6E5U | pdb_00006e5u

Crystal structure of the mRNA export receptor NXF1/NXT1 in complex with influenza virus NS1 protein

External Resource: Annotation

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: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
G	SCOP2B Superfamily	NTF2-like	8037085	3000472	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	L domain-like	8038331	3001010	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	L domain-like	8038331	3001010	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	NTF2-like	8037085	3000472	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	L domain-like	8038331	3001010	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	NTF2-like	8037085	3000472	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	L domain-like	8038331	3001010	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	NTF2-like	8037085	3000472	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	NTF2-like	8037084	3000472	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	NTF2-like	8037084	3000472	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	NTF2-like	8037084	3000472	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	NTF2-like	8037084	3000472	SCOP2B (2022-06-29)
O [auth Y]	SCOP2B Superfamily	Ns1 effector domain-like	8093810	3000759	SCOP2B (2022-06-29)
N [auth X]	SCOP2B Superfamily	Ns1 effector domain-like	8093810	3000759	SCOP2B (2022-06-29)
M [auth V]	SCOP2B Superfamily	Ns1 effector domain-like	8093810	3000759	SCOP2B (2022-06-29)
L [auth U]	SCOP2 Family	Ns1 effector domain-like	8093809	4003394	SCOP2 (2022-06-29)
L [auth U]	SCOP2 Superfamily	Ns1 effector domain-like	8093810	3000759	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
G	e6e5uG1	A: PriB N-terminal domain-like	X: Rubredoxin-related	H: Aconitase iron-sulfur domain	T: Lon_C	F:	ECOD (20:10:01)
E	e6e5uE1	A: PriB N-terminal domain-like	X: Rubredoxin-related	H: Aconitase iron-sulfur domain	T: Lon_C	F:	ECOD (20:10:01)
C	e6e5uC1	A: PriB N-terminal domain-like	X: Rubredoxin-related	H: Aconitase iron-sulfur domain	T: Lon_C	F:	ECOD (20:10:01)
A	e6e5uA1	A: PriB N-terminal domain-like	X: Rubredoxin-related	H: Aconitase iron-sulfur domain	T: Glutaredoxin, ArsC	F:	ECOD (20:10:01)
H	e6e5uH1	A: PriB N-terminal domain-like	X: Rubredoxin-related	H: Aconitase iron-sulfur domain	T: Lon_C	F:	ECOD (20:10:01)
F	e6e5uF1	A: PriB N-terminal domain-like	X: Rubredoxin-related	H: Aconitase iron-sulfur domain	T: Lon_C	F:	ECOD (20:10:01)
D	e6e5uD1	A: PriB N-terminal domain-like	X: Rubredoxin-related	H: Aconitase iron-sulfur domain	T: Lon_C	F:	ECOD (20:10:01)
B	e6e5uB1	A: PriB N-terminal domain-like	X: Rubredoxin-related	H: Aconitase iron-sulfur domain	T: Glutaredoxin, ArsC	F:	ECOD (20:10:01)
O [auth Y]	e6e5uY1	A: PriB N-terminal domain-like	X: Rubredoxin-related	H: Aconitase iron-sulfur domain	T: Lon_C	F:	ECOD (20:10:01)
N [auth X]	e6e5uX1	A: PriB N-terminal domain-like	X: Rubredoxin-related	H: Aconitase iron-sulfur domain	T: Lon_C	F:	ECOD (20:10:01)
M [auth V]	e6e5uV1	A: PriB N-terminal domain-like	X: Rubredoxin-related	H: Aconitase iron-sulfur domain	T: Lon_C	F:	ECOD (20:10:01)
L [auth U]	e6e5uU1	A: PriB N-terminal domain-like	X: Rubredoxin-related	H: Aconitase iron-sulfur domain	T: Glutaredoxin, ArsC	F:	ECOD (20:10:01)
P [auth J]	e6e5uJ1	A: PriB N-terminal domain-like	X: Rubredoxin-related	H: Aconitase iron-sulfur domain	T: Lon_C	F:	ECOD (20:10:01)
K [auth M]	e6e5uM1	A: PriB N-terminal domain-like	X: Rubredoxin-related	H: Aconitase iron-sulfur domain	T: Lon_C	F:	ECOD (20:10:01)
J [auth L]	e6e5uL1	A: PriB N-terminal domain-like	X: Rubredoxin-related	H: Aconitase iron-sulfur domain	T: Lon_C	F:	ECOD (20:10:01)
I [auth K]	e6e5uK1	A: PriB N-terminal domain-like	X: Rubredoxin-related	H: Aconitase iron-sulfur domain	T: Glutaredoxin, ArsC	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
G	3.80.10.10	Alpha Beta	Alpha-Beta Horseshoe	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	Ribonuclease Inhibitor	CATH (utative)
