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Title :   CRYSTAL STRUCTURE OF SCALLOP MYOSIN S1 IN THE PRE-POWER STROKE STATE TO 2.6 ANGSTROM RESOLUTION: FLEXIBILITY AND FUNCTION IN THE HEAD

Authors :   S. Gourinath, D. M. Himmel, J. H. Brown, L. Reshetnikova, A. G. Szent- Gyrgyi, C. Cohen

Date :   27 Aug 03 (Deposition) - 16 Dec 03 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.54

Chains :   Asym./Biol. Unit : A,Y,Z

Keywords :   Scallop Myosin Subfragment-1 (S1), Pre-Power Stroke State, Pliant Region, Internally-Uncoupled State, Sh1 Helix, Contractile Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   S. Gourinath, D. M. Himmel, J. H. Brown, L. Reshetnikova, A. G. Szent-Gyorgyi, C. Cohen
Crystal Structure Of Scallop Myosin S1 In The Pre-Power Stroke State To 2. 6 A Resolution: Flexibility And Function In The Head.
Structure V. 11 1621 2003
PubMed-ID: 14656445 | Reference-DOI: 10.1016/J.STR.2003.10.013
(for further references see the PDB file header)

Molecule 1 - MYOSIN HEAVY CHAIN, STRIATED MUSCLE
	Chains	:	A
	Organism Scientific	:	ARGOPECTEN IRRADIANS
	Organism Taxid	:	31199

Molecule 2 - MYOSIN REGULATORY LIGHT CHAIN, STRIATED ADDUCTOR MUSCLE
	Chains	:	Y
	Organism Scientific	:	ARGOPECTEN IRRADIANS
	Organism Taxid	:	31199
	Synonym	:	R-LC

Molecule 3 - MYOSIN ESSENTIAL LIGHT CHAIN, STRIATED ADDUCTOR MUSCLE
	Chains	:	Z
	Organism Scientific	:	ARGOPECTEN IRRADIANS
	Organism Taxid	:	31199
	Synonym	:	E-LC, SULFHYDRYL LIGHT CHAIN, SHLC

		1	2	3
Asymmetric/Biological Unit	:	A	Y	Z

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (4, 5)

No.	Name	Count	Type	Full Name
1	ADP	1	Ligand/Ion	ADENOSINE-5'-DIPHOSPHATE
2	CA	1	Ligand/Ion	CALCIUM ION
3	MG	2	Ligand/Ion	MAGNESIUM ION
4	VO4	1	Ligand/Ion	VANADATE ION

Asymmetric Unit (5, 5)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	THR A:183 , SER A:241 , ASP A:460 , VO4 A:1998 , ADP A:1999	BINDING SITE FOR RESIDUE MG A 1997
2	AC2	SOFTWARE	SER A:178 , GLY A:179 , LYS A:182 , ASN A:237 , SER A:240 , SER A:241 , GLY A:463 , MG A:1997 , ADP A:1999 , HOH A:2020	BINDING SITE FOR RESIDUE VO4 A 1998
3	AC3	SOFTWARE	ASP Z:19 , ASP Z:22 , GLY Z:23 , ASP Z:25 , ALA Z:27	BINDING SITE FOR RESIDUE CA Z 503
4	AC4	SOFTWARE	ASP Y:28 , ASP Y:30 , ASP Y:32 , PHE Y:34 , SER Y:36 , ASP Y:39	BINDING SITE FOR RESIDUE MG Y 502
5	AC5	SOFTWARE	ASN A:124 , PRO A:125 , TYR A:126 , ARG A:127 , ARG A:128 , TYR A:132 , GLY A:179 , ALA A:180 , GLY A:181 , LYS A:182 , THR A:183 , GLU A:184 , ASN A:237 , MG A:1997 , VO4 A:1998 , HOH A:2030	BINDING SITE FOR RESIDUE ADP A 1999

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

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

(no "SAP(SNP)/Variant" information available for 1QVI)

Asymmetric/Biological Unit (4, 7)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	EF_HAND_2	PS50222	EF-hand calcium-binding domain profile.	MLE_ARGIR	7-44 82-117	2	Z:6-43 Z:81-116
1	EF_HAND_2	PS50222	EF-hand calcium-binding domain profile.	MLR_ARGIR	16-51 85-120	2	Y:15-50 Y:84-119
2	EF_HAND_1	PS00018	EF-hand calcium-binding domain.	MLR_ARGIR	29-41	1	Y:28-40
3	MYOSIN_MOTOR	PS51456	Myosin motor domain profile.	MYS_ARGIR	83-775	1	A:83-775
4	IQ	PS50096	IQ motif profile.	MYS_ARGIR	778-805	1	A:778-805

