Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilA2   Type   Machinery gene
Locus tag   ACCP86_RS17005 Genome accession   NZ_CP167205
Coordinates   3883988..3884416 (-) Length   142 a.a.
NCBI ID   WP_039587436.1    Uniprot ID   -
Organism   Xanthomonas axonopodis pv. ricini strain NCPPB 1684     
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 3870759..3955954 3883988..3884416 within 0


Gene organization within MGE regions


Location: 3870759..3955954
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACCP86_RS16950 (ACCP86_16950) - 3871221..3872102 (+) 882 WP_005915798.1 outer membrane protein assembly factor BamD -
  ACCP86_RS16955 (ACCP86_16955) - 3872384..3873361 (+) 978 WP_280300738.1 hypothetical protein -
  ACCP86_RS16960 (ACCP86_16960) - 3873380..3875035 (-) 1656 WP_031423861.1 NAD+ synthase -
  ACCP86_RS16965 (ACCP86_16965) - 3875035..3875337 (-) 303 WP_008577789.1 type II toxin-antitoxin system RelE/ParE family toxin -
  ACCP86_RS16970 (ACCP86_16970) - 3875341..3875685 (-) 345 WP_008577787.1 ribbon-helix-helix domain-containing protein -
  ACCP86_RS16975 (ACCP86_16975) sucD 3875856..3876731 (-) 876 WP_029820064.1 succinate--CoA ligase subunit alpha -
  ACCP86_RS16980 (ACCP86_16980) sucC 3876756..3877925 (-) 1170 WP_007965356.1 ADP-forming succinate--CoA ligase subunit beta -
  ACCP86_RS16985 (ACCP86_16985) - 3878157..3879770 (+) 1614 WP_011348336.1 PAS domain-containing sensor histidine kinase -
  ACCP86_RS16990 (ACCP86_16990) pilR 3880037..3881491 (+) 1455 WP_011348337.1 sigma-54 dependent transcriptional regulator Regulator
  ACCP86_RS16995 (ACCP86_16995) pilB 3881720..3881839 (-) 120 WP_136732873.1 pilus assembly protein Machinery gene
  ACCP86_RS17000 (ACCP86_17000) pilB 3882117..3883850 (-) 1734 WP_372168064.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ACCP86_RS17005 (ACCP86_17005) pilA2 3883988..3884416 (-) 429 WP_039587436.1 pilin Machinery gene
  ACCP86_RS17010 (ACCP86_17010) pilC 3884761..3886023 (+) 1263 WP_078515376.1 type II secretion system F family protein Machinery gene
  ACCP86_RS17015 (ACCP86_17015) - 3886030..3886893 (+) 864 WP_003491180.1 A24 family peptidase -
  ACCP86_RS17020 (ACCP86_17020) coaE 3886907..3887518 (+) 612 WP_277572157.1 dephospho-CoA kinase -
  ACCP86_RS17030 (ACCP86_17030) - 3889376..3893419 (+) 4044 WP_372173824.1 RHS repeat-associated core domain-containing protein -
  ACCP86_RS17035 (ACCP86_17035) - 3893412..3893786 (+) 375 WP_280300783.1 hypothetical protein -
  ACCP86_RS17040 (ACCP86_17040) - 3894339..3894734 (+) 396 WP_136732875.1 SymE family type I addiction module toxin -
  ACCP86_RS17045 (ACCP86_17045) - 3894838..3896172 (-) 1335 WP_162998398.1 HAMP domain-containing sensor histidine kinase -
  ACCP86_RS17050 (ACCP86_17050) - 3896165..3896842 (-) 678 WP_003490678.1 response regulator transcription factor -
  ACCP86_RS17055 (ACCP86_17055) - 3896868..3897311 (-) 444 WP_071118754.1 hypothetical protein -
  ACCP86_RS17060 (ACCP86_17060) rimK 3897520..3898437 (-) 918 WP_167310315.1 30S ribosomal protein S6--L-glutamate ligase -
  ACCP86_RS17065 (ACCP86_17065) glgX 3898908..3901040 (+) 2133 WP_372173825.1 glycogen debranching protein GlgX -
  ACCP86_RS17070 (ACCP86_17070) - 3901661..3902053 (-) 393 WP_008576847.1 H-NS family nucleoid-associated regulatory protein -
  ACCP86_RS17075 (ACCP86_17075) - 3902144..3902546 (-) 403 Protein_3338 hypothetical protein -
  ACCP86_RS17080 (ACCP86_17080) - 3902658..3903350 (-) 693 WP_218490663.1 thermonuclease family protein -
  ACCP86_RS17085 (ACCP86_17085) - 3903543..3903701 (-) 159 WP_159065595.1 hypothetical protein -
  ACCP86_RS17090 (ACCP86_17090) - 3904043..3904951 (-) 909 WP_372173826.1 ImmA/IrrE family metallo-endopeptidase -
  ACCP86_RS17095 (ACCP86_17095) - 3904964..3905290 (-) 327 WP_168958932.1 helix-turn-helix domain-containing protein -
  ACCP86_RS17100 (ACCP86_17100) - 3905438..3906133 (+) 696 WP_372173827.1 multiubiquitin domain-containing protein -
  ACCP86_RS17105 (ACCP86_17105) - 3906108..3907157 (+) 1050 WP_372173828.1 ThiF family adenylyltransferase -
  ACCP86_RS17110 (ACCP86_17110) - 3907154..3908256 (+) 1103 WP_223574235.1 IS3-like element IS1389-B family transposase -
  ACCP86_RS17115 (ACCP86_17115) - 3908497..3908946 (+) 450 WP_372173829.1 DUF6527 family protein -
  ACCP86_RS17120 (ACCP86_17120) - 3908993..3909727 (+) 735 WP_372173830.1 hypothetical protein -
