2NZU

Structural mechanism for the fine-tuning of CcpA function by the small molecule effectors G6P and FBP

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
Protein Modification Annotation

Domain Annotation: SCOP/SCOPe Classification SCOP Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A [auth G]	d2nzug_	Alpha and beta proteins (a/b)	Periplasmic binding protein-like I	Periplasmic binding protein-like I	L-arabinose binding protein-like	Glucose-resistance amylase regulator CcpA, C-terminal domain	(Priestia megaterium ) [TaxId: 1404 ],	SCOPe (2.08)
B [auth L]	d2nzul_	Alpha and beta proteins (a+b)	HPr-like	HPr-like	HPr-like	Histidine-containing phosphocarrier protein (HPr)	(Priestia megaterium ) [TaxId: 1404 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A [auth G]	SCOP2 Family	Purine repressor corepressor-binding domain-like	8030993	4007731	SCOP2 (2022-06-29)
A [auth G]	SCOP2 Superfamily	Type 1 solute binding protein-like	8043372	3000125	SCOP2 (2022-06-29)
B [auth L]	SCOP2 Family	HPr-like	8030994	4001693	SCOP2 (2022-06-29)
B [auth L]	SCOP2 Superfamily	HPr-like	8043373	3000259	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A [auth G]	Peripla_BP_3	e2nzuG2	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Periplasmic binding protein-like I	F: Peripla_BP_3	ECOD (1.6)
A [auth G]	Peripla_BP_1_1st_1	e2nzuG3	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Periplasmic binding protein-like I	F: Peripla_BP_1_1st_1	ECOD (1.6)
B [auth L]	PTS-HPr	e2nzuL1	A: a+b two layers	X: HPr-like (From Topology)	H: HPr-like (From Topology)	T: HPr-like	F: PTS-HPr	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A [auth G]	3.40.50.2300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Response regulator	CATH (4.3.0)
B [auth L]	3.30.1340.10	Alpha Beta	2-Layer Sandwich	Histidine-containing Protein	Chain: A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth G]	PF13377	Periplasmic binding protein-like domain (Peripla_BP_3)	Periplasmic binding protein-like domain	This domain is found in a variety of transcriptional regulatory proteins. It is related to bacterial periplasmic binding proteins, although this domain is unlikely to be found in the periplasm. This domain acts as a sensor binding small molecule liga ...	This domain is found in a variety of transcriptional regulatory proteins. It is related to bacterial periplasmic binding proteins, although this domain is unlikely to be found in the periplasm. This domain acts as a sensor binding small molecule ligands that the DNA-binding domain responds to. This domain recognises Sugars, sugar phosphates, sugar acids and purines (Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).	Domain
B [auth L]	PF00381	PTS HPr component phosphorylation site (PTS-HPr)	PTS HPr component phosphorylation site	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth G]	Catabolite control protein	DNA binding binding organic cyclic compound binding nucleic acid binding	regulation of cellular process cellular biosynthetic 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 organic substance metabolic process organic substance biosynthetic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of cellular process cellular biosynthetic 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 organic substance metabolic process organic substance biosynthetic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of biological process cellular metabolic process biological regulation primary metabolic process regulation of cellular metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of cellular biosynthetic process organic cyclic compound metabolic process regulation of gene expression biosynthetic process organic cyclic compound biosynthetic process metabolic process regulation of macromolecule biosynthetic process cellular process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process	-
B [auth L]	Phosphocarrier protein HPr	-	import into cell phosphoenolpyruvate-dependent sugar phosphotransferase system transport organic substance transport import across plasma membrane carbohydrate import across plasma membrane carbohydrate transport establishment of localization transmembrane transport localization cellular process carbohydrate transmembrane transport	intracellular anatomical structure cytoplasm cellular anatomical entity

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth G]	IPR046335	Transcriptional regulator LacI/GalR-like, sensor domain	Domain
A [auth G]	IPR000843	LacI-type HTH domain	Domain
A [auth G]	IPR028082	Periplasmic binding protein-like I	Homologous Superfamily
A [auth G]	IPR006377	Catabolite control protein A	Family
A [auth G]	IPR010982	Lambda repressor-like, DNA-binding domain superfamily	Homologous Superfamily
B [auth L]	IPR000032	Phosphocarrier protein HPr-like	Domain
B [auth L]	IPR002114	Phosphotransferase system, HPr serine phosphorylation site	PTM
B [auth L]	IPR035895	HPr-like superfamily	Homologous Superfamily
B [auth L]	IPR001020	Phosphotransferase system, HPr histidine phosphorylation site	PTM

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
B [auth L]	SEP	Parent Component: SER RESID: AA0037 PSI-MOD : O-phospho-L-serine MOD:00046

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.