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(-) Description

Title :  HCN2J 443-645 IN THE PRESENCE OF CGMP
 
Authors :  W. N. Zagotta, N. B. Olivier, K. D. Black, E. C. Young, R. Olson, J. E. Goua
Date :  29 Jul 03  (Deposition) - 09 Sep 03  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (4x)
Biol. Unit 2:  B  (4x)
Biol. Unit 3:  A,B  (4x)
Keywords :  Cnbd, C-Linker, Pacemaker, Hcn, Channel, Cyclic Nucleotide, Cap, Pka, Cgmp, Ion Channel, Ligand, Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  W. N. Zagotta, N. B. Olivier, K. D. Black, E. C. Young, R. Olson, J. E. Gouaux
Structural Basis For Modulation And Agonist Specificity Of Hcn Pacemaker Channels
Nature V. 425 200 2003
PubMed-ID: 12968185  |  Reference-DOI: 10.1038/NATURE01922

(-) Compounds

Molecule 1 - POTASSIUM/SODIUM HYPERPOLARIZATION-ACTIVATED CYCLIC NUCLEOTIDE-GATED CHANNEL 2
    ChainsA, B
    EngineeredYES
    Expression SystemESCHERICHIA COLI BL21(DE3)
    Expression System PlasmidPETGQ
    Expression System StrainBL-21(DE3)
    Expression System Taxid469008
    Expression System Vector TypePLASMID
    FragmentRESIDUES 443-645 (REFERENCE SEQUENCE NUMBERING)
    GeneHCN2 OR BCNG2 OR HAC1
    OrganBRAIN
    Organism CommonHOUSE MOUSE
    Organism ScientificMUS MUSCULUS
    Organism Taxid10090
    SynonymBRAIN CYCLIC NUCLEOTIDE GATED CHANNEL 2, BCNG-2, HYPERPOLARIZATION-ACTIVATED CATION CHANNEL 1, HAC-1

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit AB
Biological Unit 1 (4x)A 
Biological Unit 2 (4x) B
Biological Unit 3 (4x)AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric Unit (1, 2)
No.NameCountTypeFull Name
1PCG2Ligand/IonCYCLIC GUANOSINE MONOPHOSPHATE
Biological Unit 1 (1, 4)
No.NameCountTypeFull Name
1PCG4Ligand/IonCYCLIC GUANOSINE MONOPHOSPHATE
Biological Unit 2 (1, 4)
No.NameCountTypeFull Name
1PCG4Ligand/IonCYCLIC GUANOSINE MONOPHOSPHATE
Biological Unit 3 (1, 8)
No.NameCountTypeFull Name
1PCG8Ligand/IonCYCLIC GUANOSINE MONOPHOSPHATE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHOH A:171 , HOH A:187 , HOH A:250 , HOH A:288 , THR A:566 , MET A:572 , PHE A:580 , GLY A:581 , GLU A:582 , ILE A:583 , CYS A:584 , ARG A:591 , THR A:592 , ALA A:593 , ARG A:632BINDING SITE FOR RESIDUE PCG A 401
2AC2SOFTWAREHOH B:111 , HOH B:290 , VAL B:564 , MET B:572 , PHE B:580 , GLY B:581 , GLU B:582 , ILE B:583 , CYS B:584 , ARG B:591 , THR B:592 , ALA B:593 , ARG B:632BINDING SITE FOR RESIDUE PCG B 402

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1Q3E)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1Q3E)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1Q3E)

(-) PROSITE Motifs  (2, 4)

Asymmetric Unit (2, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1CNMP_BINDING_3PS50042 cAMP/cGMP binding motif profile.HCN2_MOUSE517-623
 
  2A:517-623
B:517-623
2CNMP_BINDING_1PS00888 Cyclic nucleotide-binding domain signature 1.HCN2_MOUSE544-560
 
  2A:544-560
B:544-560
Biological Unit 1 (2, 8)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1CNMP_BINDING_3PS50042 cAMP/cGMP binding motif profile.HCN2_MOUSE517-623
 
