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(-) Description

Title :  A TOG:ALPHA/BETA-TUBULIN COMPLEX STRUCTURE REVEALS CONFORMATION-BASED MECHANISMS FOR A MICROTUBULE POLYMERASE
 
Authors :  P. Ayaz, X. Ye, P. Huddleston, C. A. Brautigam, L. M. Rice
Date :  31 May 12  (Deposition) - 15 Aug 12  (Release) - 28 Aug 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.88
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Tubulin Fold, Heat Repeats, Cytoskeleton, Microtubule, Tubulin, Tog Domain, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  P. Ayaz, X. Ye, P. Huddleston, C. A. Brautigam, L. M. Rice
A Tog: Alpha Beta-Tubulin Complex Structure Reveals Conformation-Based Mechanisms For A Microtubule Polymerase.
Science V. 337 857 2012
PubMed-ID: 22904013  |  Reference-DOI: 10.1126/SCIENCE.1221698

(-) Compounds

Molecule 1 - TUBULIN ALPHA-1 CHAIN
    Chains: A
    Engineered: YES
    Expression System: SACCHAROMYCES CEREVISIAE
    Expression System Plasmid: P426GAL1
    Expression System Strain: JEL1
    Expression System Taxid: 4932
    Expression System Vector Type: PLASMID
    Gene: TUB1, YML085C
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE
    Organism Taxid: 559292
    Strain: ATCC 204508 / S288C
 
Molecule 2 - TUBULIN BETA CHAIN
    Chains: B
    EC Number: 3.6.5.6
    Engineered: YES
    Expression System: SACCHAROMYCES CEREVISIAE
    Expression System Plasmid: P424GAL1
    Expression System Strain: JEL1
    Expression System Taxid: 4932
    Expression System Vector Type: PLASMID
    Gene: TUB2, YFL037W
    Mutation: YES
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE
    Organism Taxid: 559292
    Strain: ATCC 204508 / S288C
    Synonym: BETA-TUBULIN
 
Molecule 3 - PROTEIN STU2
    Chains: C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: TOG1 DOMAIN
    Gene: L2108, STU2, YLR045C
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE
    Organism Taxid: 559292
    Strain: ATCC 204508 / S288C
    Synonym: SUPPRESSOR OF TUBULIN 2

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (2, 4)
No.NameCountTypeFull Name
1GTP2Ligand/IonGUANOSINE-5'-TRIPHOSPHATE
2MG2Ligand/IonMAGNESIUM ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLN A:11 , GLU A:72 , GTP A:502BINDING SITE FOR RESIDUE MG A 501
2AC2SOFTWAREGLY A:10 , GLN A:11 , ALA A:12 , GLN A:15 , ALA A:100 , ALA A:101 , ASN A:102 , SER A:141 , GLY A:144 , GLY A:145 , THR A:146 , GLY A:147 , VAL A:178 , THR A:180 , GLU A:184 , ASN A:207 , PHE A:225 , ASN A:229 , ILE A:232 , MG A:501 , LYS B:252BINDING SITE FOR RESIDUE GTP A 502
3AC3SOFTWAREGLU B:69 , GTP B:502BINDING SITE FOR RESIDUE MG B 501
4AC4SOFTWAREGLY B:10 , GLN B:11 , CYS B:12 , GLN B:15 , ASP B:67 , SER B:96 , ALA B:97 , GLY B:98 , ASN B:99 , SER B:138 , GLY B:141 , GLY B:142 , THR B:143 , GLY B:144 , GLU B:181 , ASN B:204 , TYR B:222 , ASN B:226 , MG B:501BINDING SITE FOR RESIDUE GTP B 502

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (6, 6)

Asymmetric/Biological Unit
No.Residues
1Gly A:46 -Glu A:47
2Ser A:274 -Pro A:275
3Ala B:271 -Pro B:272
4Gln B:359 -Gly B:360
5Leu C:12 -Pro C:13
6Phe C:86 -Ala C:87

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4FFB)

(-) 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:435
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains d4ffba1 A:1-246 automated matches                                                                                                                                                                                                                     d4ffba2 A:247-439 automated matches                                                                                                                                                           SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeehhhhhhhhhhhhhhhhhhh....................hhhhheeeee..eeee.eeeee..hhhhhhhhh.......hhh.eee.......hhhhhhh.hhhhhhhhhhhhhhhhhhh.....eeeeeee...hhhhhhhhhhhhhhhhhh...eeeeeeee.hhhhh...hhhhhhhhhhhhh.....eeeeeehhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhh........eeeee.........hhhhhhhhhhhhhhh..........eeeeeeeeee..hhhhhhhhhhhhhhh............eeeeee................eeeeeeeee..hhhhhhhhhhhhhhhhh....hhhhhh....hhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ffb A   1 MREVISINVGQAGCQIGNACWELYSLEHGIKPDGHLEDGLSKPKGGEEGFSTFFHETGYGKFVPRAIYVDLEPNVIDEVRNGPYKDLFHPEQLISGKEDAANNYARGHYTVGREILGDVLDRIRKLADQCDGLQGFLFTHSLGGGTGSGLGSLLLEELSAEYGKKSKLEFAVYPAPQVSTSVVEPYNTVLTTHTTLEHADCTFMVDNEAIYDMCKRNLDIPRPSFANLNNLIAQVVSSVTASLRFDGSLNVDLNEFQTNLVPYPRIHFPLVSYSPVLSKSESNSVSEITNACFEPGNQMVKCDPRDGKYMATCLLYRGDVVTRDVQRAVEQVKNKKTVQLVDWCPTGFKIGICYEPPTATPNSQLATVDRAVCMLSNTTSIAEAWKRIDRKFDLMYAKRAFVHWYVGEGMEEGEFTEAREDLAALERDYIEVGAD 439
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280|      294       304       314       324       334       344       354       364       374       384       394       404       414       424       434     
                                                                                                                                                                                                                                                                                                                 280|                                                                                                                                                          
                                                                                                                                                                                                                                                                                                                  285                                                                                                                                                          


