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5K32

PDE4D crystal structure in complex with small molecule inhibitor

Functional Information from GO Data
ChainGOidnamespacecontents
A0004114molecular_function3',5'-cyclic-nucleotide phosphodiesterase activity
A0007165biological_processsignal transduction
A0008081molecular_functionphosphoric diester hydrolase activity
B0004114molecular_function3',5'-cyclic-nucleotide phosphodiesterase activity
B0007165biological_processsignal transduction
B0008081molecular_functionphosphoric diester hydrolase activity
Functional Information from PDB Data
site_idAC1
Number of Residues7
Detailsbinding site for residue ZN A 1001
ChainResidue
AHIS164
AHIS200
AASP201
AASP318
AMG1002
AHOH1154
AHOH1214

site_idAC2
Number of Residues7
Detailsbinding site for residue MG A 1002
ChainResidue
AHOH1141
AHOH1169
AHOH1200
AHOH1214
AHOH1218
AASP201
AZN1001

site_idAC3
Number of Residues13
Detailsbinding site for residue 6Q2 A 1003
ChainResidue
ATYR159
ATHR271
AMET273
AASP318
AASN321
ATHR333
AGLN369
APHE372
AEDO1010
AEDO1011
AEDO1013
AHOH1122
AHOH1186

site_idAC4
Number of Residues5
Detailsbinding site for residue EDO A 1004
ChainResidue
ALYS262
AILE265
AASP266
AHOH1108
BASN224

site_idAC5
Number of Residues6
Detailsbinding site for residue EDO A 1005
ChainResidue
AASN209
AGLN210
AHOH1107
AHOH1133
AHOH1162
AHOH1182

site_idAC6
Number of Residues8
Detailsbinding site for residue EDO A 1006
ChainResidue
AGLU150
ATYR153
AASN162
AEDO1007
AHOH1125
AHOH1151
AHOH1314
BGLN407

site_idAC7
Number of Residues7
Detailsbinding site for residue EDO A 1007
ChainResidue
AASN115
AALA155
AASN161
AASN162
AILE163
AEDO1006
AHOH1151

site_idAC8
Number of Residues5
Detailsbinding site for residue EDO A 1008
ChainResidue
AVAL174
ASER177
ATHR178
AASP391
AHOH1112

site_idAC9
Number of Residues3
Detailsbinding site for residue EDO A 1009
ChainResidue
APHE238
AARG257
AHOH1193

site_idAD1
Number of Residues10
Detailsbinding site for residue EDO A 1010
ChainResidue
AHIS204
AGLY206
AVAL207
ASER208
AGLU339
APHE340
AGLN343
A6Q21003
AHOH1126
AHOH1252

site_idAD2
Number of Residues4
Detailsbinding site for residue EDO A 1011
ChainResidue
ASER368
AGLY371
APHE372
A6Q21003

site_idAD3
Number of Residues4
Detailsbinding site for residue EDO A 1012
ChainResidue
AHIS154
AASP203
APRO205
ALEU219

site_idAD4
Number of Residues2
Detailsbinding site for residue EDO A 1013
ChainResidue
AMET273
A6Q21003

site_idAD5
Number of Residues6
Detailsbinding site for residue EDO A 1014
ChainResidue
AALA183
AVAL184
AHOH1103
BGLY114
BASN115
BARG116

site_idAD6
Number of Residues7
Detailsbinding site for residue EDO A 1015
ChainResidue
APRO179
AALA180
ASER295
AGLY296
AHIS389
APRO390
AASP391

site_idAD7
Number of Residues5
Detailsbinding site for residue EDO A 1016
ChainResidue
ALEU299
BARG335
BARG342
BHOH1113
BHOH1221

site_idAD8
Number of Residues4
Detailsbinding site for residue EDO A 1017
ChainResidue
AGLU366
ATRP405
ATYR406
ATHR409

site_idAD9
Number of Residues3
Detailsbinding site for residue EDO A 1018
ChainResidue
AGLU111
AARG335
AHOH1240

site_idAE1
Number of Residues2
Detailsbinding site for residue EDO A 1019
ChainResidue
ALYS275
AHOH1188

