2QXL - JenaLib

Asym./Biol. Unit (Jmol Viewer)

Asym./Biol. Unit - sites (Jmol Viewer)

Title :   CRYSTAL STRUCTURE ANALYSIS OF SSE1, A YEAST HSP110

Authors :   W. A. Hendrickson, Q. Liu

Date :   12 Aug 07 (Deposition) - 23 Oct 07 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.41

Chains :   Asym./Biol. Unit : A,B

Keywords :   Hsp110, Hsp70, Molecular Chaperone, Atp State, Atp-Binding, Calmodulin-Binding, Nucleotide-Binding, Phosphorylation, Stress Response, Chaperone (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Q. Liu, W. A. Hendrickson
Insights Into Hsp70 Chaperone Activity From A Crystal Structure Of The Yeast Hsp110 Sse1.
Cell(Cambridge, Mass. ) V. 131 106 2007
PubMed-ID: 17923091 | Reference-DOI: 10.1016/J.CELL.2007.08.039

Molecule 1 - HEAT SHOCK PROTEIN HOMOLOG SSE1
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	PSMT3
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Fragment	:	RESIDUES 2 TO 659
	Gene	:	SSE1, MSI3
	Organism Common	:	BAKER'S YEAST
	Organism Scientific	:	SACCHAROMYCES CEREVISIAE
	Organism Taxid	:	4932
	Synonym	:	CHAPERONE PROTEIN MSI3

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (3, 6)

No.	Name	Count	Type	Full Name
1	ATP	2	Ligand/Ion	ADENOSINE-5'-TRIPHOSPHATE
2	K	2	Ligand/Ion	POTASSIUM ION
3	MG	2	Ligand/Ion	MAGNESIUM ION

Asymmetric Unit (6, 6)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ATP B:1001 , HOH B:1165 , HOH B:1215 , HOH B:1218 , HOH B:1220	BINDING SITE FOR RESIDUE MG B 1003
2	AC2	SOFTWARE	ATP A:1002 , HOH A:1067 , HOH A:1119	BINDING SITE FOR RESIDUE MG A 1004
3	AC3	SOFTWARE	ASP A:8 , ASN A:13 , ATP A:1002 , HOH A:1089	BINDING SITE FOR RESIDUE K A 1005
4	AC4	SOFTWARE	ASP B:8 , ASN B:13 , ATP B:1001 , HOH B:1037	BINDING SITE FOR RESIDUE K B 1006
5	AC5	SOFTWARE	GLY B:10 , ASN B:11 , ASN B:12 , ASN B:13 , LYS B:69 , GLY B:205 , HIS B:206 , SER B:207 , SER B:208 , GLY B:234 , GLU B:272 , LYS B:275 , LYS B:276 , SER B:279 , GLY B:342 , GLY B:343 , THR B:344 , ARG B:346 , ILE B:347 , MG B:1003 , K B:1006 , HOH B:1018 , HOH B:1028 , HOH B:1046 , HOH B:1056 , HOH B:1158 , HOH B:1165 , HOH B:1215 , HOH B:1218 , HOH B:1220 , HOH B:1224	BINDING SITE FOR RESIDUE ATP B 1001
6	AC6	SOFTWARE	GLY A:10 , ASN A:11 , ASN A:12 , ASN A:13 , LYS A:69 , GLY A:205 , HIS A:206 , SER A:207 , SER A:208 , GLY A:234 , GLU A:272 , LYS A:275 , LYS A:276 , SER A:279 , GLY A:342 , GLY A:343 , THR A:344 , ARG A:346 , MG A:1004 , K A:1005 , HOH A:1006 , HOH A:1022 , HOH A:1047 , HOH A:1054 , HOH A:1067 , HOH A:1079 , HOH A:1119	BINDING SITE FOR RESIDUE ATP A 1002

(no "SS Bond" information available for 2QXL)

Asymmetric/Biological Unit

No.	Residues
1	Phe A:425	-	Pro A:426
2	Phe B:425	-	Pro B:426

(no "SAP(SNP)/Variant" information available for 2QXL)

Asymmetric/Biological Unit (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	HSP70_2	PS00329	Heat shock hsp70 proteins family signature 2.	HSP7F_YEAST	201-214	2	A:201-214 B:201-214
2	HSP70_3	PS01036	Heat shock hsp70 proteins family signature 3.	HSP7F_YEAST	338-352	2	A:338-352 B:338-352