Chain B from PDB  Type:PROTEIN  Length:421
                                                                                                                                                                                                                                                                                                                                                                                                                                                                     
               SCOP domains d4ffbb1 B:1-243 automated matches                                                                                                                                                                                                            d4ffbb2 B:244-432 automated matches                                                                                                                                                      SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeehhhhhhhhhhhhhhhhhhhh........hhhhhhhhh.eee.....eee.eeeee.hhhhhhhhhhhhhhh..hhh.eee.......hhhhhhh..hhhhhhhhhhhhhhhhh......eeeeeee......hhhhhhhhhhhhhhh...eeeeeeee......hhhhhhhhhhhhhhhhh.eeeeeehhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhh......eeeeeee........hhhhhhhhhhhhhhh..........eeeeeeeeee..hhhhhhhhhhhhhhhh...........eeeeee........eeeeeeeee..hhhhhhhhhhhhhhhhh...hhhhhhh...hhhhhhhhhhhhhhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ffb B   1 MREIIHISTGQCGNQIGAAFWETICGEHGLDFNGTHDDIQKERLNVYFNEASSGKWVPRSINVDLEPGTIDAVRNSAIGNLFRPDNYIFGQSSAGNVWAKGHYTEGAELVDSVMDVIRREAEGCDSLQGFQITHSLGGGTGSGMGTLLISKIREEFPDRMMATFSVLPSPKTRVEPYNATLSVHQLVEHSDETFCIDNEALYDICQRTLKLNQPSYGDLNNLVSSVMSGVTTSLRYPGQLNSDLRKLAVNLVPFPRLHFFMVGYAPLTAIGSLTVPELTQQMFDAKNMMAAADPRNGRYLTVAAFFRGKVSVKEVEDEMHKVQSKNSDYFVEWIPNNVQTAVCSVAPQGLDMAATFIANSTSIQELFKRVGDQFSAMFKRKAFLHWYTSEGMDELEFSEAESNMNDLVSEYQQYQEATVED 432
                                    10        20        30    ||  43        53        63        73        83        93       103       113       123       133       143       153       163       173||     186       196       206       216       226       236       246       256       266       276||     291       301       311       321       331       341       351       361       371       381       391       401       411       421       431 
                                                             35|                                                                                                                                    174|                                                                                                277|                                                                                                                                                     
                                                              39                                                                                                                                     178                                                                                                 283                                                                                                                                                     


Chain C from PDB  Type:PROTEIN  Length:231
                                                                                                                                                                                                                                                                       
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhh...hhhhhhhhhhhhhhhhhh.......hhhhhhhh...hhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhh....hhhhhhhhhh.hhhhhhh..hhhhhhhhhhhhhhhhh......hhhhhhhhhhhhh.....hhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ffb C  11 TLPLEERLTYKLWKARLEAYKELNQLFRNSQIYWRDPTLFAQYITDSNVVAQEQAIVALNSLIDAFALKNAHNITLISTWTPLLVEKGLTSSRATTKTQSMSCILSLCGLDTSITQSVELVIPFFEKKLPKLIAAAANCVYELMAAFGLTNVNVQTFLPELLKHVPQLAGHGDRNVRSQTMNLIVEIYKVLFKKLKPIQVKDLHKLFAKVGDLFEWEKRELEKKRSQEEEA 272
                                    20        30        40|       60        70        80      ||93       103       113       123       133       143       153       163       173       183       193       203       213|      234       244 ||    261       271 
                                                        40|                                  87|                                                                                                                       213|                  246|                  
                                                         51                                   91                                                                                                                        225                   254
   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  (2, 4)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (29, 50)

Asymmetric/Biological Unit(hide GO term definitions)

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    Gly A:46 - Glu A:47   [ RasMol ]  
    Leu C:12 - Pro C:13   [ RasMol ]  
    Phe C:86 - Ala C:87   [ RasMol ]  
    Ser A:274 - Pro A:275   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/Swiss-Prot
        STU2_YEAST | P46675: 2qk1 4u3j
        TBA1_YEAST | P09733: 4u3j
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(-) Related Entries Specified in the PDB File

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