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NMR Structure - model 1 (Jmol Viewer)

NMR Structure - model 1, sites (Jmol Viewer)

NMR Structure - all models (Jmol Viewer)

Title :   NMR SOLUTION STRUCTURE OF A CA2+-CALMODULIN WITH A BINDING MOTIF (NSCATE) PEPTIDE FROM THE N-TERMINAL CYTOPLASMIC DOMAIN OF THE L-TYPE VOLTAGE-CATED CALCIUM CHANNEL ALPHA1C SUBUNIT

Authors :   Z. Liu

Date :   29 Feb 12 (Deposition) - 06 Jun 12 (Release) - 06 Jun 12 (Revision)

Method :   SOLUTION NMR

Resolution :   NOT APPLICABLE

Chains :   NMR Structure  : A,B  (20x)
NMR Structure *: A,B  (1x)

Keywords :   Metal Binding Protein-Transport Protein Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Z. Liu, H. J. Vogel
Structural Basis For The Regulation Of L-Type Voltage-Gated Calcium Channels: Interactions Between The N-Terminal Cytoplasmic Domain And Ca(2+)-Calmodulin.
Front Mol Neurosci V. 5 38 2012
PubMed-ID: 22518098 | Reference-DOI: 10.3389/FNMOL.2012.00038

Molecule 1 - CALMODULIN
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Expression System Vector	:	PET30B+
	Fragment	:	EF-HANDS 1 AND 2
	Gene	:	CALM1, CALM, CAM, CAM1, CALM2, CAM2, CAMB, CALM3, CALML2, CAM3, CAMC, CAMIII
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	CAM

Molecule 2 - VOLTAGE-DEPENDENT L-TYPE CALCIUM CHANNEL SUBUNIT ALPHA-1C
	Chains	:	B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Expression System Vector	:	PET15B
	Fragment	:	UNP RESIDUES 47-68
	Gene	:	CACNA1C, CACH2, CACN2, CACNL1A1, CCHL1A1
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	CALCIUM CHANNEL, L TYPE, ALPHA-1 POLYPEPTIDE, ISOFORM 1, CARDIAC MUSCLE, VOLTAGE-GATED CALCIUM CHANNEL SUBUNIT ALPHA CAV1.2

		1	2
NMR Structure (20x)	:	A	B
NMR Structure * (1x)	:	A	B

Summary Information (see also Sequences/Alignments below)

NMR Structure (1, 2)

No.	Name	Count	Type	Full Name
1	CA	2	Ligand/Ion	CALCIUM ION

NMR Structure * (0, 0)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION

NMR Structure (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASP A:22 , ASP A:24 , THR A:26 , THR A:28 , GLU A:31	BINDING SITE FOR RESIDUE CA A 101
2	AC2	SOFTWARE	ALA A:57 , ASP A:58 , THR A:62 , ASP A:64 , GLU A:67	BINDING SITE FOR RESIDUE CA A 102

(no "SS Bond" information available for 2LQC)

(no "Cis Peptide Bond" information available for 2LQC)

NMR Structure (1, 1)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_069222	N	54	I	CALM1_HUMAN	Disease (CPVT4)	267607276	A	N	53	I

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

NMR Structure * (1, 1)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_069222	N	54	I	CALM1_HUMAN	Disease (CPVT4)	267607276	A	N	53	I

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

NMR Structure (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	EF_HAND_2	PS50222	EF-hand calcium-binding domain profile.	CALM1_HUMAN	8-43 44-79 81-116 117-149	2	A:7-42 A:43-77 - -
				CALM2_HUMAN	8-43 44-79 81-116 117-149	2	A:7-42 A:43-77 - -
				CALM3_HUMAN	8-43 44-79 81-116 117-149	2	A:7-42 A:43-77 - -
2	EF_HAND_1	PS00018	EF-hand calcium-binding domain.	CALM1_HUMAN	21-33 57-69 94-106 130-142	2	A:20-32 A:56-68 - -
				CALM2_HUMAN	21-33 57-69 94-106 130-142	2	A:20-32 A:56-68 - -
				CALM3_HUMAN	21-33 57-69 94-106 130-142	2	A:20-32 A:56-68 - -

