3QML - JenaLib

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Biological Unit 2 (Jmol Viewer)

Title :   THE STRUCTURAL ANALYSIS OF SIL1-BIP COMPLEX REVEALS THE MECHANISM FOR SIL1 TO FUNCTION AS A NOVEL NUCLEOTIDE EXCHANGE FACTOR

Authors :   M. Yan, J. Z. Li, B. D. Sha

Date :   04 Feb 11 (Deposition) - 29 Jun 11 (Release) - 07 Sep 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.31

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

Keywords :   Armadillo Like Repeats, Chaperone-Protein Transport Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. Yan, J. Li, B. Sha
Structural Analysis Of The Sil1-Bip Complex Reveals The Mechanism For Sil1 To Function As A Nucleotide-Exchange Factor.
Biochem. J. V. 438 447 2011
PubMed-ID: 21675960 | Reference-DOI: 10.1042/BJ20110500

Molecule 1 - 78 KDA GLUCOSE-REGULATED PROTEIN HOMOLOG
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Fragment	:	UNP RESIDUES 43-426
	Gene	:	KAR2, GRP78, SSD1, YJL034W, J1248
	Organism Common	:	BREWER'S YEAST,LAGER BEER YEAST,YEAST
	Organism Scientific	:	SACCHAROMYCES CEREVISIAE
	Organism Taxid	:	4932
	Synonym	:	GRP-78, IMMUNOGLOBULIN HEAVY CHAIN-BINDING PROTEIN HOMOLOG, BIP

Molecule 2 - NUCLEOTIDE EXCHANGE FACTOR SIL1
	Chains	:	C, D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Fragment	:	UNP RESIDUES 113-421
	Gene	:	SIL1, PER100, SLS1, YOL031C
	Organism Common	:	BREWER'S YEAST,LAGER BEER YEAST,YEAST
	Organism Scientific	:	SACCHAROMYCES CEREVISIAE
	Organism Taxid	:	4932
	Synonym	:	PROTEIN SLS1

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 11)

No.	Name	Count	Type	Full Name
1	MG	3	Ligand/Ion	MAGNESIUM ION
2	PO4	8	Ligand/Ion	PHOSPHATE ION

Biological Unit 1 (1, 4)

No.	Name	Count	Type	Full Name
1	MG	-1	Ligand/Ion	MAGNESIUM ION
2	PO4	4	Ligand/Ion	PHOSPHATE ION

Biological Unit 2 (1, 4)

No.	Name	Count	Type	Full Name
1	MG	-1	Ligand/Ion	MAGNESIUM ION
2	PO4	4	Ligand/Ion	PHOSPHATE ION

Asymmetric Unit (11, 11)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	GLY B:58 , THR B:59 , THR B:60 , TYR B:61 , GLY B:246 , GLY B:247	BINDING SITE FOR RESIDUE PO4 B 1
02	AC2	SOFTWARE	THR A:59 , THR A:60 , TYR A:61 , GLY A:246 , GLY A:247 , HOH A:444 , HOH A:452	BINDING SITE FOR RESIDUE PO4 A 2
03	AC3	SOFTWARE	GLU B:276 , ASP B:279 , GLU B:313 , LYS B:316	BINDING SITE FOR RESIDUE PO4 B 3
04	AC4	SOFTWARE	GLU A:276 , ASP A:279 , GLU A:313 , LYS A:316	BINDING SITE FOR RESIDUE PO4 A 4
05	AC5	SOFTWARE	HOH C:60 , PHE C:218 , PRO C:219 , ASN C:220 , PHE C:221 , LYS C:224	BINDING SITE FOR RESIDUE PO4 C 5
06	AC6	SOFTWARE	GLU C:326 , HOH C:434 , HOH C:436	BINDING SITE FOR RESIDUE PO4 C 6
07	AC7	SOFTWARE	PHE D:218 , PRO D:219 , ASN D:220 , LYS D:224	BINDING SITE FOR RESIDUE PO4 D 7
08	AC8	SOFTWARE	GLU D:274 , ASN D:277 , GLU D:326 , HOH D:434	BINDING SITE FOR RESIDUE PO4 D 8
09	AC9	SOFTWARE	HOH A:477	BINDING SITE FOR RESIDUE MG A 1
10	BC1	SOFTWARE	LYS A:68 , ASN A:69 , GLN A:285	BINDING SITE FOR RESIDUE MG A 427
11	BC2	SOFTWARE	LYS C:363	BINDING SITE FOR RESIDUE MG C 1

