2VUT | pdb_00002vut

Crystal structure of NAD-bound NmrA-AreA zinc finger 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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
P	d2vutp_	Small proteins	Glucocorticoid receptor-like (DNA-binding domain)	Glucocorticoid receptor-like (DNA-binding domain)	automated matches	automated matches	Aspergillus nidulans (Aspergillus nidulans FGSC A4 ) [TaxId: 227321 ],	SCOPe (2.08)
O	d2vuto_	Small proteins	Glucocorticoid receptor-like (DNA-binding domain)	Glucocorticoid receptor-like (DNA-binding domain)	automated matches	automated matches	Aspergillus nidulans (Aspergillus nidulans FGSC A4 ) [TaxId: 227321 ],	SCOPe (2.08)
N	d2vutn_	Small proteins	Glucocorticoid receptor-like (DNA-binding domain)	Glucocorticoid receptor-like (DNA-binding domain)	automated matches	automated matches	Aspergillus nidulans (Aspergillus nidulans FGSC A4 ) [TaxId: 227321 ],	SCOPe (2.08)
M	d2vutm_	Small proteins	Glucocorticoid receptor-like (DNA-binding domain)	Glucocorticoid receptor-like (DNA-binding domain)	automated matches	automated matches	Aspergillus nidulans (Aspergillus nidulans FGSC A4 ) [TaxId: 227321 ],	SCOPe (2.08)
L	d2vutl_	Small proteins	Glucocorticoid receptor-like (DNA-binding domain)	Glucocorticoid receptor-like (DNA-binding domain)	automated matches	automated matches	Aspergillus nidulans (Aspergillus nidulans FGSC A4 ) [TaxId: 227321 ],	SCOPe (2.08)
K	d2vutk_	Small proteins	Glucocorticoid receptor-like (DNA-binding domain)	Glucocorticoid receptor-like (DNA-binding domain)	automated matches	automated matches	Aspergillus nidulans (Aspergillus nidulans FGSC A4 ) [TaxId: 227321 ],	SCOPe (2.08)
J	d2vutj_	Small proteins	Glucocorticoid receptor-like (DNA-binding domain)	Glucocorticoid receptor-like (DNA-binding domain)	automated matches	automated matches	Aspergillus nidulans (Aspergillus nidulans FGSC A4 ) [TaxId: 227321 ],	SCOPe (2.08)
I	d2vuti_	Small proteins	Glucocorticoid receptor-like (DNA-binding domain)	Glucocorticoid receptor-like (DNA-binding domain)	automated matches	automated matches	Aspergillus nidulans (Aspergillus nidulans FGSC A4 ) [TaxId: 227321 ],	SCOPe (2.08)
H	d2vuth_	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	Tyrosine-dependent oxidoreductases	automated matches	Aspergillus nidulans (Aspergillus nidulans FGSC A4 ) [TaxId: 227321 ],	SCOPe (2.08)
G	d2vutg_	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	Tyrosine-dependent oxidoreductases	automated matches	Aspergillus nidulans (Aspergillus nidulans FGSC A4 ) [TaxId: 227321 ],	SCOPe (2.08)
F	d2vutf_	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	Tyrosine-dependent oxidoreductases	automated matches	Aspergillus nidulans (Aspergillus nidulans FGSC A4 ) [TaxId: 227321 ],	SCOPe (2.08)
E	d2vute_	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	Tyrosine-dependent oxidoreductases	automated matches	Aspergillus nidulans (Aspergillus nidulans FGSC A4 ) [TaxId: 227321 ],	SCOPe (2.08)
D	d2vutd_	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	Tyrosine-dependent oxidoreductases	automated matches	Aspergillus nidulans (Aspergillus nidulans FGSC A4 ) [TaxId: 227321 ],	SCOPe (2.08)
C	d2vutc_	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	Tyrosine-dependent oxidoreductases	automated matches	Aspergillus nidulans (Aspergillus nidulans FGSC A4 ) [TaxId: 227321 ],	SCOPe (2.08)
B	d2vutb_	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	Tyrosine-dependent oxidoreductases	automated matches	Aspergillus nidulans (Aspergillus nidulans FGSC A4 ) [TaxId: 227321 ],	SCOPe (2.08)
A	d2vuta_	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	Tyrosine-dependent oxidoreductases	automated matches	Aspergillus nidulans (Aspergillus nidulans FGSC A4 ) [TaxId: 227321 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
P	SCOP2B Superfamily	Glucocorticoid receptor-like (DNA-binding domain)	8037785	3000068	SCOP2B (2022-06-29)
O	SCOP2B Superfamily	Glucocorticoid receptor-like (DNA-binding domain)	8037785	3000068	SCOP2B (2022-06-29)
N	SCOP2B Superfamily	Glucocorticoid receptor-like (DNA-binding domain)	8037785	3000068	SCOP2B (2022-06-29)
M	SCOP2B Superfamily	Glucocorticoid receptor-like (DNA-binding domain)	8037785	3000068	SCOP2B (2022-06-29)
