5BW8 - JenaLib

Asym./Biol. Unit (Jmol Viewer)

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

Title :   2.8 A CRYSTAL STRUCTURE OF A GET3-GET4-GET5 INTERMEDIATE COMPLEX FROM S.CEREVISIAE

Authors :   H. B. Gristick, J. W. Chartron, W. M. Clemons

Date :   06 Jun 15 (Deposition) - 14 Oct 15 (Release) - 30 Dec 15 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.80

Chains :   Asym./Biol. Unit : A,B,C,D,Z

Keywords :   Tail-Anchored Targeting, Atpase, Electrostatic Interaction, Hydrolase-Transport Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   H. B. Gristick, M. E. Rome, J. W. Chartron, M. Rao, S. Hess, S. O. Shan, W. M. Clemons
Mechanism Of Assembly Of A Substrate Transfer Complex Durin Tail-Anchored Protein Targeting.
J. Biol. Chem. V. 290 30006 2015
PubMed-ID: 26451041 | Reference-DOI: 10.1074/JBC.M115.677328

Molecule 1 - ATPASE GET3
	Chains	:	A, B
	EC Number	:	3.6.-.-
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Gene	:	GET3, SCRG_00595
	Organism Common	:	BAKER'S YEAST
	Organism Scientific	:	SACCHAROMYCES CEREVISIAE (STRAIN RM11-1A)
	Organism Taxid	:	285006
	Strain	:	RM11-1A
	Synonym	:	ARSENICAL PUMP-DRIVING ATPASE,ARSENITE-STIMULATED ATPASE, GOLGI TO ER TRAFFIC PROTEIN 3,GUIDED ENTRY OF TAIL-ANCHORED PROTEINS 3

Molecule 2 - GOLGI TO ER TRAFFIC PROTEIN 4
	Chains	:	C
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Fragment	:	UNP RESIDUES 1-290
	Gene	:	GET4, YOR164C, O3580
	Mutation	:	YES
	Organism Common	:	BAKER'S YEAST
	Organism Scientific	:	SACCHAROMYCES CEREVISIAE (STRAIN ATCC 204508 / S288C)
	Organism Taxid	:	559292
	Strain	:	ATCC 204508 / S288C
	Synonym	:	GUIDED ENTRY OF TAIL-ANCHORED PROTEINS 4

Molecule 3 - UBIQUITIN-LIKE PROTEIN MDY2
	Chains	:	D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Fragment	:	UNP RESIDUES 1-54
	Gene	:	MDY2, GET5, TMA24, YOL111C
	Organism Common	:	BAKER'S YEAST
	Organism Scientific	:	SACCHAROMYCES CEREVISIAE (STRAIN ATCC 204508 / S288C)
	Organism Taxid	:	559292
	Strain	:	ATCC 204508 / S288C
	Synonym	:	GOLGI TO ER TRAFFIC PROTEIN 5,MATING-DEFICIENT PROTEIN 2, TRANSLATION MACHINERY-ASSOCIATED PROTEIN 24

Molecule 4 - UNKNOWN PROTEIN
	Chains	:	Z
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Organism Scientific	:	SACCHAROMYCES CEREVISIAE
	Organism Taxid	:	4932

		1	2	3	4	5
Asymmetric/Biological Unit	:	A	B	C	D	Z

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (2, 14)

No.	Name	Count	Type	Full Name
1	UNK	13	Mod. Amino Acid
2	ZN	1	Ligand/Ion	ZINC ION

Asymmetric Unit (1, 1)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	CYS A:285 , CYS A:288 , CYS B:285 , CYS B:288	binding site for residue ZN A 401

(no "SS Bond" information available for 5BW8)

Asymmetric/Biological Unit

No.	Residues
1	Gly A:198	-	Pro A:199

(no "SAP(SNP)/Variant" information available for 5BW8)

(no "PROSITE Motif" information available for 5BW8)

(no "Exon" information available for 5BW8)

