6QLB | pdb_00006qlb

Calpain small subunit 1, RNA-binding protein Hfq

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
Pharos: Disease Associations

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
H	d6qlbh1	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	Pleiotropic translational regulator Hfq	automated matches	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
H	d6qlbh2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
G	d6qlbg1	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	Pleiotropic translational regulator Hfq	automated matches	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
G	d6qlbg2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
F	d6qlbf1	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	Pleiotropic translational regulator Hfq	automated matches	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
F	d6qlbf2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
E	d6qlbe1	All beta proteins	Sm-like fold	Sm-like ribonucleoproteins	Pleiotropic translational regulator Hfq	automated matches	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
E	d6qlbe2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
D	d6qlbd_	All alpha proteins	EF Hand-like	EF-hand	Penta-EF-hand proteins	Calpain small (regulatory) subunit (domain VI)	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d6qlbc_	All alpha proteins	EF Hand-like	EF-hand	Penta-EF-hand proteins	Calpain small (regulatory) subunit (domain VI)	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d6qlbb_	All alpha proteins	EF Hand-like	EF-hand	Penta-EF-hand proteins	Calpain small (regulatory) subunit (domain VI)	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d6qlba_	All alpha proteins	EF Hand-like	EF-hand	Penta-EF-hand proteins	Calpain small (regulatory) subunit (domain VI)	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
H	SCOP2B Superfamily	Sm-like ribonucleoproteins	8044520	3000419	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Sm-like ribonucleoproteins	8044520	3000419	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Sm-like ribonucleoproteins	8044520	3000419	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Sm-like ribonucleoproteins	8044520	3000419	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	EF-hand	8038199	3001983	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	EF-hand	8038199	3001983	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	EF-hand	8038199	3001983	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	EF-hand	8038199	3001983	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)
H	LSM	e6qlbH1	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
G	LSM	e6qlbG1	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
F	LSM	e6qlbF1	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
E	LSM	e6qlbE1	A: beta barrels	X: SH3	H: SH3	T: SH3	F: LSM	ECOD (1.6)
D	EF-hand_8	e6qlbD2	A: alpha arrays	X: EF-hand	H: EF-hand-related	T: EF-hand	F: EF-hand_8	ECOD (1.6)
D	EF-hand_7_2	e6qlbD1	A: alpha arrays	X: EF-hand	H: EF-hand-related	T: EF-hand	F: EF-hand_7_2	ECOD (1.6)
C	EF-hand_8	e6qlbC2	A: alpha arrays	X: EF-hand	H: EF-hand-related	T: EF-hand	F: EF-hand_8	ECOD (1.6)
C	EF-hand_7_2	e6qlbC1	A: alpha arrays	X: EF-hand	H: EF-hand-related	T: EF-hand	F: EF-hand_7_2	ECOD (1.6)
B	EF-hand_8	e6qlbB1	A: alpha arrays	X: EF-hand	H: EF-hand-related	T: EF-hand	F: EF-hand_8	ECOD (1.6)
B	EF-hand_7_2	e6qlbB2	A: alpha arrays	X: EF-hand	H: EF-hand-related	T: EF-hand	F: EF-hand_7_2	ECOD (1.6)
A	EF-hand_8	e6qlbA2	A: alpha arrays	X: EF-hand	H: EF-hand-related	T: EF-hand	F: EF-hand_8	ECOD (1.6)
A	EF-hand_7_2	e6qlbA1	A: alpha arrays	X: EF-hand	H: EF-hand-related	T: EF-hand	F: EF-hand_7_2	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
H	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.		CATH (utative)
G	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.		CATH (utative)
F	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.		CATH (utative)
E	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.		CATH (utative)
D	1.10.238.10	Mainly Alpha	Orthogonal Bundle	Recoverin	domain 1	CATH (utative)
C	1.10.238.10	Mainly Alpha	Orthogonal Bundle	Recoverin	domain 1	CATH (utative)
B	1.10.238.10	Mainly Alpha	Orthogonal Bundle	Recoverin	domain 1	CATH (utative)
A	1.10.238.10	Mainly Alpha	Orthogonal Bundle	Recoverin	domain 1	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
E, F, G, H	PF17209	Hfq protein (Hfq)	Hfq protein		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
