1TC6 - JenaLib

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Title :   LIGAND INDUCED CONFORMATIONAL SHIFT IN THE N-TERMINAL DOMAIN OF GRP94, OPEN CONFORMATION ADP-COMPLEX

Authors :   D. T. Gewirth, R. M. Immormino, D. E. Dollins, P. L. Shaffer, M. A. Walker, K. L. Soldano

Date :   20 May 04 (Deposition) - 24 Aug 04 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.87

Chains :   Asym. Unit : A,B
Biol. Unit 1: A,B  (1x)
Biol. Unit 2: A,B  (6x)
Biol. Unit 3: A,B  (3x)
Biol. Unit 4: A,B  (2x)

Keywords :   Grp94, Hsp90, Adp, Bergerat, Chaperone, Endoplasmic Reticulum (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   R. M. Immormino, D. E. Dollins, P. L. Shaffer, K. L. Soldano, M. A. Walker, D. T. Gewirth
Ligand-Induced Conformational Shift In The N-Terminal Domain Of Grp94, An Hsp90 Chaperone.
J. Biol. Chem. V. 279 46162 2004
PubMed-ID: 15292259 | Reference-DOI: 10.1074/JBC.M405253200
(for further references see the PDB file header)

Molecule 1 - ENDOPLASMIN
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	PGEX-NB-GRP94 (69-337DELTA41)
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Fragment	:	N-TERMINAL DOMAIN OF GRP94 RESIDUES (69-337), 287-327 DELETED AND REPLACED WITH 4 GLYCINES
	Gene	:	TRA1
	Organism Common	:	DOG
	Organism Scientific	:	CANIS LUPUS FAMILIARIS
	Organism Taxid	:	9615
	Strain	:	FAMILIARIS
	Synonym	:	94 KDA GLUCOSE-REGULATED PROTEIN, GRP94

		1	2
Asymmetric Unit	:	A	B
Biological Unit 1 (1x)	:	A	B
Biological Unit 2 (6x)	:	A	B
Biological Unit 3 (3x)	:	A	B
Biological Unit 4 (2x)	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 9)

No.	Name	Count	Type	Full Name
1	ADP	2	Ligand/Ion	ADENOSINE-5'-DIPHOSPHATE
2	MG	2	Ligand/Ion	MAGNESIUM ION
3	PG4	5	Ligand/Ion	TETRAETHYLENE GLYCOL

Biological Unit 1 (2, 7)

No.	Name	Count	Type	Full Name
1	ADP	2	Ligand/Ion	ADENOSINE-5'-DIPHOSPHATE
2	MG	-1	Ligand/Ion	MAGNESIUM ION
3	PG4	5	Ligand/Ion	TETRAETHYLENE GLYCOL

Biological Unit 2 (2, 42)

No.	Name	Count	Type	Full Name
1	ADP	12	Ligand/Ion	ADENOSINE-5'-DIPHOSPHATE
2	MG	-1	Ligand/Ion	MAGNESIUM ION
3	PG4	30	Ligand/Ion	TETRAETHYLENE GLYCOL

Biological Unit 3 (2, 21)

No.	Name	Count	Type	Full Name
1	ADP	6	Ligand/Ion	ADENOSINE-5'-DIPHOSPHATE
2	MG	-1	Ligand/Ion	MAGNESIUM ION
3	PG4	15	Ligand/Ion	TETRAETHYLENE GLYCOL

Biological Unit 4 (2, 14)

No.	Name	Count	Type	Full Name
1	ADP	4	Ligand/Ion	ADENOSINE-5'-DIPHOSPHATE
2	MG	-1	Ligand/Ion	MAGNESIUM ION
3	PG4	10	Ligand/Ion	TETRAETHYLENE GLYCOL

Asymmetric Unit (9, 9)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASN A:107 , ADP A:301 , HOH A:517 , HOH A:520 , HOH A:545	BINDING SITE FOR RESIDUE MG A 501
2	AC2	SOFTWARE	ASN B:107 , ADP B:601 , HOH B:823 , HOH B:824 , HOH B:825	BINDING SITE FOR RESIDUE MG B 802
3	AC3	SOFTWARE	ASN A:107 , ALA A:111 , ASP A:149 , MET A:154 , ASN A:162 , LEU A:163 , ILE A:166 , GLY A:198 , PHE A:199 , THR A:245 , MG A:501 , HOH A:502 , HOH A:503 , HOH A:506 , HOH A:514 , HOH A:541 , HOH A:545 , HOH A:546 , HOH A:580 , HOH A:581 , HOH A:606 , HOH A:616	BINDING SITE FOR RESIDUE ADP A 301
4	AC4	SOFTWARE	ILE A:210 , THR A:212 , ARG A:237 , PG4 A:403 , HOH A:624	BINDING SITE FOR RESIDUE PG4 A 401
5	AC5	SOFTWARE	ASN A:239 , THR A:240 , GLY A:242 , HOH A:529	BINDING SITE FOR RESIDUE PG4 A 402
6	AC6	SOFTWARE	LEU A:241 , PG4 A:401 , HOH A:549	BINDING SITE FOR RESIDUE PG4 A 403
7	AC7	SOFTWARE	LYS A:95 , ASN B:107 , ALA B:111 , ASP B:149 , MET B:154 , ASN B:162 , GLY B:198 , PHE B:199 , THR B:245 , MG B:802 , HOH B:812 , HOH B:813 , HOH B:824 , HOH B:825 , HOH B:831 , HOH B:835 , HOH B:841 , HOH B:857 , HOH B:899	BINDING SITE FOR RESIDUE ADP B 601
8	AC8	SOFTWARE	LYS B:137 , TRP B:333 , HOH B:851	BINDING SITE FOR RESIDUE PG4 B 701
9	AC9	SOFTWARE	LYS B:137 , HIS B:146 , THR B:148 , THR B:246 , HOH B:827	BINDING SITE FOR RESIDUE PG4 B 702