  4A:517-623
-
2CNMP_BINDING_1PS00888 Cyclic nucleotide-binding domain signature 1.HCN2_MOUSE544-560
 
  4A:544-560
-
Biological Unit 2 (2, 8)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1CNMP_BINDING_3PS50042 cAMP/cGMP binding motif profile.HCN2_MOUSE517-623
 
  4-
B:517-623
2CNMP_BINDING_1PS00888 Cyclic nucleotide-binding domain signature 1.HCN2_MOUSE544-560
 
  4-
B:544-560
Biological Unit 3 (2, 16)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1CNMP_BINDING_3PS50042 cAMP/cGMP binding motif profile.HCN2_MOUSE517-623
 
  8A:517-623
B:517-623
2CNMP_BINDING_1PS00888 Cyclic nucleotide-binding domain signature 1.HCN2_MOUSE544-560
 
  8A:544-560
B:544-560

(-) Exons   (4, 8)

Asymmetric Unit (4, 8)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1ENSMUST000000995131ENSMUSE00000332759chr10:79179379-79179964586HCN2_MOUSE1-1841840--
1.2ENSMUST000000995132ENSMUSE00000574999chr10:79187133-79187556424HCN2_MOUSE184-3251420--
1.3ENSMUST000000995133ENSMUSE00000574998chr10:79188892-79189053162HCN2_MOUSE326-379540--
1.4ENSMUST000000995134ENSMUSE00000574997chr10:79191638-79191856219HCN2_MOUSE380-452732A:443-452
B:443-452
10
10
1.5ENSMUST000000995135ENSMUSE00000574996chr10:79193592-79193738147HCN2_MOUSE453-501492A:453-501
B:453-501
49
49
1.6ENSMUST000000995136ENSMUSE00000574995chr10:79196416-79196656241HCN2_MOUSE502-582812A:502-582 (gaps)
B:502-582 (gaps)
81
81
1.7ENSMUST000000995137ENSMUSE00000574994chr10:79196808-79196972165HCN2_MOUSE582-637562A:582-635
B:582-635
54
54
1.8bENSMUST000000995138bENSMUSE00000642019chr10:79197603-791988531251HCN2_MOUSE637-8632270--

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it)
Chain A from PDB  Type:PROTEIN  Length:192
 aligned with HCN2_MOUSE | O88703 from UniProtKB/Swiss-Prot  Length:863

    Alignment length:193
                                   452       462       472       482       492       502       512       522       532       542       552       562       572       582       592       602       612       622       632   
           HCN2_MOUSE   443 DSSRRQYQEKYKQVEQYMSFHKLPADFRQKIHDYYEHRYQGKMFDEDSILGELNGPLREEIVNFNCRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHGVVSVLTKGNKEMKLSDGSYFGEICLLTRGRRTASVRADTYCRLYSLSVDNFNEVLEEYPMMRRAFETVAIDRLDR 635
               SCOP domains d1q3ea_ A: HCN pacemaker channel                                                                                                                                                                  SCOP domains
               CATH domains 1q3eA01 A:443-508 Helix hairpin bin                               1q3eA02 A:509-635 Jelly Rolls                                                                                                   CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhh..eeeee....eee.......eeeeeee..eeee.-...eeee....eehhhhhhhh.....eeee...eeeeeeehhhhhhhhhhh..hhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) --------------------------------------------------------------------------CNMP_BINDING_3  PDB: A:517-623 UniProt: 517-623                                                            ------------ PROSITE (1)
                PROSITE (2) -----------------------------------------------------------------------------------------------------CNMP_BINDING_1   --------------------------------------------------------------------------- PROSITE (2)
           Transcript 1 (1) Exon 1.4  Exon 1.5  PDB: A:453-501 UniProt: 453-501        Exon 1.6  PDB: A:502-582 (gaps) UniProt: 502-582                                 ----------------------------------------------------- Transcript 1 (1)
           Transcript 1 (2) -------------------------------------------------------------------------------------------------------------------------------------------Exon 1.7  PDB: A:582-635 UniProt: 582-637 [INCOMPLETE] Transcript 1 (2)
                 1q3e A 443 DSSRRQYQEKYKQVEQYMSFHKLPADFRQKIHDYYEHRYQGKMFDEDSILGELNGPLREEIVNFNCRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHGVVSVLT-GNKEMKLSDGSYFGEICLLTRGRRTASVRADTYCRLYSLSVDNFNEVLEEYPMMRRAFETVAIDRLDR 635
                                   452       462       472       482       492       502       512       522       532       542       552       562   | | 572       582       592       602       612       622       632   
                                                                                                                                                     566 |                                                                   
                                                                                                                                                       568                                                                   

