Show PDB file:   
         Plain Text   HTML   (compressed file size)
QuickSearch:   
by PDB,NDB,UniProt,PROSITE Code or Search Term(s)  
(-)Asymmetric Unit
(-)Asym. Unit - sites
(-)Biological Unit 1
(-)Biol. Unit 1 - sites
(-)Biological Unit 2
collapse expand < >
Image Asymmetric Unit
Asymmetric Unit  (Jmol Viewer)
Image Asym. Unit - sites
Asym. Unit - sites  (Jmol Viewer)
Image Biological Unit 1
Biological Unit 1  (Jmol Viewer)
Image Biol. Unit 1 - sites
Biol. Unit 1 - sites  (Jmol Viewer)
Image Biological Unit 2
Biological Unit 2  (Jmol Viewer)

(-) Description

Title :  BACE2 MUTANT APO STRUCTURE
 
Authors :  D. W. Banner, A. Kuglstatter, J. Benz, M. Stihle, A. Ruf
Date :  23 Jan 13  (Deposition) - 29 May 13  (Release) - 05 Jun 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  D. W. Banner, B. Gsell, J. Benz, J. Bertschinger, D. Burger, S. Brack, S. Cuppuleri, M. Debulpaep, A. Gast, D. Grabulovski, M. Hennig, H. Hilpert, W. Huber, A. Kuglstatter, E. Kusznir, T. Laeremans, H. Matile, C. Miscenic, A. Rufer, D. Schlatter, J. Steyeart, M. Stihle R. Thoma, M. Weber, A. Ruf
Mapping The Conformational Space Accessible To Bace2 Using Surface Mutants And Co-Crystals With Fab-Fragments, Fynomers, And Xaperones
Acta Crystallogr. , Sect. D V. 69 1124 2013
PubMed-ID: 23695257  |  Reference-DOI: 10.1107/S0907444913006574

(-) Compounds

Molecule 1 - BETA-SECRETASE 2
    ChainsA, B
    EC Number3.4.23.45
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System StrainBL21(DE3)
    Expression System Taxid469008
    FragmentEXTRACELLULAR, RESIDUES 75-460
    MutationYES
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymASPARTIC-LIKE PROTEASE 56 KDA, ASPARTYL PROTEASE 1, ASP1, ASP 1, BETA-SITE AMYLOID PRECURSOR PROTEIN CLEAVING ENZYME 2, BETA-SITE APP CLEAVING ENZYME 2, DOWN REGION ASPARTIC PROTEASE, DRAP, MEMAPSIN-1, MEMBRANE-ASSOCIATED ASPARTIC PROTEASE 1, THETA-SECRETASE, BACE2

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit AB
Biological Unit 1 (1x)A 
Biological Unit 2 (1x) B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 1)

Asymmetric Unit (1, 1)
No.NameCountTypeFull Name
1B3P1Ligand/Ion2-[3-(2-HYDROXY-1,1-DIHYDROXYMETHYL-ETHYLAMINO)-PROPYLAMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1B3P1Ligand/Ion2-[3-(2-HYDROXY-1,1-DIHYDROXYMETHYL-ETHYLAMINO)-PROPYLAMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1B3P-1Ligand/Ion2-[3-(2-HYDROXY-1,1-DIHYDROXYMETHYL-ETHYLAMINO)-PROPYLAMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELEU A:46 , ASP A:48 , PHE A:124 , ILE A:134 , TYR A:211 , GLY A:243 , ARG A:248 , ALA A:342 , HOH A:2021 , HOH A:2023 , HOH A:2073 , HOH A:2093 , HOH A:2156 , HOH A:2157BINDING SITE FOR RESIDUE B3P A1000

(-) SS Bonds  (6, 6)

Asymmetric Unit
No.Residues
1A:171 -A:371
2A:230 -A:395
3A:282 -A:331
4B:171 -B:371
5B:230 -B:395
6B:282 -B:331

(-) Cis Peptide Bonds  (6, 6)

Asymmetric Unit
No.Residues
1Thr A:38 -Pro A:39
2Lys A:144 -Pro A:145
3Gly A:384 -Pro A:385
4Thr B:38 -Pro B:39
5Lys B:144 -Pro B:145
6Gly B:384 -Pro B:385

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (2, 6)

