Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   C6H34_RS23535 Genome accession   NZ_LT963395
Coordinates   5049678..5050241 (-) Length   187 a.a.
NCBI ID   WP_002555458.1    Uniprot ID   -
Organism   Pseudomonas cerasi isolate PL963     
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)
Genomic island 5018027..5049534 5049678..5050241 flank 144


Gene organization within MGE regions


Location: 5018027..5050241
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  C6H34_RS23405 (PL963_04581) - 5018027..5020945 (-) 2919 WP_065350678.1 putative bifunctional diguanylate cyclase/phosphodiesterase -
  C6H34_RS23410 (PL963_04582) - 5020977..5021798 (-) 822 WP_065350679.1 phosphate/phosphite/phosphonate ABC transporter substrate-binding protein -
  C6H34_RS23415 - 5021994..5022543 (+) 550 Protein_4510 serine hydrolase -
  C6H34_RS23420 (PL963_04583) - 5022592..5023722 (-) 1131 WP_003431794.1 ROK family transcriptional regulator -
  C6H34_RS23425 (PL963_04584) - 5023888..5025204 (+) 1317 WP_065350680.1 extracellular solute-binding protein -
  C6H34_RS23430 (PL963_04585) - 5025201..5026094 (+) 894 WP_065350681.1 carbohydrate ABC transporter permease -
  C6H34_RS23435 (PL963_04586) - 5026091..5026984 (+) 894 WP_044310365.1 ABC transporter permease subunit -
  C6H34_RS23440 (PL963_04587) - 5026981..5028087 (+) 1107 WP_003431800.1 ABC transporter ATP-binding protein -
  C6H34_RS23445 (PL963_04588) - 5028094..5028855 (+) 762 WP_003368990.1 glycerophosphoryl diester phosphodiesterase -
  C6H34_RS23450 (PL963_04589) - 5028852..5029595 (+) 744 WP_065350682.1 inositol monophosphatase family protein -
  C6H34_RS23455 (PL963_04590) - 5029595..5030707 (+) 1113 WP_065350683.1 endo-1,4-beta-xylanase -
  C6H34_RS23465 (PL963_04591) - 5031321..5032154 (-) 834 WP_065350685.1 DUF5677 domain-containing protein -
  C6H34_RS23470 (PL963_04592) - 5032347..5034152 (-) 1806 WP_065350686.1 ATP-binding protein -
  C6H34_RS23475 (PL963_04593) - 5034149..5035285 (-) 1137 WP_065350687.1 SIR2 family protein -
  C6H34_RS23480 (PL963_04594) - 5036081..5037181 (+) 1101 WP_065350688.1 hypothetical protein -
  C6H34_RS23485 (PL963_04595) istB 5037242..5038051 (-) 810 WP_005741073.1 IS21-like element ISPsy4 family helper ATPase IstB -
  C6H34_RS23490 (PL963_04596) istA 5038048..5039070 (-) 1023 WP_002551322.1 IS21-like element ISPsy4 family transposase -
  C6H34_RS23495 (PL963_04597) - 5039573..5042014 (-) 2442 WP_104685629.1 DEAD/DEAH box helicase -
  C6H34_RS23500 (PL963_04598) - 5042275..5042586 (-) 312 WP_065350689.1 hypothetical protein -
  C6H34_RS32030 - 5042657..5042761 (-) 105 Protein_4527 nucleotidyltransferase domain-containing protein -
  C6H34_RS23510 (PL963_04600) - 5043283..5044260 (-) 978 WP_065348561.1 IS5 family transposase -
  C6H34_RS23515 (PL963_04601) - 5044385..5044798 (-) 414 WP_065350690.1 hypothetical protein -
  C6H34_RS23520 (PL963_04602) - 5044802..5046814 (-) 2013 WP_065350691.1 integrase -
  C6H34_RS23525 (PL963_04603) - 5046807..5048327 (-) 1521 WP_065350692.1 site-specific integrase -
  C6H34_RS23530 (PL963_04604) - 5048314..5049534 (-) 1221 WP_065350693.1 tyrosine-type recombinase/integrase -
  C6H34_RS23535 (PL963_04605) ssb 5049678..5050241 (-) 564 WP_002555458.1 single-stranded DNA-binding protein Machinery gene

Sequence

Protein


Download         Length: 187 a.a.        Molecular weight: 20804.92 Da        Isoelectric Point: 5.9404

>NTDB_id=1148796 C6H34_RS23535 WP_002555458.1 5049678..5050241(-) (ssb) [Pseudomonas cerasi isolate PL963]
MARGVNKVILVGTCGQDPEVRYLPNGNAVTNLSLATSEQWTDKQSGQKVEKTEWHRVSMFGKVAEIAGEYLRKGSQVYIE
GKLQTREWEKDGIKRYTTEIVVDMQGTMQLLGGRPQGDSQQGQGGGNYNQSAPRPQQSRPQQSAPQQSAPQQNYNQQPPQ
RDSRPAPQQQAPQPAADFDSFDDDIPF

Nucleotide


Download         Length: 564 bp        

>NTDB_id=1148796 C6H34_RS23535 WP_002555458.1 5049678..5050241(-) (ssb) [Pseudomonas cerasi isolate PL963]
ATGGCCCGTGGGGTTAACAAAGTCATATTGGTCGGTACATGCGGCCAGGATCCCGAAGTTCGCTACTTGCCTAACGGTAA
CGCCGTGACCAACCTGAGTCTGGCAACCAGCGAACAGTGGACTGACAAGCAGTCCGGTCAGAAAGTCGAAAAGACCGAAT
GGCACCGTGTATCGATGTTCGGCAAAGTCGCCGAAATCGCTGGCGAATACCTGCGCAAGGGTTCGCAGGTGTACATCGAA
GGCAAGCTGCAGACCCGCGAGTGGGAAAAAGACGGCATCAAGCGCTACACCACTGAAATCGTCGTCGACATGCAGGGCAC
CATGCAACTGCTGGGCGGCCGTCCTCAGGGCGACTCCCAACAAGGTCAGGGCGGCGGCAACTACAACCAGTCCGCACCGC
GTCCACAGCAGTCGCGCCCACAACAATCGGCGCCGCAGCAGTCCGCACCTCAGCAGAACTACAACCAGCAGCCGCCACAA
CGCGACTCGCGCCCAGCGCCGCAACAACAAGCGCCGCAGCCAGCTGCTGACTTCGACAGCTTCGATGATGATATTCCGTT
CTGA

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(5-107)


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

54.974

100

0.561
  ssb Glaesserella parasuis strain SC1401

47.09

100

0.476
  ssb Neisseria meningitidis MC58

45.161

99.465

0.449
  ssb Neisseria gonorrhoeae MS11

45.161

99.465

0.449

Multiple sequence alignment