Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   I4484_RS11880 Genome accession   NZ_CP065435
Coordinates   2524957..2526738 (+) Length   593 a.a.
NCBI ID   WP_197447505.1    Uniprot ID   -
Organism   Halomonas sp. SS10-MC5     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
Genomic island 2488708..2523982 2524957..2526738 flank 975


Gene organization within MGE regions


Location: 2488708..2526738
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  I4484_RS11715 (I4484_11715) - 2488708..2489826 (+) 1119 WP_197447480.1 glycosyltransferase -
  I4484_RS11720 (I4484_11720) - 2489784..2491001 (-) 1218 WP_234283480.1 O-antigen ligase -
  I4484_RS11725 (I4484_11725) - 2491230..2492612 (-) 1383 WP_197447481.1 undecaprenyl-phosphate glucose phosphotransferase -
  I4484_RS11730 (I4484_11730) - 2492747..2493256 (-) 510 WP_197447482.1 glycosyltransferase -
  I4484_RS11735 (I4484_11735) - 2493253..2493681 (-) 429 WP_234283479.1 oligosaccharide biosynthesis protein Alg14 -
  I4484_RS11740 (I4484_11740) - 2493678..2494568 (-) 891 WP_197447483.1 glycosyltransferase family 2 protein -
  I4484_RS11745 (I4484_11745) - 2494565..2496358 (-) 1794 WP_197447484.1 hypothetical protein -
  I4484_RS11750 (I4484_11750) - 2496394..2498616 (-) 2223 WP_197447485.1 alginate lyase family protein -
  I4484_RS11755 (I4484_11755) - 2498647..2499927 (-) 1281 WP_197447486.1 hypothetical protein -
  I4484_RS11760 (I4484_11760) - 2499920..2501437 (-) 1518 WP_197447487.1 hypothetical protein -
  I4484_RS11765 (I4484_11765) - 2501597..2504323 (-) 2727 WP_197447488.1 hypothetical protein -
  I4484_RS11770 (I4484_11770) pseI 2504536..2505588 (-) 1053 WP_197447489.1 pseudaminic acid synthase -
  I4484_RS11775 (I4484_11775) pseH 2505585..2506115 (-) 531 WP_197447490.1 UDP-4-amino-4, 6-dideoxy-N-acetyl-beta-L-altrosamine N-acetyltransferase -
  I4484_RS11780 (I4484_11780) pseG 2506281..2507354 (-) 1074 WP_368408017.1 UDP-2,4-diacetamido-2,4, 6-trideoxy-beta-L-altropyranose hydrolase -
  I4484_RS11785 (I4484_11785) pseF 2507306..2508037 (-) 732 WP_197447492.1 pseudaminic acid cytidylyltransferase -
  I4484_RS11790 (I4484_11790) pseC 2508034..2509197 (-) 1164 WP_197447493.1 UDP-4-amino-4, 6-dideoxy-N-acetyl-beta-L-altrosamine transaminase -
  I4484_RS11795 (I4484_11795) pseB 2509197..2510195 (-) 999 WP_197451016.1 UDP-N-acetylglucosamine 4,6-dehydratase (inverting) -
  I4484_RS11800 (I4484_11800) cysN 2510310..2512226 (-) 1917 WP_197447494.1 sulfate adenylyltransferase subunit CysN -
  I4484_RS11805 (I4484_11805) cysD 2512226..2513143 (-) 918 WP_197447495.1 sulfate adenylyltransferase subunit CysD -
  I4484_RS11810 (I4484_11810) cysQ 2513166..2513972 (-) 807 WP_197451017.1 3'(2'),5'-bisphosphate nucleotidase CysQ -
  I4484_RS11815 (I4484_11815) - 2514147..2514458 (-) 312 WP_234283476.1 SLC13 family permease -
  I4484_RS11820 (I4484_11820) - 2514471..2515793 (-) 1323 WP_197447496.1 UDP-glucose/GDP-mannose dehydrogenase family protein -
  I4484_RS11825 (I4484_11825) - 2515878..2517332 (-) 1455 WP_234283475.1 MBL fold metallo-hydrolase RNA specificity domain-containing protein -
  I4484_RS11830 (I4484_11830) - 2517370..2518377 (-) 1008 WP_197447497.1 NAD-dependent epimerase -
  I4484_RS11835 (I4484_11835) - 2518797..2519294 (-) 498 WP_197447498.1 hypothetical protein -
  I4484_RS11840 (I4484_11840) - 2519302..2519598 (-) 297 WP_234283474.1 hypothetical protein -
  I4484_RS11845 (I4484_11845) - 2519934..2520803 (+) 870 WP_197447499.1 AraC family transcriptional regulator -
  I4484_RS11850 (I4484_11850) - 2520863..2521246 (-) 384 WP_197447500.1 histone-like nucleoid-structuring protein, MvaT/MvaU family -
  I4484_RS11855 (I4484_11855) - 2521641..2522345 (+) 705 WP_197447501.1 Crp/Fnr family transcriptional regulator -
  I4484_RS11860 (I4484_11860) - 2522384..2522911 (-) 528 WP_197447502.1 HPP family protein -
  I4484_RS11865 (I4484_11865) - 2523168..2523686 (-) 519 WP_197447503.1 anti-virulence regulator CigR family protein -
  I4484_RS11870 (I4484_11870) - 2523758..2523982 (+) 225 WP_197447504.1 hypothetical protein -
  I4484_RS20980 - 2524185..2524571 (-) 387 WP_276574188.1 pilin -
  I4484_RS11880 (I4484_11880) pilB 2524957..2526738 (+) 1782 WP_197447505.1 type IV-A pilus assembly ATPase PilB Machinery gene

