Annotations: 5FMZ

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	Flu_PA_C	e5fmzA1	A: a+b complex topology	X: Polymerase acidic protein (From Topology)	H: Polymerase acidic protein (From Topology)	T: Polymerase acidic protein	F: Flu_PA_C	ECOD (1.6)
A	Flu_PA_N	e5fmzA2	A: a/b three-layered sandwiches	X: Restriction endonuclease-like	H: Restriction endonuclease-like (From Topology)	T: Restriction endonuclease-like	F: Flu_PA_N	ECOD (1.6)
D	Flu_PA_C	e5fmzD2	A: a+b complex topology	X: Polymerase acidic protein (From Topology)	H: Polymerase acidic protein (From Topology)	T: Polymerase acidic protein	F: Flu_PA_C	ECOD (1.6)
D	Flu_PA_N	e5fmzD1	A: a/b three-layered sandwiches	X: Restriction endonuclease-like	H: Restriction endonuclease-like (From Topology)	T: Restriction endonuclease-like	F: Flu_PA_N	ECOD (1.6)
B	Flu_PB1_2nd	e5fmzB2	A: alpha bundles	X: helical bundle domain in reverse transcriptase-like polymerases (From Topology)	H: helical bundle domain in reverse transcriptase-like polymerases (From Topology)	T: helical bundle domain in reverse transcriptase-like polymerases	F: Flu_PB1_2nd	ECOD (1.6)
B	Flu_PB1_1st	e5fmzB3	A: a+b two layers	X: Alpha-beta plaits	H: Adenylyl and guanylyl cyclase catalytic domain-like	T: Adenylyl and guanylyl cyclase catalytic domain-like	F: Flu_PB1_1st	ECOD (1.6)
B	Flu_PB1_3rd	e5fmzB1	A: extended segments	X: RNA polymerase PB1 C-terminal fragment (From Topology)	H: RNA polymerase PB1 C-terminal fragment (From Topology)	T: RNA polymerase PB1 C-terminal fragment	F: Flu_PB1_3rd	ECOD (1.6)
E	Flu_PB1_2nd	e5fmzE3	A: alpha bundles	X: helical bundle domain in reverse transcriptase-like polymerases (From Topology)	H: helical bundle domain in reverse transcriptase-like polymerases (From Topology)	T: helical bundle domain in reverse transcriptase-like polymerases	F: Flu_PB1_2nd	ECOD (1.6)
E	Flu_PB1_1st	e5fmzE1	A: a+b two layers	X: Alpha-beta plaits	H: Adenylyl and guanylyl cyclase catalytic domain-like	T: Adenylyl and guanylyl cyclase catalytic domain-like	F: Flu_PB1_1st	ECOD (1.6)
E	Flu_PB1_3rd	e5fmzE2	A: extended segments	X: RNA polymerase PB1 C-terminal fragment (From Topology)	H: RNA polymerase PB1 C-terminal fragment (From Topology)	T: RNA polymerase PB1 C-terminal fragment	F: Flu_PB1_3rd	ECOD (1.6)
C	Flu_PB2_6th	e5fmzC6	A: alpha arrays	X: PB2 '627' domain-related (From Homology)	H: PB2 '627' domain-related	T: Polymerase basic protein 2 (PB2) '627' domain	F: Flu_PB2_6th	ECOD (1.6)
C	Flu_PB2_4th	e5fmzC7	A: alpha arrays	X: Helical domain in PB2 (From Topology)	H: Helical domain in PB2 (From Topology)	T: Helical domain in PB2	F: Flu_PB2_4th	ECOD (1.6)
C	Flu_PB2_7th	e5fmzC5	A: a+b two layers	X: PB2 C-terminal domain-like (From Topology)	H: PB2 C-terminal domain-like (From Topology)	T: PB2 C-terminal domain-like	F: Flu_PB2_7th	ECOD (1.6)
C	Flu_PB2_2nd	e5fmzC2	A: a+b two layers	X: a+b domain in PB2 (From Topology)	H: a+b domain in PB2 (From Topology)	T: a+b domain in PB2	F: Flu_PB2_2nd	ECOD (1.6)
C	Flu_PB2_5th	e5fmzC3	A: a+b three layers	X: Polymerase basic protein 2 cap-binding domain (From Topology)	H: Polymerase basic protein 2 cap-binding domain (From Topology)	T: Polymerase basic protein 2 cap-binding domain	F: Flu_PB2_5th	ECOD (1.6)
C	Flu_PB2_3rd	e5fmzC1	A: a+b complex topology	X: Middle domain in PB2 (From Topology)	H: Middle domain in PB2 (From Topology)	T: Middle domain in PB2	F: Flu_PB2_3rd	ECOD (1.6)
C	Flu_PB2_1st	e5fmzC4	A: extended segments	X: RNA polymerase PB2 N-terminal fragment (From Topology)	H: RNA polymerase PB2 N-terminal fragment (From Topology)	T: RNA polymerase PB2 N-terminal fragment	F: Flu_PB2_1st	ECOD (1.6)
F	Flu_PB2_6th	e5fmzF6	A: alpha arrays	X: PB2 '627' domain-related (From Homology)	H: PB2 '627' domain-related	T: Polymerase basic protein 2 (PB2) '627' domain	F: Flu_PB2_6th	ECOD (1.6)
F	Flu_PB2_4th	e5fmzF3	A: alpha arrays	X: Helical domain in PB2 (From Topology)	H: Helical domain in PB2 (From Topology)	T: Helical domain in PB2	F: Flu_PB2_4th	ECOD (1.6)
