Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilF   Type   Machinery gene
Locus tag   RD2015_RS04960 Genome accession   NZ_CP013729
Coordinates   1130341..1132065 (-) Length   574 a.a.
NCBI ID   WP_058933955.1    Uniprot ID   A0A0U3LKS8
Organism   Roseateles depolymerans strain KCTC 42856     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1125341..1137065
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RD2015_RS04930 (RD2015_995) - 1125520..1126143 (+) 624 WP_058933950.1 HAD family hydrolase -
  RD2015_RS04935 - 1126285..1126509 (-) 225 WP_058933951.1 DNA gyrase inhibitor YacG -
  RD2015_RS04940 (RD2015_997) zapD 1126625..1127380 (-) 756 WP_058933952.1 cell division protein ZapD -
  RD2015_RS04945 (RD2015_998) coaE 1127458..1128051 (-) 594 WP_198164897.1 dephospho-CoA kinase -
  RD2015_RS04950 (RD2015_999) - 1128068..1129006 (-) 939 WP_058937209.1 prepilin peptidase -
  RD2015_RS04955 (RD2015_1000) pilC 1129010..1130242 (-) 1233 WP_058933954.1 type II secretion system F family protein Machinery gene
  RD2015_RS04960 (RD2015_1001) pilF 1130341..1132065 (-) 1725 WP_058933955.1 type IV-A pilus assembly ATPase PilB Machinery gene
  RD2015_RS04965 (RD2015_1002) - 1132500..1132874 (+) 375 WP_083525346.1 glutaredoxin family protein -
  RD2015_RS04970 (RD2015_1003) - 1132989..1134656 (-) 1668 WP_058933957.1 hypothetical protein -
  RD2015_RS04975 (RD2015_1004) puhE 1134692..1135468 (-) 777 WP_058933958.1 putative photosynthetic complex assembly protein PuhE -
  RD2015_RS04980 (RD2015_1005) acsF 1135475..1136551 (-) 1077 WP_058933959.1 magnesium-protoporphyrin IX monomethyl ester (oxidative) cyclase -
  RD2015_RS04985 (RD2015_1006) puhC 1136535..1137029 (-) 495 WP_058933960.1 photosynthetic complex assembly protein PuhC -

Sequence

Protein


Download         Length: 574 a.a.        Molecular weight: 62799.18 Da        Isoelectric Point: 6.0114

>NTDB_id=164527 RD2015_RS04960 WP_058933955.1 1130341..1132065(-) (pilF) [Roseateles depolymerans strain KCTC 42856]
MDTTLADPPQSALSGVARVLVHAGKLQPKAAEDLVRLAREKKTSFVNAVMASGTVTSADLAHTLAHALAMPLMDLNAVDS
HKLPQNIIDAKLAAQHQVVVLARRGNRLFIGGADPTDQEVVERIKFATQLTPEWIIVEHDKLVKLLGASASGSTAEQLEA
IAGDDFEFDISEEETAPQEEAQEMGDVEDAPVVRFLQKMLVDAINMRASDLHFEPYEYHYRVRFRVDGELREITQPPIAI
KEKLASRIKVISRMDIAERRVPQDGRMKLKFGSKAIDFRVSTLPTLFGEKIVIRILDPSSAKLGIEALGYEKIEKERLLL
AIHRPYGMILVTGPTGSGKTVSLYTCLNILNQPGTNISTVEDPAEINLPGINQVNVNDKAGLTFAAALKSFLRQDPDIIM
VGEIRDLETADIAIKAAQTGHMVMSTLHTNDAPTTLTRLLNMGVAPFNIASSVLLITAQRLTRRLCENCKAPAEYPRDAL
LRAGFAENDLDGSWKPYRAVGCSSCNNGYRGRVGLYQVMPISEAIQRIILTQGTAMDIAEQAQKDGVRDLRQSGLIKVKS
GVTTLEEVLAATNE

