Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

6BOJ

Crystal Structure of the PDE4D Catalytic Domain and UCR2 Regulatory Helix with BPN5004

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0004114	molecular_function	3',5'-cyclic-nucleotide phosphodiesterase activity
A	0007165	biological_process	signal transduction
A	0008081	molecular_function	phosphoric diester hydrolase activity
B	0004114	molecular_function	3',5'-cyclic-nucleotide phosphodiesterase activity
B	0007165	biological_process	signal transduction
B	0008081	molecular_function	phosphoric diester hydrolase activity
C	0004114	molecular_function	3',5'-cyclic-nucleotide phosphodiesterase activity
C	0007165	biological_process	signal transduction
C	0008081	molecular_function	phosphoric diester hydrolase activity
D	0004114	molecular_function	3',5'-cyclic-nucleotide phosphodiesterase activity
D	0007165	biological_process	signal transduction
D	0008081	molecular_function	phosphoric diester hydrolase activity

Functional Information from PDB Data

site_id	AC1
Number of Residues	6
Details	binding site for residue ZN A 701

Chain	Residue
A	HIS330
A	HIS366
A	ASP367
A	ASP484
A	HOH818
A	HOH963

site_id	AC2
Number of Residues	6
Details	binding site for residue MG A 702

Chain	Residue
A	HOH899
A	HOH938
A	HOH1022
A	ASP367
A	HOH818
A	HOH881

site_id	AC3
Number of Residues	14
Details	binding site for residue E31 A 703

Chain	Residue
A	HIS326
A	SER374
A	ASN487
A	TYR495
A	ILE502
A	PHE506
A	GLN535
A	PHE538
A	PHE599
A	ILE600
A	HOH869
A	HOH923
A	HOH925
A	HOH942

site_id	AC4
Number of Residues	5
Details	binding site for residue ZN A 704

Chain	Residue
A	HIS318
A	HOH810
A	HOH1047
A	HOH1061
C	HOH829

site_id	AC5
Number of Residues	4
Details	binding site for residue CL A 705

Chain	Residue
A	HIS271
A	PHE273
A	ARG274
A	HOH1045

site_id	AC6
Number of Residues	6
Details	binding site for residue ZN B 701

Chain	Residue
B	HIS330
B	HIS366
B	ASP367
B	ASP484
B	HOH1031
B	HOH1131

site_id	AC7
Number of Residues	6
Details	binding site for residue MG B 702

Chain	Residue
B	ASP367
B	HOH1031
B	HOH1063
B	HOH1121
B	HOH1148
B	HOH1193

site_id	AC8
Number of Residues	14
Details	binding site for residue E31 B 703

Chain	Residue
B	HIS326
B	ASN487
B	TYR495
B	THR499
B	ILE502
B	PHE506
B	GLN535
B	PHE538
B	PHE599
B	ILE600
B	HOH1046
B	HOH1104
B	HOH1117
B	HOH1162

site_id	AC9
Number of Residues	4
Details	binding site for residue CL B 704

Chain	Residue
B	HIS271
B	PHE273
B	ARG274
B	HOH1032

site_id	AD1
Number of Residues	6
Details	binding site for residue MPD B 705

Chain	Residue
B	LEU378
B	SER383
B	ARG512
B	HOH1141
B	HOH1201
D	HOH951

site_id	AD2
Number of Residues	6
Details	binding site for residue ZN C 701

Chain	Residue
C	HIS330
C	HIS366
C	ASP367
C	ASP484
C	HOH840
C	HOH974

site_id	AD3
Number of Residues	6
Details	binding site for residue MG C 702

Chain	Residue
C	ASP367
C	HOH840
C	HOH868
C	HOH900
C	HOH954
C	HOH1034

site_id	AD4
Number of Residues	13
Details	binding site for residue E31 C 703

Chain	Residue
C	HIS326
C	ASN487
C	TYR495
C	ILE502
C	PHE506
C	GLN535
C	PHE538
C	PHE599
C	ILE600
C	HOH858
C	HOH896
C	HOH926
C	HOH933

site_id	AD5
Number of Residues	3
Details	binding site for residue CL C 704

Chain	Residue
C	HIS271
C	PHE273
C	ARG274

site_id	AD6
Number of Residues	2
Details	binding site for residue MPD C 705

Chain	Residue
C	ARG512
C	HOH947

site_id	AD7
Number of Residues	6
Details	binding site for residue ZN D 701

Chain	Residue
D	HIS330
D	HIS366
D	ASP367
D	ASP484
D	HOH829
D	HOH937

site_id	AD8
Number of Residues	6
Details	binding site for residue MG D 702

Chain	Residue
D	ASP367
D	HOH829
D	HOH864
D	HOH889
D	HOH944
D	HOH967

site_id	AD9
Number of Residues	10
Details	binding site for residue E31 D 703

Chain	Residue
D	HIS326
D	ASN487
D	ILE502
D	PHE506
D	GLN535
D	PHE538
D	PHE599
D	HOH892
D	HOH901
D	HOH934

site_id	AE1
Number of Residues	5
Details	binding site for residue ZN D 704

Chain	Residue
B	HOH1008
D	HIS318
D	HOH821
D	HOH1000
D	HOH1011

site_id	AE2
Number of Residues	3
Details	binding site for residue CL D 705

Chain	Residue
D	HIS271
D	PHE273
D	ARG274

Functional Information from PROSITE/UniProt

site_id	PS00126
Number of Residues	12
Details	PDEASE_I_1 3'5'-cyclic nucleotide phosphodiesterase domain signature. HDVdHpGvsNqF

Chain	Residue	Details
A	HIS366-PHE377

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	4
Details	Active site: {"description":"Proton donor","evidences":[{"source":"UniProtKB","id":"Q07343","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI2
Number of Residues	12
Details	Binding site: {"evidences":[{"source":"PubMed","id":"14609333","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"15260978","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1PTW","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1TB7","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI3
Number of Residues	4
Details	Binding site: {"evidences":[{"source":"PubMed","id":"14609333","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"15260978","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"15576036","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"17582435","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1PTW","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1TB7","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1TBB","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1XOM","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1XON","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1XOQ","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"2PW3","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI4
Number of Residues	8
Details	Binding site: {"evidences":[{"source":"PubMed","id":"14609333","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"15260978","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"15576036","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"17582435","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1PTW","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1TB7","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1TBB","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1XOM","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1XON","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1XOQ","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1XOR","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"2PW3","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI5
Number of Residues	8
Details	Binding site: {"evidences":[{"source":"PubMed","id":"14609333","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1PTW","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

		Sequence (fasta)
		PDBx/mmCIF
		PDBML format (no-atom)
		PDB format (full)
		Validation report (PDF)
		EDMap 2fo-fc (MTZ)