Asymmetric Unit (2, 6)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1PEPTIDASE_A1PS51767 Peptidase family A1 domain profile.BACE2_HUMAN92-429
 
  2A:30-367
B:30-367
2ASP_PROTEASEPS00141 Eukaryotic and viral aspartyl proteases active site.BACE2_HUMAN107-118
 
300-311
 
  4A:45-56
B:45-56
A:238-249
B:238-249
Biological Unit 1 (2, 3)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1PEPTIDASE_A1PS51767 Peptidase family A1 domain profile.BACE2_HUMAN92-429
 
  1A:30-367
-
2ASP_PROTEASEPS00141 Eukaryotic and viral aspartyl proteases active site.BACE2_HUMAN107-118
 
300-311
 
  2A:45-56
-
A:238-249
-
Biological Unit 2 (2, 3)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1PEPTIDASE_A1PS51767 Peptidase family A1 domain profile.BACE2_HUMAN92-429
 
  1-
B:30-367
2ASP_PROTEASEPS00141 Eukaryotic and viral aspartyl proteases active site.BACE2_HUMAN107-118
 
300-311
 
  2-
B:45-56
-
B:238-249

(-) Exons   (9, 18)

Asymmetric Unit (9, 18)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1ENST000003303331ENSE00001304779chr21:42539728-42540502775BACE2_HUMAN1-1041042A:14-42
B:16-42
29
27
1.3aENST000003303333aENSE00001294412chr21:42598193-4259828189BACE2_HUMAN105-134302A:43-72
B:43-72
30
30
1.6ENST000003303336ENSE00001313528chr21:42609440-42609656217BACE2_HUMAN134-206732A:72-144
B:72-144
73
73
1.7dENST000003303337dENSE00001293136chr21:42613746-42613874129BACE2_HUMAN207-249432A:145-187 (gaps)
B:145-187 (gaps)
43
43
1.8ENST000003303338ENSE00001315110chr21:42615303-42615437135BACE2_HUMAN250-294452A:188-232
B:188-232
45
45
1.9aENST000003303339aENSE00001299298chr21:42617889-42617990102BACE2_HUMAN295-328342A:233-266
B:233-265
34
33
1.10ENST0000033033310ENSE00001319314chr21:42622679-42622828150BACE2_HUMAN329-378502A:267-316 (gaps)
B:271-316 (gaps)
50
46
1.12ENST0000033033312ENSE00001297180chr21:42629085-42629253169BACE2_HUMAN379-435572A:317-373 (gaps)
B:317-373 (gaps)
57
57
1.13cENST0000033033313cENSE00001820917chr21:42647298-426485241227BACE2_HUMAN435-518842A:373-397
B:373-397
25
25

(-) Sequences/Alignments

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:364
 aligned with BACE2_HUMAN | Q9Y5Z0 from UniProtKB/Swiss-Prot  Length:518

