Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   EUB48_RS04100 Genome accession   NZ_CP035503
Coordinates   848668..850404 (-) Length   578 a.a.
NCBI ID   WP_142817738.1    Uniprot ID   A0A515D824
Organism   Rhodoferax sediminis strain CHu59-6-5     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 843668..855404
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  EUB48_RS04070 (EUB48_04070) - 844437..844925 (+) 489 WP_142817733.1 NUDIX domain-containing protein -
  EUB48_RS04075 (EUB48_04075) - 844947..845159 (-) 213 WP_142817734.1 DNA gyrase inhibitor YacG -
  EUB48_RS04080 (EUB48_04080) zapD 845194..845949 (-) 756 WP_142821081.1 cell division protein ZapD -
  EUB48_RS04085 (EUB48_04085) coaE 845973..846581 (-) 609 WP_142817735.1 dephospho-CoA kinase -
  EUB48_RS04090 (EUB48_04090) pilD 846586..847428 (-) 843 WP_142817736.1 prepilin peptidase Machinery gene
  EUB48_RS04095 (EUB48_04095) pilC 847428..848645 (-) 1218 WP_142817737.1 type II secretion system F family protein Machinery gene
  EUB48_RS04100 (EUB48_04100) pilB 848668..850404 (-) 1737 WP_142817738.1 type IV-A pilus assembly ATPase PilB Machinery gene
  EUB48_RS04105 (EUB48_04105) - 850524..851048 (-) 525 WP_142817739.1 low molecular weight protein-tyrosine-phosphatase -
  EUB48_RS04110 (EUB48_04110) - 851142..851888 (+) 747 WP_142821082.1 ABC transporter ATP-binding protein -
  EUB48_RS04115 (EUB48_04115) - 851885..853282 (+) 1398 WP_142817740.1 ABC transporter permease -
  EUB48_RS04120 (EUB48_04120) - 853303..854073 (+) 771 WP_142817741.1 outer membrane lipoprotein-sorting protein -
  EUB48_RS04125 (EUB48_04125) - 854078..855373 (+) 1296 WP_142817742.1 hypothetical protein -

Sequence

Protein


Download         Length: 578 a.a.        Molecular weight: 62897.19 Da        Isoelectric Point: 5.3478

>NTDB_id=342889 EUB48_RS04100 WP_142817738.1 848668..850404(-) (pilB) [Rhodoferax sediminis strain CHu59-6-5]
MAVVDSIPKETSTMALPGLGRTLVSAGKLGQKSAEEIFRKSQTGRTSFIAELTGSGAVSASDLAHTMSTAYAAALLDLDA
IDTQRLPKGLLDAKICQDYRVVVLSRRGNRLIVATADPSDQQAAEKIKFATQLGVDWVIAEYDKLSRMVEANATTAAEAM
DNIIGEDFEFDEATMEAANPDSSEATVAEVEDAPVVKFLHKMLLDAFSMRASDLHFEPYEHAYRVRFRIDGELREIAAPP
VAIKDKLASRIKVISRMDISEKRVPQDGRMKLKIGADRVIDFRVSTLPTLFGEKIVIRILDPSSAKLGIEALGYEPEEKE
RLLKAISRPYGMVLVTGPTGSGKTVSLYTCLNMLNKPGVNIATAEDPSEINLPGVNQVNVNEKAGLTFAVALKSFLRQDP
DIIMVGEIRDLETADISIKAAQTGHLVLSTLHTNDAPSTLTRMRNMGIAPFNIASSVILITAQRLARRLCVACKAPVDIP
HETLVDAGFRDDEVDGSWTPYKPVGCAACNNGYKGRVGIYQVMPVSEEIQRIILRDGSALEIAEQAEREGVRSLRQSGLH
KVKMGMTSLEEVLAVTNE

