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(-) Description

Title :  MOTOR DOMAIN STRUCTURE OF THE KAR3-LIKE KINESIN FROM ASHBYA GOSSYPII
 
Authors :  D. Duan, D. J. Hnatchuk, J. Brenner, D. Davis, J. S. Allingham
Date :  20 Jul 11  (Deposition) - 04 Apr 12  (Release) - 19 Jun 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.35
Chains :  Asym./Biol. Unit :  A
Keywords :  Kinesin; Alpha And Beta Proteins; P-Loop Containing Nucleoside Triphosphate Hydrolases, Microtubule Motor Protein, Atp Binding, Motor Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  D. Duan, D. J. Hnatchuk, J. Brenner, D. Davis, J. S. Allingham
Crystal Structure Of The Kar3-Like Kinesin Motor Domain Fro The Filamentous Fungus Ashbya Gossypii.
Proteins V. 80 1016 2012
PubMed-ID: 22493778  |  Reference-DOI: 10.1002/PROT.24004

(-) Compounds

Molecule 1 - AGR253WP
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET24D
    Expression System StrainBL21 (DE3) RIL CODONPLUS
    Expression System Taxid469008
    Expression System Vector TypePLASMID
    FragmentAGKAR3 KINESIN MOTOR DOMAIN, UNP RESIDUES 365-709
    GeneAGOS_AGR253W, AGR253W, AGR253WP
    Organism CommonYEAST
    Organism ScientificASHBYA GOSSYPII
    Organism Taxid284811
    StrainATCC 10895

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (3, 3)
No.NameCountTypeFull Name
1ADP1Ligand/IonADENOSINE-5'-DIPHOSPHATE
2EDO1Ligand/Ion1,2-ETHANEDIOL
3MG1Ligand/IonMAGNESIUM ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHOH A:16 , HOH A:17 , HOH A:18 , HOH A:91 , THR A:460 , ADP A:999BINDING SITE FOR RESIDUE MG A 997
2AC2SOFTWAREHOH A:4 , HOH A:17 , HOH A:18 , HOH A:57 , HOH A:59 , ARG A:372 , ARG A:374 , PRO A:375 , LEU A:377 , GLN A:454 , THR A:455 , GLY A:456 , SER A:457 , GLY A:458 , LYS A:459 , THR A:460 , TYR A:461 , LYS A:651 , TYR A:653 , MG A:997BINDING SITE FOR RESIDUE ADP A 999
3AC3SOFTWAREILE A:501 , TYR A:502 , ASN A:503 , GLU A:504 , ARG A:579 , ILE A:630BINDING SITE FOR RESIDUE EDO A 1

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3T0Q)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3T0Q)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3T0Q)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3T0Q)

(-) Exons   (0, 0)

(no "Exon" information available for 3T0Q)

(-) 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:304
 aligned with Q74ZE6_ASHGO | Q74ZE6 from UniProtKB/TrEMBL  Length:709

    Alignment length:339
                                   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       634       644       654       664       674       684       694         
         Q74ZE6_ASHGO   365 GNIRVYCRVRPPLLNEPQDMSHILIEKFNEAKGAQSLTINRNEGRILSYNFQFDMIFEPSHTNKEIFEEIRQLVQSSLDGYNVCIFAYGQTGSGKTYTMLNAGDGMIPMTLSHIFKWTANLKERGWNYEMECEYIEIYNETILDLLRDFKSHDNIDEILDSQKHDIRHDHEKQGTYITNVTRMKMTSTSQVDTILKKASKMRSTAATRSNERSSRSHSVFMVHINGRNLHTGETSQGKLNLVDLAGSERINSSAVTGERLRETQNINKSLSCLGDVIYALNTPDAGKRYIPFRNSKLTYLLQYSLVGDSKTLMFVNIPPDPNHISETLNSLRFASKVNS 703
               SCOP domains d3t0qa_ A: automated matches                                                                                                                                                                                                                                                                                                                        SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee.............eee.....--..eeeeeee..--.eeeeeee.eee....hhhhhhhhhhhhhhhhhh..eeeeeee.....hhhhhhhh...hhhhhhhhhhhhhhhhhh...eeeeeeeeeeeee..eeee...---------------...eeee....eeee.....ee..hhhhhhhhhhhh------------.hhhhheeeeeeeeeeee.....eeeeeeeeee........----.hhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhh..hhhhhhhhhhhhhhh....eeeeeeee..hhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3t0q A 365 GNIRVYCRVRPPLLNEPQDMSHILIEKFNE--GAQSLTINRNE--ILSYNFQFDMIFEPSHTNKEIFEEIRQLVQSSLDGYNVCIFAYGQTGSGKTYTMLNAGDGMIPMTLSHIFKWTANLKERGWNYEMECEYIEIYNETILDLLR---------------KHDIRHDHEKQGTYITNVTRMKMTSTSQVDTILKKA------------ERSSRSHSVFMVHINGRNLHTGETSQGKLNLVDLAGSERIN----TGERLRETQNINKSLSCLGDVIYALNTPDAGKRYIPFRNSKLTYLLQYSLVGDSKTLMFVNIPPDPNHISETLNSLRFASKVNS 703
                                   374       384       394  |    404  |  | 414       424       434       444       454       464       474       484       494       504      |  -         -  |    534       544       554       | -         -|      584       594       604       614|    | 624       634       644       654       664       674       684       694         
                                                       394  |       407  |                                                                                                  511             527                                562          575                                     615  620                                                                                   
                                                          397          410                                                                                                                                                                                                                                                                                                     

