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(-) Description

Title :  YEAST ACTIN INTERACTING PROTEIN 1 (AIP1), SE-MET PROTEIN, MONOCLINIC CRYSTAL FORM
 
Authors :  W. C. Voegtli, A. Y. Madrona, D. K. Wilson
Date :  28 May 03  (Deposition) - 15 Jul 03  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Wd Repeat, Seven-Bladed Beta-Propeller, Protein Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  W. C. Voegtli, A. Y. Madrona, D. K. Wilson
The Structure Of Aip1P, A Wd Repeat Protein That Regulates Cofilin-Mediated Actin Depolymerization.
J. Biol. Chem. V. 278 34373 2003
PubMed-ID: 12807914  |  Reference-DOI: 10.1074/JBC.M302773200
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - ACTIN INTERACTING PROTEIN 1
    ChainsA, B
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPTYB4
    Expression System StrainBL21*
    Expression System Taxid562
    Expression System Vector TypePLASMID
    GeneAIP1 OR YMR092C OR YM9582.17C
    MutationYES
    Organism CommonBAKER'S YEAST
    Organism ScientificSACCHAROMYCES CEREVISIAE
    Organism Taxid4932

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 14)

Asymmetric/Biological Unit (2, 14)
No.NameCountTypeFull Name
1MSE12Mod. Amino AcidSELENOMETHIONINE
2ZN2Ligand/IonZINC ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:368 , ASP A:370 , HIS B:328 , GLU B:330BINDING SITE FOR RESIDUE ZN A 616
2AC2SOFTWAREHIS A:328 , GLU A:330 , HIS B:368 , ASP B:370BINDING SITE FOR RESIDUE ZN B 616

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:132 -A:166

(-) Cis Peptide Bonds  (8, 8)

Asymmetric/Biological Unit
No.Residues
1Arg A:172 -Pro A:173
2Gly A:190 -Pro A:191
3Pro A:191 -Pro A:192
4Asn A:348 -Pro A:349
5Arg B:172 -Pro B:173
6Gly B:190 -Pro B:191
7Pro B:191 -Pro B:192
8Asn B:348 -Pro B:349

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (1, 2)

Asymmetric/Biological Unit (1, 2)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1YMR092C1YMR092C.1XIII:453478-4516311848AIP1_YEAST1-6156152A:2-613 (gaps)
B:2-615 (gaps)
612
614

(-) 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:606
 aligned with AIP1_YEAST | P46680 from UniProtKB/Swiss-Prot  Length:615

