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(-) Description

Title :  C-TERMINAL MOTOR AND MOTOR HOMOLOGY DOMAIN OF KAR3VIK1 FUSED TO A SYNTHETIC HETERODIMERIC COILED COIL
 
Authors :  K. C. Rank, C. J. Chen, J. Cope, K. Porche, A. Hoenger, S. P. Gilbert, I. Ra
Date :  24 Apr 12  (Deposition) - 27 Jun 12  (Release) - 07 Aug 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Kinesin Motor Protein, Kinesin Motor Homology Domain, Karyogamy, Mitosis, Microtubules, Internal Vik1 Crosslink With N, N- Ethylenebis(Iodoacetamide), Nucleus, Motor Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. C. Rank, C. J. Chen, J. Cope, K. Porche, A. Hoenger, S. P. Gilbert, I. Rayment
Kar3Vik1, A Member Of The Kinesin-14 Superfamily, Shows A Novel Kinesin Microtubule Binding Pattern.
J. Cell Biol. V. 197 957 2012
PubMed-ID: 22734002  |  Reference-DOI: 10.1083/JCB.201201132

(-) Compounds

Molecule 1 - KINESIN-LIKE PROTEIN KAR3
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET24D
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: KAR3 (UNP RESIDUES 352-729)
    Gene: KAR3, KAR3P, P9659.16, YPR141C
    Mutation: YES
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE
    Organism Taxid: 559292
    Strain: ATCC 204508 / S288C
    Synonym: NUCLEAR FUSION PROTEIN
 
Molecule 2 - SPINDLE POLE BODY-ASSOCIATED PROTEIN VIK1
    Chains: B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PKLD37
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLAMSID
    Fragment: VIK1 (UNP RESIDUES 341-647)
    Gene: VIK1, VIK1P, YPL253C
    Mutation: YES
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE
    Organism Taxid: 559292
    Strain: ATCC 204508 / S288C
    Synonym: VEGETATIVE INTERACTION WITH KAR3 PROTEIN 1

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 9)

Asymmetric/Biological Unit (4, 9)
No.NameCountTypeFull Name
1ADP1Ligand/IonADENOSINE-5'-DIPHOSPHATE
2EBC1Ligand/IonN,N'-ETHANE-1,2-DIYLBIS(2-IODOACETAMIDE)
3GOL6Ligand/IonGLYCEROL
4MG1Ligand/IonMAGNESIUM ION

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:392 , ARG A:394 , PRO A:395 , GLN A:475 , THR A:476 , GLY A:477 , SER A:478 , GLY A:479 , LYS A:480 , THR A:481 , PHE A:482 , GLU A:554 , MG A:802 , HOH A:951 , HOH A:952 , HOH A:958 , HOH A:960 , HOH A:977 , HOH A:988 , HOH A:1050 , HOH A:1075 , HOH A:1095BINDING SITE FOR RESIDUE ADP A 801
2AC2SOFTWARETHR A:481 , ADP A:801 , HOH A:950 , HOH A:951 , HOH A:952 , HOH A:953BINDING SITE FOR RESIDUE MG A 802
3AC3SOFTWARETHR A:405 , ILE A:408 , VAL A:410 , ASP A:443 , GLN A:444 , HOH A:1059 , ASN B:348BINDING SITE FOR RESIDUE GOL A 803
4AC4SOFTWARETHR A:558 , THR A:559 , ILE A:604 , HIS A:606 , THR A:621 , LEU A:683 , GOL A:805 , HOH A:926 , HOH A:1065BINDING SITE FOR RESIDUE GOL A 804
5AC5SOFTWARELYS A:556 , THR A:557 , THR A:558 , TYR A:686 , SER A:687 , GOL A:804 , GOL A:806 , HOH A:911 , HOH A:926 , HOH A:945 , HOH A:989BINDING SITE FOR RESIDUE GOL A 805
6AC6SOFTWAREASN A:467 , LYS A:556 , TYR A:686 , THR A:689 , GOL A:805 , HOH A:1011 , HOH A:1066BINDING SITE FOR RESIDUE GOL A 806
7AC7SOFTWAREARG A:384 , LYS A:453 , GLU A:454 , GLN A:457 , HOH A:1076 , HOH A:1097BINDING SITE FOR RESIDUE GOL A 807
8AC8SOFTWARETYR B:351 , CYS B:355 , CYS B:423 , HOH B:804BINDING SITE FOR RESIDUE EBC B 701
9AC9SOFTWAREASN B:579 , HOH B:848 , HOH B:849BINDING SITE FOR RESIDUE GOL B 702