  ACCP86_RS17125 (ACCP86_17125) - 3909778..3910518 (-) 741 WP_372173831.1 hypothetical protein -
  ACCP86_RS17130 (ACCP86_17130) - 3910968..3912611 (-) 1644 WP_372174699.1 MobA/MobL family protein -
  ACCP86_RS17135 (ACCP86_17135) - 3913108..3914922 (+) 1815 WP_372173832.1 protein adenylyltransferase SelO family protein -
  ACCP86_RS17140 (ACCP86_17140) - 3914912..3915343 (+) 432 WP_372173833.1 toxin-activating lysine-acyltransferase -
  ACCP86_RS17145 (ACCP86_17145) - 3915406..3916686 (+) 1281 WP_372173834.1 MFS transporter -
  ACCP86_RS17150 (ACCP86_17150) - 3916800..3917366 (-) 567 WP_372173835.1 hypothetical protein -
  ACCP86_RS17155 (ACCP86_17155) - 3917380..3918096 (-) 717 WP_099803932.1 hypothetical protein -
  ACCP86_RS17160 (ACCP86_17160) - 3918192..3920414 (-) 2223 WP_372173836.1 peptidase domain-containing ABC transporter -
  ACCP86_RS17165 (ACCP86_17165) - 3920411..3921709 (-) 1299 WP_372173837.1 HlyD family secretion protein -
  ACCP86_RS17170 (ACCP86_17170) - 3921946..3925620 (-) 3675 WP_372173838.1 peptidoglycan-binding protein -
  ACCP86_RS17175 (ACCP86_17175) - 3925617..3926078 (-) 462 WP_372174701.1 hypothetical protein -
  ACCP86_RS17180 (ACCP86_17180) - 3926119..3927822 (-) 1704 WP_372173839.1 type IV secretory system conjugative DNA transfer family protein -
  ACCP86_RS17185 (ACCP86_17185) - 3927978..3928319 (-) 342 WP_372173840.1 helix-turn-helix domain-containing protein -
  ACCP86_RS17190 (ACCP86_17190) - 3928559..3928876 (+) 318 WP_372173841.1 hypothetical protein -
  ACCP86_RS17195 (ACCP86_17195) - 3928926..3929318 (+) 393 WP_372173842.1 hypothetical protein -
  ACCP86_RS17200 (ACCP86_17200) - 3929385..3929612 (+) 228 WP_050912270.1 hypothetical protein -
  ACCP86_RS17205 (ACCP86_17205) - 3929604..3930245 (-) 642 Protein_3364 MobA/MobL family protein -
  ACCP86_RS17210 (ACCP86_17210) - 3930326..3930715 (-) 390 Protein_3365 integrase core domain-containing protein -
  ACCP86_RS17215 (ACCP86_17215) - 3930790..3931898 (+) 1109 WP_372168540.1 IS3 family transposase -
  ACCP86_RS17220 (ACCP86_17220) - 3931905..3932638 (-) 734 Protein_3367 IS3 family transposase -
  ACCP86_RS17225 (ACCP86_17225) - 3933340..3933846 (+) 507 WP_372173843.1 hypothetical protein -
  ACCP86_RS17235 (ACCP86_17235) - 3934995..3935930 (+) 936 WP_372173844.1 site-specific integrase -
  ACCP86_RS17240 (ACCP86_17240) - 3935939..3936289 (+) 351 WP_372173845.1 hypothetical protein -
  ACCP86_RS17245 (ACCP86_17245) - 3936398..3938293 (-) 1896 WP_372173846.1 DUF262 domain-containing protein -
  ACCP86_RS17250 (ACCP86_17250) - 3938475..3938576 (-) 102 Protein_3373 transposase -
  ACCP86_RS17255 (ACCP86_17255) - 3939028..3939093 (+) 66 WP_372174702.1 hypothetical protein -
  ACCP86_RS17260 (ACCP86_17260) - 3939090..3939884 (-) 795 WP_372173847.1 hypothetical protein -
  ACCP86_RS17265 (ACCP86_17265) - 3939969..3941056 (+) 1088 WP_089140893.1 IS3-like element ISXac2 family transposase -
  ACCP86_RS17270 (ACCP86_17270) - 3941313..3942494 (-) 1182 WP_372173848.1 GIY-YIG nuclease family protein -
  ACCP86_RS17275 (ACCP86_17275) - 3942487..3944592 (-) 2106 WP_372173849.1 pseudomurein-binding repeat-containing protein -
  ACCP86_RS17280 (ACCP86_17280) - 3944589..3947360 (-) 2772 WP_372173850.1 class I SAM-dependent DNA methyltransferase -
  ACCP86_RS17285 (ACCP86_17285) - 3947385..3948509 (-) 1125 WP_372173851.1 helix-turn-helix domain-containing protein -
  ACCP86_RS17290 (ACCP86_17290) - 3948565..3949194 (-) 630 WP_039809479.1 hypothetical protein -
  ACCP86_RS17295 (ACCP86_17295) - 3949699..3950646 (+) 948 WP_372173852.1 hypothetical protein -
  ACCP86_RS17300 (ACCP86_17300) - 3950643..3950858 (-) 216 WP_372173853.1 hypothetical protein -
  ACCP86_RS17305 (ACCP86_17305) - 3950999..3951181 (-) 183 Protein_3384 transposase -
  ACCP86_RS17310 (ACCP86_17310) - 3951274..3951828 (+) 555 WP_372173854.1 hypothetical protein -
  ACCP86_RS17315 (ACCP86_17315) - 3951933..3952913 (-) 981 WP_280294756.1 IS5 family transposase -
  ACCP86_RS17320 (ACCP86_17320) - 3953150..3954237 (+) 1088 WP_089140893.1 IS3-like element ISXac2 family transposase -
  ACCP86_RS17325 (ACCP86_17325) - 3954421..3955488 (-) 1068 WP_372173855.1 ankyrin repeat domain-containing protein -
  ACCP86_RS17330 (ACCP86_17330) - 3955581..3955814 (-) 234 WP_372173856.1 hypothetical protein -

