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(-) Description

Title :  HUMAN SIRT3 BOUND TO AC-ACS PEPTIDE AND CARBA-NAD
 
Authors :  H. Dai
Date :  29 Jun 12  (Deposition) - 15 Aug 12  (Release) - 19 Sep 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.47
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Sirtuin, Carba-Nad, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  B. G. Szczepankiewicz, H. Dai, K. J. Koppetsch, D. Qian, F. Jiang, C. Mao, R. B. Perni
Synthesis Of Carba-Nad And The Structures Of Its Ternary Complexes With Sirt3 And Sirt5.
J. Org. Chem. V. 77 7319 2012
PubMed-ID: 22849721  |  Reference-DOI: 10.1021/JO301067E

(-) Compounds

Molecule 1 - NAD-DEPENDENT PROTEIN DEACETYLASE SIRTUIN-3, MITOCHONDRIAL
    ChainsA
    EC Number3.5.1.-
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Taxid562
    FragmentUNP RESIDUES 122-395
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymHSIRT3, REGULATORY PROTEIN SIR2 HOMOLOG 3, SIR2-LIKE PROTEIN 3
 
Molecule 2 - ACETYLATED ACS2 PEPTIDE
    ChainsB
    EngineeredYES
    Other DetailsSYNTHETIC AC-ACS2 PEPTIDE
    SyntheticYES

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (6, 8)

Asymmetric/Biological Unit (6, 8)
No.NameCountTypeFull Name
1ALY1Mod. Amino AcidN(6)-ACETYLLYSINE
2CNA1Ligand/IonCARBA-NICOTINAMIDE-ADENINE-DINUCLEOTIDE
3GOL1Ligand/IonGLYCEROL
4NLE1Mod. Amino AcidNORLEUCINE
5SO43Ligand/IonSULFATE ION
6ZN1Ligand/IonZINC ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:145 , ALA A:146 , GLY A:147 , THR A:150 , PRO A:155 , ASP A:156 , PHE A:157 , GLN A:228 , ASN A:229 , ILE A:230 , ASP A:231 , HIS A:248 , GLY A:319 , THR A:320 , SER A:321 , VAL A:324 , ASN A:344 , ARG A:345 , GLY A:364 , VAL A:366 , HOH A:522 , HOH A:523 , ALY B:5BINDING SITE FOR RESIDUE CNA A 401
2AC2SOFTWAREARG A:279 , ARG A:384 , HOH A:530 , HOH A:542BINDING SITE FOR RESIDUE SO4 A 402
3AC3SOFTWAREPRO A:299 , GLN A:300 , SER B:3BINDING SITE FOR RESIDUE SO4 A 403
4AC4SOFTWAREARG A:214 , GLU A:390 , LYS A:393BINDING SITE FOR RESIDUE SO4 A 404
5AC5SOFTWARECYS A:256 , CYS A:259 , CYS A:280 , CYS A:283BINDING SITE FOR RESIDUE ZN A 405
6AC6SOFTWAREGLY A:220 , LEU A:222 , LYS A:243 , HOH A:528BINDING SITE FOR RESIDUE GOL A 406

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Glu A:325 -Pro A:326

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4FVT)

(-) 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:274
                                                                                                                                                                                                                                                                                                                  
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhh.....eeeee.hhhhhhhh........hhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhh..eeeeee....hhhhhh..hhh.eee..eeeeeeee.....eee...hhhhhhh............eeeee.......hhhhhhhhhhh....eeeee.......hhhhhhhhh.....eeeee....hhhhhh....eeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fvt A 122 KLSLQDVAELIRARACQRVVVMVGAGISTPSGIPDFRSPGSGLYSNLQQYDLPYPEAIFELPFFFHNPKPFFTLAKELYPGNYKPNVTHYFLRLLHDKGLLLRLYTQNIDGLERVSGIPASKLVEAHGTFASATCTVCQRPFPGEDIRADVMADRVPRCPVCTGVVKPDIVFFGEPLPQRFLLHVVDFPMADLLLILGTSLEVEPFASLTEAVRSSVPRLLINRDLVGPLAWHPRSRDVAQLGDVVHGVESLVELLGWTEEMRDLVQRETGKLD 395
                                   131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391    

Chain B from PDB  Type:PROTEIN  Length:5
                                     
               SCOP domains ----- SCOP domains
               CATH domains ----- CATH domains
               Pfam domains ----- Pfam domains
         Sec.struct. author ..... Sec.struct. author
                 SAPs(SNPs) ----- SAPs(SNPs)
                    PROSITE ----- PROSITE
                 Transcript ----- Transcript
                 4fvt B   3 SGkVl   7
                              | |
                              5-ALY
                                7-NLE

   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 4FVT)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (19, 19)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Glu A:325 - Pro A:326   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/Swiss-Prot
        SIR3_HUMAN | Q9NTG73glr 3gls 3glt 3glu 4bn4 4bn5 4bv3 4bvb 4bve 4bvf 4bvg 4bvh 4c78 4c7b 4fz3 4hd8 4jsr 4jt8 4jt9 4o8z 4v1c 5bwn 5bwo 5d7n

(-) Related Entries Specified in the PDB File

4g1c