(no "Exon" information available for 1QVI)

Asymmetric/Biological 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:806
 aligned with MYS_ARGIR | P24733 from UniProtKB/Swiss-Prot  Length:1938

    Alignment length:832
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485       495       505       515       525       535       545       555       565       575       585       595       605       615       625       635       645       655       665       675       685       695       705       715       725       735       745       755       765       775       785       795       805       815       825       835  
            MYS_ARGIR     6 SDPDFQYLAVDRKKLMKEQTAAFDGKKNCWVPDEKEGFASAEIQSSKGDEITVKIVADSSTRTVKKDDIQSMNPPKFEKLEDMANMTYLNEASVLYNLRSRYTSGLIYTYSGLFCIAVNPYRRLPIYTDSVIAKYRGKRKTEIPPHLFSVADNAYQNMVTDRENQSCLITGESGAGKTENTKKVIMYLAKVACAVKKKDEEASDKKEGSLEDQIIQANPVLEAYGNAKTTRNNNSSRFGKFIRIHFGPTGKIAGADIETYLLEKSRVTYQQSAERNYHIFYQICSNAIPELNDVMLVTPDSGLYSFINQGCLTVDNIDDVEEFKLCDEAFDILGFTKEEKQSMFKCTASILHMGEMKFKQRPREEQAESDGTAEAEKVAFLCGINAGDLLKALLKPKVKVGTEMVTKGQNMNQVVNSVGALAKSLYDRMFNWLVRRVNKTLDTKAKRNYYIGVLDIAGFEIFDFNSFEQLCINYTNERLQQFFNHHMFILEQEEYKKEGIAWEFIDFGMDLQMCIDLIEKPMGILSILEEECMFPKADDKSFQDKLYQNHMGKNRMFTKPGKPTRPNQGPAHFELHHYAGNVPYSITGWLEKNKDPINENVVALLGASKEPLVAELFKAPEEPAGGGKKKKGKSSAFQTISAVHRESLNKLMKNLYSTHPHFVRCIIPNELKQPGLVDAELVLHQLQCNGVLEGIRICRKGFPSRLIYSEFKQRYSILAPNAIPQGFVDGKTVSEKILAGLQMDPAEYRLGTTKVFFKAGVLGNLEEMRDERLSKIISMFQAHIRGYLIRKAYKKLQDQRIGLSVIQRNIRKWLVLRNWQWWKLYSKVKPLL 837
               SCOP domains d1qvia2 A:6-28,A:77-837d1qvia1 A:29-76                                 d1qvia2 A:6-28,A:77-837 Myosin S1, motor domain                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhh.....................eeeeee...eeeeeeeee....eeeeee.hhheeeeee....ee..hhhhh...hhhhh...hhhhhhhhhhhhhhhh..eeee..eeeee.........hhhhhhhhh..hhhhh..hhhhhhhhhhhhhhhhh..eeeeee.....hhhhhhhhhhhhhhhhh...----------...hhhhhhhhhhhhhhhhhee.......ee..eeeeeeee.....eeeeeeeee...hhhhhh.......hhhhhhh....hhhhhhhhh...hhhhh.............hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh...ee........ee..hhhhhhhhhhhh.hhhhhhhhhhh..............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......eeeeeee..........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh............hhhhhhhhhh..hhhhhhhhh......hhhhhhhhhhhhhh.....ee..............eeeee..eeeee...hhhhhhh...hhhhhhhhhh..hhhhhhhh.....--------------..hhhhhhhhhhhhhhhhhhh.eeeeeeee...........hhhhhhhhhhhhhhhhhhhhhhhh..eeeehhhhhhhhhhhh.....--..hhhhhhhhhhhhh..hhh.eee...eeee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (2) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                PROSITE (3) -----------------------------------------------------------------------------MYOSIN_MOTOR  PDB: A:83-775 UniProt: 83-775                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          -------------------------------------------------------------- PROSITE (3)
                PROSITE (1) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------IQ  PDB: A:778-805          -------------------------------- PROSITE (1)
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1qvi A   6 SDPDFQYLAVDRKKLMKEQTAAFDGKKNCWVPDEKEGFASAEIQSSKGDEITVKIVADSSTRTVKKDDIQSMNPPKFEKLEDMANMTYLNEASVLYNLRSRYTSGLIYTYSGLFCIAVNPYRRLPIYTDSVIAKYRGKRKTEIPPHLFSVADNAYQNMVTDRENQSCLITGESGAGKTENTKKVIMYLAKVACAV----------KEGSLEDQIIQANPVLEAYGNAKTTRNNNSSRFGKFIRIHFGPTGKIAGADIETYLLEKSRVTYQQSAERNYHIFYQICSNAIPELNDVMLVTPDSGLYSFINQGCLTVDNIDDVEEFKLCDEAFDILGFTKEEKQSMFKCTASILHMGEMKFKQRPREEQAESDGTAEAEKVAFLCGINAGDLLKALLKPKVKVGTEMVTKGQNMNQVVNSVGALAKSLYDRMFNWLVRRVNKTLDTKAKRNYYIGVLDIAGFEIFDFNSFEQLCINYTNERLQQFFNHHMFILEQEEYKKEGIAWEFIDFGMDLQMCIDLIEKPMGILSILEEECMFPKADDKSFQDKLYQNHMGKNRMFTKPGKPTRPNQGPAHFELHHYAGNVPYSITGWLEKNKDPINENVVALLGASKEPLVAELFKAPEE--------------FQTISAVHRESLNKLMKNLYSTHPHFVRCIIPNELKQPGLVDAELVLHQLQCNGVLEGIRICRKGFPSRLIYSEFKQRYSILAPNAIP--FVDGKTVSEKILAGLQMDPAEYRLGTTKVFFKAGVLGNLEEMRDERLSKIISMFQAHIRGYLIRKAYKKLQDQRIGLSVIQRNIRKWLVLRNWQWWKLYSKVKPLL 837
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195    |    -     | 215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485       495       505       515       525       535       545       555       565       575       585       595       605       615       625 |       -      |645       655       665       675       685       695       705       715       725   |  |735       745       755       765       775       785       795       805       815       825       835  
                                                                                                                                                                                                                            200        211                                                                                                                                                                                                                                                                                                                                                                                                                             627            642                                                                                    729  |                                                                                                         
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                732