NMR Structure * (2, 12)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	EF_HAND_2	PS50222	EF-hand calcium-binding domain profile.	CALM1_HUMAN	8-43 44-79 81-116 117-149	2	A:7-42 A:43-77 - -
				CALM2_HUMAN	8-43 44-79 81-116 117-149	2	A:7-42 A:43-77 - -
				CALM3_HUMAN	8-43 44-79 81-116 117-149	2	A:7-42 A:43-77 - -
2	EF_HAND_1	PS00018	EF-hand calcium-binding domain.	CALM1_HUMAN	21-33 57-69 94-106 130-142	2	A:20-32 A:56-68 - -
				CALM2_HUMAN	21-33 57-69 94-106 130-142	2	A:20-32 A:56-68 - -
				CALM3_HUMAN	21-33 57-69 94-106 130-142	2	A:20-32 A:56-68 - -

(no "Exon" information available for 2LQC)

NMR Structure

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:77
 aligned with CALM1_HUMAN | P0DP23 from UniProtKB/Swiss-Prot  Length:149

    Alignment length:77
                                    11        21        31        41        51        61        71       
           CALM1_HUMAN    2 ADQLTEEQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDFPEFLTMMARKMK 78
               SCOP domains ----------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhh......eehhhhhhhhhhh....hhhhhhhhhhhhh.....eehhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------I------------------------ SAPs(SNPs)
                PROSITE (1) ------EF_HAND_2  PDB: A:7-42 UniProt: 8-43EF_HAND_2  PDB: A:43-77             PROSITE (1)
                PROSITE (2) ----------------------------------------------------------------------------- PROSITE (2)
                PROSITE (3) ----------------------------------------------------------------------------- PROSITE (3)
                PROSITE (4) -------------------EF_HAND_1    -----------------------EF_HAND_1    --------- PROSITE (4)
                 Transcript ----------------------------------------------------------------------------- Transcript
                  2lqc A  1 ADQLTEEQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDFPEFLTMMARKMK 77
                                    10        20        30        40        50        60        70

Chain A from PDB  Type:PROTEIN  Length:77
 aligned with CALM2_HUMAN | P0DP24 from UniProtKB/Swiss-Prot  Length:149

    Alignment length:77
                                    11        21        31        41        51        61        71       
           CALM2_HUMAN    2 ADQLTEEQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDFPEFLTMMARKMK 78
               SCOP domains ----------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhh......eehhhhhhhhhhh....hhhhhhhhhhhhh.....eehhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------I------------------------ SAPs(SNPs)
                PROSITE (2) ----------------------------------------------------------------------------- PROSITE (2)
                PROSITE (3) ------EF_HAND_2  PDB: A:7-42 UniProt: 8-43EF_HAND_2  PDB: A:43-77             PROSITE (3)
                PROSITE (4) ----------------------------------------------------------------------------- PROSITE (4)
                PROSITE (5) ----------------------------------------------------------------------------- PROSITE (5)
                PROSITE (6) -------------------EF_HAND_1    -----------------------EF_HAND_1    --------- PROSITE (6)
                 Transcript ----------------------------------------------------------------------------- Transcript
                  2lqc A  1 ADQLTEEQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDFPEFLTMMARKMK 77
                                    10        20        30        40        50        60        70

Chain A from PDB  Type:PROTEIN  Length:77
 aligned with CALM3_HUMAN | P0DP25 from UniProtKB/Swiss-Prot  Length:149

    Alignment length:77
                                    11        21        31        41        51        61        71       
           CALM3_HUMAN    2 ADQLTEEQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDFPEFLTMMARKMK 78
               SCOP domains ----------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhh......eehhhhhhhhhhh....hhhhhhhhhhhhh.....eehhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------I------------------------ SAPs(SNPs)
                PROSITE (2) ------EF_HAND_2  PDB: A:7-42 UniProt: 8-43EF_HAND_2  PDB: A:43-77             PROSITE (2)
                PROSITE (3) ----------------------------------------------------------------------------- PROSITE (3)
                PROSITE (4) ----------------------------------------------------------------------------- PROSITE (4)
                PROSITE (5) -------------------EF_HAND_1    -----------------------EF_HAND_1    --------- PROSITE (5)
                 Transcript ----------------------------------------------------------------------------- Transcript
                  2lqc A  1 ADQLTEEQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDFPEFLTMMARKMK 77
                                    10        20        30        40        50        60        70