F	Flu_PB2_7th	e5fmzF1	A: a+b two layers	X: PB2 C-terminal domain-like (From Topology)	H: PB2 C-terminal domain-like (From Topology)	T: PB2 C-terminal domain-like	F: Flu_PB2_7th	ECOD (1.6)
F	Flu_PB2_2nd	e5fmzF2	A: a+b two layers	X: a+b domain in PB2 (From Topology)	H: a+b domain in PB2 (From Topology)	T: a+b domain in PB2	F: Flu_PB2_2nd	ECOD (1.6)
F	Flu_PB2_5th	e5fmzF5	A: a+b three layers	X: Polymerase basic protein 2 cap-binding domain (From Topology)	H: Polymerase basic protein 2 cap-binding domain (From Topology)	T: Polymerase basic protein 2 cap-binding domain	F: Flu_PB2_5th	ECOD (1.6)
F	Flu_PB2_3rd	e5fmzF7	A: a+b complex topology	X: Middle domain in PB2 (From Topology)	H: Middle domain in PB2 (From Topology)	T: Middle domain in PB2	F: Flu_PB2_3rd	ECOD (1.6)
F	Flu_PB2_1st	e5fmzF4	A: extended segments	X: RNA polymerase PB2 N-terminal fragment (From Topology)	H: RNA polymerase PB2 N-terminal fragment (From Topology)	T: RNA polymerase PB2 N-terminal fragment	F: Flu_PB2_1st	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, D	PF00603	Influenza RNA-dependent RNA polymerase subunit PA (Flu_PA)	Influenza RNA-dependent RNA polymerase subunit PA	-	Family
B, E	PF00602	Influenza RNA-dependent RNA polymerase subunit PB1 (Flu_PB1)	Influenza RNA-dependent RNA polymerase subunit PB1	-	Family
C, F	PF00604	Influenza RNA polymerase PB2 CAP binding domain (Flu_PB2_5th)	Influenza RNA polymerase PB2 CAP binding domain	Influenza virus encodes a large, multidomain RNA-dependent RNA polymerase that can both transcribe and replicate the viral RNA genome. In influenza virus, the polymerase is composed of three polypeptides: PB1, PB2 and PA/P3. PB1 houses the polymerase ...	Influenza virus encodes a large, multidomain RNA-dependent RNA polymerase that can both transcribe and replicate the viral RNA genome. In influenza virus, the polymerase is composed of three polypeptides: PB1, PB2 and PA/P3. PB1 houses the polymerase active site, whereas PB2 and PA/P3 contain, respectively, cap-binding [1] and endonuclease domains required for transcription initiation by cap-snatching [2]. This entry represents the CAP binding domain [2].	Domain
C, F	PF20948	Influenza RNA polymerase PB2 second domain (Flu_PB2_2nd)	Influenza RNA polymerase PB2 second domain	Influenza virus encodes a large, multidomain RNA-dependent RNA polymerase that can both transcribe and replicate the viral RNA genome. In influenza virus, the polymerase is composed of three polypeptides: PB1, PB2 and PA/P3. PB1 houses the polymerase ...	Influenza virus encodes a large, multidomain RNA-dependent RNA polymerase that can both transcribe and replicate the viral RNA genome. In influenza virus, the polymerase is composed of three polypeptides: PB1, PB2 and PA/P3. PB1 houses the polymerase active site, whereas PB2 and PA/P3 contain, respectively, cap-binding [1] and endonuclease domains required for transcription initiation by cap-snatching [2]. This entry represents the domain of the Flu PB protein that follows the N-terminal extended region.	Domain
C, F	PF20947	Influenza RNA polymerase PB2 N-terminal region (Flu_PB2_1st)	Influenza RNA polymerase PB2 N-terminal region	-	Family
C, F	PF20949	Influenza RNA polymerase PB2 middle domain (Flu_PB2_3rd)	Influenza RNA polymerase PB2 middle domain	Influenza virus encodes a large, multidomain RNA-dependent RNA polymerase that can both transcribe and replicate the viral RNA genome. In influenza virus, the polymerase is composed of three polypeptides: PB1, PB2 and PA/P3. PB1 houses the polymerase ...	Influenza virus encodes a large, multidomain RNA-dependent RNA polymerase that can both transcribe and replicate the viral RNA genome. In influenza virus, the polymerase is composed of three polypeptides: PB1, PB2 and PA/P3. PB1 houses the polymerase active site, whereas PB2 and PA/P3 contain, respectively, cap-binding [1] and endonuclease domains required for transcription initiation by cap-snatching [2]. This entry represents the middle domain in Flu PB2 protein.	Domain
