Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   AMAD1_RS01130 Genome accession   NC_019393
Coordinates   252746..253336 (+) Length   196 a.a.
NCBI ID   WP_012516753.1    Uniprot ID   F2G3Q0
Organism   Alteromonas mediterranea DE1     
Function   ssDNA binding (predicted from homology)   
DNA processing

Genomic Context

Location: 247746..258336
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AMAD1_RS01115 (amad1_01120) - 248382..249437 (+) 1056 WP_012516750.1 UDP-glucose--hexose-1-phosphate uridylyltransferase -
  AMAD1_RS01120 (amad1_01125) galK 249430..250578 (+) 1149 WP_015065961.1 galactokinase -
  AMAD1_RS01125 (amad1_01130) - 250919..252481 (+) 1563 WP_015065962.1 sodium/sugar symporter -
  AMAD1_RS01130 (amad1_01135) ssb 252746..253336 (+) 591 WP_012516753.1 single-stranded DNA-binding protein Machinery gene
  AMAD1_RS01135 (amad1_01140) - 253605..254504 (+) 900 WP_015065963.1 hypothetical protein -
  AMAD1_RS01140 (amad1_01145) - 254721..257297 (-) 2577 WP_015065964.1 hypothetical protein -
  AMAD1_RS01145 (amad1_01150) galE 257315..258331 (-) 1017 WP_015065965.1 UDP-glucose 4-epimerase GalE -

Sequence

Protein


Download         Length: 196 a.a.        Molecular weight: 21299.23 Da        Isoelectric Point: 4.9562

>NTDB_id=54374 AMAD1_RS01130 WP_012516753.1 252746..253336(+) (ssb) [Alteromonas mediterranea DE1]
MATKGVNKVILVGNLGNDPEVRYMPNGNAVANLSLATSESWKDQQGQVQERTEWHRLTMYRRLAEIAGEYLKKGSQIYVE
GKLQTRKWQDQQGQDKYTTEIIVDQMQMLGGRGGDGGGGNGGYQRPQNNQGGYNQAPAQGGYNQAPQQGGGQQGGYNQSQ
GQGGGYNQAPQGGNPSQPKTPPMAEPDFDFDDDIPF

Nucleotide


Download         Length: 591 bp        

>NTDB_id=54374 AMAD1_RS01130 WP_012516753.1 252746..253336(+) (ssb) [Alteromonas mediterranea DE1]
ATGGCAACGAAAGGCGTTAATAAGGTTATTCTTGTTGGAAACCTTGGCAATGATCCTGAAGTTAGATACATGCCTAACGG
AAACGCCGTTGCGAACTTAAGCCTAGCAACTAGCGAAAGCTGGAAAGACCAACAGGGTCAGGTTCAAGAGCGCACTGAGT
GGCACCGCCTTACAATGTACCGTCGCTTAGCAGAAATTGCCGGAGAGTACCTGAAAAAGGGCTCGCAAATTTACGTAGAA
GGTAAATTGCAAACGCGTAAGTGGCAAGATCAGCAAGGTCAGGATAAGTACACCACTGAAATTATCGTAGATCAAATGCA
AATGCTTGGCGGTCGCGGCGGTGATGGTGGCGGCGGAAACGGCGGTTACCAGCGTCCTCAAAACAACCAAGGCGGTTATA
ATCAAGCGCCAGCGCAAGGTGGTTACAACCAGGCTCCACAACAAGGTGGAGGCCAGCAAGGCGGCTATAACCAGAGCCAG
GGCCAAGGCGGTGGTTATAATCAAGCGCCGCAGGGTGGTAACCCGTCACAGCCTAAGACTCCGCCTATGGCTGAACCAGA
CTTCGATTTTGACGACGATATTCCGTTTTAG

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(6-109)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB F2G3Q0

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

56

100

0.571
  ssb Vibrio cholerae strain A1552

53.731

100

0.551
  ssb Neisseria meningitidis MC58

46.392

98.98

0.459
  ssb Neisseria gonorrhoeae MS11

46.392

98.98

0.459

Multiple sequence alignment