    Alignment length:612
                                    11        21        31        41        51        61        71        81        91       101       111       121       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       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551       561       571       581       591       601       611  
           AIP1_YEAST     2 SSISLKEIIPPQPSTQRNFTTHLSYDPTTNAIAYPCGKSAFVRCLDDGDSKVPPVVQFTGHGSSVVTTVKFSPIKGSQYLCSGDESGKVIVWGWTFDKESNSVEVNVKSEFQVLAGPISDISWDFEGRRLCVVGEGRDNFGVFISWDSGNSLGEVSGHSQRINACHLKQSRPMRSMTVGDDGSVVFYQGPPFKFSASDRTHHKQGSFVRDVEFSPDSGEFVITVGSDRKISCFDGKSGEFLKYIEDDQEPVQGGIFALSWLDSQKFATVGADATIRVWDVTTSKCVQKWTLDKQQLGNQQVGVVATGNGRIISLSLDGTLNFYELGHDEVLKTISGHNKGITALTVNPLISGSYDGRIMEWSSSSMHQDHSNLIVSLDNSKAQEYSSISWDDTLKVNGITKHEFGSQPKVASANNDGFTAVLTNDDDLLILQSFTGDIIKSVRLNSPGSAVSLSQNYVAVGLEEGNTIQVFKLSDLEVSFDLKTPLRAKPSYISISPSETYIAAGDVMGKILLYDLQSREVKTSRWAFHTSKINAISWKPAEKGANEEEIEEDLVATGSLDTNIFIYSVKRPMKIIKALNAHKDGVNNLLWETPSTLVSSGADACIKRWNVV 613
               SCOP domains d1pgua1 A:2-326 Actin interacting protein 1                                                                                                                                                                                                                                                                                          d1pgua2 A:327-613 Actin interacting protein 1                                                                                                                                                                                                                                                   SCOP domains
               CATH domains -1pguA01  1pguA02 A:12-335 YVTN repeat-like/Quinoprotein amine dehydrogenase                                                                                                                                                                                                                                                                  1pguA01 A:3-11,A:336-613 YVTN repeat-like/Quinoprotein amine dehydrogenase                                                                                                                                                                                                             CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeeeee..............eee....eeeeee..eeeeee..........eeee.......eeeeee.......eeeeee...eeeeeeeeee....eeeeeeeeeee.....eeeeee.....eeeeee......eeeee.....eeee.......eeeeee......eeeeee...eeeeee....eeeeee.........eeeeee......eeeeee....eeeee.....eeee...........eeeeee....eeeeee...eeeeee....eeeeeee....hhhh.eeeeeeee..eeeeee....eeeee..eeeeeeee......eeeee....eeee....eee....eee......eeeee.......eeee...eeee..eeeee....eeeeee....eeeeee...eeeeee.....eeeeee....eeeeee...eeeeee.....eeeee..eeeeeee........eeeeee.....eeeeee....eeeee....eeee.........eeeeee....------.....eeeeee....eeeee.......eee.......eeeeeeee..eeeeee....eeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
               Transcript 1 Exon 1.1  PDB: A:2-613 (gaps) UniProt: 1-615 [INCOMPLETE]                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Transcript 1
                 1pgu A   2 SSISLKEIIPPQPSTQRNFTTHLSYDPTTNAIAYPCGKSAFVRCLDDGDSKVPPVVQFTGHGSSVVTTVKFSPIKGSQYLCSGDESGKVIVWGWTFDKESNSVEVNVKSEFQVLAGPISDISWDFEGRRLCVVGEGRDNFGVFISWDSGNSLGEVSGHSQRINACHLKQSRPmRSmTVGDDGSVVFYQGPPFKFSASDRTHHKQGSFVRDVEFSPDSGEFVITVGSDRKISCFDGKSGEFLKYIEDDQEPVQGGIFALSWLDSQKFATVGADATIRVWDVTTSKCVQKWTLDKQQLGNQQVGVVATGNGRIISLSLDGTLNFYELGHDEVLKTISGHNKGITALTVNPLISGSYDGRImEWSSSSmHQDHSNLIVSLDNSKAQEYSSISWDDTLKVNGITKHEFGSQPKVASANNDGFTAVLTNDDDLLILQSFTGDIIKSVRLNSPGSAVSLSQNYVAVGLEEGNTIQVFKLSDLEVSFDLKTPLRAKPSYISISPSETYIAAGDVmGKILLYDLQSREVKTSRWAFRTSKINAISWKPAE------EIEEDLVATGSLDTNIFIYSVKRPmKIIKALNAHKDGVNNLLWETPSTLVSSGADACIKRWNVV 613
                                    11        21        31        41        51        61        71        81        91       101       111       121       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       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541 |     551       561       571  |    581       591       601       611  
                                                                                                                                                                                                      174-MSE                                                                                                                                                                                   360-MSE  |                                                                                                                                           509-MSE                           543    550                     574-MSE                                   
                                                                                                                                                                                                         177-MSE                                                                                                                                                                                       367-MSE                                                                                                                                                                                                                                                  

Chain B from PDB  Type:PROTEIN  Length:608
 aligned with AIP1_YEAST | P46680 from UniProtKB/Swiss-Prot  Length:615

