3GL1 - JenaLib

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Title :   CRYSTAL STRUCTURE OF ATPASE DOMAIN OF SSB1 CHAPERONE, A MEMBER OF THE HSP70 FAMILY, FROM SACCHAROMYCES CEREVISIAE

Authors :   J. Osipiuk, H. Li, M. Bargassa, C. Sahi, E. A. Craig, A. Joachimiak, Midw Center For Structural Genomics (Mcsg)

Date :   11 Mar 09 (Deposition) - 24 Mar 09 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.92

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

Keywords :   Structural Genomics, Apc90063. 1, Atpase Domain, Ssb1, Chaperone, Hsp70, Psi-2, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Atp-Binding, Nucleotide-Binding, Phosphoprotein, Protein Biosynthesis, Stress Response (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   J. Osipiuk, H. Li, M. Bargassa, C. Sahi, E. A. Craig, A. Joachimiak
Crystal Structure Of Atpase Domain Of Ssb1 Chaperone, Membe Of The Hsp70 Family From Saccharomyces Cerevisiae.
To Be Published
PubMed: search

Molecule 1 - HEAT SHOCK PROTEIN SSB1
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PMCSG7
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Fragment	:	UNP RESIDUES 1-384
	Gene	:	SSB1, YDL229W, YG101
	Organism Common	:	YEAST
	Organism Scientific	:	SACCHAROMYCES CEREVISIAE
	Organism Taxid	:	4932
	Synonym	:	COLD-INDUCIBLE PROTEIN YG101

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 11)

No.	Name	Count	Type	Full Name
1	CL	7	Ligand/Ion	CHLORIDE ION
2	GOL	1	Ligand/Ion	GLYCEROL
3	MG	3	Ligand/Ion	MAGNESIUM ION

Biological Unit 1 (0, 0)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	GOL	-1	Ligand/Ion	GLYCEROL
3	MG	-1	Ligand/Ion	MAGNESIUM ION

Biological Unit 2 (1, 1)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	GOL	1	Ligand/Ion	GLYCEROL
3	MG	-1	Ligand/Ion	MAGNESIUM ION

Asymmetric Unit (11, 11)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	HOH A:414 , HOH A:427 , HOH A:440 , HOH A:548 , HOH A:601 , HOH A:602	BINDING SITE FOR RESIDUE MG A 701
02	AC2	SOFTWARE	ASP A:288 , HOH A:404 , HOH A:425 , GLN B:350 , HOH B:430 , HOH B:474	BINDING SITE FOR RESIDUE MG A 703
03	AC3	SOFTWARE	THR A:16 , THR A:17 , TYR A:18	BINDING SITE FOR RESIDUE CL A 707
04	AC4	SOFTWARE	ARG A:265 , ASP A:288 , HOH B:439	BINDING SITE FOR RESIDUE CL A 708
05	AC5	SOFTWARE	THR A:16 , LYS A:73 , HOH A:548	BINDING SITE FOR RESIDUE CL A 710
06	AC6	SOFTWARE	ARG A:261 , ARG A:265 , ARG B:345 , ASN B:367	BINDING SITE FOR RESIDUE CL A 711
07	AC7	SOFTWARE	HOH B:395 , HOH B:426 , HOH B:434 , HOH B:520 , HOH B:540 , HOH B:655	BINDING SITE FOR RESIDUE MG B 702
08	AC8	SOFTWARE	THR B:16 , LYS B:73 , THR B:207 , HOH B:540	BINDING SITE FOR RESIDUE CL B 704
09	AC9	SOFTWARE	THR B:16 , THR B:17 , TYR B:18 , HOH B:438 , HOH B:616	BINDING SITE FOR RESIDUE CL B 705
10	BC1	SOFTWARE	ILE B:175 , ASN B:176 , HOH B:396 , HOH B:461	BINDING SITE FOR RESIDUE CL B 709
11	BC2	SOFTWARE	THR B:16 , LYS B:73 , ARG B:74 , ARG B:78 , TYR B:151 , HOH B:642	BINDING SITE FOR RESIDUE GOL B 712

(no "SS Bond" information available for 3GL1)

(no "Cis Peptide Bond" information available for 3GL1)

(no "SAP(SNP)/Variant" information available for 3GL1)

