1R20 - JenaLib

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Title :   CRYSTAL STRUCTURE OF THE LIGAND-BINDING DOMAINS OF THE HETERODIMER ECR/USP BOUND TO THE SYNTHETIC AGONIST BYI06830

Authors :   I. M. L. Billas, T. Iwema, J. M. Garnier, A. Mitschler, N. Rochel, D. Moras, Structural Proteomics In Europe (Spine)

Date :   25 Sep 03 (Deposition) - 18 Nov 03 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   3.00

Chains :   Asym. Unit : A,D
Biol. Unit 1: A,D  (1x)
Biol. Unit 2: A,D  (2x)

Keywords :   Nuclear Receptor, Heterodimer, Alpha-Helical Sandwich, Structural Proteomics In Europe, Spine, Structural Genomics, Hormone/Growth Factor Receptor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   I. M. L. Billas, T. Iwema, J. M. Garnier, A. Mitschler, N. Rochel, D. Moras
Structural Adaptability In The Ligand-Binding Pocket Of The Ecdysone Hormone Receptor.
Nature V. 426 91 2003
PubMed-ID: 14595375 | Reference-DOI: 10.1038/NATURE02112
(for further references see the PDB file header)

Molecule 1 - ULTRASPIRACLE PROTEIN
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PACYC11B
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Organism Common	:	TOBACCO BUDWORM
	Organism Scientific	:	HELIOTHIS VIRESCENS
	Organism Taxid	:	7102

Molecule 2 - ECDYSONE RECEPTOR
	Chains	:	D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET28B
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Organism Common	:	TOBACCO BUDWORM
	Organism Scientific	:	HELIOTHIS VIRESCENS
	Organism Taxid	:	7102

		1	2
Asymmetric Unit	:	A	D
Biological Unit 1 (1x)	:	A	D
Biological Unit 2 (2x)	:	A	D

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 2)

No.	Name	Count	Type	Full Name
1	EPH	1	Ligand/Ion	L-ALPHA-PHOSPHATIDYL-BETA-OLEOYL-GAMMA-PALMITOYL-PHOSPHATIDYLETHANOLAMINE
2	HWG	1	Ligand/Ion	N-(TERT-BUTYL)-3,5-DIMETHYL-N'-[(5-METHYL-2,3-DIHYDRO-1,4-BENZODIOXIN-6-YL)CARBONYL]BENZOHYDRAZIDE

Biological Unit 1 (2, 2)

No.	Name	Count	Type	Full Name
1	EPH	1	Ligand/Ion	L-ALPHA-PHOSPHATIDYL-BETA-OLEOYL-GAMMA-PALMITOYL-PHOSPHATIDYLETHANOLAMINE
2	HWG	1	Ligand/Ion	N-(TERT-BUTYL)-3,5-DIMETHYL-N'-[(5-METHYL-2,3-DIHYDRO-1,4-BENZODIOXIN-6-YL)CARBONYL]BENZOHYDRAZIDE

Biological Unit 2 (2, 4)

No.	Name	Count	Type	Full Name
1	EPH	2	Ligand/Ion	L-ALPHA-PHOSPHATIDYL-BETA-OLEOYL-GAMMA-PALMITOYL-PHOSPHATIDYLETHANOLAMINE
2	HWG	2	Ligand/Ion	N-(TERT-BUTYL)-3,5-DIMETHYL-N'-[(5-METHYL-2,3-DIHYDRO-1,4-BENZODIOXIN-6-YL)CARBONYL]BENZOHYDRAZIDE

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	THR D:343 , SER D:377 , MET D:380 , VAL D:384 , TYR D:408 , MET D:413 , VAL D:416 , LEU D:420 , LEU D:500 , GLN D:503 , ASN D:504 , MET D:507	BINDING SITE FOR RESIDUE HWG D 2000
2	AC2	SOFTWARE	LEU A:230 , VAL A:238 , PRO A:239 , PHE A:242 , VAL A:246 , LEU A:249 , MET A:323 , LEU A:331 , GLN A:338 , VAL A:341 , SER A:431 , PHE A:438 , LEU A:440	BINDING SITE FOR RESIDUE EPH A 4000

(no "SS Bond" information available for 1R20)

