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NMR Structure - model 1 (Jmol Viewer)

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Title :   STRUCTURE OF THE C-DOMAIN OF HUMAN CARDIAC TROPONIN C IN COMPLEX WITH CA2+ SENSITIZER EMD 57033

Authors :   X. Wang, M. X. Li, L. Spyracopoulos, N. Beier, M. Chandra, R. J. Solaro, B. D. Sykes

Date :   18 Apr 01 (Deposition) - 10 Oct 01 (Release) - 24 Feb 09 (Revision)

Method :   SOLUTION NMR

Resolution :   NOT APPLICABLE

Chains :   NMR Structure  : A  (30x)

Keywords :   Ca2+ Binding Protein, Ca2+ Sensitizer, , Contractile Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   X. Wang, M. X. Li, L. Spyracopoulos, N. Beier, M. Chandra, R. J. Solaro, B. D. Sykes
Structure Of The C-Domain Of Human Cardiac Troponin C In Complex With The Ca2+ Sensitizing Drug Emd 57033.
J. Biol. Chem. V. 276 25456 2001
PubMed-ID: 11320096 | Reference-DOI: 10.1074/JBC.M102418200
(for further references see the PDB file header)

Molecule 1 - TROPONIN C, SLOW SKELETAL AND CARDIAC MUSCLES
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET3C
	Expression System Strain	:	BL21(DE3)PLYS
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Fragment	:	C-TERMINAL DOMAIN (RESIDUES 91-161)
	Gene	:	CTNC
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	TN-C


NMR Structure (30x)	:

Summary Information (see also Sequences/Alignments below)

NMR Structure (2, 3)

No.	Name	Count	Type	Full Name
1	CA	2	Ligand/Ion	CALCIUM ION
2	EMD	1	Ligand/Ion	5-[1-(3,4-DIMETHOXY-BENZOYL)-1,2,3,4-TETRAHYDRO-QUINOLIN-6-YL]-6-METHYL-3,6-DIHYDRO-[1,3,4]THIADIAZIN-2-ONE

NMR Structure (3, 3)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASP A:105 , LYS A:106 , ASN A:107 , ASP A:109 , TYR A:111 , GLU A:116	BINDING SITE FOR RESIDUE CA A 2
2	AC2	SOFTWARE	ASP A:141 , ASN A:143 , ASP A:145 , ARG A:147 , ASP A:149 , GLU A:152	BINDING SITE FOR RESIDUE CA A 3
3	AC3	SOFTWARE	PHE A:104 , LEU A:121 , THR A:124 , LEU A:136 , GLY A:140 , ILE A:148 , PHE A:153 , PHE A:156 , MET A:157 , VAL A:160 , GLU A:161	BINDING SITE FOR RESIDUE EMD A 1

(no "SS Bond" information available for 1IH0)

(no "Cis Peptide Bond" information available for 1IH0)

NMR Structure (3, 3)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_063072	E	134	D	TNNC1_HUMAN	Disease (CMH13)	397516847	A	E	134	D
2	UniProt	VAR_063073	D	145	E	TNNC1_HUMAN	Disease (CMH13)	267607124	A	D	145	E
3	UniProt	VAR_043988	G	159	R	TNNC1_HUMAN	Disease (CMD1Z)	---	A	G	159	R

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.	TNNC1_HUMAN	33-51 52-87 92-127 128-161	2	- - A:92-127 A:128-161
2	EF_HAND_1	PS00018	EF-hand calcium-binding domain.	TNNC1_HUMAN	65-77 105-117 141-153	2	- A:105-117 A:141-153

NMR Structure (3, 3)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1	ENST00000232975	1	ENSE00001063786	chr3:52488086-52488008	79	TNNC1_HUMAN	1-8	8	0	-	-
1.2b	ENST00000232975	2b	ENSE00000770833	chr3:52486529-52486499	31	TNNC1_HUMAN	9-19	11	0	-	-
1.3	ENST00000232975	3	ENSE00000770832	chr3:52486268-52486122	147	TNNC1_HUMAN	19-68	50	0	-	-
1.4b	ENST00000232975	4b	ENSE00000770831	chr3:52485874-52485760	115	TNNC1_HUMAN	68-106	39	1	A:91-106	16
1.5c	ENST00000232975	5c	ENSE00000770830	chr3:52485543-52485407	137	TNNC1_HUMAN	106-152	47	1	A:106-152	47
1.6	ENST00000232975	6	ENSE00001063787	chr3:52485322-52485118	205	TNNC1_HUMAN	152-161	10	1	A:152-161	10

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:71
 aligned with TNNC1_HUMAN | P63316 from UniProtKB/Swiss-Prot  Length:161

