Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   DVS74_RS03000 Genome accession   NZ_CP099516
Coordinates   698160..698606 (-) Length   148 a.a.
NCBI ID   WP_021358633.1    Uniprot ID   -
Organism   Xylella fastidiosa subsp. multiplex strain ESVL     
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 691340..713137 698160..698606 within 0


Gene organization within MGE regions


Location: 691340..713137
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  DVS74_RS02960 (DVS74_002935) - 691340..692170 (-) 831 WP_004083974.1 ABC transporter ATP-binding protein -
  DVS74_RS02965 (DVS74_002940) - 692176..693294 (-) 1119 WP_004083972.1 MlaE family ABC transporter permease -
  DVS74_RS02970 (DVS74_002945) - 693404..694666 (+) 1263 WP_012337721.1 threonine/serine ThrE exporter family protein -
  DVS74_RS02975 (DVS74_002950) - 695307..695513 (+) 207 WP_071869858.1 hypothetical protein -
  DVS74_RS02980 (DVS74_002955) - 695577..695789 (+) 213 WP_228304324.1 hypothetical protein -
  DVS74_RS02985 (DVS74_002960) - 695853..696053 (+) 201 WP_238836473.1 hypothetical protein -
  DVS74_RS02990 (DVS74_002965) - 696694..697866 (-) 1173 WP_004083967.1 site-specific integrase -
  DVS74_RS02995 (DVS74_002970) - 697866..698138 (-) 273 WP_004083966.1 hypothetical protein -
  DVS74_RS03000 (DVS74_002975) ssb 698160..698606 (-) 447 WP_021358633.1 single-stranded DNA-binding protein Machinery gene
  DVS74_RS03005 (DVS74_002980) - 698590..699060 (-) 471 WP_076613218.1 DUF5131 family protein -
  DVS74_RS03010 (DVS74_002985) - 699123..699284 (-) 162 WP_238836474.1 hypothetical protein -
  DVS74_RS03015 (DVS74_002990) - 699284..699817 (-) 534 WP_004083962.1 hypothetical protein -
  DVS74_RS03020 (DVS74_002995) - 699814..700407 (-) 594 WP_004083960.1 DapH/DapD/GlmU-related protein -
  DVS74_RS03025 (DVS74_003000) - 700500..701033 (-) 534 WP_012337723.1 pilin -
  DVS74_RS03030 (DVS74_003005) - 701166..701432 (-) 267 WP_004084112.1 hypothetical protein -
  DVS74_RS03035 (DVS74_003010) - 701429..701707 (-) 279 WP_004083957.1 hypothetical protein -
  DVS74_RS03040 (DVS74_003015) - 701704..701925 (-) 222 WP_021358638.1 hypothetical protein -
  DVS74_RS03045 (DVS74_003020) - 701922..702380 (-) 459 WP_004084109.1 hypothetical protein -
  DVS74_RS03050 (DVS74_003025) - 702377..702841 (-) 465 WP_021358639.1 DUF1566 domain-containing protein -
  DVS74_RS03055 (DVS74_003030) - 702838..703335 (-) 498 WP_021358640.1 hypothetical protein -
  DVS74_RS03060 (DVS74_003035) - 703325..703948 (+) 624 WP_004083954.1 hypothetical protein -
  DVS74_RS03065 (DVS74_003040) - 704050..704451 (-) 402 WP_004084104.1 hypothetical protein -
  DVS74_RS03070 (DVS74_003045) - 704450..704938 (+) 489 WP_238836475.1 CHC2 zinc finger domain-containing protein -
  DVS74_RS03075 (DVS74_003050) - 704874..705518 (+) 645 WP_228762222.1 terminase gpA endonuclease subunit -
  DVS74_RS03080 (DVS74_003055) - 705595..705831 (+) 237 WP_012337727.1 hypothetical protein -
  DVS74_RS03085 (DVS74_003060) - 705828..706343 (+) 516 WP_004083947.1 phage portal protein -
  DVS74_RS03090 (DVS74_003065) - 706460..706750 (+) 291 WP_076613257.1 hypothetical protein -
  DVS74_RS03095 (DVS74_003070) - 706877..707305 (+) 429 WP_069107012.1 hypothetical protein -
  DVS74_RS03100 (DVS74_003075) - 707302..707538 (+) 237 WP_004083943.1 hypothetical protein -
  DVS74_RS03105 (DVS74_003080) - 707528..710353 (+) 2826 WP_169709956.1 phage tail protein -
  DVS74_RS03110 (DVS74_003085) - 710346..711041 (+) 696 WP_228762224.1 hypothetical protein -
  DVS74_RS03115 (DVS74_003090) - 711002..711280 (+) 279 WP_228762225.1 hypothetical protein -
  DVS74_RS03120 (DVS74_003095) - 711356..712051 (+) 696 WP_004086766.1 hypothetical protein -
  DVS74_RS03125 - 712232..712414 (-) 183 WP_021358562.1 hypothetical protein -
  DVS74_RS03135 (DVS74_003110) - 712886..713137 (+) 252 WP_004086775.1 Panacea domain-containing protein -

Sequence

Protein


Download         Length: 148 a.a.        Molecular weight: 16536.38 Da        Isoelectric Point: 6.4871

>NTDB_id=700353 DVS74_RS03000 WP_021358633.1 698160..698606(-) (ssb) [Xylella fastidiosa subsp. multiplex strain ESVL]
MARGINKVILVGNLGNEPDIKYTQSGMTITSISLATSSGRKDREGNTQERTEWHRVKFFGKLGEIAAEYLHKGSQCYIEG
TIRYDKFTGQDGQERYVTEIIADQMHMLGGRGEGSSGITPQRQPAKVRNNDKAYAYAGDDFHDDDIPF

Nucleotide


Download         Length: 447 bp        

>NTDB_id=700353 DVS74_RS03000 WP_021358633.1 698160..698606(-) (ssb) [Xylella fastidiosa subsp. multiplex strain ESVL]
ATGGCACGCGGAATTAACAAGGTGATCCTAGTCGGCAACCTGGGGAACGAACCGGATATCAAATACACCCAAAGCGGCAT
GACGATCACCAGCATTAGCCTAGCGACCAGCAGCGGACGCAAGGACAGAGAGGGCAATACCCAGGAGCGGACCGAATGGC
ACCGCGTCAAGTTTTTCGGAAAGCTTGGCGAGATTGCCGCCGAATATCTGCATAAGGGATCGCAGTGCTACATAGAGGGC
ACCATCCGTTACGACAAGTTCACCGGCCAGGACGGTCAGGAGCGTTATGTCACTGAGATTATTGCTGACCAAATGCACAT
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

38.728

100

0.453
  ssb Neisseria gonorrhoeae MS11

38.728

100

0.453
  ssb Glaesserella parasuis strain SC1401

41.304

93.243

0.385