C, F	PF20951	Influenza RNA polymerase PB2 6th domain (Flu_PB2_6th)	Influenza RNA polymerase PB2 6th domain	Influenza virus encodes a large, multidomain RNA-dependent RNA polymerase that can both transcribe and replicate the viral RNA genome. In influenza virus, the polymerase is composed of three polypeptides: PB1, PB2 and PA/P3. PB1 houses the polymerase ...	Influenza virus encodes a large, multidomain RNA-dependent RNA polymerase that can both transcribe and replicate the viral RNA genome. In influenza virus, the polymerase is composed of three polypeptides: PB1, PB2 and PA/P3. PB1 houses the polymerase active site, whereas PB2 and PA/P3 contain, respectively, cap-binding [1] and endonuclease domains required for transcription initiation by cap-snatching [2]. This entry represents the 6th domain of PB2.	Domain
C, F	PF20950	Influenza RNA polymerase PB2 helical domain (Flu_PB2_4th)	Influenza RNA polymerase PB2 helical domain	Influenza virus encodes a large, multidomain RNA-dependent RNA polymerase that can both transcribe and replicate the viral RNA genome. In influenza virus, the polymerase is composed of three polypeptides: PB1, PB2 and PA/P3. PB1 houses the polymerase ...	Influenza virus encodes a large, multidomain RNA-dependent RNA polymerase that can both transcribe and replicate the viral RNA genome. In influenza virus, the polymerase is composed of three polypeptides: PB1, PB2 and PA/P3. PB1 houses the polymerase active site, whereas PB2 and PA/P3 contain, respectively, cap-binding [1] and endonuclease domains required for transcription initiation by cap-snatching [2]. This entry represents the helical domain of Flu PB2 protein.	Domain
C, F	PF20952	Influenza RNA polymerase PB2 C-terminal domain (Flu_PB2_7th)	Influenza RNA polymerase PB2 C-terminal domain	Influenza virus encodes a large, multidomain RNA-dependent RNA polymerase that can both transcribe and replicate the viral RNA genome. In influenza virus, the polymerase is composed of three polypeptides: PB1, PB2 and PA/P3. PB1 houses the polymerase ...	Influenza virus encodes a large, multidomain RNA-dependent RNA polymerase that can both transcribe and replicate the viral RNA genome. In influenza virus, the polymerase is composed of three polypeptides: PB1, PB2 and PA/P3. PB1 houses the polymerase active site, whereas PB2 and PA/P3 contain, respectively, cap-binding [1] and endonuclease domains required for transcription initiation by cap-snatching [2]. This entry represents the C-terminal domain of Flu PB2 protein.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, D	POLYMERASE ACIDIC PROTEIN	endonuclease activity nuclease activity hydrolase activity, acting on ester bonds hydrolase activity catalytic activity RNA binding binding organic cyclic compound binding nucleic acid binding cation binding ion binding metal ion binding small molecule binding	symbiont-mediated perturbation of host cellular process biological process involved in interspecies interaction between organisms biological process involved in interaction with host biological process involved in symbiotic interaction symbiont-mediated suppression of host transcription symbiont-mediated suppression of host gene expression symbiont-mediated suppression of host mRNA transcription via inhibition of RNA polymerase II activity symbiont-mediated perturbation of host process symbiont-mediated perturbation of host gene expression cellular process symbiont-mediated perturbation of host transcription modulation of process of another organism cellular biosynthetic process cellular metabolic process symbiont-mediated perturbation of host cellular process biological process involved in interspecies interaction between organisms biological process involved in interaction with host biological process involved in symbiotic interaction symbiont-mediated suppression of host transcription symbiont-mediated suppression of host gene expression symbiont-mediated suppression of host mRNA transcription via inhibition of RNA polymerase II activity