Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   AXG53_RS04870 Genome accession   NZ_CP014274
Coordinates   1134241..1135971 (-) Length   576 a.a.
NCBI ID   WP_062166720.1    Uniprot ID   -
Organism   Stenotrophomonas sp. KCTC 12332 strain YM1     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1129241..1140971
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AXG53_RS04855 (AXG53_04855) sucC 1129487..1130656 (-) 1170 WP_057629765.1 ADP-forming succinate--CoA ligase subunit beta -
  AXG53_RS04860 (AXG53_04860) - 1130914..1132539 (+) 1626 WP_062166718.1 ATP-binding protein -
  AXG53_RS04865 (AXG53_04865) pilR 1132598..1134001 (+) 1404 WP_062166719.1 sigma-54 dependent transcriptional regulator Regulator
  AXG53_RS04870 (AXG53_04870) pilB 1134241..1135971 (-) 1731 WP_062166720.1 type IV-A pilus assembly ATPase PilB Machinery gene
  AXG53_RS04875 (AXG53_04875) pilA/pilAI 1136806..1137219 (-) 414 WP_062166721.1 pilin Machinery gene
  AXG53_RS04880 (AXG53_04880) pilC 1137756..1139012 (+) 1257 WP_062166722.1 type II secretion system F family protein Machinery gene
  AXG53_RS04885 (AXG53_04885) pilD 1139016..1139882 (+) 867 WP_062166723.1 A24 family peptidase Machinery gene
  AXG53_RS04890 (AXG53_04890) coaE 1139938..1140555 (+) 618 WP_062166724.1 dephospho-CoA kinase -

Sequence

Protein


Download         Length: 576 a.a.        Molecular weight: 62345.53 Da        Isoelectric Point: 5.3093

>NTDB_id=170134 AXG53_RS04870 WP_062166720.1 1134241..1135971(-) (pilB) [Stenotrophomonas sp. KCTC 12332 strain YM1]
MNTLTSANLVGITGIARRLVQDGALEEAVARTAMSQAADAKVPLAQWLADKKLVSAAHMAAANAMEFGMPLMDVSVFDAN
QGAMKLVSEELLRRHQVLPLFKRGGKLFVGTSNPTQQLDEIKFQTNLVVEPILVDEEQIRRTLDLWLASNDSLGDSLGGD
DDGMGDLDIAAGDEDMGGGGDTGVDAKGDDTPVVKFVNKALVDAIRKGASDIHFEPYEDDYRVRFRIDGLLKSVAKAPVK
LNQRIAARLKVMAQLDIAEKRVPQDGRIKLNLSKSKQIDFRVSTLPTLFGEKIVLRILDASAAKLGIDKLGYEPDQQKLF
LDAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNNKRGMTFAAALRSFLRQDPDI
IMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCSNCKRPTQLPEN
ALLAEGYTAEQIAKGINLFEPVGCDECTEGYKGRTGIYQVMPMTDDIAAIVLQGGNAMDIADAAQKIGINDLRQSALIKA
AQGTTSLAEINRVTKD

