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(-) Description

Title :  RIGOR-LIKE STRUCTURES OF MUSCLE MYOSINS REVEAL KEY MECHANICAL ELEMENTS IN THE TRANSDUCTION PATHWAYS OF THIS ALLOSTERIC MOTOR
 
Authors :  Y. Yang, S. Gourinath, M. Kovacs, L. Nyitray, R. Reutzel, D. M. Himmel, E. O'Neall-Hennessey, L. Reshetnikova, A. G. Szent-Gyorgyi, J. H. Brown, C. Cohen
Date :  08 Feb 07  (Deposition) - 29 May 07  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.12
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Myosin S1, Motor, Rigor-Like, Contractile Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Yang, S. Gourinath, M. Kovacs, L. Nyitray, R. Reutzel, D. M. Himmel, E. O'Neall-Hennessey, L. Reshetnikova, A. G. Szent-Gyorgyi, J. H. Brown, C. Cohen
Rigor-Like Structures From Muscle Myosins Reveal Key Mechanical Elements In The Transduction Pathways Of This Allosteric Motor.
Structure V. 15 553 2007
PubMed-ID: 17502101  |  Reference-DOI: 10.1016/J.STR.2007.03.010
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - MYOSIN HEAVY CHAIN
    Chains: A
    Organism Common: SEA SCALLOP
    Organism Scientific: PLACOPECTEN MAGELLANICUS
    Organism Taxid: 6577
 
Molecule 2 - MYOSIN REGULATORY LIGHT CHAIN
    Chains: B
    Organism Common: SEA SCALLOP
    Organism Scientific: PLACOPECTEN MAGELLANICUS
    Organism Taxid: 6577
 
Molecule 3 - MYOSIN ESSENTIAL LIGHT CHAIN
    Chains: C
    Organism Common: SEA SCALLOP
    Organism Scientific: PLACOPECTEN MAGELLANICUS
    Organism Taxid: 6577

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 4)

Asymmetric/Biological Unit (3, 4)
No.NameCountTypeFull Name
1ADP1Ligand/IonADENOSINE-5'-DIPHOSPHATE
2CA1Ligand/IonCALCIUM ION
3MG2Ligand/IonMAGNESIUM ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP B:28 , ASN B:30 , ASP B:32 , PHE B:34 , ASP B:36 , ASP B:39BINDING SITE FOR RESIDUE MG B 990
2AC2SOFTWAREASP C:19 , ASP C:22 , GLY C:23 , ASP C:25 , ALA C:27BINDING SITE FOR RESIDUE CA C 991
3AC3SOFTWARETHR A:183 , SER A:241 , ADP A:999BINDING SITE FOR RESIDUE MG A 839
4AC4SOFTWAREASN A:124 , TYR A:132 , GLU A:177 , SER A:178 , GLY A:179 , ALA A:180 , GLY A:181 , LYS A:182 , THR A:183 , GLU A:184 , ASN A:237 , ASN A:239 , MG A:839BINDING SITE FOR RESIDUE ADP A 999

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2OTG)

(-) Exons   (0, 0)

(no "Exon" information available for 2OTG)

(-) Sequences/Alignments

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
(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:800
 aligned with Q26080_PLAMG | Q26080 from UniProtKB/TrEMBL  Length:1950