Asymmetric/Biological Unit (1, 2)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1	YPL106C	1	YPL106C.1	XVI:352272-350191	2082	HSP7F_YEAST	1-693	693	2	A:3-657 (gaps) B:3-652 (gaps)	655 650

Asymmetric/Biological 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:617
 aligned with HSP7F_YEAST | P32589 from UniProtKB/Swiss-Prot  Length:693

    Alignment length:655
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472       482       492       502       512       522       532       542       552       562       572       582       592       602       612       622       632       642       652     
          HSP7F_YEAST     3 TPFGLDLGNNNSVLAVARNRGIDIVVNEVSNRSTPSVVGFGPKNRYLGETGKNKQTSNIKNTVANLKRIIGLDYHHPDFEQESKHFTSKLVELDDKKTGAEVRFAGEKHVFSATQLAAMFIDKVKDTVKQDTKANITDVCIAVPPWYTEEQRYNIADAARIAGLNPVRIVNDVTAAGVSYGIFKTDLPEGEEKPRIVAFVDIGHSSYTCSIMAFKKGQLKVLGTACDKHFGGRDFDLAITEHFADEFKTKYKIDIRENPKAYNRILTAAEKLKKVLSANTNAPFSVESVMNDVDVSSQLSREELEELVKPLLERVTEPVTKALAQAKLSAEEVDFVEIIGGTTRIPTLKQSISEAFGKPLSTTLNQDEAIAKGAAFICAIHSPTLRVRPFKFEDIHPYSVSYSWDKQVEDEDHMEVFPAGSSFPSTKLITLNRTGDFSMAASYTDITQLPPNTPEQIANWEITGVQLPEGQDSVPVKLKLRCDPSGLHTIEEAYTIEDIEVEEPIPLPEDAPEDAEQEFKKVTKTVKKDDLTIVAHTFGLDAKKLNELIEKENEMLAQDKLVAETEDRKNTLEEYIYTLRGKLEEEYAPFASDAEKTKLQGMLNKAEEWLYDEGFDSIKAKYIAKYEELASLGNIIRGRYLAKEEEKKQAIRSKQ 657
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2qxlA01 A:3-38,A:115-186,A:364-384  2qxlA02 A:39-114  [code=3.30.30.30, no name defined]                        2qxlA01 A:3-38,A:115-186,A:364-384  [code=3.30.420.40, no name defined] 2qxlA03 A:187-232,A:317-363                   2qxlA04 A:233-316 Actin; Chain A, domain 4                                          2qxlA03 A:187-232,A:317-363                    2qxlA01                   2qxlA05 A:390-541 Substrate Binding Domain Of DNAk; Chain A, domain 1                                                                                   2qxlA06 A:542-657  [code=1.20.1270.10, no name defined]                                                              CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee....eeeeeeee..eeee.........ee..eee....eeehhhhhhh...hhh.ee.hhhhhh.......hhhhhhh....eeee.....eeeeeee..eeeeeehhhhhhhhhhhhhhhhhhhhh....eeeeee....hhhhhhhhhhhhhhh..eeeeeeehhhhhhhhhhhhh..........eeeeeeee....eeeeeeeee..eeeeeeeeee...hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhh...eeeeeeeeee..eeeeeeeehhhhhhhhhhhhh..hhhhhhhhhhhh.......eeeeehhhhhhhhhhhhhhhhhh..ee......hhhhhhhhhhhhhh.-----...eeeeee...eeeee........eeeee...eee.eeeeeeeee...eeeeeee.hhhhh......eeeeeee.--------..eeeeeeeee.....eeeeeeeee..-------------------------...eeee..eeee....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------HSP70_2       ---------------------------------------------------------------------------------------------------------------------------HSP70_3        ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
               Transcript 1 Exon 1.1  PDB: A:3-657 (gaps) UniProt: 1-693 [INCOMPLETE]                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       Transcript 1
                 2qxl A   3 TPFGLDLGNNNSVLAVARNRGIDIVVNEVSNRSTPSVVGFGPKNRYLGETGKNKQTSNIKNTVANLKRIIGLDYHHPDFEQESKHFTSKLVELDDKKTGAEVRFAGEKHVFSATQLAAMFIDKVKDTVKQDTKANITDVCIAVPPWYTEEQRYNIADAARIAGLNPVRIVNDVTAAGVSYGIFKTDLPEGEEKPRIVAFVDIGHSSYTCSIMAFKKGQLKVLGTACDKHFGGRDFDLAITEHFADEFKTKYKIDIRENPKAYNRILTAAEKLKKVLSANTNAPFSVESVMNDVDVSSQLSREELEELVKPLLERVTEPVTKALAQAKLSAEEVDFVEIIGGTTRIPTLKQSISEAFGKPLSTTLNQDEAIAKGAAFICAIHS-----RPFKFEDIHPYSVSYSWDKQVEDEDHMEVFPAGSSFPSTKLITLNRTGDFSMAASYTDITQLPPNTPEQIANWEIT--------DSVPVKLKLRCDPSGLHTIEEAYTIED-------------------------KTVKKDDLTIVAHTFGLDAKKLNELIEKENEMLAQDKLVAETEDRKNTLEEYIYTLRGKLEEEYAPFASDAEKTKLQGMLNKAEEWLYDEGFDSIKAKYIAKYEELASLGNIIRGRYLAKEEEKKQAIRSKQ 657
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382 |     392       402       412       422       432       442       452       462  |      - |     482       492       | -         -         -   |   532       542       552       562       572       582       592       602       612       622       632       642       652     
                                                                                                                                                                                                                                                                                                                                                                                                                       384   390                                                                        465      474                       500                       526