G	3.10.450.50	Alpha Beta	Roll	Nuclear Transport Factor 2	Chain: A,	CATH (utative)
E	3.80.10.10	Alpha Beta	Alpha-Beta Horseshoe	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	Ribonuclease Inhibitor	CATH (utative)
E	3.10.450.50	Alpha Beta	Roll	Nuclear Transport Factor 2	Chain: A,	CATH (utative)
C	3.80.10.10	Alpha Beta	Alpha-Beta Horseshoe	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	Ribonuclease Inhibitor	CATH (utative)
C	3.10.450.50	Alpha Beta	Roll	Nuclear Transport Factor 2	Chain: A,	CATH (utative)
A	3.80.10.10	Alpha Beta	Alpha-Beta Horseshoe	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	Ribonuclease Inhibitor	CATH (utative)
A	3.10.450.50	Alpha Beta	Roll	Nuclear Transport Factor 2	Chain: A,	CATH (utative)
H	3.10.450.50	Alpha Beta	Roll	Nuclear Transport Factor 2	Chain: A,	CATH (utative)
F	3.10.450.50	Alpha Beta	Roll	Nuclear Transport Factor 2	Chain: A,	CATH (utative)
D	3.10.450.50	Alpha Beta	Roll	Nuclear Transport Factor 2	Chain: A,	CATH (utative)
B	3.10.450.50	Alpha Beta	Roll	Nuclear Transport Factor 2	Chain: A,	CATH (utative)
O [auth Y]	3.30.420.330	Alpha Beta	2-Layer Sandwich	Nucleotidyltransferase	domain 5	CATH (utative)
N [auth X]	3.30.420.330	Alpha Beta	2-Layer Sandwich	Nucleotidyltransferase	domain 5	CATH (utative)
M [auth V]	3.30.420.330	Alpha Beta	2-Layer Sandwich	Nucleotidyltransferase	domain 5	CATH (utative)
L [auth U]	3.30.420.330	Alpha Beta	2-Layer Sandwich	Nucleotidyltransferase	domain 5	CATH (utative)
K [auth M]	1.10.287.10	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	S15/NS1, RNA-binding	CATH (utative)
I [auth K]	1.10.287.10	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	S15/NS1, RNA-binding	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, C, E, G	PF24048	NXF1/2/3/5 leucine-rich repeat domain (LRR_NXF1-5)	NXF1/2/3/5 leucine-rich repeat domain	-	Repeat
A, C, E, G	PF22602	Nuclear RNA export factor, NTF2 domain (NXF_NTF2)	Nuclear RNA export factor, NTF2 domain	This entry represents the NTF2 domain of nuclear RNA export factors (NFX), proteins that are involved in the nuclear export of mRNAs [1-5].	Domain
B, D, F, H	PF02136	Nuclear transport factor 2 (NTF2) domain (NTF2)	Nuclear transport factor 2 (NTF2) domain	This family includes the NTF2-like Delta-5-3-ketosteroid isomerase proteins.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, C, E, G	Nuclear RNA export factor 1	RNA binding binding nucleic acid binding mRNA binding	cellular localization nitrogen compound transport nucleocytoplasmic transport transport nuclear transport mRNA transport localization mRNA export from nucleus establishment of localization in cell RNA localization nuclear export nucleobase-containing compound transport RNA transport nucleic acid transport cellular localization nitrogen compound transport nucleocytoplasmic transport transport nuclear transport mRNA transport localization mRNA export from nucleus establishment of localization in cell RNA localization nuclear export nucleobase-containing compound transport RNA transport nucleic acid transport intracellular transport gene expression establishment of localization macromolecule biosynthetic process RNA export from nucleus establishment of RNA localization biosynthetic process macromolecule localization cellular process metabolic process macromolecule metabolic process establishment of protein localization protein transport intracellular protein localization poly(A)+ mRNA export from nucleus	intracellular anatomical structure cytoplasmic ribonucleoprotein granule intracellular membraneless organelle ribonucleoprotein granule intracellular organelle cellular anatomical structure organelle membraneless organelle cytoplasm supramolecular complex cytoplasmic stress granule membrane-bounded organelle nucleus membrane-enclosed lumen intracellular anatomical structure cytoplasmic ribonucleoprotein granule intracellular membraneless organelle ribonucleoprotein granule intracellular organelle cellular anatomical structure organelle membraneless organelle cytoplasm supramolecular complex cytoplasmic stress granule membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nuclear speck nuclear body nucleoplasm organelle lumen nuclear ribonucleoprotein granule nuclear lumen cytosol protein-containing complex nuclear protein-containing complex endomembrane system organelle envelope nuclear envelope nuclear pore nuclear RNA export factor complex inclusion body nuclear inclusion body
