Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   AKG93_RS13880 Genome accession   NZ_CP169261
Coordinates   3056680..3058365 (+) Length   561 a.a.
NCBI ID   WP_009698755.1    Uniprot ID   -
Organism   Vibrio harveyi strain VH2     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3051680..3063365
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AKG93_RS13860 (AKG93_013860) pdhR 3053285..3054052 (-) 768 WP_009699648.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  AKG93_RS13865 (AKG93_013865) ampD 3054457..3055008 (-) 552 WP_053052949.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  AKG93_RS13870 (AKG93_013870) nadC 3055101..3055988 (+) 888 WP_053052948.1 carboxylating nicotinate-nucleotide diphosphorylase -
  AKG93_RS13875 (AKG93_013875) pilA 3056252..3056680 (+) 429 WP_009698754.1 type IV pilin protein Machinery gene
  AKG93_RS13880 (AKG93_013880) pilB 3056680..3058365 (+) 1686 WP_009698755.1 type IV-A pilus assembly ATPase PilB Machinery gene
  AKG93_RS13885 (AKG93_013885) pilC 3058399..3059622 (+) 1224 WP_005446256.1 type II secretion system F family protein Machinery gene
  AKG93_RS13890 (AKG93_013890) pilD 3059695..3060564 (+) 870 WP_005446255.1 prepilin peptidase Machinery gene
  AKG93_RS13895 (AKG93_013895) coaE 3060565..3061179 (+) 615 WP_053052946.1 dephospho-CoA kinase -
  AKG93_RS13900 (AKG93_013900) zapD 3061207..3061947 (+) 741 WP_009698757.1 cell division protein ZapD -
  AKG93_RS13905 (AKG93_013905) yacG 3062010..3062204 (+) 195 WP_005446249.1 DNA gyrase inhibitor YacG -
  AKG93_RS13910 (AKG93_013910) rplS 3062571..3062924 (-) 354 WP_005379971.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62059.83 Da        Isoelectric Point: 5.2849

