1UTD | pdb_00001utd

The structure of the trp RNA-binding attenuation protein (TRAP) bound to a 63-nucleotide RNA molecule containing GAGUUU repeats

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)
Z [auth P]	d1utdp_	All beta proteins	Double-stranded beta-helix	TRAP-like	Trp RNA-binding attenuation protein (TRAP)	Trp RNA-binding attenuation protein (TRAP)	(Geobacillus stearothermophilus ) [TaxId: 1422 ],	SCOPe (2.08)
Y [auth O]	d1utdo_	All beta proteins	Double-stranded beta-helix	TRAP-like	Trp RNA-binding attenuation protein (TRAP)	Trp RNA-binding attenuation protein (TRAP)	(Geobacillus stearothermophilus ) [TaxId: 1422 ],	SCOPe (2.08)
X [auth N]	d1utdn_	All beta proteins	Double-stranded beta-helix	TRAP-like	Trp RNA-binding attenuation protein (TRAP)	Trp RNA-binding attenuation protein (TRAP)	(Geobacillus stearothermophilus ) [TaxId: 1422 ],	SCOPe (2.08)
W [auth M]	d1utdm_	All beta proteins	Double-stranded beta-helix	TRAP-like	Trp RNA-binding attenuation protein (TRAP)	Trp RNA-binding attenuation protein (TRAP)	(Geobacillus stearothermophilus ) [TaxId: 1422 ],	SCOPe (2.08)
V [auth L]	d1utdl_	All beta proteins	Double-stranded beta-helix	TRAP-like	Trp RNA-binding attenuation protein (TRAP)	Trp RNA-binding attenuation protein (TRAP)	(Geobacillus stearothermophilus ) [TaxId: 1422 ],	SCOPe (2.08)
U [auth K]	d1utdk_	All beta proteins	Double-stranded beta-helix	TRAP-like	Trp RNA-binding attenuation protein (TRAP)	Trp RNA-binding attenuation protein (TRAP)	(Geobacillus stearothermophilus ) [TaxId: 1422 ],	SCOPe (2.08)
T [auth J]	d1utdj_	All beta proteins	Double-stranded beta-helix	TRAP-like	Trp RNA-binding attenuation protein (TRAP)	Trp RNA-binding attenuation protein (TRAP)	(Geobacillus stearothermophilus ) [TaxId: 1422 ],	SCOPe (2.08)
S [auth I]	d1utdi_	All beta proteins	Double-stranded beta-helix	TRAP-like	Trp RNA-binding attenuation protein (TRAP)	Trp RNA-binding attenuation protein (TRAP)	(Geobacillus stearothermophilus ) [TaxId: 1422 ],	SCOPe (2.08)
R [auth H]	d1utdh_	All beta proteins	Double-stranded beta-helix	TRAP-like	Trp RNA-binding attenuation protein (TRAP)	Trp RNA-binding attenuation protein (TRAP)	(Geobacillus stearothermophilus ) [TaxId: 1422 ],	SCOPe (2.08)
Q [auth G]	d1utdg_	All beta proteins	Double-stranded beta-helix	TRAP-like	Trp RNA-binding attenuation protein (TRAP)	Trp RNA-binding attenuation protein (TRAP)	(Geobacillus stearothermophilus ) [TaxId: 1422 ],	SCOPe (2.08)
P [auth F]	d1utdf_	All beta proteins	Double-stranded beta-helix	TRAP-like	Trp RNA-binding attenuation protein (TRAP)	Trp RNA-binding attenuation protein (TRAP)	(Geobacillus stearothermophilus ) [TaxId: 1422 ],	SCOPe (2.08)
O [auth E]	d1utde_	All beta proteins	Double-stranded beta-helix	TRAP-like	Trp RNA-binding attenuation protein (TRAP)	Trp RNA-binding attenuation protein (TRAP)	(Geobacillus stearothermophilus ) [TaxId: 1422 ],	SCOPe (2.08)
N [auth D]	d1utdd_	All beta proteins	Double-stranded beta-helix	TRAP-like	Trp RNA-binding attenuation protein (TRAP)	Trp RNA-binding attenuation protein (TRAP)	(Geobacillus stearothermophilus ) [TaxId: 1422 ],	SCOPe (2.08)
M [auth C]	d1utdc_	All beta proteins	Double-stranded beta-helix	TRAP-like	Trp RNA-binding attenuation protein (TRAP)	Trp RNA-binding attenuation protein (TRAP)	(Geobacillus stearothermophilus ) [TaxId: 1422 ],	SCOPe (2.08)
