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(-) Description

Title :  S. CEREVISIAE SIR1 ORC-INTERACTION DOMAIN
 
Authors :  Z. Hou, D. A. Bernstein, C. A. Fox, J. L. Keck
Date :  03 Mar 05  (Deposition) - 07 Jun 05  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Novel Fold, Transcription (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Z. Hou, D. A. Bernstein, C. A. Fox, J. L. Keck
Structural Basis Of The Sir1-Origin Recognition Complex Interaction In Transcriptional Silencing.
Proc. Natl. Acad. Sci. Usa V. 102 8489 2005
PubMed-ID: 15932939  |  Reference-DOI: 10.1073/PNAS.0503525102

(-) Compounds

Molecule 1 - REGULATORY PROTEIN SIR1
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21
    Expression System Plasmid: PET28B
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Fragment: ORC-1 INTERACTING DOMAIN OF SIR1P
    Gene: SIR1
    Mutation: YES
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE
    Organism Taxid: 4932
    Synonym: SILENT INFORMATION REGULATOR 1

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 6)

Asymmetric Unit (1, 6)
No.NameCountTypeFull Name
1MSE6Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (1, 3)
No.NameCountTypeFull Name
1MSE3Mod. Amino AcidSELENOMETHIONINE
Biological Unit 2 (1, 3)
No.NameCountTypeFull Name
1MSE3Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 1Z1A)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1Z1A)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1Z1A)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1Z1A)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1Z1A)

(-) Exons   (1, 2)

Asymmetric Unit (1, 2)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1YKR101W1YKR101W.1XI:640178-6421421965SIR1_YEAST1-6546542A:484-611 (gaps)
B:486-611 (gaps)		128
126

(-) 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:117
 aligned with SIR1_YEAST | P21691 from UniProtKB/Swiss-Prot  Length:654

    Alignment length:128
                                   469       479       489       499       509       519       529       539       549       559       569       579        
           SIR1_YEAST   460 STEEEYVSPRFLVADGFLIDLAEEKPINPKDPRLLTLLKDHQRAMIDQMNLVKWNDFKKYQDPIPLKAKTLFKFCKQIKKKFLRGADFKLHTLPTEANLKYEPERMTVLCSCVPILLDDQTVQYLYDD 587
               SCOP domains d1z1aa1 A:484-611 Regulatory protein SIR1                                                                                        SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....ee....eeee..eeee....eee.....hhhhhhhhhhhhhhhh....hhhhhh.....eee...hhhhhh..eeeeeee.....ee...-----------.eeeeeeeeee.....eeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------- PROSITE
               Transcript 1 Exon 1.1  PDB: A:484-611 (gaps) UniProt: 1-654 [INCOMPLETE]                                                                      Transcript 1
                 1z1a A 484 STEEEYVSPRFLVADGFLIDLAEEKPINPKDPRLLTLLKDHQRAmIDQmNLVKWNDFKKYQDPIPLKAKTLFKFCKQIKKKFLRGADFKLHTLP-----------mTVLASCVPILLDDQTVQYLYDD 611
                                   493       503       513       523    |  533       543       553       563       573   |     -     | 593       603        
                                                                      528-MSE                                          577         589-MSE                  
                                                                          532-MSE                                                                           


Chain B from PDB  Type:PROTEIN  Length:119
 aligned with SIR1_YEAST | P21691 from UniProtKB/Swiss-Prot  Length:654

    Alignment length:126
                                   471       481       491       501       511       521       531       541       551       561       571       581      
           SIR1_YEAST   462 EEEYVSPRFLVADGFLIDLAEEKPINPKDPRLLTLLKDHQRAMIDQMNLVKWNDFKKYQDPIPLKAKTLFKFCKQIKKKFLRGADFKLHTLPTEANLKYEPERMTVLCSCVPILLDDQTVQYLYDD 587
               SCOP domains d1z1ab_ B: Regulatory protein SIR1                                                                                             SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------ CATH domains
           Pfam domains (1) Sir1-1z1aB01 B:486-611                                                                                                         Pfam domains (1)
           Pfam domains (2) Sir1-1z1aB02 B:486-611                                                                                                         Pfam domains (2)
         Sec.struct. author ..ee....eeee..eeee....eee.....hhhhhhhhhhhhhhhh....hhhhhhh....eee...hhhhhh..eeeeeee.....ee.......-------.eeeeeeeeee.....eeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------ PROSITE
               Transcript 1 Exon 1.1  PDB: B:486-611 (gaps) UniProt: 1-654 [INCOMPLETE]                                                                    Transcript 1
                 1z1a B 486 EEEYVSPRFLVADGFLIDLAEEKPINPKDPRLLTLLKDHQRAmIDQmNLVKWNDFKKYQDPIPLKAKTLFKFCKQIKKKFLRGADFKLHTLPTEAN-------mTVLASCVPILLDDQTVQYLYDD 611
                                   495       505       515       525  |   |535       545       555       565       575     |   -   |   595       605      
                                                                    528-MSE                                              581     589-MSE                  
                                                                        532-MSE
   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) (23004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1Z1A)

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: no clan defined [family: Sir1] (3)

(-) Gene Ontology  (10, 10)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (SIR1_YEAST | P21691)
molecular function
    GO:0003682    chromatin binding    Interacting selectively and non-covalently with chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase.
    GO:0043565    sequence-specific DNA binding    Interacting selectively and non-covalently with DNA of a specific nucleotide composition, e.g. GC-rich DNA binding, or with a specific sequence motif or type of DNA e.g. promotor binding or rDNA binding.
biological process
    GO:0030466    chromatin silencing at silent mating-type cassette    Repression of transcription at silent mating-type loci by alteration of the structure of chromatin.
    GO:0006343    establishment of chromatin silencing    The initial formation of a transcriptionally silent chromatin structure such as heterochromatin.
    GO:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.
cellular component
    GO:0005677    chromatin silencing complex    Any protein complex that mediates changes in chromatin structure that result in transcriptional silencing.
    GO:0005694    chromosome    A structure composed of a very long molecule of DNA and associated proteins (e.g. histones) that carries hereditary information.
    GO:0000775    chromosome, centromeric region    The region of a chromosome that includes the centromeric DNA and associated proteins. In monocentric chromosomes, this region corresponds to a single area of the chromosome, whereas in holocentric chromosomes, it is evenly distributed along the chromosome.
    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.

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 Related Entries

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

UniProtKB/Swiss-Prot
        SIR1_YEAST | P21691: 1zbx 1zhi

(-) Related Entries Specified in the PDB File

1zhi COMPLEX OF THE S. CEREVISIAE ORC1 AND SIR1 INTERACTING DOMAINS