Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   PBPR_RS16275 Genome accession   NC_006370
Coordinates   3636612..3638297 (+) Length   561 a.a.
NCBI ID   WP_041394533.1    Uniprot ID   -
Organism   Photobacterium profundum SS9     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3631612..3643297
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PBPR_RS16255 (PBPRA3197) pdhR 3633170..3633943 (-) 774 WP_011219757.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  PBPR_RS16260 (PBPRA3198) ampD 3634275..3634832 (-) 558 WP_011219758.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  PBPR_RS16265 (PBPRA3199) nadC 3635008..3635898 (+) 891 WP_041394824.1 carboxylating nicotinate-nucleotide diphosphorylase -
  PBPR_RS16270 (PBPRA3200) pilA 3636200..3636607 (+) 408 WP_011219760.1 pilin Machinery gene
  PBPR_RS16275 (PBPRA3201) pilB 3636612..3638297 (+) 1686 WP_041394533.1 type IV-A pilus assembly ATPase PilB Machinery gene
  PBPR_RS16280 (PBPRA3202) pilC 3638397..3639617 (+) 1221 WP_011219762.1 type II secretion system F family protein Machinery gene
  PBPR_RS16285 (PBPRA3203) pilD 3639765..3640664 (+) 900 WP_011219763.1 prepilin peptidase Machinery gene
  PBPR_RS16290 (PBPRA3204) coaE 3640667..3641269 (+) 603 WP_011219764.1 dephospho-CoA kinase -
  PBPR_RS16295 (PBPRA3205) zapD 3641324..3642061 (+) 738 WP_011219765.1 cell division protein ZapD -
  PBPR_RS16300 (PBPRA3206) yacG 3642070..3642285 (+) 216 WP_041394534.1 DNA gyrase inhibitor YacG -
  PBPR_RS16305 (PBPRA3207) mutT 3642309..3642728 (-) 420 WP_011219767.1 8-oxo-dGTP diphosphatase MutT -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62548.42 Da        Isoelectric Point: 5.3788

>NTDB_id=23892 PBPR_RS16275 WP_041394533.1 3636612..3638297(+) (pilB) [Photobacterium profundum SS9]
MQTNLASILHQADLISLVQEQNVVDTVHAEGINVPSALTRLGIFSDSELARHIELIFAIALIDIHQYDYAECCKKVYQRE
LVLRHRAIPLQFNDTSLFLGISDPTNLDAQDEFRFATGKNVELLLLDNKQLESAIRRIYGSDVGETEHARDISNQDLNNL
VDISEGEIDDTTDLSRDSAPVTRYINQILLEAVRKKASDIHFEPYEESYRIRFRCDGILHQHATPPTTLSRRLSTRLKVM
SKLNIAERRKPQDGRIKLKLTPTLAIDLRVSSLPTLWGEKVVLRILDSSAASLDIDILGYNDKQKHDYLAALAQPQGMIL
MTGPTGSGKTVSLYTGLKILNTEELNISTAEDPVEINLPGINQVHINTQVGLNFSDALRSFLRQDPDVVMVGEIRDIETA
AIAVKAAQTGHLLLSTLHTNSAAETITRLTNMGIEDFNLASSLSLIIAQRLARRLCPYCKEVHDLDVLTRDKFEIPADSL
IYKASERGCDDCNKGYLGRVGIYEVMPFSPELAQALVAGASTLELERIACQQGMQRLQQSGIEKLMAGTTSLIELQRILH
Y