Asymmetric Unit (3, 6)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	HSP70_1	PS00297	Heat shock hsp70 proteins family signature 1.	SSB1_YEAST	12-19	2	A:12-19 B:12-19
2	HSP70_2	PS00329	Heat shock hsp70 proteins family signature 2.	SSB1_YEAST	200-213	2	A:200-213 B:200-213
3	HSP70_3	PS01036	Heat shock hsp70 proteins family signature 3.	SSB1_YEAST	337-351	2	A:337-351 B:337-351

Biological Unit 1 (3, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	HSP70_1	PS00297	Heat shock hsp70 proteins family signature 1.	SSB1_YEAST	12-19	1	A:12-19 -
2	HSP70_2	PS00329	Heat shock hsp70 proteins family signature 2.	SSB1_YEAST	200-213	1	A:200-213 -
3	HSP70_3	PS01036	Heat shock hsp70 proteins family signature 3.	SSB1_YEAST	337-351	1	A:337-351 -

Biological Unit 2 (3, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	HSP70_1	PS00297	Heat shock hsp70 proteins family signature 1.	SSB1_YEAST	12-19	1	- B:12-19
2	HSP70_2	PS00329	Heat shock hsp70 proteins family signature 2.	SSB1_YEAST	200-213	1	- B:200-213
3	HSP70_3	PS01036	Heat shock hsp70 proteins family signature 3.	SSB1_YEAST	337-351	1	- B:337-351

(no "Exon" information available for 3GL1)

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:383
 aligned with SSB1_YEAST | P11484 from UniProtKB/Swiss-Prot  Length:613

    Alignment length:383
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381   
           SSB1_YEAST     2 AEGVFQGAIGIDLGTTYSCVATYESSVEIIANEQGNRVTPSFVAFTPEERLIGDAAKNQAALNPRNTVFDAKRLIGRRFDDESVQKDMKTWPFKVIDVDGNPVIEVQYLEETKTFSPQEISAMVLTKMKEIAEAKIGKKVEKAVITVPAYFNDAQRQATKDAGAISGLNVLRIINEPTAAAIAYGLGAGKSEKERHVLIFDLGGGTFDVSLLHIAGGVYTVKSTSGNTHLGGQDFDTNLLEHFKAEFKKKTGLDISDDARALRRLRTAAERAKRTLSSVTQTTVEVDSLFDGEDFESSLTRARFEDLNAALFKSTLEPVEQVLKDAKISKSQIDEVVLVGGSTRIPKVQKLLSDFFDGKQLEKSINPDEAVAYGAAVQGAILT 384
               SCOP domains d3gl1a1 A:2-191 automated matches                                                                                                                                                             d3gl1a2 A:192-384 automated matches                                                                                                                                                               SCOP domains
               CATH domains 3gl1A01 A:2-69,A:125-189,A:364-384                                  3gl1A02 A:70-124  [code=3.30.30.30, no name defined]   3gl1A01 A:2-69,A:125-189,A:364-384                               3gl1A03 A:190-231,A:316-363               3gl1A04 A:232-315 Actin; Chain A, domain 4                                          3gl1A03 A:190-231,A:316-363                     3gl1A01               CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eeee....eeeeeee...eee.........ee..eee....eeehhhhhhhhhhhhh.ee.hhhhh......hhhhhhhhh....eeeee..eeeeeeee..eeeeehhhhhhhhhhhhhhhhhhhhhh....eeeeee....hhhhhhhhhhhhhhh..eeeeeeehhhhhhhhh..........eeeeeeee....eeeeeeeee..eeeeeeeeee...hhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhh....eeeeeeeeee..eeeeeeeehhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhh.eeeeehhhhhhhhhhhhhhhhh............hhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------HSP70_1 ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------HSP70_2       ---------------------------------------------------------------------------------------------------------------------------HSP70_3        --------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3gl1 A   2 AEGVFQGAIGIDLGTTYSCVATYESSVEIIANEQGNRVTPSFVAFTPEERLIGDAAKNQAALNPRNTVFDAKRLIGRRFDDESVQKDMKTWPFKVIDVDGNPVIEVQYLEETKTFSPQEISAMVLTKMKEIAEAKIGKKVEKAVITVPAYFNDAQRQATKDAGAISGLNVLRIINEPTAAAIAYGLGAGKSEKERHVLIFDLGGGTFDVSLLHIAGGVYTVKSTSGNTHLGGQDFDTNLLEHFKAEFKKKTGLDISDDARALRRLRTAAERAKRTLSSVTQTTVEVDSLFDGEDFESSLTRARFEDLNAALFKSTLEPVEQVLKDAKISKSQIDEVVLVGGSTRIPKVQKLLSDFFDGKQLEKSINPDEAVAYGAAVQGAILT 384
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381

