1LRR | pdb_00001lrr

CRYSTAL STRUCTURE OF E. COLI SEQA COMPLEXED WITH HEMIMETHYLATED DNA

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
F [auth D]	d1lrrd_	Alpha and beta proteins (a+b)	Replication modulator SeqA, C-terminal DNA-binding domain	Replication modulator SeqA, C-terminal DNA-binding domain	Replication modulator SeqA, C-terminal DNA-binding domain	Replication modulator SeqA, C-terminal DNA-binding domain	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
E [auth A]	d1lrra_	Alpha and beta proteins (a+b)	Replication modulator SeqA, C-terminal DNA-binding domain	Replication modulator SeqA, C-terminal DNA-binding domain	Replication modulator SeqA, C-terminal DNA-binding domain	Replication modulator SeqA, C-terminal DNA-binding domain	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
F [auth D]	SCOP2B Superfamily	Replication modulator SeqA, C-terminal DNA-binding domain	8037902	3000651	SCOP2B (2022-06-29)
E [auth A]	SCOP2B Superfamily	Replication modulator SeqA, C-terminal DNA-binding domain	8037902	3000651	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
F [auth D]	MgsA_C	e1lrrD1	A: alpha bundles	X: EGF-like	H: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	T: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	F: MgsA_C	ECOD (develop294)
E [auth A]	MgsA_C	e1lrrA1	A: alpha bundles	X: EGF-like	H: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	T: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	F: MgsA_C	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F [auth D]	1.20.1380.10	Mainly Alpha	Up-down Bundle	Replication modulator SeqA, C-terminal DNA-binding domain	Replication modulator SeqA, C-terminal DNA-binding domain	CATH (4.3.0)
E [auth A]	1.20.1380.10	Mainly Alpha	Up-down Bundle	Replication modulator SeqA, C-terminal DNA-binding domain	Replication modulator SeqA, C-terminal DNA-binding domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
E [auth A], F [auth D]	PF03925	SeqA protein C-terminal domain (SeqA)	SeqA protein C-terminal domain	The binding of SeqA protein to hemimethylated GATC sequences is important in the negative modulation of chromosomal initiation at oriC, and in the formation of SeqA foci necessary for Escherichia coli chromosome segregation [3]. SeqA tetramers are ab ...	The binding of SeqA protein to hemimethylated GATC sequences is important in the negative modulation of chromosomal initiation at oriC, and in the formation of SeqA foci necessary for Escherichia coli chromosome segregation [3]. SeqA tetramers are able to aggregate or multimerise in a reversible, concentration-dependent manner [3]. Apart from its function in the control of DNA replication, SeqA may also be a specific transcription factor [4].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
E [auth A], F [auth D]	SeqA protein	DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding double-stranded DNA binding binding nucleic acid binding DNA replication origin binding identical protein binding protein binding protein homodimerization activity protein dimerization activity double-stranded methylated DNA binding hemi-methylated DNA-binding	regulation of cellular process RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of biological process biological regulation primary metabolic process regulation of cellular process RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of biological process biological regulation primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of gene expression biosynthetic process cellular process metabolic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process regulation of DNA-templated DNA replication initiation negative regulation of biological process negative regulation of DNA-templated DNA replication initiation negative regulation of DNA-templated DNA replication negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process negative regulation of macromolecule metabolic process DNA-templated DNA replication negative regulation of DNA replication DNA replication initiation negative regulation of metabolic process DNA metabolic process DNA replication regulation of DNA-templated DNA replication negative regulation of DNA metabolic process regulation of DNA replication regulation of DNA metabolic process response to stimulus response to radiation response to abiotic stimulus cellular component organization organelle organization chromosome organization sister chromatid cohesion cellular component organization or biogenesis cell cycle cell cycle process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex SeqA-DNA complex protein-DNA complex
B [auth C], D [auth F]	5'-D(APGPTPCPGP(6MA)PTPCPGPGPTPG)-3'	-	-	-
A [auth B], C [auth E]	5'-D(CPAPCPCPGPAPTPCPGPAPCPT)-3'	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
E [auth A], F [auth D]	IPR005621	Negative modulator of initiation of replication SeqA	Family
E [auth A], F [auth D]	IPR010985	Ribbon-helix-helix	Homologous Superfamily
E [auth A], F [auth D]	IPR026577	Replication modulator SeqA, C-terminal DNA-binding domain	Domain
E [auth A], F [auth D]	IPR036835	Replication modulator SeqA, C-terminal DNA-binding domain superfamily	Homologous Superfamily
E [auth A], F [auth D]	IPR013321	Arc-type ribbon-helix-helix	Homologous Superfamily
E [auth A], F [auth D]	IPR033761	Negative modulator of initiation of replication SeqA, N-terminal	Domain

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.