Chain B from PDB  Type:PROTEIN  Length:24
 aligned with CAC1C_HUMAN | Q13936 from UniProtKB/Swiss-Prot  Length:2221

    Alignment length:52
                                    26        36        46        56        66  
           CAC1C_HUMAN   17 GSNYGSPRPAHANMNANAAAGLAPEHIPTPGAALSWQAAIDAARQAKLMGSA 68
               SCOP domains ---------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------- Pfam domains
         Sec.struct. author ..----------------------------hhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------- Transcript
                  2lqc B 45 GT----------------------------GAALSWQAAIDAARQAKLMGSA 68
                             |       -         -         -|       56        66  
                             |                           47                     
                            46

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 '\|'

(no "SCOP Domain" information available for 2LQC)

(no "CATH Domain" information available for 2LQC)

(no "Pfam Domain" information available for 2LQC)

NMR Structure(hide GO term definitions)

Chain A (CALM2_HUMAN | P0DP24)

Chain A (CALM3_HUMAN | P0DP25)

Chain A (CALM1_HUMAN | P0DP23)

Chain B (CAC1C_HUMAN | Q13936)

molecular function
	GO:0051393	alpha-actinin binding	Interacting selectively and non-covalently with alpha-actinin, one of a family of proteins that cross-link F-actin as antiparallel homodimers. Alpha-actinin has a molecular mass of 93-103 KDa; at the N-terminus there are two calponin homology domains, at the C-terminus there are two EF-hands. These two domains are connected by the rod domain. This domain is formed by triple-helical spectrin repeats.
	GO:0005262	calcium channel activity	Enables the facilitated diffusion of a calcium ion (by an energy-independent process) involving passage through a transmembrane aqueous pore or channel without evidence for a carrier-mediated mechanism.
	GO:0005516	calmodulin binding	Interacting selectively and non-covalently with calmodulin, a calcium-binding protein with many roles, both in the calcium-bound and calcium-free states.
	GO:0008331	high voltage-gated calcium channel activity	Enables the transmembrane transfer of a calcium ion by a high voltage-gated channel. A high voltage-gated channel is a channel whose open state is dependent on high voltage across the membrane in which it is embedded.
	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:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	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:0005245	voltage-gated calcium channel activity	Enables the transmembrane transfer of a calcium 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:0086056	voltage-gated calcium channel activity involved in AV node cell action potential	Enables the transmembrane transfer of a calcium ion by a voltage-gated channel across the plasma membrane of an AV node cardiac muscle cell that contributes to the depolarization phase of an action potential. A voltage-gated channel is a channel whose open state is dependent on the voltage across the membrane in which it is embedded.
	GO:0086007	voltage-gated calcium channel activity involved in cardiac muscle cell action potential	Enables the transmembrane transfer of a calcium ion by a voltage-gated channel across the plasma membrane of a cardiac muscle cell that contributes to the depolarization phase of an action potential. A voltage-gated channel is a channel whose open state is dependent on the voltage across the membrane in which it is embedded.
	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.
biological process
	GO:0070588	calcium ion transmembrane transport	A process in which a calcium ion is transported from one side of a membrane to the other by means of some agent such as a transporter or pore.
	GO:0061577	calcium ion transmembrane transport via high voltage-gated calcium channel	A process in which a calcium ion is transported from one side of a membrane to the other by means of a high voltage-gated calcium channel.
	GO:0006816	calcium ion transport	The directed movement of calcium (Ca) ions into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
	GO:0060402	calcium ion transport into cytosol	The directed movement of calcium ions (Ca2+) into the cytosol.
	GO:0035585	calcium-mediated signaling using extracellular calcium source	A series of molecular signals in which a cell uses calcium ions imported from an extracellular source to convert a signal into a response.
	GO:0043010	camera-type eye development	The process whose specific outcome is the progression of the camera-type eye over time, from its formation to the mature structure. The camera-type eye is an organ of sight that receives light through an aperture and focuses it through a lens, projecting it on a photoreceptor field.
	GO:0061337	cardiac conduction	Transfer of an organized electrical impulse across the heart to coordinate the contraction of cardiac muscles. The process begins with generation of an action potential (in the sinoatrial node (SA) in humans) and ends with a change in the rate, frequency, or extent of the contraction of the heart muscles.
