2CLN - JenaLib

Theoretical Model (Jmol Viewer)

Title :   TWO TRIFLUOPERAZINE-BINDING SITES ON CALMODULIN PREDICTED FROM COMPARATIVE MOLECULAR MODELLING WITH TROPONIN-C

Authors :   N. C. J. Strynadka, M. N. G. James

Date :   03 Feb 88 (Deposition) - 16 Jul 88 (Release) - 01 Apr 03 (Revision)

Method :   THEORETICAL MODEL

Resolution :   NOT APPLICABLE

Chains :   Theor. Model : A,_^#
( ^#: chains that contain no standard or modified protein/DNA/RNA residue)

Keywords :   Calcium Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   N. C. Strynadka, M. N. James
Two Trifluoperazine-Binding Sites On Calmodulin Predicted From Comparative Molecular Modeling With Troponin-C.
Proteins V. 3 1 1988
PubMed: search
(for further references see the PDB file header)

Molecule 1 - NZ115 TRIMETHYLCALMODULIN
	Chains	:	A
	Engineered	:	YES


Theoretical Model	:

( ^#: chains that contain no standard or modified protein/DNA/RNA residue)

Summary Information (see also Sequences/Alignments below)

Theoretical Model (3, 7)

No.	Name	Count	Type	Full Name
1	CA	4	Ligand/Ion	CALCIUM ION
2	TFP	2	Ligand/Ion	10-[3-(4-METHYL-PIPERAZIN-1-YL)-PROPYL]-2-TRIFLUOROMETHYL-10H-PHENOTHIAZINE
3	TML	1	Ligand/Ion	METHYL PART OF N-TRIMETHYLLYSINE

(no "Site" information available for 2CLN)

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

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

(no "SAP(SNP)/Variant" information available for 2CLN)

Theoretical Model (2, 8)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	EF_HAND_2	PS50222	EF-hand calcium-binding domain profile.	CALM_BOVIN	8-43 44-79 81-116 117-149	4	A:7-42 A:43-78 A:80-115 A:116-148
2	EF_HAND_1	PS00018	EF-hand calcium-binding domain.	CALM_BOVIN	21-33 57-69 94-106 130-142	4	A:20-32 A:56-68 A:93-105 A:130-141

Theoretical Model (5, 5)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.7	ENSBTAT00000019411	7	ENSBTAE00000320796	chr18:53531460-53531549	90	CALM_BOVIN	1-1	1	0	-	-
1.8	ENSBTAT00000019411	8	ENSBTAE00000157831	chr18:53535790-53535820	31	CALM_BOVIN	2-12	11	1	A:1-11	11
1.9	ENSBTAT00000019411	9	ENSBTAE00000428812	chr18:53537981-53538124	144	CALM_BOVIN	12-60	49	1	A:11-59	49
1.10	ENSBTAT00000019411	10	ENSBTAE00000416563	chr18:53538265-53538371	107	CALM_BOVIN	60-95	36	1	A:59-94	36
1.11	ENSBTAT00000019411	11	ENSBTAE00000389868	chr18:53538749-53538884	136	CALM_BOVIN	96-141	46	1	A:95-140	46
1.12	ENSBTAT00000019411	12	ENSBTAE00000245541	chr18:53538967-53540533	1567	CALM_BOVIN	141-149	9	1	A:140-148	9

Theoretical Model

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
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Chain A from PDB  Type:PROTEIN  Length:148
 aligned with CALM_BOVIN | P62157 from UniProtKB/Swiss-Prot  Length:149

    Alignment length:148
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141        
           CALM_BOVIN     2 ADQLTEEQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDFPEFLTMMARKMKDTDSEEEIREAFRVFDKDGNGYISAAELRHVMTNLGEKLTDEEVDEMIREADIDGDGQVNYEEFVQMMTAK 149
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
     Sec.struct. author (1) .....hhhhhhhhhhhhhhtttt..eeehhhhhhhhhhh.....hhhhhhhhhhhtttt..eeehhhhhhhhhhhhhhhhhhhhhhhhhhhhtttt..eeehhhhhhhhhhh.....hhhhhhhhhhhtttt..eeehhhhhhhhhhh Sec.struct. author (1)
     Sec.struct. author (2) ---------------------------tttt--------------------------------tttt---------------------------------tttt--------------------------------tttt-------- Sec.struct. author (2)
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ------EF_HAND_2  PDB: A:7-42 UniProt: 8-43EF_HAND_2  PDB: A:43-78             -EF_HAND_2  PDB: A:80-115            EF_HAND_2  PDB: A:116-148         PROSITE (1)
                PROSITE (2) -------------------EF_HAND_1    -----------------------EF_HAND_1    ------------------------EF_HAND_1    -----------------------EF_HAND_1    ------- PROSITE (2)
           Transcript 1 (1) Exon 1.8   -----------------------------------------------Exon 1.10  PDB: A:59-94             Exon 1.11  PDB: A:95-140 UniProt: 96-141      -------- Transcript 1 (1)
           Transcript 1 (2) ----------Exon 1.9  PDB: A:11-59 UniProt: 12-60            --------------------------------------------------------------------------------Exon 1.12 Transcript 1 (2)
                 2cln A   1 ADQLTEEQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDFPEFLTMMARKMKDTDSEEEIREAFRVFDKDGNGYISAAELRHVMTNLGEKLTDEEVDEMIREANIDGDGQVNYEEFVQMMTAK 148
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140