   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, 1)

Asymmetric/Biological Unit

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3T0Q)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3T0Q)

(-) Gene Ontology  (30, 30)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q74ZE6_ASHGO | Q74ZE6)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0008569    ATP-dependent microtubule motor activity, minus-end-directed    Catalysis of movement along a microtubule toward the minus end, coupled to the hydrolysis of ATP.
    GO:0016887    ATPase activity    Catalysis of the reaction: ATP + H2O = ADP + phosphate + 2 H+. May or may not be coupled to another reaction.
    GO:0043015    gamma-tubulin binding    Interacting selectively and non-covalently with the microtubule constituent protein gamma-tubulin.
    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:0046982    protein heterodimerization activity    Interacting selectively and non-covalently with a nonidentical protein to form a heterodimer.
biological process
    GO:0034613    cellular protein localization    Any process in which a protein is transported to, and/or maintained in, a specific location at the level of a cell. Localization at the cellular level encompasses movement within the cell, from within the cell to the cell surface, or from one location to another at the surface of a cell.
    GO:0000742    karyogamy involved in conjugation with cellular fusion    During sexual reproduction, the creation of a single nucleus from multiple nuclei as a result of fusing the lipid bilayers that surround each nuclei. This occurs after cytogamy.
    GO:0008152    metabolic process    The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
    GO:0034631    microtubule anchoring at spindle pole body    Any process in which a microtubule is maintained in a specific location in a cell by attachment to a spindle pole body. Microtubules attach to spindle pole bodies at the minus end.
    GO:0001578    microtubule bundle formation    A process that results in a parallel arrangement of microtubules.
    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:1990758    mitotic sister chromatid biorientation    The mitotic cell cycle process in which sister chromatids establish stable, end-on attachments to the plus ends of microtubules emanating from opposite spindle poles, oriented such that separation can proceed. This is the final step in metaphase plate congression.
    GO:0007064    mitotic sister chromatid cohesion    The cell cycle process in which the sister chromatids of a replicated chromosome are joined along the entire length of the chromosome, from their formation in S phase through metaphase during a mitotic cell cycle. This cohesion cycle is critical for high fidelity chromosome transmission.
    GO:0000070    mitotic sister chromatid segregation    The cell cycle process in which replicated homologous chromosomes are organized and then physically separated and apportioned to two sets during the mitotic cell cycle. Each replicated chromosome, composed of two sister chromatids, aligns at the cell equator, paired with its homologous partner. One homolog of each morphologic type goes into each of the resulting chromosome sets.
    GO:0090307    mitotic spindle assembly    The aggregation, arrangement and bonding together of a set of components to form the spindle that contributes to the process of mitosis.
    GO:0000743    nuclear migration involved in conjugation with cellular fusion    The microtubule-based movement of nuclei towards one another as a prelude to karyogamy in organisms undergoing conjugation with cellular fusion.
    GO:0060236    regulation of mitotic spindle organization    Any process that modulates the rate, frequency or extent of the assembly, arrangement of constituent parts, or disassembly of the microtubule spindle during a mitotic cell cycle.
cellular component
    GO:1990811    Msd1-Wdr8-Pkl1 complex    A protein ternary complex that anchors microtubule minus ends to mitotic spindle pole bodies. The founding complex contains a microtubule anchoring protein (Msd1 in fission yeast), A WD-repeat Wdr8 family protein and and a minus end-directed kinesin.
    GO:0000778    condensed nuclear chromosome kinetochore    A multisubunit complex that is located at the centromeric region of a condensed nuclear chromosome and provides an attachment point for the spindle microtubules.
    GO:0005881    cytoplasmic microtubule    Any microtubule in the cytoplasm of a cell.
    GO:0005871    kinesin complex    Any complex that includes a dimer of molecules from the kinesin superfamily, a group of related proteins that contain an extended region of predicted alpha-helical coiled coil in the main chain that likely produces dimerization. The native complexes of several kinesin family members have also been shown to contain additional peptides, often designated light chains as all of the noncatalytic subunits that are currently known are smaller than the chain that contains the motor unit. Kinesin complexes generally possess a force-generating enzymatic activity, or motor, which converts the free energy of the gamma phosphate bond of ATP into mechanical work.
    GO:0005874    microtubule    Any of the long, generally straight, hollow tubes of internal diameter 12-15 nm and external diameter 24 nm found in a wide variety of eukaryotic cells; each consists (usually) of 13 protofilaments of polymeric tubulin, staggered in such a manner that the tubulin monomers are arranged in a helical pattern on the microtubular surface, and with the alpha/beta axes of the tubulin subunits parallel to the long axis of the tubule; exist in equilibrium with pool of tubulin monomers and can be rapidly assembled or disassembled in response to physiological stimuli; concerned with force generation, e.g. in the spindle.
    GO:0005875    microtubule associated complex    Any multimeric complex connected to a microtubule.
    GO:0072686    mitotic spindle    A spindle that forms as part of mitosis. Mitotic and meiotic spindles contain distinctive complements of proteins associated with microtubules.
    GO:0044732    mitotic spindle pole body    The microtubule organizing center that forms as part of the mitotic cell cycle; functionally homologous to the animal cell centrosome.
    GO:0005634    nucleus    A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.
    GO:0005816    spindle pole body    The microtubule organizing center in fungi; functionally homologous to the animal cell centrosome.

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