	GO:0086002	cardiac muscle cell action potential involved in contraction	An action potential that occurs in a cardiac muscle cell and is involved in its contraction.
	GO:0086064	cell communication by electrical coupling involved in cardiac conduction	The process that mediates signaling interactions between one cell and another cell by transfer of current between their adjacent cytoplasms via intercellular protein channels and contributes to the process of cardiac conduction.
	GO:0035115	embryonic forelimb morphogenesis	The process, occurring in the embryo, by which the anatomical structures of the forelimb are generated and organized. The forelimbs are the front limbs of an animal, e.g. the arms of a human.
	GO:0007507	heart development	The process whose specific outcome is the progression of the heart over time, from its formation to the mature structure. The heart is a hollow, muscular organ, which, by contracting rhythmically, keeps up the circulation of the blood.
	GO:0002520	immune system development	The process whose specific outcome is the progression of an organismal system whose objective is to provide calibrated responses by an organism to a potential internal or invasive threat, over time, from its formation to the mature structure. A system is a regularly interacting or interdependent group of organs or tissues that work together to carry out a given biological process.
	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:0086045	membrane depolarization during AV node cell action potential	The process in which AV node cardiac muscle cell membrane potential changes in the depolarizing direction from the negative resting potential towards the positive membrane potential that will be the peak of the action potential.
	GO:0098912	membrane depolarization during atrial cardiac muscle cell action potential	The process in which atrial cardiac muscle cell membrane potential changes in the depolarizing direction from the negative resting potential towards the positive membrane potential that will be the peak of the action potential.
	GO:0086012	membrane depolarization during cardiac muscle cell action potential	The process in which cardiac muscle cell membrane potential changes in the depolarizing direction from the negative resting potential towards the positive membrane potential that will be the peak of the action potential.
	GO:0007204	positive regulation of cytosolic calcium ion concentration	Any process that increases the concentration of calcium ions in the cytosol.
	GO:0010881	regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion	Any process that modulates the frequency, rate or extent of cardiac muscle contraction via the regulation of the release of sequestered calcium ion by sarcoplasmic reticulum into cytosol. The sarcoplasmic reticulum is the endoplasmic reticulum of striated muscle, specialised for the sequestration of calcium ions that are released upon receipt of a signal relayed by the T tubules from the neuromuscular junction.
	GO:0086091	regulation of heart rate by cardiac conduction	A cardiac conduction process that modulates the frequency or rate of heart contraction.
	GO:0050796	regulation of insulin secretion	Any process that modulates the frequency, rate or extent of the regulated release of insulin.
	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:0098911	regulation of ventricular cardiac muscle cell action potential	Any process that modulates the frequency, rate or extent of action potential creation, propagation or termination in a ventricular cardiac muscle cell contributing to the regulation of its contraction. This typically occurs via modulation of the activity or expression of voltage-gated ion channels.
	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:1990454	L-type voltage-gated calcium channel complex	A type of voltage-dependent calcium channel responsible for excitation-contraction coupling of skeletal, smooth, and cardiac muscle. 'L' stands for 'long-lasting' referring to the length of activation.
	GO:0030018	Z disc	Platelike region of a muscle sarcomere to which the plus ends of actin filaments are attached.
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	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: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.
	GO:0014069	postsynaptic density of dendrite	An electron dense network of proteins within and adjacent to the postsynaptic membrane of the dendrite of asymetric synapses. Its major components include neurotransmitter receptors and the proteins that spatially and functionally organize them such as anchoring and scaffolding molecules, signaling enzymes and cytoskeletal components.
	GO:0005891	voltage-gated calcium channel complex	A protein complex that forms a transmembrane channel through which calcium ions may pass in response to changes in membrane potential.

NMR Structure
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Description

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Ligands, Modified Residues, Ions (1, 2)

Sites (2, 2)

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