Chain Y from PDB  Type:PROTEIN  Length:141
 aligned with MLR_ARGIR | P13543 from UniProtKB/Swiss-Prot  Length:157

    Alignment length:141
                                    22        32        42        52        62        72        82        92       102       112       122       132       142       152 
            MLR_ARGIR    13 LPQKQIQEMKEAFSMIDVDRDGFVSKEDIKAISEQLGRAPDDKELTAMLKEAPGPLNFTMFLSIFSDKLSGTDSEETIRNAFAMFDEQETKKLNIEYIKDLLENMGDNFNKDEMRMTFKEAPVEGGKFDYVKFTAMIKGSG 153
               SCOP domains d1qviy_ Y: Myosin Essential Chain                                                                                                             SCOP domains
               CATH domains 1qviY01 Y:12-81 EF-hand                                               1qviY02 Y:82-149 EF-hand                                            --- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhh.......hhhhhhhhhhh.....hhhhhhhhhh......hhhhhhhhhhhh.....hhhhhhhhhhh.......eeehhhhhhhhhhh....hhhhhhhhhh...ee..eeehhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (2) ---EF_HAND_2  PDB: Y:15-50             ---------------------------------EF_HAND_2  PDB: Y:84-119            --------------------------------- PROSITE (2)
                PROSITE (3) ----------------EF_HAND_1    ---------------------------------------------------------------------------------------------------------------- PROSITE (3)
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1qvi Y  12 LPQKQIQEMKEAFSMIDVDRDGFVSKEDIKAISEQLGRAPDDKELTAMLKEAPGPLNFTMFLSIFSDKLSGTDSEETIRNAFAMFDEQETKKLNIEYIKDLLENMGDNFNKDEMRMTFKEAPVEGGKFDYVKFTAMIKGSG 152
                                    21        31        41        51        61        71        81        91       101       111       121       131       141       151

Chain Z from PDB  Type:PROTEIN  Length:155
 aligned with MLE_ARGIR | P07291 from UniProtKB/Swiss-Prot  Length:157