Chain B from PDB  Type:PROTEIN  Length:381
 aligned with SSB1_YEAST | P11484 from UniProtKB/Swiss-Prot  Length:613

    Alignment length:381
                                    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       263       273       283       293       303       313       323       333       343       353       363       373       383 
           SSB1_YEAST     4 GVFQGAIGIDLGTTYSCVATYESSVEIIANEQGNRVTPSFVAFTPEERLIGDAAKNQAALNPRNTVFDAKRLIGRRFDDESVQKDMKTWPFKVIDVDGNPVIEVQYLEETKTFSPQEISAMVLTKMKEIAEAKIGKKVEKAVITVPAYFNDAQRQATKDAGAISGLNVLRIINEPTAAAIAYGLGAGKSEKERHVLIFDLGGGTFDVSLLHIAGGVYTVKSTSGNTHLGGQDFDTNLLEHFKAEFKKKTGLDISDDARALRRLRTAAERAKRTLSSVTQTTVEVDSLFDGEDFESSLTRARFEDLNAALFKSTLEPVEQVLKDAKISKSQIDEVVLVGGSTRIPKVQKLLSDFFDGKQLEKSINPDEAVAYGAAVQGAILT 384
               SCOP domains d3gl1b1 B:4-191 automated matches                                                                                                                                                           d3gl1b2 B:192-384 automated matches                                                                                                                                                               SCOP domains
               CATH domains 3gl1B01 B:4-69,B:125-189,B:364-384                                3gl1B02 B:70-124  [code=3.30.30.30, no name defined]   3gl1B01 B:4-69,B:125-189,B:364-384                               3gl1B03 B:190-231,B:316-363               3gl1B04 B:232-315 Actin; Chain A, domain 4                                          3gl1B03 B:190-231,B:316-363                     3gl1B01               CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeee...eeeeeee...eee.........ee..eee....eeehhhhhh....hhh.ee.hhhhh......hhhhhhhhh....eeeee..eeeeeeee..eeeeehhhhhhhhhhhhhhhhhhhhhh....eeeeee....hhhhhhhhhhhhhhh..eeeeeeehhhhhhhhh..hhhhh...eeeeeeee....eeeeeeeee..eeeeeeeeee...hhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhh...eeeeeeeeee..eeeeeeeehhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhh.eeeeehhhhhhhhhhhhhhhhh............hhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------HSP70_1 ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------HSP70_2       ---------------------------------------------------------------------------------------------------------------------------HSP70_3        --------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3gl1 B   4 GVFQGAIGIDLGTTYSCVATYESSVEIIANEQGNRVTPSFVAFTPEERLIGDAAKNQAALNPRNTVFDAKRLIGRRFDDESVQKDMKTWPFKVIDVDGNPVIEVQYLEETKTFSPQEISAMVLTKMKEIAEAKIGKKVEKAVITVPAYFNDAQRQATKDAGAISGLNVLRIINEPTAAAIAYGLGAGKSEKERHVLIFDLGGGTFDVSLLHIAGGVYTVKSTSGNTHLGGQDFDTNLLEHFKAEFKKKTGLDISDDARALRRLRTAAERAKRTLSSVTQTTVEVDSLFDGEDFESSLTRARFEDLNAALFKSTLEPVEQVLKDAKISKSQIDEVVLVGGSTRIPKVQKLLSDFFDGKQLEKSINPDEAVAYGAAVQGAILT 384
                                    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       263       273       283       293       303       313       323       333       343       353       363       373       383

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(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Alpha and beta proteins (a/b) (23833)

Fold: Ribonuclease H-like motif (1424)

Superfamily: Actin-like ATPase domain (426)

