Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   JH269_RS05265 Genome accession   NZ_CP067006
Coordinates   1248918..1250624 (+) Length   568 a.a.
NCBI ID   WP_181920283.1    Uniprot ID   -
Organism   Xanthomonas campestris pv. campestris strain 54-2     
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)
ICE 1220895..1285355 1248918..1250624 within 0


Gene organization within MGE regions


Location: 1220895..1285355
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JH269_RS05125 (JH269_05115) - 1221818..1223356 (-) 1539 WP_011038243.1 MASE1 domain-containing protein -
  JH269_RS05130 - 1224325..1224486 (-) 162 Protein_987 IS5/IS1182 family transposase -
  JH269_RS05135 (JH269_05120) - 1224547..1225749 (+) 1203 WP_274495929.1 hypothetical protein -
  JH269_RS05140 (JH269_05125) - 1225724..1226868 (+) 1145 WP_087942063.1 IS3 family transposase -
  JH269_RS05145 (JH269_05130) radC 1227417..1227896 (+) 480 WP_075286085.1 DNA repair protein RadC -
  JH269_RS05150 (JH269_05135) - 1227967..1228158 (+) 192 WP_221261829.1 hypothetical protein -
  JH269_RS05155 (JH269_05140) - 1228792..1228947 (+) 156 WP_186009287.1 hypothetical protein -
  JH269_RS21800 - 1229936..1230361 (+) 426 Protein_993 XVIPCD domain-containing protein -
  JH269_RS05165 (JH269_05150) - 1230389..1230643 (-) 255 WP_057671639.1 hypothetical protein -
  JH269_RS05170 (JH269_05155) - 1230910..1232505 (+) 1596 WP_192012501.1 MobA/MobL family protein -
  JH269_RS05175 (JH269_05160) - 1232578..1232946 (-) 369 WP_225443877.1 transcriptional regulator -
  JH269_RS05180 (JH269_05165) - 1232954..1233235 (-) 282 WP_011348355.1 DUF6516 family protein -
  JH269_RS05185 (JH269_05170) - 1233301..1233642 (-) 342 WP_081020748.1 hypothetical protein -
  JH269_RS05190 (JH269_05175) - 1234368..1234718 (+) 351 WP_225443878.1 hypothetical protein -
  JH269_RS05195 (JH269_05180) - 1235310..1235465 (+) 156 WP_011038226.1 hypothetical protein -
  JH269_RS05200 (JH269_05185) - 1235642..1236037 (+) 396 WP_011038225.1 hypothetical protein -
  JH269_RS05205 (JH269_05190) - 1236128..1236520 (+) 393 WP_011038224.1 H-NS family nucleoid-associated regulatory protein -
  JH269_RS05210 (JH269_05195) glgX 1237059..1239188 (-) 2130 WP_267314849.1 glycogen debranching protein GlgX -
  JH269_RS05215 (JH269_05200) rimK 1239681..1240556 (+) 876 WP_011038222.1 30S ribosomal protein S6--L-glutamate ligase -
  JH269_RS05220 (JH269_05205) - 1241206..1241883 (+) 678 WP_003490678.1 response regulator transcription factor -
  JH269_RS05225 (JH269_05210) - 1241876..1243210 (+) 1335 WP_019237347.1 HAMP domain-containing sensor histidine kinase -
  JH269_RS05230 (JH269_05215) - 1243353..1243844 (-) 492 WP_011038220.1 GNAT family N-acetyltransferase -
  JH269_RS05235 (JH269_05220) - 1243841..1244131 (-) 291 WP_011038219.1 DUF1778 domain-containing protein -
  JH269_RS05240 (JH269_05225) - 1244206..1244607 (-) 402 WP_267314850.1 SymE family type I addiction module toxin -
  JH269_RS05245 (JH269_05230) coaE 1245139..1245762 (-) 624 WP_040940796.1 dephospho-CoA kinase -
  JH269_RS05250 (JH269_05235) - 1245776..1246639 (-) 864 WP_267314851.1 A24 family peptidase -
  JH269_RS05255 (JH269_05240) pilC 1246646..1247905 (-) 1260 WP_070690003.1 type II secretion system F family protein Machinery gene
  JH269_RS05260 (JH269_05245) pilA2 1248256..1248675 (+) 420 WP_116670568.1 pilin Machinery gene
  JH269_RS05265 (JH269_05250) pilB 1248918..1250624 (+) 1707 WP_181920283.1 type IV-A pilus assembly ATPase PilB Machinery gene
  JH269_RS05270 (JH269_05255) - 1250807..1251544 (-) 738 WP_070690009.1 zeta toxin family protein -
  JH269_RS05275 (JH269_05260) - 1251544..1251900 (-) 357 WP_139328384.1 hypothetical protein -
  JH269_RS05280 (JH269_05265) pilR 1252098..1253492 (-) 1395 WP_267314854.1 sigma-54 dependent transcriptional regulator Regulator
  JH269_RS05285 (JH269_05270) - 1253702..1255312 (-) 1611 WP_040940804.1 HAMP domain-containing sensor histidine kinase -
  JH269_RS05290 (JH269_05275) sucC 1255546..1256715 (+) 1170 WP_012437609.1 ADP-forming succinate--CoA ligase subunit beta -
  JH269_RS05295 (JH269_05280) sucD 1256740..1257615 (+) 876 WP_011038208.1 succinate--CoA ligase subunit alpha -
  JH269_RS05300 (JH269_05285) - 1257719..1258129 (+) 411 WP_029628876.1 DNA-binding protein -
  JH269_RS05305 (JH269_05290) - 1258133..1258435 (+) 303 WP_011038207.1 type II toxin-antitoxin system RelE/ParE family toxin -
  JH269_RS05310 (JH269_05295) - 1258435..1260090 (+) 1656 WP_019237353.1 NAD+ synthase -
  JH269_RS05315 (JH269_05300) - 1260084..1261070 (-) 987 WP_267314855.1 hypothetical protein -
  JH269_RS05320 (JH269_05305) - 1261523..1262404 (-) 882 WP_267314856.1 outer membrane protein assembly factor BamD -
  JH269_RS05325 (JH269_05310) rluD 1262527..1263522 (+) 996 WP_016944992.1 23S rRNA pseudouridine(1911/1915/1917) synthase RluD -
  JH269_RS05330 (JH269_05315) pgeF 1263524..1264324 (+) 801 WP_267314857.1 peptidoglycan editing factor PgeF -
  JH269_RS05335 (JH269_05320) - 1264345..1264842 (+) 498 WP_050911332.1 DUF4166 domain-containing protein -
  JH269_RS05340 (JH269_05325) - 1264829..1265248 (+) 420 WP_012437616.1 thiol-disulfide oxidoreductase DCC family protein -
  JH269_RS05345 (JH269_05330) - 1265884..1267752 (-) 1869 WP_012437618.1 methyl-accepting chemotaxis protein -
  JH269_RS05350 (JH269_05335) - 1268284..1270719 (-) 2436 WP_029628877.1 glucose/quinate/shikimate family membrane-bound PQQ-dependent dehydrogenase -
  JH269_RS05355 (JH269_05340) otsA 1271627..1272994 (-) 1368 WP_014508687.1 alpha,alpha-trehalose-phosphate synthase (UDP-forming) -
  JH269_RS05360 (JH269_05345) - 1272991..1274769 (-) 1779 WP_040940809.1 glycoside hydrolase family 15 protein -
  JH269_RS05365 (JH269_05350) otsB 1274819..1275577 (-) 759 WP_011038195.1 trehalose-phosphatase -
  JH269_RS05370 (JH269_05355) - 1276272..1278707 (-) 2436 WP_076054194.1 TonB-dependent receptor -
  JH269_RS05375 (JH269_05360) - 1278912..1279385 (+) 474 WP_267314858.1 DUF3574 domain-containing protein -
  JH269_RS05380 (JH269_05365) - 1279409..1280281 (+) 873 WP_267314859.1 hypothetical protein -
  JH269_RS05385 (JH269_05370) - 1280419..1282020 (+) 1602 WP_116889321.1 hypothetical protein -
  JH269_RS05390 (JH269_05375) - 1282017..1283183 (+) 1167 WP_267314860.1 lysozyme inhibitor LprI family protein -
  JH269_RS05395 (JH269_05380) - 1283577..1284389 (+) 813 WP_274514925.1 DUF3014 domain-containing protein -
  JH269_RS05400 (JH269_05385) - 1284583..1285290 (-) 708 WP_012437628.1 glutathione S-transferase -

