Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   N580_RS00040 Genome accession   NZ_CP079206
Coordinates   9265..9783 (+) Length   172 a.a.
NCBI ID   WP_013085589.1    Uniprot ID   A0A109DE21
Organism   Lactobacillus crispatus 2029     
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)
IScluster/Tn 10275..17590 9265..9783 flank 492


Gene organization within MGE regions


Location: 9265..17590
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  N580_RS00040 (N580_00040) ssb 9265..9783 (+) 519 WP_013085589.1 single-stranded DNA-binding protein Machinery gene
  N580_RS00045 (N580_00045) rpsR 9811..10047 (+) 237 WP_003549366.1 30S ribosomal protein S18 -
  N580_RS00050 (N580_00050) - 10275..11675 (+) 1401 WP_005729271.1 ISLre2-like element ISLcr2 family transposase -
  N580_RS00055 (N580_00055) - 11813..13834 (+) 2022 WP_005729252.1 DHH family phosphoesterase -
  N580_RS00060 (N580_00060) rplI 13846..14301 (+) 456 WP_005721048.1 50S ribosomal protein L9 -
  N580_RS00065 (N580_00065) dnaB 14321..15712 (+) 1392 WP_005729251.1 replicative DNA helicase -
  N580_RS00070 (N580_00070) - 15863..17590 (+) 1728 WP_005729250.1 IS1182 family transposase -

Sequence

Protein


Download         Length: 172 a.a.        Molecular weight: 18649.18 Da        Isoelectric Point: 4.7317

>NTDB_id=588243 N580_RS00040 WP_013085589.1 9265..9783(+) (ssb) [Lactobacillus crispatus 2029]
MINRVVLVGRLTRDPELRTTGSGISVATFTLAVDRQFTNSQGERGADFVSCVIWRKSAENFCNFTSKGSLVGIDGRIQTR
SYDNKDGQRVYVTEVVVDNFALLESRKDREARGQNGGYTPNSGNAGSQPANNFPNNGGSQGNSQTNNNQNNSQDPFSGSG
DTIDISDDDLPF

Nucleotide


Download         Length: 519 bp        

>NTDB_id=588243 N580_RS00040 WP_013085589.1 9265..9783(+) (ssb) [Lactobacillus crispatus 2029]
ATGATTAATAGAGTTGTACTTGTTGGCCGTTTAACACGTGATCCTGAATTACGTACTACTGGGAGTGGAATCTCGGTTGC
TACGTTTACTCTTGCTGTTGACCGTCAATTTACAAATAGCCAAGGTGAGAGAGGCGCAGATTTCGTCAGCTGTGTAATTT
GGAGAAAGTCAGCAGAAAACTTCTGCAACTTTACTTCAAAGGGTTCATTAGTTGGAATTGATGGCCGAATTCAAACCAGA
AGTTATGATAATAAAGATGGGCAAAGGGTATATGTAACCGAAGTTGTTGTTGATAACTTCGCATTGCTCGAATCACGCAA
GGATCGTGAAGCCCGCGGTCAAAATGGTGGTTATACACCAAATAGTGGAAATGCTGGCAGTCAACCTGCTAACAATTTCC
CAAATAATGGCGGATCACAAGGTAATTCACAGACTAATAACAATCAAAATAATTCACAAGATCCATTTAGTGGCTCAGGT
GATACGATTGATATTTCTGATGACGATCTACCATTTTAA

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(2-102)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A0A109DE21

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 Latilactobacillus sakei subsp. sakei 23K

60.571

100

0.616
  ssbA Bacillus subtilis subsp. subtilis str. 168

52.273

100

0.535