Chain B from PDB  Type:PROTEIN  Length:625
 aligned with HSP7F_YEAST | P32589 from UniProtKB/Swiss-Prot  Length:693

    Alignment length:650
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472       482       492       502       512       522       532       542       552       562       572       582       592       602       612       622       632       642       652
          HSP7F_YEAST     3 TPFGLDLGNNNSVLAVARNRGIDIVVNEVSNRSTPSVVGFGPKNRYLGETGKNKQTSNIKNTVANLKRIIGLDYHHPDFEQESKHFTSKLVELDDKKTGAEVRFAGEKHVFSATQLAAMFIDKVKDTVKQDTKANITDVCIAVPPWYTEEQRYNIADAARIAGLNPVRIVNDVTAAGVSYGIFKTDLPEGEEKPRIVAFVDIGHSSYTCSIMAFKKGQLKVLGTACDKHFGGRDFDLAITEHFADEFKTKYKIDIRENPKAYNRILTAAEKLKKVLSANTNAPFSVESVMNDVDVSSQLSREELEELVKPLLERVTEPVTKALAQAKLSAEEVDFVEIIGGTTRIPTLKQSISEAFGKPLSTTLNQDEAIAKGAAFICAIHSPTLRVRPFKFEDIHPYSVSYSWDKQVEDEDHMEVFPAGSSFPSTKLITLNRTGDFSMAASYTDITQLPPNTPEQIANWEITGVQLPEGQDSVPVKLKLRCDPSGLHTIEEAYTIEDIEVEEPIPLPEDAPEDAEQEFKKVTKTVKKDDLTIVAHTFGLDAKKLNELIEKENEMLAQDKLVAETEDRKNTLEEYIYTLRGKLEEEYAPFASDAEKTKLQGMLNKAEEWLYDEGFDSIKAKYIAKYEELASLGNIIRGRYLAKEEEKKQA 652
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2qxlB01 B:3-38,B:115-186,B:364-389  2qxlB02 B:39-114  [code=3.30.30.30, no name defined]                        2qxlB01 B:3-38,B:115-186,B:364-389  [code=3.30.420.40, no name defined] 2qxlB03 B:187-232,B:317-363                   2qxlB04 B:233-316 Actin; Chain A, domain 4                                          2qxlB03 B:187-232,B:317-363                    2qxlB01                   2qxlB05 B:390-541 Substrate Binding Domain Of DNAk; Chain A, domain 1                                                                                   2qxlB06 B:542-652  [code=1.20.1270.10, no name defined]                                                         CATH domains
           Pfam domains (1) -HSP70-2qxlB01 B:4-644                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            -------- Pfam domains (1)
           Pfam domains (2) -HSP70-2qxlB02 B:4-644                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            -------- Pfam domains (2)
         Sec.struct. author ..eeee....eeeeeeee..eeee.........ee..eee....eeehhhhhhh...hhh.ee.hhhhhh.......hhhhhhh....eeee.....eeeeeee..eeeeeehhhhhhhhhhhhhhhhhhhhh....eeeeee....hhhhhhhhhhhhhhh..eeeeeeehhhhhhhhhhhhh..........eeeeeeee....eeeeeeeee..eeeeeeeeee...hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeeeeee..eeeeeeeehhhhhhhhhhhhh..hhhhhhhhhhhh.hhhhh.eeeeehhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhh........eeeeee...eeeee........eeeee...eee.eeeeeeeee....eeeeee.hhhhh......eeeeeeee--........eeeeeeeee.....eeeeeeeee....-----------------------...eeee.eeeee....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------HSP70_2       ---------------------------------------------------------------------------------------------------------------------------HSP70_3        ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
               Transcript 1 Exon 1.1  PDB: B:3-652 (gaps) UniProt: 1-693 [INCOMPLETE]                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Transcript 1
                 2qxl B   3 TPFGLDLGNNNSVLAVARNRGIDIVVNEVSNRSTPSVVGFGPKNRYLGETGKNKQTSNIKNTVANLKRIIGLDYHHPDFEQESKHFTSKLVELDDKKTGAEVRFAGEKHVFSATQLAAMFIDKVKDTVKQDTKANITDVCIAVPPWYTEEQRYNIADAARIAGLNPVRIVNDVTAAGVSYGIFKTDLPEGEEKPRIVAFVDIGHSSYTCSIMAFKKGQLKVLGTACDKHFGGRDFDLAITEHFADEFKTKYKIDIRENPKAYNRILTAAEKLKKVLSANTNAPFSVESVMNDVDVSSQLSREELEELVKPLLERVTEPVTKALAQAKLSAEEVDFVEIIGGTTRIPTLKQSISEAFGKPLSTTLNQDEAIAKGAAFICAIHSPTLRVRPFKFEDIHPYSVSYSWDKQVEDEDHMEVFPAGSSFPSTKLITLNRTGDFSMAASYTDITQLPPNTPEQIANWEIT--QLPEGQDSVPVKLKLRCDPSGLHTIEEAYTIEDIE-----------------------KTVKKDDLTIVAHTFGLDAKKLNELIEKENEMLAQDKLVAETEDRKNTLEEYIYTLRGKLEEEYAPFASDAEKTKLQGMLNKAEEWLYDEGFDSIKAKYIAKYEELASLGNIIRGRYLAKEEEKKQA 652
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462  |  | 472       482       492       502         -         -   |   532       542       552       562       572       582       592       602       612       622       632       642       652
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        465  |                               502                     526                                                                                                                              
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           468