L	SCOP2B Superfamily	Glucocorticoid receptor-like (DNA-binding domain)	8037785	3000068	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	Glucocorticoid receptor-like (DNA-binding domain)	8037785	3000068	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	Glucocorticoid receptor-like (DNA-binding domain)	8037785	3000068	SCOP2B (2022-06-29)
I	SCOP2 Family	Erythroid transcription factor GATA-1	8025406	4003617	SCOP2 (2022-06-29)
I	SCOP2 Superfamily	Glucocorticoid receptor-like (DNA-binding domain)	8037785	3000068	SCOP2 (2022-06-29)
H	SCOP2B Superfamily	SDR-like	8058116	3000038	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	SDR-like	8058116	3000038	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	SDR-like	8058116	3000038	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	SDR-like	8058116	3000038	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	SDR-like	8058116	3000038	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	SDR-like	8058116	3000038	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	SDR-like	8058116	3000038	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	SDR-like	8058116	3000038	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	GATA	e2vutP1	A: few secondary structure elements	X: Glucocorticoid receptor-like	H: LIM domain-like	T: LIM domain-like	F: GATA	ECOD (1.6)
O	GATA	e2vutO1	A: few secondary structure elements	X: Glucocorticoid receptor-like	H: LIM domain-like	T: LIM domain-like	F: GATA	ECOD (1.6)
N	GATA	e2vutN1	A: few secondary structure elements	X: Glucocorticoid receptor-like	H: LIM domain-like	T: LIM domain-like	F: GATA	ECOD (1.6)
M	GATA	e2vutM1	A: few secondary structure elements	X: Glucocorticoid receptor-like	H: LIM domain-like	T: LIM domain-like	F: GATA	ECOD (1.6)
L	GATA	e2vutL1	A: few secondary structure elements	X: Glucocorticoid receptor-like	H: LIM domain-like	T: LIM domain-like	F: GATA	ECOD (1.6)
K	GATA	e2vutK1	A: few secondary structure elements	X: Glucocorticoid receptor-like	H: LIM domain-like	T: LIM domain-like	F: GATA	ECOD (1.6)
J	GATA	e2vutJ1	A: few secondary structure elements	X: Glucocorticoid receptor-like	H: LIM domain-like	T: LIM domain-like	F: GATA	ECOD (1.6)
I	GATA	e2vutI1	A: few secondary structure elements	X: Glucocorticoid receptor-like	H: LIM domain-like	T: LIM domain-like	F: GATA	ECOD (1.6)
H	NmrA	e2vutH1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: NAD(P)-binding Rossmann-fold domains	F: NmrA	ECOD (1.6)
G	NmrA	e2vutG1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: NAD(P)-binding Rossmann-fold domains	F: NmrA	ECOD (1.6)
F	NmrA	e2vutF1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: NAD(P)-binding Rossmann-fold domains	F: NmrA	ECOD (1.6)
E	NmrA	e2vutE1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: NAD(P)-binding Rossmann-fold domains	F: NmrA	ECOD (1.6)
D	NmrA	e2vutD1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: NAD(P)-binding Rossmann-fold domains	F: NmrA	ECOD (1.6)
C	NmrA	e2vutC1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: NAD(P)-binding Rossmann-fold domains	F: NmrA	ECOD (1.6)
B	NmrA	e2vutB1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: NAD(P)-binding Rossmann-fold domains	F: NmrA	ECOD (1.6)
A	NmrA	e2vutA1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: NAD(P)-binding Rossmann-fold domains	F: NmrA	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
P	3.30.50.10	Alpha Beta	2-Layer Sandwich	Erythroid Transcription Factor GATA-1	Chain A	CATH (4.3.0)
O	3.30.50.10	Alpha Beta	2-Layer Sandwich	Erythroid Transcription Factor GATA-1	Chain A	CATH (4.3.0)
N	3.30.50.10	Alpha Beta	2-Layer Sandwich	Erythroid Transcription Factor GATA-1	Chain A	CATH (4.3.0)
M	3.30.50.10	Alpha Beta	2-Layer Sandwich	Erythroid Transcription Factor GATA-1	Chain A	CATH (4.3.0)
L	3.30.50.10	Alpha Beta	2-Layer Sandwich	Erythroid Transcription Factor GATA-1	Chain A	CATH (4.3.0)
K	3.30.50.10	Alpha Beta	2-Layer Sandwich	Erythroid Transcription Factor GATA-1	Chain A	CATH (4.3.0)
J	3.30.50.10	Alpha Beta	2-Layer Sandwich	Erythroid Transcription Factor GATA-1	Chain A	CATH (4.3.0)
I	3.30.50.10	Alpha Beta	2-Layer Sandwich	Erythroid Transcription Factor GATA-1	Chain A	CATH (4.3.0)
H	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
H	3.90.25.10	Alpha Beta	Alpha-Beta Complex	UDP-galactose 4-epimerase	domain 1	CATH (4.3.0)