    Alignment length:384
                                    85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455    
          BACE2_HUMAN    76 NFLAMVDNLQGDSGRGYYLEMLIGTPPQKLQILVDTGSSNFAVAGTPHSYIDTYFDTERSSTYRSKGFDVTVKYTQGSWTGFVGEDLVTIPKGFNTSFLVNIATIFESENFFLPGIKWNGILGLAYATLAKPSSSLETFFDSLVTQANIPNVFSMQMCGAGLPVAGSGTNGGSLVLGGIEPSLYKGDIWYTPIKEEWYYQIEILKLEIGGQSLNLDCREYNADKAIVDSGTTLLRLPQKVFDAVVEAVARASLIPEFSDGFWTGSQLACWTNSETPWSYFPKISIYLRDENSSRSFRITILPQLYIQPMMGAGLNYECYRFGISPSTNALVIGATVMEGFYVIFDRAQKRVGFAASPCAEIAGAAVSEISGPFSTEDVASNCVP 459
               SCOP domains d3zkga_ A: automated matches                                                                                                                                                                                                                                                                                                                                                                     SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhh..........eeeeeeee................................hhhhh...eeeeeeeeee....eeeeeeeeeeeee...................................hhhhh.......hhhhhhhhhhh.............--------..........hhhhh..................eeeeee..ee...hhhhhhh.eeee......eeeehhhhhhhhhhhhhhh..--.hhhhhh..eeee.----hhhhhh..eeeeee.....eeeeeeehhhhheee..------.eeee.eeee..eeeehhhhhh.....................ee..ee.eeeeeeee.......... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                PROSITE (1) ----------------PEPTIDASE_A1  PDB: A:30-367 UniProt: 92-429                                                                                                                                                                                                                                                                                                       ------------------------------ PROSITE (1)
                PROSITE (2) -------------------------------ASP_PROTEASE-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ASP_PROTEASE---------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
           Transcript 1 (1) Exon 1.1  PDB: A:14-42       Exon 1.3a  PDB: A:43-72       ------------------------------------------------------------------------Exon 1.7d  PDB: A:145-187 (gaps)           Exon 1.8  PDB: A:188-232 UniProt: 250-294    Exon 1.9a  PDB: A:233-266         Exon 1.10  PDB: A:267-316 (gaps) UniProt: 329-378 Exon 1.12  PDB: A:317-373 (gaps) UniProt: 379-435        ------------------------ Transcript 1 (1)
           Transcript 1 (2) ----------------------------------------------------------Exon 1.6  PDB: A:72-144 UniProt: 134-206                                 ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------Exon 1.13c  PDB: A:373-39 Transcript 1 (2)
                 3zkg A  14 NFLAMVDNLQGDSGRGYYLEMLIGTPPQKLQILVDTGSSNFAVAGTPHSYIDTYFDTERSSTYRSKGFDVTVKYTQGSWTGFVGEDLVTIPKGFNTSFLVNIATIFESENFFLPGIKWNGILGLAYATLAKPSSSLETFFDSLVTQANIPNVFSMQMCGAG--------NGGSLVLGGIEPSLYKGDIWYTPIKEEWYYQIEILKLEIGGQSLNLDCREYNADKAIVDSGTTLLRLPQKVFDAVVEAVARASLI--FSDGFWTGSQLACW----TPWSYFPKISIYLRDENSSRSFRITILPQLYIQPMM------ECYRFGISPSTNALVIGATVMEGFYVIFDRAQKRVGFAASPCAEIAGAAVSEISGPFSTEDVASNCVP 397
                                    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       393    
                                                                                                                                                                                          174      183                                                                                 267  |          283  288                                323    330                                                                   
                                                                                                                                                                                                                                                                                          270                                                                                                                               

Chain B from PDB  Type:PROTEIN  Length:359
 aligned with BACE2_HUMAN | Q9Y5Z0 from UniProtKB/Swiss-Prot  Length:518

    Alignment length:382
                                    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       457  
          BACE2_HUMAN    78 LAMVDNLQGDSGRGYYLEMLIGTPPQKLQILVDTGSSNFAVAGTPHSYIDTYFDTERSSTYRSKGFDVTVKYTQGSWTGFVGEDLVTIPKGFNTSFLVNIATIFESENFFLPGIKWNGILGLAYATLAKPSSSLETFFDSLVTQANIPNVFSMQMCGAGLPVAGSGTNGGSLVLGGIEPSLYKGDIWYTPIKEEWYYQIEILKLEIGGQSLNLDCREYNADKAIVDSGTTLLRLPQKVFDAVVEAVARASLIPEFSDGFWTGSQLACWTNSETPWSYFPKISIYLRDENSSRSFRITILPQLYIQPMMGAGLNYECYRFGISPSTNALVIGATVMEGFYVIFDRAQKRVGFAASPCAEIAGAAVSEISGPFSTEDVASNCVP 459
               SCOP domains d3zkgb_ B: automated matches                                                                                                                                                                                                                                                                                                                                                                   SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeee...eeeeeeee....eeeeeeee.....eeee...........hhhhh.................eeeeeeeeeeee........eeeeeeeeeeee..........eeee..hhhhh.......hhhhhhhhhhh...eeeeee...---------..eeeee...hhhhheeeeeeee.......ee.eeeeee.......hhhhh...eeee......eeeehhhhhhhhhhhhh..-----........eeee.----hhhhhh..eeeeee.....eeeeeeehhhhheee...-----.eeee.eeee..eeeehhhhhh.eeeeee....eeeeee....ee..ee.eeeeeeee.......... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) --------------PEPTIDASE_A1  PDB: B:30-367 UniProt: 92-429                                                                                                                                                                                                                                                                                                       ------------------------------ PROSITE (1)
                PROSITE (2) -----------------------------ASP_PROTEASE-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ASP_PROTEASE---------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
           Transcript 1 (1) Exon 1.1  PDB: B:16-42     Exon 1.3a  PDB: B:43-72       ------------------------------------------------------------------------Exon 1.7d  PDB: B:145-187 (gaps)           Exon 1.8  PDB: B:188-232 UniProt: 250-294    Exon 1.9a  PDB: B:233-265         Exon 1.10  PDB: B:271-316 (gaps) UniProt: 329-378 Exon 1.12  PDB: B:317-373 (gaps) UniProt: 379-435        ------------------------ Transcript 1 (1)
           Transcript 1 (2) --------------------------------------------------------Exon 1.6  PDB: B:72-144 UniProt: 134-206                                 ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------Exon 1.13c  PDB: B:373-39 Transcript 1 (2)
                 3zkg B  16 LAMVDNLQGDSGRGYYLEMLIGTPPQKLQILVDTGSSNFAVAGTPHSYIDTYFDTERSSTYRSKGFDVTVKYTQGSWTGFVGEDLVTIPKGFNTSFLVNIATIFESENFFLPGIKWNGILGLAYATLAKPSSSLETFFDSLVTQANIPNVFSMQMCGA---------NGGSLVLGGIEPSLYKGDIWYTPIKEEWYYQIEILKLEIGGQSLNLDCREYNADKAIVDSGTTLLRLPQKVFDAVVEAVARAS-----SDGFWTGSQLACW----TPWSYFPKISIYLRDENSSRSFRITILPQLYIQPMMG-----ECYRFGISPSTNALVIGATVMEGFYVIFDRAQKRVGFAASPCAEIAGAAVSEISGPFSTEDVASNCVP 397
                                    25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       | -       185       195       205       215       225       235       245       255       265     | 275       | -  |    295       305       315        |-    |  335       345       355       365       375       385       395  
                                                                                                                                                                                       173       183                                                                               265   271         283  288                                 324   330                                                                   