    Alignment length:833
                                    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   
         Q26080_PLAMG     6 NDPDFQYLAVDRKKMMKEQTAPFDGKKNCWVPDPKEGFASAEIQSSKGEEITVKIVSDNSTRTVKKDDIQQMNPPKFEKLEDMANMTYLNEASVLNNLRGRYTAGLIYTYSGLFCIAVNPYRRLPIYTDSVIAKYRGKRKTEIPPHLFSVADNAYQNMVTDRENQSCLITGESGAGKTESTKKVIMYFARVAANLYKQKEEPVPNLRASNLEDQIIEANPVLEAFGNAKTVRNNNSSRFGKFIRIHFGPTGKIAGADIETYLLEKSRVTYQQSAERNYHIFYQICSNAIPELNEVMLITPDSGLYSFINQGCLTVDNIDDVEEFKLCDEAFDILGFTKEEKTSMFKCTASILHMGEMKFKQRPREEQAESDGTAEAEKVAFLCGINAGDLLKALLKPKVKVGTEMVTKGQNLQQVINSVGALSKSLYDRMFNWLVKRVNRTLDTKAKRNYYIGVLDIAGFEIFDFNSFEQLCINYTNERLQQFFNHHMFVLEQEEYKKEGIQWEFIDFGMDLQMCIDLIEKPMGILSILEEECMFPKADDKSFQDYSYQNHIGKNRMFTKPGKPTRPNQGHAHFELHHYAGNVPYSIAGWLDKNKDPINENVVSLLAVSKEPLVAELFRAPDEPAGGAGGKKKKKSSAFQTISAVHRESLNKLMCNLRRTNPHFVRCIIPNLEKDPGLVDAELVLHQLQCNGVLEGIRICRKGFPSRLIYSEFKQRYSILAPNAIPQGFVDGKTVSEKILTGLQMDPSEYRLGTTKVFFKAGVLGNLEEMRDERLSKIISMFQAHIRGYLIRKAYKKLQDQRIGLSVIQRNIRKWLVLRNWQWWKLYAKVKPL 838
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------Myosin_N-2otgA02 A:31-73                   -----------Myosin_head-2otgA01 A:85-763                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             ------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhh.....................eee.ee...ee..eeeeee....eeee......eeee.....ee..hhhhh...........hhhhhhhhhhhhhh....eeee..eeeee.....hhhhhhhhhhhhh..hhhhh..hhhhhhhhhhhhhhhhh..eeeeeee....hhhhhhhhhhhhhhh.....-------------.hhhhhhhhhhhhhhhhhee.......ee..eeeeeeee.....eeeeeeeee...hhhhh........hhhhhhhh...hhhhhhhhh...hhhhh.............hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhh...eee......eee..hhhhhhhhhhhh.hhhhhhhhhhh...............hhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhh......eeeee............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhh..hhhhhhhhhhh....hhhhhhhhhhhh.......ee..............eeeee..eeeee...hhhhhhh...hhhhhhhhhh..hhhhhhhh....-----------------.hhhhhhhhhhhhhhhhhh.....eeeee...........hhhhhhhhhhhhh.hhhhhhhhh....eeehhhhhhhhhhhhhhhh..---.hhhhhhhhhhhh......eee...eeee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2otg A   6 NDPDFQYLAVDRKKMMKEQTAPFDGKKNCWVPDPKEGFASAEIQSSKGEEITVKIVSDNSTRTVKKDDIQQMNPPKFEKLEDMANMTYLNEASVLNNLRGRYTAGLIYTYSGLFCIAVNPYRRLPIYTDSVIAKYRGKRKTEIPPHLFSVADNAYQNMVTDRENQSCLITGESGAGKTESTKKVIMYFARVAANL-------------SNLEDQIIEANPVLEAFGNAKTVRNNNSSRFGKFIRIHFGPTGKIAGADIETYLLEKSRVTYQQSAERNYHIFYQICSNAIPELNEVMLITPDSGLYSFINQGCLTVDNIDDVEEFKLCDEAFDILGFTKEEKTSMFKCTASILHMGEMKFKQRPREEQAESDGTAEAEKVAFLCGINAGDLLKALLKPKVKVGTEMVTKGQNLQQVINSVGALSKSLYDRMFNWLVKRVNRTLDTKAKRNYYIGVLDIAGFEIFDFNSFEQLCINYTNERLQQFFNHHMFVLEQEEYKKEGIQWEFIDFGMDLQMCIDLIEKPMGILSILEEECMFPKADDKSFQDYSYQNHIGKNRMFTKPGKPTRPNQGHAHFELHHYAGNVPYSIAGWLDKNKDPINENVVSLLAVSKEPLVAELFRAPD-----------------QTISAVHRESLNKLMCNLRRTNPHFVRCIIPNLEKDPGLVDAELVLHQLQCNGVLEGIRICRKGFPSRLIYSEFKQRYSILAPNAIPQ---DGKTVSEKILTGLQMDPSEYRLGTTKVFFKAGVLGNLEEMRDERLSKIISMFQAHIRGYLIRKAYKKLQDQRIGLSVIQRNIRKWLVLRNWQWWKLYAKVKPL 836
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195    |    -       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484       494       504       514       524       534       544       554       564       574       584       594       604       614       624 |       -       643       653       663       673       683       693       703       713       723      |  -|      743       753       763       773       783       793       803       813       823       833   
                                                                                                                                                                                                                            200           213                                                                                                                                                                                                                                                                                                                                                                                                                          626               643                                                                                    730 734                                                                                                      


Chain B from PDB  Type:PROTEIN  Length:141
 aligned with Q26068_PLAMG | Q26068 from UniProtKB/TrEMBL  Length:157

