Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   RNT40_RS05495 Genome accession   NZ_CP135236
Coordinates   1211211..1212953 (-) Length   580 a.a.
NCBI ID   WP_034364744.1    Uniprot ID   A0AAX3SVK0
Organism   Delftia tsuruhatensis strain HA60     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1206211..1217953
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RNT40_RS05465 (RNT40_05465) - 1206793..1207299 (+) 507 WP_126310903.1 NUDIX domain-containing protein -
  RNT40_RS05470 (RNT40_05470) - 1207310..1207564 (-) 255 WP_016451023.1 DNA gyrase inhibitor YacG -
  RNT40_RS05475 (RNT40_05475) zapD 1207564..1208319 (-) 756 WP_016445607.1 cell division protein ZapD -
  RNT40_RS05480 (RNT40_05480) coaE 1208409..1209047 (-) 639 WP_016445608.1 dephospho-CoA kinase -
  RNT40_RS05485 (RNT40_05485) pilD 1209062..1209955 (-) 894 WP_016445609.1 A24 family peptidase Machinery gene
  RNT40_RS05490 (RNT40_05490) pilC 1209955..1211172 (-) 1218 WP_047326532.1 type II secretion system F family protein Machinery gene
  RNT40_RS05495 (RNT40_05495) pilB 1211211..1212953 (-) 1743 WP_034364744.1 type IV-A pilus assembly ATPase PilB Machinery gene
  RNT40_RS05505 (RNT40_05505) - 1213190..1214119 (-) 930 WP_043789750.1 polyprenyl synthetase family protein -
  RNT40_RS05510 (RNT40_05510) rplU 1214350..1214661 (+) 312 WP_012207284.1 50S ribosomal protein L21 -
  RNT40_RS05515 (RNT40_05515) rpmA 1214677..1214934 (+) 258 WP_012207283.1 50S ribosomal protein L27 -
  RNT40_RS05520 (RNT40_05520) cgtA 1215084..1216199 (+) 1116 WP_016451026.1 Obg family GTPase CgtA -
  RNT40_RS05525 (RNT40_05525) proB 1216283..1217431 (+) 1149 WP_126310902.1 glutamate 5-kinase -

Sequence

Protein


Download         Length: 580 a.a.        Molecular weight: 62761.81 Da        Isoelectric Point: 5.1481

>NTDB_id=886252 RNT40_RS05495 WP_034364744.1 1211211..1212953(-) (pilB) [Delftia tsuruhatensis strain HA60]
MAVADSSLKNASAVASLPGIGRALISAGKVSQQAAEAAAGKAATNRTSFIAELSVAGTLSALEVAETVSTMFSAPLLDLD
AVDAMRLPQDLLDAKIISTYRVLPLSKRGNRLTVATADPTQQEAAEQIKFTTQLGVDWIIVEADKLERLIAQQNKSASEA
MDSYGGSGDFEFGDLKPDEVAEEKDNSAAADVEDAPIVKFLHKMLLDAFNMRASDLHFEPYEHQYRVRFRIDGELREIAS
PPIAIKEKLASRIKVISRMDISEKRVPQDGRMKLKVGPDRVIDFRVSTLPTLFGEKIVIRILDPSSARMGIDALGYEPEE
KARLLEAISRPYGMILVTGPTGSGKTVSLYTCLNLLNKAGVNIATAEDPSEINLPGVNQVNVNEKAGLTFATALKAFLRQ
DPDIIMVGEIRDLETADISIKAAQTGHLVLSTLHTNDAPTTLTRMRNMGIAPFNIASSVILITAQRLARRLCPQCKEPAD
IPREALIDAGYDDADIDGSWVTYRPVGCPACNNGYKGRVGIYQVMPISEEIQRIILQDGSALEIAAQAKREGVRSLRGSG
LHKARQGLTSLEEVLAVTNE