    Alignment length:71
                                   100       110       120       130       140       150       160 
          TNNC1_HUMAN    91 GKSEEELSDLFRMFDKNADGYIDLDELKIMLQATGETITEDDIEELMKDGDKNNDGRIDYDEFLEFMKGVE 161
               SCOP domains d1ih0a_ A: Troponin C                                                   SCOP domains
               CATH domains 1ih0A00 A:91-161 EF-hand                                                CATH domains
               Pfam domains ----------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhh......eehhhhhhhhhhhhh..hhhhhhhhhhh.......ee..hhhhhhh.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------D----------E-------------R-- SAPs(SNPs)
                PROSITE (1) -EF_HAND_2  PDB: A:92-127            EF_HAND_2  PDB: A:128-161          PROSITE (1)
                PROSITE (2) --------------EF_HAND_1    -----------------------EF_HAND_1    -------- PROSITE (2)
           Transcript 1 (1) Exon 1.4b       ---------------------------------------------Exon 1.6   Transcript 1 (1)
           Transcript 1 (2) ---------------Exon 1.5c  PDB: A:106-152 UniProt: 106-152     --------- Transcript 1 (2)
                 1ih0 A  91 GKSEEELSDLFRMFDKNADGYIDLEELKIMLQATGETITEDDIEELMKDGDKNNDGRIDYDEFLEFMKGVE 161
                                   100       110       120       130       140       150       160

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 '\|'

NMR Structure

Classes(

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Folds(

)

Superfamilies( (-)

)

Families(

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Protein Domains( (-)

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Organisms( (-)

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Class: All alpha proteins (14657)

Fold: EF Hand-like (739)

Superfamily: EF-hand (657)

Family: Calmodulin-like (356)

Protein domain: Troponin C (53)

Human (Homo sapiens), cardiac isoform [TaxId: 9606] (16)

d1ih0a_

NMR Structure

Classes(

)

Architectures( (-)

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Topologies( (-)

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Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Alpha (13335)

Architecture: Orthogonal Bundle (10391)

Topology: Recoverin; domain 1 (474)

Homologous Superfamily: EF-hand (412)

Human (Homo sapiens) (106)

1ih0A00

A:91-161

(no "Pfam Domain" information available for 1IH0)

NMR Structure(hide GO term definitions)

Chain A (TNNC1_HUMAN | P63316)

molecular function
	GO:0051015	actin filament binding	Interacting selectively and non-covalently with an actin filament, also known as F-actin, a helical filamentous polymer of globular G-actin subunits.
	GO:0005509	calcium ion binding	Interacting selectively and non-covalently with calcium ions (Ca2+).
	GO:0048306	calcium-dependent 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), in the presence of calcium.
	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:0042803	protein homodimerization activity	Interacting selectively and non-covalently with an identical protein to form a homodimer.
	GO:0031013	troponin I binding	Interacting selectively and non-covalently with troponin I, the inhibitory subunit of the troponin complex.
	GO:0031014	troponin T binding	Interacting selectively and non-covalently with troponin T, the tropomyosin-binding subunit of the troponin complex.
biological process
	GO:0060048	cardiac muscle contraction	Muscle contraction of cardiac muscle tissue.
	GO:0002086	diaphragm contraction	A process in which force is generated within involuntary skeletal muscle tissue, resulting in a change in muscle geometry. This process occurs in the diaphragm. Force generation involves a chemo-mechanical energy conversion step that is carried out by the actin/myosin complex activity, which generates force through ATP hydrolysis. The diaphragm is a striated muscle that is necessary for the process of respiratory gaseous exchange.
	GO:0030049	muscle filament sliding	The sliding of actin thin filaments and myosin thick filaments past each other in muscle contraction. This involves a process of interaction of myosin located on a thick filament with actin located on a thin filament. During this process ATP is split and forces are generated.
	GO:0043462	regulation of ATPase activity	Any process that modulates the rate of ATP hydrolysis by an ATPase.
	GO:0006937	regulation of muscle contraction	Any process that modulates the frequency, rate or extent of muscle contraction.
	GO:0032972	regulation of muscle filament sliding speed	Any process that modulates the velocity of muscle filament sliding.
	GO:0010038	response to metal ion	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a metal ion stimulus.
	GO:0014883	transition between fast and slow fiber	The process of conversion of fast-contracting muscle fibers to a slower character. This may involve slowing of contractile rate, slow myosin gene induction, increase in oxidative metabolic properties, altered electrophysiology and altered innervation. This process also regulates skeletal muscle adapatation.
	GO:0055010	ventricular cardiac muscle tissue morphogenesis	The process in which the anatomical structures of cardiac ventricle muscle is generated and organized.
cellular component
	GO:0015629	actin cytoskeleton	The part of the cytoskeleton (the internal framework of a cell) composed of actin and associated proteins. Includes actin cytoskeleton-associated complexes.
	GO:0043292	contractile fiber	Fibers, composed of actin, myosin, and associated proteins, found in cells of smooth or striated muscle.
	GO:0005829	cytosol	The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
	GO:0005739	mitochondrion	A semiautonomous, self replicating organelle that occurs in varying numbers, shapes, and sizes in the cytoplasm of virtually all eukaryotic cells. It is notably the site of tissue respiration.
	GO:0005654	nucleoplasm	That part of the nuclear content other than the chromosomes or the nucleolus.
	GO:0005861	troponin complex	A complex of accessory proteins (typically troponin T, troponin I and troponin C) found associated with actin in muscle thin filaments; involved in calcium regulation of muscle contraction.

NMR Structure
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1aj4	STRUCTURE OF CALCIUM-SATURATED CARDIAC TROPONIN C, NMR, 1 STRUCTURE

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 3)

Sites (3, 3)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (3, 3)

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Exons (3, 3)

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SCOP Domains (1, 1)

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Gene Ontology (23, 23)

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