Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   NMD15_RS02000 Genome accession   NZ_CP101030
Coordinates   416545..418032 (-) Length   495 a.a.
NCBI ID   WP_370598383.1    Uniprot ID   -
Organism   Plesiomonas shigelloides strain OT201     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 411545..423032
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NMD15_RS01975 (NMD15_01970) - 411925..412479 (+) 555 WP_370598381.1 YbhB/YbcL family Raf kinase inhibitor-like protein -
  NMD15_RS01980 (NMD15_01975) - 412560..413411 (-) 852 WP_370598991.1 Wzy polymerase domain-containing protein -
  NMD15_RS01985 (NMD15_01980) - 413461..414157 (+) 697 WP_171277409.1 IS1-like element IS1X2 family transposase -
  NMD15_RS01990 (NMD15_01985) - 414151..415143 (-) 993 WP_370598382.1 O-antigen ligase family protein -
  NMD15_RS01995 (NMD15_01990) - 415308..416543 (-) 1236 WP_010862603.1 type II secretion system F family protein -
  NMD15_RS02000 (NMD15_01995) pilB 416545..418032 (-) 1488 WP_370598383.1 type IV-A pilus assembly ATPase PilB Machinery gene
  NMD15_RS02005 - 418083..418502 (-) 420 WP_370598384.1 pilin -
  NMD15_RS02010 (NMD15_02010) nadC 419274..420200 (-) 927 WP_370598385.1 carboxylating nicotinate-nucleotide diphosphorylase -
  NMD15_RS02015 (NMD15_02015) ampD 420650..421255 (+) 606 WP_370598386.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  NMD15_RS02020 (NMD15_02020) ampE 421456..422298 (+) 843 WP_370598387.1 beta-lactamase regulator AmpE -

Sequence

Protein


Download         Length: 495 a.a.        Molecular weight: 54592.19 Da        Isoelectric Point: 5.4110

>NTDB_id=708243 NMD15_RS02000 WP_370598383.1 416545..418032(-) (pilB) [Plesiomonas shigelloides strain OT201]
MDLTNNLLSLCVEYKVCIKSYDDNTYYILTTDINNYKAADAFRFATGKNIELVQADKKELYARIEELTGQKVDDIVTAAD
SETLGELDELDGDSRSTDTAEVADEQDEAPIVRFINQMLSRAVRVKASDIHFEPYEKTYRVRFRIDGVLQEITAPPQKLA
QRLAARLKIMSRLDIAERRVPQDGRIKLKLSEGTTIDLRVSTLPTLFGEKVVLRILDSSAARLDIEQLGFTARDQQLYIN
ALARPQGLILVTGPTGSGKTVTLYTGLSRLNTPERNISTAEDPVEINLSGVNQTQINTRAGLTFASALRAFLRQDPDVVM
VGEIRDLETAEIAVKAAQTGHLVLSTLHTNSAAETLTRLSNMGVPAYNIASSVNLIIAQRLARRLCPHCREAITLSYAEQ
QAREFTPLQPDGITIYRAHKEGCDHCSSGYKGRTGIYEMMPMSGQLTDAILRGAHAPELTAIACQQGMLTLRQAGCAKVV
EGITSLEEIERVTGV

