Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   RFER_RS14680 Genome accession   NC_007908
Coordinates   3211403..3213136 (+) Length   577 a.a.
NCBI ID   WP_011465179.1    Uniprot ID   Q21UE0
Organism   Rhodoferax ferrireducens T118     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3206403..3218136
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RFER_RS14660 (Rfer_2898) trxA 3207214..3207546 (+) 333 WP_041790805.1 thioredoxin TrxA -
  RFER_RS14665 (Rfer_2899) rho 3207856..3209118 (+) 1263 WP_011465176.1 transcription termination factor Rho -
  RFER_RS14670 (Rfer_2900) - 3209218..3209493 (+) 276 WP_041790807.1 type B 50S ribosomal protein L31 -
  RFER_RS14675 (Rfer_2901) - 3209561..3211279 (+) 1719 WP_041790809.1 hypothetical protein -
  RFER_RS14680 (Rfer_2902) pilB 3211403..3213136 (+) 1734 WP_011465179.1 type IV-A pilus assembly ATPase PilB Machinery gene
  RFER_RS14685 (Rfer_2903) pilC 3213157..3214374 (+) 1218 WP_011465180.1 type II secretion system F family protein Machinery gene
  RFER_RS14690 (Rfer_2904) - 3214374..3215216 (+) 843 WP_011465181.1 prepilin peptidase -
  RFER_RS14695 (Rfer_2905) coaE 3215220..3215858 (+) 639 WP_011465182.1 dephospho-CoA kinase -
  RFER_RS14700 (Rfer_2906) zapD 3215864..3216622 (+) 759 WP_011465183.1 cell division protein ZapD -
  RFER_RS14705 (Rfer_2907) - 3216619..3216837 (+) 219 WP_011465184.1 DNA gyrase inhibitor YacG -
  RFER_RS14710 (Rfer_2908) - 3216877..3217344 (-) 468 WP_244095731.1 NUDIX domain-containing protein -

Sequence

Protein


Download         Length: 577 a.a.        Molecular weight: 63013.45 Da        Isoelectric Point: 6.2667

>NTDB_id=25553 RFER_RS14680 WP_011465179.1 3211403..3213136(+) (pilB) [Rhodoferax ferrireducens T118]
MTAVDTSSRESPATALPGLGRALILAGKLGQKSAEEIYRKAQSARTSFIAELTGSGAVSASDLAHTMSTAYAAPLVDMAA
IDPQRLPKGLLDVKICHDYRVVVLSKRNNRLIVATADPSDSQAAEKIKFATQLGVDWVVAEYDKLLQLVTANAITASETM
EHIIGDDFEFDEASTEALTESSDTSSSEVEDAPVVKFLHKMLLDAFSMRASDLHFEPYEHNYRVRFRIDGELREIASPPI
AIKDKLASRIKVISRMDISEKRVPQDGKMKLKIGPERVIDFRVSTLPTLFGEKIVIRILDPGSAKLGIEALGYEPEEKER
LLQAIGRPYGMILVTGPTGSGKTVSLYTCLNMLNKPGVNIATAEDPCEINLPGVNQVNVNDKAGLTFAVALKSFLRQDPD
IIMVGEIRDLETADISIKAAQTGHLVLSTLHTNDAPTTLTRMRNMGIAPFNIASSVILITAQRLARRLCPNCKTPIEIPR
KALIDAGYQDDEFQAPWISYRAVGCSMCNNGYKGRVGIYQVMPVSEEIQRIILRDGSALEIAEQAKREGVRSLRQAGLHK
AKLGLTSLEEVLAVTNE

