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(-) Description

Title :  STRUCTURE OF ARP7-ARP9-SNF2(HSA)-RTT102 SUBCOMPLEX OF SWI/SNF CHROMATIN REMODELER.
 
Authors :  H. L. Schubert, B. R. Cairns, C. P. Hill
Date :  29 Nov 12  (Deposition) - 13 Feb 13  (Release) - 13 Mar 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.80
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Actin-Related, Chromatin Remodeling, Transcription-Hydrolase Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. L. Schubert, J. Wittmeyer, M. M. Kasten, K. Hinata, D. C. Rawling, A. Heroux, B. R. Cairns, C. P. Hill
Structure Of An Actin-Related Subcomplex Of The Swi/Snf Chromatin Remodeler.
Proc. Natl. Acad. Sci. Usa V. 110 3345 2013
PubMed-ID: 23401505  |  Reference-DOI: 10.1073/PNAS.1215379110

(-) Compounds

Molecule 1 - ACTIN-RELATED PROTEIN 7
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PRSF
    Expression System Strain: BL21(DE3)RIL
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: SNF2, SNF2/YOR290C, SWI2, TYE3, YOR290C, GAM1, HAF1
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE
    Organism Taxid: 559292
    Strain: ATCC 204508 / S288C
    Synonym: ACTIN-LIKE PROTEIN ARP7, CHROMATIN STRUCTURE-REMODELING COMPLEX PROTEIN ARP7, SWI/SNF COMPLEX COMPONENT ARP7
 
Molecule 2 - ACTIN-LIKE PROTEIN ARP9
    Chains: B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PRSF
    Expression System Strain: BL21(DE3)RIL
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 1-246, 275-467
    Gene: ARP9, ARP9/YMR033W, SWP59, YM9973.07, YMR033W
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE
    Organism Taxid: 559292
    Strain: ATCC 204508 / S288C
    Synonym: CHROMATIN STRUCTURE-REMODELING COMPLEX PROTEIN ARP9, SWI/SNF COMPLEX COMPONENT ARP9
 
Molecule 3 - ACTIN-LIKE PROTEIN ARP9
    Chains: C
    EC Number: 3.6.4.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PCDF
    Expression System Strain: BL21(DE3)RIL
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: HSA DOMAIN RESIDUES 575-667
    Gene: SNF2, SNF2/YOR290C, SWI2, TYE3, YOR290C, GAM1, HAF1
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE
    Organism Taxid: 559292
    Strain: ATCC 204508 / S288C
    Synonym: CHROMATIN STRUCTURE-REMODELING COMPLEX PROTEIN ARP9, SWI/SNF COMPLEX COMPONENT ARP9
 
Molecule 4 - REGULATOR OF TY1 TRANSPOSITION PROTEIN 102
    Chains: D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PCDF
    Expression System Strain: BL21(DE3)RIL
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: RTT102, RTT102/YGR275W, YGR275W
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE
    Organism Taxid: 559292
    Strain: ATCC 204508 / S288C

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 28)

Asymmetric/Biological Unit (2, 28)
No.NameCountTypeFull Name
1MSE16Mod. Amino AcidSELENOMETHIONINE
2PO412Ligand/IonPHOSPHATE ION

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREHIS A:15 , ASP A:190 , ALA A:224 , GLN A:229 , LYS A:232 , PO4 A:503 , HOH A:625BINDING SITE FOR RESIDUE PO4 A 501
02AC2SOFTWAREASN A:53 , TYR A:89BINDING SITE FOR RESIDUE PO4 A 502
03AC3SOFTWAREHIS A:15 , ARG A:16 , ALA A:161 , GLY A:186 , LYS A:232 , SER A:397 , THR A:398 , PO4 A:501 , HOH A:625 , HOH A:627 , HOH A:628BINDING SITE FOR RESIDUE PO4 A 503
04AC4SOFTWAREASP A:431 , ARG C:619BINDING SITE FOR RESIDUE PO4 A 504
05AC5SOFTWAREHIS A:11 , GLY A:13 , GLU A:141 , PO4 A:506 , HOH A:621 , HOH A:627 , HOH A:629BINDING SITE FOR RESIDUE PO4 A 505
06AC6SOFTWARESER A:14 , ASP A:158 , SER A:162 , ASN A:165 , ARG A:181 , PO4 A:505BINDING SITE FOR RESIDUE PO4 A 506
07AC7SOFTWARESER B:16 , GLN B:17 , ASN B:70 , GLY B:71 , THR B:166 , HIS B:167 , HIS B:168BINDING SITE FOR RESIDUE PO4 B 501
08AC8SOFTWAREARG B:15 , GLY B:338 , SER B:425 , GLU B:426BINDING SITE FOR RESIDUE PO4 B 502
09AC9SOFTWAREGLY B:344 , LYS B:346 , HOH B:607 , HOH B:630BINDING SITE FOR RESIDUE PO4 B 503
10BC1SOFTWAREARG B:15 , ASP B:163 , GLY B:338 , HOH B:627BINDING SITE FOR RESIDUE PO4 B 504
11BC2SOFTWARELYS A:410 , ASP B:206 , ASP B:208 , ASP B:286 , LYS B:288BINDING SITE FOR RESIDUE PO4 B 505
12BC3SOFTWARELYS A:293 , GLY B:314 , ASP B:318 , ASP B:356 , HIS B:357BINDING SITE FOR RESIDUE PO4 B 506

