Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilU   Type   Machinery gene
Locus tag   VXM60_RS14530 Genome accession   NZ_CP143082
Coordinates   3327648..3328760 (-) Length   370 a.a.
NCBI ID   WP_126167632.1    Uniprot ID   -
Organism   Shewanella khirikhana strain JW44     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3322648..3333760
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VXM60_RS14495 (VXM60_14495) - 3323243..3324115 (+) 873 WP_338589474.1 LysR family transcriptional regulator -
  VXM60_RS14500 (VXM60_14500) - 3324262..3324822 (-) 561 WP_126167627.1 DUF4136 domain-containing protein -
  VXM60_RS14505 (VXM60_14505) - 3325007..3325324 (+) 318 WP_126167628.1 hypothetical protein -
  VXM60_RS14510 (VXM60_14510) yciH 3325439..3325768 (+) 330 WP_126167629.1 stress response translation initiation inhibitor YciH -
  VXM60_RS14515 (VXM60_14515) - 3325773..3326336 (+) 564 WP_240591730.1 YqgE/AlgH family protein -
  VXM60_RS14520 (VXM60_14520) ruvX 3326336..3326755 (+) 420 WP_338589476.1 Holliday junction resolvase RuvX -
  VXM60_RS14525 (VXM60_14525) - 3326870..3327496 (-) 627 WP_338589478.1 glutathione peroxidase -
  VXM60_RS14530 (VXM60_14530) pilU 3327648..3328760 (-) 1113 WP_126167632.1 PilT/PilU family type 4a pilus ATPase Machinery gene
  VXM60_RS14535 (VXM60_14535) pilT 3328770..3329807 (-) 1038 WP_126167633.1 type IV pilus twitching motility protein PilT Machinery gene
  VXM60_RS14540 (VXM60_14540) - 3329843..3330592 (+) 750 WP_338589480.1 YggS family pyridoxal phosphate-dependent enzyme -
  VXM60_RS14545 (VXM60_14545) proC 3330669..3331484 (+) 816 WP_126167635.1 pyrroline-5-carboxylate reductase -
  VXM60_RS14550 (VXM60_14550) - 3331544..3332092 (+) 549 WP_338589482.1 YggT family protein -
  VXM60_RS14555 (VXM60_14555) yggU 3332092..3332379 (+) 288 WP_240591735.1 DUF167 family protein YggU -
  VXM60_RS14560 (VXM60_14560) - 3332460..3332894 (+) 435 WP_126167638.1 DUF4426 domain-containing protein -
  VXM60_RS14565 (VXM60_14565) rdgB 3333037..3333633 (+) 597 WP_126167639.1 RdgB/HAM1 family non-canonical purine NTP pyrophosphatase -

Sequence

Protein


Download         Length: 370 a.a.        Molecular weight: 41157.11 Da        Isoelectric Point: 5.9366

>NTDB_id=928152 VXM60_RS14530 WP_126167632.1 3327648..3328760(-) (pilU) [Shewanella khirikhana strain JW44]
MDVRPFLKVMVERKASDLFITAGFPPSAKIDGELRPLAENPFSPAQSLDFVESLMSDAQKKEFHESRECNFAFAAKDLGR
FRVSAFWQRESPGCVMRRIETRIPEMEDLKLPPVLKDLVMSKRGLIIMVGGTGTGKSTSLAAMVGYRNAHERGHILTIED
PVEFVHDHRKSIITQREVGIDTDSFDAALKSSLRQAPDVILIGEIRSQETMEFALSFAETGHLCMATLHANNANQALDRI
MHLVPESKHQQLLFDLSLNLRGIVAQQLVPKADGTGRRAAIEILINTPRVSSIIQKNELHLLKDTMAKSNEQGMQTFDQA
LFQLYQEGEISYADALHHADSPNDLRLMIKLAGSESTGSGFLEGVTLDMD

