Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   C6H44_RS20275 Genome accession   NZ_LT963391
Coordinates   4253958..4254521 (-) Length   187 a.a.
NCBI ID   WP_002555458.1    Uniprot ID   -
Organism   Pseudomonas syringae pv. cerasicola isolate CFBP6109     
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 4245089..4254521 4253958..4254521 within 0
IScluster/Tn 4249076..4253708 4253958..4254521 flank 250


Gene organization within MGE regions


Location: 4245089..4254521
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  C6H44_RS20235 (CFBP6109_04033) - 4245089..4246186 (+) 1098 WP_057459540.1 ABC transporter ATP-binding protein -
  C6H44_RS20240 (CFBP6109_04034) - 4246193..4246954 (+) 762 WP_057459541.1 glycerophosphoryl diester phosphodiesterase -
  C6H44_RS20245 (CFBP6109_04035) - 4246951..4247694 (+) 744 WP_003431801.1 inositol monophosphatase family protein -
  C6H44_RS20250 (CFBP6109_04036) - 4247694..4248806 (+) 1113 WP_057459542.1 endo-1,4-beta-xylanase -
  C6H44_RS20255 (CFBP6109_04037) - 4249076..4250149 (+) 1074 Protein_3842 IS630-like element ISPsy1 family transposase -
  C6H44_RS20260 (CFBP6109_04038) - 4250258..4251331 (+) 1074 Protein_3843 IS630-like element ISPsy1 family transposase -
  C6H44_RS20265 (CFBP6109_04039) - 4251455..4252435 (+) 981 WP_104725446.1 IS5-like element ISPsy2 family transposase -
  C6H44_RS20270 (CFBP6109_04040) - 4252731..4253708 (-) 978 WP_032701292.1 IS5 family transposase -
  C6H44_RS20275 (CFBP6109_04041) ssb 4253958..4254521 (-) 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=1148767 C6H44_RS20275 WP_002555458.1 4253958..4254521(-) (ssb) [Pseudomonas syringae pv. cerasicola isolate CFBP6109]
MARGVNKVILVGTCGQDPEVRYLPNGNAVTNLSLATSEQWTDKQSGQKVEKTEWHRVSMFGKVAEIAGEYLRKGSQVYIE
GKLQTREWEKDGIKRYTTEIVVDMQGTMQLLGGRPQGDSQQGQGGGNYNQSAPRPQQSRPQQSAPQQSAPQQNYNQQPPQ
RDSRPAPQQQAPQPAADFDSFDDDIPF

Nucleotide


Download         Length: 564 bp        

>NTDB_id=1148767 C6H44_RS20275 WP_002555458.1 4253958..4254521(-) (ssb) [Pseudomonas syringae pv. cerasicola isolate CFBP6109]
ATGGCCCGTGGGGTTAACAAAGTCATATTGGTCGGTACATGCGGCCAGGATCCCGAAGTTCGCTACTTGCCTAACGGTAA
CGCCGTGACCAACCTGAGTCTGGCAACCAGCGAACAATGGACTGACAAACAGAGCGGTCAGAAAGTCGAAAAGACCGAGT
GGCACCGTGTATCGATGTTCGGCAAGGTCGCCGAAATCGCTGGCGAATACCTGCGCAAGGGTTCGCAGGTGTACATCGAA
GGCAAGCTGCAGACCCGCGAATGGGAAAAAGACGGCATCAAGCGTTACACCACTGAAATCGTCGTCGACATGCAGGGCAC
CATGCAACTGCTGGGCGGCCGTCCACAAGGCGACTCCCAACAAGGTCAGGGCGGCGGCAACTACAACCAGTCCGCACCGC
GTCCACAGCAGTCGCGCCCTCAGCAATCGGCGCCGCAGCAGTCTGCACCTCAGCAGAACTACAACCAGCAGCCGCCACAA
CGCGACTCGCGCCCGGCGCCGCAACAACAAGCGCCGCAGCCAGCTGCTGATTTTGACAGCTTTGATGATGATATTCCGTT
CTAA

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