Nucleotide


Download         Length: 1743 bp        

>NTDB_id=886252 RNT40_RS05495 WP_034364744.1 1211211..1212953(-) (pilB) [Delftia tsuruhatensis strain HA60]
ATGGCTGTTGCTGACTCCTCGCTCAAGAATGCATCCGCTGTCGCATCGCTTCCCGGCATCGGGCGGGCCTTGATTTCAGC
AGGCAAGGTATCGCAACAGGCAGCGGAAGCGGCTGCCGGCAAGGCCGCCACCAATCGCACCTCGTTCATTGCAGAACTGA
GCGTCGCCGGCACCCTCTCTGCCCTGGAAGTGGCGGAGACGGTTTCCACCATGTTCAGCGCGCCGCTGCTCGATCTTGAT
GCGGTCGACGCCATGCGCCTGCCGCAGGATCTGCTGGACGCCAAGATCATCAGCACCTATCGCGTCCTGCCTCTGAGCAA
GCGCGGCAACCGCCTCACGGTGGCCACCGCCGACCCGACGCAGCAGGAAGCCGCCGAGCAGATCAAGTTCACCACCCAGT
TGGGCGTGGACTGGATCATCGTCGAGGCCGACAAGCTGGAGCGGCTGATCGCGCAGCAGAACAAAAGCGCCAGCGAGGCC
ATGGACAGCTATGGCGGCAGCGGCGACTTCGAGTTCGGCGACCTCAAGCCTGATGAGGTGGCAGAGGAAAAGGACAACTC
GGCCGCAGCAGACGTCGAAGATGCGCCCATCGTCAAGTTCCTGCACAAAATGCTGCTCGACGCCTTCAACATGCGCGCGT
CGGACTTGCATTTCGAACCCTACGAGCACCAGTACCGCGTGCGCTTTCGCATTGACGGCGAGTTGCGTGAAATTGCATCG
CCGCCCATTGCCATCAAGGAGAAGCTGGCCTCGCGCATCAAGGTGATCTCGCGCATGGACATCTCGGAAAAGCGTGTCCC
GCAGGACGGGCGCATGAAGCTCAAGGTCGGCCCGGACCGCGTCATCGACTTTCGCGTCAGCACGCTGCCCACGCTTTTCG
GCGAGAAGATCGTGATCCGTATCCTGGACCCGAGCTCGGCCAGGATGGGCATCGACGCCCTGGGCTATGAACCCGAGGAG
AAGGCACGCCTGCTTGAAGCCATCAGCCGCCCCTACGGAATGATTCTGGTCACAGGCCCCACCGGCTCTGGCAAGACAGT
GTCGCTGTACACCTGCCTGAACCTGCTGAACAAGGCCGGCGTGAACATCGCCACGGCGGAAGATCCTTCGGAAATCAACC
TGCCCGGCGTCAACCAGGTCAATGTGAACGAAAAGGCCGGCCTCACCTTTGCCACTGCGCTCAAGGCTTTTCTACGCCAG
GATCCCGACATCATCATGGTCGGTGAAATCCGCGATCTGGAAACCGCCGACATCTCGATCAAGGCAGCGCAAACCGGCCA
CTTGGTGCTGTCCACCCTGCACACCAATGACGCACCGACCACGTTGACGCGCATGCGCAACATGGGCATTGCGCCCTTCA
ACATCGCATCGAGCGTGATCCTGATCACCGCCCAGCGCCTGGCCAGGCGCCTGTGCCCTCAATGCAAGGAGCCGGCTGAC
ATTCCGCGGGAGGCCCTGATCGATGCAGGCTACGACGATGCGGACATTGACGGCAGCTGGGTCACCTACAGGCCCGTCGG
CTGTCCGGCATGCAACAACGGCTACAAGGGCCGCGTAGGCATCTATCAGGTGATGCCTATCAGCGAGGAAATCCAGCGCA
TCATCCTGCAGGACGGCAGTGCGCTGGAGATTGCCGCACAGGCCAAGCGCGAAGGCGTGCGGTCGCTGCGTGGATCGGGT
TTGCACAAGGCCAGACAGGGACTGACCTCGCTCGAAGAAGTGCTGGCAGTCACCAATGAGTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(203-470)

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

(57-153)


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

56.206

97.241

0.547
  pilB Acinetobacter baylyi ADP1

55.712

98.103

0.547
  pilF Neisseria gonorrhoeae MS11

52.12

97.586

0.509
  pilB Legionella pneumophila strain ERS1305867

49.736

98.103

0.488
  pilB Vibrio cholerae strain A1552

46.679

96.034

0.448
  pilB Vibrio campbellii strain DS40M4

44.248

97.414

0.431
  pilB Vibrio parahaemolyticus RIMD 2210633

47.036

90.172

0.424
  pilF Thermus thermophilus HB27

38.889

99.31

0.386
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

43.21

83.793

0.362