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4I6M)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Ser A:343 -Ile A:344
2Pro B:3 -Phe B:4
3Cys B:403 -Pro B:404
4Leu C:659 -Lys C:660

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4I6M)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4I6M)

(-) Exons   (0, 0)

(no "Exon" information available for 4I6M)

(-) 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:399
                                                                                                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeee...eeeeee.......eeee.eeee.....ee.hhhhhhhhhhh.....eeee.........hhhhhhhhhhhhhhhh.........eeeee......hhhhhhhhhhhhhh......eeeeeehhhhhhhh.....eeeeee....eeeeeee..ee.hhhhee...hhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhh.hhhh.eeeeeehhhheeeeeehhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhh......hhhhhhhhh..eeeehhhhhh.hhhhhhhhhhhhhh......ee...hhhhhhhhhhhhhhhhhh..hhhhh.eeehhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4i6m A   2 TLNRKCVVIHNGSHRTVAGFSNVELPQCIIPSSYIKRTEAEFIFGTYNmIDAAAEKRNGDEVYTLVDSQGLPYNWDALEmQWRYLYDTQLKVSPEELPLVITmPATNGKPDmAILERYYELAFDKLNVPVFQIVIEPLAIALSmGKSSAFVIDIGASGCNVTPIIDGIVVKNAVVRSKFGGDFLDFQVHERLAPLIKEEQKRSTDVWYEASTWIQQFKSTmLQVSEKDLFELERYYKEQADIYAKQQENNPLVQKKNFLFKPLNKTLTLDLKECYQFAEYLFKPQLISDKFSPEDGLGPLmAKSVKKAGASISPEQVYSLLLTNVIITGSTSLIEGmEQRIIKELSIRFPQYKLTTFANQVmmDRKIQGWLGALTmANLPSWSLGKWYSKEDYETLKRD 466
                                    11        21        31       |45        55        65        75        85        95       105  |    115 |     125       135       145   |   155       165       175       185       195       214       224       234|      244       254       282       292       302       312       322       332|      342 ||    387       397      |407       417       427 ||    437     | 447       457         
                                                                39|        54-MSE                         85-MSE                108-MSE  117-MSE                         149-MSE                                                204|                  235-MSE                    262|                                                 333-MSE    344|                     404-MSE                  429-MSE       443-MSE                   
                                                                 44                                                                                                                                                              214                                              281                                                             380                                               430-MSE                                


Chain B from PDB  Type:PROTEIN  Length:396
                                                                                                                                                                                                                                                                                                                                                                                                                                            
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..hhhh.eeeee...eeeeee...........eeee..eeeee.....eeee..hhhhh.eee..ee..ee.hhhhhhhhhhhhhhhhhhhhhhhhh...........eeeee....hhhhhhhhhhhhhhh....eeeeeehhhhhhhhh.....eeeeee....eeeeeee..ee.....eee..hhhhhhhhhhhhh...hhhhhhhhhh........hhhhh..eeee.....eeeehhhhhh.hhhhhhhhhhhhhhhhh...hhhhhhhhh..eeeehhhhhh.hhhhhhhhhhhhhhh...hhhhhhhhhhhh........................hhhhhhhh...hhhhhhhhhhhhhhh.......eehhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4i6m B   3 PFRQDSILIIYPRSQTTLVQFGLNEETFTVPELEIPTQIYRTTRQDGSYTYHSTNKDNKAELIKPIQNGEIIDISAFTQFLRLIFVSILSDRANKNQDAFEAELSNIPLLLITHHSWSQSDLEIITQYVFESLEINNLIQLPASLAATYSmISLQNCCIIDVGTHHTDIIPIVDYAQLDHLVSSIPmGGQSINDSLKKLLPQWDDDQIESLKKSPIFEVLSKNSDLEFNTFWDEKGNEIKVGKQRFQGCNNLIKNISNRVGLTLDNIDDINKAKAVWENIIIVGGTTSISGFKEALLGQLLKDHLIIEPEEEKSKREEEAKSFVPTIEYVQCPTVIKLAKYPDYFPEWKKSGYSEIIFLGAQIVSKQIFTHPKDTFYITREKYNmKGPAALWDVQF 467
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152|      162       172       182      |192       202       212       222||     283       293       303       313       323       333       343       353       363       373 ||    401       411       421       431       441       451    |  461      
                                                                                                                                                                                153-MSE                             189-MSE                           223|                                                                                                 375|                                                           456-MSE       
                                                                                                                                                                                                                                                       275                                                                                                  394                                                                         


Chain C from PDB  Type:PROTEIN  Length:69
                                                                                                     
               SCOP domains --------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------- Transcript
                 4i6m C 592 LKLERKKTEAVARLKSmNKSAINQYNRRQDKKNKRLKFGHRLIATHTNLERDEQKRAEKKAKERLQALK 660
                                   601      |611       621       631       641       651         
                                          608-MSE                                                


Chain D from PDB  Type:PROTEIN  Length:54
                                                                                      
               SCOP domains ------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhh.....eeeeee..........eeeeee................. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------ Transcript
                 4i6m D   1 mDPQTLITKANKKESWRYDWYQPSKEKYPFRYKTWLRNQEDEEDILDLKEFDRR  90
                            |       10 ||     29    ||  58        68 ||     86    
                            1-MSE     12|          34|              70|           
                                       22           54               79
   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 4I6M)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4I6M)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4I6M)

(-) Gene Ontology  (37, 71)

Asymmetric/Biological Unit(hide GO term definitions)

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        ARP7_YEAST | Q12406: 3wee
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