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

Asymmetric Unit

No.	Residues
1	Val A:153	-	Lys A:154
2	Lys A:154	-	Gly A:155
3	Ser A:234	-	Asp A:235
4	Val B:153	-	Lys B:154
5	Lys B:154	-	Gly B:155
6	Ile B:210	-	Ala B:211
7	Gly B:370	-	Leu B:371
8	Asp C:123	-	Tyr C:124
9	Ser C:239	-	Ser C:240
10	Met C:298	-	Tyr C:299
11	Gly C:383	-	Leu C:384
12	Pro D:208	-	Pro D:209
13	Ala D:296	-	Asp D:297
14	Lys D:363	-	Gly D:364
15	Glu D:386	-	Arg D:387

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

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.	GRP78_YEAST	55-62	2	A:55-62 B:55-62
2	HSP70_2	PS00329	Heat shock hsp70 proteins family signature 2.	GRP78_YEAST	242-255	2	A:242-255 B:242-255
3	HSP70_3	PS01036	Heat shock hsp70 proteins family signature 3.	GRP78_YEAST	379-393	2	A:379-393 B:379-393

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.	GRP78_YEAST	55-62	1	A:55-62 -
2	HSP70_2	PS00329	Heat shock hsp70 proteins family signature 2.	GRP78_YEAST	242-255	1	A:242-255 -
3	HSP70_3	PS01036	Heat shock hsp70 proteins family signature 3.	GRP78_YEAST	379-393	1	A:379-393 -

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.	GRP78_YEAST	55-62	1	- B:55-62
2	HSP70_2	PS00329	Heat shock hsp70 proteins family signature 2.	GRP78_YEAST	242-255	1	- B:242-255
3	HSP70_3	PS01036	Heat shock hsp70 proteins family signature 3.	GRP78_YEAST	379-393	1	- B:379-393

(no "Exon" information available for 3QML)

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:377
 aligned with GRP78_YEAST | P16474 from UniProtKB/Swiss-Prot  Length:682

    Alignment length:377
                                    57        67        77        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       347       357       367       377       387       397       407       417       
          GRP78_YEAST    48 NYGTVIGIDLGTTYSCVAVMKNGKTEILANEQGNRITPSYVAFTDDERLIGDAAKNQVAANPQNTIFDIKRLIGLKYNDRSVQKDIKHLPFNVVNKDGKPAVEVSVKGEKKVFTPEEISGMILGKMKQIAEDYLGTKVTHAVVTVPAYFNDAQRQATKDAGTIAGLNVLRIVNEPTAAAIAYGLDKSDKEHQIIVYDLGGGTFDVSLLSIENGVFEVQATSGDTHLGGEDFDYKIVRQLIKAFKKKHGIDVSDNNKALAKLKREAEKAKRALSSQMSTRIEIDSFVDGIDLSETLTRAKFEELNLDLFKKTLKPVEKVLQDSGLEKKDVDDIVLVGGSTRIPKVQQLLESYFDGKKASKGINPDEAVAYGAAVQAGV 424
               SCOP domains d3qmla1 A:48-234 automated matches                                                                                                                                                         d3qmla2 A:235-424 automated matches                                                                                                                                                            SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeee...eeeeeeee..eeee.........ee..eee....eeehhhhhhh.......ee.hhhhh......hhhhhhhhhh...eeeee..eeeeeee....eeeehhhhhhhhhhhhhhhhhhhhh.....eeeeee....hhhhhhhhhhhhhhh..eeeeeeehhhhhhhhh........eeeeeeee....eeeeeeeee..eeeeeeeeee...hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh...eeeeeeeeee..eeeeeeeehhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhh.eeeeehhhhhhhhhhhhhhhhh............hhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------HSP70_1 -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------HSP70_2       ---------------------------------------------------------------------------------------------------------------------------HSP70_3        ------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3qml A  48 NYGTVIGIDLGTTYSCVAVMKNGKTEILANEQGNRITPSYVAFTDDERLIGDAAKNQVAANPQNTIFDIKRLIGLKYNDRSVQKDIKHLPFNVVNKDGKPAVEVSVKGEKKVFTPEEISGMILGKMKQIAEDYLGTKVTHAVVTVPAYFNDAQRQATKDAGTIAGLNVLRIVNEPTAAAIAYGLDKSDKEHQIIVYDLGGGTFDVSLLSIENGVFEVQATSGDTHLGGEDFDYKIVRQLIKAFKKKHGIDVSDNNKALAKLKREAEKAKRALSSQMSTRIEIDSFVDGIDLSETLTRAKFEELNLDLFKKTLKPVEKVLQDSGLEKKDVDDIVLVGGSTRIPKVQQLLESYFDGKKASKGINPDEAVAYGAAVQAGV 424
                                    57        67        77        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       347       357       367       377       387       397       407       417