   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 '|'

 Classification and Annotation

(-) SCOP Domains  (1, 2)

Asymmetric Unit

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (16, 16)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (BACE2_HUMAN | Q9Y5Z0)
molecular function
    GO:0001540    amyloid-beta binding    Interacting selectively and non-covalently with amyloid-beta peptide/protein and/or its precursor.
    GO:0004190    aspartic-type endopeptidase activity    Catalysis of the hydrolysis of internal, alpha-peptide bonds in a polypeptide chain by a mechanism in which a water molecule bound by the side chains of aspartic residues at the active center acts as a nucleophile.
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0008233    peptidase activity    Catalysis of the hydrolysis of a peptide bond. A peptide bond is a covalent bond formed when the carbon atom from the carboxyl group of one amino acid shares electrons with the nitrogen atom from the amino group of a second amino acid.
biological process
    GO:0050435    amyloid-beta metabolic process    The chemical reactions and pathways involving amyloid-beta, a glycoprotein associated with Alzheimer's disease, and its precursor, amyloid precursor protein (APP).
    GO:0006509    membrane protein ectodomain proteolysis    The proteolytic cleavage of transmembrane proteins and release of their ectodomain (extracellular domain).
    GO:0042985    negative regulation of amyloid precursor protein biosynthetic process    Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of amyloid precursor protein (APP), the precursor of amyloid-beta.
    GO:0016486    peptide hormone processing    The generation of a mature peptide hormone by posttranslational processing of a prohormone.
    GO:0030163    protein catabolic process    The chemical reactions and pathways resulting in the breakdown of a protein by the destruction of the native, active configuration, with or without the hydrolysis of peptide bonds.
    GO:0006508    proteolysis    The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.
cellular component
    GO:0005794    Golgi apparatus    A compound membranous cytoplasmic organelle of eukaryotic cells, consisting of flattened, ribosome-free vesicles arranged in a more or less regular stack. The Golgi apparatus differs from the endoplasmic reticulum in often having slightly thicker membranes, appearing in sections as a characteristic shallow semicircle so that the convex side (cis or entry face) abuts the endoplasmic reticulum, secretory vesicles emerging from the concave side (trans or exit face). In vertebrate cells there is usually one such organelle, while in invertebrates and plants, where they are known usually as dictyosomes, there may be several scattered in the cytoplasm. The Golgi apparatus processes proteins produced on the ribosomes of the rough endoplasmic reticulum; such processing includes modification of the core oligosaccharides of glycoproteins, and the sorting and packaging of proteins for transport to a variety of cellular locations. Three different regions of the Golgi are now recognized both in terms of structure and function: cis, in the vicinity of the cis face, trans, in the vicinity of the trans face, and medial, lying between the cis and trans regions.
    GO:0009986    cell surface    The external part of the cell wall and/or plasma membrane.
    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:0005768    endosome    A vacuole to which materials ingested by endocytosis are delivered.
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

