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(-) Description

Title :  STRUCTURE OF NAD-DEPENDENT PROTEIN DEACETYLASE SIRTUIN-1 (CLOSED STATE, 2.25 A)
 
Authors :  A. M. Davenport, F. M. Huber, A. Hoelz
Date :  14 Dec 12  (Deposition) - 23 Oct 13  (Release) - 06 Nov 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.25
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Deacetylase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. M. Davenport, F. M. Huber, A. Hoelz
Structure Of A Nucleoporin Complex
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - NAD-DEPENDENT PROTEIN DEACETYLASE SIRTUIN-1
    Chains: A
    EC Number: 3.5.1.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 234-510
    Gene: SIR2L1, SIRT1
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: HSIRT1, REGULATORY PROTEIN SIR2 HOMOLOG 1, SIR2-LIKE PROTEIN 1, HSIR2, SIRTT1 75 KDA FRAGMENT, 75SIRT1
 
Molecule 2 - NAD-DEPENDENT PROTEIN DEACETYLASE SIRTUIN-1
    Chains: B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 641-665
    Gene: SIRT1, SIR2L1
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name
1APR1Ligand/IonADENOSINE-5-DIPHOSPHORIBOSE
2ZN1Ligand/IonZINC ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS A:371 , CYS A:374 , CYS A:395 , CYS A:398BINDING SITE FOR RESIDUE ZN A 601
2AC2SOFTWAREGLY A:261 , ALA A:262 , GLY A:263 , VAL A:266 , ASP A:272 , PHE A:273 , ARG A:274 , TYR A:280 , GLN A:345 , HIS A:363 , GLY A:440 , SER A:441 , SER A:442 , VAL A:445 , ASN A:465 , ARG A:466 , GLU A:467 , GLY A:480 , ASP A:481 , CYS A:482 , HOH A:711 , HOH A:791 , HOH A:809 , HOH A:862BINDING SITE FOR RESIDUE APR A 602

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4IF6)

(-) Cis Peptide Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1Arg A:446 -Pro A:447
2Asn A:503 -Pro A:504
3Pro B:646 -Pro B:647

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4IF6)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4IF6)

(-) Exons   (0, 0)

(no "Exon" information available for 4IF6)

(-) 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:278
                                                                                                                                                                                                                                                                                                                      
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........hhhhhhhhhhhh..eeeee.hhhhhhhh........hhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhh..eeeeee....hhhhhhh...eee..eeeeeeee.....eeehhhhhhhhh..................eeeee.......hhhhhhhhhhhh....eeeee.......hhhhhhhhh.....eeeee..........eeee.hhhhhhhhhhhhhhhhhhhhh......... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4if6 A  -1 MRKKRKDINTIEDAVKLLQECKKIIVLTGAGVSVSCGIPDFRSRDGIYARLAVDFPDLPDPQAMFDIEYFRKDPRPFFKFAKEIYPGQFQPSLCHKFIALSDKEGKLLRNYTQNIDTLEQVAGIQRIIQCHGSFATASCLICKYKVDCEAVRGDIFNQVVPRCPRCPADEPLAIMKPEIVFFGENLPEQFHRAMKYDKDEVDLLIVIGSSLKVRPVALIPSSIPHEVPQILINREPLPHLHFDVELLGDCDVIINELCHRLGGEYAKLCCNPVKLSEI 510
                            ||     242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472       482       492       502        
                            ||                                                                                                                                                                                                                                                                                    
                           -1|                                                                                                                                                                                                                                                                                    
                           234                                                                                                                                                                                                                                                                                    


Chain B from PDB  Type:PROTEIN  Length:26
                                                          
               SCOP domains -------------------------- SCOP domains
               CATH domains -------------------------- CATH domains
               Pfam domains -------------------------- Pfam domains
         Sec.struct. author ........eee...eee...hhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------- SAPs(SNPs)
                    PROSITE -------------------------- PROSITE
                 Transcript -------------------------- Transcript
                 4if6 B  -6 GPHMGSQYLFLPPNRYIFHGAEVYSD 660
                                 ||644       654      
                                -1|                   
                                641
   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 4IF6)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4IF6)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4IF6)

(-) Gene Ontology  (161, 161)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Arg A:446 - Pro A:447   [ RasMol ]  
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    Pro B:646 - Pro B:647   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/Swiss-Prot
        SIR1_HUMAN | Q96EB6: 4i5i 4ig9 4kxq 4zzh 4zzi 4zzj 5btr

(-) Related Entries Specified in the PDB File

4i9y 4if5 4ig9