Sequence

Protein


Download         Length: 568 a.a.        Molecular weight: 61913.08 Da        Isoelectric Point: 5.6039

>NTDB_id=524182 JH269_RS05265 WP_181920283.1 1248918..1250624(+) (pilB) [Xanthomonas campestris pv. campestris strain 54-2]
MGITGIARRLVQDGVLDEGSARAAMDQAALAKVPLPQWFAEKKLVSAAQLAAANAIEFGMPLMDVSVFDVNQNAVKLVSE
ELLQKYQVLPLFKRGNRLFVGVSNPTQTRALDDIKFHTNLVVEPILVDEDQIRRTLEQWQAGNASFGSVLGGDDEEMGDL
DVSAGDEDMGAGGDSGVDAKGDDTPVVKFVNKVLVDAIRRGASDIHFEPYEDDYRVRLRIDGLLKNVAKAPVKLNQRIAA
RLKVMSQLDIAEKRVPQDGRIKLNLSKTKQIDFRVSTLPTLFGEKVVLRILDASAAKLGIEKLGYEADQQKLFLDAIHKP
YGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNVKRGMTFAAALRSFLRQDPDIIMVGEIR
DLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNNCKRKSTLPEHALLAEGF
TPEQVANIDLYEAVGCDECTEGYKGRTGIYQVMPMTDEIGAIVLEGGNAMQIAEAAQKIGIRDLRQSALMKASHGVTSLA
EINRVTKD

