Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   RHO12_RS11110 Genome accession   NZ_CP133960
Coordinates   2518787..2519947 (-) Length   386 a.a.
NCBI ID   WP_392561659.1    Uniprot ID   -
Organism   Orbus sturtevantii strain lpD02     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2513787..2524947
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RHO12_RS11080 (RHO12_11055) tsaD 2514087..2515106 (-) 1020 WP_392561653.1 tRNA (adenosine(37)-N6)-threonylcarbamoyltransferase complex transferase subunit TsaD -
  RHO12_RS11085 (RHO12_11060) yacG 2515103..2515327 (-) 225 WP_392561654.1 DNA gyrase inhibitor YacG -
  RHO12_RS11090 (RHO12_11065) - 2515369..2516118 (-) 750 WP_392561655.1 cell division protein ZapD -
  RHO12_RS11095 (RHO12_11070) coaE 2516120..2516737 (-) 618 WP_392561656.1 dephospho-CoA kinase -
  RHO12_RS11100 (RHO12_11075) - 2516843..2517601 (-) 759 WP_392561657.1 prepilin peptidase -
  RHO12_RS11105 (RHO12_11080) hofC 2517601..2518794 (-) 1194 WP_392561658.1 protein transport protein HofC -
  RHO12_RS11110 (RHO12_11085) pilB 2518787..2519947 (-) 1161 WP_392561659.1 ATPase, T2SS/T4P/T4SS family Machinery gene
  RHO12_RS11115 (RHO12_11090) ppdD 2519953..2520405 (-) 453 WP_392561660.1 prepilin peptidase-dependent pilin -
  RHO12_RS11120 (RHO12_11095) ampD 2520580..2521119 (+) 540 WP_392561661.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  RHO12_RS11125 (RHO12_11100) - 2521265..2521531 (+) 267 WP_392561662.1 YqcC family protein -
  RHO12_RS11130 (RHO12_11105) - 2521521..2522930 (-) 1410 WP_392561663.1 sodium:proton antiporter -
  RHO12_RS11135 (RHO12_11110) ndk 2523143..2523571 (+) 429 WP_392561664.1 nucleoside-diphosphate kinase -
  RHO12_RS11140 (RHO12_11115) raiA 2523626..2523952 (-) 327 WP_392561665.1 ribosome-associated translation inhibitor RaiA -

Sequence

Protein


Download         Length: 386 a.a.        Molecular weight: 43613.80 Da        Isoelectric Point: 8.3145

>NTDB_id=878046 RHO12_RS11110 WP_392561659.1 2518787..2519947(-) (pilB) [Orbus sturtevantii strain lpD02]
MTNYSDLEIIELVNKLLNDALLQRASDIHFEPYQEEYRIRMRIDGVLQLMSVLPILLVKPLTVRLKIMAKLNIAEQRLPQ
DGQLLNDKQAMRISTIPTLYGEKIVLRIMEQQQNIFLLEQLGLSEYEQYHYRQALNNPQGLILVTGPTGSGKTITLYSGL
KEINNNSRNICSVEDPVEMPVIGINQTQVNPKAGLDFAKTLRAFLRQDPDVIMIGEIRDQETAEIAIQASQTGHLVLSTL
HTNSSAEALIRLNQMGIKRYLIAASLKLIIAQRLARKLCHHCKILADEKFIVEENNAPTFYAHYLAKGCQHCIGGYYGRI
GLYELFIITPQIQTLLASNDNFSLHNIQQIMKKHKIKTLYLSGVGLVKQGLTSLAEIQRVLGSINE

Nucleotide


Download         Length: 1161 bp        

>NTDB_id=878046 RHO12_RS11110 WP_392561659.1 2518787..2519947(-) (pilB) [Orbus sturtevantii strain lpD02]
ATGACAAACTATAGCGATCTTGAAATTATAGAGTTAGTTAACAAACTCTTAAATGATGCACTACTCCAGCGAGCATCAGA
TATTCACTTCGAACCTTATCAAGAGGAGTACCGAATCCGCATGCGCATTGATGGGGTATTGCAACTTATGAGCGTGCTAC
CGATTTTACTTGTAAAACCCTTGACTGTTCGCTTGAAAATTATGGCAAAGCTTAATATTGCAGAGCAACGTTTACCACAA
GATGGTCAACTTCTGAACGATAAACAAGCTATGCGTATATCGACAATTCCTACCCTATACGGTGAAAAAATTGTCTTACG
AATAATGGAGCAGCAGCAAAATATCTTCTTACTCGAACAACTTGGTTTATCTGAATATGAACAATATCATTATCGACAGG
CTTTAAACAATCCTCAAGGGCTTATTTTAGTTACTGGCCCTACAGGCAGTGGAAAAACAATTACCCTTTATAGTGGACTT
AAGGAGATCAATAATAATTCACGCAATATTTGTAGCGTTGAAGACCCTGTTGAAATGCCTGTTATAGGTATAAATCAGAC
ACAAGTAAATCCAAAGGCTGGATTAGATTTTGCTAAAACGTTACGTGCATTTTTAAGGCAAGATCCTGATGTTATTATGA
TTGGTGAAATTCGCGATCAAGAGACTGCAGAAATTGCTATACAAGCCTCACAAACAGGGCATTTAGTATTATCGACGCTA
CATACTAACTCTAGTGCAGAAGCATTAATTCGTCTCAATCAAATGGGAATTAAGCGTTATTTAATTGCAGCGAGTTTAAA
ACTCATCATTGCCCAGCGATTAGCCAGAAAATTATGTCATCATTGTAAAATTCTTGCTGACGAAAAATTTATAGTTGAAG
AAAATAACGCCCCTACCTTTTATGCTCATTATTTAGCTAAAGGATGCCAACACTGTATTGGCGGTTATTATGGCCGGATT
GGGCTTTATGAATTATTCATAATAACACCTCAAATTCAAACTTTACTCGCCTCCAACGATAATTTTTCTTTGCATAATAT
CCAGCAAATAATGAAAAAACATAAAATTAAAACACTCTATTTATCTGGTGTCGGGTTAGTTAAACAAGGTTTGACTTCGT
TAGCAGAAATACAACGTGTATTAGGTTCAATCAATGAATAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(15-277)


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

49.612

100

0.497
  pilB Legionella pneumophila strain ERS1305867

48.964

100

0.49
  pilB Vibrio parahaemolyticus RIMD 2210633

50.266

97.409

0.49
  pilB Vibrio campbellii strain DS40M4

50

97.927

0.49
  pilB Acinetobacter baumannii D1279779

47.656

99.482

0.474
  pilB Acinetobacter baylyi ADP1

47.656

99.482

0.474
  pilB Glaesserella parasuis strain SC1401

45.337

100

0.453
  pilB Haemophilus influenzae Rd KW20

44.648

99.223

0.443
  pilF Neisseria gonorrhoeae MS11

43.669

100

0.438
  pilB/pilB1 Synechocystis sp. PCC 6803

42.462

100

0.438
  pilB Haemophilus influenzae 86-028NP

43.864

99.223

0.435
  pilF Thermus thermophilus HB27

42.597

99.741

0.425
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

42.01

100

0.422
  ctsE Campylobacter jejuni subsp. jejuni 81-176

39.153

97.927

0.383