Nucleotide


Download         Length: 1113 bp        

>NTDB_id=928152 VXM60_RS14530 WP_126167632.1 3327648..3328760(-) (pilU) [Shewanella khirikhana strain JW44]
ATGGATGTACGTCCCTTTTTGAAGGTGATGGTCGAGCGTAAAGCCTCGGATTTGTTCATCACCGCAGGCTTTCCGCCCAG
CGCCAAAATCGATGGTGAGCTGCGGCCGCTGGCGGAGAATCCATTCAGTCCGGCGCAGTCGCTGGACTTTGTTGAATCGC
TGATGAGCGATGCGCAAAAGAAAGAATTCCACGAAAGCCGCGAATGTAACTTCGCTTTTGCCGCCAAAGACCTTGGTCGT
TTTCGTGTGAGCGCCTTTTGGCAACGTGAATCGCCTGGTTGTGTGATGCGCCGTATCGAAACCCGCATCCCTGAGATGGA
AGATCTGAAGCTGCCGCCGGTACTGAAAGATCTGGTGATGAGCAAGCGCGGTCTTATCATCATGGTGGGTGGTACGGGTA
CAGGTAAGTCGACGTCGCTCGCGGCCATGGTGGGTTACCGTAACGCCCATGAGCGCGGCCATATTCTGACTATCGAAGAT
CCGGTGGAATTTGTGCACGACCACCGCAAGAGCATCATTACCCAGCGCGAAGTGGGCATTGATACCGACTCCTTCGATGC
AGCGCTGAAAAGCTCGCTGCGTCAGGCGCCGGACGTGATCCTTATCGGTGAGATCCGCAGCCAGGAAACCATGGAGTTTG
CCCTGTCGTTCGCCGAAACCGGTCACCTGTGTATGGCAACCCTGCACGCCAATAACGCCAACCAGGCGCTGGACCGTATC
ATGCACCTGGTGCCTGAAAGTAAGCACCAGCAGTTGCTGTTTGACCTGTCACTTAACCTGCGCGGCATTGTGGCGCAGCA
ATTGGTGCCCAAGGCCGATGGCACAGGTCGCCGTGCCGCCATCGAAATTCTGATTAACACTCCCCGTGTGTCCAGCATCA
TTCAGAAAAATGAGCTGCATTTGCTGAAAGACACCATGGCCAAGTCCAACGAGCAGGGGATGCAGACCTTCGACCAGGCG
CTGTTCCAGCTGTATCAGGAAGGTGAAATCAGCTACGCCGATGCACTGCACCACGCCGACTCGCCAAACGACCTGCGTTT
GATGATCAAGCTGGCAGGCTCGGAAAGCACAGGCTCAGGTTTCCTCGAGGGCGTGACCCTGGATATGGACTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(113-271)


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
  pilU Pseudomonas stutzeri DSM 10701

61.29

100

0.616
  pilU Vibrio cholerae strain A1552

59.459

100

0.595
  pilU Acinetobacter baylyi ADP1

60.34

95.405

0.576
  pilT Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

41.667

97.297

0.405
  pilT Vibrio cholerae strain A1552

43.03

89.189

0.384
  pilT Vibrio cholerae O1 biovar El Tor strain E7946

43.03

89.189

0.384
  pilT Legionella pneumophila strain ERS1305867

41.994

89.459

0.376
  pilT Legionella pneumophila strain Lp02

41.994

89.459

0.376
  pilT Acinetobacter baumannii D1279779

39.766

92.432

0.368
  pilT Acinetobacter nosocomialis M2

39.766

92.432

0.368
  pilT Acinetobacter baumannii strain A118

39.766

92.432

0.368
  pilT Pseudomonas aeruginosa PAK

39.42

93.243

0.368
  pilT Acinetobacter baylyi ADP1

39.474

92.432

0.365
  pilT Pseudomonas stutzeri DSM 10701

38.841

93.243

0.362