Nucleotide


Download         Length: 1731 bp        

>NTDB_id=170134 AXG53_RS04870 WP_062166720.1 1134241..1135971(-) (pilB) [Stenotrophomonas sp. KCTC 12332 strain YM1]
ATGAACACACTGACATCCGCCAACCTAGTGGGTATTACCGGCATTGCTCGGCGTCTGGTCCAGGATGGAGCGCTGGAGGA
AGCCGTTGCCCGCACCGCGATGAGCCAGGCTGCCGACGCCAAGGTGCCGTTGGCACAGTGGCTGGCCGACAAGAAGCTGG
TGAGCGCCGCTCATATGGCCGCTGCCAACGCCATGGAATTCGGCATGCCTTTGATGGATGTGTCGGTGTTCGATGCCAAC
CAGGGCGCGATGAAGCTGGTCAGCGAGGAATTGCTGCGCCGGCATCAGGTGCTGCCGCTGTTCAAGCGTGGCGGCAAGCT
GTTCGTGGGCACCAGCAACCCGACCCAGCAACTGGATGAGATCAAGTTCCAGACCAACCTGGTGGTTGAGCCGATCCTGG
TTGATGAGGAGCAGATCCGCCGCACCCTGGACCTGTGGCTGGCCAGCAATGATTCGCTGGGCGATAGCCTCGGCGGAGAT
GACGACGGCATGGGCGATCTAGACATCGCCGCCGGTGACGAGGACATGGGTGGCGGTGGCGACACCGGTGTGGATGCCAA
AGGCGATGACACCCCGGTCGTGAAGTTCGTCAACAAAGCCTTGGTCGATGCCATCCGCAAGGGTGCTTCGGATATCCACT
TCGAGCCCTACGAAGATGACTACCGGGTGCGCTTCCGTATCGATGGCCTGCTCAAGAGCGTCGCCAAGGCGCCGGTGAAG
CTGAACCAGCGTATCGCTGCACGCCTGAAGGTGATGGCGCAGCTGGATATCGCGGAAAAGCGCGTGCCACAGGATGGTCG
CATCAAGCTTAATCTGTCCAAGAGCAAGCAGATCGACTTCCGTGTCAGTACCTTGCCGACCCTGTTCGGCGAAAAGATCG
TGTTGCGTATTCTTGACGCCAGCGCGGCCAAGTTGGGTATCGACAAGCTGGGCTATGAGCCGGACCAGCAGAAGCTGTTC
CTGGATGCTATCCACAAGCCTTACGGCATGGTGTTGGTAACCGGGCCGACTGGTTCGGGTAAGACGGTGTCGCTCTATAC
CGCGCTGGGCATCCTCAATGACGAGACCCGCAATATCTCTACCGCCGAGGACCCGGTGGAAATCCGCCTGCCAGGCGTGA
ACCAGGTGCAGCAGAACAACAAGCGCGGCATGACCTTTGCAGCGGCGCTGCGTTCGTTCCTGCGACAGGATCCGGACATC
ATCATGGTCGGCGAAATCCGTGACCTGGAGACCGCGGAAATCGCGATCAAGGCTGCGCAGACCGGTCACATGGTGCTGTC
CACGCTGCATACCAACGATGCGCCGCAGACCATTGCGCGTCTGATGAACATGGGTATCGCACCGTACAACATCACCTCGT
CGGTGACCCTGGTGATCGCCCAGCGTCTGGCGCGACGCCTGTGCTCGAACTGCAAGCGTCCGACCCAGTTGCCGGAGAAT
GCATTGCTGGCCGAAGGCTATACCGCCGAGCAGATTGCCAAGGGCATCAATCTGTTTGAACCGGTGGGCTGTGATGAATG
CACGGAAGGCTACAAGGGCCGTACCGGTATCTATCAGGTGATGCCGATGACCGACGATATCGCTGCGATTGTGCTGCAGG
GCGGCAATGCGATGGATATTGCCGATGCTGCGCAGAAGATCGGCATCAATGACCTGCGCCAGTCAGCGCTGATCAAAGCG
GCGCAGGGCACCACCAGCCTGGCTGAAATCAACCGCGTGACCAAGGACTAA

Domains

Predicted by InterproScan.

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

(48-146)

Type II/IV secretion system protein (T2SSE)

(199-466)


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 baylyi ADP1

55.81

98.611

0.55
  pilB Acinetobacter baumannii D1279779

55.226

99.653

0.55
  pilB Legionella pneumophila strain ERS1305867

52.113

98.611

0.514
  pilF Neisseria gonorrhoeae MS11

49.123

98.958

0.486
  pilB Vibrio cholerae strain A1552

47.909

99.653

0.477
  pilB Vibrio campbellii strain DS40M4

46.479

98.611

0.458
  pilB Vibrio parahaemolyticus RIMD 2210633

45.965

98.958

0.455
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.548

92.188

0.365

Multiple sequence alignment