Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   LHK94_RS13390 Genome accession   NZ_CP084740
Coordinates   2988172..2988720 (-) Length   182 a.a.
NCBI ID   WP_219951852.1    Uniprot ID   -
Organism   Dickeya zeae strain A586-S18-A17     
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 2960922..2988720 2988172..2988720 within 0


Gene organization within MGE regions


Location: 2960922..2988720
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LHK94_RS13255 (LHK94_13260) - 2960922..2961341 (-) 420 WP_019843440.1 GPW/gp25 family protein -
  LHK94_RS13260 (LHK94_13265) - 2961344..2961643 (-) 300 WP_226510139.1 PAAR domain-containing protein -
  LHK94_RS13265 (LHK94_13270) vgrG 2962066..2963856 (-) 1791 WP_226510140.1 type VI secretion system tip protein VgrG -
  LHK94_RS13270 (LHK94_13275) - 2963869..2964516 (-) 648 WP_226510141.1 peptidoglycan-binding protein -
  LHK94_RS13275 (LHK94_13280) - 2964531..2964731 (-) 201 WP_226510142.1 hypothetical protein -
  LHK94_RS13280 (LHK94_13285) - 2964752..2965210 (-) 459 WP_226510143.1 phage tail protein -
  LHK94_RS13285 (LHK94_13290) - 2965317..2965787 (-) 471 WP_012886094.1 phage tail protein -
  LHK94_RS13290 (LHK94_13295) - 2965849..2967402 (-) 1554 WP_226510144.1 phage tail sheath C-terminal domain-containing protein -
  LHK94_RS13295 (LHK94_13300) - 2967539..2968348 (-) 810 WP_226510145.1 hypothetical protein -
  LHK94_RS13300 (LHK94_13305) - 2968345..2968926 (-) 582 WP_226510146.1 DUF4255 domain-containing protein -
  LHK94_RS13305 (LHK94_13310) - 2969353..2969982 (+) 630 WP_226510147.1 NAD-dependent dehydratase -
  LHK94_RS13310 (LHK94_13315) - 2970025..2970600 (+) 576 WP_226510148.1 flavin reductase family protein -
  LHK94_RS13315 (LHK94_13320) - 2970915..2971820 (-) 906 WP_012886087.1 hypothetical protein -
  LHK94_RS13320 (LHK94_13325) - 2971805..2972929 (-) 1125 WP_012886086.1 type IV toxin-antitoxin system AbiEi family antitoxin -
  LHK94_RS13325 (LHK94_13330) - 2973404..2973940 (-) 537 WP_226510149.1 IS110 family transposase -
  LHK94_RS13330 (LHK94_13335) - 2973973..2975486 (+) 1514 WP_404830621.1 IS3 family transposase -
  LHK94_RS13335 (LHK94_13340) - 2975521..2976042 (-) 522 Protein_2600 IS110 family transposase -
  LHK94_RS21165 - 2976218..2976904 (+) 687 WP_264183290.1 IS630 family transposase -
  LHK94_RS21170 - 2976792..2977253 (+) 462 WP_264183291.1 IS630 family transposase -
  LHK94_RS13345 (LHK94_13350) - 2977263..2977457 (-) 195 WP_226510152.1 hypothetical protein -
  LHK94_RS13350 (LHK94_13355) - 2977871..2978740 (-) 870 WP_226510153.1 hypothetical protein -
  LHK94_RS13355 (LHK94_13360) - 2979055..2980785 (-) 1731 WP_226510154.1 ATP-binding protein -
  LHK94_RS13360 (LHK94_13365) - 2980801..2982054 (-) 1254 WP_226510155.1 SIR2 family protein -
  LHK94_RS13365 (LHK94_13370) - 2982154..2982399 (-) 246 WP_226510156.1 AbrB/MazE/SpoVT family DNA-binding domain-containing protein -
  LHK94_RS13370 (LHK94_13375) - 2982720..2983196 (-) 477 WP_226510157.1 protein kinase -
  LHK94_RS13375 (LHK94_13380) - 2983189..2985198 (-) 2010 WP_226510158.1 integrase -
  LHK94_RS13380 (LHK94_13385) - 2985191..2986774 (-) 1584 WP_226510159.1 tyrosine-type recombinase/integrase -
  LHK94_RS13385 (LHK94_13390) - 2986774..2987997 (-) 1224 WP_226510160.1 site-specific integrase -
  LHK94_RS13390 (LHK94_13395) ssb 2988172..2988720 (-) 549 WP_219951852.1 single-stranded DNA-binding protein SSB1 Machinery gene

Sequence

Protein


Download         Length: 182 a.a.        Molecular weight: 19494.48 Da        Isoelectric Point: 5.2440

>NTDB_id=613026 LHK94_RS13390 WP_219951852.1 2988172..2988720(-) (ssb) [Dickeya zeae strain A586-S18-A17]
MASRGVNKVILIGNLGQDPEVRYMPNGGAVANLTLATSDSWRDKQTGEQKERTEWHRVALYGKLAEIAGEYLRKGSQVYI
EGQLRTRKWQDQGGQDRYTTEVVVDISGSMQMLGGRTGGGAPAGGNMGGNTGGGNAPQGGWGQPQQPQQANQFSGGGQSR
PQQSAPMPSNEPPMDFDDDIPF

Nucleotide


Download         Length: 549 bp        

>NTDB_id=613026 LHK94_RS13390 WP_219951852.1 2988172..2988720(-) (ssb) [Dickeya zeae strain A586-S18-A17]
ATGGCCAGCAGAGGCGTTAACAAAGTGATTCTTATCGGGAATCTGGGTCAGGACCCGGAAGTCCGTTACATGCCGAATGG
CGGCGCAGTCGCTAACCTGACTCTGGCCACGTCGGACAGCTGGCGCGACAAGCAGACCGGCGAGCAGAAAGAGCGTACTG
AGTGGCACCGCGTCGCACTCTACGGCAAGCTGGCGGAAATCGCCGGTGAGTACCTGCGCAAAGGCTCTCAGGTGTATATC
GAAGGTCAGTTGCGTACCCGCAAATGGCAGGATCAGGGCGGCCAGGATCGCTACACCACCGAGGTGGTGGTCGATATCTC
CGGCAGCATGCAAATGCTGGGCGGCCGTACCGGCGGCGGCGCACCTGCTGGTGGCAACATGGGCGGCAATACGGGTGGTG
GTAACGCGCCACAAGGTGGTTGGGGTCAACCGCAACAGCCGCAGCAAGCCAACCAGTTCAGCGGTGGCGGTCAATCCCGT
CCGCAGCAAAGCGCGCCGATGCCGAGCAACGAACCGCCGATGGATTTTGACGACGACATTCCGTTCTGA

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(6-112)


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

73.656

100

0.753
  ssb Glaesserella parasuis strain SC1401

55.319

100

0.571
  ssb Neisseria meningitidis MC58

45.503

100

0.473
  ssb Neisseria gonorrhoeae MS11

45.503

100

0.473