3P6Y | pdb_00003p6y

CF Im25-CF Im68-UGUAA complex

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)
P	d3p6yp_	Alpha and beta proteins (a+b)	Ferredoxin-like	RNA-binding domain, RBD, aka RNA recognition motif (RRM)	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
O	d3p6yo_	Alpha and beta proteins (a+b)	Ferredoxin-like	RNA-binding domain, RBD, aka RNA recognition motif (RRM)	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
L	d3p6yl_	Alpha and beta proteins (a+b)	Ferredoxin-like	RNA-binding domain, RBD, aka RNA recognition motif (RRM)	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
K	d3p6yk_	Alpha and beta proteins (a+b)	Ferredoxin-like	RNA-binding domain, RBD, aka RNA recognition motif (RRM)	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
H	d3p6yh_	Alpha and beta proteins (a+b)	Ferredoxin-like	RNA-binding domain, RBD, aka RNA recognition motif (RRM)	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
G	d3p6yg_	Alpha and beta proteins (a+b)	Ferredoxin-like	RNA-binding domain, RBD, aka RNA recognition motif (RRM)	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
D	d3p6yd_	Alpha and beta proteins (a+b)	Ferredoxin-like	RNA-binding domain, RBD, aka RNA recognition motif (RRM)	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d3p6yc_	Alpha and beta proteins (a+b)	Ferredoxin-like	RNA-binding domain, RBD, aka RNA recognition motif (RRM)	automated matches	automated matches	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)
P	SCOP2B Superfamily	RNA-binding domain, RBD	8081907	3000110	SCOP2B (2022-06-29)
O	SCOP2B Superfamily	RNA-binding domain, RBD	8081907	3000110	SCOP2B (2022-06-29)
L	SCOP2B Superfamily	RNA-binding domain, RBD	8081907	3000110	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	RNA-binding domain, RBD	8081907	3000110	SCOP2B (2022-06-29)
H	SCOP2 Family	Canonical RBD	8081906	4000236	SCOP2 (2022-06-29)
H	SCOP2 Superfamily	RNA-binding domain, RBD	8081907	3000110	SCOP2 (2022-06-29)
G	SCOP2B Superfamily	RNA-binding domain, RBD	8081907	3000110	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	RNA-binding domain, RBD	8081907	3000110	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	RNA-binding domain, RBD	8081907	3000110	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)
P	RRM_1_4	e3p6yP2	A: a+b two layers	X: Alpha-beta plaits	H: RNA-binding domain, RBD (From Topology)	T: RNA-binding domain, RBD	F: RRM_1_4	ECOD (1.6)
O	RRM_1_4	e3p6yO2	A: a+b two layers	X: Alpha-beta plaits	H: RNA-binding domain, RBD (From Topology)	T: RNA-binding domain, RBD	F: RRM_1_4	ECOD (1.6)
L	RRM_1_4	e3p6yL2	A: a+b two layers	X: Alpha-beta plaits	H: RNA-binding domain, RBD (From Topology)	T: RNA-binding domain, RBD	F: RRM_1_4	ECOD (1.6)
K	RRM_1_4	e3p6yK2	A: a+b two layers	X: Alpha-beta plaits	H: RNA-binding domain, RBD (From Topology)	T: RNA-binding domain, RBD	F: RRM_1_4	ECOD (1.6)
H	RRM_1_4	e3p6yH2	A: a+b two layers	X: Alpha-beta plaits	H: RNA-binding domain, RBD (From Topology)	T: RNA-binding domain, RBD	F: RRM_1_4	ECOD (1.6)
G	RRM_1_4	e3p6yG2	A: a+b two layers	X: Alpha-beta plaits	H: RNA-binding domain, RBD (From Topology)	T: RNA-binding domain, RBD	F: RRM_1_4	ECOD (1.6)
D	RRM_1_4	e3p6yD2	A: a+b two layers	X: Alpha-beta plaits	H: RNA-binding domain, RBD (From Topology)	T: RNA-binding domain, RBD	F: RRM_1_4	ECOD (1.6)
C	RRM_1_4	e3p6yC2	A: a+b two layers	X: Alpha-beta plaits	H: RNA-binding domain, RBD (From Topology)	T: RNA-binding domain, RBD	F: RRM_1_4	ECOD (1.6)
N	NUDIX_2	e3p6yN1	A: a+b two layers	X: beta-Grasp	H: Nudix (From Topology)	T: Nudix	F: NUDIX_2	ECOD (1.6)
M	NUDIX_2	e3p6yM1	A: a+b two layers	X: beta-Grasp	H: Nudix (From Topology)	T: Nudix	F: NUDIX_2	ECOD (1.6)
J	NUDIX_2	e3p6yJ1	A: a+b two layers	X: beta-Grasp	H: Nudix (From Topology)	T: Nudix	F: NUDIX_2	ECOD (1.6)