Family: automated matches (111)

Protein domain: automated matches (111)

Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932] (5)

1a	d3gl1a1	A:2-191
1b	d3gl1a2	A:192-384
1c	d3gl1b1	B:4-191
1d	d3gl1b2	B:192-384

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 2-Layer Sandwich (8480)

Topology: Defensin A-like (149)

Homologous Superfamily: [code=3.30.30.30, no name defined] (60)

Yeast (Saccharomyces cerevisiae) (1)

1a	3gl1A02	A:70-124
1b	3gl1B02	B:70-124

Topology: Nucleotidyltransferase; domain 5 (788)

Homologous Superfamily: [code=3.30.420.40, no name defined] (217)

Yeast (Saccharomyces cerevisiae) (1)

2a	3gl1B01	B:4-69,B:125-189,B:364-384
2b	3gl1A01	A:2-69,A:125-189,A:364-384
2c	3gl1A03	A:190-231,A:316-363
2d	3gl1B03	B:190-231,B:316-363

Architecture: Alpha-Beta Complex (3881)

Topology: Actin; Chain A, domain 4 (156)

Homologous Superfamily: Actin; Chain A, domain 4 (155)

Yeast (Saccharomyces cerevisiae) (1)

3a	3gl1A04	A:232-315
3b	3gl1B04	B:232-315

(no "Pfam Domain" information available for 3GL1)

Asymmetric Unit(hide GO term definitions)

Chain A,B (SSB1_YEAST | P11484)

molecular function
	GO:0005524	ATP binding	Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
	GO:0016887	ATPase activity	Catalysis of the reaction: ATP + H2O = ADP + phosphate + 2 H+. May or may not be coupled to another reaction.
	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: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:0051082	unfolded protein binding	Interacting selectively and non-covalently with an unfolded protein.
biological process
	GO:0051083	'de novo' cotranslational protein folding	The process of assisting in the correct noncovalent assembly of the ribosome-bound nascent chains of a multidomain protein whilst other parts of the protein are still being translated.
	GO:0042149	cellular response to glucose starvation	Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of deprivation of glucose.
	GO:0002181	cytoplasmic translation	The chemical reactions and pathways resulting in the formation of a protein in the cytoplasm. This is a ribosome-mediated process in which the information in messenger RNA (mRNA) is used to specify the sequence of amino acids in the protein.
	GO:0006364	rRNA processing	Any process involved in the conversion of a primary ribosomal RNA (rRNA) transcript into one or more mature rRNA molecules.
	GO:0006450	regulation of translational fidelity	Any process that modulates the ability of the translational apparatus to interpret the genetic code.
	GO:0000054	ribosomal subunit export from nucleus	The directed movement of a ribosomal subunit from the nucleus into the cytoplasm.
	GO:0006412	translation	The cellular metabolic process in which a protein is formed, using the sequence of a mature mRNA or circRNA molecule to specify the sequence of amino acids in a polypeptide chain. Translation is mediated by the ribosome, and begins with the formation of a ternary complex between aminoacylated initiator methionine tRNA, GTP, and initiation factor 2, which subsequently associates with the small subunit of the ribosome and an mRNA or circRNA. Translation ends with the release of a polypeptide chain from the ribosome.
	GO:0006452	translational frameshifting	A mechanism whereby different proteins may result from a single mRNA molecule, due to a change in the parsing of three nucleotides per codon relative to an initiating AUG codon.
	GO:0006415	translational termination	The process resulting in the release of a polypeptide chain from the ribosome, usually in response to a termination codon (UAA, UAG, or UGA in the universal genetic code).
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.

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1hx1	CRYSTAL STRUCTURE OF A BAG DOMAIN IN COMPLEX WITH THE HSC70 ATPASE DOMAIN
1s3x	CRYSTAL STRUCTURE OF HUMAN HSP70 ATPASE DOMAIN RELATED ID: APC90063.1 RELATED DB: TARGETDB
1yuw	CRYSTAL STRUCTURE OF BOVINE HSC70(AA1-554)E213A/D214A MUTANT

Description

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Ligands, Modified Residues, Ions (3, 11)

Sites (11, 11)

SS Bonds (0, 0)

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Sequence-Structure Mapping

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