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Title :   X-RAY STRUCTURE OF CYSTEINE-FREE FRAGMENT OF MHCN2 C-TERMINAL REGION FROM AMINO ACIDS 443-630 INCLUDING C508N, C584S, AND C601S MUTATIONS

Authors :   G. E. Flynn

Date :   08 Oct 08 (Deposition) - 23 Jun 09 (Release) - 14 Jul 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.90

Chains :   Asym. Unit : A,B
Biol. Unit 1: A,B  (4x)

Keywords :   Hcn, Ion Channel, Camp, Cyclic Nucleotide Binding Domain, Beta Roll, C-Linker, Camp-Binding, Glycoprotein, Ion Transport, Ionic Channel, Membrane, Nucleotide-Binding, Phosphoprotein, Potassium, Potassium Channel, Potassium Transport, Sodium, Sodium Channel, Sodium Transport, Transmembrane, Transport, Voltage-Gated Channel, Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   J. W. Taraska, M. C. Puljung, N. B. Olivier, G. E. Flynn, W. N. Zagotta
Mapping The Structure And Conformational Movements Of Proteins With Transition Metal Ion Fret.
Nat. Methods V. 6 532 2009
PubMed-ID: 19525958 | Reference-DOI: 10.1038/NMETH.1341
(for further references see the PDB file header)

Molecule 1 - POTASSIUM/SODIUM HYPERPOLARIZATION-ACTIVATED CYCLIC NUCLEOTIDE-GATED CHANNEL 2
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PMALC2T
	Expression System Strain	:	BL-21 (DE3)
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Fragment	:	C-TERMINAL FRAGMENT
	Gene	:	BCNG2, HAC1, HCN2
	Mutation	:	YES
	Organism Common	:	MOUSE
	Organism Scientific	:	MUS MUSCULUS
	Organism Taxid	:	10090
	Synonym	:	BRAIN CYCLIC NUCLEOTIDE-GATED CHANNEL 2, BCNG-2, HYPERPOLARIZATION-ACTIVATED CATION CHANNEL 1, HAC-1

		1	2
Asymmetric Unit	:	A	B
Biological Unit 1 (4x)	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 2)

No.	Name	Count	Type	Full Name
1	CMP	2	Ligand/Ion	ADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE

Biological Unit 1 (1, 8)

No.	Name	Count	Type	Full Name
1	CMP	8	Ligand/Ion	ADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	VAL A:564 , MET A:572 , PHE A:580 , GLY A:581 , GLU A:582 , ILE A:583 , SER A:584 , ARG A:591 , THR A:592 , ALA A:593 , ARG A:632 , ILE A:636 , HOH A:724	BINDING SITE FOR RESIDUE CMP A 1
2	AC2	SOFTWARE	VAL B:564 , MET B:572 , PHE B:580 , GLY B:581 , GLU B:582 , ILE B:583 , SER B:584 , ARG B:591 , THR B:592 , ALA B:593 , ARG B:632 , ARG B:635 , HOH B:777	BINDING SITE FOR RESIDUE CMP B 1

(no "SS Bond" information available for 3ETQ)

Asymmetric Unit

No.	Residues
1	Asn A:569	-	Lys A:570

(no "SAP(SNP)/Variant" information available for 3ETQ)

Asymmetric Unit (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	CNMP_BINDING_3	PS50042	cAMP/cGMP binding motif profile.	HCN2_MOUSE	517-623	2	A:517-623 B:517-623
2	CNMP_BINDING_1	PS00888	Cyclic nucleotide-binding domain signature 1.	HCN2_MOUSE	544-560	2	A:544-560 B:544-560

Biological Unit 1 (2, 16)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	CNMP_BINDING_3	PS50042	cAMP/cGMP binding motif profile.	HCN2_MOUSE	517-623	8	A:517-623 B:517-623
2	CNMP_BINDING_1	PS00888	Cyclic nucleotide-binding domain signature 1.	HCN2_MOUSE	544-560	8	A:544-560 B:544-560

Asymmetric Unit (4, 8)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1	ENSMUST00000099513	1	ENSMUSE00000332759	chr10:79179379-79179964	586	HCN2_MOUSE	1-184	184	0	-	-
1.2	ENSMUST00000099513	2	ENSMUSE00000574999	chr10:79187133-79187556	424	HCN2_MOUSE	184-325	142	0	-	-
1.3	ENSMUST00000099513	3	ENSMUSE00000574998	chr10:79188892-79189053	162	HCN2_MOUSE	326-379	54	0	-	-
1.4	ENSMUST00000099513	4	ENSMUSE00000574997	chr10:79191638-79191856	219	HCN2_MOUSE	380-452	73	2	A:443-452 B:444-452	10 9
1.5	ENSMUST00000099513	5	ENSMUSE00000574996	chr10:79193592-79193738	147	HCN2_MOUSE	453-501	49	2	A:453-501 B:453-501	49 49
1.6	ENSMUST00000099513	6	ENSMUSE00000574995	chr10:79196416-79196656	241	HCN2_MOUSE	502-582	81	2	A:502-582 B:502-582 (gaps)	81 81
1.7	ENSMUST00000099513	7	ENSMUSE00000574994	chr10:79196808-79196972	165	HCN2_MOUSE	582-637	56	2	A:582-636 B:582-635	55 54
1.8b	ENSMUST00000099513	8b	ENSMUSE00000642019	chr10:79197603-79198853	1251	HCN2_MOUSE	637-863	227	0	-	-

