Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   RAN89_RS07355 Genome accession   NZ_CP132507
Coordinates   1495532..1497265 (-) Length   577 a.a.
NCBI ID   WP_313868950.1    Uniprot ID   -
Organism   Rhodoferax mekongensis strain TBRC 17307     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1490532..1502265
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RAN89_RS07325 (RAN89_07330) - 1491328..1491831 (+) 504 WP_313868944.1 NUDIX domain-containing protein -
  RAN89_RS07330 (RAN89_07335) - 1491833..1492030 (-) 198 WP_313868945.1 DNA gyrase inhibitor YacG -
  RAN89_RS07335 (RAN89_07340) zapD 1492060..1492815 (-) 756 WP_313868946.1 cell division protein ZapD -
  RAN89_RS07340 (RAN89_07345) coaE 1492838..1493446 (-) 609 WP_313868947.1 dephospho-CoA kinase -
  RAN89_RS07345 (RAN89_07350) pilD 1493451..1494296 (-) 846 WP_313868948.1 A24 family peptidase Machinery gene
  RAN89_RS07350 (RAN89_07355) pilC 1494296..1495513 (-) 1218 WP_313868949.1 type II secretion system F family protein Machinery gene
  RAN89_RS07355 (RAN89_07360) pilB 1495532..1497265 (-) 1734 WP_313868950.1 type IV-A pilus assembly ATPase PilB Machinery gene
  RAN89_RS07360 (RAN89_07365) rfbC 1497372..1497920 (-) 549 WP_313868951.1 dTDP-4-dehydrorhamnose 3,5-epimerase -
  RAN89_RS07365 (RAN89_07370) rfbA 1497920..1498807 (-) 888 WP_313869357.1 glucose-1-phosphate thymidylyltransferase RfbA -
  RAN89_RS07370 (RAN89_07375) rfbD 1498822..1499727 (-) 906 WP_313868952.1 dTDP-4-dehydrorhamnose reductase -
  RAN89_RS07375 (RAN89_07380) rfbB 1499724..1500809 (-) 1086 WP_313868953.1 dTDP-glucose 4,6-dehydratase -
  RAN89_RS07380 (RAN89_07385) - 1500977..1501363 (+) 387 WP_313868954.1 type II secretion system protein -
  RAN89_RS07385 (RAN89_07390) - 1501380..1502009 (+) 630 WP_313868955.1 PEP-CTERM sorting domain-containing protein -

Sequence

Protein


Download         Length: 577 a.a.        Molecular weight: 62641.89 Da        Isoelectric Point: 5.8025

>NTDB_id=869311 RAN89_RS07355 WP_313868950.1 1495532..1497265(-) (pilB) [Rhodoferax mekongensis strain TBRC 17307]
MASADSTTRDPASVALPGIGRALVAAGKIQQKTAEDIYRKAVSGKSSFMAELVGSGAVSAGDLAQTLSNAFAAPLIDLDA
VDVQRLPKGLLDAKICTEFRVLVLSKRGNRLIIATADPSDQQAAERIKFSTQMGFDWVIAEYDKLSKMVDANTVTASEAM
EEIIGGDFEFDETAAEAATETTQAATAEVEDAPVVRFLHKMLMDAFSMRASDLHFEPYEHHYRVRFRIDGELREIASPPI
AIKDKLASRIKVISRMDISEKRVPQDGRMKLKVGADRVIDFRVSTLPTLFGEKIVIRILDPSSAKLGIDALGYEAEEKER
LLKAIGRPYGMILVTGPTGSGKTVSLYTCLNLLNQPGVNIATAEDPSEINLPGVNQVNVNEKAGLTFAAALKSFLRQDPD
IIMVGEIRDLETADISIKAAQTGHLVLSTLHTNDAPTTLTRMRNMGIQPFNIASSVILITAQRLARRLCLNCKQPADVPQ
KALLDAGFKESELDGSWKPYRAVGCSACNNGYKGRVGIYQVMPISEEIQRIILRDGSAMDIAAQSELEGVRSLRQAGLHK
VKQGLTSLEEVLAVTNE