Sequence

Protein


Download         Length: 593 a.a.        Molecular weight: 65133.60 Da        Isoelectric Point: 5.6737

>NTDB_id=509643 I4484_RS11880 WP_197447505.1 2524957..2526738(+) (pilB) [Halomonas sp. SS10-MC5]
MNDYRTAPVGAHETASQQRAADTEGLRGFTRRLVEYELLSRAAAERAEHEAREAETSLLQHVIDTGLVTARQGTLCAAWE
YGLPLVDLDALRLASLPPASEYPEKLLRKLCVVPLSRRSHRLTVAVPFPSTLALLDELQFATGLSIEAVLCPVDQLMPVL
EAYLAQHDSSMMNELAGVDDAVSELEFEDGVDISDERAIDAAQSGADDAPIVKFVNKILLDAIRRGASDIHFEPYETSYR
VRMRVDGMLMEAARPPFAMRSRIAARLKVMARLDISERRLPQDGAIKLKVSKTRSIDFRVNSLPTVYGEKIVLRILDPTS
AQIGIDALGFTPEQRALYEGVLDHPQGMILVTGPTGSGKTVTLYTGLNILNEVQRNICTAEDPVEIKVPGVNQVNVLPKI
GLDFASALRAFLRQDPDVVMVGEIRDLETAEIAVKASQTGHLVLSTVHTNSAAETLTRLANMGVPPFNIASSVSLIIAQR
LARRLCKHCRQEAELPREALLQEGFTEQEVNSATVYEAVGCKHCTHGYKGRVGIYEVVPISNAMSQLIMRNGNSMDFDSL
ARQEGHPDLRRSGLLKVMQGITSLTEVNRVTKD