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:194
 aligned with HCN2_MOUSE | O88703 from UniProtKB/Swiss-Prot  Length:863

    Alignment length:194
                                   452       462       472       482       492       502       512       522       532       542       552       562       572       582       592       602       612       622       632    
           HCN2_MOUSE   443 DSSRRQYQEKYKQVEQYMSFHKLPADFRQKIHDYYEHRYQGKMFDEDSILGELNGPLREEIVNFNCRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHGVVSVLTKGNKEMKLSDGSYFGEICLLTRGRRTASVRADTYCRLYSLSVDNFNEVLEEYPMMRRAFETVAIDRLDRI 636
               SCOP domains d3etqa_ A: automated matches                                                                                                                                                                       SCOP domains
               CATH domains 3etqA01 A:443-508 Helix hairpin bin                               3etqA02 A:509-636 Jelly Rolls                                                                                                    CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhheeeee....eee.......eeeeeee..eeee......eee....eehhhhhhhh.....eeee...eeeeeeehhhhhhhhhhh..hhhhhhhhhhhhhhhh 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 UniProt: 502-582                                        ------------------------------------------------------ Transcript 1 (1)
           Transcript 1 (2) -------------------------------------------------------------------------------------------------------------------------------------------Exon 1.7  PDB: A:582-636 UniProt: 582-637 [INCOMPLETE]  Transcript 1 (2)
                 3etq A 443 DSSRRQYQEKYKQVEQYMSFHKLPADFRQKIHDYYEHRYQGKMFDEDSILGELNGPLREEIVNFNNRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHGVVSVLTKGNKEMKLSDGSYFGEISLLTRGRRTASVRADTYSRLYSLSVDNFNEVLEEYPMMRRAFETVAIDRLDRI 636
                                   452       462       472       482       492       502       512       522       532       542       552       562       572       582       592       602       612       622       632

Chain B from PDB  Type:PROTEIN  Length:191
 aligned with HCN2_MOUSE | O88703 from UniProtKB/Swiss-Prot  Length:863

    Alignment length:192
                                   453       463       473       483       493       503       513       523       533       543       553       563       573       583       593       603       613       623       633  
           HCN2_MOUSE   444 SSRRQYQEKYKQVEQYMSFHKLPADFRQKIHDYYEHRYQGKMFDEDSILGELNGPLREEIVNFNCRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHGVVSVLTKGNKEMKLSDGSYFGEICLLTRGRRTASVRADTYCRLYSLSVDNFNEVLEEYPMMRRAFETVAIDRLDR 635
               SCOP domains d3etqb_ B: automated matches                                                                                                                                                                     SCOP domains
               CATH domains 3etqB01 B:444-508 Helix hairpin bin                              3etqB02 B:509-635 Jelly Rolls                                                                                                   CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhheeeee....eee.......eeeeeee.eeeee..-...eeee...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)
                 3etq B 444 SSRRQYQEKYKQVEQYMSFHKLPADFRQKIHDYYEHRYQGKMFDEDSILGELNGPLREEIVNFNNRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHGVVSVLTK-NKEMKLSDGSYFGEISLLTRGRRTASVRADTYSRLYSLSVDNFNEVLEEYPMMRRAFETVAIDRLDR 635
                                   453       463       473       483       493       503       513       523       533       543       553       563   | | 573       583       593       603       613       623       633  
                                                                                                                                                     567 |                                                                  
                                                                                                                                                       569

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 '\|'

Asymmetric Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: All beta proteins (24004)

Fold: Double-stranded beta-helix (580)

Superfamily: cAMP-binding domain-like (99)

Family: cAMP-binding domain (78)

Protein domain: automated matches (22)

Mouse (Mus musculus) [TaxId: 10090] (3)

1a	d3etqa_	A:
1b	d3etqb_	B:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Alpha (13335)

Architecture: Orthogonal Bundle (10391)

Topology: Helix Hairpins (718)

Homologous Superfamily: Helix hairpin bin (8)

Mouse (Mus musculus) (2)

1a	3etqB01	B:444-508
1b	3etqA01	A:443-508

Class: Mainly Beta (13760)

Architecture: Sandwich (5577)

Topology: Jelly Rolls (1293)

Homologous Superfamily: Jelly Rolls (177)

Mouse (Mus musculus) (6)

2a	3etqA02	A:509-636
2b	3etqB02	B:509-635

(no "Pfam Domain" information available for 3ETQ)

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.

Asymmetric Unit
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	Cis Peptide Bonds
		Asn A:569 - Lys A:570	[ RasMol ]

Biological Unit
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	HCN2_MOUSE \| O88703	:	1q3e 1q43 1q5o 2q0a 3bpz 3ffq 4eqf 5jon 5khg 5khh 5khi 5khj 5khk

1q3e	HCN2J 443-645 IN THE PRESENCE OF CGMP
1q43	HCN2I 443-640 IN THE PRESENCE OF CAMP, SELENOMETHIONINE DERIVATIVE
1q5o	HCN2J 443-645 IN THE PRESENCE OF CAMP, SELENOMETHIONINE DERIVATIVE
2q0a	HCN2-I 443-460 I636D IN THE PRESENCE OF CAMP
3bpz	HCN2-I 443-460 E502K IN THE PRESENCE OF CAMP

Description

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Ligands, Modified Residues, Ions (1, 2)

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SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

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Exons (4, 8)

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