Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   DTQ61_RS25565 Genome accession   NZ_LT985192
Coordinates   5325131..5325694 (-) Length   187 a.a.
NCBI ID   WP_002555458.1    Uniprot ID   -
Organism   Pseudomonas syringae strain CFBP 2116     
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 5317807..5325694 5325131..5325694 within 0


Gene organization within MGE regions


Location: 5317807..5325694
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  DTQ61_RS25530 - 5317807..5318956 (+) 1150 Protein_4793 IS3 family transposase -
  DTQ61_RS25535 (PSCFBP2116_04898) - 5318974..5319471 (+) 498 Protein_4794 IS5 family transposase -
  DTQ61_RS25540 (PSCFBP2116_04899) xopD 5319619..5321874 (-) 2256 WP_057425783.1 Ulp1 family type III secretion system effector isopeptidase XopD -
  DTQ61_RS25545 - 5322056..5322157 (+) 102 Protein_4796 helix-turn-helix domain-containing protein -
  DTQ61_RS25555 (PSCFBP2116_04901) - 5322320..5323720 (-) 1401 WP_060402997.1 site-specific integrase -
  DTQ61_RS31355 (PSCFBP2116_04902) - 5323713..5324525 (-) 813 WP_231994924.1 site-specific integrase -
  DTQ61_RS31360 (PSCFBP2116_04903) - 5324744..5324998 (-) 255 WP_231994923.1 hypothetical protein -
  DTQ61_RS25565 (PSCFBP2116_04904) ssb 5325131..5325694 (-) 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=1148967 DTQ61_RS25565 WP_002555458.1 5325131..5325694(-) (ssb) [Pseudomonas syringae strain CFBP 2116]
MARGVNKVILVGTCGQDPEVRYLPNGNAVTNLSLATSEQWTDKQSGQKVEKTEWHRVSMFGKVAEIAGEYLRKGSQVYIE
GKLQTREWEKDGIKRYTTEIVVDMQGTMQLLGGRPQGDSQQGQGGGNYNQSAPRPQQSRPQQSAPQQSAPQQNYNQQPPQ
RDSRPAPQQQAPQPAADFDSFDDDIPF

Nucleotide


Download         Length: 564 bp        

>NTDB_id=1148967 DTQ61_RS25565 WP_002555458.1 5325131..5325694(-) (ssb) [Pseudomonas syringae strain CFBP 2116]
ATGGCCCGTGGGGTTAACAAAGTCATATTGGTCGGTACATGCGGCCAGGATCCCGAAGTTCGCTACTTGCCTAACGGTAA
CGCCGTGACCAACCTGAGTCTGGCAACCAGCGAACAATGGACTGACAAACAGAGCGGTCAGAAAGTCGAAAAGACCGAGT
GGCACCGTGTATCGATGTTCGGCAAGGTCGCCGAAATCGCTGGCGAATACCTGCGCAAGGGTTCGCAGGTGTACATCGAA
GGCAAGCTGCAGACCCGCGAATGGGAAAAAGACGGCATCAAGCGTTACACCACTGAAATCGTCGTCGACATGCAGGGCAC
CATGCAACTGCTGGGCGGCCGTCCACAAGGCGACTCCCAACAAGGTCAGGGCGGCGGCAACTACAACCAGTCCGCACCGC
GTCCACAGCAGTCGCGCCCTCAGCAATCGGCGCCGCAGCAGTCTGCACCTCAGCAGAACTACAACCAGCAGCCGCCACAG
CGCGACTCGCGCCCGGCGCCGCAACAACAAGCGCCGCAGCCAGCTGCTGACTTTGATAGCTTTGATGATGATATTCCGTT
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