Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   RXV79_RS21540 Genome accession   NZ_CP136336
Coordinates   4573487..4575208 (+) Length   573 a.a.
NCBI ID   WP_316700143.1    Uniprot ID   -
Organism   Piscinibacter gummiphilus strain SBD 7-3     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4568487..4580208
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RXV79_RS21505 (RXV79_21505) - 4568526..4569116 (+) 591 WP_296727616.1 RNA pyrophosphohydrolase -
  RXV79_RS21510 (RXV79_21510) proB 4569120..4570238 (-) 1119 WP_316700140.1 glutamate 5-kinase -
  RXV79_RS21515 (RXV79_21515) cgtA 4570235..4571314 (-) 1080 WP_316700141.1 Obg family GTPase CgtA -
  RXV79_RS21520 (RXV79_21520) rpmA 4571444..4571704 (-) 261 WP_201811306.1 50S ribosomal protein L27 -
  RXV79_RS21525 (RXV79_21525) rplU 4571718..4572029 (-) 312 WP_296727604.1 50S ribosomal protein L21 -
  RXV79_RS21530 (RXV79_21530) ispB 4572277..4573218 (+) 942 WP_316700142.1 octaprenyl diphosphate synthase -
  RXV79_RS21540 (RXV79_21540) pilB 4573487..4575208 (+) 1722 WP_316700143.1 type IV-A pilus assembly ATPase PilB Machinery gene
  RXV79_RS21545 (RXV79_21545) pilC 4575282..4576508 (+) 1227 WP_316700144.1 type II secretion system F family protein Machinery gene
  RXV79_RS21550 (RXV79_21550) - 4576513..4577445 (+) 933 WP_316700145.1 A24 family peptidase -
  RXV79_RS21555 (RXV79_21555) coaE 4577474..4578118 (+) 645 WP_316700146.1 dephospho-CoA kinase -
  RXV79_RS21560 (RXV79_21560) zapD 4578115..4578870 (+) 756 WP_316700147.1 cell division protein ZapD -
  RXV79_RS21565 (RXV79_21565) - 4578879..4579103 (+) 225 WP_316700148.1 DNA gyrase inhibitor YacG -

Sequence

Protein


Download         Length: 573 a.a.        Molecular weight: 62073.23 Da        Isoelectric Point: 5.4554

>NTDB_id=890081 RXV79_RS21540 WP_316700143.1 4573487..4575208(+) (pilB) [Piscinibacter gummiphilus strain SBD 7-3]
MDTLAEAPQSALSGVARVLVHAGKLNAKAAEDLVKSSKEKKSSFLSAVLAAGALTPAELAHTLSSALALPLLDLNAVDPQ
RLPRAIIDAKLAAQYQIVVLGKRGNRLFIGGADPTDQEAGERIKFATQLSPEWVIVEHDKLSKILEGAGVSATESLDNIV
GGDFEFDVSDDDVTASTETQEVTADVEDAPVVRFLQKMLIDAINARASDLHFEPYEYHYRVRFRIDGELREITQPPIAIK
DKLASRIKVISRLDIAEKRVPQDGRMKLKFGNKAIDFRVSTLPTLFGEKIVIRILDPSSAKLGIEALGYEKIEKERLLAC
ISRPYGMILVTGPTGSGKTVSLYTCLNILNQPGVNISTVEDPAEINLPGINQVNVNDKAGLTFSAALKSFLRQDPDIIMV
GEIRDLETADIAIKAAQTGHMVMSTLHTNDAPTTLTRLLNMGVAPFNIASSVLLITAQRLARRLCEACKAPAEYPREALL
KAGYTEDALDGSWRPYRAVGCSACSNGYKGRVGIYQVMPVSEEIQRIILSEGTAMDIAQQAASDGVRDLRQSGLVKVRAG
FTTLEEVISVTNE