    Alignment length:155
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151     
            MLE_ARGIR     2 PKLSQDEIDDLKDVFELFDFWDGRDGAVDAFKLGDVCRCLGINPRNEDVFAVGGTHKMGEKSLPFEEFLPAYEGLMDCEQGTFADYMEAFKTFDREGQGFISGAELRHVLTALGERLSDEDVDEIIKLTDLQEDLEGNVKYEDFVKKVMAGPYPD 156
               SCOP domains d1qviz_ Z: Myosin Regulatory Chain                                                                                                                          SCOP domains
               CATH domains --1qviZ01 Z:3-80 EF-hand                                                        1qviZ02 Z:81-152 EF-hand                                                --- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhh.....eee..hhhhhhhhhh...hhhhhhhh.........eeehhhhhhhhhhhhh....hhhhhhhhhhh.......eeehhhhhhhhhhh....hhhhhhhhhhhh........eeehhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----EF_HAND_2  PDB: Z:6-43 UniProt: 7-44  -------------------------------------EF_HAND_2  PDB: Z:81-116            --------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1qvi Z   1 PKLSQDEIDDLKDVFELFDFWDGRDGAVDAFKLGDVCRCLGINPRNEDVFAVGGTHKMGEKSLPFEEFLPAYEGLMDCEQGTFADYMEAFKTFDREGQGFISGAELRHVLTALGERLSDEDVDEIIKLTDLQEDLEGNVKYEDFVKKVMAGPYPD 155
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150

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/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Alpha (13335)

Architecture: Orthogonal Bundle (10391)

Topology: Recoverin; domain 1 (474)

Homologous Superfamily: EF-hand (412)

Argopecten irradians. Organism_taxid: 31199. Argopecten irradians. Organism_taxid: 31199. (4)

1a	1qviZ02	Z:81-152
1b	1qviY02	Y:82-149
1c	1qviZ01	Z:3-80
1d	1qviY01	Y:12-81

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

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (MYS_ARGIR | P24733)

molecular function
	GO:0005524	ATP binding	Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
	GO:0003779	actin binding	Interacting selectively and non-covalently with monomeric or multimeric forms of actin, including actin filaments.
	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:0003774	motor activity	Catalysis of the generation of force resulting either in movement along a microfilament or microtubule, or in torque resulting in membrane scission, coupled to the hydrolysis of a nucleoside triphosphate.
	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.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0030016	myofibril	The contractile element of skeletal and cardiac muscle; a long, highly organized bundle of actin, myosin, and other proteins that contracts by a sliding filament mechanism.
	GO:0016459	myosin complex	A protein complex, formed of one or more myosin heavy chains plus associated light chains and other proteins, that functions as a molecular motor; uses the energy of ATP hydrolysis to move actin filaments or to move vesicles or other cargo on fixed actin filaments; has magnesium-ATPase activity and binds actin. Myosin classes are distinguished based on sequence features of the motor, or head, domain, but also have distinct tail regions that are believed to bind specific cargoes.
	GO:0032982	myosin filament	A protein complex containing myosin heavy chains, plus associated light chains and other proteins, in which the myosin heavy chains are arranged into a filament.

Chain Y (MLR_ARGIR | P13543)

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.
cellular component
	GO:0016459	myosin complex	A protein complex, formed of one or more myosin heavy chains plus associated light chains and other proteins, that functions as a molecular motor; uses the energy of ATP hydrolysis to move actin filaments or to move vesicles or other cargo on fixed actin filaments; has magnesium-ATPase activity and binds actin. Myosin classes are distinguished based on sequence features of the motor, or head, domain, but also have distinct tail regions that are believed to bind specific cargoes.

Chain Z (MLE_ARGIR | P07291)

molecular function
	GO:0005509	calcium ion binding	Interacting selectively and non-covalently with calcium ions (Ca2+).
cellular component
	GO:0016459	myosin complex	A protein complex, formed of one or more myosin heavy chains plus associated light chains and other proteins, that functions as a molecular motor; uses the energy of ATP hydrolysis to move actin filaments or to move vesicles or other cargo on fixed actin filaments; has magnesium-ATPase activity and binds actin. Myosin classes are distinguished based on sequence features of the motor, or head, domain, but also have distinct tail regions that are believed to bind specific cargoes.

Asymmetric/Biological Unit
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	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 1qvi)

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1b7t	SCALLOP MYOSIN SUBFRAGMENT S1 COMPLEXED WITH MGADP
1dfl	SCALLOP MYOSIN S1 COMPLEXED WITH MGADP AT 4.2 A
1kk7	SCALLOP MYOSIN IN THE NEAR RIGOR CONFORMATION
1kk8	SCALLOP MYOSIN (S1-ADP-BEFX) IN THE INTERNALLY UNCOUPLED STATE

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 5)

Sites (5, 5)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (4, 7)

Exons (0, 0)

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SCOP Domains (4, 4)

CATH Domains (1, 4)

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Gene Ontology (11, 14)

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