symbiont-mediated perturbation of host process symbiont-mediated perturbation of host gene expression cellular process symbiont-mediated perturbation of host transcription modulation of process of another organism cellular biosynthetic process cellular metabolic process RNA metabolic process viral life cycle primary metabolic process nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process viral genome replication biosynthetic process viral RNA genome replication viral process metabolic process macromolecule metabolic process viral gene expression cap snatching negative stranded viral RNA transcription viral transcription RNA-templated viral transcription gene expression DNA-templated transcription	host intracellular membrane-bounded organelle host cellular component host intracellular part host cell part host intracellular region cellular anatomical entity host cell nucleus host intracellular organelle host cell cytoplasm
B, E	RNA-DIRECTED RNA POLYMERASE CATALYTIC SUBUNIT	5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity RNA-dependent RNA polymerase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups RNA binding binding organic cyclic compound binding nucleic acid binding nucleoside phosphate binding 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity RNA-dependent RNA polymerase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups RNA binding binding organic cyclic compound binding nucleic acid binding nucleoside phosphate binding nucleotide binding heterocyclic compound binding small molecule binding cation binding ion binding metal ion binding	symbiont-mediated perturbation of host cellular process biological process involved in interspecies interaction between organisms biological process involved in interaction with host biological process involved in symbiotic interaction symbiont-mediated suppression of host transcription symbiont-mediated suppression of host gene expression symbiont-mediated suppression of host mRNA transcription via inhibition of RNA polymerase II activity symbiont-mediated perturbation of host process symbiont-mediated perturbation of host gene expression cellular process symbiont-mediated perturbation of host transcription modulation of process of another organism cellular biosynthetic process cellular metabolic process symbiont-mediated perturbation of host cellular process biological process involved in interspecies interaction between organisms biological process involved in interaction with host biological process involved in symbiotic interaction symbiont-mediated suppression of host transcription symbiont-mediated suppression of host gene expression symbiont-mediated suppression of host mRNA transcription via inhibition of RNA polymerase II activity symbiont-mediated perturbation of host process symbiont-mediated perturbation of host gene expression cellular process symbiont-mediated perturbation of host transcription modulation of process of another organism cellular biosynthetic process cellular metabolic process RNA metabolic process viral life cycle primary metabolic process nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process viral genome replication biosynthetic process viral RNA genome replication viral process metabolic process macromolecule metabolic process viral gene expression viral transcription gene expression DNA-templated transcription	host intracellular membrane-bounded organelle host cellular component host intracellular part host cell part host intracellular region cellular anatomical entity host cell nucleus host intracellular organelle host cell cytoplasm
