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(-) Description

Title :  TERNARY COMPLEX OF MLC1P BOUND TO IQ2 AND IQ3 OF MYO2P, A CLASS V MYOSIN
 
Authors :  M. Terrak, G. Wu, W. F. Stafford, R. C. Lu, R. Dominguez
Date :  22 Oct 02  (Deposition) - 04 Nov 03  (Release) - 09 Jun 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Protein-Peptide Complex, Iq Motif, Myosin Light Chain, Cell Cycle (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Terrak, G. Rebowski, R. C. Lu, Z. Grabarek, R. Dominguez
Structure Of The Light Chain-Binding Domain Of Myosin V.
Proc. Natl. Acad. Sci. Usa V. 102 12718 2005
PubMed-ID: 16120677  |  Reference-DOI: 10.1073/PNAS.0503899102
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - MYOSIN LIGHT CHAIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PAED4
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: MLC1
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE
    Organism Taxid: 4932
    Synonym: M1C1P, MYOSIN-2-LIGHT CHAIN
 
Molecule 2 - IQ2 AND IQ3 MOTIFS FROM MYO2P, A CLASS V MYOSIN
    Chains: C
    Engineered: YES
    Other Details: THE PEPTIDE CORRESPONDING TO IQ2 AND IQ3 WAS CHEMICALLY SYNTHESIZED. THE SEQUENCE OF THE PEPTIDE IS NATURALLY FOUND IN SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) MYO2P, A CLASS V MYOSIN.
    Synonym: MYOSIN-2 ISOFORM
    Synthetic: YES

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1N2D)

(-) Sites  (0, 0)

(no "Site" information available for 1N2D)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1N2D)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1N2D)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1N2D)

(-) PROSITE Motifs  (2, 5)

Asymmetric/Biological Unit (2, 5)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1EF_HAND_2PS50222 EF-hand calcium-binding domain profile.MLC1_YEAST2-37
81-116
 
117-149
 		  4-
A:81-116
B:81-116
A:117-149
B:117-149
2IQPS50096 IQ motif profile.MYO2_YEAST832-861  1C:832-853

(-) Exons   (2, 3)

Asymmetric/Biological Unit (2, 3)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1YGL106W1YGL106W.1VII:306563-307012450MLC1_YEAST1-1491492A:3-149
B:5-149		147
145
2.1YOR326W1YOR326W.1XV:925718-9304424725MYO2_YEAST1-157415741C:806-85348

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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  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:147
 aligned with MLC1_YEAST | P53141 from UniProtKB/Swiss-Prot  Length:149

    Alignment length:147
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       
           MLC1_YEAST     3 ATRANKDIFTLFDKKGQGAIAKDSLGDYLRAIGYNPTNQLVQDIINADSSLRDASSLTLDQITGLIEVNEKELDATTKAKTEDFVKAFQVFDKESTGKVSVGDLRYMLTGLGEKLTDAEVDELLKGVEVDSNGEIDYKKFIEDVLRQ 149
               SCOP domains d1n2da_ A: Myosin Light Chain Mlc1p                                                                                                                 SCOP domains
               CATH domains 1n2dA01 A:3-74 EF-hand                                                  --1n2dA02 A:77-144 EF-hand                                            ----- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhh.....eee..hhhhhhhhh....hhhhhhhhhhhhhhhhhh.eeehhhhhhhhhhhhhhhhhhhh..hhhhhhhhhh.......eeehhhhhhhhhhh....hhhhhhhhhhh.......eeehhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE EF_HAND_2  PDB: - UniProt: 2-37    -------------------------------------------EF_HAND_2  PDB: A:81-116            EF_HAND_2  PDB: A:117-149         PROSITE
               Transcript 1 Exon 1.1  PDB: A:3-149 UniProt: 1-149 [INCOMPLETE]                                                                                                  Transcript 1
                 1n2d A   3 ATRANKDIFTLFDKKGQGAIAKDSLGDYLRAIGYNPTNQLVQDIINADSSLRDASSLTLDQITGLIEVNEKELDATTKAKTEDFVKAFQVFDKESTGKVSVGDLRYMLTGLGEKLTDAEVDELLKGVEVDSNGEIDYKKFIEDVLRQ 149
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       


Chain B from PDB  Type:PROTEIN  Length:145
 aligned with MLC1_YEAST | P53141 from UniProtKB/Swiss-Prot  Length:149