 Visualization

(-) Interactive Views

Asymmetric Unit
  Complete Structure
    Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
    WebMol | AstexViewer[tm]@PDBe
(Java Applets, require no local installation except for Java; loading may be slow)
    STRAP
(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    RasMol
(require local installation)
    Molscript (VRML)
(requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)
 
  Ligands, Modified Residues, Ions
    B3P  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
 
  Sites
    AC1  [ RasMol ]  +environment [ RasMol ]
 
  Cis Peptide Bonds
    Gly A:384 - Pro A:385   [ RasMol ]  
    Gly B:384 - Pro B:385   [ RasMol ]  
    Lys A:144 - Pro A:145   [ RasMol ]  
    Lys B:144 - Pro B:145   [ RasMol ]  
    Thr A:38 - Pro A:39   [ RasMol ]  
    Thr B:38 - Pro B:39   [ RasMol ]  
 
Biological Units
  Complete Structure
    Biological Unit 1  [ Jena3D ]
    Biological Unit 2  [ Jena3D ]

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
Molscript
  protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick

 Databases and Analysis Tools

(-) Databases

Access by PDB/NDB ID
  3zkg
    Family and Domain InformationProDom | SYSTERS
    General Structural InformationGlycoscienceDB | MMDB | NDB | OCA | PDB | PDBe | PDBj | PDBsum | PDBWiki | PQS | PROTEOPEDIA
    Orientation in MembranesOPM
    Protein SurfaceSURFACE
    Secondary StructureDSSP (structure derived) | HSSP (homology derived)
    Structural GenomicsGeneCensus
    Structural NeighboursCE | VAST
    Structure ClassificationCATH | Dali | SCOP
    Validation and Original DataBMRB Data View | BMRB Restraints Grid | EDS | PROCHECK | RECOORD | WHAT_CHECK
 
Access by UniProt ID/Accession number
  BACE2_HUMAN | Q9Y5Z0
    Comparative Protein Structure ModelsModBase
    Genomic InformationEnsembl
    Protein-protein InteractionDIP
    Sequence, Family and Domain InformationInterPro | Pfam | SMART | UniProtKB/SwissProt
 
Access by Enzyme Classificator   (EC Number)
  3.4.23.45
    General Enzyme InformationBRENDA | EC-PDB | Enzyme | IntEnz
    PathwayKEGG | MetaCyc
 
Access by Disease Identifier   (MIM ID)
  (no 'MIM ID' available)
    Disease InformationOMIM
 
Access by GenAge ID
  (no 'GenAge ID' available)
    Age Related InformationGenAge

(-) Analysis Tools

Access by PDB/NDB ID
    Domain InformationXDom
    Interatomic Contacts of Structural UnitsCSU
    Ligand-protein ContactsLPC
    Protein CavitiescastP
    Sequence and Secondary StructurePDBCartoon
    Structure AlignmentSTRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    Structure and Sequence BrowserSTING
 
Access by UniProt ID/Accession number
  BACE2_HUMAN | Q9Y5Z0
    Protein Disorder PredictionDisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        BACE2_HUMAN | Q9Y5Z02ewy 3zki 3zkm 3zkn 3zkq 3zks 3zkx 3zl7 3zlq 4bel 4bfb

(-) Related Entries Specified in the PDB File

3zki BACE2 MUTANT STRUCTURE WITH LIGAND
3zkm BACE2 FAB COMPLEX
3zkn BACE2 FAB INHIBITOR COMPLEX
3zkq BACE2 XAPERONE COMPLEX
3zks BACE2 XAPERONE COMPLEX WITH INHIBITOR
3zkx TERNARY BACE2 XAPERONE COMPLEX
3zl7 BACE2 FYNOMER COMPLEX
3zov CRYSTAL STRUCTURE OF BACE-1 IN COMPLEX WITH CHEMICAL LIGAND