C, F	POLYMERASE BASIC PROTEIN 2	5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity RNA-dependent RNA polymerase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups RNA binding binding organic cyclic compound binding nucleic acid binding	symbiont-mediated perturbation of host cellular process biological process involved in interspecies interaction between organisms biological process involved in interaction with host biological process involved in symbiotic interaction symbiont-mediated suppression of host transcription symbiont-mediated suppression of host gene expression symbiont-mediated suppression of host mRNA transcription via inhibition of RNA polymerase II activity symbiont-mediated perturbation of host process symbiont-mediated perturbation of host gene expression cellular process symbiont-mediated perturbation of host transcription modulation of process of another organism cellular biosynthetic process cellular metabolic process symbiont-mediated perturbation of host cellular process biological process involved in interspecies interaction between organisms biological process involved in interaction with host biological process involved in symbiotic interaction symbiont-mediated suppression of host transcription symbiont-mediated suppression of host gene expression symbiont-mediated suppression of host mRNA transcription via inhibition of RNA polymerase II activity symbiont-mediated perturbation of host process symbiont-mediated perturbation of host gene expression cellular process symbiont-mediated perturbation of host transcription modulation of process of another organism cellular biosynthetic process cellular metabolic process RNA metabolic process viral life cycle primary metabolic process nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process viral genome replication biosynthetic process viral RNA genome replication viral process metabolic process macromolecule metabolic process viral gene expression cap snatching negative stranded viral RNA transcription viral transcription RNA-templated viral transcription 7-methylguanosine mRNA capping 7-methylguanosine RNA capping RNA capping gene expression mRNA processing mRNA metabolic process RNA 5'-end processing RNA processing DNA-templated transcription	host intracellular membrane-bounded organelle host cellular component host intracellular part host cell cytoplasm host cell part host intracellular region cellular anatomical entity host cell mitochondrion host cell cytoplasm part host intracellular organelle host cell nucleus virion component
G [auth H], H [auth V]	5'-R(APGPUPAPGPUPAPAPCPAPAPGP)-3'	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, D	IPR001009	Influenza RNA-dependent RNA polymerase subunit PA	Family
A, D	IPR037534	Polymerase acidic protein	Family
A, D	IPR038372	Influenza RNA-dependent RNA polymerase subunit PA, endonuclease domain	Homologous Superfamily
B, E	IPR007099	RNA-directed RNA polymerase, negative-strand RNA virus	Domain
B, E	IPR001407	Influenza RNA-dependent RNA polymerase subunit PB1	Family
C, F	IPR001591	Influenza RNA-dependent RNA polymerase subunit PB2	Family
C, F	IPR049106	Influenza RNA polymerase PB2, N-terminal region	Domain
C, F	IPR049115	Influenza RNA polymerase PB2, C-terminal domain	Domain
C, F	IPR049110	Influenza RNA polymerase PB2, second domain	Domain
C, F	IPR049114	Influenza RNA polymerase PB2, sixth domain	Domain
C, F	IPR049113	Polymerase basic protein 2, helical domain	Domain
C, F	IPR049111	Influenza RNA polymerase PB2, middle domain	Domain
C, F	IPR048298	Influenza RNA polymerase PB2, CAP binding domain	Domain
C, F	IPR037258	PB2, C-terminal	Homologous Superfamily

5FMZ

Crystal structure of Influenza B polymerase with bound 5' vRNA

External Resource: Annotation

Domain Annotation: ECOD Classification ECOD Database Homepage

Protein Family Annotation Pfam Database Homepage

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

InterPro: Protein Family Classification InterPro Database Homepage

Prepare Data

Validate Data

Deposit Data

Help and Resources

5FMZ

Crystal structure of Influenza B polymerase with bound 5' vRNA

External Resource: Annotation

Domain Annotation: ECOD Classification ECOD Database Homepage

Protein Family Annotation Pfam Database Homepage

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

InterPro: Protein Family Classification InterPro Database Homepage