Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   UNDYM_RS21055 Genome accession   NZ_AP018441
Coordinates   4626676..4627113 (+) Length   145 a.a.
NCBI ID   WP_162042817.1    Uniprot ID   -
Organism   Undibacterium sp. YM2     
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 4613483..4640893 4626676..4627113 within 0


Gene organization within MGE regions


Location: 4613483..4640893
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  UNDYM_RS20975 (UNDYM_4196) - 4613483..4613842 (-) 360 WP_162042802.1 phage tail protein -
  UNDYM_RS20980 (UNDYM_4197) - 4614262..4614966 (-) 705 WP_162042803.1 hypothetical protein -
  UNDYM_RS20985 (UNDYM_4198) - 4615224..4615535 (-) 312 WP_162042804.1 cell envelope biogenesis protein TolA -
  UNDYM_RS20990 (UNDYM_4199) - 4615630..4615959 (-) 330 WP_162042805.1 hypothetical protein -
  UNDYM_RS20995 (UNDYM_4200) - 4616457..4617170 (+) 714 WP_162042806.1 GNAT family N-acetyltransferase -
  UNDYM_RS21000 (UNDYM_4201) - 4617429..4617683 (-) 255 WP_162042807.1 hypothetical protein -
  UNDYM_RS21005 (UNDYM_4202) - 4617868..4618389 (+) 522 WP_162042808.1 hypothetical protein -
  UNDYM_RS21010 (UNDYM_4203) - 4618641..4619267 (-) 627 WP_162042809.1 hypothetical protein -
  UNDYM_RS21015 (UNDYM_4204) - 4619701..4620126 (-) 426 WP_162042810.1 hypothetical protein -
  UNDYM_RS21020 (UNDYM_4205) - 4620315..4621103 (-) 789 WP_232063556.1 ATP-binding protein -
  UNDYM_RS21025 (UNDYM_4206) - 4621090..4621782 (-) 693 WP_162042811.1 hypothetical protein -
  UNDYM_RS21030 (UNDYM_4207) - 4623228..4623920 (+) 693 WP_162042812.1 LexA family transcriptional regulator -
  UNDYM_RS21035 (UNDYM_4208) - 4624109..4624675 (+) 567 WP_162042813.1 GNAT family N-acetyltransferase -
  UNDYM_RS21040 (UNDYM_4209) - 4625207..4625422 (+) 216 WP_162042814.1 hypothetical protein -
  UNDYM_RS21045 (UNDYM_4210) - 4625885..4626196 (+) 312 WP_162042815.1 hypothetical protein -
  UNDYM_RS21050 (UNDYM_4211) - 4626193..4626507 (+) 315 WP_162042816.1 hypothetical protein -
  UNDYM_RS31155 - 4626504..4626632 (+) 129 WP_255431517.1 hypothetical protein -
  UNDYM_RS21055 (UNDYM_4212) ssb 4626676..4627113 (+) 438 WP_162042817.1 single-stranded DNA-binding protein Machinery gene
  UNDYM_RS21060 - 4627221..4627373 (+) 153 WP_162042818.1 hypothetical protein -
  UNDYM_RS21065 (UNDYM_4213) - 4627370..4627681 (+) 312 WP_162042819.1 hypothetical protein -
  UNDYM_RS21070 (UNDYM_4214) - 4628138..4630465 (+) 2328 WP_162042820.1 hypothetical protein -
  UNDYM_RS21075 (UNDYM_4215) - 4630485..4631300 (+) 816 WP_162042821.1 hypothetical protein -
  UNDYM_RS21080 (UNDYM_4216) - 4631363..4632073 (+) 711 WP_162042822.1 hypothetical protein -
  UNDYM_RS21085 (UNDYM_4217) - 4632369..4633205 (+) 837 WP_162042823.1 hypothetical protein -
  UNDYM_RS21090 (UNDYM_4218) - 4633266..4633655 (-) 390 WP_162042824.1 hypothetical protein -
  UNDYM_RS21095 (UNDYM_4219) - 4633873..4634418 (+) 546 WP_197740936.1 NUDIX hydrolase -
  UNDYM_RS21100 (UNDYM_4220) - 4634435..4634851 (+) 417 WP_162042826.1 pilus assembly protein PilP -
  UNDYM_RS21105 (UNDYM_4221) - 4635646..4636389 (-) 744 WP_162042827.1 lysozyme inhibitor LprI family protein -
  UNDYM_RS21110 (UNDYM_4222) - 4636680..4637057 (-) 378 WP_162042828.1 hypothetical protein -
  UNDYM_RS21115 (UNDYM_4223) - 4637110..4637535 (-) 426 WP_162042829.1 biopolymer transporter ExbD -
  UNDYM_RS21120 (UNDYM_4224) - 4637879..4638343 (+) 465 WP_162042830.1 hypothetical protein -
  UNDYM_RS21125 (UNDYM_4225) - 4638465..4638965 (+) 501 WP_162042831.1 hypothetical protein -
  UNDYM_RS21130 (UNDYM_4226) - 4639067..4639636 (-) 570 WP_162042832.1 hypothetical protein -
  UNDYM_RS21135 (UNDYM_4227) - 4639895..4640893 (-) 999 WP_162042833.1 LysR family transcriptional regulator -

Sequence

Protein


Download         Length: 145 a.a.        Molecular weight: 16247.17 Da        Isoelectric Point: 7.2057

>NTDB_id=69638 UNDYM_RS21055 WP_162042817.1 4626676..4627113(+) (ssb) [Undibacterium sp. YM2]
MASVNKVILVGNLGRDPETRYAPSGEAVSNITIATTDNWKDRTSGERKERTEWHRISFFGRLAEVVAMHLKKGATVYVEG
SLRTRKYTDKDGQEKFITEVRGDTMQMLSSRSAAQADGTDGTPLKPRQPARAPETWDNMDDDLPF

Nucleotide


Download         Length: 438 bp        

>NTDB_id=69638 UNDYM_RS21055 WP_162042817.1 4626676..4627113(+) (ssb) [Undibacterium sp. YM2]
ATGGCATCCGTCAATAAAGTGATCCTCGTTGGCAACCTGGGCCGCGACCCTGAAACCCGCTACGCCCCCAGTGGCGAAGC
CGTCAGCAACATCACCATTGCCACCACCGACAACTGGAAAGACAGAACAAGCGGTGAACGCAAAGAACGCACGGAGTGGC
ACCGCATCAGCTTCTTTGGCCGCCTGGCAGAAGTGGTCGCCATGCATCTCAAGAAAGGCGCGACCGTCTATGTAGAAGGC
AGCCTGCGCACCCGCAAATACACAGACAAGGATGGCCAGGAAAAATTCATCACTGAAGTGCGCGGCGACACGATGCAGAT
GCTCAGCAGCAGATCAGCAGCCCAGGCAGATGGCACGGATGGCACACCGCTAAAACCCCGCCAGCCAGCCCGCGCACCTG
AGACCTGGGACAACATGGATGATGATTTACCGTTTTAA

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

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

45.763

100

0.559
  ssb Glaesserella parasuis strain SC1401

43.333

100

0.538
  ssb Neisseria gonorrhoeae MS11

40.805

100

0.49
  ssb Neisseria meningitidis MC58

40.23

100

0.483
  ssb Latilactobacillus sakei subsp. sakei 23K

31.395

100

0.372

Multiple sequence alignment