I	NUDIX_2	e3p6yI1	A: a+b two layers	X: beta-Grasp	H: Nudix (From Topology)	T: Nudix	F: NUDIX_2	ECOD (1.6)
F	NUDIX_2	e3p6yF1	A: a+b two layers	X: beta-Grasp	H: Nudix (From Topology)	T: Nudix	F: NUDIX_2	ECOD (1.6)
E	NUDIX_2	e3p6yE1	A: a+b two layers	X: beta-Grasp	H: Nudix (From Topology)	T: Nudix	F: NUDIX_2	ECOD (1.6)
B	NUDIX_2	e3p6yB1	A: a+b two layers	X: beta-Grasp	H: Nudix (From Topology)	T: Nudix	F: NUDIX_2	ECOD (1.6)
A	NUDIX_2	e3p6yA1	A: a+b two layers	X: beta-Grasp	H: Nudix (From Topology)	T: Nudix	F: NUDIX_2	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
P	3.30.70.330	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	RRM (RNA recognition motif) domain	CATH (4.3.0)
O	3.30.70.330	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	RRM (RNA recognition motif) domain	CATH (4.3.0)
L	3.30.70.330	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	RRM (RNA recognition motif) domain	CATH (4.3.0)
K	3.30.70.330	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	RRM (RNA recognition motif) domain	CATH (4.3.0)
H	3.30.70.330	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	RRM (RNA recognition motif) domain	CATH (4.3.0)
G	3.30.70.330	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	RRM (RNA recognition motif) domain	CATH (4.3.0)
D	3.30.70.330	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	RRM (RNA recognition motif) domain	CATH (4.3.0)
C	3.30.70.330	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	RRM (RNA recognition motif) domain	CATH (4.3.0)
N	3.90.79.10	Alpha Beta	Alpha-Beta Complex	Nucleoside Triphosphate Pyrophosphohydrolase	Nucleoside Triphosphate Pyrophosphohydrolase	CATH (4.3.0)
M	3.90.79.10	Alpha Beta	Alpha-Beta Complex	Nucleoside Triphosphate Pyrophosphohydrolase	Nucleoside Triphosphate Pyrophosphohydrolase	CATH (4.3.0)
J	3.90.79.10	Alpha Beta	Alpha-Beta Complex	Nucleoside Triphosphate Pyrophosphohydrolase	Nucleoside Triphosphate Pyrophosphohydrolase	CATH (4.3.0)
I	3.90.79.10	Alpha Beta	Alpha-Beta Complex	Nucleoside Triphosphate Pyrophosphohydrolase	Nucleoside Triphosphate Pyrophosphohydrolase	CATH (4.3.0)
F	3.90.79.10	Alpha Beta	Alpha-Beta Complex	Nucleoside Triphosphate Pyrophosphohydrolase	Nucleoside Triphosphate Pyrophosphohydrolase	CATH (4.3.0)
E	3.90.79.10	Alpha Beta	Alpha-Beta Complex	Nucleoside Triphosphate Pyrophosphohydrolase	Nucleoside Triphosphate Pyrophosphohydrolase	CATH (4.3.0)
B	3.90.79.10	Alpha Beta	Alpha-Beta Complex	Nucleoside Triphosphate Pyrophosphohydrolase	Nucleoside Triphosphate Pyrophosphohydrolase	CATH (4.3.0)
A	3.90.79.10	Alpha Beta	Alpha-Beta Complex	Nucleoside Triphosphate Pyrophosphohydrolase	Nucleoside Triphosphate Pyrophosphohydrolase	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C, D, G, H, K C, D, G, H, K, L, O, P	PF00076	RNA recognition motif (RRM_1)	RNA recognition motif	The RRM motif (a.k.a. RRM, RBD, or RNP domain) is probably diagnostic of an RNA binding protein. RRMs are found in a variety of RNA binding proteins, including various hnRNP proteins, proteins implicated in regulation of alternative splicing, and pro ...	The RRM motif (a.k.a. RRM, RBD, or RNP domain) is probably diagnostic of an RNA binding protein. RRMs are found in a variety of RNA binding proteins, including various hnRNP proteins, proteins implicated in regulation of alternative splicing, and protein components of snRNPs. The motif also appears in a few single stranded DNA binding proteins. The RRM structure consists of four strands and two helices arranged in an alpha/beta sandwich, with a third helix present during RNA binding in some cases The C-terminal beta strand (4th strand) and final helix are hard to align and have been omitted in the SEED alignment The LA proteins (Swiss:P05455) have an N terminal rrm which is included in the seed. There is a second region towards the C terminus that has some features characteristic of a rrm but does not appear to have the important structural core of a rrm. The LA proteins (Swiss:P05455) are one of the main autoantigens in Systemic lupus erythematosus (SLE), an autoimmune disease.	Domain
