4FS4 - JenaLib

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Title :   STRUCTURE OF BACE BOUND TO (S)-4-(3'-METHOXY-[1,1'-BIPHENYL]-3-YL)-1, 4-DIMETHYL-6-OXOTETRAHYDROPYRIMIDIN-2(1H)-IMINIUM

Authors :   C. Strickland, A. Stamford

Date :   26 Jun 12 (Deposition) - 10 Oct 12 (Release) - 23 Jul 14 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.74

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

Keywords :   Bace1, Alzheimers, Hydrolase-Hydrolase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. R. Kaller, S. S. Harried, B. Albrecht, P. Amarante, S. Babu-Khan, M. D. Bartberger, J. Brown, R. Brown, K. Chen, Y. Cheng, M. Citron, M. D. Croghan, R. Graceffa, D. Hickman, T. Judd, C. Kriemen, D. La, V. Li P. Lopez, Y. Luo, C. Masse, H. Monenschein, T. Nguyen, L. D. Pennington T. S. Miguel, E. A. Sickmier, R. C. Wahl, M. M. Weiss, P. H. Wen, T. Williamson, S. Wood, M. Xue, B. Yang, J. Zhang, V. Patel, W. Zhong, S. Hitchcock
A Potent And Orally Efficacious, Hydroxyethylamine-Based Inhibitor Of Beta-Secretase.
Acs Med Chem Lett V. 3 886 2012
PubMed-ID: 24900403 | Reference-DOI: 10.1021/ML3000148

Molecule 1 - BETA-SECRETASE 1
	Chains	:	A, B
	EC Number	:	3.4.23.46
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	511693
	Expression System Vector Type	:	PET11A
	Gene	:	BACE, BACE1, KIAA1149
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	ASPARTYL PROTEASE 2, ASP2, ASP 2, BETA-SITE AMYLOID PRECURSOR PROTEIN CLEAVING ENZYME 1, BETA-SITE APP CLEAVING ENZYME 1, MEMAPSIN-2, MEMBRANE-ASSOCIATED ASPARTIC PROTEASE 2

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 4)

No.	Name	Count	Type	Full Name
1	H24	2	Ligand/Ion	(6S)-2-AMINO-6-(3'-METHOXYBIPHENYL-3-YL)-3,6-DIMETHYL-5,6-DIHYDROPYRIMIDIN-4(3H)-ONE
2	TLA	2	Ligand/Ion	L(+)-TARTARIC ACID

Biological Unit 1 (2, 4)

No.	Name	Count	Type	Full Name
1	H24	2	Ligand/Ion	(6S)-2-AMINO-6-(3'-METHOXYBIPHENYL-3-YL)-3,6-DIMETHYL-5,6-DIHYDROPYRIMIDIN-4(3H)-ONE
2	TLA	2	Ligand/Ion	L(+)-TARTARIC ACID

Biological Unit 2 (2, 2)

No.	Name	Count	Type	Full Name
1	H24	1	Ligand/Ion	(6S)-2-AMINO-6-(3'-METHOXYBIPHENYL-3-YL)-3,6-DIMETHYL-5,6-DIHYDROPYRIMIDIN-4(3H)-ONE
2	TLA	1	Ligand/Ion	L(+)-TARTARIC ACID

Biological Unit 3 (2, 2)

No.	Name	Count	Type	Full Name
1	H24	1	Ligand/Ion	(6S)-2-AMINO-6-(3'-METHOXYBIPHENYL-3-YL)-3,6-DIMETHYL-5,6-DIHYDROPYRIMIDIN-4(3H)-ONE
2	TLA	1	Ligand/Ion	L(+)-TARTARIC ACID

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	SER A:71 , GLY A:72 , GLN A:73 , GLY A:74 , ASP A:93 , TYR A:132 , PHE A:169 , ILE A:171 , ILE A:179 , ASP A:289 , SER A:290 , GLY A:291 , THR A:292 , THR A:293 , HOH A:1009	BINDING SITE FOR RESIDUE H24 A 501
2	AC2	SOFTWARE	ARG A:68 , ASN A:89 , HIS A:110 , ARG A:111 , ASN A:175 , HOH A:720 , HOH A:778 , HOH A:792 , HOH A:943	BINDING SITE FOR RESIDUE TLA A 502
3	AC3	SOFTWARE	SER B:71 , GLY B:72 , GLN B:73 , GLY B:74 , ASP B:93 , TYR B:132 , PHE B:169 , ILE B:171 , ILE B:179 , ASP B:289 , SER B:290 , GLY B:291 , THR B:292 , THR B:293	BINDING SITE FOR RESIDUE H24 B 501
4	AC4	SOFTWARE	ARG B:68 , ASN B:89 , HIS B:110 , ARG B:111 , ASN B:175 , HOH B:703 , HOH B:766 , HOH B:851	BINDING SITE FOR RESIDUE TLA B 502