L [auth B]	d1utdb_	All beta proteins	Double-stranded beta-helix	TRAP-like	Trp RNA-binding attenuation protein (TRAP)	Trp RNA-binding attenuation protein (TRAP)	(Geobacillus stearothermophilus ) [TaxId: 1422 ],	SCOPe (2.08)
K [auth A]	d1utda_	All beta proteins	Double-stranded beta-helix	TRAP-like	Trp RNA-binding attenuation protein (TRAP)	Trp RNA-binding attenuation protein (TRAP)	(Geobacillus stearothermophilus ) [TaxId: 1422 ],	SCOPe (2.08)
FA [auth V]	d1utdv_	All beta proteins	Double-stranded beta-helix	TRAP-like	Trp RNA-binding attenuation protein (TRAP)	Trp RNA-binding attenuation protein (TRAP)	(Geobacillus stearothermophilus ) [TaxId: 1422 ],	SCOPe (2.08)
EA [auth U]	d1utdu_	All beta proteins	Double-stranded beta-helix	TRAP-like	Trp RNA-binding attenuation protein (TRAP)	Trp RNA-binding attenuation protein (TRAP)	(Geobacillus stearothermophilus ) [TaxId: 1422 ],	SCOPe (2.08)
DA [auth T]	d1utdt_	All beta proteins	Double-stranded beta-helix	TRAP-like	Trp RNA-binding attenuation protein (TRAP)	Trp RNA-binding attenuation protein (TRAP)	(Geobacillus stearothermophilus ) [TaxId: 1422 ],	SCOPe (2.08)
CA [auth S]	d1utds_	All beta proteins	Double-stranded beta-helix	TRAP-like	Trp RNA-binding attenuation protein (TRAP)	Trp RNA-binding attenuation protein (TRAP)	(Geobacillus stearothermophilus ) [TaxId: 1422 ],	SCOPe (2.08)
BA [auth R]	d1utdr_	All beta proteins	Double-stranded beta-helix	TRAP-like	Trp RNA-binding attenuation protein (TRAP)	Trp RNA-binding attenuation protein (TRAP)	(Geobacillus stearothermophilus ) [TaxId: 1422 ],	SCOPe (2.08)
AA [auth Q]	d1utdq_	All beta proteins	Double-stranded beta-helix	TRAP-like	Trp RNA-binding attenuation protein (TRAP)	Trp RNA-binding attenuation protein (TRAP)	(Geobacillus stearothermophilus ) [TaxId: 1422 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
Z [auth P]	SCOP2B Superfamily	TRAP-like	8038933	3001865	SCOP2B (2022-06-29)
Y [auth O]	SCOP2B Superfamily	TRAP-like	8038933	3001865	SCOP2B (2022-06-29)
X [auth N]	SCOP2B Superfamily	TRAP-like	8038933	3001865	SCOP2B (2022-06-29)
W [auth M]	SCOP2B Superfamily	TRAP-like	8038933	3001865	SCOP2B (2022-06-29)
V [auth L]	SCOP2B Superfamily	TRAP-like	8038933	3001865	SCOP2B (2022-06-29)
U [auth K]	SCOP2B Superfamily	TRAP-like	8038933	3001865	SCOP2B (2022-06-29)
T [auth J]	SCOP2B Superfamily	TRAP-like	8038933	3001865	SCOP2B (2022-06-29)
S [auth I]	SCOP2B Superfamily	TRAP-like	8038933	3001865	SCOP2B (2022-06-29)
R [auth H]	SCOP2B Superfamily	TRAP-like	8038933	3001865	SCOP2B (2022-06-29)
Q [auth G]	SCOP2B Superfamily	TRAP-like	8038933	3001865	SCOP2B (2022-06-29)
P [auth F]	SCOP2B Superfamily	TRAP-like	8038933	3001865	SCOP2B (2022-06-29)
O [auth E]	SCOP2B Superfamily	TRAP-like	8038933	3001865	SCOP2B (2022-06-29)
N [auth D]	SCOP2B Superfamily	TRAP-like	8038933	3001865	SCOP2B (2022-06-29)
M [auth C]	SCOP2B Superfamily	TRAP-like	8038933	3001865	SCOP2B (2022-06-29)
L [auth B]	SCOP2B Superfamily	TRAP-like	8038933	3001865	SCOP2B (2022-06-29)
K [auth A]	SCOP2B Superfamily	TRAP-like	8038933	3001865	SCOP2B (2022-06-29)
FA [auth V]	SCOP2B Superfamily	TRAP-like	8038933	3001865	SCOP2B (2022-06-29)
EA [auth U]	SCOP2B Superfamily	TRAP-like	8038933	3001865	SCOP2B (2022-06-29)