G	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
G	3.90.25.10	Alpha Beta	Alpha-Beta Complex	UDP-galactose 4-epimerase	domain 1	CATH (4.3.0)
F	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
F	3.90.25.10	Alpha Beta	Alpha-Beta Complex	UDP-galactose 4-epimerase	domain 1	CATH (4.3.0)
E	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
E	3.90.25.10	Alpha Beta	Alpha-Beta Complex	UDP-galactose 4-epimerase	domain 1	CATH (4.3.0)
D	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
D	3.90.25.10	Alpha Beta	Alpha-Beta Complex	UDP-galactose 4-epimerase	domain 1	CATH (4.3.0)
C	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
C	3.90.25.10	Alpha Beta	Alpha-Beta Complex	UDP-galactose 4-epimerase	domain 1	CATH (4.3.0)
B	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
B	3.90.25.10	Alpha Beta	Alpha-Beta Complex	UDP-galactose 4-epimerase	domain 1	CATH (4.3.0)
A	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
A	3.90.25.10	Alpha Beta	Alpha-Beta Complex	UDP-galactose 4-epimerase	domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
I, J, K, L, M I, J, K, L, M, N, O, P	PF00320	GATA zinc finger (GATA)	GATA zinc finger	This domain uses four cysteine residues to coordinate a zinc ion. This domain binds to DNA. Two GATA zinc fingers are found in the GATA transcription factors. However there are several proteins which only contain a single copy of the domain.	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	PF05368	NmrA-like family (NmrA)	NmrA-like family	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
I, J, K, L, M I, J, K, L, M, N, O, P	NITROGEN REGULATORY PROTEIN AREA	DNA-binding transcription factor activity, RNA polymerase II-specific transcription regulator activity DNA-binding transcription factor activity DNA binding sequence-specific DNA binding binding double-stranded DNA binding nucleic acid binding RNA polymerase II transcription regulatory region sequence-specific DNA binding cis-regulatory region sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding transcription regulatory region nucleic acid binding RNA polymerase II cis-regulatory region sequence-specific DNA binding DNA-binding transcription factor activity, RNA polymerase II-specific transcription regulator activity DNA-binding transcription factor activity DNA binding sequence-specific DNA binding binding double-stranded DNA binding nucleic acid binding RNA polymerase II transcription regulatory region sequence-specific DNA binding cis-regulatory region sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding transcription regulatory region nucleic acid binding RNA polymerase II cis-regulatory region sequence-specific DNA binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding	response to nutrient levels regulation of response to nutrient levels regulation of biological process response to stimulus homeostatic process nitrogen utilization biological regulation regulation of nitrogen utilization cellular homeostasis chemical homeostasis regulation of response to stimulus intracellular nitrogen homeostasis intracellular chemical homeostasis regulation of biosynthetic process response to nutrient levels regulation of response to nutrient levels regulation of biological process response to stimulus homeostatic process nitrogen utilization biological regulation regulation of nitrogen utilization cellular homeostasis chemical homeostasis regulation of response to stimulus intracellular nitrogen homeostasis intracellular chemical homeostasis regulation of biosynthetic process regulation of cellular process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of gene expression biosynthetic process regulation of macromolecule biosynthetic process metabolic process cellular process macromolecule metabolic process regulation of metabolic process nitrate assimilation nitrogen cycle metabolic process oxoacid metabolic process small molecule metabolic process organic acid metabolic process nitrate metabolic process reactive nitrogen species metabolic process negative regulation of biological process RNA metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process transcription by RNA polymerase II negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process regulation of transcription by RNA