Nucleotide


Download         Length: 1737 bp        

>NTDB_id=342889 EUB48_RS04100 WP_142817738.1 848668..850404(-) (pilB) [Rhodoferax sediminis strain CHu59-6-5]
ATGGCTGTCGTCGATTCAATTCCCAAGGAAACGTCCACCATGGCTTTGCCGGGGCTGGGACGCACGCTCGTTTCCGCAGG
AAAGCTTGGACAAAAATCAGCCGAGGAAATCTTTCGCAAGTCGCAGACCGGCCGCACCAGCTTCATTGCCGAGTTGACGG
GCTCCGGTGCGGTTTCTGCCTCGGATCTGGCGCACACCATGTCGACCGCCTACGCAGCGGCTTTGCTGGATCTGGATGCC
ATCGATACGCAGCGCCTGCCCAAAGGGCTGCTTGACGCCAAAATTTGCCAAGACTACCGCGTGGTCGTGCTGAGCCGGCG
CGGTAACCGCCTGATTGTGGCGACTGCCGATCCATCGGACCAGCAAGCCGCCGAAAAGATCAAGTTTGCGACCCAGCTCG
GCGTGGACTGGGTGATTGCCGAGTACGACAAGCTGTCGAGAATGGTGGAGGCCAACGCGACGACGGCGGCCGAGGCCATG
GACAACATCATTGGCGAGGACTTCGAATTTGACGAAGCCACGATGGAGGCCGCCAATCCCGACAGCAGCGAGGCCACCGT
CGCGGAAGTCGAAGACGCACCGGTCGTCAAGTTCCTGCACAAGATGCTGCTGGATGCCTTCAGCATGCGCGCCTCCGACC
TGCATTTCGAGCCGTACGAGCACGCCTACCGCGTGCGCTTTCGCATCGACGGCGAGTTGCGTGAAATCGCAGCGCCCCCT
GTGGCCATCAAGGACAAGCTGGCATCGCGCATCAAGGTGATCTCGCGCATGGATATCTCCGAGAAGCGGGTGCCGCAGGA
CGGGCGCATGAAGCTCAAGATCGGGGCCGACCGCGTGATCGACTTCCGGGTCAGCACGCTGCCCACGCTGTTCGGCGAAA
AGATCGTGATCCGTATCCTCGACCCCAGCAGCGCCAAGCTCGGCATTGAGGCGCTGGGCTATGAGCCGGAGGAAAAAGAG
CGGCTGCTCAAGGCCATCAGCCGCCCCTACGGCATGGTGCTGGTCACGGGGCCGACCGGCTCGGGCAAGACCGTGTCGCT
GTACACCTGCCTGAACATGCTCAACAAGCCGGGCGTGAACATCGCCACGGCCGAAGACCCTTCTGAAATCAACCTGCCGG
GCGTCAACCAGGTCAACGTCAACGAGAAGGCGGGACTGACCTTTGCGGTCGCCCTCAAGTCGTTTTTGCGCCAGGATCCG
GACATCATCATGGTCGGCGAAATCCGCGACCTGGAAACCGCCGACATTTCTATCAAGGCGGCACAGACCGGCCATCTGGT
GCTGTCCACGCTGCACACCAACGATGCGCCATCCACGCTCACGCGCATGCGCAACATGGGCATCGCCCCGTTCAACATCG
CCTCCAGCGTCATTTTGATCACGGCCCAGCGGCTCGCGCGCCGGCTCTGCGTGGCCTGCAAAGCGCCGGTTGACATCCCG
CATGAAACACTCGTGGACGCCGGCTTCAGGGACGACGAGGTCGACGGCTCGTGGACCCCTTACAAGCCGGTCGGGTGCGC
GGCGTGCAACAACGGCTACAAGGGTCGCGTCGGCATCTACCAGGTCATGCCGGTGAGCGAAGAAATTCAGCGCATCATCC
TGCGCGATGGCAGCGCCCTGGAAATTGCCGAGCAGGCCGAGCGCGAAGGTGTGCGCTCGTTGCGCCAGTCGGGCCTGCAC
AAGGTCAAAATGGGCATGACCTCGCTGGAGGAAGTGCTGGCCGTGACGAACGAATAA

Domains

Predicted by InterproScan.

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

(54-150)

Type II/IV secretion system protein (T2SSE)

(201-468)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A0A515D824

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

53.195

100

0.533
  pilB Acinetobacter baylyi ADP1

52.9

98.443

0.521
  pilF Neisseria gonorrhoeae MS11

52.305

97.578

0.51
  pilB Legionella pneumophila strain ERS1305867

49.474

98.616

0.488
  pilB Vibrio parahaemolyticus RIMD 2210633

44.097

99.654

0.439
  pilB Vibrio campbellii strain DS40M4

44.112

98.443

0.434
  pilB Vibrio cholerae strain A1552

46.408

89.1

0.413
  pilF Thermus thermophilus HB27

40.459

97.924

0.396
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.977

98.097

0.382

Multiple sequence alignment