Nucleotide


Download         Length: 1722 bp        

>NTDB_id=890081 RXV79_RS21540 WP_316700143.1 4573487..4575208(+) (pilB) [Piscinibacter gummiphilus strain SBD 7-3]
GTGGATACCCTTGCCGAAGCTCCTCAATCCGCACTGTCTGGTGTCGCGCGGGTGCTTGTGCATGCGGGCAAGCTGAATGC
CAAGGCCGCAGAAGACCTCGTCAAGTCGTCCAAGGAGAAGAAGTCCAGCTTTTTGTCGGCAGTCCTGGCTGCGGGCGCGC
TGACCCCGGCTGAGCTTGCGCATACCCTTTCCAGTGCTCTGGCCCTGCCGCTGCTGGACCTCAATGCGGTCGATCCGCAG
CGCCTTCCACGCGCGATCATCGATGCGAAGTTGGCTGCGCAGTACCAGATCGTGGTTCTGGGAAAGCGCGGCAACCGCCT
CTTCATCGGCGGTGCCGACCCGACGGATCAGGAAGCCGGCGAACGCATCAAGTTCGCCACTCAACTGTCCCCTGAGTGGG
TCATCGTCGAGCACGACAAACTTTCGAAGATCCTGGAGGGCGCAGGGGTCAGTGCCACCGAGTCCCTCGATAACATCGTC
GGCGGGGATTTCGAGTTCGACGTATCCGATGACGACGTCACCGCGAGCACCGAAACCCAAGAGGTCACGGCGGACGTCGA
AGATGCACCTGTCGTGCGCTTCCTGCAGAAGATGCTGATCGATGCGATCAATGCCCGCGCGTCCGACCTGCATTTCGAGC
CCTACGAGTATCACTATCGCGTTCGCTTTCGTATTGACGGTGAACTGCGCGAGATCACCCAGCCACCGATCGCCATCAAG
GACAAGTTGGCCTCACGCATCAAAGTGATCTCGAGGCTCGACATTGCGGAGAAACGCGTCCCTCAAGACGGGCGCATGAA
GCTGAAGTTCGGCAACAAGGCGATCGACTTCCGCGTCAGCACCCTGCCCACCCTCTTTGGCGAGAAGATCGTCATCCGTA
TCCTGGATCCGTCGAGCGCGAAACTTGGCATCGAAGCGCTGGGTTACGAAAAGATCGAGAAAGAGCGGCTGCTGGCGTGC
ATTTCACGGCCCTACGGCATGATTCTCGTGACGGGCCCGACCGGCAGCGGCAAGACCGTTTCGCTCTATACCTGCCTCAA
CATCCTCAACCAGCCTGGTGTCAACATTTCGACGGTCGAAGATCCGGCGGAAATCAACCTGCCTGGTATTAACCAGGTGA
ACGTCAACGACAAGGCCGGTTTGACCTTCTCGGCTGCCTTGAAGTCCTTTTTGCGCCAGGATCCGGACATCATCATGGTC
GGCGAAATTCGTGACCTTGAGACCGCCGACATCGCGATCAAGGCGGCACAAACTGGACACATGGTGATGTCGACGTTGCA
TACCAACGACGCTCCGACGACCCTGACCCGCTTGCTGAACATGGGCGTGGCACCGTTCAACATTGCATCCAGCGTGCTTC
TGATCACAGCGCAGCGCCTGGCCAGGCGCCTGTGCGAGGCGTGCAAGGCACCGGCCGAATACCCTCGCGAAGCGTTGCTC
AAAGCGGGCTACACGGAAGATGCGTTGGATGGCAGCTGGCGACCCTATCGCGCGGTCGGGTGTTCAGCCTGTAGCAACGG
CTACAAGGGTCGGGTCGGCATTTACCAAGTGATGCCGGTCAGTGAAGAAATTCAGCGCATCATCCTGTCAGAAGGAACTG
CGATGGACATTGCGCAACAAGCTGCGAGTGACGGCGTTCGCGATCTGCGACAGTCCGGGCTGGTCAAGGTGCGCGCAGGC
TTCACGACACTCGAAGAGGTCATCTCAGTGACCAACGAATAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(197-463)

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

(50-146)


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

54.261

100

0.545
  pilF Neisseria gonorrhoeae MS11

53.546

98.429

0.527
  pilB Acinetobacter baylyi ADP1

53.546

98.429

0.527
  pilB Legionella pneumophila strain ERS1305867

50.088

98.953

0.496
  pilB Vibrio cholerae strain A1552

45.979

99.825

0.459
  pilB Vibrio parahaemolyticus RIMD 2210633

45.855

98.953

0.454
  pilB Vibrio campbellii strain DS40M4

45.23

98.778

0.447
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.241

96.51

0.379
  pilF Thermus thermophilus HB27

37.213

98.953

0.368