(no "SS Bond" information available for 1TC6)

(no "Cis Peptide Bond" information available for 1TC6)

(no "SAP(SNP)/Variant" information available for 1TC6)

Asymmetric Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	HSP90	PS00298	Heat shock hsp90 proteins family signature.	ENPL_CANLF	94-103	2	A:94-103 B:94-103

Biological Unit 1 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	HSP90	PS00298	Heat shock hsp90 proteins family signature.	ENPL_CANLF	94-103	2	A:94-103 B:94-103

Biological Unit 2 (1, 12)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	HSP90	PS00298	Heat shock hsp90 proteins family signature.	ENPL_CANLF	94-103	12	A:94-103 B:94-103

Biological Unit 3 (1, 6)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	HSP90	PS00298	Heat shock hsp90 proteins family signature.	ENPL_CANLF	94-103	6	A:94-103 B:94-103

Biological Unit 4 (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	HSP90	PS00298	Heat shock hsp90 proteins family signature.	ENPL_CANLF	94-103	4	A:94-103 B:94-103

(no "Exon" information available for 1TC6)

Asymmetric Unit

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	UniProt sequence: complete aligned part

Show mapping:	SCOP domains	CATH domains	Pfam domains	Secondary structure (by author)
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Chain A from PDB  Type:PROTEIN  Length:222
 aligned with ENPL_CANLF | P41148 from UniProtKB/Swiss-Prot  Length:804

    Alignment length:262
                                    85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335  
           ENPL_CANLF    76 FAFQAEVNRMMKLIINSLYKNKEIFLRELISNASDALDKIRLISLTDENALAGNEELTVKIKCDKEKNLLHVTDTGVGMTREELVKNLGTIAKSGTSEFLNKMTEAQEDGQSTSELIGQFGVGFYSAFLVADKVIVTSKHNNDTQHIWESDSNEFSVIADPRGNTLGRGTTITLVLKEEASDYLELDTIKNLVKKYSQFINFPIYVWSSKTETVEEPMEEEEAAKEEKEDSDDEAAVEEEEEEKKPKTKKVEKTVWDWELMN 337
               SCOP domains d1tc6a_ A: HSP90                                                                                                                                                                                                                                                       SCOP domains
               CATH domains 1tc6A00 A:76-337  [code=3.30.565.10, no name defined]                                                                                                                                                                                                                  CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhh.............eeeeee....eeeeee.....hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh.eeeeeeeee......eeeee....eeeee.........eeeeeeee.hhhhhhhhhhhhhhhhhhhh......eeeeeee.---.-------------------------------------..eeeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------HSP90     ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1tc6 A  76 FAFQAEVNRMMKLIINSLYKNKEIFLRELISNASDALDKIRLISLTDENALAGNEELTVKIKCDKEKNLLHVTDTGVGMTREELVKNLGTIAKSGTSEFLNKMTEAQEDGQSTSELIGQFGVGFYSAFLVADKVIVTSKHNNDTQHIWESDSNEFSVIADPRGNTLGRGTTITLVLKEEASDYLELDTIKNLVKKYSQFINFPIYVWSSKT---G-------------------------------------KTVWDWELMN 337
                                    85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285|   |    -         -         -         -  |    335  
                                                                                                                                                                                                                                            286 290                                   328

Chain B from PDB  Type:PROTEIN  Length:194
 aligned with ENPL_CANLF | P41148 from UniProtKB/Swiss-Prot  Length:804