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 2CLN)

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

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

Theoretical Model(hide GO term definitions)

Chain A (CALM_BOVIN | P62157)

molecular function
	GO:0005509	calcium ion binding	Interacting selectively and non-covalently with calcium ions (Ca2+).
	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).
biological process
	GO:0038095	Fc-epsilon receptor signaling pathway	A series of molecular signals initiated by the binding of the Fc portion of immunoglobulin E (IgE) to an Fc-epsilon receptor on the surface of a signal-receiving cell, and ending with regulation of a downstream cellular process, e.g. transcription. The Fc portion of an immunoglobulin is its C-terminal constant region.
	GO:0000086	G2/M transition of mitotic cell cycle	The mitotic cell cycle transition by which a cell in G2 commits to M phase. The process begins when the kinase activity of M cyclin/CDK complex reaches a threshold high enough for the cell cycle to proceed. This is accomplished by activating a positive feedback loop that results in the accumulation of unphosphorylated and active M cyclin/CDK complex.
	GO:0006936	muscle contraction	A process in which force is generated within muscle tissue, resulting in a change in muscle geometry. 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.
	GO:0060315	negative regulation of ryanodine-sensitive calcium-release channel activity	Any process that decreases the activity of a ryanodine-sensitive calcium-release channel. The ryanodine-sensitive calcium-release channel catalyzes the transmembrane transfer of a calcium ion by a channel that opens when a ryanodine class ligand has been bound by the channel complex or one of its constituent parts.
	GO:0043388	positive regulation of DNA binding	Any process that increases the frequency, rate or extent of DNA binding. DNA binding is any process in which a gene product interacts selectively with DNA (deoxyribonucleic acid).
	GO:0060316	positive regulation of ryanodine-sensitive calcium-release channel activity	Any process that increases the activity of a ryanodine-sensitive calcium-release channel. The ryanodine-sensitive calcium-release channel catalyzes the transmembrane transfer of a calcium ion by a channel that opens when a ryanodine class ligand has been bound by the channel complex or one of its constituent parts.
	GO:0010880	regulation of release of sequestered calcium ion into cytosol by sarcoplasmic reticulum	Any process that modulates the rate, frequency or extent of release of sequestered calcium ion into cytosol by the sarcoplasmic reticulum, the process in which the release of sequestered calcium ion by sarcoplasmic reticulum into cytosol occurs via calcium release channels.
	GO:0022400	regulation of rhodopsin mediated signaling pathway	Any process that modulates the frequency, rate or extent of rhodopsin-mediated signaling.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0005856	cytoskeleton	Any of the various filamentous elements that form the internal framework of cells, and typically remain after treatment of the cells with mild detergent to remove membrane constituents and soluble components of the cytoplasm. The term embraces intermediate filaments, microfilaments, microtubules, the microtrabecular lattice, and other structures characterized by a polymeric filamentous nature and long-range order within the cell. The various elements of the cytoskeleton not only serve in the maintenance of cellular shape but also have roles in other cellular functions, including cellular movement, cell division, endocytosis, and movement of organelles.
	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:0005819	spindle	The array of microtubules and associated molecules that forms between opposite poles of a eukaryotic cell during mitosis or meiosis and serves to move the duplicated chromosomes apart.
	GO:0000922	spindle pole	Either of the ends of a spindle, where spindle microtubules are organized; usually contains a microtubule organizing center and accessory molecules, spindle microtubules and astral microtubules.
	GO:0008076	voltage-gated potassium channel complex	A protein complex that forms a transmembrane channel through which potassium ions may cross a cell membrane in response to changes in membrane potential.

Theoretical Model
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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 7)

Sites (0, 0)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (2, 8)

Exons (5, 5)

Sequences/Alignments

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SCOP Domains (0, 0)

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Gene Ontology (17, 17)

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