    Alignment length:145
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144     
           MLC1_YEAST     5 RANKDIFTLFDKKGQGAIAKDSLGDYLRAIGYNPTNQLVQDIINADSSLRDASSLTLDQITGLIEVNEKELDATTKAKTEDFVKAFQVFDKESTGKVSVGDLRYMLTGLGEKLTDAEVDELLKGVEVDSNGEIDYKKFIEDVLRQ 149
               SCOP domains d1n2db_ B: Myosin Light Chain Mlc1p                                                                                                               SCOP domains
               CATH domains 1n2dB01 B:5-74 EF-hand                                                --1n2dB02 B:77-144 EF-hand                                            ----- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhh......ee..hhhhhhhhh....hhhhhhhhhhhhhhhh...eehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eeehhhhhhhhhhh....hhhhhhhhh.........eeehhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE EF_HAND_2  PDB: - UniProt: 2-37  -------------------------------------------EF_HAND_2  PDB: B:81-116            EF_HAND_2  PDB: B:117-149         PROSITE
               Transcript 1 Exon 1.1  PDB: B:5-149 UniProt: 1-149 [INCOMPLETE]                                                                                                Transcript 1
                 1n2d B   5 RANKDIFTLFDKKGQGAIAKDSLGDYLRAIGYNPTNQLVQDIINADSSLRDASSLTLDQITGLIEVNEKELDATTKAKTEDFVKAFQVFDKESTGKVSVGDLRYMLTGLGEKLTDAEVDELLKGVEVDSNGEIDYKKFIEDVLRQ 149
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144     


Chain C from PDB  Type:PROTEIN  Length:48
 aligned with MYO2_YEAST | P19524 from UniProtKB/Swiss-Prot  Length:1574

    Alignment length:48
                                   815       825       835       845        
           MYO2_YEAST   806 QISQAIKYLQNNIKGFIIRQRVNDEMKVNCATLLQAAYRGHSIRANVF 853
               SCOP domains ------------------------------------------------ SCOP domains
               CATH domains 1n2dC00 C:806-853                                CATH domains
               Pfam domains ------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------ SAPs(SNPs)
                    PROSITE --------------------------IQ  PDB: C:832-853     PROSITE
               Transcript 2 Exon 2.1  PDB: C:806-853 UniProt: 1-1574         Transcript 2
                 1n2d C 806 QISQAIKYLQNNIKGFIIRQRVNDEMKVNCATLLQAAYRGHSIRANVF 853
                                   815       825       835       845
   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  (2, 5)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1N2D)

(-) Gene Ontology  (42, 49)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (MLC1_YEAST | P53141)
molecular function
    GO:0005509    calcium ion binding    Interacting selectively and non-covalently with calcium ions (Ca2+).
    GO:0042802    identical protein binding    Interacting selectively and non-covalently with an identical protein or proteins.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0032038    myosin II heavy chain binding    Interacting selectively and non-covalently with a heavy chain of a myosin II complex.
    GO:0031489    myosin V binding    Interacting selectively and non-covalently with a class V myosin; myosin V is a dimeric molecule involved in intracellular transport.
    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:0000915    actomyosin contractile ring assembly    The process of assembly of a ring composed of actin, myosin, and associated proteins that will function in cytokinesis.
    GO:0007049    cell cycle    The progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events. Canonically, the cell cycle comprises the replication and segregation of genetic material followed by the division of the cell, but in endocycles or syncytial cells nuclear replication or nuclear division may not be followed by cell division.
    GO:0051301    cell division    The process resulting in division and partitioning of components of a cell to form more cells; may or may not be accompanied by the physical separation of a cell into distinct, individually membrane-bounded daughter cells.
    GO:0008104    protein localization    Any process in which a protein is transported to, or maintained in, a specific location.
    GO:0006903    vesicle targeting    The process in which vesicles are directed to specific destination membranes. Targeting involves coordinated interactions among cytoskeletal elements (microtubules or actin filaments), motor proteins, molecules at the vesicle membrane and target membrane surfaces, and vesicle cargo.
cellular component
    GO:0005935    cellular bud neck    The constriction between the mother cell and daughter cell (bud) in an organism that reproduces by budding.
    GO:0005934    cellular bud tip    The end of a cellular bud distal to the site of attachment to the mother cell.
    GO:0016460    myosin II complex    A myosin complex containing two class II myosin heavy chains, two myosin essential light chains and two myosin regulatory light chains. Also known as classical myosin or conventional myosin, the myosin II class includes the major muscle myosin of vertebrate and invertebrate muscle, and is characterized by alpha-helical coiled coil tails that self assemble to form a variety of filament structures.
    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:0031982    vesicle    Any small, fluid-filled, spherical organelle enclosed by membrane.