    Alignment length:260
                                    87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337
           ENPL_CANLF    78 FQAEVNRMMKLIINSLYKNKEIFLRELISNASDALDKIRLISLTDENALAGNEELTVKIKCDKEKNLLHVTDTGVGMTREELVKNLGTIAKSGTSEFLNKMTEAQEDGQSTSELIGQFGVGFYSAFLVADKVIVTSKHNNDTQHIWESDSNEFSVIADPRGNTLGRGTTITLVLKEEASDYLELDTIKNLVKKYSQFINFPIYVWSSKTETVEEPMEEEEAAKEEKEDSDDEAAVEEEEEEKKPKTKKVEKTVWDWELMN 337
               SCOP domains d1tc6b_ B: HSP90                                                                                                                                                                                                                                                     SCOP domains
               CATH domains 1tc6B00 B:78-337  [code=3.30.565.10, no name defined]                                                                                                                                                                                                                CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhh.............eeeeee....eeeeee.....hhhhhhhhh------------------------hhhhhhhh..hhhhhhh.eeeeeeeee......eeeee....eeeee.........eeeeeeee.hhhhhhhhhhhhhhhhhhh.......eeeeeee.------------------------------------------.eeeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------HSP90     ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1tc6 B  78 FQAEVNRMMKLIINSLYKNKEIFLRELISNASDALDKIRLISLTDENALAGNEELTVKIKCDKEKNLLHVTDTGVGMTREELVKNL------------------------TSELIGQFGVGFYSAFLVADKVIVTSKHNNDTQHIWESDSNEFSVIADPRGNTLGRGTTITLVLKEEASDYLELDTIKNLVKKYSQFINFPIYVWSSKT------------------------------------------TVWDWELMN 337
                                    87        97       107       117       127       137       147       157     |   -         -         -|      197       207       217       227       237       247       257       267       277        |-         -         -         -         - |     337
                                                                                                               163                      188                                                                                               286                                        329

Legend:		→ Mismatch	(orange background)
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	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(

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Architectures( (-)

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Topologies( (-)

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Homologous Superfamilies( (-)

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Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 2-Layer Sandwich (8480)

Topology: Heat Shock Protein 90 (209)

Homologous Superfamily: [code=3.30.565.10, no name defined] (205)

Dog (Canis lupus familiaris) (22)

1a	1tc6B00	B:78-337
1b	1tc6A00	A:76-337

(no "Pfam Domain" information available for 1TC6)

Asymmetric Unit(hide GO term definitions)

Chain A,B (ENPL_CANLF | P41148)

molecular function
	GO:0005524	ATP binding	Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
	GO:0000166	nucleotide binding	Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
	GO:0051082	unfolded protein binding	Interacting selectively and non-covalently with an unfolded protein.
biological process
	GO:0006457	protein folding	The process of assisting in the covalent and noncovalent assembly of single chain polypeptides or multisubunit complexes into the correct tertiary structure.
	GO:0006950	response to stress	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a disturbance in organismal or cellular homeostasis, usually, but not necessarily, exogenous (e.g. temperature, humidity, ionizing radiation).
	GO:0030433	ubiquitin-dependent ERAD pathway	The series of steps necessary to target endoplasmic reticulum (ER)-resident proteins for degradation by the cytoplasmic proteasome. Begins with recognition of the ER-resident protein, includes retrotranslocation (dislocation) of the protein from the ER to the cytosol, protein ubiquitination necessary for correct substrate transfer, transport of the protein to the proteasome, and ends with degradation of the protein by the cytoplasmic proteasome.
cellular component
	GO:0005783	endoplasmic reticulum	The irregular network of unit membranes, visible only by electron microscopy, that occurs in the cytoplasm of many eukaryotic cells. The membranes form a complex meshwork of tubular channels, which are often expanded into slitlike cavities called cisternae. The ER takes two forms, rough (or granular), with ribosomes adhering to the outer surface, and smooth (with no ribosomes attached).
	GO:0005788	endoplasmic reticulum lumen	The volume enclosed by the membranes of the endoplasmic reticulum.
	GO:0042470	melanosome	A tissue-specific, membrane-bounded cytoplasmic organelle within which melanin pigments are synthesized and stored. Melanosomes are synthesized in melanocyte cells.
	GO:0016529	sarcoplasmic reticulum	A fine reticular network of membrane-limited elements that pervades the sarcoplasm of a muscle cell; continuous over large portions of the cell and with the nuclear envelope; that part of the endoplasmic reticulum specialized for calcium release, uptake and storage.

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1qy5	CRYSTAL STRUCTURE OF THE N-DOMAIN OF THE ER HSP90 CHAPERONE GRP94 IN COMPLEX WITH THE SPECIFIC LIGAND NECA
1qy8	CRYSTAL STRUCTURE OF THE N-DOMAIN OF THE ER HSP90 CHAPERONE GRP94 IN COMPLEX WITH RADICICOL
1qye	CRYSTAL STRUCTURE OF THE N-DOMAIN OF THE ER HSP90 CHAPERONE GRP94 IN COMPLEX WITH 2-CHLORODIDEOXYADENOSINE
1qyh	CRYSTAL STRUCTURE OF THE N-DOMAIN OF GRP94 LACKING THE CHARGED DOMAIN IN COMPLEX WITH NECA
1tbw	LIGAND INDUCED CONFORMATIONAL SHIFT IN THE N-TERMINAL DOMAIN OF GRP94, OPEN CONFORMATION
1tc0	LIGAND INDUCED CONFORMATIONAL SHIFTS IN THE N-TERMINAL DOMAIN OF GRP94, OPEN CONFORMATION COMPLEXED WITH THE PHYSIOLOGICAL PARTNER ATP

Description

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Ligands, Modified Residues, Ions (3, 9)

Sites (9, 9)

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