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Title :   MOLECULAR BASIS FOR MULTIPLE LIGAND BINDING OF CALSEQUESTRIN AND POTENTIAL INHIBITION BY CAFFEINE AND GALLOCATECIN

Authors :   A. K. Subramanian, M. N. Nissen, K. M. Lewis, E. J. Sanchez, A. K. Muralid C. Kang

Date :   10 Dec 11 (Deposition) - 12 Dec 12 (Release) - 12 Dec 12 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.91

Chains :   Asym. Unit : A
Biol. Unit 1: A  (1x)
Biol. Unit 2: A  (2x)

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

Reference :   A. K. Subramanian, M. N. Nissen, K. M. Lewis, E. J. Sanchez, A. K. Muralidharan, C. Kang
Molecular Basis For Multiple Ligand Binding Of Calsequestri And Potential Inhibition By Caffeine And Gallocatecin
To Be Published
PubMed: search

Molecule 1 - CALSEQUESTRIN-1
	Chains	:	A
	Organism Common	:	EUROPEAN RABBIT,JAPANESE WHITE RABBIT,DOMESTIC RABBIT,RABBITS
	Organism Scientific	:	ORYCTOLAGUS CUNICULUS
	Organism Taxid	:	9986
	Synonym	:	ASPARTACTIN, CALSEQUESTRIN, SKELETAL MUSCLE ISOFORM, LAMININ-BINDING PROTEIN

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (5, 11)

No.	Name	Count	Type	Full Name
1	CA	4	Ligand/Ion	CALCIUM ION
2	MPD	2	Ligand/Ion	(4S)-2-METHYL-2,4-PENTANEDIOL
3	MRD	1	Ligand/Ion	(4R)-2-METHYLPENTANE-2,4-DIOL
4	NA	2	Ligand/Ion	SODIUM ION
5	NAG	2	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE

Biological Unit 1 (3, 5)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION
2	MPD	2	Ligand/Ion	(4S)-2-METHYL-2,4-PENTANEDIOL
3	MRD	1	Ligand/Ion	(4R)-2-METHYLPENTANE-2,4-DIOL
4	NA	-1	Ligand/Ion	SODIUM ION
5	NAG	2	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE

Biological Unit 2 (3, 10)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION
2	MPD	4	Ligand/Ion	(4S)-2-METHYL-2,4-PENTANEDIOL
3	MRD	2	Ligand/Ion	(4R)-2-METHYLPENTANE-2,4-DIOL
4	NA	-1	Ligand/Ion	SODIUM ION
5	NAG	4	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE

Asymmetric Unit (11, 11)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ASN A:316 , ASP A:319 , NAG A:402 , HOH A:661	BINDING SITE FOR RESIDUE NAG A 401
02	AC2	SOFTWARE	NAG A:401	BINDING SITE FOR RESIDUE NAG A 402
03	AC3	SOFTWARE	PHE A:6 , PRO A:7 , TRP A:242 , TYR A:298 , TRP A:299	BINDING SITE FOR RESIDUE MPD A 403
04	AC4	SOFTWARE	ASN A:279 , GLU A:344	BINDING SITE FOR RESIDUE MPD A 404
05	AC5	SOFTWARE	GLN A:63 , LEU A:294 , LEU A:295 , HOH A:558 , HOH A:561 , HOH A:801	BINDING SITE FOR RESIDUE MRD A 405
06	AC6	SOFTWARE	ASN A:17 , VAL A:18 , LEU A:74 , LYS A:79 , ASP A:80 , HOH A:501	BINDING SITE FOR RESIDUE CA A 406
07	AC7	SOFTWARE	GLU A:199 , THR A:229 , THR A:277 , HOH A:875	BINDING SITE FOR RESIDUE CA A 407
08	AC8	SOFTWARE	THR A:189 , HOH A:520 , HOH A:581 , HOH A:621 , HOH A:876	BINDING SITE FOR RESIDUE CA A 408
09	AC9	SOFTWARE	ASP A:210 , PRO A:212 , GLU A:217 , HOH A:660 , HOH A:943 , HOH A:1008	BINDING SITE FOR RESIDUE CA A 409
10	BC1	SOFTWARE	PRO A:172 , HOH A:856 , HOH A:865 , HOH A:874 , HOH A:924 , HOH A:1007	BINDING SITE FOR RESIDUE NA A 410
11	BC2	SOFTWARE	GLY A:248 , ASN A:316 , THR A:318 , HOH A:1009	BINDING SITE FOR RESIDUE NA A 411

(no "SS Bond" information available for 3V1W)

Asymmetric Unit

No.	Residues
1	His A:171	-	Pro A:172
2	Lys A:211	-	Pro A:212

(no "SAP(SNP)/Variant" information available for 3V1W)

Asymmetric Unit (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	CALSEQUESTRIN_2	PS00864	Calsequestrin signature 2.	CASQ1_RABIT	366-385	1	A:338-350

Biological Unit 1 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	CALSEQUESTRIN_2	PS00864	Calsequestrin signature 2.	CASQ1_RABIT	366-385	1	A:338-350

Biological Unit 2 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	CALSEQUESTRIN_2	PS00864	Calsequestrin signature 2.	CASQ1_RABIT	366-385	2	A:338-350