Chain C   (MYO2_YEAST | P19524)
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: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: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:0000146    microfilament motor activity    Catalysis of movement along a microfilament, coupled to the hydrolysis of a nucleoside triphosphate (usually ATP).
    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.
    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:0048313    Golgi inheritance    The partitioning of Golgi apparatus between daughter cells at cell division.
    GO:0007118    budding cell apical bud growth    Growth at the tip of a bud, in a cell that reproduces by budding.
    GO:0007049    cell cycle    The progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events. Canonically, the cell cycle comprises the replication and segregation of genetic material followed by the division of the cell, but in endocycles or syncytial cells nuclear replication or nuclear division may not be followed by cell division.
    GO:0051301    cell division    The process resulting in division and partitioning of components of a cell to form more cells; may or may not be accompanied by the physical separation of a cell into distinct, individually membrane-bounded daughter cells.
    GO:0000132    establishment of mitotic spindle orientation    A cell cycle process that sets the alignment of mitotic spindle relative to other cellular structures.
    GO:0007107    membrane addition at site of cytokinesis    Any process involved in the net addition of membrane at the site of cytokinesis; includes vesicle recruitment and fusion, local lipid synthesis and insertion.
    GO:0000001    mitochondrion inheritance    The distribution of mitochondria, including the mitochondrial genome, into daughter cells after mitosis or meiosis, mediated by interactions between mitochondria and the cytoskeleton.
    GO:0045033    peroxisome inheritance    The acquisition of peroxisomes by daughter cells from the mother cell after replication. In Saccharomyces cerevisiae, the number of peroxisomes cells is fairly constant; a subset of the organelles are targeted and segregated to the bud in a highly ordered, vectorial process. Efficient segregation of peroxisomes from mother to bud is dependent on the actin cytoskeleton, and active movement of peroxisomes along actin filaments is driven by the class V myosin motor protein, Myo2p.
    GO:0015031    protein transport    The directed movement of proteins into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    GO:0006810    transport    The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
    GO:0009826    unidimensional cell growth    The process in which a cell irreversibly increases in size in one [spatial] dimension or along one axis, resulting in the morphogenesis of the cell.
    GO:0000011    vacuole inheritance    The distribution of vacuoles into daughter cells after mitosis or meiosis, mediated by interactions between vacuoles and the cytoskeleton.
    GO:0030050    vesicle transport along actin filament    Movement of a vesicle along an actin filament, mediated by motor proteins.
    GO:0016192    vesicle-mediated transport    A cellular transport process in which transported substances are moved in membrane-bounded vesicles; transported substances are enclosed in the vesicle lumen or located in the vesicle membrane. The process begins with a step that directs a substance to the forming vesicle, and includes vesicle budding and coating. Vesicles are then targeted to, and fuse with, an acceptor membrane.
cellular component
    GO:0071563    Myo2p-Vac17p-Vac8p transport complex    A protein complex that is involved in transport of vacuoles to a newly formed daughter cell. In yeast, this complex is composed of Myo2p, Vac17p, and Vac8p.
    GO:0032432    actin filament bundle    An assembly of actin filaments that are on the same axis but may be oriented with the same or opposite polarities and may be packed with different levels of tightness.
    GO:0005935    cellular bud neck    The constriction between the mother cell and daughter cell (bud) in an organism that reproduces by budding.
    GO:0005934    cellular bud tip    The end of a cellular bud distal to the site of attachment to the mother cell.
    GO:0031941    filamentous actin    A two-stranded helical polymer of the protein actin.
    GO:0000329    fungal-type vacuole membrane    The lipid bilayer surrounding a vacuole, the shape of which correlates with cell cycle phase. The membrane separates its contents from the cytoplasm of the cell. An example of this structure is found in Saccharomyces cerevisiae.
    GO:0000131    incipient cellular bud site    The portion of the budding yeast plasma membrane where a daughter cell will emerge. The yeast marks this spot with bud-site selection proteins before bud emergence occurs. Actin is polarized to this spot just prior to and during bud emergence.
    GO:0043332    mating projection tip    The apex of the mating projection in unicellular fungi exposed to mating pheromone; site of polarized growth.
    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:0030133    transport vesicle    Any of the vesicles of the constitutive secretory pathway, which carry cargo from the endoplasmic reticulum to the Golgi, between Golgi cisternae, from the Golgi to the ER (retrograde transport) or to destinations within or outside the cell.
    GO:0031982    vesicle    Any small, fluid-filled, spherical organelle enclosed by membrane.

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 Related Entries

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

UniProtKB/Swiss-Prot
        MLC1_YEAST | P53141: 1m45 1m46 2fcd 2fce
        MYO2_YEAST | P19524: 1m45 1m46 2f6h

(-) Related Entries Specified in the PDB File

1m45 CRYSTAL STRUCTURE OF MLC1P BOUND TO IQ2 OF MYO2P, A CLASS V MYOSIN
1m46 CRYSTAL STRUCTURE OF MLC1P BOUND TO IQ4 OF MYO2P, A CLASS V MYOSIN