(no "Cis Peptide Bond" information available for 1R20)

(no "SAP(SNP)/Variant" information available for 1R20)

(no "PROSITE Motif" information available for 1R20)

(no "Exon" information available for 1R20)

Asymmetric Unit

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
	Number of residues per labelling interval =
	UniProt sequence: complete aligned part

Show mapping:	SCOP domains	CATH domains	Pfam domains	Secondary structure (by author)
	SAPs(SNPs)	PROSITE motifs	Exons
	(details for a mapped element are shown in a popup box when the mouse pointer rests over it)

Chain A from PDB  Type:PROTEIN  Length:239
 aligned with Q7SIF6_HELVI | Q7SIF6 from UniProtKB/TrEMBL  Length:264

    Alignment length:250
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253
         Q7SIF6_HELVI     4 QELSIERLLEMESLVADPSEEFQFLRVGPDSNVPPKFRAPVSSLCQIGNKQIAALVVWARDIPHFSQLEMEDQILLIKGSWNELLLFAIAWRSMEFLTEERDGVDGTGNRTTSPPQLMCLMPGMTLHRNSALQAGVGQIFDRVLSELSLKMRTLRVDQAEYVALKAIILLNPDVKGLKNRQEVEVLREKMFLCLDEYCRRSRSSEEGRFAALLLRLPALRSISLKSFEHLFFFHLVADTSIAGYIRDALR 253
               SCOP domains d1r20a_ A: Ultraspiracle protein, usp                                                                                                                                                                                                                      SCOP domains
               CATH domains 1r20A00 A:206-455 Retinoid X Receptor                                                                                                                                                                                                                      CATH domains
               Pfam domains ----------------------Hormone_recep-1r20A01 A:228-441                                                                                                                                                                                       -------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhh...................hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......-----------......eeeee..eeeehhhhhh..hhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1r20 A 206 QELSIERLLEMESLVADPSEEFQFLRVGPDSNVPPKFRAPVSSLCQIGNKQIAALVVWARDIPHFSQLEMEDQILLIKGSWNELLLFAIAWRSMEFLTE-----------TTSPPQLMCLMPGMTLHRNSALQAGVGQIFDRVLSELSLKMRTLRVDQAEYVALKAIILLNPDVKGLKNRQEVEVLREKMFLCLDEYCRRSRSSEEGRFAALLLRLPALRSISLKSFEHLFFFHLVADTSIAGYIRDALR 455
                                   215       225       235       245       255       265       275       285       295        |-         -|      325       335       345       355       365       375       385       395       405       415       425       435       445       455
                                                                                                                            304         316

Chain D from PDB  Type:PROTEIN  Length:228
 aligned with ECR_HELVI | O18473 from UniProtKB/Swiss-Prot  Length:576

    Alignment length:239
                                   317       327       337       347       357       367       377       387       397       407       417       427       437       447       457       467       477       487       497       507       517       527       537         
            ECR_HELVI   308 VPPLTANQKSLIARLVWYQEGYEQPSEEDLKRVTQSDEDDEDSDMPFRQITEMTILTVQLIVEFAKGLPGFAKISQSDQITLLKACSSEVMMLRVARRYDAATDSVLFANNQAYTRDNYRKAGMAYVIEDLLHFCRCMYSMMMDNVHYALLTAIVIFSDRPGLEQPLLVEEIQRYYLNTLRVYILNQNSASPRGAVIFGEILGILTEIRTLGMQNSNMCISLKLKNRKLPPFLEEIWDV 546
               SCOP domains d1r20d_ D: Ecdysone receptor                                                                                                                                                                                                                    SCOP domains
               CATH domains 1r20D00 D:287-528 Retinoid X Rec           eptor                                                                                                                                                                                                CATH domains
               Pfam domains ----------------------------Horm           one_recep-1r20D01 D:315-515                                                                                                                                                            ------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhhh...........-----------..hhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhh.ee....ee........hhhhhhhh.hhhhhhhhhhhhhhhhh....hhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1r20 D 287 VPPLTANQKSLIARLVYYQEGYEQPSEEDLKR-----------DMPFRQITEMTILTVQLIVEFAKGLPGFSKISQSDQITLLKACSSEVMMLRVARRYDAATDSVLFANNQAYTRDNYRKAGMAYVIEDLLHFCRCMYSMMMDNVHYALLTAIVIFSDRPGLEQPSLVEEIQRYYLNTLRVYILNQNSASPRSAVIFGKILGILTEIRTLGMQNSNMCISLKLKNRKLPPFLEEIWDV 528
                                   296       306       316 |       -   |   339       349       359       369       379       389       399       409       419       429       439       449       459       469       479       489       499       509       519         
                                                         318         333

