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(-) Description

Title :  TWO SEVEN-BLADED BETA-PROPELLER DOMAINS REVEALED BY THE STRUCTURE OF A C. ELEGANS HOMOLOGUE OF YEAST ACTIN INTERACTING PROTEIN 1 (AIP1).
 
Authors :  S. M. Vorobiev, K. Mohri, S. Ono, S. C. Almo, S. K. Burley, New York Sgx Research Center For Structural Genomics (Nysgxrc)
Date :  23 Jan 03  (Deposition) - 01 Jul 03  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym./Biol. Unit :  A
Keywords :  Beta Propeller, Wd40 Repeat, Actin Interacting Protein, Adf, Cofilin, Structural Genomics, Psi, Protein Structure Initiative, New York Sgx Research Center For Structural Genomics, Nysgxrc, Structural Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Mohri, S. M. Vorobiev, A. A. Fedorov, S. C. Almo, S. Ono
Identification Of Functional Residues On Caenorhabditis Elegans Actin-Interacting Protein 1 (Unc-78) For Disassembly Of Actin Depolymerizing Factor/Cofilin-Bound Actin Filaments
J. Biol. Chem. V. 279 31697 2004
PubMed-ID: 15150269  |  Reference-DOI: 10.1074/JBC.M403351200
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - ACTIN INTERACTING PROTEIN 1
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET-UNC-78
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: UNC-78 OR C04F6.4
    Organism Scientific: CAENORHABDITIS ELEGANS
    Organism Taxid: 6239
    Synonym: AIP1, UNCOORDINATED PROTEIN 78

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1MN1Ligand/IonMANGANESE (II) ION

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:154 , HOH A:839 , HOH A:864 , HOH A:1016 , HOH A:1159 , HOH A:1411BINDING SITE FOR RESIDUE MN A 700

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1NR0)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Arg A:159 -Pro A:160
2Gly A:177 -Pro A:178
3Pro A:178 -Pro A:179
4Phe A:362 -Pro A:363

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1NR0)

(-) PROSITE Motifs  (1, 3)

Asymmetric/Biological Unit (1, 3)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1WD_REPEATS_1PS00678 Trp-Asp (WD) repeats signature.WDR1_CAEEL254-268
551-565
595-609		  3A:254-268
A:551-565
A:595-609

(-) Exons   (0, 0)

(no "Exon" information available for 1NR0)

(-) 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:610
 aligned with WDR1_CAEEL | Q11176 from UniProtKB/Swiss-Prot  Length:611

