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3PN3

Crystal structure of Arabidopsis thaliana petide deformylase 1B (AtPDF1B) in complex with inhibitor 21

Functional Information from GO Data
ChainGOidnamespacecontents
A0042586molecular_functionpeptide deformylase activity
B0042586molecular_functionpeptide deformylase activity
Functional Information from PDB Data
site_idAC1
Number of Residues15
DetailsBINDING SITE FOR RESIDUE PN3 A 194
ChainResidue
AILE18
AHOH1036
AHOH1360
AHOH1553
AHOH1554
AHOH1555
AHOH1556
AASP19
AASN74
ATYR80
AVAL102
APRO104
AARG112
AARG146
AZN1014

site_idAC2
Number of Residues6
DetailsBINDING SITE FOR RESIDUE ZN A 1001
ChainResidue
AGLN48
ACYS91
AHIS133
AHIS137
AZN1002
AHOH1312

site_idAC3
Number of Residues5
DetailsBINDING SITE FOR RESIDUE ZN A 1002
ChainResidue
AGLN48
AGLU134
AZN1001
AHOH1043
AHOH1312

site_idAC4
Number of Residues5
DetailsBINDING SITE FOR RESIDUE ZN A 1005
ChainResidue
AASP40
AGLU63
AHOH1040
AHOH1315
AHOH1316

site_idAC5
Number of Residues5
DetailsBINDING SITE FOR RESIDUE ZN A 1007
ChainResidue
AGLU160
AGLU179
AZN1012
AHOH1319
BGLU66

site_idAC6
Number of Residues5
DetailsBINDING SITE FOR RESIDUE ZN A 1009
ChainResidue
AASP30
AASP34
AZN1010
AHOH1328
BGLU69

site_idAC7
Number of Residues6
DetailsBINDING SITE FOR RESIDUE ZN A 1010
ChainResidue
AASP34
AZN1009
AHOH1328
BASP34
BZN1011
BHOH1330

site_idAC8
Number of Residues6
DetailsBINDING SITE FOR RESIDUE ZN A 1012
ChainResidue
AMET1
AGLU157
AGLU160
AZN1007
AHOH1319
BGLU66

site_idAC9
Number of Residues5
DetailsBINDING SITE FOR RESIDUE ZN A 1014
ChainResidue
APN3194
AHOH1553
AHOH1554
AHOH1555
AHOH1556

site_idBC1
Number of Residues15
DetailsBINDING SITE FOR RESIDUE PN3 B 194
ChainResidue
BILE18
BASP19
BASN74
BTYR80
BVAL102
BPRO104
BARG112
BARG146
BZN1015
BHOH1196
BHOH1498
BHOH1557
BHOH1558
BHOH1559
BHOH1560

site_idBC2
Number of Residues6
DetailsBINDING SITE FOR RESIDUE ZN B 1003
ChainResidue
BGLN48
BCYS91
BHIS133
BHIS137
BZN1004
BHOH1313

site_idBC3
Number of Residues5
DetailsBINDING SITE FOR RESIDUE ZN B 1004
ChainResidue
BGLN48
BGLU134
BZN1003
BHOH1079
BHOH1313

site_idBC4
Number of Residues5
DetailsBINDING SITE FOR RESIDUE ZN B 1006
ChainResidue
BASP40
BGLU63
BHOH1094
BHOH1297
BHOH1318

site_idBC5
Number of Residues5
DetailsBINDING SITE FOR RESIDUE ZN B 1008
ChainResidue
AGLU66
BGLU160
BGLU179
BZN1013
BHOH1324

site_idBC6
Number of Residues5
DetailsBINDING SITE FOR RESIDUE ZN B 1011
ChainResidue
AGLU69
AZN1010
BASP30
BASP34
BHOH1330

site_idBC7
Number of Residues6
DetailsBINDING SITE FOR RESIDUE ZN B 1013
ChainResidue
AGLU66
BMET1
BGLU157
BGLU160
BZN1008
BHOH1324

site_idBC8
Number of Residues5
DetailsBINDING SITE FOR RESIDUE ZN B 1015
ChainResidue
BPN3194
BHOH1557
BHOH1558
BHOH1559
BHOH1560

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues30
DetailsCompositional bias: {"description":"Basic and acidic residues","evidences":[{"source":"SAM","id":"MobiDB-lite","evidenceCode":"ECO:0000256"}]}
ChainResidueDetails

site_idSWS_FT_FI2
Number of Residues2
DetailsActive site: {"evidences":[{"evidenceCode":"ECO:0000250"}]}
ChainResidueDetails

site_idSWS_FT_FI3
Number of Residues6
DetailsBinding site: {}
ChainResidueDetails

249697

PDB entries from 2026-02-25

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