polymerase II negative regulation of DNA-templated transcription negative regulation of transcription by RNA polymerase II negative regulation of metabolic process primary metabolic process nucleobase-containing compound biosynthetic process nucleic acid metabolic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process regulation of DNA-templated transcription negative regulation of RNA metabolic process positive regulation of DNA-templated transcription positive regulation of biological process positive regulation of macromolecule biosynthetic process positive regulation of metabolic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process positive regulation of cellular process positive regulation of transcription by RNA polymerase II positive regulation of RNA metabolic process positive regulation of RNA biosynthetic process regulation of amide metabolic process catabolic process regulation of catabolic process regulation of amide catabolic process amide catabolic process amide metabolic process cellular component organization chromatin organization chromatin remodeling cellular component organization or biogenesis	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure organelle nucleus intracellular membrane-bounded organelle
A, B, C, D, E A, B, C, D, E, F, G, H	NITROGEN METABOLITE REPRESSION REGULATOR NMRA	oxidoreductase activity catalytic activity NAD+ binding NAD binding binding nucleotide binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding heterocyclic compound binding small molecule binding NADP+ binding oxidoreductase activity catalytic activity NAD+ binding NAD binding binding nucleotide binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding heterocyclic compound binding small molecule binding NADP+ binding NADP binding	regulation of cellular process negative regulation of biological process RNA metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of cellular process negative regulation of biological process RNA metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process regulation of biosynthetic process negative regulation of DNA-templated transcription regulation of biological process negative regulation of metabolic process biological regulation primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of gene expression biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process metabolic process cellular process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process negative regulation of RNA metabolic process cellular response to stimulus regulation of response to nutrient levels response to stimulus nitrogen catabolite regulation of transcription regulation of nitrogen utilization intracellular nitrogen homeostasis nitrogen catabolite repression of transcription catabolite repression cellular response to nutrient levels chemical homeostasis regulation of response to stimulus response to chemical response to nutrient levels homeostatic process intracellular chemical homeostasis response to nutrient nitrogen utilization cellular response to chemical stimulus cellular homeostasis cellular response to nutrient transcription by RNA polymerase II regulation of transcription by RNA polymerase II nitrogen catabolite repression of transcription from RNA polymerase II promoter nitrogen catabolite regulation of transcription from RNA polymerase II promoter	cellular anatomical structure intracellular anatomical structure cytoplasm membrane-bounded organelle intracellular organelle organelle nucleus intracellular membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
I, J, K, L, M I, J, K, L, M, N, O, P	IPR013860	Nitrogen regulatory protein areA, GATA-like domain	Domain
I, J, K, L, M I, J, K, L, M, N, O, P	IPR011420	Nitrogen regulatory AreA, N-terminal	Domain
I, J, K, L, M I, J, K, L, M, N, O, P	IPR013088	Zinc finger, NHR/GATA-type	Homologous Superfamily
I, J, K, L, M I, J, K, L, M, N, O, P	IPR000679	Zinc finger, GATA-type	Domain
I, J, K, L, M I, J, K, L, M, N, O, P	IPR039355	Transcription factor GATA	Family
A, B, C, D, E A, B, C, D, E, F, G, H	IPR008030	NmrA-like domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	IPR036291	NAD(P)-binding domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR051164	NmrA-like oxidoreductase	Family