DA [auth T]	SCOP2B Superfamily	TRAP-like	8038933	3001865	SCOP2B (2022-06-29)
CA [auth S]	SCOP2B Superfamily	TRAP-like	8038933	3001865	SCOP2B (2022-06-29)
BA [auth R]	SCOP2B Superfamily	TRAP-like	8038933	3001865	SCOP2B (2022-06-29)
AA [auth Q]	SCOP2B Superfamily	TRAP-like	8038933	3001865	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)
Z [auth P]	TrpBP	e1utdP1	A: beta sandwiches	X: jelly-roll	H: Trp RNA-binding attenuation protein (TRAP) (From Topology)	T: Trp RNA-binding attenuation protein (TRAP)	F: TrpBP	ECOD (1.6)
Y [auth O]	TrpBP	e1utdO1	A: beta sandwiches	X: jelly-roll	H: Trp RNA-binding attenuation protein (TRAP) (From Topology)	T: Trp RNA-binding attenuation protein (TRAP)	F: TrpBP	ECOD (1.6)
X [auth N]	TrpBP	e1utdN1	A: beta sandwiches	X: jelly-roll	H: Trp RNA-binding attenuation protein (TRAP) (From Topology)	T: Trp RNA-binding attenuation protein (TRAP)	F: TrpBP	ECOD (1.6)
W [auth M]	TrpBP	e1utdM1	A: beta sandwiches	X: jelly-roll	H: Trp RNA-binding attenuation protein (TRAP) (From Topology)	T: Trp RNA-binding attenuation protein (TRAP)	F: TrpBP	ECOD (1.6)
V [auth L]	TrpBP	e1utdL1	A: beta sandwiches	X: jelly-roll	H: Trp RNA-binding attenuation protein (TRAP) (From Topology)	T: Trp RNA-binding attenuation protein (TRAP)	F: TrpBP	ECOD (1.6)
U [auth K]	TrpBP	e1utdK1	A: beta sandwiches	X: jelly-roll	H: Trp RNA-binding attenuation protein (TRAP) (From Topology)	T: Trp RNA-binding attenuation protein (TRAP)	F: TrpBP	ECOD (1.6)
T [auth J]	TrpBP	e1utdJ1	A: beta sandwiches	X: jelly-roll	H: Trp RNA-binding attenuation protein (TRAP) (From Topology)	T: Trp RNA-binding attenuation protein (TRAP)	F: TrpBP	ECOD (1.6)
S [auth I]	TrpBP	e1utdI1	A: beta sandwiches	X: jelly-roll	H: Trp RNA-binding attenuation protein (TRAP) (From Topology)	T: Trp RNA-binding attenuation protein (TRAP)	F: TrpBP	ECOD (1.6)
R [auth H]	TrpBP	e1utdH1	A: beta sandwiches	X: jelly-roll	H: Trp RNA-binding attenuation protein (TRAP) (From Topology)	T: Trp RNA-binding attenuation protein (TRAP)	F: TrpBP	ECOD (1.6)
Q [auth G]	TrpBP	e1utdG1	A: beta sandwiches	X: jelly-roll	H: Trp RNA-binding attenuation protein (TRAP) (From Topology)	T: Trp RNA-binding attenuation protein (TRAP)	F: TrpBP	ECOD (1.6)
P [auth F]	TrpBP	e1utdF1	A: beta sandwiches	X: jelly-roll	H: Trp RNA-binding attenuation protein (TRAP) (From Topology)	T: Trp RNA-binding attenuation protein (TRAP)	F: TrpBP	ECOD (1.6)
O [auth E]	TrpBP	e1utdE1	A: beta sandwiches	X: jelly-roll	H: Trp RNA-binding attenuation protein (TRAP) (From Topology)	T: Trp RNA-binding attenuation protein (TRAP)	F: TrpBP	ECOD (1.6)
N [auth D]	TrpBP	e1utdD1	A: beta sandwiches	X: jelly-roll	H: Trp RNA-binding attenuation protein (TRAP) (From Topology)	T: Trp RNA-binding attenuation protein (TRAP)	F: TrpBP	ECOD (1.6)
M [auth C]	TrpBP	e1utdC1	A: beta sandwiches	X: jelly-roll	H: Trp RNA-binding attenuation protein (TRAP) (From Topology)	T: Trp RNA-binding attenuation protein (TRAP)	F: TrpBP	ECOD (1.6)
L [auth B]	TrpBP	e1utdB1	A: beta sandwiches	X: jelly-roll	H: Trp RNA-binding attenuation protein (TRAP) (From Topology)	T: Trp RNA-binding attenuation protein (TRAP)	F: TrpBP	ECOD (1.6)
