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2HD1

Crystal structure of PDE9 in complex with IBMX

Replaces:  1TBM
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 Residues6
DetailsBINDING SITE FOR RESIDUE ZN A 101
ChainResidue
AMG102
AHIS256
AHIS292
AASP293
AASP402
AHOH507

site_idAC2
Number of Residues6
DetailsBINDING SITE FOR RESIDUE MG A 102
ChainResidue
AHOH509
AHOH510
AHOH511
AZN101
AASP293
AHOH508

site_idAC3
Number of Residues5
DetailsBINDING SITE FOR RESIDUE ZN B 101
ChainResidue
BMG102
BHIS256
BHIS292
BASP293
BASP402

site_idAC4
Number of Residues6
DetailsBINDING SITE FOR RESIDUE MG B 102
ChainResidue
BZN101
BASP293
BHOH508
BHOH509
BHOH510
BHOH511

site_idAC5
Number of Residues5
DetailsBINDING SITE FOR RESIDUE IBM A 1
ChainResidue
AILE403
ALEU420
ATYR424
AGLN453
APHE456

site_idAC6
Number of Residues7
DetailsBINDING SITE FOR RESIDUE IBM B 1
ChainResidue
AALA499
BLEU420
BTYR424
BPHE441
BALA452
BGLN453
BPHE456

Functional Information from PROSITE/UniProt
site_idPS00126
Number of Residues12
DetailsPDEASE_I_1 3'5'-cyclic nucleotide phosphodiesterase domain signature. HDLdHpGynNtY
ChainResidueDetails
AHIS292-TYR303

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues2
DetailsACT_SITE: Proton donor => ECO:0000269|PubMed:18757755
ChainResidueDetails
AALA312
BALA312

site_idSWS_FT_FI2
Number of Residues6
DetailsBINDING: BINDING => ECO:0000269|PubMed:18757755
ChainResidueDetails
AALA312
ATRP484
AALA452
BALA312
BTRP484
BALA452

site_idSWS_FT_FI3
Number of Residues8
DetailsBINDING: BINDING => ECO:0000269|PubMed:18757755, ECO:0000269|PubMed:19919087, ECO:0000269|PubMed:20121115, ECO:0000269|PubMed:21483814, ECO:0000269|PubMed:22985069, ECO:0000269|PubMed:23025719, ECO:0007744|PDB:2HD1, ECO:0007744|PDB:2YY2, ECO:0007744|PDB:3DYN, ECO:0007744|PDB:3JSI, ECO:0007744|PDB:3JSW, ECO:0007744|PDB:3K3E, ECO:0007744|PDB:3K3H, ECO:0007744|PDB:3N3Z, ECO:0007744|PDB:4E90, ECO:0007744|PDB:4G2J, ECO:0007744|PDB:4G2L, ECO:0007744|PDB:4GH6
ChainResidueDetails
AASN316
AILE352
AARG353
AILE462
BASN316
BILE352
BARG353
BILE462

site_idSWS_FT_FI4
Number of Residues2
DetailsMOD_RES: Phosphoserine => ECO:0000250|UniProtKB:Q8QZV1
ChainResidueDetails
AMET379
BMET379

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PDB entries from 2024-07-31

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