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(-) Description

Title :  STRUCTURAL COMPARISON OF NAS6P PROTEIN STRUCTURES IN TWO DIFFERENT CRYSTAL FORMS
 
Authors :  Y. Nakamura, T. Umehara, A. Tanaka, M. Horikoshi, S. Yokoyama, B. Padmanabhan, Riken Structural Genomics/Proteomics Initiative (Rsgi)
Date :  27 May 04  (Deposition) - 07 Jun 05  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.53
Chains :  Asym./Biol. Unit :  A
Keywords :  Ankyrin Repeats, Gankyrin Homolog, Riken Structural Genomics/Proteomics Initiative, Rsgi, Structural Genomics, Protein Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Nakamura, T. Umehara, A. Tanaka, M. Horikoshi, S. Yokoyama, B. Padmanabhan
Structural Comparison Of Nas6P Protein Structures In Two Different Crystal Forms
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PROBABLE 26S PROTEASOME REGULATORY SUBUNIT P28
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28B-NAS6P
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE
    Organism Taxid: 4932
    Synonym: PROTEASOME NON-ATPASE SUBUNIT 6, NAS6P

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1WG0)

(-) Sites  (0, 0)

(no "Site" information available for 1WG0)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1WG0)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1WG0)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1WG0)

(-) PROSITE Motifs  (2, 5)

Asymmetric/Biological Unit (2, 5)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ANK_REP_REGIONPS50297 Ankyrin repeat region circular profile.PSD10_YEAST1-206  1A:1-206
2ANK_REPEATPS50088 Ankyrin repeat profile.PSD10_YEAST35-67
71-103
106-138
173-206		  4A:35-67
A:71-103
A:106-138
A:173-206

(-) Exons   (1, 1)

Asymmetric/Biological Unit (1, 1)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1YGR232W1YGR232W.1VII:953963-954649687PSD10_YEAST1-2282281A:1-228228

(-) 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:243
 aligned with PSD10_YEAST | P50086 from UniProtKB/Swiss-Prot  Length:228

    Alignment length:243
                                                                                                                                                                                                                                                             228               
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       | -         -   
          PSD10_YEAST     1 MSNYPLHQACMENEFFKVQELLHSKPSLLLQKDQDGRIPLHWSVSFQAHEITSFLLSKMENVNLDDYPDDSGWTPFHIACSVGNLEVVKSLYDRPLKPDLNKITNQGVTCLHLAVGKKWFEVSQFLIENGASVRIKDKFNQIPLHRAASVGSLKLIELLCGLGKSAVNWQDKQGWTPLFHALAEGHGDAAVLLVEKYGAEYDLVDNKGAKAEDVALNEQVKKFFLNNV---------------   -
               SCOP domains d1wg0a_ A: automated matches                                                                                                                                                                                                                        SCOP domains
               CATH domains 1wg0A01 A:1-228  [code=1.25.40.20, no name defined]                                                                                                                                                                                 --------------- CATH domains
           Pfam domains (1) ---------------------------------------------------------------------------------------------------------Ank-1wg0A01 A:106-138            --------------------------------------------------------------------------------------------------------- Pfam domains (1)
           Pfam domains (2) ---------------------------------------------------------------------------------------------------------Ank-1wg0A02 A:106-138            --------------------------------------------------------------------------------------------------------- Pfam domains (2)
           Pfam domains (3) ---------------------------------------------------------------------------------------------------------Ank-1wg0A03 A:106-138            --------------------------------------------------------------------------------------------------------- Pfam domains (3)
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhh.hhhhhhhhhhhh...hhhhh......hhhhhhhhhhhhhhhhhhhh...............hhhhhhhhh.hhhhhhhhhhh............hhhhhhhhh.hhhhhhhhhh..............hhhhhhhhh.hhhhhhhhhhhhh...........hhhhhh.hhhhhhhhhh................. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ANK_REP_REGION  PDB: A:1-206 UniProt: 1-206                                                                                                                                                                   ------------------------------------- PROSITE (1)
                PROSITE (2) ----------------------------------ANK_REPEAT  PDB: A:35-67         ---ANK_REPEAT  PDB: A:71-103        --ANK_REPEAT  PDB: A:106-138       ----------------------------------ANK_REPEAT  PDB: A:173-206        ------------------------------------- PROSITE (2)
               Transcript 1 Exon 1.1  PDB: A:1-228 UniProt: 1-228                                                                                                                                                                                               --------------- Transcript 1
                 1wg0 A   1 MSNYPLHQACMENEFFKVQELLHSKPSLLLQKDQDGRIPLHWSVSFQAHEITSFLLSKMENVNLDDYPDDSGWTPFHIACSVGNLEVVKSLYDRPLKPDLNKITNQGVTCLHLAVGKKWFEVSQFLIENGASVRIKDKFNQIPLHRAASVGSLKLIELLCGLGKSAVNWQDKQGWTPLFHALAEGHGDAAVLLVEKYGAEYDLVDNKGAKAEDVALNEQVKKFFLNNVVDKLAAALEHHHHHH 243
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240
   Legend:   → Mismatch (orange background)
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  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, 1)

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

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (1, 3)

Asymmetric/Biological Unit
(-)
Clan: Ank (35)

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (PSD10_YEAST | P50086)
molecular function
    GO:0003674    molecular_function    Elemental activities, such as catalysis or binding, describing the actions of a gene product at the molecular level. A given gene product may exhibit one or more molecular functions.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
biological process
    GO:0070682    proteasome regulatory particle assembly    The aggregation, arrangement and bonding together of a mature, active proteasome regulatory particle complex.
    GO:0006508    proteolysis    The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.
cellular component
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
    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.
    GO:0005838    proteasome regulatory particle    A multisubunit complex, which caps one or both ends of the proteasome core complex. This complex recognizes and unfolds ubiquitinated proteins, and translocates them to the proteasome core complex.

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 Related Entries

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

UniProtKB/Swiss-Prot
        PSD10_YEAST | P50086: 1ixv 2dzn 2dzo

(-) Related Entries Specified in the PDB File

1ixv RELATED ID: AR_001000295.1 RELATED DB: TARGETDB