    Alignment length:141
                                    23        33        43        53        63        73        83        93       103       113       123       133       143       153 
         Q26068_PLAMG    14 PQKQIQEMKEAFTMIDQNRDGFIDINDLKEMFSSLGRTPDDKELTAMLKEAPGPLNFTMFLSIFSDKLSGTDSEETIRNAFGMFDELDTKKLNIEYIKDLLENMGDNFNKDEMRMTFKEAPVEGGKFDYVRFVAMIKGSGD 154
               SCOP domains d2otgb_ B: automated matches                                                                                                                  SCOP domains
               CATH domains 2otgB01 B:13-81 EF-hand                                              2otgB02 B:82-149 EF-hand                                            ---- CATH domains
               Pfam domains ---EF_hand_5-2otgB01 B:16-107                                                                  ---------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhh........hhhhhhhh........hhhhhhhhhhh.....hhhhhhhhhhhhhh...hhhhhhhhhh.........eehhhhhhhhhhh....hhhhhhhhhh...ee..eehhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2otg B  13 PQKQIQEMKEAFTMIDQNRDGFIDINDLKEMFSSLGRTPDDKELTAMLKEAPGPLNFTMFLSIFSDKLSGTDSEETIRNAFGMFDELDTKKLNIEYIKDLLENMGDNFNKDEMRMTFKEAPVEGGKFDYVRFVAMIKGSGD 153
                                    22        32        42        52        62        72        82        92       102       112       122       132       142       152 


Chain C from PDB  Type:PROTEIN  Length:155
 aligned with Q26066_PLAMG | Q26066 from UniProtKB/TrEMBL  Length:157

    Alignment length:155
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151     
         Q26066_PLAMG     2 PKLSQDEIDDLKEVFELFDFWDGRDGAVDAFKIGDVCRCLGINPRNEDVFAVGGTHKMGEKSLPFEEFLPAYEGLMDCEQGTYADYMEAFKTFDREGQGFISGAELRHVLSGLGERLSDEEVDEIINLTDLQEDLEGNVKYEEFVKKVMTGPYPD 156
               SCOP domains d2otgc_ C: automated matches                                                                                                                                SCOP domains
               CATH domains --2otgC01 C:3-80 EF-hand                                                        --------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------EF_hand_5-2otgC01 C:85-148                                      ------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhh.....eee..hhhhhhhh.....hhhhhhhh.........eee..hhhhhhhhhh.....hhhhhhhhhhhh.......eehhhhhhhhhhh....hhhhhhhhhhhhh.......eehhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2otg C   1 PKLSQDEIDDLKEVFELFDFWDGRDGAVDAFKIGDVCRCLGINPRNEDVFAVGGTHKMGEKSLPFEEFLPAYEGLMDCEQGTYADYMEAFKTFDREGQGFISGAELRHVLSGLGERLSDEEVDEIINLTDLQEDLEGNVKYEEFVKKVMTGPYPD 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 '|'

 Classification and Annotation

(-) SCOP Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (1, 3)

Asymmetric/Biological Unit
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (3, 4)

Asymmetric/Biological Unit
(-)
Clan: EF_hand (270)
(-)
Clan: P-loop_NTPase (1112)
(-)
Clan: no clan defined [family: Myosin_N] (42)

(-) Gene Ontology  (7, 9)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q26080_PLAMG | Q26080)
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: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: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 B   (Q26068_PLAMG | Q26068)
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.

Chain C   (Q26066_PLAMG | Q26066)
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.

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  2otg
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/TrEMBL
        Q26066_PLAMG | Q26066: 2ec6 2os8 3pn7 3ts5 3tuy
        Q26068_PLAMG | Q26068: 2os8
        Q26080_PLAMG | Q26080: 2os8 3pn7 3ts5 3tuy

(-) Related Entries Specified in the PDB File

1kk7 SCALLOP MYOSIN IN THE NEAR RIGOR CONFORMATION
1kk8 SCALLOP MYOSIN (S1-ADP-BEFX) IN THE ACTIN-DETACHED CONFORMATION
1sr6 STRUCTURE OF NUCLEOTIDE-FREE SCALLOP MYOSIN S1
2os8 RIGOR-LIKE STRUCTURES OF MUSCLE MYOSINS REVEAL KEY MECHANICAL ELEMENTS IN THE TRANSDUCTION PATHWAYS OF THIS ALLOSTERIC MOTOR