K [auth A]	TrpBP	e1utdA1	A: beta sandwiches	X: jelly-roll	H: Trp RNA-binding attenuation protein (TRAP) (From Topology)	T: Trp RNA-binding attenuation protein (TRAP)	F: TrpBP	ECOD (1.6)
FA [auth V]	TrpBP	e1utdV1	A: beta sandwiches	X: jelly-roll	H: Trp RNA-binding attenuation protein (TRAP) (From Topology)	T: Trp RNA-binding attenuation protein (TRAP)	F: TrpBP	ECOD (1.6)
EA [auth U]	TrpBP	e1utdU1	A: beta sandwiches	X: jelly-roll	H: Trp RNA-binding attenuation protein (TRAP) (From Topology)	T: Trp RNA-binding attenuation protein (TRAP)	F: TrpBP	ECOD (1.6)
DA [auth T]	TrpBP	e1utdT1	A: beta sandwiches	X: jelly-roll	H: Trp RNA-binding attenuation protein (TRAP) (From Topology)	T: Trp RNA-binding attenuation protein (TRAP)	F: TrpBP	ECOD (1.6)
CA [auth S]	TrpBP	e1utdS1	A: beta sandwiches	X: jelly-roll	H: Trp RNA-binding attenuation protein (TRAP) (From Topology)	T: Trp RNA-binding attenuation protein (TRAP)	F: TrpBP	ECOD (1.6)
BA [auth R]	TrpBP	e1utdR1	A: beta sandwiches	X: jelly-roll	H: Trp RNA-binding attenuation protein (TRAP) (From Topology)	T: Trp RNA-binding attenuation protein (TRAP)	F: TrpBP	ECOD (1.6)
AA [auth Q]	TrpBP	e1utdQ1	A: beta sandwiches	X: jelly-roll	H: Trp RNA-binding attenuation protein (TRAP) (From Topology)	T: Trp RNA-binding attenuation protein (TRAP)	F: TrpBP	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
Z [auth P]	2.60.40.50	Mainly Beta	Sandwich	Immunoglobulin-like	TRAP-like	CATH (4.3.0)
Y [auth O]	2.60.40.50	Mainly Beta	Sandwich	Immunoglobulin-like	TRAP-like	CATH (4.3.0)
X [auth N]	2.60.40.50	Mainly Beta	Sandwich	Immunoglobulin-like	TRAP-like	CATH (4.3.0)
W [auth M]	2.60.40.50	Mainly Beta	Sandwich	Immunoglobulin-like	TRAP-like	CATH (4.3.0)
V [auth L]	2.60.40.50	Mainly Beta	Sandwich	Immunoglobulin-like	TRAP-like	CATH (4.3.0)
U [auth K]	2.60.40.50	Mainly Beta	Sandwich	Immunoglobulin-like	TRAP-like	CATH (4.3.0)
T [auth J]	2.60.40.50	Mainly Beta	Sandwich	Immunoglobulin-like	TRAP-like	CATH (4.3.0)
S [auth I]	2.60.40.50	Mainly Beta	Sandwich	Immunoglobulin-like	TRAP-like	CATH (4.3.0)
R [auth H]	2.60.40.50	Mainly Beta	Sandwich	Immunoglobulin-like	TRAP-like	CATH (4.3.0)
Q [auth G]	2.60.40.50	Mainly Beta	Sandwich	Immunoglobulin-like	TRAP-like	CATH (4.3.0)
P [auth F]	2.60.40.50	Mainly Beta	Sandwich	Immunoglobulin-like	TRAP-like	CATH (4.3.0)
O [auth E]	2.60.40.50	Mainly Beta	Sandwich	Immunoglobulin-like	TRAP-like	CATH (4.3.0)
N [auth D]	2.60.40.50	Mainly Beta	Sandwich	Immunoglobulin-like	TRAP-like	CATH (4.3.0)
M [auth C]	2.60.40.50	Mainly Beta	Sandwich	Immunoglobulin-like	TRAP-like	CATH (4.3.0)
L [auth B]	2.60.40.50	Mainly Beta	Sandwich	Immunoglobulin-like	TRAP-like	CATH (4.3.0)
K [auth A]	2.60.40.50	Mainly Beta	Sandwich	Immunoglobulin-like	TRAP-like	CATH (4.3.0)
FA [auth V]	2.60.40.50	Mainly Beta	Sandwich	Immunoglobulin-like	TRAP-like	CATH (4.3.0)
EA [auth U]	2.60.40.50	Mainly Beta	Sandwich	Immunoglobulin-like	TRAP-like	CATH (4.3.0)
DA [auth T]	2.60.40.50	Mainly Beta	Sandwich	Immunoglobulin-like	TRAP-like	CATH (4.3.0)
CA [auth S]	2.60.40.50	Mainly Beta	Sandwich	Immunoglobulin-like	TRAP-like	CATH (4.3.0)
BA [auth R]	2.60.40.50	Mainly Beta	Sandwich	Immunoglobulin-like	TRAP-like	CATH (4.3.0)
AA [auth Q]	2.60.40.50	Mainly Beta	Sandwich	Immunoglobulin-like	TRAP-like	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