Nucleotide


Download         Length: 1734 bp        

>NTDB_id=869311 RAN89_RS07355 WP_313868950.1 1495532..1497265(-) (pilB) [Rhodoferax mekongensis strain TBRC 17307]
ATGGCATCCGCAGACTCCACGACCCGCGACCCCGCTTCCGTAGCCCTTCCGGGCATTGGCCGGGCACTGGTAGCCGCCGG
CAAGATTCAGCAAAAAACCGCTGAAGACATTTACCGGAAAGCAGTTTCCGGCAAAAGCAGCTTTATGGCGGAGCTGGTTG
GATCGGGAGCGGTATCAGCGGGTGATCTGGCCCAGACGTTGTCGAACGCTTTCGCGGCCCCATTGATTGACCTCGATGCG
GTGGACGTGCAAAGGCTTCCCAAAGGCCTGCTCGATGCCAAGATCTGCACCGAATTCAGGGTGTTGGTTCTGAGCAAACG
GGGTAACCGGCTGATCATCGCAACCGCAGACCCCTCTGACCAGCAAGCCGCCGAGCGGATCAAGTTCTCCACCCAGATGG
GTTTTGACTGGGTCATCGCCGAGTACGACAAACTCTCCAAAATGGTTGATGCCAACACGGTGACTGCCAGCGAGGCGATG
GAAGAGATCATCGGGGGTGATTTCGAGTTTGATGAAACGGCCGCTGAAGCTGCGACCGAGACTACACAAGCCGCTACGGC
GGAAGTGGAGGACGCGCCGGTTGTCCGCTTCCTGCACAAAATGCTCATGGATGCGTTCAGCATGCGAGCTTCGGACTTGC
ATTTTGAACCCTACGAGCACCATTACCGGGTGCGCTTCCGGATTGATGGTGAGTTGCGTGAAATTGCGAGCCCGCCGATT
GCGATCAAGGACAAGCTGGCCTCCCGCATCAAGGTGATATCCCGCATGGACATCTCCGAAAAGCGGGTACCCCAGGATGG
TCGCATGAAGCTCAAGGTGGGCGCAGACCGGGTGATTGATTTCCGGGTCAGTACCCTGCCGACACTTTTCGGCGAAAAGA
TTGTGATCCGTATCCTGGACCCCAGCAGCGCAAAGCTGGGCATTGATGCCCTTGGATATGAAGCCGAAGAAAAAGAGCGT
TTGCTCAAGGCCATCGGCCGCCCCTACGGCATGATTTTGGTTACCGGGCCTACAGGTTCAGGCAAGACGGTGTCTTTGTA
CACCTGCCTGAACCTGTTGAACCAGCCGGGCGTCAACATCGCCACAGCGGAAGACCCGTCTGAAATCAACCTTCCCGGCG
TGAATCAGGTCAATGTGAATGAGAAGGCGGGCCTGACCTTTGCTGCCGCGCTGAAATCCTTCTTGCGACAGGATCCGGAC
ATCATCATGGTCGGCGAAATCCGGGATTTGGAAACCGCAGACATTTCCATCAAGGCAGCACAGACGGGGCACTTGGTACT
GTCGACACTGCACACCAACGATGCACCGACAACGCTGACCCGCATGCGCAACATGGGTATTCAGCCCTTCAACATCGCAT
CCAGCGTGATTCTGATCACGGCACAGCGGTTGGCGCGTCGCTTGTGCCTGAACTGCAAACAACCAGCAGATGTCCCCCAA
AAAGCACTGTTGGATGCGGGCTTCAAAGAGTCCGAGTTGGACGGCAGCTGGAAGCCCTACCGCGCTGTCGGGTGCTCGGC
TTGCAATAACGGCTACAAAGGTCGGGTGGGTATCTACCAGGTGATGCCGATCAGCGAGGAGATCCAACGGATCATTCTCC
GTGACGGTAGTGCCATGGACATTGCGGCCCAGTCCGAATTGGAAGGCGTGCGATCCTTGAGGCAAGCGGGCCTGCACAAA
GTGAAACAAGGGCTGACTTCGTTGGAAGAAGTACTTGCTGTGACCAACGAATAA

Domains

Predicted by InterproScan.

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

(52-150)

Type II/IV secretion system protein (T2SSE)

(200-467)


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 baumannii D1279779

54.367

97.227

0.529
  pilF Neisseria gonorrhoeae MS11

53.286

97.574

0.52
  pilB Acinetobacter baylyi ADP1

52.585

97.227

0.511
  pilB Legionella pneumophila strain ERS1305867

50.265

97.92

0.492
  pilB Vibrio campbellii strain DS40M4

43.794

97.747

0.428
  pilB Vibrio parahaemolyticus RIMD 2210633

46.198

91.161

0.421
  pilB Vibrio cholerae strain A1552

46.911

89.775

0.421
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

40.866

92.028

0.376
  pilF Thermus thermophilus HB27

37.943

97.747

0.371