>NTDB_id=1050038 AKG93_RS13880 WP_009698755.1 3056680..3058365(+) (pilB) [Vibrio harveyi strain VH2]
MLTNLSTVLRQAGILTFSQEESLLEQAKASGISMPEALLSSGFFQSHELTEHLSSIFGLSCTSLSQYEYSSLCQKLGLRD
LITRHNALPLNRTSSTLILAVADPTNLQAEDDFRFATGLQVELVLADFKELTAAIRRLYGRALGQEKSGLKEINQDELAG
LVDIGEDEIENIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYENMYRVRLRCDGILIEIQQPPSHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSTALDINKLGYSDHQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKTEINISTAEDPVEINLPGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETVIRLSNMGVESFNLASSLSLIIAQRLARKLCPHCRQPQEPNSQLQHIGITSTED
IFQANPDGCNECTQGYSGRTGIYEVMKFDESLSNALIKGASVHELEKLAIANGMQTLQMSGIEKLKQGVTSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=1050038 AKG93_RS13880 WP_009698755.1 3056680..3058365(+) (pilB) [Vibrio harveyi strain VH2]
ATGCTAACCAACCTCTCAACGGTTCTTCGTCAAGCGGGAATACTGACCTTTTCCCAAGAAGAATCGTTACTTGAGCAAGC
AAAAGCTTCTGGCATTTCGATGCCGGAGGCTTTACTCAGTTCTGGCTTTTTCCAATCACATGAATTGACTGAGCACCTTA
GCTCCATCTTTGGGCTTTCCTGCACATCACTCAGTCAGTATGAGTACTCGTCGCTGTGTCAAAAGCTTGGCTTGCGCGAT
CTGATCACTCGACATAATGCCTTGCCACTCAATCGCACATCTTCGACATTAATACTCGCAGTTGCAGACCCAACTAACTT
GCAAGCGGAAGATGACTTTCGTTTTGCTACCGGTTTACAAGTCGAGCTTGTTCTGGCGGACTTTAAAGAACTCACCGCAG
CCATTCGTCGTTTATATGGTCGTGCACTCGGTCAAGAAAAGTCCGGTCTTAAAGAAATCAACCAAGATGAACTGGCAGGT
CTCGTTGATATTGGTGAGGACGAAATTGAGAACATTGAAGATCTCAGCCAAGATGAATCGCCTGTCAGTCGTTATATTAA
CCAAATTCTGCTCGATGCCGTTCGTAAAGGGGCTTCTGATATTCACTTCGAGCCCTATGAAAACATGTATCGAGTGCGTT
TGCGTTGCGATGGCATCTTGATCGAAATTCAACAGCCTCCGAGCCATTTAAGCCGTCGCCTCTCAGCCCGAATAAAGATC
CTATCTAAGCTTGATATCGCTGAGCGCCGTTTACCACAGGATGGTCGTATCAAGCTCAAATTAAACCAAGACACCGCGAT
TGACATGCGAGTCTCCACGCTGCCAACTCTGTTTGGGGAGAAAATCGTACTGCGTTTGCTCGACAGCAGTTCTACAGCAT
TAGATATCAATAAACTCGGATACAGCGATCATCAAAAGCAATTGTATTTAGAAGCACTGCGCCGCCCACAAGGCATGATC
CTAATGACGGGACCAACGGGCAGCGGCAAAACGGTTTCTCTTTACACTGGTTTGAGCATCCTCAATAAAACCGAGATCAA
CATTTCCACCGCTGAAGACCCCGTTGAGATCAACTTACCCGGCATTAACCAAGTTCAAGTTCAACCTAAGATCGGCTTTG
GCTTTGCAGAAGCGCTTCGCTCTTTCTTACGTCAAGATCCCGATGTAGTCATGGTGGGTGAGATCCGAGATCTCGACACG
GCAGAAATCGCGATCAAAGCGTCACAAACCGGACACTTAGTCCTTTCTACCCTGCACACCAACTCCGCCGCCGAGACGGT
CATTCGCTTATCAAATATGGGGGTAGAAAGCTTTAACCTCGCATCCTCTCTTAGCTTGATCATCGCTCAGCGTTTAGCAC
GAAAGCTTTGTCCACATTGCAGACAACCTCAAGAACCTAACAGCCAACTTCAACATATTGGAATTACCAGCACTGAAGAT
ATCTTCCAAGCGAATCCTGATGGTTGTAACGAATGCACCCAAGGATACTCTGGCCGCACTGGCATTTACGAAGTGATGAA
GTTTGATGAATCCCTATCAAATGCGCTCATCAAAGGCGCTTCAGTACACGAATTAGAAAAGCTAGCGATTGCCAATGGTA
TGCAGACTCTACAAATGTCCGGCATTGAAAAGCTCAAACAAGGTGTCACCAGCTTTAGTGAGCTGCAACGTGTTCTCTAT
TTTTAA

Domains

Predicted by InterproScan.

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

(38-142)

Type II/IV secretion system protein (T2SSE)

(188-455)


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 campbellii strain DS40M4

96.435

100

0.964
  pilB Vibrio parahaemolyticus RIMD 2210633

89.483

100

0.895
  pilB Vibrio cholerae strain A1552

72.954

100

0.731
  pilB Acinetobacter baylyi ADP1

48.115

99.287

0.478
  pilB Acinetobacter baumannii D1279779

51.644

92.157

0.476
  pilB Legionella pneumophila strain ERS1305867

47.97

96.613

0.463
  pilF Neisseria gonorrhoeae MS11

43.416

100

0.435
  pilB/pilB1 Synechocystis sp. PCC 6803

37.205

100

0.394
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.918

99.465

0.367
  pilF Thermus thermophilus HB27

36.477

100

0.365

Multiple sequence alignment