>NTDB_id=1000213 ABFU66_RS05160 WP_228442817.1 1225791..1227053(-) (pilC) [Xanthomonas campestris pv. raphani strain bglFP 6809]
ATGTCGGCAGTCCGTAGCACCATCAAGAACAAACCGGCGAGCATTAGCGCCGAACAACTCATGAGCCCGTTTGTCTGGGA
GGGGACAGACAAGCGCGGCGTGAAGATGAAGGGCGAGCAGGTGGCCCGCAACGCCAACATGCTGCGGGCCGAACTCCGCC
GGCAAGGCATCACGCCCAGCGTCGTCAAGGCCAAGCCAAAGCCATTGTTCGGGGCGGCAGGCAAGAAGATCACGCCGAAG
GAAATTGCGTTCTTCAGCCGTCAGATGGCCACCATGATGAAGTCGGGCGTGCCGATTGTCGGGTCGCTGGAGATCATCGG
CAATGGTCACAAGAACCCGCGCATGAAGCAGATGGTGGGGCAGATCCGTACCGACATCGAAGGCGGATCTTCGCTGCACG
AAGCGATAAGCAAGCATCCAGTGCAGTTTGACGAGCTGTATCGCAACCTGATCAAGGCCGGCGAAGGCGCTGGTGTGCTG
GAAACCGTCCTGGATACTATCGCCTCATACAAAGAGAACCTGGAAGCCCTTAAGGGCAAAATCAAGAAGGCCCTGTTCTA
CCCTGCCATGGTCGTGGCAGTTGCCCTGCTGGTCAGCTCGATCCTGTTGATCTGGGTTGTTCCGCAGTTCGAGGATGTGT
TCAAGGGATTTGGCGCGGAACTGCCGGCATTCACCCAACTGATCGTCAATGCGTCCCGATTCATGGTCTCGTATTGGTGG
CTGATGCTGCTTGTGATCGTCGGTTCGATCGTGGGTTTCATCTTTGCCTATAAGCGCTCGCTTGCGATGCAGCATGGTAT
GGATCGGTTGGTGCTCAAGGTACCGATCATCGGCCAGATCATGCACAACAGCTCGATTGCGCGTTTTGCGCGCACTACTG
CGGTGACCTTCAAGGCAGGCGTGCCGTTGGTCGAAGCACTGGGCATCGTCGCCGGCGCCACTGGTAACTCGGTGTACGAG
AAAGCCGTGTTGCGCATGCGCGAGGATGTCTCGGTGGGCTATCCGGTCAACGTGTCGATGAAACAGGTCAATCTGTTCCC
GCATATGGTGATCCAGATGACGGCAATCGGCGAGGAAGCGGGCGCATTGGACGCCATGCTGTTCAAGGTGGCCGAGTACT
ACGAGCAGGAAGTGAACAATGCGGTGGACGCATTGAGCAGCCTCATCGAACCCCTGATCATGGTGTTCATTGGTACAGTA
GTCGGCGGCATGGTCATCGGCATGTACCTGCCCATCTTCAAGCTCGCTTCGGTGGTTGGATAA

Domains

Predicted by InterproScan.

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

(85-208)

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

(289-411)


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 Acinetobacter baylyi ADP1

52.736

95.714

0.505
  pilC Legionella pneumophila strain ERS1305867

51.095

97.857

0.5
  pilC Pseudomonas stutzeri DSM 10701

52.513

94.762

0.498
  pilC Acinetobacter baumannii D1279779

50.614

96.905

0.49
  pilG Neisseria gonorrhoeae MS11

43.719

94.762

0.414
  pilG Neisseria meningitidis 44/76-A

43.108

95

0.41
  pilC Vibrio cholerae strain A1552

41.814

94.524

0.395
  pilC Vibrio campbellii strain DS40M4

39.798

94.524

0.376

Multiple sequence alignment