    Alignment length:614
                                    11        21        31        41        51        61        71        81        91       101       111       121       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       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551       561       571       581       591       601       611    
           AIP1_YEAST     2 SSISLKEIIPPQPSTQRNFTTHLSYDPTTNAIAYPCGKSAFVRCLDDGDSKVPPVVQFTGHGSSVVTTVKFSPIKGSQYLCSGDESGKVIVWGWTFDKESNSVEVNVKSEFQVLAGPISDISWDFEGRRLCVVGEGRDNFGVFISWDSGNSLGEVSGHSQRINACHLKQSRPMRSMTVGDDGSVVFYQGPPFKFSASDRTHHKQGSFVRDVEFSPDSGEFVITVGSDRKISCFDGKSGEFLKYIEDDQEPVQGGIFALSWLDSQKFATVGADATIRVWDVTTSKCVQKWTLDKQQLGNQQVGVVATGNGRIISLSLDGTLNFYELGHDEVLKTISGHNKGITALTVNPLISGSYDGRIMEWSSSSMHQDHSNLIVSLDNSKAQEYSSISWDDTLKVNGITKHEFGSQPKVASANNDGFTAVLTNDDDLLILQSFTGDIIKSVRLNSPGSAVSLSQNYVAVGLEEGNTIQVFKLSDLEVSFDLKTPLRAKPSYISISPSETYIAAGDVMGKILLYDLQSREVKTSRWAFHTSKINAISWKPAEKGANEEEIEEDLVATGSLDTNIFIYSVKRPMKIIKALNAHKDGVNNLLWETPSTLVSSGADACIKRWNVVLE 615
               SCOP domains d1pgub1 B:2-326 Actin interacting protein 1                                                                                                                                                                                                                                                                                          d1pgub2 B:327-615 Actin interacting protein 1                                                                                                                                                                                                                                                     SCOP domains
               CATH domains 1pguB01    1pguB02 B:13-337 YVTN repeat-like/Quinoprotein amine dehydrogenase                                                                                                                                                                                                                                                                   1pguB01 B:2-12,B:338-615 YVTN repeat-like/Quinoprotein amine dehydrogenase                                                                                                                                                                                                             CATH domains
           Pfam domains (1) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------WD40-1pguB01 B:574-611                ---- Pfam domains (1)
           Pfam domains (2) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------WD40-1pguB02 B:574-611                ---- Pfam domains (2)
           Pfam domains (3) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------WD40-1pguB03 B:574-611                ---- Pfam domains (3)
           Pfam domains (4) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------WD40-1pguB04 B:574-611                ---- Pfam domains (4)
           Pfam domains (5) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------WD40-1pguB05 B:574-611                ---- Pfam domains (5)
           Pfam domains (6) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------WD40-1pguB06 B:574-611                ---- Pfam domains (6)
           Pfam domains (7) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------WD40-1pguB07 B:574-611                ---- Pfam domains (7)
           Pfam domains (8) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------WD40-1pguB08 B:574-611                ---- Pfam domains (8)
           Pfam domains (9) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------WD40-1pguB09 B:574-611                ---- Pfam domains (9)
          Pfam domains (10) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------WD40-1pguB10 B:574-611                ---- Pfam domains (10)
         Sec.struct. author .eeeeeeee..............eee....eeeeee..eeeeee..........eeee.......eeeeee.......eeeeee...eeeeeeeee......eeeeeeeeee.....eeeeee.....eeeeee......eeeee.....eeee.......eeeeee.....eeeeeee...eeeeeee...eeeeee.........eeeeee......eeeeee....eeeee.....eeee...........eeeeee....eeeeee...eeeeee....eeeeeee....hhhh.eeeeee....eeeeee....eeeee.......eee......eeeee....eeee....eee....eee......eeeee.......eeee...eeee..eeeee....eeeeee....eeeeee...eeeeee.....eeeeee....eeeeee...eeeeee....eeeeee..eeeeeee........eeeeee.....eeeeee....eeeee....eeee.........eeeeee....------.....eeeeee....eeeee.......eee.......eeeeeeee..eeeeee....eeeeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
               Transcript 1 Exon 1.1  PDB: B:2-615 (gaps) UniProt: 1-615 [INCOMPLETE]                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Transcript 1
                 1pgu B   2 SSISLKEIIPPQPSTQRNFTTHLSYDPTTNAIAYPCGKSAFVRCLDDGDSKVPPVVQFTGHGSSVVTTVKFSPIKGSQYLCSGDESGKVIVWGWTFDKESNSVEVNVKSEFQVLAGPISDISWDFEGRRLCVVGEGRDNFGVFISWDSGNSLGEVSGHSQRINACHLKQSRPmRSmTVGDDGSVVFYQGPPFKFSASDRTHHKQGSFVRDVEFSPDSGEFVITVGSDRKISCFDGKSGEFLKYIEDDQEPVQGGIFALSWLDSQKFATVGADATIRVWDVTTSKCVQKWTLDKQQLGNQQVGVVATGNGRIISLSLDGTLNFYELGHDEVLKTISGHNKGITALTVNPLISGSYDGRImEWSSSSmHQDHSNLIVSLDNSKAQEYSSISWDDTLKVNGITKHEFGSQPKVASANNDGFTAVLTNDDDLLILQSFTGDIIKSVRLNSPGSAVSLSQNYVAVGLEEGNTIQVFKLSDLEVSFDLKTPLRAKPSYISISPSETYIAAGDVmGKILLYDLQSREVKTSRWAFRTSKINAISWKPAE------EIEEDLVATGSLDTNIFIYSVKRPmKIIKALNAHKDGVNNLLWETPSTLVSSGADACIKRWNVVLE 615
                                    11        21        31        41        51        61        71        81        91       101       111       121       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       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541 |     551       561       571  |    581       591       601       611    
                                                                                                                                                                                                      174-MSE                                                                                                                                                                                   360-MSE  |                                                                                                                                           509-MSE                           543    550                     574-MSE                                     
                                                                                                                                                                                                         177-MSE                                                                                                                                                                                       367-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, 4)