site_idAE2
Number of Residues7
Detailsbinding site for residue ZN B 1001
ChainResidue
BHIS164
BHIS200
BASP201
BASP318
BMG1002
BHOH1150
BHOH1186

site_idAE3
Number of Residues7
Detailsbinding site for residue MG B 1002
ChainResidue
BASP201
BZN1001
BHOH1147
BHOH1150
BHOH1162
BHOH1178
BHOH1238

site_idAE4
Number of Residues13
Detailsbinding site for residue 6Q2 B 1003
ChainResidue
BTYR159
BMET273
BASP318
BASN321
BTRP332
BTHR333
BILE336
BPHE340
BGLN369
BPHE372
BEDO1012
BEDO1013
BHOH1128

site_idAE5
Number of Residues5
Detailsbinding site for residue EDO B 1004
ChainResidue
APRO411
BGLU366
BTRP405
BTYR406
BHOH1127

site_idAE6
Number of Residues6
Detailsbinding site for residue EDO B 1005
ChainResidue
BPHE238
BARG257
BARG261
BEDO1006
BHOH1119
BHOH1196

site_idAE7
Number of Residues4
Detailsbinding site for residue EDO B 1006
ChainResidue
BARG257
BGLN258
BEDO1005
BHOH1212

site_idAE8
Number of Residues4
Detailsbinding site for residue EDO B 1007
ChainResidue
BLYS262
BASP266
BHOH1102
BHOH1203

site_idAE9
Number of Residues3
Detailsbinding site for residue EDO B 1008
ChainResidue
ATRP405
BASP401
BASN402

site_idAF1
Number of Residues2
Detailsbinding site for residue EDO B 1009
ChainResidue
BMET277
BLYS284

site_idAF2
Number of Residues6
Detailsbinding site for residue EDO B 1010
ChainResidue
AASP151
AHIS152
BGLY371
BASP374
BTYR375
BHOH1138

site_idAF3
Number of Residues9
Detailsbinding site for residue EDO B 1011
ChainResidue
BHIS160
BHIS204
BGLY206
BVAL207
BGLU339
BPHE340
BGLN343
BHOH1124
BHOH1143

site_idAF4
Number of Residues4
Detailsbinding site for residue EDO B 1012
ChainResidue
BSER368
BGLY371
BPHE372
B6Q21003

site_idAF5
Number of Residues2
Detailsbinding site for residue EDO B 1013
ChainResidue
BMET273
B6Q21003

site_idAF6
Number of Residues1
Detailsbinding site for residue EDO B 1014
ChainResidue
BLYS239

site_idAF7
Number of Residues4
Detailsbinding site for residue EDO B 1015
ChainResidue
BHIS154
BASP203
BPRO205
BLEU219

site_idAF8
Number of Residues4
Detailsbinding site for residue EDO B 1016
ChainResidue
BTHR293
BSER294
BVAL297
BHOH1303

site_idAF9
Number of Residues3
Detailsbinding site for residue EDO B 1018
ChainResidue
AVAL297
ALEU299
BHOH1142

site_idAG1
Number of Residues4
Detailsbinding site for residue EDO B 1019
ChainResidue
BALA183
BPHE185
BILE190
BHOH1116

Functional Information from PROSITE/UniProt
site_idPS00126
Number of Residues12
DetailsPDEASE_I_1 3'5'-cyclic nucleotide phosphodiesterase domain signature. HDVdHpGvsNqF
ChainResidueDetails
AHIS200-PHE211

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues2
DetailsMOD_RES: Phosphoserine => ECO:0000250|UniProtKB:P14270
ChainResidueDetails
ALEU142
BLEU142

site_idSWS_FT_FI2
Number of Residues4
DetailsMOD_RES: Phosphoserine => ECO:0007744|PubMed:21406692
ChainResidueDetails
ALEU299
AASP301
BLEU299
BASP301

site_idSWS_FT_FI3
Number of Residues4
DetailsMOD_RES: Phosphoserine => ECO:0007744|PubMed:23186163
ChainResidueDetails
AARG348
ATYR375
BARG348
BTYR375

site_idSWS_FT_FI4
Number of Residues4
DetailsCROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO)
ChainResidueDetails
ALEU387
BLEU387

222926

PDB entries from 2024-07-24

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