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(-) Description

Title :  STRUCTURAL DYNAMICS OF THE MICROTUBULE BINDING AND REGULATORY ELEMENTS IN THE KINESIN-LIKE CALMODULIN BINDING PROTEIN
 
Authors :  M. V. Vinogradova, G. G. Malanina, V. Reddy, A. S. N. Reddy, R. J. Fletterick
Date :  27 Mar 08  (Deposition) - 24 Jun 08  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym. Unit :  A,C
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  C  (1x)
Keywords :  Kinesin, Motor, Switch Ii, Loop L11, Conformation, Nucleotide, Atp-Binding, Microtubule, Motor Protein, Nucleotide-Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. V. Vinogradova, G. G. Malanina, V. S. Reddy, A. S. Reddy, R. J. Fletterick
Structural Dynamics Of The Microtubule Binding And Regulatory Elements In The Kinesin-Like Calmodulin Binding Protein.
J. Struct. Biol. V. 163 76 2008
PubMed-ID: 18513992  |  Reference-DOI: 10.1016/J.JSB.2008.04.004
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - KINESIN HEAVY CHAIN-LIKE PROTEIN
    Chains: A, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Fragment: UNP RESIDUES 884-1252
    Organism Common: POTATO
    Organism Scientific: SOLANUM TUBEROSUM

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AC
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  C

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric Unit (2, 4)
No.NameCountTypeFull Name
1ADP2Ligand/IonADENOSINE-5'-DIPHOSPHATE
2MG2Ligand/IonMAGNESIUM ION
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1ADP1Ligand/IonADENOSINE-5'-DIPHOSPHATE
2MG-1Ligand/IonMAGNESIUM ION
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1ADP1Ligand/IonADENOSINE-5'-DIPHOSPHATE
2MG-1Ligand/IonMAGNESIUM ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR A:977 , ARG A:1075BINDING SITE FOR RESIDUE MG A 601
2AC2SOFTWARETHR C:977BINDING SITE FOR RESIDUE MG C 602
3AC3SOFTWAREARG A:895 , ARG A:897 , PRO A:898 , THR A:972 , GLY A:973 , SER A:974 , GLY A:975 , LYS A:976 , THR A:977 , PHE A:978BINDING SITE FOR RESIDUE ADP A 600
4AC4SOFTWAREARG C:897 , GLN C:971 , GLY C:973 , SER C:974 , GLY C:975 , LYS C:976 , THR C:977 , PHE C:978BINDING SITE FOR RESIDUE ADP C 600

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Ser A:1126 -Gly A:1127

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3COB)

(-) Exons   (0, 0)

(no "Exon" information available for 3COB)

(-) Sequences/Alignments

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
(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:355
 aligned with Q41460_SOLTU | Q41460 from UniProtKB/TrEMBL  Length:1265

    Alignment length:366
                                   896       906       916       926       936       946       956       966       976       986       996      1006      1016      1026      1036      1046      1056      1066      1076      1086      1096      1106      1116      1126      1136      1146      1156      1166      1176      1186      1196      1206      1216      1226      1236      1246      
        Q41460_SOLTU    887 KGKIRVYCRLRPLCEKEIIAKERNAIRSVDEFTVEHLWKDDKAKQHMYDRVFDGNATQDDVFEDTKYLVQSAVDGYNVCIFAYGQTGSGKTFTIYGADSNPGLTPRAMSELFRIMKKDSNKFSFSLKAYMVELYQDTLVDLLLPKQAKRLKLDIKKDSKGMVSVENVTVVSISTYEELKTIIQRGSEQRHTTGTLMNEQSSRSHLIVSVIIESTNLQTQAIARGKLSFVDLAGSERVKKSGSAGNQLKEAQSINKSLSALGDVISALSSGNQHIPYRNHKLTMLMSDSLGGNAKTLMFVNISPAESNLDETHNSLTYASRVRSIVNDPSKNVSSKEVARLKKLVSYWKEQAGRKGDDEELEEIQDE 1252
               SCOP domains d3coba_ A: Kinesin heavy chain-like protein                                                                                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains 3cobA00 A:887-1252 Kinesin                                                                                                                                                                                                                                                                                                                                                     CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....eeeeee...hhhhhhh.....eee....eeeee.....eeeee..eee....hhhhhhhh.hhhhhhhhh..eeeeeeee....hhhhhhh......hhhhhhhhhhhhhhhhh...eeeeeeeeeeee....eee............eeee.....eeee....eee.hhhhhhhhhhhhhhhh........hhhhhheeeeeeeeeeee.....eeeeeeeeee.............hhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhh........eeeeeeee..hhhhhhhhhhhhhhhhhhhh........eehhhhhhhhhhh...-----------........ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                3cob A  887 KGKIRVYCRLRPLCEKEIIAKERNAIRSVDEFTVEHLWKDDKAKQHMYDRVFDGNATQDDVFEDTKYLVQSAVDGYNVCIFAYGQTGSGKTFTIYGADSNPGLTPRAMSELFRIMKKDSNKFSFSLKAYMVELYQDTLVDLLLPKQAKRLKLDIKKDSKGMVSVENVTVVSISTYEELKTIIQRGSEQRHTTGTLMNEQSSRSHLIVSVIIESTNLQTQAIARGKLSFVDLAGSERVKKSGSAGNQLKEAQSINKSLSALGDVISALSSGNQHIPYRNHKLTMLMSDSLGGNAKTLMFVNISPAESNLDETHNSLTYASRVRSIVNDPSKNVSSKEVARLKKLVSYW-----------ELEEIQDE 1252
                                   896       906       916       926       936       946       956       966       976       986       996      1006      1016      1026      1036      1046      1056      1066      1076      1086      1096      1106      1116      1126      1136      1146      1156      1166      1176      1186      1196      1206      1216      1226      |  -      1246      
                                                                                                                                                                                                                                                                                                                                                                                   1233        1245       


