Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   RHM62_RS04440 Genome accession   NZ_CP133777
Coordinates   933669..935393 (-) Length   574 a.a.
NCBI ID   WP_322124356.1    Uniprot ID   -
Organism   Actimicrobium sp. CCC2.4     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 928669..940393
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RHM62_RS04410 (RHM62_04410) - 929429..929854 (+) 426 WP_322124351.1 NUDIX domain-containing protein -
  RHM62_RS04415 (RHM62_04415) yacG 929860..930054 (-) 195 WP_322124352.1 DNA gyrase inhibitor YacG -
  RHM62_RS04420 (RHM62_04420) zapD 930080..930835 (-) 756 WP_322124353.1 cell division protein ZapD -
  RHM62_RS04425 (RHM62_04425) coaE 930927..931550 (-) 624 WP_322124354.1 dephospho-CoA kinase -
  RHM62_RS04430 (RHM62_04430) pilD 931547..932413 (-) 867 WP_322125317.1 A24 family peptidase Machinery gene
  RHM62_RS04435 (RHM62_04435) pilG 932413..933645 (-) 1233 WP_322124355.1 type II secretion system F family protein Machinery gene
  RHM62_RS04440 (RHM62_04440) pilB 933669..935393 (-) 1725 WP_322124356.1 type IV-A pilus assembly ATPase PilB Machinery gene
  RHM62_RS04445 (RHM62_04445) - 935569..936870 (-) 1302 WP_322124357.1 HlyC/CorC family transporter -
  RHM62_RS04450 (RHM62_04450) ispB 936988..937977 (-) 990 WP_322124358.1 octaprenyl diphosphate synthase -
  RHM62_RS04455 (RHM62_04455) rplU 938216..938527 (+) 312 WP_009665832.1 50S ribosomal protein L21 -
  RHM62_RS04460 (RHM62_04460) rpmA 938570..938827 (+) 258 WP_009665833.1 50S ribosomal protein L27 -
  RHM62_RS04465 (RHM62_04465) cgtA 938924..940030 (+) 1107 WP_322124359.1 Obg family GTPase CgtA -

Sequence

Protein


Download         Length: 574 a.a.        Molecular weight: 62426.20 Da        Isoelectric Point: 5.0864

>NTDB_id=876646 RHM62_RS04440 WP_322124356.1 933669..935393(-) (pilB) [Actimicrobium sp. CCC2.4]
MAAVLSNPGSNTSMSGLARALLQAGRLSALQADTLSKQAGTDKVQFIDALISSGIIDARSLANFCSETFGYPLLDFSLFN
MALRPEGVIDNKLMQSQRVIALAKRGNKISIAISDPTNTAVLDQIKFQTELTVEPVIVEHTGLLKLIELFGQSAEQSLNN
LTGDGLDIDFAIEEVAIQNDPGLADIDDAPVVKFLQKMLIDAINLGASDLHFEPFEKFYRIRFRVDGVLREIAQPPLAIK
EKLASRIKVISKLDISEKRVPQDGRMKLVLSKTRSIDFRVSTLPTLFGEKIVMRILDGSQAQMGIEALGYDPDQKDTLMK
AIQRPYGMVLVTGPTGSGKTVSLYTCLNILNQPGINIATAEDPAEINLPGVNQVNINDRAGLTFPVALKAFLRQDPDIIM
VGEIRDLETADIAIKAAQTGHMVFSTLHTNDAPSTLTRLMNMGVAPFNIASSVILITAQRLTRRLCSCKVSTDIPNEVLL
EAGFLADDLDGSWMPYKAVGCERCSGSGYKGRLGIYQIMPITEEIERVILSHGTALEIEAQAKLDGVRTLRQSGLIKVKL
GLTSLEEILGCTNE

