Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   CKV78_RS00560 Genome accession   NZ_LT906448
Coordinates   96298..96813 (-) Length   171 a.a.
NCBI ID   WP_005765219.1    Uniprot ID   C9PMJ8
Organism   Pasteurella dagmatis strain NCTC11617     
Function   ssDNA binding (predicted from homology)   
DNA processing

Genomic Context

Location: 91298..101813
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  CKV78_RS10665 (SAMEA4362423_00102) - 91305..91961 (+) 657 WP_005765202.1 HNH/endonuclease VII fold putative polymorphic toxin -
  CKV78_RS00520 (SAMEA4362423_00103) - 91966..92367 (+) 402 WP_032855676.1 Imm50 family immunity protein -
  CKV78_RS00525 - 92363..92503 (+) 141 WP_081442250.1 RHS repeat-associated core domain-containing protein -
  CKV78_RS00530 - 92739..93167 (+) 429 WP_005765208.1 RHS repeat-associated core domain-containing protein -
  CKV78_RS00535 (SAMEA4362423_00104) - 93172..93468 (+) 297 WP_005765210.1 hypothetical protein -
  CKV78_RS00540 (SAMEA4362423_00105) - 93482..94057 (+) 576 WP_005765212.1 hypothetical protein -
  CKV78_RS00545 (SAMEA4362423_00106) - 94195..94422 (+) 228 WP_005765214.1 hypothetical protein -
  CKV78_RS00550 (SAMEA4362423_00107) - 94537..95025 (+) 489 WP_155811621.1 hypothetical protein -
  CKV78_RS00555 (SAMEA4362423_00108) - 95035..95667 (+) 633 WP_005765218.1 hypothetical protein -
  CKV78_RS00560 (SAMEA4362423_00109) ssb 96298..96813 (-) 516 WP_005765219.1 single-stranded DNA-binding protein Machinery gene
  CKV78_RS00565 (SAMEA4362423_00110) uvrA 96982..99813 (+) 2832 WP_005765221.1 excinuclease ABC subunit UvrA -
  CKV78_RS00570 (SAMEA4362423_00111) sodC 99860..100447 (+) 588 WP_005765223.1 superoxide dismutase family protein -
  CKV78_RS00575 (SAMEA4362423_00112) rlmB 100540..101277 (-) 738 WP_005765225.1 23S rRNA (guanosine(2251)-2'-O)-methyltransferase RlmB -

Sequence

Protein


Download         Length: 171 a.a.        Molecular weight: 19165.12 Da        Isoelectric Point: 5.3430

>NTDB_id=1147354 CKV78_RS00560 WP_005765219.1 96298..96813(-) (ssb) [Pasteurella dagmatis strain NCTC11617]
MAGVNKVIIVGNLGNDPEIRTMPNGEAVANISVATSESWIDKNTNERREVTEWHRIVFYRRQAEVAGEYLRKGSKVYVEG
RLRTRKWQDQNGQERYTTEIQGDVLQMLDSRNERQQAGGYAPQASTSQYGSSYSAPSSNFGSQPTPRPAAKPAPQNEPPV
DMGFEEDNIPF

Nucleotide


Download         Length: 516 bp        

>NTDB_id=1147354 CKV78_RS00560 WP_005765219.1 96298..96813(-) (ssb) [Pasteurella dagmatis strain NCTC11617]
ATGGCTGGAGTAAATAAAGTAATTATCGTGGGAAATTTAGGTAACGATCCTGAAATCCGCACAATGCCAAACGGCGAAGC
AGTCGCAAATATCAGCGTTGCAACCAGTGAAAGCTGGATCGACAAAAACACTAACGAACGCCGTGAAGTAACAGAATGGC
ACCGCATCGTATTCTACCGCCGTCAAGCAGAAGTTGCAGGCGAATATTTACGTAAAGGCTCAAAAGTGTATGTGGAAGGT
CGTTTAAGAACTCGTAAATGGCAAGATCAAAATGGTCAAGAGCGCTACACTACCGAGATTCAAGGTGATGTATTACAAAT
GCTAGACAGCCGCAACGAACGTCAACAAGCGGGTGGTTATGCACCACAAGCATCGACATCACAATACGGTTCATCTTATT
CTGCACCGAGCAGCAATTTCGGTTCACAACCAACACCTCGCCCAGCAGCAAAACCAGCCCCACAAAACGAACCACCTGTG
GATATGGGATTTGAGGAAGATAATATTCCGTTTTAA

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(4-108)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB C9PMJ8

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 Glaesserella parasuis strain SC1401

69.231

100

0.737
  ssb Vibrio cholerae strain A1552

51.63

100

0.556
  ssb Neisseria meningitidis MC58

46.023

100

0.474
  ssb Neisseria gonorrhoeae MS11

45.455

100

0.468

Multiple sequence alignment