Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssbA   Type   Machinery gene
Locus tag   RE628_RS28825 Genome accession   NZ_CP133605
Coordinates   5642429..5642917 (-) Length   162 a.a.
NCBI ID   WP_309156767.1    Uniprot ID   -
Organism   Paenibacillus sp. D2_2     
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 5624428..5673161 5642429..5642917 within 0


Gene organization within MGE regions


Location: 5624428..5673161
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RE628_RS28740 (RE628_28740) - 5624428..5625984 (-) 1557 WP_309156755.1 peptidoglycan DD-metalloendopeptidase family protein -
  RE628_RS28745 (RE628_28745) - 5626311..5626478 (-) 168 WP_309156756.1 hypothetical protein -
  RE628_RS28750 (RE628_28750) - 5626520..5627017 (-) 498 WP_309156757.1 hypothetical protein -
  RE628_RS28755 (RE628_28755) - 5627189..5628475 (-) 1287 WP_309156758.1 adenylosuccinate synthase -
  RE628_RS28760 (RE628_28760) dnaB 5628740..5630102 (-) 1363 Protein_5616 replicative DNA helicase -
  RE628_RS28765 (RE628_28765) rplI 5630104..5630547 (-) 444 WP_309156759.1 50S ribosomal protein L9 -
  RE628_RS28770 (RE628_28770) - 5630544..5632517 (-) 1974 WP_309156760.1 DHH family phosphoesterase -
  RE628_RS28775 (RE628_28775) - 5632585..5633466 (-) 882 WP_309156761.1 DUF2232 domain-containing protein -
  RE628_RS28780 (RE628_28780) - 5633474..5633776 (-) 303 WP_309156762.1 MazG-like family protein -
  RE628_RS28785 (RE628_28785) - 5633878..5634305 (-) 428 Protein_5621 CBS domain-containing protein -
  RE628_RS28790 (RE628_28790) - 5634502..5635565 (-) 1064 Protein_5622 LCP family protein -
  RE628_RS28795 (RE628_28795) - 5635871..5636835 (-) 965 Protein_5623 ABC transporter ATP-binding protein -
  RE628_RS28800 (RE628_28800) - 5636828..5637820 (-) 993 WP_309156763.1 ABC transporter ATP-binding protein -
  RE628_RS28805 (RE628_28805) opp4C 5637863..5638795 (-) 933 WP_309156764.1 oligopeptide ABC transporter permease -
  RE628_RS28810 (RE628_28810) - 5638810..5639772 (-) 963 WP_309156765.1 ABC transporter permease -
  RE628_RS28815 (RE628_28815) - 5639838..5641616 (-) 1779 WP_309156766.1 ABC transporter substrate-binding protein -
  RE628_RS28820 (RE628_28820) rpsR 5642139..5642408 (-) 270 WP_127004154.1 30S ribosomal protein S18 -
  RE628_RS28825 (RE628_28825) ssbA 5642429..5642917 (-) 489 WP_309156767.1 single-stranded DNA-binding protein Machinery gene
  RE628_RS28830 (RE628_28830) rpsF 5642963..5643247 (-) 285 WP_309156768.1 30S ribosomal protein S6 -
  RE628_RS28835 (RE628_28835) - 5643429..5643626 (+) 198 WP_309156769.1 YjzC family protein -
  RE628_RS28845 (RE628_28845) - 5644257..5644478 (-) 222 WP_309156770.1 DUF951 domain-containing protein -
  RE628_RS28850 (RE628_28850) - 5644514..5644825 (-) 312 WP_309156771.1 hypothetical protein -
  RE628_RS28855 (RE628_28855) - 5644822..5645160 (-) 339 WP_309156772.1 mechanosensitive ion channel domain-containing protein -
  RE628_RS28860 (RE628_28860) - 5645157..5645393 (-) 237 WP_309156774.1 hypothetical protein -
  RE628_RS28865 (RE628_28865) - 5645424..5645678 (-) 255 WP_309156775.1 DUF3343 domain-containing protein -
  RE628_RS28870 (RE628_28870) yyaC 5645993..5646600 (+) 608 Protein_5637 spore protease YyaC -
  RE628_RS28875 (RE628_28875) - 5646572..5647072 (-) 501 WP_309156776.1 DUF4446 family protein -
  RE628_RS28880 (RE628_28880) - 5647091..5648250 (-) 1160 Protein_5639 aminotransferase class V-fold PLP-dependent enzyme -
  RE628_RS28885 (RE628_28885) - 5648375..5649217 (-) 843 WP_309156777.1 ParB/RepB/Spo0J family partition protein -
  RE628_RS28890 (RE628_28890) - 5649210..5649971 (-) 762 WP_309156778.1 AAA family ATPase -
  RE628_RS28895 (RE628_28895) noc 5650176..5650994 (-) 819 WP_309156780.1 nucleoid occlusion protein -
  RE628_RS28900 (RE628_28900) rsmG 5651397..5652116 (-) 720 Protein_5643 16S rRNA (guanine(527)-N(7))-methyltransferase RsmG -
  RE628_RS28905 (RE628_28905) mnmG 5652109..5654007 (-) 1899 WP_309156781.1 tRNA uridine-5-carboxymethylaminomethyl(34) synthesis enzyme MnmG -
  RE628_RS28910 (RE628_28910) mnmE 5654203..5655582 (-) 1380 WP_309156782.1 tRNA uridine-5-carboxymethylaminomethyl(34) synthesis GTPase MnmE -
  RE628_RS28915 (RE628_28915) jag 5656232..5656943 (-) 712 Protein_5646 RNA-binding cell elongation regulator Jag/EloR -
  RE628_RS28920 (RE628_28920) - 5656940..5657824 (-) 885 WP_309156783.1 YidC/Oxa1 family membrane protein insertase -
  RE628_RS28925 (RE628_28925) rnpA 5657893..5658249 (-) 357 WP_309156784.1 ribonuclease P protein component -
  RE628_RS28930 (RE628_28930) rpmH 5658457..5658591 (-) 135 WP_309156785.1 50S ribosomal protein L34 -
  RE628_RS28935 (RE628_28935) gnd 5658935..5659834 (+) 900 WP_309156786.1 phosphogluconate dehydrogenase (NAD(+)-dependent, decarboxylating) -
  RE628_RS28940 (RE628_28940) - 5660093..5660767 (+) 675 WP_309156787.1 GntR family transcriptional regulator -
  RE628_RS28945 (RE628_28945) gntK 5660818..5662367 (+) 1550 Protein_5652 gluconokinase -
  RE628_RS29930 dnaA 5662889..5664233 (+) 1345 Protein_5653 chromosomal replication initiator protein DnaA -
  RE628_RS28965 (RE628_28965) dnaN 5664510..5665652 (+) 1143 WP_309156791.1 DNA polymerase III subunit beta -
  RE628_RS28970 (RE628_28970) yaaA 5665857..5666072 (+) 216 WP_309156793.1 S4 domain-containing protein YaaA -
  RE628_RS28975 (RE628_28975) recF 5666119..5667230 (+) 1112 Protein_5656 DNA replication/repair protein RecF -
  RE628_RS28980 (RE628_28980) remB 5667247..5667493 (+) 247 Protein_5657 extracellular matrix regulator RemB -
  RE628_RS28985 (RE628_28985) gyrB 5667527..5669442 (+) 1916 Protein_5658 DNA topoisomerase (ATP-hydrolyzing) subunit B -
  RE628_RS28990 (RE628_28990) - 5669525..5670304 (-) 780 WP_309156795.1 YheC/YheD family protein -
  RE628_RS28995 (RE628_28995) gyrA 5670629..5673161 (+) 2533 Protein_5660 DNA gyrase subunit A -