Asymmetric/Biological Unit

(-) CATH Domains  (1, 4)

Asymmetric/Biological Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (1, 10)

Asymmetric/Biological Unit
(-)
Family: WD40 (64)
1aWD40-1pguB01B:574-611
1bWD40-1pguB02B:574-611
1cWD40-1pguB03B:574-611
1dWD40-1pguB04B:574-611
1eWD40-1pguB05B:574-611
1fWD40-1pguB06B:574-611
1gWD40-1pguB07B:574-611
1hWD40-1pguB08B:574-611
1iWD40-1pguB09B:574-611
1jWD40-1pguB10B:574-611

(-) Gene Ontology  (9, 9)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (AIP1_YEAST | P46680)
molecular function
    GO:0003779    actin binding    Interacting selectively and non-covalently with monomeric or multimeric forms of actin, including actin filaments.
biological process
    GO:0030042    actin filament depolymerization    Disassembly of actin filaments by the removal of actin monomers from a filament.
    GO:0051016    barbed-end actin filament capping    The binding of a protein or protein complex to the barbed (or plus) end of an actin filament, thus preventing the addition, exchange or removal of further actin subunits.
    GO:0032466    negative regulation of cytokinesis    Any process that stops, prevents, or reduces the frequency, rate or extent of the division of the cytoplasm of a cell, and its separation into two daughter cells.
    GO:0006970    response to osmotic stress    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating an increase or decrease in the concentration of solutes outside the organism or cell.
cellular component
    GO:0030479    actin cortical patch    An endocytic patch that consists of an actin-containing structure found at the plasma membrane in cells; formed of networks of branched actin filaments that lie just beneath the plasma membrane and assemble, move, and disassemble rapidly. An example of this is the actin cortical patch found in Saccharomyces cerevisiae.
    GO:0005884    actin filament    A filamentous structure formed of a two-stranded helical polymer of the protein actin and associated proteins. Actin filaments are a major component of the contractile apparatus of skeletal muscle and the microfilaments of the cytoskeleton of eukaryotic cells. The filaments, comprising polymerized globular actin molecules, appear as flexible structures with a diameter of 5-9 nm. They are organized into a variety of linear bundles, two-dimensional networks, and three dimensional gels. In the cytoskeleton they are most highly concentrated in the cortex of the cell just beneath the plasma membrane.
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005856    cytoskeleton    Any of the various filamentous elements that form the internal framework of cells, and typically remain after treatment of the cells with mild detergent to remove membrane constituents and soluble components of the cytoplasm. The term embraces intermediate filaments, microfilaments, microtubules, the microtrabecular lattice, and other structures characterized by a polymeric filamentous nature and long-range order within the cell. The various elements of the cytoskeleton not only serve in the maintenance of cellular shape but also have roles in other cellular functions, including cellular movement, cell division, endocytosis, and movement of organelles.

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 Related Entries

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

UniProtKB/Swiss-Prot
        AIP1_YEAST | P466801pi6

(-) Related Entries Specified in the PDB File

1nr0 TWO SEVEN-BLADED BETA-PROPELLER DOMAINS REVEALED BY THE STRUCTURE OF A C. ELEGANS HOMOLOGUE OF YEAST ACTIN INTERACTING PROTEIN 1 (AIP1)
1pi6 YEAST ACTIN INTERACTING PROTEIN 1 (AIP1), ORTHORHOMBIC CRYSTAL FORM