RegulonDB

Gene
Name:	ssb
Synonym(s):	ECK4051, EG10976, b4059, exrB, lexC
Genome position(nucleotides):	4274125 --> 4274661
Strand:	forward
Sequence:	Get nucleotide sequence FastaFormat
GC content %:	58.1
External database links:

ASAP:	ABE-0013298
CGSC:	150
ECHOBASE:	EB0969
ECOLIHUB:	ssb
OU-MICROARRAY:	b4059
STRING:	511145.b4059
COLOMBOS:	ssb

Gene

Name:

ssb

Synonym(s):

ECK4051, EG10976, b4059, exrB, lexC

Genome position(nucleotides):

4274125 --> 4274661

Strand:

forward

Sequence:

Get nucleotide sequence FastaFormat

GC content %:

58.1

External database links:

ASAP:

CGSC:

ECHOBASE:

ECOLIHUB:

OU-MICROARRAY:

STRING:

COLOMBOS:

Type

Positions

Sequence

Comment

1 -> 112

MASRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKATGEMKEQTEWHRVVLFGKLAEVASEYLRKGSQVYIEGQLRTRKWTDQSGQDRYTTEVVVNVGGTMQM

N-terminal DNA binding domain; contains an oligosaccharide/oligonucleotide binding fold

2 -> 178

ASRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKATGEMKEQTEWHRVVLFGKLAEVASEYLRKGSQVYIEGQLRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGRQGGGAPAGGNIGGGQPQGGWGQPQQPQGGNQFSGGAQSRPQQSAPAAPSNEPPMDFDDDIPF

UniProt: Single-stranded DNA-binding protein.

5 -> 5

UniProt: Increased frequency of precise excision of transposon Tn10 derivatives (mutant SSB-200)..

6 -> 111

VNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKATGEMKEQTEWHRVVLFGKLAEVASEYLRKGSQVYIEGQLRTRKWTDQSGQDRYTTEVVVNVGGTMQ

UniProt: SSB.

11 -> 11

UniProt: Increased frequency of precise excision of transposon Tn10 derivatives (mutant SSB-202)..

Type

Positions

Sequence

Comment

1 -> 112

MASRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKATGEMKEQTEWHRVVLFGKLAEVASEYLRKGSQVYIEGQLRTRKWTDQSGQDRYTTEVVVNVGGTMQM

N-terminal DNA binding domain; contains an oligosaccharide/oligonucleotide binding fold

2 -> 178

ASRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKATGEMKEQTEWHRVVLFGKLAEVASEYLRKGSQVYIEGQLRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGRQGGGAPAGGNIGGGQPQGGWGQPQQPQGGNQFSGGAQSRPQQSAPAAPSNEPPMDFDDDIPF

UniProt: Single-stranded DNA-binding protein.

5 -> 5

UniProt: Increased frequency of precise excision of transposon Tn10 derivatives (mutant SSB-200)..

6 -> 111

VNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKATGEMKEQTEWHRVVLFGKLAEVASEYLRKGSQVYIEGQLRTRKWTDQSGQDRYTTEVVVNVGGTMQ

UniProt: SSB.

11 -> 11

UniProt: Increased frequency of precise excision of transposon Tn10 derivatives (mutant SSB-202)..

25 -> 25

UniProt: Increased frequency of precise excision of transposon Tn10 derivatives (mutant SSB-202)..

55 -> 61

WHRVVLF

56 -> 56

H → Y: results in temperature sensitive DNA replication; destabilises tetramer with respect to monomer; H56 maps at the monomer-monomer interface in the crystal structure of a SSB dimer

61 -> 61

UniProt: Reduces DNA-binding affinity..

103 -> 103

UniProt: Increased frequency of precise excision of transposon Tn10 derivatives (mutant SSB-201)..

113 -> 167

LGGRQGGGAPAGGNIGGGQPQGGWGQPQQPQGGNQFSGGAQSRPQQSAPAAPSNE

flexible intrinsically disordered linker; implicated in the cooperative binding of SSB to ssDNA

121 -> 121

UniProt: In Ref. 2; no nucleotide entry..