Sequence

Protein


Download         Length: 162 a.a.        Molecular weight: 17955.68 Da        Isoelectric Point: 4.7075

>NTDB_id=875279 RE628_RS28825 WP_309156767.1 5642429..5642917(-) (ssbA) [Paenibacillus sp. D2_2]
MLNRVILIGRLTRDPELRYTPSGVAVTQFTVAVDRPFSSQGGEREADFIPVVTWRQLAETCANYLRKGRLVAVEGRIQVR
NYENNEGKRVYVTEVIADNVRFLESSREGGSGGGQREDNPFGGGNANAGRSNNNNYSRGNQQDDPFSDDGKPIDISDDDL
PF

Nucleotide


Download         Length: 489 bp        

>NTDB_id=875279 RE628_RS28825 WP_309156767.1 5642429..5642917(-) (ssbA) [Paenibacillus sp. D2_2]
TTGTTGAACCGTGTTATTCTGATCGGACGTCTTACCCGGGATCCGGAGCTAAGATATACACCATCCGGAGTGGCTGTTAC
TCAGTTCACTGTAGCTGTTGACAGACCGTTCTCATCGCAAGGTGGCGAACGCGAAGCGGACTTCATTCCAGTTGTAACCT
GGAGACAGCTTGCCGAGACTTGTGCAAATTATTTGCGTAAAGGCCGTCTGGTTGCCGTTGAAGGACGTATTCAAGTACGG
AATTATGAAAATAACGAAGGTAAACGTGTCTACGTCACCGAAGTCATTGCTGATAATGTCCGTTTCTTGGAATCGAGTCG
TGAAGGTGGATCTGGTGGTGGACAGCGGGAGGATAATCCTTTTGGAGGCGGTAACGCTAACGCAGGCCGCAGCAATAATA
ACAATTATTCGCGCGGCAATCAACAGGATGATCCATTCTCTGATGACGGGAAACCGATCGATATATCGGATGACGATTTG
CCATTTTAA

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(2-103)


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
  ssbA Bacillus subtilis subsp. subtilis str. 168

57.062

100

0.623
  ssb Latilactobacillus sakei subsp. sakei 23K

50.588

100

0.531
  ssb Neisseria meningitidis MC58

34.659

100

0.377
  ssb Neisseria gonorrhoeae MS11

34.091

100

0.37
  ssbB Bacillus subtilis subsp. subtilis str. 168

56.731

64.198

0.364