Nucleotide


Download         Length: 1725 bp        

>NTDB_id=876646 RHM62_RS04440 WP_322124356.1 933669..935393(-) (pilB) [Actimicrobium sp. CCC2.4]
ATGGCTGCAGTGCTGTCCAACCCGGGTTCCAACACCAGCATGTCGGGACTGGCGCGCGCCCTGCTTCAGGCCGGTCGCCT
TTCAGCACTGCAAGCAGATACCCTCAGCAAGCAAGCCGGGACCGACAAAGTTCAATTCATTGATGCCCTGATCAGCTCCG
GCATTATCGATGCACGGTCCTTAGCTAATTTCTGTTCGGAGACCTTCGGCTATCCGCTCCTTGATTTCTCGCTATTCAAC
ATGGCGCTGCGACCGGAAGGCGTGATCGACAACAAGCTGATGCAAAGCCAGCGCGTCATTGCACTGGCCAAACGCGGCAA
CAAAATTTCGATCGCGATCTCGGACCCGACCAATACAGCGGTACTCGACCAGATCAAATTCCAGACCGAGCTGACGGTCG
AGCCGGTCATCGTCGAGCATACCGGTCTGCTCAAGCTGATCGAACTGTTCGGGCAAAGTGCCGAGCAAAGTCTCAACAAC
CTGACCGGCGATGGCCTCGATATCGACTTCGCCATCGAAGAAGTCGCAATTCAAAACGACCCCGGCCTGGCCGATATCGA
CGACGCGCCTGTCGTCAAGTTCCTGCAAAAAATGCTGATCGATGCGATCAACCTGGGCGCATCCGACTTGCATTTCGAAC
CCTTCGAAAAGTTTTACCGGATCCGCTTCCGCGTCGACGGCGTGCTGCGCGAGATCGCCCAGCCGCCACTGGCCATCAAG
GAAAAGCTCGCCTCGCGCATTAAGGTCATTTCCAAGCTCGATATTTCCGAGAAGCGGGTACCGCAAGACGGCCGCATGAA
GCTCGTGCTGAGCAAAACGCGCTCGATCGATTTCCGCGTCAGCACCTTGCCCACGCTGTTCGGTGAAAAAATCGTCATGC
GTATCCTCGATGGCTCGCAGGCGCAGATGGGCATCGAGGCACTCGGCTACGATCCCGATCAAAAAGATACGCTGATGAAG
GCGATCCAGCGGCCGTATGGCATGGTGTTGGTGACCGGTCCGACCGGCTCGGGCAAGACCGTCTCGCTCTACACCTGCCT
GAACATCCTGAATCAGCCCGGCATCAACATCGCCACCGCCGAAGACCCGGCCGAGATCAACCTGCCGGGCGTCAACCAGG
TCAACATCAATGACCGCGCCGGCCTGACCTTCCCGGTCGCGCTGAAAGCCTTTCTGCGCCAGGATCCGGACATCATCATG
GTCGGCGAAATCCGCGACCTCGAAACCGCCGACATTGCGATCAAGGCGGCACAAACCGGCCACATGGTGTTTTCGACACT
GCACACCAACGATGCGCCATCAACGCTGACGCGGCTCATGAACATGGGCGTGGCGCCCTTCAACATCGCCTCGTCAGTCA
TCCTGATCACCGCGCAGCGGCTGACACGCCGGCTTTGCAGCTGCAAGGTAAGCACCGATATCCCGAACGAGGTGTTACTT
GAAGCCGGCTTTCTTGCCGACGATCTCGATGGCAGCTGGATGCCCTACAAAGCGGTGGGTTGCGAGCGCTGCAGTGGTAG
CGGTTACAAGGGACGCCTTGGCATTTACCAGATCATGCCGATCACAGAAGAGATCGAACGCGTCATCCTGAGCCACGGCA
CAGCCCTTGAAATCGAAGCACAGGCCAAACTCGATGGCGTGCGTACGTTGCGTCAGTCGGGCCTGATCAAGGTAAAACTA
GGCTTGACCAGTCTCGAGGAAATCCTCGGCTGCACCAATGAATAA

Domains

Predicted by InterproScan.

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

(50-155)

Type II/IV secretion system protein (T2SSE)

(197-464)


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 Acinetobacter baylyi ADP1

53.899

100

0.542
  pilB Acinetobacter baumannii D1279779

53.46

100

0.538
  pilF Neisseria gonorrhoeae MS11

53.559

97.909

0.524
  pilB Legionella pneumophila strain ERS1305867

50.266

98.084

0.493
  pilB Vibrio cholerae strain A1552

45.979

99.652

0.458
  pilB Vibrio parahaemolyticus RIMD 2210633

44.681

98.258

0.439
  pilB Vibrio campbellii strain DS40M4

44.902

97.387

0.437
  pilF Thermus thermophilus HB27

39.212

92.857

0.364
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.764

93.031

0.361