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=23892 PBPR_RS16275 WP_041394533.1 3636612..3638297(+) (pilB) [Photobacterium profundum SS9]
GTGCAAACCAACCTCGCTTCAATTTTGCATCAGGCTGATTTAATCAGCTTGGTGCAAGAGCAAAACGTGGTCGATACCGT
TCATGCAGAAGGCATTAACGTGCCTTCTGCGTTAACGCGTTTGGGCATATTCAGCGACAGTGAACTTGCTCGCCATATCG
AACTCATTTTTGCCATCGCGCTGATTGATATTCACCAGTACGATTACGCAGAGTGCTGTAAAAAAGTCTATCAACGTGAA
TTGGTATTGCGCCATCGGGCAATTCCGCTGCAATTTAACGATACCAGCCTATTTCTGGGCATTAGCGACCCCACTAACTT
AGATGCACAAGACGAGTTTCGTTTTGCTACCGGCAAAAATGTTGAACTGCTGCTGTTAGACAATAAGCAGCTAGAAAGCG
CTATTCGACGCATTTACGGCAGTGACGTCGGTGAAACCGAACACGCGCGCGATATCAGTAACCAAGATTTAAACAACTTG
GTCGATATTAGCGAAGGGGAAATTGACGACACCACAGATTTGAGCCGAGACAGCGCCCCCGTTACCCGCTATATCAACCA
AATATTGCTAGAGGCAGTACGTAAAAAAGCCTCTGACATTCATTTTGAACCCTATGAAGAAAGCTACCGGATCCGTTTTC
GCTGCGATGGTATTTTGCATCAACATGCTACCCCACCCACGACGTTATCGCGCCGCTTATCGACCCGTTTAAAGGTAATG
TCGAAGCTCAATATTGCCGAGCGCCGTAAACCTCAAGATGGGCGTATTAAGCTGAAATTAACCCCAACGCTAGCGATTGA
TCTGCGAGTATCATCGCTGCCAACGTTATGGGGTGAAAAGGTGGTACTGCGGATCCTTGATAGCTCAGCCGCCAGTTTAG
ACATTGATATTCTGGGTTATAACGACAAACAAAAGCACGACTACCTTGCCGCATTAGCACAACCACAAGGCATGATCTTA
ATGACCGGGCCAACAGGCAGCGGTAAAACCGTTTCGCTATATACCGGGCTGAAAATTCTTAATACCGAAGAGCTCAATAT
TTCCACCGCTGAAGATCCGGTCGAGATCAACCTGCCGGGCATTAACCAAGTTCATATCAATACCCAAGTTGGGCTCAACT
TTTCTGATGCGCTACGATCGTTTCTTCGCCAAGATCCAGATGTGGTGATGGTCGGTGAAATACGAGACATAGAAACCGCA
GCAATTGCAGTAAAAGCCGCCCAAACTGGTCACTTGTTACTCTCGACCTTGCATACCAATTCTGCCGCCGAAACCATTAC
GCGTTTAACCAATATGGGCATTGAAGATTTTAACCTCGCGTCGTCACTCAGTTTAATCATCGCCCAGCGTTTAGCACGGC
GCTTATGCCCGTACTGTAAAGAAGTACATGATCTTGATGTCCTCACCAGAGACAAATTTGAGATACCAGCAGACAGCCTA
ATTTATAAAGCCAGCGAACGAGGCTGTGATGATTGCAATAAAGGCTATCTAGGGCGGGTTGGCATCTATGAAGTCATGCC
ATTTAGCCCAGAACTCGCCCAAGCACTCGTCGCGGGCGCATCGACCCTAGAGCTTGAACGTATTGCCTGCCAGCAAGGTA
TGCAGCGATTACAACAATCTGGCATAGAAAAATTAATGGCGGGCACCACCAGCTTAATCGAACTACAGCGAATACTGCAT
TACTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(187-454)

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 cholerae strain A1552

61.032

100

0.611
  pilB Vibrio parahaemolyticus RIMD 2210633

60.32

100

0.604
  pilB Vibrio campbellii strain DS40M4

59.431

100

0.595
  pilB Acinetobacter baylyi ADP1

51.619

93.583

0.483
  pilB Legionella pneumophila strain ERS1305867

49.908

96.435

0.481
  pilB Acinetobacter baumannii D1279779

50.573

93.405

0.472
  pilF Neisseria gonorrhoeae MS11

43.694

100

0.438
  pilB/pilB1 Synechocystis sp. PCC 6803

40

94.474

0.378

Multiple sequence alignment