Chain B from PDB  Type:PROTEIN  Length:370
 aligned with GRP78_YEAST | P16474 from UniProtKB/Swiss-Prot  Length:682

    Alignment length:376
                                    59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419      
          GRP78_YEAST    50 GTVIGIDLGTTYSCVAVMKNGKTEILANEQGNRITPSYVAFTDDERLIGDAAKNQVAANPQNTIFDIKRLIGLKYNDRSVQKDIKHLPFNVVNKDGKPAVEVSVKGEKKVFTPEEISGMILGKMKQIAEDYLGTKVTHAVVTVPAYFNDAQRQATKDAGTIAGLNVLRIVNEPTAAAIAYGLDKSDKEHQIIVYDLGGGTFDVSLLSIENGVFEVQATSGDTHLGGEDFDYKIVRQLIKAFKKKHGIDVSDNNKALAKLKREAEKAKRALSSQMSTRIEIDSFVDGIDLSETLTRAKFEELNLDLFKKTLKPVEKVLQDSGLEKKDVDDIVLVGGSTRIPKVQQLLESYFDGKKASKGINPDEAVAYGAAVQAGVL 425
               SCOP domains d3qmlb1 B:50-232 automated matches                                                                                                                                                     ------d3qmlb2 B:239-425 automated matches                                                                                                                                                         SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) --HSP70-3qmlB01 B:52-425                                                                                                                                                                                                                                                                                                                                                                 Pfam domains (1)
           Pfam domains (2) --HSP70-3qmlB02 B:52-425                                                                                                                                                                                                                                                                                                                                                                 Pfam domains (2)
         Sec.struct. author ...eeeee...eeeeeeee..eeee.........ee..eee....eeehhhhhhh.......ee.hhhhh......hhhhhhhhhh...eeeee..eeeeeee....eeeehhhhhhhhhhhhhhhhhhh........eeeee....hhhhhhhhhhhhhh........eehhhhhhhhh...------.eeeeee....eeeeeeee....ee...eeee...hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh....eeeeeeeeee..eeeeeeeehhhhhhhhhhhhhh.hhhhhhhhhh.........eeeee.hhhhhhhhhhhhhhhh............hhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----HSP70_1 -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------HSP70_2       ---------------------------------------------------------------------------------------------------------------------------HSP70_3        -------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3qml B  50 GTVIGIDLGTTYSCVAVMKNGKTEILANEQGNRITPSYVAFTDDERLIGDAAKNQVAANPQNTIFDIKRLIGLKYNDRSVQKDIKHLPFNVVNKDGKPAVEVSVKGEKKVFTPEEISGMILGKMKQIAEDYLGTKVTHAVVTVPAYFNDAQRQATKDAGTIAGLNVLRIVNEPTAAAIAYGLD------QIIVYDLGGGTFDVSLLSIENGVFEVQATSGDTHLGGEDFDYKIVRQLIKAFKKKHGIDVSDNNKALAKLKREAEKAKRALSSQMSTRIEIDSFVDGIDLSETLTRAKFEELNLDLFKKTLKPVEKVLQDSGLEKKDVDDIVLVGGSTRIPKVQQLLESYFDGKKASKGINPDEAVAYGAAVQAGVL 425
                                    59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229  |    239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419      
                                                                                                                                                                                                                232    239

Chain C from PDB  Type:PROTEIN  Length:262
 aligned with SIL1_YEAST | Q08199 from UniProtKB/Swiss-Prot  Length:421