Nucleotide


Download         Length: 1725 bp        

>NTDB_id=164527 RD2015_RS04960 WP_058933955.1 1130341..1132065(-) (pilF) [Roseateles depolymerans strain KCTC 42856]
ATGGACACCACTCTGGCCGACCCCCCTCAGTCCGCCCTGTCGGGCGTGGCGCGCGTGCTTGTGCACGCCGGAAAACTTCA
GCCGAAAGCCGCTGAGGACCTCGTTCGCCTGGCGCGGGAGAAAAAGACCAGCTTCGTCAACGCCGTCATGGCGTCCGGCA
CGGTCACCTCCGCCGACCTGGCGCACACGCTGGCCCATGCTCTGGCGATGCCACTGATGGACCTCAATGCGGTCGATTCG
CACAAGCTCCCGCAGAACATCATCGATGCCAAGCTGGCGGCGCAGCATCAGGTGGTGGTCCTGGCGCGCCGCGGCAACCG
GCTGTTCATCGGCGGCGCCGATCCGACCGACCAGGAAGTGGTGGAGCGGATCAAGTTCGCCACCCAGCTCACGCCCGAAT
GGATCATCGTCGAGCATGACAAGCTGGTGAAACTGCTGGGGGCGTCGGCGTCCGGCAGCACCGCCGAGCAGCTCGAAGCC
ATCGCCGGCGACGACTTCGAATTCGACATCTCCGAGGAAGAAACCGCTCCCCAGGAAGAAGCCCAGGAGATGGGCGACGT
CGAAGACGCCCCGGTGGTGCGCTTCCTGCAGAAGATGCTGGTGGACGCCATCAACATGCGGGCGTCCGACCTGCACTTCG
AACCCTACGAATATCACTACCGCGTCCGCTTCCGGGTGGACGGCGAATTGCGGGAAATCACCCAGCCGCCGATCGCCATC
AAGGAAAAGCTCGCCTCCCGCATCAAGGTCATCTCGCGCATGGACATTGCCGAGCGCCGGGTGCCGCAGGACGGGCGGAT
GAAGCTCAAGTTCGGCTCCAAGGCGATCGACTTCCGGGTCTCGACCCTGCCCACCCTGTTCGGCGAGAAGATCGTGATCC
GTATTCTGGATCCGTCCTCGGCCAAGCTCGGCATCGAGGCCCTGGGCTACGAGAAGATCGAGAAGGAGCGCTTGCTCCTG
GCCATCCATCGCCCCTACGGCATGATCCTGGTCACCGGCCCGACCGGCTCCGGCAAGACGGTGTCGCTCTACACCTGCCT
GAACATCCTGAACCAGCCCGGCACCAACATCTCCACCGTGGAAGACCCGGCGGAAATCAACTTGCCGGGCATCAACCAGG
TCAATGTGAACGACAAGGCGGGCCTGACCTTCGCAGCCGCGCTGAAGTCCTTCCTGCGTCAGGATCCCGACATCATCATG
GTCGGCGAAATCCGGGACCTGGAAACGGCGGACATCGCCATCAAGGCCGCCCAGACCGGCCACATGGTGATGTCCACGCT
GCACACCAACGACGCGCCCACCACCCTGACCCGTCTGCTGAACATGGGCGTGGCCCCGTTCAACATCGCGTCCAGCGTGC
TGTTGATCACCGCCCAGCGTCTGACGCGGCGGCTGTGCGAGAACTGCAAGGCCCCGGCCGAATACCCGCGCGACGCCCTG
CTGCGCGCCGGTTTCGCGGAAAACGACCTGGACGGTTCGTGGAAACCCTACCGGGCCGTGGGCTGCTCGAGTTGCAACAA
TGGTTATCGGGGCCGGGTCGGCCTTTACCAAGTGATGCCCATTAGTGAAGCAATTCAGCGGATCATCCTGACCCAGGGCA
CTGCCATGGACATTGCAGAGCAGGCCCAGAAGGACGGCGTGCGAGACCTGCGGCAGTCCGGGCTGATCAAGGTCAAGTCG
GGGGTGACCACACTGGAAGAGGTGTTGGCGGCCACCAATGAATGA

Domains

Predicted by InterproScan.

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

(53-147)

Type II/IV secretion system protein (T2SSE)

(198-464)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A0A0U3LKS8

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
  pilF Neisseria gonorrhoeae MS11

54.61

98.258

0.537
  pilB Acinetobacter baumannii D1279779

53.014

98.258

0.521
  pilB Acinetobacter baylyi ADP1

51.045

100

0.51
  pilB Legionella pneumophila strain ERS1305867

50.799

98.084

0.498
  pilB Vibrio parahaemolyticus RIMD 2210633

45.694

99.129

0.453
  pilB Vibrio campbellii strain DS40M4

45.552

97.909

0.446
  pilB Vibrio cholerae strain A1552

47.655

92.857

0.443
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.332

93.902

0.369

Multiple sequence alignment