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 '\|'

(no "SCOP Domain" information available for 2QXL)

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: Actin_ATPase (173)

Family: HSP70 (41)

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast) (4)

1a	HSP70-2qxlB01	B:4-644
1b	HSP70-2qxlB02	B:4-644

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (HSP7F_YEAST | P32589)

molecular function
	GO:0005524	ATP binding	Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
	GO:0000774	adenyl-nucleotide exchange factor activity	Stimulates the hydrolysis and exchange of adenyl nucleotides by other proteins.
	GO:0005516	calmodulin binding	Interacting selectively and non-covalently with calmodulin, a calcium-binding protein with many roles, both in the calcium-bound and calcium-free states.
	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:0042277	peptide binding	Interacting selectively and non-covalently with peptides, any of a group of organic compounds comprising two or more amino acids linked by peptide bonds.
	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).
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:0042026	protein refolding	The process carried out by a cell that restores the biological activity of an unfolded or misfolded protein, using helper proteins such as chaperones.
	GO:0050790	regulation of catalytic activity	Any process that modulates the activity of an enzyme.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0005844	polysome	A multiribosomal structure representing a linear array of ribosomes held together by messenger RNA. They represent the active complexes in cellular protein synthesis and are able to incorporate amino acids into polypeptides both in vivo and in vitro.

Asymmetric/Biological Unit
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	Cis Peptide Bonds
		Phe A:425 - Pro A:426	[ RasMol ]
		Phe B:425 - Pro B:426	[ RasMol ]

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	2qxl
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	HSP7F_YEAST \| P32589	:	3c7n 3d2e 3d2f

(no "Related Entries Specified in the PDB File" available for 2QXL)

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 6)

Sites (6, 6)

SS Bonds (0, 0)

Cis Peptide Bonds (2, 2)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (2, 4)

Exons (1, 2)

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