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4ETP)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Lys A:398 -Asn A:399
2Asp B:486 -Asp B:487
3Asp B:487 -Glu B:488
4Phe B:489 -Ser B:490

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4ETP)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4ETP)

(-) Exons   (0, 0)

(no "Exon" information available for 4ETP)

(-) 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:379
                                                                                                                                                                                                                                                                                                                                                                                                                           
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeee..............eee.........eeeeeee.....eeeeeee.eee....hhhhhhhhhhhhhhhhhh...eeeeee.....hhhhhhhh...hhhhhhhhhhhhhhhhhhh..eeeeeeeeeeeee..eeee...........eeee....eeee.....ee..hhhhhhhhhhhhh..hhhhhhhh.eeeeeeeeeeee.....eeeeeeeeee............hhhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhh....eeeeeeee..hhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4etp A 331 IAALKEKIAALKEKIAALKEKIKDTELGMKELNEILIKEETVRRTLHNELQELRGNIRVYLRIRPALKNLENSDTSLINVNEFDDNSGVQSMEVTKIQNTAQVHEFKFDKIFDQQDTNVDVFKEVGQLVQSSLDGYNVAIFAYGQTGSGKTFTMLNPGDGIIPSTISHIFNWINKLKTKGWDYKVNAEFIEIYNENIVDLLRSSIGLKHEIRHDQETKTTTITNVTSVKLESEEMVEIILKKANRTASNEHSSRSHSIFIIHLSGSNAKTGAHSYGTLNLVDLAGSERINVSQVVGDRLRETQNINKSLSALGDVIHALGQPDSTKRHIPFRNSKLTYLLQYSLTGDSKTLMFVNISPSSSHINETLNSLRFASKVNST 723
                                   340       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       500       510       520       530  ||   548       558       568       578   ||| 594       604       614       624       634       644       654       664       674       684       694       704       714         
                                                                                                                                                                                                                                    533|                                     582||                                                                                                                                     
                                                                                                                                                                                                                                     542                                      585|                                                                                                                                     
                                                                                                                                                                                                                                                                               590                                                                                                                                     


Chain B from PDB  Type:PROTEIN  Length:287
                                                                                                                                                                                                                                                                                                                               
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeeee.........eee....eee....eee..eeee....hhhhhhhhhhhhhhhhhhhh...eeeeeee....hhhhhhhhhhhhh..hhhhhheeeeeeeee.......ee.....eee..eee.....eee.hhhhhh.........eeeeeeeee.....eeeeeeee.hhhhhhhhhh.....hhhhhhhhhhhhhh..eeeeee....hhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4etp B 320 AALEKEIAALEKEIAALEKEISKQEKFYNDTYNTVCKELLRSRRLENSIIEQKGTMRVYAYVMEQNLPENLLFDYENGVITQSEHVYKFNRVIPHLKVSEDCFFTQEYSVYHDMALNQKKNFNLISLSTTPHGSLRESLIKFLAEKDTIYQKQYVITLQFVFLSDDEFSQDMLLDLKFEKHSISLDSKLVIIENGLEDLPLNFSADEMGIIKVQFFPRDPVPVDFYFIELNNLKSIEQFDKSISAETPIALVLKKLISDTKSFFLLNLNDSKNVNKLLTISEEVQTQ 638
                                   329       339       349       359       369       379       389       399 ||    411       421       431       441       451       461       471       481       491    || 511       521       531      |549       567       577       587  ||   601       611       621       631       
                                                                                                           401|                                                                                         496|                            538|        558|                    590|                                           
                                                                                                            404                                                                                          507                             547         567                     595
   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  (0, 0)

(no "SCOP Domain" information available for 4ETP)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4ETP)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4ETP)

(-) Gene Ontology  (23, 30)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Asp B:486 - Asp B:487   [ RasMol ]  
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    Lys A:398 - Asn A:399   [ RasMol ]  
    Phe B:489 - Ser B:490   [ RasMol ]  
 

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  KAR3_YEAST | P17119
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  VIK1_YEAST | Q12045
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 Related Entries

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

UniProtKB/Swiss-Prot
        KAR3_YEAST | P17119: 1f9t 1f9u 1f9v 1f9w 3kar
        VIK1_YEAST | Q12045: 2o0a

(-) Related Entries Specified in the PDB File

1f9t
1f9u
1f9v
1f9w
1n6m STRUCTURE OF NCD DIMER
1u0i SYNTHETIC HETERODIMERIC COILED COIL
2o0a STRUCTURE OF VIK1 MOTOR HOMOLOGY DOMAIN
3kar STRUCTURE OF KAR3 MOTOR DOMAIN