Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   K6749_RS12600 Genome accession   NZ_CP082310
Coordinates   2725374..2727059 (+) Length   561 a.a.
NCBI ID   WP_042521331.1    Uniprot ID   -
Organism   Vibrio alginolyticus strain HYV1     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2720374..2732059
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  K6749_RS12580 (K6749_12500) pdhR 2721966..2722733 (-) 768 WP_005379989.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  K6749_RS12585 (K6749_12505) ampD 2723139..2723690 (-) 552 WP_238970100.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  K6749_RS12590 (K6749_12510) nadC 2723783..2724670 (+) 888 WP_042521335.1 carboxylating nicotinate-nucleotide diphosphorylase -
  K6749_RS12595 (K6749_12515) pilA 2724932..2725363 (+) 432 WP_042521333.1 prepilin-type N-terminal cleavage/methylation domain-containing protein Machinery gene
  K6749_RS12600 (K6749_12520) pilB 2725374..2727059 (+) 1686 WP_042521331.1 type IV-A pilus assembly ATPase PilB Machinery gene
  K6749_RS12605 (K6749_12525) pilC 2727083..2728306 (+) 1224 WP_017635918.1 type II secretion system F family protein Machinery gene
  K6749_RS12610 (K6749_12530) pilD 2728371..2729240 (+) 870 WP_017635919.1 A24 family peptidase Machinery gene
  K6749_RS12615 (K6749_12535) coaE 2729241..2729855 (+) 615 WP_042521328.1 dephospho-CoA kinase -
  K6749_RS12620 (K6749_12540) zapD 2729883..2730623 (+) 741 WP_042521326.1 cell division protein ZapD -
  K6749_RS12625 (K6749_12545) yacG 2730782..2730976 (+) 195 WP_017635922.1 DNA gyrase inhibitor YacG -
  K6749_RS12630 (K6749_12550) rplS 2731288..2731641 (-) 354 WP_005379971.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62158.01 Da        Isoelectric Point: 5.2979

>NTDB_id=601236 K6749_RS12600 WP_042521331.1 2725374..2727059(+) (pilB) [Vibrio alginolyticus strain HYV1]
MLTNLSTVLRQRGVLTFSQEESLIEQVKASGISMPEALLSSGLFTSSELAEHLSSLFGLNQPELSQYEYASLCQQLGLRE
LITRHNALPLQRTPSTLLLAVADPTNQQAEDDFRFATGLQVELVLADFRELTAAIRRLYGRALGQEKSGLKEINQEELAN
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPSHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLDALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETVIRLSNMGVESFNLASSLSLIIAQRLARKLCSHCKQSQELTVQLQHLGIQASDN
IFKANPDGCNECTHGYSGRTGIYEVMRFDEFLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=601236 K6749_RS12600 WP_042521331.1 2725374..2727059(+) (pilB) [Vibrio alginolyticus strain HYV1]
ATGTTAACCAACTTATCCACGGTTCTTCGCCAAAGAGGAGTACTGACGTTTTCCCAAGAAGAATCGTTAATAGAGCAAGT
CAAAGCTTCTGGCATTTCGATGCCAGAGGCTTTACTCAGTTCAGGGTTATTCACGTCAAGCGAACTCGCTGAGCACTTAA
GCTCTCTCTTTGGTTTAAATCAGCCCGAGTTATCTCAGTACGAGTACGCTTCGCTTTGTCAACAACTCGGTCTACGTGAA
TTAATCACTCGGCATAACGCACTCCCACTCCAACGTACGCCTTCAACGTTATTATTAGCGGTTGCCGACCCCACGAACCA
ACAAGCAGAAGATGACTTCCGCTTTGCGACAGGGTTGCAAGTAGAACTTGTTCTCGCTGATTTTCGCGAGCTGACCGCTG
CGATTCGGCGCTTATATGGCCGCGCACTTGGGCAGGAAAAGTCTGGGCTAAAAGAGATCAACCAAGAAGAATTAGCCAAC
CTGGTTGATGTGGGCGCAGATGAAATCGACAACATTGAAGACTTGAGCCAAGACGAGTCGCCCGTCAGCCGTTACATAAA
CCAAATTCTGCTGGACGCTGTGCGCAAAGGCGCATCCGATATCCACTTTGAGCCTTATGAAAAGATGTACCGCGTTCGCT
TACGCTGTGATGGCATCTTAATTGAAACACAGCAGCCACCAAGCCACTTAAGTCGCCGCTTATCCGCTCGTATCAAAATC
CTCTCTAAGCTTGATATTGCAGAGCGACGTTTACCACAAGATGGGCGTATAAAGCTCAAGTTGAATCAAGACACCGCGAT
TGATATGCGTGTATCCACACTACCGACTCTATTCGGAGAGAAAATTGTACTACGACTGCTCGACAGCAGCTCTGCGTCAC
TGGATATCGACAAGCTTGGTTATAGCGAACAACAAAAACAATTGTACTTGGATGCGCTGCGTCGCCCACAAGGCATGATT
CTGATGACAGGCCCAACAGGGAGCGGTAAAACCGTTTCTCTATACACTGGGCTAAGTATCCTCAATAAGCCAGAAATCAA
CATTTCCACGGCAGAAGACCCAGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTTCAGCCTAAGATTGGTTTTG
GTTTTGCCGAAGCCCTGCGCTCTTTCTTACGTCAAGACCCGGATGTGGTAATGGTCGGTGAGATTCGTGACTTAGACACC
GCCGAAATCGCTATAAAAGCATCGCAAACCGGTCACTTAGTACTTTCAACCTTGCATACCAATTCTGCGGCTGAAACGGT
TATTCGTTTATCAAACATGGGCGTAGAAAGCTTTAACTTGGCCTCATCTCTTAGTTTGATTATTGCCCAGCGCTTGGCCC
GTAAACTGTGCTCGCACTGTAAACAATCACAAGAGCTTACCGTTCAGCTACAACACCTTGGAATTCAAGCAAGCGACAAC
ATTTTTAAAGCCAATCCCGATGGATGTAATGAGTGTACCCATGGTTATTCCGGCCGAACGGGGATTTATGAAGTGATGCG
CTTTGATGAATTTCTTTCCGAAGCGCTTATTAAAGGCGCCTCGGTACATGAACTAGAAAAACTCGCCATCGCAAATGGTA
TGAGCACGTTACAAATGTCGGGCATAGAAAAACTCAAACAAGGGATCACAAGTTTTAGTGAACTACAGCGCGTACTTTAT
TTTTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(188-455)

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

(38-142)


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 Vibrio parahaemolyticus RIMD 2210633

95.187

100

0.952
  pilB Vibrio campbellii strain DS40M4

90.909

100

0.909
  pilB Vibrio cholerae strain A1552

74.199

100

0.743
  pilB Acinetobacter baumannii D1279779

51.619

93.583

0.483
  pilB Legionella pneumophila strain ERS1305867

49.168

96.435

0.474
  pilB Acinetobacter baylyi ADP1

50.29

92.157

0.463
  pilF Neisseria gonorrhoeae MS11

44.504

100

0.447
  pilB/pilB1 Synechocystis sp. PCC 6803

38.007

100

0.401
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.684

100

0.371
  pilF Thermus thermophilus HB27

37.294

97.504

0.364