Nucleotide


Download         Length: 1488 bp        

>NTDB_id=708243 NMD15_RS02000 WP_370598383.1 416545..418032(-) (pilB) [Plesiomonas shigelloides strain OT201]
ATGGATCTAACAAATAATCTTTTATCTTTATGTGTTGAATATAAGGTTTGCATCAAATCCTATGATGATAACACCTACTA
TATTTTAACTACCGATATCAACAACTACAAAGCCGCCGATGCGTTTCGCTTTGCCACCGGCAAAAATATCGAACTGGTGC
AAGCGGATAAAAAAGAGCTGTATGCCCGTATTGAAGAGCTGACCGGCCAAAAAGTGGATGACATTGTTACCGCCGCCGAC
AGCGAAACCTTGGGCGAGCTTGATGAGCTCGACGGTGATAGCCGCAGCACCGACACCGCCGAAGTAGCCGATGAGCAAGA
TGAAGCGCCCATTGTGCGTTTTATCAACCAAATGCTCAGCCGCGCCGTGCGCGTGAAAGCCTCCGATATTCACTTTGAGC
CCTACGAGAAAACCTATCGGGTCCGTTTTCGTATTGATGGCGTGTTACAAGAAATCACCGCGCCACCACAAAAGCTGGCC
CAGCGCCTCGCCGCTCGCTTAAAAATCATGAGCCGGCTGGATATCGCCGAGCGTCGCGTACCACAAGATGGGCGCATCAA
GCTTAAACTGAGCGAAGGCACCACCATTGATTTACGGGTTTCCACCCTGCCCACCCTATTTGGCGAAAAGGTGGTACTGC
GAATTCTCGACTCCTCCGCCGCCCGTTTGGATATCGAGCAACTGGGCTTTACCGCCCGTGACCAACAGCTGTACATCAAT
GCCCTAGCACGTCCGCAGGGGTTGATTCTGGTTACCGGCCCAACCGGAAGCGGTAAAACCGTCACCTTGTATACCGGCTT
ATCACGCCTGAATACCCCTGAGCGCAATATCTCAACGGCGGAAGATCCGGTGGAAATCAACTTAAGCGGCGTCAACCAAA
CCCAGATTAACACCCGCGCGGGCCTGACTTTCGCCAGCGCACTGCGCGCCTTTTTACGCCAAGACCCTGACGTGGTAATG
GTGGGGGAGATTCGTGATCTGGAAACCGCCGAAATTGCGGTAAAAGCGGCACAAACTGGCCACTTGGTACTCTCAACGCT
GCACACCAACTCAGCTGCAGAAACCTTAACCCGCCTATCGAATATGGGTGTACCGGCTTACAACATCGCCTCCTCGGTGA
ATCTGATCATTGCTCAGCGGTTGGCGCGGCGTTTATGCCCGCATTGCCGTGAAGCCATCACCTTGAGCTATGCCGAACAA
CAAGCCCGTGAGTTCACCCCGCTACAACCGGATGGGATCACCATTTACCGCGCCCACAAAGAAGGCTGCGATCACTGCAG
CAGTGGCTACAAAGGGCGTACCGGTATTTACGAAATGATGCCGATGTCCGGCCAGCTGACTGATGCCATTTTGCGCGGTG
CTCATGCCCCTGAGCTCACCGCTATTGCCTGCCAACAGGGCATGCTGACCTTGCGTCAAGCCGGCTGTGCCAAAGTGGTT
GAGGGGATCACCTCATTGGAAGAAATCGAGCGCGTAACAGGAGTGTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(117-384)


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

57.95

96.566

0.56
  pilB Vibrio parahaemolyticus RIMD 2210633

57.741

96.566

0.558
  pilB Vibrio cholerae strain A1552

56.442

98.788

0.558
  pilB Acinetobacter baylyi ADP1

53.988

98.788

0.533
  pilB Acinetobacter baumannii D1279779

53.347

96.566

0.515
  pilB Legionella pneumophila strain ERS1305867

52.521

96.162

0.505
  pilF Neisseria gonorrhoeae MS11

54.66

80.202

0.438
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

41.463

99.394

0.412
  pilF Thermus thermophilus HB27

40.862

98.384

0.402
  pilB/pilB1 Synechocystis sp. PCC 6803

45.287

87.879

0.398
  pilB Haemophilus influenzae 86-028NP

39.468

98.788

0.39
  pilB Haemophilus influenzae Rd KW20

39.63

98.384

0.39
  pilB Glaesserella parasuis strain SC1401

38.136

95.354

0.364