Loading
PDBj
MenuPDBj@FacebookPDBj@X(formerly Twitter)PDBj@BlueSkyPDBj@YouTubewwPDB FoundationwwPDBDonate
RCSB PDBPDBeBMRBAdv. SearchSearch help

1YM4

Crystal structure of human beta secretase complexed with NVP-AMK640

Functional Information from GO Data
ChainGOidnamespacecontents
A0004190molecular_functionaspartic-type endopeptidase activity
A0006508biological_processproteolysis
A0016020cellular_componentmembrane
B0004190molecular_functionaspartic-type endopeptidase activity
B0006508biological_processproteolysis
B0016020cellular_componentmembrane
C0004190molecular_functionaspartic-type endopeptidase activity
C0006508biological_processproteolysis
C0016020cellular_componentmembrane
Functional Information from PDB Data
site_idAC1
Number of Residues23
DetailsBINDING SITE FOR CHAIN X OF NVP-AMK640 INHIBITOR
ChainResidue
AGLY11
AASP228
AGLY230
ATHR231
ATHR232
AARG235
AARG307
ALYS321
AHOH1028
AHOH1090
XHOH1012
AASP32
XHOH1091
XHOH1165
XHOH1172
XHOH1192
AGLY34
ATYR71
ATHR72
AGLN73
AILE110
AARG128
ATYR198

site_idAC2
Number of Residues22
DetailsBINDING SITE FOR CHAIN Y OF NVP-AMK640 INHIBITOR
ChainResidue
BGLY11
BGLN12
BGLY13
BASP32
BGLY34
BTYR71
BTHR72
BGLN73
BILE110
BTYR198
BASP228
BGLY230
BTHR231
BTHR232
BARG235
BARG307
BASP311
BALA313
BHOH2026
BHOH2062
YHOH2035
YHOH2139

site_idAC3
Number of Residues19
DetailsBINDING SITE FOR CHAIN Z OF NVP-AMK640 INHIBITOR
ChainResidue
CGLY11
CGLN12
CLEU30
CASP32
CPRO70
CTYR71
CTHR72
CGLN73
CILE110
CTYR198
CASP228
CGLY230
CTHR231
CTHR232
CARG235
CARG307
CHOH3003
ZHOH3076
ZHOH3094

Functional Information from PROSITE/UniProt
site_idPS00141
Number of Residues12
DetailsASP_PROTEASE Eukaryotic and viral aspartyl proteases active site. ILVDTGSSNFAV
ChainResidueDetails
AILE29-VAL40

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues6
DetailsActive site: {"evidences":[{"source":"PROSITE-ProRule","id":"PRU10094","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails

site_idSWS_FT_FI2
Number of Residues21
DetailsModified residue: {"description":"N6-acetyllysine","evidences":[{"source":"PubMed","id":"17425515","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"19011241","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails

site_idSWS_FT_FI3
Number of Residues9
DetailsGlycosylation: {"description":"N-linked (GlcNAc...) asparagine","evidences":[{"evidenceCode":"ECO:0000255"}]}
ChainResidueDetails

Catalytic Information from CSA
site_idCSA1
Number of Residues4
DetailsAnnotated By Reference To The Literature 1am5
ChainResidueDetails
ATHR231
AASP228
ASER35
AASP32

site_idCSA10
Number of Residues4
DetailsAnnotated By Reference To The Literature 1am5
ChainResidueDetails
AASP228
ASER35
ATYR71
AASP32

site_idCSA11
Number of Residues4
DetailsAnnotated By Reference To The Literature 1am5
ChainResidueDetails
BASP228
BSER35
BTYR71
BASP32

site_idCSA12
Number of Residues4
DetailsAnnotated By Reference To The Literature 1am5
ChainResidueDetails
CASP228
CSER35
CTYR71
CASP32

site_idCSA13
Number of Residues4
DetailsAnnotated By Reference To The Literature 1am5
ChainResidueDetails
ATHR231
AASP228
AASP32
ATHR33

site_idCSA14
Number of Residues4
DetailsAnnotated By Reference To The Literature 1am5
ChainResidueDetails
BTHR231
BASP228
BASP32
BTHR33

site_idCSA15
Number of Residues4
DetailsAnnotated By Reference To The Literature 1am5
ChainResidueDetails
CTHR231
CASP228
CASP32
CTHR33

site_idCSA16
Number of Residues2
DetailsAnnotated By Reference To The Literature 1am5
ChainResidueDetails
AASP228
AASP32

site_idCSA17
Number of Residues2
DetailsAnnotated By Reference To The Literature 1am5
ChainResidueDetails
BASP228
BASP32

site_idCSA18
Number of Residues2
DetailsAnnotated By Reference To The Literature 1am5
ChainResidueDetails
CASP228
CASP32

site_idCSA2
Number of Residues4
DetailsAnnotated By Reference To The Literature 1am5
ChainResidueDetails
BTHR231
BASP228
BSER35
BASP32

site_idCSA3
Number of Residues4
DetailsAnnotated By Reference To The Literature 1am5
ChainResidueDetails
CTHR231
CASP228
CSER35
CASP32

site_idCSA4
Number of Residues4
DetailsAnnotated By Reference To The Literature 1am5
ChainResidueDetails
AASP228
ASER229
AASP32
ATHR33

site_idCSA5
Number of Residues4
DetailsAnnotated By Reference To The Literature 1am5
ChainResidueDetails
BASP228
BSER229
BASP32
BTHR33

site_idCSA6
Number of Residues4
DetailsAnnotated By Reference To The Literature 1am5
ChainResidueDetails
CASP228
CSER229
CASP32
CTHR33

site_idCSA7
Number of Residues3
DetailsAnnotated By Reference To The Literature 1am5
ChainResidueDetails
AASP228
ASER35
AASP32

site_idCSA8
Number of Residues3
DetailsAnnotated By Reference To The Literature 1am5
ChainResidueDetails
BASP228
BSER35
BASP32

site_idCSA9
Number of Residues3
DetailsAnnotated By Reference To The Literature 1am5
ChainResidueDetails
CASP228
CSER35
CASP32

239149

PDB entries from 2025-07-23

PDB statisticsPDBj update infoContact PDBjnumon