B, D, F, H	NTF2-related export protein 1	small GTPase binding protein binding binding enzyme binding GTPase binding	cellular localization nitrogen compound transport nucleocytoplasmic transport transport nuclear transport mRNA transport localization mRNA export from nucleus establishment of localization in cell RNA localization nuclear export nucleobase-containing compound transport RNA transport nucleic acid transport cellular localization nitrogen compound transport nucleocytoplasmic transport transport nuclear transport mRNA transport localization mRNA export from nucleus establishment of localization in cell RNA localization nuclear export nucleobase-containing compound transport RNA transport nucleic acid transport poly(A)+ mRNA export from nucleus intracellular transport gene expression establishment of localization macromolecule biosynthetic process RNA export from nucleus establishment of RNA localization biosynthetic process macromolecule localization cellular process metabolic process macromolecule metabolic process establishment of protein localization protein export from nucleus protein transport intracellular protein localization intracellular protein transport	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle intracellular organelle lumen nuclear speck ribonucleoprotein granule intracellular organelle nuclear body cellular anatomical structure nucleoplasm organelle lumen membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle intracellular organelle lumen nuclear speck ribonucleoprotein granule intracellular organelle nuclear body cellular anatomical structure nucleoplasm organelle lumen organelle membraneless organelle supramolecular complex nuclear ribonucleoprotein granule nuclear lumen protein-containing complex nuclear protein-containing complex endomembrane system organelle envelope nuclear envelope nuclear pore nuclear pore central transport channel cytoplasm cytosol nuclear RNA export factor complex
L [auth U], M [auth V], N [auth X], O [auth Y]	Non-structural protein 1	enzyme regulator activity protein kinase inhibitor activity molecular function inhibitor activity molecular function regulator activity enzyme inhibitor activity protein kinase regulator activity protein serine/threonine kinase inhibitor activity kinase inhibitor activity kinase regulator activity RNA binding binding nucleic acid binding	symbiont-mediated perturbation of host cellular process symbiont-mediated suppression of host mRNA processing biological process involved in interspecies interaction between organisms symbiont-mediated perturbation of host process symbiont-mediated perturbation of host gene expression modulation of process of another organism biological process involved in interaction with host biological process involved in symbiotic interaction symbiont-mediated suppression of host gene expression symbiont-mediated perturbation of host defense response symbiont-mediated suppression of host cytoplasmic pattern recognition receptor signaling pathway via inhibition of RIG-I activity symbiont-mediated suppression of host pathogen-associated molecular pattern receptor signaling pathway symbiont-mediated perturbation of host immune response symbiont-mediated suppression of host signal transduction pathway symbiont-mediated perturbation of host cellular process