E, F, G, H	RNA-binding protein Hfq	DNA binding bent DNA binding binding nucleic acid binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding DNA binding bent DNA binding binding nucleic acid binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding RNA binding tRNA binding RNA folding chaperone	regulation of cellular process catabolic process RNA metabolic process macromolecule catabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process post-transcriptional regulation of gene expression regulation of RNA metabolic process regulation of biological quality regulation of nucleobase-containing compound metabolic process RNA catabolic process regulation of biosynthetic process regulation of biological process biological regulation regulation of cellular process catabolic process RNA metabolic process macromolecule catabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process post-transcriptional regulation of gene expression regulation of RNA metabolic process regulation of biological quality regulation of nucleobase-containing compound metabolic process RNA catabolic process regulation of biosynthetic process regulation of biological process biological regulation primary metabolic process regulation of macromolecule metabolic process regulation of catabolic process gene expression macromolecule biosynthetic process nucleic acid metabolic process nucleobase-containing compound catabolic process regulation of gene expression biosynthetic process regulation of RNA stability nucleic acid catabolic process regulation of macromolecule biosynthetic process metabolic process cellular process macromolecule metabolic process regulation of metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA biosynthetic process nucleobase-containing compound biosynthetic process regulation of DNA-templated transcription positive regulation of protein metabolic process positive regulation of biological process positive regulation of translation protein biosynthetic process positive regulation of macromolecule biosynthetic process positive regulation of metabolic process positive regulation of biosynthetic process regulation of translation, ncRNA-mediated positive regulation of macromolecule metabolic process protein metabolic process positive regulation of cellular process regulation of protein metabolic process translation positive regulation of translation, ncRNA-mediated positive regulation of gene expression regulation of translation tRNA metabolic process tRNA processing RNA processing negative regulation of biological process negative regulation of cellular process negative regulation of macromolecule metabolic process sRNA-mediated post-transcriptional gene silencing negative regulation of metabolic process regulatory ncRNA-mediated post-transcriptional gene silencing regulatory ncRNA-mediated gene silencing negative regulation of gene expression negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process post-transcriptional gene silencing	intracellular organelle bacterial nucleoid cellular anatomical structure intracellular anatomical structure organelle membraneless organelle intracellular membraneless organelle nucleoid cytoplasm cytosol
A, B, C, D	Calpain small subunit 1	cation binding ion binding binding calcium ion binding metal ion binding small molecule binding cysteine-type peptidase activity peptidase activity calcium-dependent cysteine-type endopeptidase activity catalytic activity, acting on a protein cysteine-type endopeptidase activity hydrolase activity catalytic activity endopeptidase activity	regulation of biological process cell population proliferation regulation of cellular process positive regulation of cell population proliferation regulation of cell population proliferation biological regulation positive regulation of biological process cellular process positive regulation of cellular process catabolic process macroautophagy autophagy regulation of catabolic process regulation of autophagy regulation of biological process cell population proliferation regulation of cellular process positive regulation of cell population proliferation regulation of cell population proliferation biological regulation positive regulation of biological process cellular process positive regulation of cellular process catabolic process macroautophagy autophagy regulation of catabolic process regulation of autophagy regulation of macroautophagy metabolic process process utilizing autophagic mechanism regulation of metabolic process proteolysis primary metabolic process protein metabolic process macromolecule metabolic process	cellular anatomical structure membrane protein-containing complex intracellular anatomical structure catalytic complex caspase complex peptidase complex calpain complex endopeptidase complex cytoplasm extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle cellular anatomical structure membrane protein-containing complex intracellular anatomical structure catalytic complex caspase complex peptidase complex calpain complex endopeptidase complex cytoplasm extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle cytosol cell periphery plasma membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
E, F, G, H	IPR005001	RNA-binding protein Hfq	Family
E, F, G, H	IPR047575	Sm domain	Domain
E, F, G, H	IPR010920	LSM domain superfamily	Homologous Superfamily
A, B, C, D	IPR018247	EF-Hand 1, calcium-binding site	Binding Site
A, B, C, D	IPR002048	EF-hand domain	Domain
A, B, C, D	IPR011992	EF-hand domain pair	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C, D	Pharos: P04632	prostate cancer dermatomyositis myopathy diabetes mellitus ovarian cancer Prostatic Neoplasms malignant pancreatic neoplasm pancreatic ductal adenocarcinoma

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.