Nucleotide


Download         Length: 1707 bp        

>NTDB_id=524182 JH269_RS05265 WP_181920283.1 1248918..1250624(+) (pilB) [Xanthomonas campestris pv. campestris strain 54-2]
GTGGGTATCACAGGAATAGCACGGCGTTTGGTTCAAGACGGCGTACTTGATGAAGGGAGCGCTCGCGCTGCGATGGATCA
GGCAGCATTGGCGAAAGTGCCGCTTCCTCAGTGGTTCGCGGAAAAGAAGCTTGTGTCAGCTGCTCAACTCGCAGCTGCTA
ACGCAATCGAGTTTGGCATGCCGTTGATGGACGTGTCTGTTTTCGACGTCAACCAGAACGCAGTCAAGCTGGTCAGTGAG
GAGTTGCTTCAGAAATACCAGGTGCTGCCGCTGTTCAAGCGCGGCAATCGGTTGTTCGTGGGGGTGAGCAACCCGACCCA
GACGCGTGCGCTGGACGACATCAAGTTCCACACCAATCTGGTTGTCGAGCCGATTTTGGTCGATGAAGATCAGATCCGTA
GGACGTTGGAGCAATGGCAGGCAGGAAACGCGTCCTTTGGCTCGGTGCTTGGTGGCGACGACGAGGAGATGGGGGACCTA
GACGTGTCCGCCGGGGACGAGGACATGGGCGCCGGCGGGGATTCCGGGGTCGATGCCAAGGGCGATGACACGCCGGTGGT
GAAATTCGTCAACAAGGTGCTGGTGGATGCGATCCGGCGGGGAGCCTCGGACATCCATTTCGAGCCCTATGAAGACGACT
ACCGGGTGCGGTTGCGGATCGATGGGCTGTTGAAGAACGTGGCCAAGGCGCCGGTGAAGCTCAACCAGCGCATCGCGGCG
CGCCTGAAGGTGATGTCGCAGCTGGACATCGCCGAGAAGCGGGTGCCGCAGGACGGGCGCATCAAGCTCAATCTGTCCAA
GACCAAGCAGATCGACTTTCGCGTGAGCACCTTGCCGACCCTGTTCGGCGAGAAGGTGGTGTTGCGTATCCTGGACGCCA
GTGCGGCCAAGCTCGGTATCGAGAAGCTGGGCTATGAGGCGGACCAGCAGAAGCTGTTCCTGGATGCGATCCACAAGCCC
TACGGCATGGTGCTGGTGACCGGGCCGACCGGTTCGGGCAAGACGGTGTCGCTGTATACCGCGCTCGGGATTCTCAACGA
CGAGACGCGCAATATTTCCACGGCCGAGGATCCGGTCGAAATCCGCTTGCCCGGCGTCAATCAGGTGCAGCAGAACGTCA
AGCGGGGCATGACGTTTGCGGCGGCGCTGCGCTCGTTCCTGCGTCAGGACCCGGACATCATCATGGTCGGCGAAATCCGC
GACCTGGAGACGGCCGAGATTGCGATCAAGGCGGCGCAGACGGGCCACATGGTGCTGTCGACGTTGCACACCAACGATGC
GCCGCAGACCATTGCGCGTCTGATGAACATGGGCATCGCGCCGTACAACATCACCTCGTCGGTGACCCTGGTCATCGCGC
AGCGCTTGGCGCGGCGCTTGTGCAACAACTGCAAGCGCAAGTCGACGCTGCCGGAACATGCGCTGCTGGCGGAAGGCTTT
ACGCCGGAGCAGGTTGCGAACATCGACCTCTATGAAGCGGTCGGTTGCGATGAGTGCACGGAAGGCTACAAGGGCCGTAC
CGGCATCTATCAGGTGATGCCGATGACGGACGAAATCGGCGCGATCGTGCTGGAAGGCGGCAATGCGATGCAGATCGCCG
AGGCTGCGCAGAAGATCGGTATCCGCGACCTGCGCCAGTCGGCGTTAATGAAGGCTTCGCACGGCGTGACCAGCCTGGCC
GAAATCAATCGGGTGACGAAGGATTGA

Domains

Predicted by InterproScan.

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

(40-141)

Type II/IV secretion system protein (T2SSE)

(192-459)


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

56.162

100

0.562
  pilB Acinetobacter baylyi ADP1

55.81

100

0.558
  pilB Legionella pneumophila strain ERS1305867

52.465

100

0.525
  pilB Vibrio cholerae strain A1552

48.951

100

0.493
  pilF Neisseria gonorrhoeae MS11

49.12

100

0.491
  pilB Vibrio campbellii strain DS40M4

45.694

100

0.458
  pilB Vibrio parahaemolyticus RIMD 2210633

45.745

99.296

0.454
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.313

92.254

0.363
  pilF Thermus thermophilus HB27

39.499

91.373

0.361