Asymmetric Unit

No.	Residues
1	A:216	-	A:420
2	A:278	-	A:443
3	A:330	-	A:380
4	B:216	-	B:420
5	B:278	-	B:443
6	B:330	-	B:380

Asymmetric Unit

No.	Residues
1	Ser A:83	-	Pro A:84
2	Arg A:189	-	Pro A:190
3	Tyr A:283	-	Asp A:284
4	Gly A:433	-	Pro A:434
5	Ser B:83	-	Pro B:84
6	Arg B:189	-	Pro B:190
7	Tyr B:283	-	Asp B:284
8	Gly B:433	-	Pro B:434

(no "SAP(SNP)/Variant" information available for 4FS4)

(no "PROSITE Motif" information available for 4FS4)

(no "Exon" information available for 4FS4)

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:390
                                                                                                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains d4fs4a_ A: beta-secretase (memapsin)                                                                                                                                                                                                                                                                                                                                                                   SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .........eeee...eeeeeeee....eeeeeeee.....eeee...........hhhhh...eeeeeeeeee....eeeeeeeeeeee.......eeeeeeeeeeeee..........eeee..hhhhh.......hhhhhhhhhh.....eeeee.......hhhhhhhh..eeeee...hhh.eeeeeeeee.......ee.eeeeee..ee...hhhhhhh..eee......eeeehhhhhhhhhhhhhhh.....hhhhhh....eee.....hhhhh..eeeeee.....eeeeeeehhhhheeee........eeeee.eeee...eeehhhhhh.eeeeee....eeeeeee...........eeeeeee..hhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4fs4 A  58 GSFVEMVDNLRGKSGQGYYVEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGKWEGELGTDLVSIPHGPNVTVRANIAAITESDKFFINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLASVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVDSGTTNLRLPKKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNIFPVISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVIMEGFYVVFDRARKRIGFAVSACHVHDEFRTAAVEGPFVTLDMEDCGYNI 447
                                    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       427       437       447

Chain B from PDB  Type:PROTEIN  Length:389
                                                                                                                                                                                                                                                                                                                                                                                                                                     
               SCOP domains d4fs4b_ B: beta-secretase (memapsin)                                                                                                                                                                                                                                                                                                                                                                  SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........eeee...eeeeeeee....eeeeeeee.....eeee...........hhhhh...eeeeeeeeeee..eeeeeeeeeeeee........eeeeeeeeeeee..........eeee..hhhhh.......hhhhhhhhhh.....eeeee.......hhhhhhhh..eeeee...hhh.eeeeeeeee.......ee.eeeeee..ee...hhhhhh...eee......eeeehhhhhhhhhhhhhhh.....hhhhhh....eee.....hhhhh..eeeeee.....eeeeeeehhhhheeee........eeeee.eeee...eeehhhhhh.eeeeee....eeeeeee...........eeeeeee..hhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fs4 B  58 GSFVEMVDNLRGKSGQGYYVEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGKWEGELGTDLVSIPHGPNVTVRANIAAITESDKFFINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLASVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVDSGTTNLRLPKKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNIFPVISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVIMEGFYVVFDRARKRIGFAVSACHVHDEFRTAAVEGPFVTLDMEDCGYN 446
                                    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       427       437

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(

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Superfamilies( (-)

)

Families(

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Protein Domains( (-)

)

Organisms( (-)

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Class: All beta proteins (24004)

Fold: Acid proteases (1120)

Superfamily: Acid proteases (1120)

Family: Pepsin-like (505)

Protein domain: beta-secretase (memapsin) (237)

Human (Homo sapiens) [TaxId: 9606] (237)

1a	d4fs4a_	A:
1b	d4fs4b_	B:

(no "CATH Domain" information available for 4FS4)

(no "Pfam Domain" information available for 4FS4)

Asymmetric Unit(hide GO term definitions)

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	Cis Peptide Bonds
		Arg A:189 - Pro A:190	[ RasMol ]
		Arg B:189 - Pro B:190	[ RasMol ]
		Gly A:433 - Pro A:434	[ RasMol ]
		Gly B:433 - Pro B:434	[ RasMol ]
		Ser A:83 - Pro A:84	[ RasMol ]
		Ser B:83 - Pro B:84	[ RasMol ]
		Tyr A:283 - Asp A:284	[ RasMol ]
		Tyr B:283 - Asp B:284	[ RasMol ]

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	4fs4
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Description

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Ligands, Modified Residues, Ions (2, 4)

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SS Bonds (6, 6)

Cis Peptide Bonds (8, 8)

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