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
		→ Modified Residue	(blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
	x	→ Chemical Group	(purple background, 'x', labelled with number + name, e.g. ACE or NH2)
	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Alpha (13335)

Architecture: Orthogonal Bundle (10391)

Topology: Retinoid X Receptor (409)

Homologous Superfamily: Retinoid X Receptor (409)

Tobacco budworm (Heliothis virescens) (4)

1a	1r20A00	A:206-455
1b	1r20D00	D:287-528

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: no clan defined [family: Hormone_recep] (290)

Family: Hormone_recep (290)

Heliothis virescens (Tobacco budworm moth) (3)

1a	Hormone_recep-1r20D01	D:315-515
1b	Hormone_recep-1r20A01	A:228-441

Asymmetric Unit(hide GO term definitions)

Chain A (Q7SIF6_HELVI | Q7SIF6)

molecular function
	GO:0003677	DNA binding	Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
	GO:0005515	protein binding	Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
	GO:0003707	steroid hormone receptor activity	Combining with a steroid hormone and transmitting the signal within the cell to initiate a change in cell activity or function.
	GO:0008270	zinc ion binding	Interacting selectively and non-covalently with zinc (Zn) ions.
biological process
	GO:0006355	regulation of transcription, DNA-templated	Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
	GO:0043401	steroid hormone mediated signaling pathway	A series of molecular signals mediated by a steroid hormone binding to a receptor.
	GO:0006351	transcription, DNA-templated	The cellular synthesis of RNA on a template of DNA.
cellular component
	GO:0005634	nucleus	A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

Chain D (ECR_HELVI | O18473)

molecular function
	GO:0003677	DNA binding	Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
	GO:0004884	ecdysteroid hormone receptor activity	Combining with an ecdysteroid hormone and transmitting the signal to the transcriptional machinery by interacting selectively and non-covalently with a specific DNA sequence in order to modulate transcription by RNA polymerase II.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0005515	protein binding	Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
	GO:0043565	sequence-specific DNA binding	Interacting selectively and non-covalently with DNA of a specific nucleotide composition, e.g. GC-rich DNA binding, or with a specific sequence motif or type of DNA e.g. promotor binding or rDNA binding.
	GO:0005496	steroid binding	Interacting selectively and non-covalently with a steroid, any of a large group of substances that have in common a ring system based on 1,2-cyclopentanoperhydrophenanthrene.
	GO:0003707	steroid hormone receptor activity	Combining with a steroid hormone and transmitting the signal within the cell to initiate a change in cell activity or function.
	GO:0003700	transcription factor activity, sequence-specific DNA binding	Interacting selectively and non-covalently with a specific DNA sequence in order to modulate transcription. The transcription factor may or may not also interact selectively with a protein or macromolecular complex.
	GO:0008270	zinc ion binding	Interacting selectively and non-covalently with zinc (Zn) ions.
biological process
	GO:0035076	ecdysone receptor-mediated signaling pathway	The series of molecular signals generated by ecdysone binding to the ecdysone receptor complex.
	GO:0006355	regulation of transcription, DNA-templated	Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
	GO:0043401	steroid hormone mediated signaling pathway	A series of molecular signals mediated by a steroid hormone binding to a receptor.
	GO:0006351	transcription, DNA-templated	The cellular synthesis of RNA on a template of DNA.
cellular component
	GO:0005634	nucleus	A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

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	ECR_HELVI \| O18473	:	1r1k 2r40 4umm
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	Q7SIF6_HELVI \| Q7SIF6	:	1g2n 1r1k 2r40 3ixp 4umm

1r1k	RELATED ID: IGBMC-0090-000 RELATED DB: TARGETDB

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