(no "Exon" information available for 3V1W)

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
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Chain A from PDB  Type:PROTEIN  Length:349
 aligned with CASQ1_RABIT | P07221 from UniProtKB/Swiss-Prot  Length:395

    Alignment length:349
                                    39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369         
          CASQ1_RABIT    30 EGLDFPEYDGVDRVINVNAKNYKNVFKKYEVLALLYHEPPEDDKASQRQFEMEELILELAAQVLEDKGVGFGLVDSEKDAAVAKKLGLTEEDSIYVFKEDEVIEYDGEFSADTLVEFLLDVLEDPVELIEGERELQAFENIEDEIKLIGYFKNKDSEHYKAFKEAAEEFHPYIPFFATFDSKVAKKLTLKLNEIDFYEAFMEEPVTIPDKPNSEEEIVNFVEEHRRSTLRKLKPESMYETWEDDMDGIHIVAFAEEADPDGYEFLEILKSVAQDNTDNPDLSIIWIDPDDFPLLVPYWEKTFDIDLSAPQIGVVNVTDADSVWMEMDDEEDLPSAEELEDWLEDVLEGE 378
               SCOP domains d3v1wa1 A:2-126 Calsequestrin                                                                                                d3v1wa2 A:127-228 Calsequestrin                                                                       d3v1wa3 A:229-350 Calsequestrin                                                                                            SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..............ee....hhhhhhhhh.eeeeeee.....hhhhhhhhhhhhhhhhhhhhhh....eeeeeee...hhhhhhhhh.....eeeeee..eeee.....hhhhhhhhhhhhhh..eee..hhhhhhhhhhh....eeeee.....hhhhhhhhhhhhhhh....eeee.hhhhhhhhh.....eeee.......ee......hhhhhhhhhhhh....eee.hhhhhhhhhhh....eeeeee....hhhhhhhhhhhhhhhhhh.......eeeehhhhh..hhhhhhhhhh......eeeeee.....eee..........hhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CALSEQUESTRIN PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3v1w A   2 EGLDFPEYDGVDRVINVNAKNYKNVFKKYEVLALLYHEPPEDDKASQRQFEMEELILELAAQVLEDKGVGFGLVDSEKDAAVAKKLGLTEEDSIYVFKEDEVIEYDGEFSADTLVEFLLDVLEDPVELIEGERELQAFENIEDEIKLIGYFKNKDSEHYKAFKEAAEEFHPYIPFFATFDSKVAKKLTLKLNEIDFYEAFMEEPVTIPDKPNSEEEIVNFVEEHRRSTLRKLKPESMYETWEDDMDGIHIVAFAEEADPDGYEFLEILKSVAQDNTDNPDLSIIWIDPDDFPLLVPYWEKTFDIDLSAPQIGVVNVTDADSVWMEMDDEEDLPSAEELEDWLEDVLEGE 350
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341

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: Alpha and beta proteins (a/b) (23833)

Fold: Thioredoxin fold (994)

Superfamily: Thioredoxin-like (992)

Family: Calsequestrin (3)

Protein domain: Calsequestrin (3)

Rabbit (Oryctolagus cuniculus) [TaxId: 9986] (3)

1a	d3v1wa1	A:2-126
1b	d3v1wa2	A:127-228
1c	d3v1wa3	A:229-350

(no "CATH Domain" information available for 3V1W)

(no "Pfam Domain" information available for 3V1W)

Asymmetric Unit(hide GO term definitions)

Chain A (CASQ1_RABIT | P07221)

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.
biological process
	GO:0051258	protein polymerization	The process of creating protein polymers, compounds composed of a large number of component monomers; polymeric proteins may be made up of different or identical monomers. Polymerization occurs by the addition of extra monomers to an existing poly- or oligomeric protein.
	GO:0014809	regulation of skeletal muscle contraction by regulation of release of sequestered calcium ion	Any process that modulates the frequency, rate or extent of skeletal 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:0045214	sarcomere organization	The myofibril assembly process that results in the organization of muscle actomyosin into sarcomeres. The sarcomere is the repeating unit of a myofibril in a muscle cell, composed of an array of overlapping thick and thin filaments between two adjacent Z discs.
cellular component
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
	GO:0005759	mitochondrial matrix	The gel-like material, with considerable fine structure, that lies in the matrix space, or lumen, of a mitochondrion. It contains the enzymes of the tricarboxylic acid cycle and, in some organisms, the enzymes concerned with fatty acid oxidation.
	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:0016529	sarcoplasmic reticulum	A fine reticular network of membrane-limited elements that pervades the sarcoplasm of a muscle cell; continuous over large portions of the cell and with the nuclear envelope; that part of the endoplasmic reticulum specialized for calcium release, uptake and storage.
	GO:0033018	sarcoplasmic reticulum lumen	The volume enclosed by the membranes of the sarcoplasmic reticulum.
	GO:0033017	sarcoplasmic reticulum membrane	The lipid bilayer surrounding the sarcoplasmic reticulum.

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Description

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Structural Features

Chains, Units

Ligands, Modified Residues, Ions (5, 11)

Sites (11, 11)

SS Bonds (0, 0)

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