Nucleotide


Download         Length: 1782 bp        

>NTDB_id=509643 I4484_RS11880 WP_197447505.1 2524957..2526738(+) (pilB) [Halomonas sp. SS10-MC5]
ATGAACGACTATCGAACGGCACCGGTCGGTGCTCATGAGACAGCCAGCCAGCAGCGTGCGGCCGATACCGAGGGGCTGCG
CGGTTTCACTCGCCGGCTGGTGGAGTACGAGCTGCTGTCCCGTGCGGCCGCCGAGCGGGCCGAGCACGAGGCGCGCGAGG
CGGAAACCAGCCTGCTGCAGCATGTGATCGACACCGGCCTGGTCACGGCCCGCCAGGGCACGCTGTGCGCGGCATGGGAG
TACGGCCTGCCGCTGGTGGACCTGGACGCGCTGCGCCTGGCGAGCCTGCCTCCGGCCAGTGAGTACCCCGAGAAGCTGCT
GCGCAAGCTGTGTGTCGTGCCGCTCAGCCGCCGCAGCCACCGTCTGACCGTGGCGGTGCCCTTCCCCTCCACCCTGGCCC
TGCTCGATGAGCTACAGTTCGCCACCGGGCTGAGCATCGAGGCCGTGCTCTGCCCGGTGGATCAACTGATGCCGGTGCTC
GAGGCCTACCTGGCCCAGCACGACTCGAGCATGATGAACGAGCTGGCCGGCGTGGACGATGCGGTCAGCGAGCTGGAATT
CGAGGATGGCGTCGACATCAGCGACGAGCGCGCCATCGACGCCGCCCAGAGCGGTGCCGACGATGCGCCGATCGTCAAGT
TCGTCAACAAGATCCTGCTGGATGCCATACGCCGCGGCGCTTCGGACATCCATTTCGAGCCCTACGAGACCAGTTACCGG
GTGCGCATGCGCGTGGATGGCATGTTGATGGAGGCGGCTCGCCCGCCCTTCGCCATGCGATCGCGAATTGCCGCGCGCCT
GAAGGTGATGGCGCGGCTGGACATTTCCGAGCGCCGCCTGCCGCAGGACGGCGCGATCAAGCTGAAGGTTTCGAAGACCC
GCTCGATCGACTTCCGCGTGAACTCGCTGCCGACCGTGTACGGCGAAAAGATCGTGCTGCGTATCCTCGACCCCACCTCG
GCGCAGATCGGCATCGATGCGCTGGGCTTCACGCCGGAGCAGCGCGCACTCTACGAAGGCGTGCTGGACCACCCCCAGGG
CATGATTCTGGTCACCGGCCCTACCGGCAGCGGCAAGACGGTGACGCTCTATACCGGCCTGAACATCCTCAACGAGGTGC
AGCGTAACATCTGTACCGCCGAGGACCCGGTCGAGATCAAGGTGCCCGGGGTCAACCAGGTCAACGTGCTGCCCAAGATC
GGGCTCGACTTCGCCAGCGCGCTGCGCGCCTTCCTGCGCCAGGACCCGGACGTGGTGATGGTGGGTGAGATCCGCGACCT
CGAGACCGCCGAGATCGCCGTCAAGGCATCGCAGACCGGCCACCTGGTGCTCTCCACGGTGCACACCAACTCCGCCGCGG
AGACCCTGACCCGGCTGGCCAACATGGGCGTGCCGCCGTTCAACATCGCCAGCTCCGTGAGCCTGATCATCGCCCAGCGC
CTGGCCCGGCGGCTGTGCAAGCACTGCCGCCAGGAGGCCGAGCTGCCCCGCGAGGCGCTGCTGCAGGAGGGCTTCACCGA
ACAGGAGGTGAATAGTGCCACGGTGTACGAAGCCGTAGGCTGCAAGCACTGCACCCACGGCTACAAGGGGCGTGTGGGCA
TCTATGAAGTGGTACCGATCAGCAACGCCATGAGCCAGTTGATCATGCGCAACGGCAATTCGATGGATTTCGACAGCCTG
GCGCGCCAGGAGGGCCACCCGGACCTGCGCCGCAGCGGGCTGTTGAAGGTGATGCAGGGCATCACTAGCCTGACCGAGGT
CAATCGGGTCACGAAGGATTAA

Domains

Predicted by InterproScan.

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

(69-166)

Type II/IV secretion system protein (T2SSE)

(217-484)


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 Legionella pneumophila strain ERS1305867

54.021

96.459

0.521
  pilB Acinetobacter baylyi ADP1

52.993

95.784

0.508
  pilB Acinetobacter baumannii D1279779

52.289

95.784

0.501
  pilB Vibrio cholerae strain A1552

49.107

94.435

0.464
  pilB Vibrio campbellii strain DS40M4

47.928

93.592

0.449
  pilF Neisseria gonorrhoeae MS11

46.503

96.459

0.449
  pilB Vibrio parahaemolyticus RIMD 2210633

47.473

93.423

0.444