Nucleotide


Download         Length: 1734 bp        

>NTDB_id=25553 RFER_RS14680 WP_011465179.1 3211403..3213136(+) (pilB) [Rhodoferax ferrireducens T118]
ATGACTGCTGTCGACACCTCGTCTCGAGAATCCCCCGCCACGGCCCTTCCGGGCTTGGGCCGCGCCCTCATCCTGGCGGG
GAAACTGGGGCAAAAATCAGCAGAAGAAATCTACCGCAAAGCCCAGAGCGCCCGCACCAGCTTTATTGCCGAGCTCACCG
GCTCGGGCGCTGTGTCGGCCTCTGACCTGGCGCACACCATGTCGACAGCCTATGCAGCACCGTTGGTGGACATGGCCGCC
ATTGACCCGCAACGCCTGCCCAAGGGCTTGCTGGATGTAAAAATCTGCCATGACTACCGCGTGGTGGTCTTGAGCAAACG
AAATAACAGGCTGATCGTTGCGACCGCTGACCCCTCCGACAGCCAGGCGGCCGAAAAAATCAAGTTTGCCACCCAGTTGG
GCGTTGACTGGGTCGTTGCCGAATACGACAAGCTGCTGCAACTGGTCACCGCCAACGCCATCACCGCGTCGGAAACGATG
GAGCACATCATTGGGGACGACTTCGAGTTCGATGAGGCTTCGACAGAGGCCTTGACGGAAAGCTCGGACACGTCAAGCTC
CGAAGTTGAGGACGCGCCAGTTGTCAAGTTTTTACACAAGATGCTGCTGGACGCCTTCAGCATGCGTGCGTCCGATCTGC
ACTTTGAACCGTATGAGCACAACTACCGTGTCCGCTTCCGTATTGACGGGGAACTGAGAGAGATCGCCTCGCCTCCGATT
GCCATCAAGGACAAGCTGGCGTCGCGCATCAAAGTGATTTCCAGAATGGACATCTCTGAAAAACGCGTCCCGCAAGACGG
CAAGATGAAGCTCAAGATTGGCCCGGAAAGGGTGATCGACTTCCGGGTCAGCACCTTGCCCACGCTGTTCGGCGAGAAAA
TTGTGATCCGCATACTGGACCCCGGCAGCGCCAAGCTGGGCATTGAAGCACTGGGTTACGAGCCCGAGGAAAAAGAAAGG
CTGCTGCAGGCCATTGGGCGACCGTACGGCATGATCCTGGTCACCGGGCCAACCGGCTCAGGCAAGACAGTCTCTCTGTA
CACCTGCCTGAACATGCTGAACAAGCCGGGGGTCAACATCGCGACGGCCGAAGACCCTTGCGAAATCAATTTGCCGGGCG
TTAACCAGGTTAACGTCAACGACAAAGCCGGACTCACCTTTGCGGTCGCGCTCAAATCATTTCTGAGGCAAGACCCCGAC
ATCATCATGGTCGGCGAAATTCGCGATCTTGAAACGGCTGACATCTCGATCAAGGCCGCCCAGACCGGTCACCTGGTGCT
CTCCACACTCCACACCAACGACGCACCCACCACGCTGACGCGCATGCGCAACATGGGTATTGCCCCTTTCAACATTGCGT
CCAGCGTGATCCTGATTACGGCGCAGCGGCTCGCGCGGCGCCTGTGCCCGAATTGCAAAACCCCGATCGAGATTCCCCGC
AAGGCCTTGATTGATGCCGGCTACCAGGACGATGAATTCCAGGCGCCCTGGATCAGCTACCGAGCGGTGGGTTGCTCCAT
GTGCAACAACGGCTACAAAGGACGCGTAGGTATTTATCAAGTGATGCCGGTCAGCGAGGAGATTCAACGCATCATCCTGC
GTGATGGCAGCGCGCTGGAAATCGCCGAGCAAGCCAAACGCGAAGGTGTGCGATCGCTGCGGCAGGCCGGGCTGCACAAA
GCCAAGTTGGGCCTGACTTCACTCGAAGAAGTGCTCGCCGTGACCAACGAATGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(200-467)

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

(54-149)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB Q21UE0

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

51.038

100

0.511
  pilF Neisseria gonorrhoeae MS11

52.043

97.574

0.508
  pilB Acinetobacter baylyi ADP1

52.05

97.227

0.506
  pilB Legionella pneumophila strain ERS1305867

49.912

97.92

0.489
  pilB Vibrio campbellii strain DS40M4

43.979

99.307

0.437
  pilB Vibrio parahaemolyticus RIMD 2210633

44.624

96.707

0.432
  pilB Vibrio cholerae strain A1552

46.935

90.468

0.425
  pilF Thermus thermophilus HB27

39.539

97.747

0.386
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

40.187

92.721

0.373

Multiple sequence alignment