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:320
                                                                                                                                                                                                                                                                                                                                                                
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhh.....eeeee.....hhhhhhhhhhhhhhhhh....eeeee....hhhhhhhh.......ee......eeeee.hhhhhhhhh.hhhhhh.hhhhhhhhhhhhhhhhhhhhh......eeeee.......hhhhhhhhhhhhhhhhhhhhhh...hhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh....eeeeeeee.hhhhhhhhhhhhhhhhhh.....eeeeeee.hhhhh....hhhhhhhhhhhhhhhhhhhhhh...eeeeee.......hhhhhhhhhhhhhh..hhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5bw8 A   4 TVEPNLHSLITSTTHKWIFVGGKGGVGKTTSSCSIAIQMALSQPNKQFLLISTDPAHNLSDAFGEKFGKDARKVTGMNNLSCMEIDPSAALKDMADLTGSIPGIDEALSFMEVMKHIKRQEQGEGETFDTVIFDTAPTGHTLRFLQLPNTLSKLLEKFGEITNKLGPMLNSFMGAGNVDISGKLNELKANVETIRQQFTDPDLTTFVCVCISEFLSLYETERLIQELISYDMDVNSIIVNQLLFAENDQEHNCKRCQARWKMQKKYLDQIDELYEDFHVVKMPLCAGEIRGLNNLTKFSQFLNKEYNPITDGKVIYELED 352
                                    13        23        33        43        53        63        73        83        93   ||  132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352
                                                                                                                        97|                                                                                                                                                                                                                                 
                                                                                                                        127

Chain B from PDB  Type:PROTEIN  Length:304
                                                                                                                                                                                                                                                                                                                                                
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhh.....eeeee.....hhhhhhhhhhhhhhhhh....eeeee....hhhhhhhh.......ee......eeeee.hhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhh......eeeee.......hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhh....eeeeeeee.hhhhhhhhhhhhhhhhhh.....eeeeeee.hhhhhh...hhhhhhhhhhhhhhhhhhhhhh...eeeeee.......hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5bw8 B   3 LTVEPNLHSLITSTTHKWIFVGGKGGVGKTTSSCSIAIQMALSQPNKQFLLISTDPAHNLSDAFGEKFGKDARKVTGMNNLSCMEIDPSAALKDMNDMASIPGIDEALSFMEVMKHIKRQEQGEGETFDTVIFDTAPTGHTLRFLQLPNTLSKLLEKFNVDISGKLNELKANVETIRQQFTDPDLTTFVCVCISEFLSLYETERLIQELISYDMDVNSIIVNQLLFAENDQEHNCKRCQARWKMQKKYLDQIDELYEDFHVVKMPLCAGEIRGLNNLTKFSQFLNKEYNPITDGKVIYELEDKE 354
                                    12        22        32        42        52        62        72        82        92       132       142       152       162       172       182       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350    
                                                                                                                            101|                                                       190|                                                                                                                                                 
                                                                                                                             132                                                        209

Chain C from PDB  Type:PROTEIN  Length:283
                                                                                                                                                                                                                                                                                                                           
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhh.hhhhhhhhhhh.hhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh..eeeeee..eeeeee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5bw8 C  11 AKLAKTLQRFENKIKAGDYYEAHQTLRTIANRYVRSKSYEHAIELISQGALSFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLVRLIAELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFMLGTHDSMIKYVDLLWDWLCQVDDIEDSTVAEFFSRLVFNYLFISNISFAHESKDIFLERFIEKFHPKYEKIDKNGYEIVFFEDYSDLNFLQLLLITCQTADASYFLNLKNHYLDFSQAYKSELEFLGQEYFNENL 293
                                    20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290

Chain D from PDB  Type:PROTEIN  Length:51
                                                                                   
               SCOP domains --------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhh............hhhhh............... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------- Transcript
                 5bw8 D   3 TSASGPEHEFVSKFLTLATLTEPKLPKSYTKPLKDVTNLGVPLPTLKYKYK  53
                                    12        22        32        42        52

