6XKB | pdb_00006xkb

Crystal structure of SR-related and CTD-associated factor 4(SCAF4-CID)with peptide S2,S5p-CTD

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations
Protein Modification Annotation

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	ENTH/VHS domain-like	8102405	3000164	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	ENTH/VHS domain-like	8102405	3000164	SCOP2B (2022-06-29)
C	SCOP2 Family	Pcf11 CTD-interacting domain (CID)-like	8102404	4002665	SCOP2 (2022-06-29)
C	SCOP2 Superfamily	ENTH/VHS domain-like	8102405	3000164	SCOP2 (2022-06-29)
E	SCOP2B Superfamily	ENTH/VHS domain-like	8102405	3000164	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	ENTH/VHS domain-like	8102405	3000164	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)
A	CTD_bind	e6xkbA1	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: CTD_bind	ECOD (1.6)
B	CTD_bind	e6xkbB1	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: CTD_bind	ECOD (1.6)
C	CTD_bind	e6xkbC1	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: CTD_bind	ECOD (1.6)
E	CTD_bind	e6xkbE1	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: CTD_bind	ECOD (1.6)
D	CTD_bind	e6xkbD1	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: CTD_bind	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
F, G, H [auth I], I [auth J], J [auth K]	PF05001	RNA polymerase Rpb1 C-terminal repeat (RNA_pol_Rpb1_R)	RNA polymerase Rpb1 C-terminal repeat	-	Repeat
A, B, C, D, E	PF04818	CID domain (CID)	CID domain	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
F, G, H [auth I], I [auth J], J [auth K]	S2,S5p-CTD peptide	RNA-directed RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups hydrolase activity extracellular matrix binding binding microfibril binding RNA binding RNA-directed RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups hydrolase activity extracellular matrix binding binding microfibril binding RNA binding nucleic acid binding chromatin binding promoter-specific chromatin binding cation binding magnesium ion binding ion binding metal ion binding small molecule binding DNA binding protein binding kinase binding enzyme binding DNA-directed RNA polymerase activity ubiquitin protein ligase binding ubiquitin-like protein ligase binding transition metal ion binding zinc ion binding	RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II biosynthetic process metabolic process cellular process RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II biosynthetic process metabolic process cellular process macromolecule metabolic process DNA-templated transcription termination regulation of cellular process positive regulation of biological process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process positive regulation of metabolic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process RNA processing positive regulation of cellular process regulation of biosynthetic process RNA splicing regulation of biological process biological regulation regulation of macromolecule metabolic process regulation of RNA splicing regulation of gene expression positive regulation of gene expression regulation of macromolecule biosynthetic process positive regulation of RNA splicing regulation of metabolic process regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of DNA-templated transcription	membrane-bounded organelle RNA polymerase II, holoenzyme protein-containing complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex transferase complex intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm RNA polymerase II, core complex catalytic complex membrane-bounded organelle RNA polymerase II, holoenzyme protein-containing complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex transferase complex intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm RNA polymerase II, core complex catalytic complex intracellular membrane-bounded organelle transferase complex, transferring phosphorus-containing groups nuclear DNA-directed RNA polymerase complex organelle lumen organelle RNA polymerase complex DNA-directed RNA polymerase complex intracellular protein-containing complex nuclear lumen cytoplasm membraneless organelle intracellular membraneless organelle chromosome
A, B, C, D, E	SR-related and CTD-associated factor 4	phosphoprotein binding basal transcription machinery binding RNA polymerase binding binding RNA polymerase II C-terminal domain binding enzyme binding RNA polymerase II C-terminal domain phosphoserine binding protein binding RNA polymerase II complex binding basal RNA polymerase II transcription machinery binding RNA polymerase core enzyme binding phosphoserine residue binding protein phosphorylated amino acid binding RNA binding phosphoprotein binding basal transcription machinery binding RNA polymerase binding binding RNA polymerase II C-terminal domain binding enzyme binding RNA polymerase II C-terminal domain phosphoserine binding protein binding RNA polymerase II complex binding basal RNA polymerase II transcription machinery binding RNA polymerase core enzyme binding phosphoserine residue binding protein phosphorylated amino acid binding RNA binding nucleic acid binding	negative regulation of termination of DNA-templated transcription regulation of cellular process negative regulation of biological process protein-containing complex disassembly negative regulation of termination of RNA polymerase II transcription, poly(A)-coupled regulation of protein-containing complex disassembly regulation of primary metabolic process negative regulation of RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription regulation of termination of RNA polymerase II transcription, poly(A)-coupled regulation of RNA metabolic