Chain C from PDB  Type:PROTEIN  Length:340
 aligned with Q41460_SOLTU | Q41460 from UniProtKB/TrEMBL  Length:1265

    Alignment length:366
                                   896       906       916       926       936       946       956       966       976       986       996      1006      1016      1026      1036      1046      1056      1066      1076      1086      1096      1106      1116      1126      1136      1146      1156      1166      1176      1186      1196      1206      1216      1226      1236      1246      
        Q41460_SOLTU    887 KGKIRVYCRLRPLCEKEIIAKERNAIRSVDEFTVEHLWKDDKAKQHMYDRVFDGNATQDDVFEDTKYLVQSAVDGYNVCIFAYGQTGSGKTFTIYGADSNPGLTPRAMSELFRIMKKDSNKFSFSLKAYMVELYQDTLVDLLLPKQAKRLKLDIKKDSKGMVSVENVTVVSISTYEELKTIIQRGSEQRHTTGTLMNEQSSRSHLIVSVIIESTNLQTQAIARGKLSFVDLAGSERVKKSGSAGNQLKEAQSINKSLSALGDVISALSSGNQHIPYRNHKLTMLMSDSLGGNAKTLMFVNISPAESNLDETHNSLTYASRVRSIVNDPSKNVSSKEVARLKKLVSYWKEQAGRKGDDEELEEIQDE 1252
               SCOP domains d3cobc_ C: Kinesin heavy chain-like protein                                                                                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains 3cobC00 C:887-1252 Kinesin                                                                                                                                                                                                                                                                                                                                                     CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .ee.eeeeee...hhhhhhh.....eeeee..eeeeee...eeeeee..eee....hhhhhhhh.hhhhhhhhhh.eeeeeeee....hhhhhhh......hhhhhhhhhhhhhhhhh...eeeeeeeeeeeee..eeee............eeee.....eeee....eee.hhhhhhhhhhhhhhhh........hhhhhheeeeeeeeeeee.....eeeeeeeeee.......--------------.hhhhhhhhhhhhhhhhh.....hhhhhhhhhhh........eeeeeeee..hhhhhhhhhhhhhhhhhhh..ee.....eehhhhhhhhhhhh------------......... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                3cob C  887 KGKIRVYCRLRPLCEKEIIAKERNAIRSVDEFTVEHLWKDDKAKQHMYDRVFDGNATQDDVFEDTKYLVQSAVDGYNVCIFAYGQTGSGKTFTIYGADSNPGLTPRAMSELFRIMKKDSNKFSFSLKAYMVELYQDTLVDLLLPKQAKRLKLDIKKDSKGMVSVENVTVVSISTYEELKTIIQRGSEQRHTTGTLMNEQSSRSHLIVSVIIESTNLQTQAIARGKLSFVDLAGSERV--------------SINKSLSALGDVISALSSGNQHIPYRNHKLTMLMSDSLGGNAKTLMFVNISPAESNLDETHNSLTYASRVRSIVNDPSKNVSSKEVARLKKLVS------------EELEEIQDE 1252
                                   896       906       916       926       936       946       956       966       976       986       996      1006      1016      1026      1036      1046      1056      1066      1076      1086      1096      1106      1116      |  -         - |    1146      1156      1166      1176      1186      1196      1206      1216      1226    |    -      1246      
                                                                                                                                                                                                                                                                     1123           1138                                                                                         1231         1244
   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 Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (1, 2)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (9, 9)

Asymmetric Unit(hide GO term definitions)
Chain A,C   (Q41460_SOLTU | Q41460)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
    GO:0008017    microtubule binding    Interacting selectively and non-covalently with microtubules, filaments composed of tubulin monomers.
    GO:0003777    microtubule motor activity    Catalysis of movement along a microtubule, coupled to the hydrolysis of a nucleoside triphosphate (usually ATP).
    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:0016491    oxidoreductase activity    Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
biological process
    GO:0007018    microtubule-based movement    A microtubule-based process that results in the movement of organelles, other microtubules, or other cellular components. Examples include motor-driven movement along microtubules and movement driven by polymerization or depolymerization of microtubules.
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
cellular component
    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.

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 Related Entries

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

UniProtKB/TrEMBL
        Q41460_SOLTU | Q41460: 1sdm 3cnz

(-) Related Entries Specified in the PDB File

1sdm SAME PROTEIN AT 2.30A RESOLUTION
3cnz SAME PROTEIN AT 2.29A RESOLUTION