    Alignment length:285
                                   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       391       401     
           SIL1_YEAST   122 GDYEFSSDFKEMRNIIDSNPTLSSQDIARLEDSFDRIMEFAHDYKHGYKIITHEFALLANLSLNENLPLTLRELSTRVITSCLRNNPPVVEFINESFPNFKSKIMAALSNLNDSNHRSSNILIKRYLSILNELPVTSEDLPIYSTVVLQNVYERNNKDKQLQIKVLELISKILKADMYENDDTNLILFKRNAENWSSNLQEWANEFQEMVQNKSIDELHTRTFFDTLYNLKKIFKSDITINKGFLNWLAQQCKARQSNLDNGLQERDTEQDSFDKKLIDSRHLIF 406
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhh.hhhhhhhhhhhh.hhhhhhhhhhhhhhh.--..hhhhhhhhhhhhhhh.......--.hhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhh..-------------------hhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3qml C 122 GDYEFSSDFKEMRNIIDSNPTLSSQDIARLEDSFDRIMEFAHDYKHGYKIITHEFALLANLSLNENLPLTLRELSTRVITSCLRNNPPVVEFINESFPNFKSKIMAALSNLNDS--RSSNILIKRYLSILNELPVTSEDL--YSTVVLQNVYERNNKDKQLQIKVLELISKILKADMYE-------------------LQEWANEFQEMVQNKSIDELHTRTFFDTLYNLKKIFKSDITINKGFLNWLAQQCKARQSNLDNGLQERDTEQDSFDKKLIDSRHLIF 406
                                   131       141       151       161       171       181       191       201       211       221       231   |  |241       251       261  |    271       281       291        |-         -       321       331       341       351       361       371       381       391       401     
                                                                                                                                           235  |                    261  |                                 300                 320                                                                                      
                                                                                                                                              238                       264

Chain D from PDB  Type:PROTEIN  Length:273
 aligned with SIL1_YEAST | Q08199 from UniProtKB/Swiss-Prot  Length:421

    Alignment length:282
                                   134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404  
           SIL1_YEAST   125 EFSSDFKEMRNIIDSNPTLSSQDIARLEDSFDRIMEFAHDYKHGYKIITHEFALLANLSLNENLPLTLRELSTRVITSCLRNNPPVVEFINESFPNFKSKIMAALSNLNDSNHRSSNILIKRYLSILNELPVTSEDLPIYSTVVLQNVYERNNKDKQLQIKVLELISKILKADMYENDDTNLILFKRNAENWSSNLQEWANEFQEMVQNKSIDELHTRTFFDTLYNLKKIFKSDITINKGFLNWLAQQCKARQSNLDNGLQERDTEQDSFDKKLIDSRHLIF 406
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhh...hhhhhhhhhh.hhhhhhhhhhhhhhh.---.hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhh...------hhhhhhhhhhhhh..hhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3qml D 125 EFSSDFKEMRNIIDSNPTLSSQDIARLEDSFDRIMEFAHDYKHGYKIITHEFALLANLSLNENLPLTLRELSTRVITSCLRNNPPVVEFINESFPNFKSKIMAALSNLNDS---SSNILIKRYLSILNELPVTSEDLPIYSTVVLQNVYERNNKDKQLQIKVLELISKILKADM------NLILFKRNAENWSSNLQEWANEFQEMVQNKSIDELHTRTFFDTLYNLKKIFKSDITINKGFLNWLAQQCKARQSNLDNGLQERDTEQDSFDKKLIDSRHLIF 406
                                   134       144       154       164       174       184       194       204       214       224       234|   |  244       254       264       274       284       294   |     -|      314       324       334       344       354       364       374       384       394       404  
                                                                                                                                        235 239                                                        298    305

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	d3qmla1	A:48-234
1b	d3qmlb1	B:50-232
1c	d3qmlb2	B:239-425
1d	d3qmla2	A:235-424

(no "CATH Domain" information available for 3QML)

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: Actin_ATPase (173)

Family: HSP70 (41)

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

1a	HSP70-3qmlB01	B:52-425
1b	HSP70-3qmlB02	B:52-425

Asymmetric Unit(hide GO term definitions)

Chain A,B (GRP78_YEAST | P16474)