133 -> 161

QGGWGQPQQPQGGNQFSGGAQSRPQQSAP

UniProt: Polar residues; Sequence Annotation Type: compositionally biased region.

134 -> 134

UniProt: In Ref. 1; AAA24649..

170 -> 178

MDFDDDIPF

9 amino acid 'tip' that interacts with SSD interacting proteins

171 -> 178

DFDDDIPF

UniProt: No longer interacts with RadD..

173 -> 178

DDDIPF

UniProt: Important for interaction with partner proteins; Sequence Annotation Type: short sequence motif.

177 -> 177

UniProt: Strongly reduced exonuclease I (sbcB) stimulation..

Multifun Terms (GenProtEC)

2 - information transfer --> 2.1 - DNA related --> 2.1.3 - DNA recombination

5 - cell processes --> 5.8 - SOS response

Gene Ontology Terms (GO)

cellular_component

GO:0044777 - single-stranded DNA-binding protein complex
GO:0005829 - cytosol
GO:0009295 - nucleoid
GO:0030894 - replisome

molecular_function

GO:0003677 - DNA binding
GO:0003697 - single-stranded DNA binding
GO:0005515 - protein binding
GO:0008047 - enzyme activator activity
GO:0042802 - identical protein binding

biological_process

GO:0051096 - positive regulation of helicase activity
GO:0006260 - DNA replication
GO:0006261 - DNA-templated DNA replication
GO:0006281 - DNA repair
GO:0006310 - DNA recombination
GO:0006974 - cellular response to DNA damage stimulus
GO:0009432 - SOS response
GO:0006298 - mismatch repair
GO:0043085 - positive regulation of catalytic activity
GO:0000725 - recombinational repair

Transcriptional Regulation
	Display Regulation
Repressed by:	LexA, ArcA

Transcriptional Regulation

Display Regulation

Repressed by:

LexA, ArcA

	Type	Name	Post Left	Post Right	Strand	Notes	Evidence (Confirmed, Strong, Weak)	References
	promoter	TSS_4896	4273337		reverse	nd	[RS-EPT-CBR]	[1]
	promoter	TSS_4897 (cluster)	4273934		reverse	nd	[RS-EPT-CBR]	[1]

Type

Name

Post Left

Post Right

Strand

Notes

Evidence (Confirmed, Strong, Weak)

References

promoter

TSS_4896

4273337

reverse

[RS-EPT-CBR]

[1]

promoter

TSS_4897 (cluster)

4273934

reverse

[RS-EPT-CBR]

[1]

Evidence
[RS-EPT-CBR] RNA-seq using two enrichment strategies for primary transcripts and consistent biological replicates

Evidence

[RS-EPT-CBR] RNA-seq using two enrichment strategies for primary transcripts and consistent biological replicates

Reference(s)
[1] Salgado H, Peralta-Gil M, Gama-Castro S, Santos-Zavaleta A, Muñiz-Rascado L, García-Sotelo JS, Weiss V, Solano-Lira H, Martínez-Flores I, Medina-Rivera A, Salgado-Osorio G, Alquicira-Hernández S, Alquicira-Hernández K, López-Fuentes A, Porrón-Sotelo L, Huerta AM, Bonavides-Martínez C, Balderas-Martínez YI, Pannier L, Olvera M, Labastida A, Jiménez-Jacinto V, Vega-Alvarado L, Del Moral-Chávez V, Hernández-Alvarez A, Morett E, Collado-Vides J., 2012, RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more., Nucleic Acids Res.

Reference(s)

[1] Salgado H, Peralta-Gil M, Gama-Castro S, Santos-Zavaleta A, Muñiz-Rascado L, García-Sotelo JS, Weiss V, Solano-Lira H, Martínez-Flores I, Medina-Rivera A, Salgado-Osorio G, Alquicira-Hernández S, Alquicira-Hernández K, López-Fuentes A, Porrón-Sotelo L, Huerta AM, Bonavides-Martínez C, Balderas-Martínez YI, Pannier L, Olvera M, Labastida A, Jiménez-Jacinto V, Vega-Alvarado L, Del Moral-Chávez V, Hernández-Alvarez A, Morett E, Collado-Vides J., 2012, RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more., Nucleic Acids Res.