process transcription by RNA polymerase II negative regulation of nucleobase-containing compound metabolic process negative regulation of termination of DNA-templated transcription regulation of cellular process negative regulation of biological process protein-containing complex disassembly negative regulation of termination of RNA polymerase II transcription, poly(A)-coupled regulation of protein-containing complex disassembly regulation of primary metabolic process negative regulation of RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription regulation of termination of RNA polymerase II transcription, poly(A)-coupled regulation of RNA metabolic process transcription by RNA polymerase II negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process cellular component disassembly regulation of transcription by RNA polymerase II negative regulation of DNA-templated transcription regulation of biological process termination of RNA polymerase II transcription, poly(A)-coupled negative regulation of cellular component organization negative regulation of transcription by RNA polymerase II negative regulation of metabolic process primary metabolic process regulation of gene expression biosynthetic process negative regulation of macromolecule biosynthetic process regulation of termination of DNA-templated transcription metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process negative regulation of RNA metabolic process termination of RNA polymerase II transcription regulation of termination of RNA polymerase II transcription regulation of cellular component organization RNA metabolic process DNA-templated transcription termination RNA biosynthetic process cellular component organization nucleic acid biosynthetic process negative regulation of protein-containing complex disassembly negative regulation of cellular process cellular component organization or biogenesis regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process regulation of biosynthetic process protein-containing complex organization biological regulation regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process negative regulation of termination of RNA polymerase II transcription negative regulation of biosynthetic process cellular process	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm organelle lumen organelle nuclear lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
F, G, H [auth I], I [auth J], J [auth K]	IPR007081	RNA polymerase Rpb1, domain 5	Domain
F, G, H [auth I], I [auth J], J [auth K]	IPR045867	DNA-directed RNA polymerase, subunit beta-prime	Family
F, G, H [auth I], I [auth J], J [auth K]	IPR007075	RNA polymerase Rpb1, domain 6	Domain
F, G, H [auth I], I [auth J], J [auth K]	IPR000684	RNA polymerase II, heptapeptide repeat, eukaryotic	Repeat
F, G, H [auth I], I [auth J], J [auth K]	IPR007083	RNA polymerase Rpb1, domain 4	Domain
F, G, H [auth I], I [auth J], J [auth K]	IPR044893	RNA polymerase Rpb1, clamp domain superfamily	Homologous Superfamily
F, G, H [auth I], I [auth J], J [auth K]	IPR006592	RNA polymerase, N-terminal	Domain
F, G, H [auth I], I [auth J], J [auth K]	IPR007066	RNA polymerase Rpb1, domain 3	Domain
F, G, H [auth I], I [auth J], J [auth K]	IPR007073	RNA polymerase Rpb1, domain 7	Domain
F, G, H [auth I], I [auth J], J [auth K]	IPR042102	RNA polymerase Rpb1, domain 3 superfamily	Homologous Superfamily
F, G, H [auth I], I [auth J], J [auth K]	IPR038593	RNA polymerase Rpb1, domain 7 superfamily	Homologous Superfamily
F, G, H [auth I], I [auth J], J [auth K]	IPR000722	RNA polymerase, alpha subunit	Domain
F, G, H [auth I], I [auth J], J [auth K]	IPR038120	RNA polymerase Rpb1, funnel domain superfamily	Homologous Superfamily
F, G, H [auth I], I [auth J], J [auth K]	IPR007080	RNA polymerase Rpb1, domain 1	Domain
A, B, C, D, E	IPR034369	SCAF4, RNA recognition motif	Domain
A, B, C, D, E	IPR012677	Nucleotide-binding alpha-beta plait domain superfamily	Homologous Superfamily
A, B, C, D, E	IPR051485	SR-related and CTD-associated factor	Family
A, B, C, D, E	IPR006569	CID domain	Domain
A, B, C, D, E	IPR008942	ENTH/VHS	Homologous Superfamily
A, B, C, D, E	IPR000504	RNA recognition motif domain	Domain
A, B, C, D, E	IPR035979	RNA-binding domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
F, G, H [auth I], I [auth J], J [auth K]	Pharos: P24928	acute myeloid leukemia central nervous system cancer metabolic syndrome X astrocytic tumor diabetes mellitus osteosarcoma atrial fibrillation IgA glomerulonephritis uterine corpus leiomyoma
A, B, C, D, E	Pharos: O95104	astrocytic tumor Down syndrome malignant ependymoma medulloblastoma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia psoriasis attention deficit hyperactivity disorder, inattentive type hepatocellular carcinoma malignant glioma oligodendroglioma pancreatic intraductal papillary-mucinous carcinoma Pick disease tuberculosis atypical teratoid rhabdoid tumor astrocytic tumor Down syndrome malignant ependymoma medulloblastoma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia psoriasis attention deficit hyperactivity disorder, inattentive type hepatocellular carcinoma malignant glioma oligodendroglioma pancreatic intraductal papillary-mucinous carcinoma Pick disease tuberculosis atypical teratoid rhabdoid tumor lung cancer malignant mesothelioma osteosarcoma pancreatic intraductal papillary-mucinous neoplasm primitive neuroectodermal tumor

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
F, G, H [auth I], I [auth J], J [auth K]	BTN	RESID: AA0117 PSI-MOD : N6-biotinyl-L-lysine MOD:00126
F, G, H [auth I], I [auth J], J [auth K]	SEP	Parent Component: SER RESID: AA0117 , AA0037 PSI-MOD : N6-biotinyl-L-lysine MOD:00126 , O-phospho-L-serine MOD:00046