A, B, E, F, I A, B, E, F, I, J, M, N	PF13869	Nucleotide hydrolase (NUDIX_2)	Nucleotide hydrolase	Nudix hydrolases are found in all classes of organism and hydrolyse a wide range of organic pyrophosphates, including nucleoside di- and triphosphates, di-nucleoside and diphospho-inositol polyphosphates, nucleotide sugars and RNA caps, with varying ...	Nudix hydrolases are found in all classes of organism and hydrolyse a wide range of organic pyrophosphates, including nucleoside di- and triphosphates, di-nucleoside and diphospho-inositol polyphosphates, nucleotide sugars and RNA caps, with varying degrees of substrate specificity.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
Q, R, S, T, U Q, R, S, T, U, V, W	5'-R(UPGPUPAP*A)-3'	-	-	-
C, D, G, H, K C, D, G, H, K, L, O, P	Cleavage and polyadenylation specificity factor subunit 6	RNA binding binding nucleic acid binding mRNA binding ribonucleoprotein complex binding protein-containing complex binding ribosomal large subunit binding ribosome binding exon-exon junction complex binding	protein-containing complex organization protein heterotetramerization cellular component organization cellular component biogenesis cellular component assembly protein complex oligomerization protein tetramerization protein-containing complex assembly cellular process cellular component organization or biogenesis protein heterooligomerization regulation of localization cellular localization nitrogen compound transport protein-containing complex organization protein heterotetramerization cellular component organization cellular component biogenesis cellular component assembly protein complex oligomerization protein tetramerization protein-containing complex assembly cellular process cellular component organization or biogenesis protein heterooligomerization regulation of localization cellular localization nitrogen compound transport regulation of cellular process nucleocytoplasmic transport transport positive regulation of nucleocytoplasmic transport nuclear transport positive regulation of biological process positive regulation of nucleobase-containing compound transport localization positive regulation of RNA export from nucleus establishment of localization in cell positive regulation of intracellular transport RNA localization nuclear export nucleobase-containing compound transport positive regulation of cellular process regulation of intracellular transport regulation of biological process RNA transport regulation of transport regulation of nucleobase-containing compound transport regulation of RNA export from nucleus nucleic acid transport biological regulation intracellular transport regulation of nucleocytoplasmic transport establishment of localization RNA export from nucleus establishment of RNA localization positive regulation of transport regulation of cellular localization macromolecule localization mRNA 3'-end processing RNA metabolic process primary metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process mRNA processing mRNA metabolic process nucleic acid metabolic process mRNA alternative polyadenylation RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process biosynthetic process RNA 3'-end processing metabolic process RNA processing macromolecule metabolic process co-transcriptional RNA 3'-end processing, cleavage and polyadenylation pathway co-transcriptional mRNA 3'-end processing, cleavage and polyadenylation pathway	membrane-bounded organelle intracellular organelle protein-containing complex cellular anatomical structure intracellular anatomical structure organelle nucleus nuclear