NTDB

Overview

Name	ssb	Type	Machinery gene
Locus tag	V6C40_RS19780	Genome accession	NZ_CP146225
Coordinates	4386585..4387136 (+)	Length	183 a.a.
NCBI ID	WP_153508214.1	Uniprot ID	-
Organism	Dickeya sp. A6137
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	4386585..4397124	4386585..4387136	within	0

Gene organization within MGE regions

Location: 4386585..4397124

Locus tag	Gene name	Coordinates (strand)	Size (bp)	Protein ID	Product	Description
V6C40_RS19780 (V6C40_19745)	ssb	4386585..4387136 (+)	552	WP_153508214.1	single-stranded DNA-binding protein	Machinery gene
V6C40_RS19785 (V6C40_19750)	-	4387225..4387800 (-)	576	WP_407337294.1	flavin reductase family protein	-
V6C40_RS19790 (V6C40_19755)	-	4387853..4388482 (-)	630	WP_342699851.1	NAD-dependent dehydratase	-
V6C40_RS19795 (V6C40_19760)	-	4388481..4389161 (+)	681	WP_407337293.1	hypothetical protein	-
V6C40_RS19800 (V6C40_19765)	-	4389476..4389976 (+)	501	WP_407340001.1	DUF4255 domain-containing protein	-
V6C40_RS19805 (V6C40_19770)	-	4389973..4390782 (+)	810	WP_407337292.1	hypothetical protein	-
V6C40_RS19810 (V6C40_19775)	-	4390921..4392474 (+)	1554	WP_016940536.1	phage tail sheath C-terminal domain-containing protein	-
V6C40_RS19815 (V6C40_19780)	-	4392569..4393039 (+)	471	WP_038905586.1	phage tail protein	-
V6C40_RS19820 (V6C40_19785)	-	4393145..4393603 (+)	459	WP_226092516.1	phage tail protein	-
V6C40_RS19825 (V6C40_19790)	-	4393624..4393824 (+)	201	WP_407337291.1	hypothetical protein	-
V6C40_RS19830 (V6C40_19795)	-	4393839..4394486 (+)	648	WP_038905591.1	peptidoglycan-binding protein	-
V6C40_RS19835 (V6C40_19800)	vgrG	4394499..4396289 (+)	1791	WP_407337290.1	type VI secretion system tip protein VgrG	-
V6C40_RS19840 (V6C40_19805)	-	4396403..4396702 (+)	300	WP_016940542.1	PAAR domain-containing protein	-
V6C40_RS19845 (V6C40_19810)	-	4396705..4397124 (+)	420	WP_038908977.1	GPW/gp25 family protein	-

Sequence

Protein

Download Length: 183 a.a. Molecular weight: 19595.65 Da Isoelectric Point: 5.2440

                                >NTDB_id=942169 V6C40_RS19780 WP_153508214.1 4386585..4387136(+) (ssb) [Dickeya sp. A6137]

MASRGVNKVILIGNLGQDPEVRYMPNGGAVANLTLATSDSWRDKQTGEQKERTEWHRVALYGKLAEIAGEYLRKGSQVYI

EGQLRTRKWQDQSGQDRYTTEVVVDISGSMQMLGGRTGGGAPAAGGNMGGNMGGGNAPQGGWGQPQQPQQANQFSGGGQS

RPQQSAPMPGNEPPMDFDDDIPF

Nucleotide

Download Length: 552 bp

                                >NTDB_id=942169 V6C40_RS19780 WP_153508214.1 4386585..4387136(+) (ssb) [Dickeya sp. A6137]

ATGGCCAGCAGAGGCGTTAACAAAGTGATTCTTATCGGGAATCTGGGTCAGGACCCGGAAGTCCGTTACATGCCGAATGG

CGGCGCAGTCGCTAACCTGACTCTGGCCACGTCGGACAGCTGGCGCGACAAGCAGACCGGCGAGCAGAAAGAGCGTACAG

AGTGGCACCGCGTCGCACTCTACGGCAAGCTGGCGGAAATCGCCGGTGAGTACCTGCGCAAAGGCTCTCAGGTGTATATC

GAAGGTCAGTTGCGTACCCGCAAATGGCAGGATCAGAGCGGCCAGGATCGCTACACCACTGAAGTGGTGGTCGATATCTC

CGGCAGCATGCAAATGCTGGGCGGCCGCACCGGCGGCGGCGCACCTGCTGCTGGTGGCAACATGGGCGGCAATATGGGTG

GAGGTAACGCGCCACAAGGTGGTTGGGGTCAACCGCAACAGCCGCAGCAAGCCAACCAGTTCAGCGGTGGCGGTCAATCC

CGTCCGCAGCAAAGCGCGCCGATGCCGGGCAACGAACCGCCGATGGATTTTGACGACGACATTCCGTTCTGA

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 (%)	H_a-value
ssb	Vibrio cholerae strain A1552	73.797	100	0.754
ssb	Glaesserella parasuis strain SC1401	55.026	100	0.568
ssb	Neisseria meningitidis MC58	45.263	100	0.47
ssb	Neisseria gonorrhoeae MS11	45.263	100	0.47

Detailed information NTG0942169