AA [auth Q], BA [auth R], CA [auth S], DA [auth T], EA [auth U], AA [auth Q], BA [auth R], CA [auth S], DA [auth T], EA [auth U], FA [auth V], K [auth A], L [auth B], M [auth C], N [auth D], O [auth E], P [auth F], Q [auth G], R [auth H], S [auth I], T [auth J], U [auth K], V [auth L], W [auth M], X [auth N], Y [auth O], Z [auth P]	PF02081	Tryptophan RNA-binding attenuator protein (TrpBP)	Tryptophan RNA-binding attenuator protein		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
AA [auth Q], BA [auth R], CA [auth S], DA [auth T], EA [auth U], AA [auth Q], BA [auth R], CA [auth S], DA [auth T], EA [auth U], FA [auth V], K [auth A], L [auth B], M [auth C], N [auth D], O [auth E], P [auth F], Q [auth G], R [auth H], S [auth I], T [auth J], U [auth K], V [auth L], W [auth M], X [auth N], Y [auth O], Z [auth P]	TRANSCRIPTION ATTENUATION PROTEIN MTRB	RNA binding binding nucleic acid binding identical protein binding protein binding	RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression DNA-templated transcription termination macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process biosynthetic process metabolic process cellular process RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression DNA-templated transcription termination macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process biosynthetic process metabolic process cellular process macromolecule metabolic process regulation of cellular process regulation of primary metabolic process regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of biological process biological regulation regulation of macromolecule metabolic process regulation of gene expression regulation of macromolecule biosynthetic process regulation of DNA-templated transcription regulation of metabolic process	-
A [auth 0], B [auth 1], C [auth 2], D [auth 3], E [auth 4], A [auth 0], B [auth 1], C [auth 2], D [auth 3], E [auth 4], F [auth 5], G [auth 6], GA [auth Z], H [auth 7], I [auth 8], J [auth 9]	5'-R(GPUPUPUPGPAP)-3'	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
AA [auth Q], BA [auth R], CA [auth S], DA [auth T], EA [auth U], AA [auth Q], BA [auth R], CA [auth S], DA [auth T], EA [auth U], FA [auth V], K [auth A], L [auth B], M [auth C], N [auth D], O [auth E], P [auth F], Q [auth G], R [auth H], S [auth I], T [auth J], U [auth K], V [auth L], W [auth M], X [auth N], Y [auth O], Z [auth P]	IPR016031	Tryptophan RNA-binding attenuator protein-like domain superfamily	Homologous Superfamily
AA [auth Q], BA [auth R], CA [auth S], DA [auth T], EA [auth U], AA [auth Q], BA [auth R], CA [auth S], DA [auth T], EA [auth U], FA [auth V], K [auth A], L [auth B], M [auth C], N [auth D], O [auth E], P [auth F], Q [auth G], R [auth H], S [auth I], T [auth J], U [auth K], V [auth L], W [auth M], X [auth N], Y [auth O], Z [auth P]	IPR000824	Transcription attenuation protein MtrB	Family
AA [auth Q], BA [auth R], CA [auth S], DA [auth T], EA [auth U], AA [auth Q], BA [auth R], CA [auth S], DA [auth T], EA [auth U], FA [auth V], K [auth A], L [auth B], M [auth C], N [auth D], O [auth E], P [auth F], Q [auth G], R [auth H], S [auth I], T [auth J], U [auth K], V [auth L], W [auth M], X [auth N], Y [auth O], Z [auth P]	IPR023558	Tryptophan RNA-binding attenuator protein domain	Domain