symbiont-mediated suppression of host mRNA processing biological process involved in interspecies interaction between organisms symbiont-mediated perturbation of host process symbiont-mediated perturbation of host gene expression modulation of process of another organism biological process involved in interaction with host biological process involved in symbiotic interaction symbiont-mediated suppression of host gene expression symbiont-mediated perturbation of host defense response symbiont-mediated suppression of host cytoplasmic pattern recognition receptor signaling pathway via inhibition of RIG-I activity symbiont-mediated suppression of host pathogen-associated molecular pattern receptor signaling pathway symbiont-mediated perturbation of host immune response symbiont-mediated suppression of host signal transduction pathway symbiont-mediated suppression of host immune response symbiont-mediated suppression of host innate immune response symbiont-mediated perturbation of host innate immune response symbiont-mediated perturbation of host signal transduction pathway symbiont-mediated suppression of cytoplasmic pattern recognition receptor signaling pathway response to stimulus response to other organism symbiont-mediated perturbation of host defenses symbiont-mediated suppression of host PKR/eIFalpha signaling symbiont-mediated response to host defenses response to external stimulus response to biotic stimulus symbiont-mediated suppression of host-directed shutoff of host translation symbiont-mediated suppression of host defenses response to host response to external biotic stimulus symbiont-mediated suppression of host interferon-mediated signaling pathway symbiont-mediated suppression of host type I interferon-mediated signaling pathway	host intracellular membrane-bounded organelle host cellular component host intracellular part cellular anatomical structure host cell part host intracellular region host cell nucleus other organism part host intracellular organelle host cell cytoplasm
I [auth K], J [auth L], K [auth M], P [auth J]	Non-structural protein 1	enzyme regulator activity protein kinase inhibitor activity molecular function inhibitor activity molecular function regulator activity enzyme inhibitor activity protein kinase regulator activity protein serine/threonine kinase inhibitor activity kinase inhibitor activity kinase regulator activity RNA binding binding nucleic acid binding	symbiont-mediated perturbation of host cellular process symbiont-mediated suppression of host mRNA processing biological process involved in interspecies interaction between organisms symbiont-mediated perturbation of host process symbiont-mediated perturbation of host gene expression modulation of process of another organism biological process involved in interaction with host biological process involved in symbiotic interaction symbiont-mediated suppression of host gene expression symbiont-mediated perturbation of host defense response symbiont-mediated suppression of host cytoplasmic pattern recognition receptor signaling pathway via inhibition of RIG-I activity symbiont-mediated suppression of host pathogen-associated molecular pattern receptor signaling pathway symbiont-mediated perturbation of host immune response symbiont-mediated suppression of host signal transduction pathway symbiont-mediated perturbation of host cellular process symbiont-mediated suppression of host mRNA processing biological process involved in interspecies interaction between organisms symbiont-mediated perturbation of host process symbiont-mediated perturbation of host gene expression modulation of process of another organism biological process involved in interaction with host biological process involved in symbiotic interaction symbiont-mediated suppression of host gene expression symbiont-mediated perturbation of host defense response symbiont-mediated suppression of host