protein-containing complex mRNA cleavage factor complex intracellular membrane-bounded organelle membrane-enclosed lumen perichromatin fibrils nuclear chromosome intracellular membraneless organelle membrane-bounded organelle intracellular organelle protein-containing complex cellular anatomical structure intracellular anatomical structure organelle nucleus nuclear protein-containing complex mRNA cleavage factor complex intracellular membrane-bounded organelle membrane-enclosed lumen perichromatin fibrils nuclear chromosome intracellular membraneless organelle chromosome chromatin intracellular organelle lumen organelle lumen membraneless organelle nuclear lumen membrane nuclear speck ribonucleoprotein granule nuclear body nucleoplasm supramolecular complex nuclear ribonucleoprotein granule paraspeckles cytoplasm interchromatin granule ribonucleoprotein complex mRNA cleavage and polyadenylation specificity factor complex
A, B, E, F, I A, B, E, F, I, J, M, N	Cleavage and polyadenylation specificity factor subunit 5	histone deacetylase binding protein binding binding enzyme binding chromatin binding mRNA 3'-UTR binding RNA binding mRNA 3'-UTR AU-rich region binding nucleic acid binding mRNA binding identical protein binding protein homodimerization activity protein dimerization activity	protein-containing complex organization protein heterotetramerization cellular component organization cellular component biogenesis cellular component assembly protein complex oligomerization protein tetramerization protein-containing complex assembly cellular process cellular component organization or biogenesis protein heterooligomerization developmental process cellular developmental process cell differentiation protein-containing complex organization protein heterotetramerization cellular component organization cellular component biogenesis cellular component assembly protein complex oligomerization protein tetramerization protein-containing complex assembly cellular process cellular component organization or biogenesis protein heterooligomerization developmental process cellular developmental process cell differentiation mRNA 3'-end processing RNA metabolic process primary metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process mRNA processing mRNA metabolic process nucleic acid metabolic process mRNA alternative polyadenylation RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process biosynthetic process RNA 3'-end processing metabolic process RNA processing macromolecule metabolic process regulation of biosynthetic process regulation of biological process regulation of cellular process biological regulation regulation of macromolecule metabolic process post-transcriptional regulation of gene expression regulation of gene expression regulation of macromolecule biosynthetic process regulation of metabolic process regulation of developmental process positive regulation of biological process regulation of cell differentiation positive regulation of developmental process positive regulation of stem cell differentiation stem cell differentiation positive regulation of cell differentiation regulation of stem cell differentiation positive regulation of cellular process co-transcriptional RNA 3'-end processing, cleavage and polyadenylation pathway co-transcriptional mRNA 3'-end processing, cleavage and polyadenylation pathway regulation of pro-B cell differentiation positive regulation of lymphoid progenitor cell differentiation cell development regulation of lymphoid progenitor cell differentiation anatomical structure development regulation of hematopoietic progenitor cell differentiation positive regulation of hematopoietic progenitor cell differentiation hemopoiesis positive regulation of pro-B cell differentiation pro-B cell differentiation lymphoid progenitor