Chain B from PDB  Type:PROTEIN  Length:189
 aligned with HCN2_MOUSE | O88703 from UniProtKB/Swiss-Prot  Length:863

    Alignment length:193
                                   452       462       472       482       492       502       512       522       532       542       552       562       572       582       592       602       612       622       632   
           HCN2_MOUSE   443 DSSRRQYQEKYKQVEQYMSFHKLPADFRQKIHDYYEHRYQGKMFDEDSILGELNGPLREEIVNFNCRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHGVVSVLTKGNKEMKLSDGSYFGEICLLTRGRRTASVRADTYCRLYSLSVDNFNEVLEEYPMMRRAFETVAIDRLDR 635
               SCOP domains d1q3eb_ B: HCN pacemaker channel                                                                                                                                                                  SCOP domains
               CATH domains 1q3eB01 B:443-508 Helix hairpin bin                               1q3eB02 B:509-635 Jelly Rolls                                                                                                   CATH domains
           Pfam domains (1) --------------------------------------------------------------------------------------------cNMP_binding-1q3eB01 B:535-620                                                        --------------- Pfam domains (1)
           Pfam domains (2) --------------------------------------------------------------------------------------------cNMP_binding-1q3eB02 B:535-620                                                        --------------- Pfam domains (2)
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhheeeee....eee.......eeeeeee..eeee.----.eee....eehhhhhhhh.....eeee...eeeeeeehhhhhhhhhhh..hhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) --------------------------------------------------------------------------CNMP_BINDING_3  PDB: B:517-623 UniProt: 517-623                                                            ------------ PROSITE (1)
                PROSITE (2) -----------------------------------------------------------------------------------------------------CNMP_BINDING_1   --------------------------------------------------------------------------- PROSITE (2)
           Transcript 1 (1) Exon 1.4  Exon 1.5  PDB: B:453-501 UniProt: 453-501        Exon 1.6  PDB: B:502-582 (gaps) UniProt: 502-582                                 ----------------------------------------------------- Transcript 1 (1)
           Transcript 1 (2) -------------------------------------------------------------------------------------------------------------------------------------------Exon 1.7  PDB: B:582-635 UniProt: 582-637 [INCOMPLETE] Transcript 1 (2)
                 1q3e B 443 DSSRRQYQEKYKQVEQYMSFHKLPADFRQKIHDYYEHRYQGKMFDEDSILGELNGPLREEIVNFNCRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHGVVSVLT----EMKLSDGSYFGEICLLTRGRRTASVRADTYCRLYSLSVDNFNEVLEEYPMMRRAFETVAIDRLDR 635
                                   452       462       472       482       492       502       512       522       532       542       552       562   |   572       582       592       602       612       622       632   
                                                                                                                                                     566  571                                                                

   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 2)

Asymmetric Unit

(-) CATH Domains  (2, 4)

Asymmetric Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (1, 2)