Chain Z from PDB  Type:PROTEIN  Length:13
                                             
               SCOP domains ------------- SCOP domains
               CATH domains ------------- CATH domains
               Pfam domains ------------- Pfam domains
         Sec.struct. author ....hhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------- SAPs(SNPs)
                    PROSITE ------------- PROSITE
                 Transcript ------------- Transcript
                 5bw8 Z   1 xxxxxxxxxxxxx  13
                            ||||||||10|||
                            1-UNK|||10-UNK
                             2-UNK|||11-UNK
                              3-UNK|| 12-UNK
                               4-UNK|  13-UNK
                                5-UNK    
                                 6-UNK   
                                  7-UNK  
                                   8-UNK 
                                    9-UNK

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 5BW8)

(no "CATH Domain" information available for 5BW8)

(no "Pfam Domain" information available for 5BW8)

Asymmetric/Biological Unit(hide GO term definitions)

Asymmetric/Biological Unit
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	Ligands, Modified Residues, Ions
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		ZN	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]

	Sites
		AC1	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
		Gly A:198 - Pro A:199	[ RasMol ]

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	5bw8
		Family and Domain Information	:	ProDom \| SYSTERS
		General Structural Information	:	GlycoscienceDB \| MMDB \| NDB \| OCA \| PDB \| PDBe \| PDBj \| PDBsum \| PDBWiki \| PQS \| PROTEOPEDIA
		Orientation in Membranes	:	OPM
		Protein Surface	:	SURFACE
		Secondary Structure	:	DSSP (structure derived) \| HSSP (homology derived)
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	GET3_YEAS1 \| B3LGZ3
		Comparative Protein Structure Models	:	ModBase
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		Protein-protein Interaction	:	DIP
		Sequence, Family and Domain Information	:	InterPro \| Pfam \| SMART \| UniProtKB/SwissProt
	GET3_YEAST \| Q12154
		Comparative Protein Structure Models	:	ModBase
		Genomic Information	:	Ensembl
		Protein-protein Interaction	:	DIP
		Sequence, Family and Domain Information	:	InterPro \| Pfam \| SMART \| UniProtKB/SwissProt
	GET4_YEAST \| Q12125
		Comparative Protein Structure Models	:	ModBase
		Genomic Information	:	Ensembl
		Protein-protein Interaction	:	DIP
		Sequence, Family and Domain Information	:	InterPro \| Pfam \| SMART \| UniProtKB/SwissProt
	MDY2_YEAST \| Q12285
		Comparative Protein Structure Models	:	ModBase
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		Protein-protein Interaction	:	DIP
		Sequence, Family and Domain Information	:	InterPro \| Pfam \| SMART \| UniProtKB/SwissProt

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	3.6.-.-
		General Enzyme Information	:	BRENDA \| EC-PDB \| Enzyme \| IntEnz
		Pathway	:	KEGG \| MetaCyc

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		Domain Information	:	XDom
		Interatomic Contacts of Structural Units	:	CSU
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	GET3_YEAS1 \| B3LGZ3
		Protein Disorder Prediction	:	DisEMBL \| FoldIndex \| GLOBPLOT (for more information see DisProt)
	GET3_YEAST \| Q12154
		Protein Disorder Prediction	:	DisEMBL \| FoldIndex \| GLOBPLOT (for more information see DisProt)
	GET4_YEAST \| Q12125
		Protein Disorder Prediction	:	DisEMBL \| FoldIndex \| GLOBPLOT (for more information see DisProt)
	MDY2_YEAST \| Q12285
		Protein Disorder Prediction	:	DisEMBL \| FoldIndex \| GLOBPLOT (for more information see DisProt)

UniProtKB/Swiss-Prot
	GET3_YEAS1 \| B3LGZ3	:	5bwk
	GET3_YEAST \| Q12154	:	2woj 3a36 3a37 3b2e 3h84 3idq 3sja 3sjb 3sjc 3sjd 3vlc 3zs8 3zs9 4pwx 4xtr 4xvu 4xwo 5bwk
	GET4_YEAST \| Q12125	:	2wpv 3lku 4pwx 5bwk
	MDY2_YEAST \| Q12285	:	2lnz 2lxa 2lxc 2wpv 3lku 3vej 3zdm 4a20 4asw 4goc 4pwx 5bwk

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 14)

Sites (1, 1)

SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (0, 0)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (32, 57)

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