cell differentiation hematopoietic progenitor cell differentiation	membrane-bounded organelle intracellular organelle protein-containing complex cellular anatomical structure intracellular anatomical structure organelle nucleus nuclear protein-containing complex mRNA cleavage factor complex intracellular membrane-bounded organelle membrane-enclosed lumen intracellular membraneless organelle intracellular organelle lumen ribonucleoprotein granule membrane-bounded organelle intracellular organelle protein-containing complex cellular anatomical structure intracellular anatomical structure organelle nucleus nuclear protein-containing complex mRNA cleavage factor complex intracellular membrane-bounded organelle membrane-enclosed lumen intracellular membraneless organelle intracellular organelle lumen ribonucleoprotein granule nuclear body nucleoplasm organelle lumen membraneless organelle supramolecular complex paraspeckles nuclear ribonucleoprotein granule nuclear lumen centrosome microtubule organizing center cytoskeleton microtubule cytoskeleton centriolar satellite cytoplasm mRNA cleavage and polyadenylation specificity factor complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C, D, G, H, K C, D, G, H, K, L, O, P	IPR000504	RNA recognition motif domain	Domain
C, D, G, H, K C, D, G, H, K, L, O, P	IPR034772	CPSF6/7	Family
C, D, G, H, K C, D, G, H, K, L, O, P	IPR012677	Nucleotide-binding alpha-beta plait domain superfamily	Homologous Superfamily
C, D, G, H, K C, D, G, H, K, L, O, P	IPR035979	RNA-binding domain superfamily	Homologous Superfamily
C, D, G, H, K C, D, G, H, K, L, O, P	IPR034769	Cleavage and polyadenylation specificity factor subunit 6, RNA recognition motif	Domain
A, B, E, F, I A, B, E, F, I, J, M, N	IPR015797	NUDIX hydrolase-like domain superfamily	Homologous Superfamily
A, B, E, F, I A, B, E, F, I, J, M, N	IPR016706	Cleavage/polyadenylation specificity factor subunit 5	Family
A, B, E, F, I A, B, E, F, I, J, M, N	IPR000086	NUDIX hydrolase domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
C, D, G, H, K C, D, G, H, K, L, O, P	Pharos: Q16630	astrocytic tumor diabetes mellitus lung cancer myopathy pancreatic intraductal papillary-mucinous carcinoma plasma cell myeloma attention deficit hyperactivity disorder, inattentive type glioblastoma malignant mesothelioma non-small cell lung carcinoma pancreatic intraductal papillary-mucinous neoplasm subependymal giant cell astrocytoma atypical teratoid rhabdoid tumor IgA glomerulonephritis medulloblastoma astrocytic tumor diabetes mellitus lung cancer myopathy pancreatic intraductal papillary-mucinous carcinoma plasma cell myeloma attention deficit hyperactivity disorder, inattentive type glioblastoma malignant mesothelioma non-small cell lung carcinoma pancreatic intraductal papillary-mucinous neoplasm subependymal giant cell astrocytoma atypical teratoid rhabdoid tumor IgA glomerulonephritis medulloblastoma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia
A, B, E, F, I A, B, E, F, I, J, M, N	Pharos: O43809	psoriasis Adenocarcinoma of Lung breast cancer glioblastoma lung adenocarcinoma malignant mesothelioma non-small cell lung carcinoma Pick disease Alzheimer disease juvenile dermatomyositis malignant ependymoma medulloblastoma ovarian cancer primitive neuroectodermal tumor atypical teratoid rhabdoid tumor psoriasis Adenocarcinoma of Lung breast cancer glioblastoma lung adenocarcinoma malignant mesothelioma non-small cell lung carcinoma Pick disease Alzheimer disease juvenile dermatomyositis malignant ependymoma medulloblastoma ovarian cancer primitive neuroectodermal tumor atypical teratoid rhabdoid tumor Gaucher disease large cell medulloblastoma malignant glioma myopathy pancreatic intraductal papillary-mucinous neoplasm

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.