Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   R3J29_RS03135 Genome accession   NZ_CP136974
Coordinates   712484..712930 (-) Length   148 a.a.
NCBI ID   WP_038210386.1    Uniprot ID   A0AAW6HUM6
Organism   Xylella fastidiosa subsp. multiplex strain CFBP8075     
Function   ssDNA binding (predicted from homology)   
DNA processing

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
Prophage 703266..719843 712484..712930 within 0


Gene organization within MGE regions


Location: 703266..719843
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  R3J29_RS03080 (R3J29_03075) - 703308..703892 (+) 585 WP_071869872.1 alpha-ketoglutarate-dependent dioxygenase AlkB -
  R3J29_RS03085 (R3J29_03080) - 704087..704728 (-) 642 WP_004083987.1 ABC-type transport auxiliary lipoprotein family protein -
  R3J29_RS03090 (R3J29_03085) - 704725..705651 (-) 927 WP_004083985.1 MlaD family protein -
  R3J29_RS03095 (R3J29_03090) - 705655..706485 (-) 831 WP_004083974.1 ABC transporter ATP-binding protein -
  R3J29_RS03100 (R3J29_03095) - 706491..707609 (-) 1119 WP_004083972.1 ABC transporter permease -
  R3J29_RS03105 (R3J29_03100) - 707719..708981 (+) 1263 WP_012337721.1 threonine/serine exporter ThrE family protein -
  R3J29_RS03110 (R3J29_03105) - 709622..709828 (+) 207 WP_071869858.1 hypothetical protein -
  R3J29_RS03115 (R3J29_03110) - 709892..710104 (+) 213 WP_228304324.1 hypothetical protein -
  R3J29_RS03120 (R3J29_03115) - 710168..710377 (+) 210 WP_225621843.1 hypothetical protein -
  R3J29_RS03125 (R3J29_03120) xerC 711018..712190 (-) 1173 WP_038210388.1 tyrosine recombinase XerC -
  R3J29_RS03130 (R3J29_03125) - 712190..712462 (-) 273 WP_004083966.1 hypothetical protein -
  R3J29_RS03135 (R3J29_03130) ssb 712484..712930 (-) 447 WP_038210386.1 single-stranded DNA-binding protein Machinery gene
  R3J29_RS03140 (R3J29_03135) - 712914..713384 (-) 471 WP_071869857.1 DUF5131 family protein -
  R3J29_RS03145 (R3J29_03140) - 713377..713607 (-) 231 WP_154415128.1 hypothetical protein -
  R3J29_RS03150 (R3J29_03145) - 713607..713930 (-) 324 WP_038210382.1 hypothetical protein -
  R3J29_RS03155 (R3J29_03150) - 714023..714556 (-) 534 WP_004086585.1 pilin -
  R3J29_RS03160 (R3J29_03155) - 714689..714955 (-) 267 WP_027700596.1 hypothetical protein -
  R3J29_RS03165 (R3J29_03160) - 714952..715230 (-) 279 WP_027700595.1 hypothetical protein -
  R3J29_RS03170 (R3J29_03165) - 715227..715448 (-) 222 WP_021358638.1 hypothetical protein -
  R3J29_RS03175 (R3J29_03170) - 715445..715894 (-) 450 WP_038210363.1 hypothetical protein -
  R3J29_RS03180 (R3J29_03175) - 715894..716352 (-) 459 WP_027700592.1 DUF1566 domain-containing protein -
  R3J29_RS03185 (R3J29_03180) - 716349..716690 (-) 342 WP_228762220.1 hypothetical protein -
  R3J29_RS03190 (R3J29_03185) - 716786..717514 (+) 729 WP_375732022.1 DNA adenine methylase -
  R3J29_RS03195 (R3J29_03190) - 717770..718168 (-) 399 WP_375731970.1 hypothetical protein -
  R3J29_RS03200 (R3J29_03195) - 718225..718524 (-) 300 WP_004084250.1 hypothetical protein -
  R3J29_RS03205 (R3J29_03200) - 718599..718871 (-) 273 WP_027700037.1 hypothetical protein -
  R3J29_RS03210 (R3J29_03205) - 718884..719126 (-) 243 WP_020851762.1 hypothetical protein -
  R3J29_RS03215 (R3J29_03210) - 719526..719843 (-) 318 WP_004084245.1 BrnA antitoxin family protein -

Sequence

Protein


Download         Length: 148 a.a.        Molecular weight: 16508.32 Da        Isoelectric Point: 6.4865

>NTDB_id=893943 R3J29_RS03135 WP_038210386.1 712484..712930(-) (ssb) [Xylella fastidiosa subsp. multiplex strain CFBP8075]
MARGINKVILVGNLGNEPDIKYTQSGMTITSISLATSSGRKDREGNTQERTEWHRVKFFGKLGEIAAEYLHKGSQCYIEG
TIRYDKFTGNDGQDRYVTEIIADQMHMLGGRGEGSSGITPQRQPAKVRNNDKAYAYAGDDFHDDDIPF

Nucleotide


Download         Length: 447 bp        

>NTDB_id=893943 R3J29_RS03135 WP_038210386.1 712484..712930(-) (ssb) [Xylella fastidiosa subsp. multiplex strain CFBP8075]
ATGGCACGCGGAATTAACAAGGTGATCCTAGTCGGCAACCTGGGGAACGAACCGGATATCAAATACACCCAAAGCGGCAT
GACGATCACCAGCATTAGCCTAGCGACCAGCAGCGGACGCAAGGACAGAGAGGGCAATACCCAGGAGCGGACCGAATGGC
ACCGCGTCAAGTTTTTCGGAAAGCTGGGCGAGATTGCCGCCGAATATCTGCATAAGGGATCGCAGTGCTACATAGAGGGC
ACCATCCGTTACGACAAGTTCACCGGCAATGATGGCCAGGACCGTTATGTCACTGAGATTATTGCTGACCAAATGCACAT
GCTCGGCGGTCGCGGTGAAGGCTCCAGCGGTATCACGCCACAGCGGCAACCGGCAAAGGTCCGTAACAACGATAAAGCCT
ATGCGTATGCAGGCGACGACTTCCACGATGACGACATCCCGTTTTAG

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(5-108)


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
  ssb Vibrio cholerae strain A1552

41.477

100

0.493
  ssb Neisseria meningitidis MC58

38.15

100

0.446
  ssb Neisseria gonorrhoeae MS11

38.15

100

0.446
  ssb Glaesserella parasuis strain SC1401

41.304

93.243

0.385