Sequence

Protein


Download         Length: 142 a.a.        Molecular weight: 14285.44 Da        Isoelectric Point: 9.1334

>NTDB_id=1038857 ACCP86_RS17005 WP_039587436.1 3883988..3884416(-) (pilA2) [Xanthomonas axonopodis pv. ricini strain NCPPB 1684]
MKKQQGFTLIELMIVVAIIAILAAIALPAYQDYTVRGRVSEAMVAASAAKTVVAENAANGVALNSGWTAPTATNNVTSVA
VDAGSGNITVTTTAKAGGGTIIFAPTAGGAALVSGTVPTDRISWTCTGGTLIAKYRPAECRT

Nucleotide


Download         Length: 429 bp        

>NTDB_id=1038857 ACCP86_RS17005 WP_039587436.1 3883988..3884416(-) (pilA2) [Xanthomonas axonopodis pv. ricini strain NCPPB 1684]
ATGAAGAAGCAACAAGGTTTTACTCTGATCGAACTGATGATCGTTGTCGCGATCATTGCTATTCTGGCGGCCATTGCGTT
GCCGGCTTACCAGGACTATACCGTCCGCGGCCGCGTCTCCGAGGCGATGGTTGCTGCGTCCGCTGCGAAGACGGTTGTGG
CTGAGAACGCCGCCAATGGTGTTGCGCTGAATAGCGGTTGGACTGCTCCCACCGCAACTAACAACGTCACCAGCGTCGCG
GTTGATGCCGGTTCCGGCAATATCACCGTGACCACCACCGCTAAGGCCGGTGGCGGCACCATCATCTTTGCCCCCACGGC
TGGCGGTGCGGCACTGGTCTCTGGCACCGTTCCAACTGATCGTATTTCCTGGACCTGCACGGGCGGCACCCTGATCGCCA
AGTACCGCCCGGCAGAATGCCGTACCTAA

Domains

Predicted by InterproScan.

Pilin (bacterial filament) (Pilin)

(35-141)

Prokaryotic N-terminal methylation motif (N_methyl)

(1-27)


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
  pilA2 Legionella pneumophila strain ERS1305867

55.556

100

0.563
  pilA Ralstonia pseudosolanacearum GMI1000

50

100

0.563
  pilA2 Legionella pneumophila str. Paris

54.861

100

0.556
  pilE Neisseria elongata subsp. glycolytica ATCC 29315

39.378

100

0.535
  comP Acinetobacter baylyi ADP1

47.134

100

0.521
  pilA/pilA1 Eikenella corrodens VA1

38.415

100

0.444
  pilA/pilAI Pseudomonas stutzeri DSM 10701

40.541

100

0.423
  pilA Acinetobacter baumannii strain A118

41.135

99.296

0.408
  pilA/pilAII Pseudomonas stutzeri DSM 10701

36.986

100

0.38
  pilA Vibrio cholerae C6706

33.766

100

0.366
  pilA Vibrio cholerae strain A1552

33.766

100

0.366
  pilA Vibrio cholerae O1 biovar El Tor strain E7946

33.766

100

0.366

Multiple sequence alignment