Asymmetric Unit

(-) Gene Ontology  (27, 27)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (HCN2_MOUSE | O88703)
molecular function
    GO:0030552    cAMP binding    Interacting selectively and non-covalently with cAMP, the nucleotide cyclic AMP (adenosine 3',5'-cyclophosphate).
    GO:0042802    identical protein binding    Interacting selectively and non-covalently with an identical protein or proteins.
    GO:0005222    intracellular cAMP activated cation channel activity    Enables the transmembrane transfer of a cation by a channel that opens when intracellular cAMP has been bound by the channel complex or one of its constituent parts.
    GO:0005216    ion channel activity    Enables the facilitated diffusion of an ion (by an energy-independent process) by passage through a transmembrane aqueous pore or channel without evidence for a carrier-mediated mechanism. May be either selective (it enables passage of a specific ion only) or non-selective (it enables passage of two or more ions of same charge but different size).
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
    GO:0005267    potassium channel activity    Enables the facilitated diffusion of a potassium ion (by an energy-independent process) involving passage through a transmembrane aqueous pore or channel without evidence for a carrier-mediated mechanism.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
    GO:0005272    sodium channel activity    Enables the facilitated diffusion of a sodium ion (by an energy-independent process) involving passage through a transmembrane aqueous pore or channel without evidence for a carrier-mediated mechanism.
    GO:0005244    voltage-gated ion channel activity    Enables the transmembrane transfer of an ion by a voltage-gated channel. An ion is an atom or group of atoms carrying an electric charge by virtue of having gained or lost one or more electrons. A voltage-gated channel is a channel whose open state is dependent on the voltage across the membrane in which it is embedded.
    GO:0005249    voltage-gated potassium channel activity    Enables the transmembrane transfer of a potassium ion by a voltage-gated channel. A voltage-gated channel is a channel whose open state is dependent on the voltage across the membrane in which it is embedded.
    GO:0005248    voltage-gated sodium channel activity    Enables the transmembrane transfer of a sodium ion by a voltage-gated channel. A voltage-gated channel is a channel whose open state is dependent on the voltage across the membrane in which it is embedded.
biological process
    GO:0071320    cellular response to cAMP    Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a cAMP (cyclic AMP, adenosine 3',5'-cyclophosphate) stimulus.
    GO:0071321    cellular response to cGMP    Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a cGMP (cyclic GMP, guanosine 3',5'-cyclophosphate) stimulus.
    GO:0006811    ion transport    The directed movement of charged atoms or small charged molecules into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    GO:0071805    potassium ion transmembrane transport    A process in which a potassium ion is transported from one side of a membrane to the other.
    GO:0006813    potassium ion transport    The directed movement of potassium ions (K+) into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    GO:0034765    regulation of ion transmembrane transport    Any process that modulates the frequency, rate or extent of the directed movement of ions from one side of a membrane to the other.
    GO:0042391    regulation of membrane potential    Any process that modulates the establishment or extent of a membrane potential, the electric potential existing across any membrane arising from charges in the membrane itself and from the charges present in the media on either side of the membrane.
    GO:0060078    regulation of postsynaptic membrane potential    Any process that modulates the potential difference across a post-synaptic membrane.
    GO:0035725    sodium ion transmembrane transport    A process in which a sodium ion is transported from one side of a membrane to the other by means of some agent such as a transporter or pore.
    GO:0006814    sodium ion transport    The directed movement of sodium ions (Na+) into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    GO:0055085    transmembrane transport    The process in which a solute is transported across a lipid bilayer, from one side of a membrane to the other
    GO:0006810    transport    The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
cellular component
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0005887    integral component of plasma membrane    The component of the plasma membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0005886    plasma membrane    The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        HCN2_MOUSE | O887031q43 1q5o 2q0a 3bpz 3etq 3ffq 4eqf 5jon 5khg 5khh 5khi 5khj 5khk

(-) Related Entries Specified in the PDB File

1q43 SELENOMETHIONINE DERIVATIVE OF HCN2-I IN THE PRESENCE OF CAMP
1q5o SELENOMETHIONINE DERIVATIVE OF HCN2-J IN THE PRESENCE OF CAMP