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: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:0006616	SRP-dependent cotranslational protein targeting to membrane, translocation	The process during cotranslational membrane targeting wherein proteins move across a membrane. SRP and its receptor initiate the transfer of the nascent chain across the endoplasmic reticulum (ER) membrane; they then dissociate from the chain, which is transferred to a set of transmembrane proteins, collectively called the translocon. Once the nascent chain translocon complex is assembled, the elongating chain passes directly from the large ribosomal subunit into the centers of the translocon, a protein-lined channel within the membrane. The growing chain is never exposed to the cytosol and does not fold until it reaches the ER lumen.
	GO:0070880	fungal-type cell wall beta-glucan biosynthetic process	The chemical reactions and pathways resulting in the formation of beta-glucans, compounds composed of glucose residues linked by beta-D-glucosidic bonds, found in the walls of fungal cells.
	GO:0000742	karyogamy involved in conjugation with cellular fusion	During sexual reproduction, the creation of a single nucleus from multiple nuclei as a result of fusing the lipid bilayers that surround each nuclei. This occurs after cytogamy.
	GO:0031204	posttranslational protein targeting to membrane, translocation	The process in which a protein translocates through the ER membrane posttranslationally.
	GO:0006986	response to unfolded protein	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 an unfolded protein stimulus.
	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:0034099	luminal surveillance complex	A multiprotein complex that recognizes ERAD-luminal misfolded substrates and brings them to the ubiquitination/extraction machinery. In yeast, this complex consists of Yos9p, Kar2p and Hrd3p proteins.

Chain C,D (SIL1_YEAST | Q08199)

molecular function
	GO:0000774	adenyl-nucleotide exchange factor activity	Stimulates the hydrolysis and exchange of adenyl nucleotides by other proteins.
biological process
	GO:0006616	SRP-dependent cotranslational protein targeting to membrane, translocation	The process during cotranslational membrane targeting wherein proteins move across a membrane. SRP and its receptor initiate the transfer of the nascent chain across the endoplasmic reticulum (ER) membrane; they then dissociate from the chain, which is transferred to a set of transmembrane proteins, collectively called the translocon. Once the nascent chain translocon complex is assembled, the elongating chain passes directly from the large ribosomal subunit into the centers of the translocon, a protein-lined channel within the membrane. The growing chain is never exposed to the cytosol and does not fold until it reaches the ER lumen.
	GO:0015031	protein transport	The directed movement of proteins into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
	GO:0050790	regulation of catalytic activity	Any process that modulates the activity of an enzyme.
	GO:0006810	transport	The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
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.

Asymmetric Unit
	Complete Structure
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	Ligands, Modified Residues, Ions
		MG	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		PO4	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]

	Sites
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		AC2	[ RasMol ]	+environment [ RasMol ]
		AC3	[ RasMol ]	+environment [ RasMol ]
		AC4	[ RasMol ]	+environment [ RasMol ]
		AC5	[ RasMol ]	+environment [ RasMol ]
		AC6	[ RasMol ]	+environment [ RasMol ]
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		BC1	[ RasMol ]	+environment [ RasMol ]
		BC2	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
		Ala D:296 - Asp D:297	[ RasMol ]
		Asp C:123 - Tyr C:124	[ RasMol ]
		Glu D:386 - Arg D:387	[ RasMol ]
		Gly B:370 - Leu B:371	[ RasMol ]
		Gly C:383 - Leu C:384	[ RasMol ]
		Ile B:210 - Ala B:211	[ RasMol ]
		Lys A:154 - Gly A:155	[ RasMol ]
		Lys B:154 - Gly B:155	[ RasMol ]
		Lys D:363 - Gly D:364	[ RasMol ]
		Met C:298 - Tyr C:299	[ RasMol ]
		Pro D:208 - Pro D:209	[ RasMol ]
		Ser A:234 - Asp A:235	[ RasMol ]
		Ser C:239 - Ser C:240	[ RasMol ]
		Val A:153 - Lys A:154	[ RasMol ]
		Val B:153 - Lys B:154	[ RasMol ]

Biological Units
	Complete Structure
		Biological Unit 1	[ Jena3D ]
		Biological Unit 2	[ Jena3D ]

Jmol
	protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick [ Asym. Unit PNG format \| Asym. Unit - sites PNG format \| Biol. Unit 1 PNG format \| Biol. Unit 1 - sites PNG format \| Biol. Unit 2 PNG format ](automatic orientation, automatically generated)
Molscript
	protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick [ mono PDF format \| stereo PDF format ](default orientation, automatically generated)

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	GRP78_YEAST \| P16474
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	SIL1_YEAST \| Q08199
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	GRP78_YEAST \| P16474
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UniProtKB/Swiss-Prot
	GRP78_YEAST \| P16474	:	3h0x 3qfp 3qfu

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 11)

Sites (11, 11)

SS Bonds (0, 0)

Cis Peptide Bonds (15, 15)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (3, 6)

Exons (0, 0)

Sequences/Alignments

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SCOP Domains (1, 4)

CATH Domains (0, 0)

Pfam Domains (1, 2)

Gene Ontology (18, 21)

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Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File