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SummaryStructural detailsExperimental detailsFunctional detailsSequence NeighborHistoryDownloads

5Y1K

Crystal structure of Plasmodium falciparum aminopeptidase N in complex with (S)-2-(3-(2-chlorobenzyl)ureido)-N-hydroxy-4-methylpentanamide

Functional Information from GO Data
ChainGOidnamespacecontents
A0006508biological_processproteolysis
A0008237molecular_functionmetallopeptidase activity
A0008270molecular_functionzinc ion binding
Functional Information from PDB Data
site_idAC1
Number of Residues4
Detailsbinding site for residue ZN A 1101
ChainResidue
AHIS496
AHIS500
AGLU519
AB1B1111
site_idAC2
Number of Residues6
Detailsbinding site for residue MG A 1102
ChainResidue
AHOH1652
AGLY250
AHOH1278
AHOH1292
AHOH1584
AHOH1588
site_idAC3
Number of Residues7
Detailsbinding site for residue MG A 1103
ChainResidue
AGLU526
AGOL1107
AHOH1207
AHOH1238
AHOH1410
AHOH1585
AHOH1623
site_idAC4
Number of Residues6
Detailsbinding site for residue MG A 1104
ChainResidue
AHOH1300
AHOH1406
AHOH1442
AHOH1638
AHOH1655
AHOH1658
site_idAC5
Number of Residues8
Detailsbinding site for residue GOL A 1105
ChainResidue
AMET533
ATHR534
ALYS535
AHIS886
AVAL887
AASP888
APHE889
AASP890
site_idAC6
Number of Residues5
Detailsbinding site for residue GOL A 1106
ChainResidue
AGLU572
AASN573
ATYR575
ATHR1037
AGLN1038
site_idAC7
Number of Residues9
Detailsbinding site for residue GOL A 1107
ChainResidue
AALA461
AARG489
AVAL493
AHIS496
AGLU497
AMG1103
AB1B1111
AHOH1207
AHOH1238
site_idAC8
Number of Residues5
Detailsbinding site for residue GOL A 1108
ChainResidue
ATYR853
ASER903
ALYS907
AHOH1229
AHOH1253
site_idAC9
Number of Residues8
Detailsbinding site for residue GOL A 1109
ChainResidue
AGLN673
ATYR674
ATHR675
ALYS684
ALYS685
APRO686
AGLU715
AHOH1318
site_idAD1
Number of Residues5
Detailsbinding site for residue GOL A 1110
ChainResidue
AASN659
AASP661
AGLN666
ASER668
APHE783
site_idAD2
Number of Residues18
Detailsbinding site for residue B1B A 1111
ChainResidue
AGLU319
AALA320
AVAL459
AGLY460
AALA461
AGLU463
AHIS496
AGLU497
AHIS500
AGLU519
AGLU572
ATYR580
AMET1034
AZN1101
AGOL1107
AHOH1212
AHOH1218
AHOH1624
Functional Information from PROSITE/UniProt
site_idPS00142
Number of Residues10
DetailsZINC_PROTEASE Neutral zinc metallopeptidases, zinc-binding region signature. VVGHEYFHNY
ChainResidueDetails
AVAL493-TYR502
Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues1
DetailsActive site: {"description":"Proton acceptor","evidences":[{"source":"UniProtKB","id":"P15144","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails
site_idSWS_FT_FI2
Number of Residues3
DetailsBinding site: {"evidences":[{"source":"PubMed","id":"19196988","evidenceCode":"ECO:0000305"},{"source":"PubMed","id":"21366301","evidenceCode":"ECO:0000305"},{"source":"PDB","id":"3EBH","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3EBI","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3Q43","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI3
Number of Residues1
DetailsBinding site: {"evidences":[{"source":"PubMed","id":"19196988","evidenceCode":"ECO:0000305"},{"source":"PubMed","id":"21366301","evidenceCode":"ECO:0000305"},{"source":"PDB","id":"3EBH","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3Q43","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI4
Number of Residues3
DetailsBinding site: {"evidences":[{"source":"PubMed","id":"19196988","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"21366301","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"21844374","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"23713488","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"23897806","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"25299353","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"25645579","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"26406322","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"26807544","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"30537832","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"32182520","evidenceCode":"ECO:0000269"},{"source":"Reference","evidenceCode":"ECO:0000269","citation":{"citationType":"submission","publicationDate":"JUL-2017","submissionDatabase":"PDB data bank","title":"Crystal structure of Plasmodium falciparum aminopeptidase N in complex with actinonin.","authors":["Marapaka A.K.","Addlagatta A."]}},{"source":"Reference","evidenceCode":"ECO:0000269","citation":{"citationType":"journal article","publicationDate":"2022","firstPage":"2550","lastPage":"2554","volume":"33","journal":"Chin. Chem. Lett.","title":"Development of peptidomimetic hydroxamates as PfA-M1 and PfA-M17 dual inhibitors: Biological evaluation and structural characterization by cocrystallization.","authors":["Marapaka A.K.","Sankoju P.","Zhang G.","Ding Y.","Ma C.","Pillalamarri V.","Sudhakar P.","Reddi B.","Sijwali P.S.","Zhang Y.","Addlagatta A."],"citationCrossReferences":[{"database":"DOI","id":"10.1016/j.cclet.2021.09.102"}]}},{"source":"PDB","id":"3T8V","evidenceCode":"ECO:0000312"},{"source":"PDB","id":"5Y1Q","evidenceCode":"ECO:0000312"},{"source":"PDB","id":"3EBG","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3EBH","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3EBI","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3Q43","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3Q44","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4J3B","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4K5L","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4K5M","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4K5N","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4K5O","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4K5P","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4R5T","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4R5V","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4R5X","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4X2U","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4ZQT","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4ZW3","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4ZW5","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4ZW6","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4ZW7","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4ZW8","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4ZX3","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4ZX4","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4ZX5","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4ZX6","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5XM7","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5Y19","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5Y1H","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5Y1K","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5Y1R","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5Y1S","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5Y1T","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5Y1V","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5Y1W","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5Y1X","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5Y3I","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"6EA1","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"6EA2","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"6EAA","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"6EAB","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"6EE3","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"6EE4","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"6EE6","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"6EED","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"6SBQ","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"6SBR","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI5
Number of Residues1
DetailsSite: {"description":"Important for substrate specificity","evidences":[{"source":"PubMed","id":"23897806","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI6
Number of Residues1
DetailsSite: {"description":"Transition state stabilizer","evidences":[{"source":"UniProtKB","id":"P15144","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails
site_idSWS_FT_FI7
Number of Residues1
DetailsSite: {"description":"Cleavage","evidences":[{"source":"PubMed","id":"21659511","evidenceCode":"ECO:0000305"}]}
ChainResidueDetails

242500

PDB entries from 2025-10-01

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