cytoplasmic pattern recognition receptor signaling pathway via inhibition of RIG-I activity symbiont-mediated suppression of host pathogen-associated molecular pattern receptor signaling pathway symbiont-mediated perturbation of host immune response symbiont-mediated suppression of host signal transduction pathway symbiont-mediated suppression of host immune response symbiont-mediated suppression of host innate immune response symbiont-mediated perturbation of host innate immune response symbiont-mediated perturbation of host signal transduction pathway symbiont-mediated suppression of cytoplasmic pattern recognition receptor signaling pathway response to stimulus response to other organism symbiont-mediated perturbation of host defenses symbiont-mediated suppression of host PKR/eIFalpha signaling symbiont-mediated response to host defenses response to external stimulus response to biotic stimulus symbiont-mediated suppression of host-directed shutoff of host translation symbiont-mediated suppression of host defenses response to host response to external biotic stimulus symbiont-mediated suppression of host interferon-mediated signaling pathway symbiont-mediated suppression of host type I interferon-mediated signaling pathway	host intracellular membrane-bounded organelle host cellular component host intracellular part cellular anatomical structure host cell part host intracellular region host cell nucleus other organism part host intracellular organelle host cell cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C, E, G	IPR030217	Nuclear RNA export factor	Family
A, C, E, G	IPR032710	NTF2-like domain superfamily	Homologous Superfamily
A, C, E, G	IPR015245	Nuclear RNA export factor Tap, RNA-binding domain	Domain
A, C, E, G	IPR057125	NXF1/2/3/5-like, leucine-rich repeat domain	Domain
A, C, E, G	IPR005637	TAP C-terminal (TAP-C) domain	Domain
A, C, E, G	IPR001611	Leucine-rich repeat	Repeat
A, C, E, G	IPR018222	Nuclear transport factor 2, eukaryote	Domain
A, C, E, G	IPR012677	Nucleotide-binding alpha-beta plait domain superfamily	Homologous Superfamily
A, C, E, G	IPR032675	Leucine-rich repeat domain superfamily	Homologous Superfamily
A, C, E, G	IPR009060	UBA-like superfamily	Homologous Superfamily
A, C, E, G	IPR035979	RNA-binding domain superfamily	Homologous Superfamily
A, C, E, G	IPR002075	Nuclear transport factor 2 domain	Domain
B, D, F, H	IPR032710	NTF2-like domain superfamily	Homologous Superfamily
B, D, F, H	IPR045875	Nuclear transport factor 2	Family
B, D, F, H	IPR018222	Nuclear transport factor 2, eukaryote	Domain
B, D, F, H	IPR002075	Nuclear transport factor 2 domain	Domain
L [auth U], M [auth V], N [auth X], O [auth Y]	IPR038064	Influenza A virus NS1, effector domain-like superfamily	Homologous Superfamily
L [auth U], M [auth V], N [auth X], O [auth Y]	IPR009068	uS15/NS1, RNA-binding domain superfamily	Homologous Superfamily
L [auth U], M [auth V], N [auth X], O [auth Y]	IPR000256	Influenza A virus NS1 protein	Family
L [auth U], M [auth V], N [auth X], O [auth Y]	IPR004208	Influenza non-structural protein (NS1)	Family
I [auth K], J [auth L], K [auth M], P [auth J]	IPR038064	Influenza A virus NS1, effector domain-like superfamily	Homologous Superfamily
I [auth K], J [auth L], K [auth M], P [auth J]	IPR009068	uS15/NS1, RNA-binding domain superfamily	Homologous Superfamily
I [auth K], J [auth L], K [auth M], P [auth J]	IPR000256	Influenza A virus NS1 protein	Family
I [auth K], J [auth L], K [auth M], P [auth J]	IPR004208	Influenza non-structural protein (NS1)	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, C, E, G	Pharos: Q9UBU9	acute myeloid leukemia
B, D, F, H	Pharos: Q9UKK6	breast cancer invasive ductal breast carcinoma malignant pancreatic neoplasm primitive neuroectodermal tumor glioblastoma large cell medulloblastoma medulloblastoma Sjogren syndrome hepatocellular carcinoma malignant mesothelioma pancreatic ductal adenocarcinoma