    Alignment length:610
                                    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
           WDR1_CAEEL     2 SEFSQTALFPSLPRTARGTAVVLGNTPAGDKIQYCNGTSVYTVPVGSLTDTEIYTEHSHQTTVAKTSPSGYYCASGDVHGNVRIWDTTQTTHILKTTIPVFSGPVKDISWDSESKRIAAVGEGRERFGHVFLFDTGTSNGNLTGQARAMNSVDFKPSRPFRIISGSDDNTVAIFEGPPFKFKSTFGEHTKFVHSVRYNPDGSLFASTGGDGTIVLYNGVDGTKTGVFEDDSLKNVAHSGSVFGLTWSPDGTKIASASADKTIKIWNVATLKVEKTIPVGTRIEDQQLGIIWTKQALVSISANGFINFVNPELGSIDQVRYGHNKAITALSSSADGKTLFSADAEGHINSWDISTGISNRVFPDVHATMITGIKTTSKGDLFTVSWDDHLKVVPAGGSGVDSSKAVANKLSSQPLGLAVSADGDIAVAACYKHIAIYSHGKLTEVPISYNSSCVALSNDKQFVAVGGQDSKVHVYKLSGASVSEVKTIVHPAEITSVAFSNNGAFLVATDQSRKVIPYSVANNFELAHTNSWTFHTAKVACVSWSPDNVRLATGSLDNSVIVWNMNKPSDHPIIIKGAHAMSSVNSVIWLNETTIVSAGQDSNIKFWNVPF 611
               SCOP domains d1nr0a1 A:2-312 Actin interacting protein 1                                                                                                                                                                                                                                                                            d1nr0a2 A:313-611 Actin interacting protein 1                                                                                                                                                                                                                                                               SCOP domains
               CATH domains 1nr0A01   1nr0A02 A:12-323 YVTN repeat-like/Quinoprotein amine dehydrogenase                                                                                                                                                                                                                                                      1nr0A01 A:2-11,A:324-611 YVTN repeat-like/Quinoprotein amine dehydrogenase                                                                                                                                                                                                                       CATH domains
           Pfam domains (1) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------WD40-1nr0A01 A:581-608      --- Pfam domains (1)
           Pfam domains (2) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------WD40-1nr0A02 A:581-608      --- Pfam domains (2)
           Pfam domains (3) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------WD40-1nr0A03 A:581-608      --- Pfam domains (3)
           Pfam domains (4) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------WD40-1nr0A04 A:581-608      --- Pfam domains (4)
           Pfam domains (5) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------WD40-1nr0A05 A:581-608      --- Pfam domains (5)
           Pfam domains (6) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------WD40-1nr0A06 A:581-608      --- Pfam domains (6)
           Pfam domains (7) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------WD40-1nr0A07 A:581-608      --- Pfam domains (7)
           Pfam domains (8) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------WD40-1nr0A08 A:581-608      --- Pfam domains (8)
         Sec.struct. author ...eeeeee..............ee.....eeeeee..eeeeee.......eee......eeeeee.....eeeeee...eeeeee.......eeeeee.....eeeeee.....eeeeee......eeeee................eeeeee......eeeeee....eeeee....eeeeee......eeeeee.....eeeeee....eeeee.....eeee..............eeeeee.....eeeeee...eeeeee....eeeeeee...hhhh.eeeeee....eeeee....eeeee....eeeeee......eeeeee.....eeeeee....eeeee.....eee.........eeeeee.....eeeee...eeeee.............eee....eeeeee......eeeee..eeeeee..eeeeee....eeeeee.....eeeeee...eeeeeeee..eeeeeeeee....eeeeee.....eeeeee....eeeee.....ee............eeeeee.....eeeeee....eeeee........eee........eeeeeeee..eeeeee....eeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------WD_REPEATS_1   ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------WD_REPEATS_1   -----------------------------WD_REPEATS_1   -- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1nr0 A   2 SEFSQTALFPSLPRTARGTAVVLGNTPAGDKIQYCNGTSVYTVPVGSLTDTEIYTEHSHQTTVAKTSPSGYYCASGDVHGNVRIWDTTQTTHILKTTIPVFSGPVKDISWDSESKRIAAVGEGRERFGHVFLFDTGTSNGNLTGQARAMNSVDFKPSRPFRIISGSDDNTVAIFEGPPFKFKSTFGEHTKFVHSVRYNPDGSLFASTGGDGTIVLYNGVDGTKTGVFEDDSLKNVAHSGSVFGLTWSPDGTKIASASADKTIKIWNVATLKVEKTIPVGTRIEDQQLGIIWTKQALVSISANGFINFVNPELGSIDQVRYGHNKAITALSSSADGKTLFSADAEGHINSWDISTGISNRVFPDVHATMITGIKTTSKGDLFTVSWDDHLKVVPAGGSGVDSSKAVANKLSSQPLGLAVSADGDIAVAACYKHIAIYSHGKLTEVPISYNSSCVALSNDKQFVAVGGQDSKVHVYKLSGASVSEVKTIVHPAEITSVAFSNNGAFLVATDQSRKVIPYSVANNFELAHTNSWTFHTAKVACVSWSPDNVRLATGSLDNSVIVWNMNKPSDHPIIIKGAHAMSSVNSVIWLNETTIVSAGQDSNIKFWNVPF 611
                                    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
   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/Biological Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 2)

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

(-) Pfam Domains  (1, 8)

Asymmetric/Biological Unit
(-)
Clan: Beta_propeller (192)
(-)
Family: WD40 (64)
(-)
Caenorhabditis elegans (2)
1aWD40-1nr0A01A:581-608
1bWD40-1nr0A02A:581-608
1cWD40-1nr0A03A:581-608
1dWD40-1nr0A04A:581-608
1eWD40-1nr0A05A:581-608
1fWD40-1nr0A06A:581-608
1gWD40-1nr0A07A:581-608
1hWD40-1nr0A08A:581-608

(-) Gene Ontology  (13, 13)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (WDR1_CAEEL | Q11176)
molecular function
    GO:0003779    actin binding    Interacting selectively and non-covalently with monomeric or multimeric forms of actin, including actin filaments.
    GO:0051015    actin filament binding    Interacting selectively and non-covalently with an actin filament, also known as F-actin, a helical filamentous polymer of globular G-actin subunits.
biological process
    GO:0040011    locomotion    Self-propelled movement of a cell or organism from one location to another.
    GO:0071689    muscle thin filament assembly    The aggregation, arrangement and bonding together of proteins to form the actin-based thin filaments of myofibrils in striated muscle.
    GO:0030837    negative regulation of actin filament polymerization    Any process that stops, prevents, or reduces the frequency, rate or extent of actin polymerization.
    GO:0030836    positive regulation of actin filament depolymerization    Any process that activates or increases the frequency, rate or extent of actin depolymerization.
    GO:0040012    regulation of locomotion    Any process that modulates the frequency, rate or extent of locomotion of a cell or organism.
    GO:0030240    skeletal muscle thin filament assembly    The aggregation, arrangement and bonding together of proteins to form the actin-based thin filaments of myofibrils in skeletal muscle.
cellular component
    GO:0042643    actomyosin, actin portion    The actin part of any complex of actin, myosin, and accessory proteins.
    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.
    GO:0030016    myofibril    The contractile element of skeletal and cardiac muscle; a long, highly organized bundle of actin, myosin, and other proteins that contracts by a sliding filament mechanism.
    GO:0016528    sarcoplasm    The cytoplasm of a muscle cell; includes the sarcoplasmic reticulum.

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 Related Entries

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        WDR1_CAEEL | Q11176: 1pev

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