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(-) Description

Title :  CRYSTAL STRUCTURE OF SPIRE KIND DOMAIN
 
Authors :  C. L. Vizcarra, B. Kreutz, A. A. Rodal, A. V. Toms, J. Lu, W. Zheng, M. E. Qu M. J. Eck
Date :  30 Mar 11  (Deposition) - 06 Jul 11  (Release) - 06 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.20
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Biol. Unit 4:  D  (1x)
Keywords :  C-Lobe Of Protein Kinases, Actin Nucleator, Fmn-Family Formins, Protein Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  C. Vizcarra, B. Kreutz, A. Rodal, A. Toms, J. Lu, W. Zheng, M. Quinlan, M. Eck
Structure Of The Spire Kind Domain And Insights Into Its Interaction With Fmn-Family Formins
Proc. Natl. Acad. Sci. Usa 2011
PubMed: search

(-) Compounds

Molecule 1 - PROTEIN SPIRE HOMOLOG 1
    ChainsA, B, C, D
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET HISTT
    Expression System StrainBL21(DE3)
    Expression System Taxid562
    Expression System Vector TypePLASMID
    FragmentKIND DOMAIN (UNP RESIDUES 20-237)
    GeneSPIRE1, KIAA1135, SPIR1
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymSPIR-1

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit ABCD
Biological Unit 1 (1x)A   
Biological Unit 2 (1x) B  
Biological Unit 3 (1x)  C 
Biological Unit 4 (1x)   D

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 3RBW)

(-) Sites  (0, 0)

(no "Site" information available for 3RBW)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3RBW)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3RBW)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3RBW)

(-) PROSITE Motifs  (1, 4)

Asymmetric Unit (1, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1KINDPS51377 KIND domain profile.SPIR1_HUMAN40-231
 
 
 
  4A:40-231
B:40-231
C:40-231
D:40-231
Biological Unit 1 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1KINDPS51377 KIND domain profile.SPIR1_HUMAN40-231
 
 
 
  1A:40-231
-
-
-
Biological Unit 2 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1KINDPS51377 KIND domain profile.SPIR1_HUMAN40-231
 
 
 
  1-
B:40-231
-
-
Biological Unit 3 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1KINDPS51377 KIND domain profile.SPIR1_HUMAN40-231
 
 
 
  1-
-
C:40-231
-
Biological Unit 4 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1KINDPS51377 KIND domain profile.SPIR1_HUMAN40-231
 
 
 
  1-
-
-
D:40-231

(-) Exons   (0, 0)

(no "Exon" information available for 3RBW)

(-) Sequences/Alignments

Asymmetric 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:154
 aligned with SPIR1_HUMAN | Q08AE8 from UniProtKB/Swiss-Prot  Length:756

    Alignment length:195
                                    47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227     
          SPIR1_HUMAN    38 DALSLEEILRLYNQPINEEQAWAVCYQCCGSLRAAARRRQPRHRVRSAAQIRVWRDGAVTLAPAADDAGEPPPVAGKLGYSQCMETEVIESLGIIIYKALDYGLKENEERELSPPLEQLIDHMANTVEADGSNDEGYEAAEEGLGDEDEKRKISAIRSYRDVMKLCAAHLPTESDAPNHYQAVCRALFAETMELH 232
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeehhhhhhhh....hhhhhhhhhhhhhhhhhh................eeee....eee.....---------------..hhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhh...--------------------------...hhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --KIND  PDB: A:40-231 UniProt: 40-231                                                                                                                                                             - PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3rbw A  38 DALSLEEILRLYNQPINEEQAWAVCYQCCGSLRAAARRRQPRHRVRSAAQIRVWRDGAVTLAPAAD---------------QCMETEVIESLGIIIYKALDYGLKENEERELSPPLEQLIDHMANTVE--------------------------AIRSYRDVMKLCAAHLPTESDAPNHYQAVCRALFAETMELH 232
                                    47        57        67        77        87        97     |   -         - |     127       137       147       157       | -         -         -    |  197       207       217       227     
                                                                                           103             119                                           165                        192                                        

Chain B from PDB  Type:PROTEIN  Length:154
 aligned with SPIR1_HUMAN | Q08AE8 from UniProtKB/Swiss-Prot  Length:756

    Alignment length:195
                                    47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227     
          SPIR1_HUMAN    38 DALSLEEILRLYNQPINEEQAWAVCYQCCGSLRAAARRRQPRHRVRSAAQIRVWRDGAVTLAPAADDAGEPPPVAGKLGYSQCMETEVIESLGIIIYKALDYGLKENEERELSPPLEQLIDHMANTVEADGSNDEGYEAAEEGLGDEDEKRKISAIRSYRDVMKLCAAHLPTESDAPNHYQAVCRALFAETMELH 232
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeehhhhhhhhh...hhhhhhhhhhhhhhhhhhhhh.............eeee....eee.....---------------..hhhhhhhhhhhhhhhhh............hhhhhhhhhhhhh...--------------------------...hhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --KIND  PDB: B:40-231 UniProt: 40-231                                                                                                                                                             - PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3rbw B  38 DALSLEEILRLYNQPINEEQAWAVCYQCCGSLRAAARRRQPRHRVRSAAQIRVWRDGAVTLAPAAD---------------QCMETEVIESLGIIIYKALDYGLKENEERELSPPLEQLIDHMANTVE--------------------------AIRSYRDVMKLCAAHLPTESDAPNHYQAVCRALFAETMELH 232
                                    47        57        67        77        87        97     |   -         - |     127       137       147       157       | -         -         -    |  197       207       217       227     
                                                                                           103             119                                           165                        192                                        

Chain C from PDB  Type:PROTEIN  Length:151
 aligned with SPIR1_HUMAN | Q08AE8 from UniProtKB/Swiss-Prot  Length:756

    Alignment length:196
                                    46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226      
          SPIR1_HUMAN    37 RDALSLEEILRLYNQPINEEQAWAVCYQCCGSLRAAARRRQPRHRVRSAAQIRVWRDGAVTLAPAADDAGEPPPVAGKLGYSQCMETEVIESLGIIIYKALDYGLKENEERELSPPLEQLIDHMANTVEADGSNDEGYEAAEEGLGDEDEKRKISAIRSYRDVMKLCAAHLPTESDAPNHYQAVCRALFAETMELH 232
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeehhhhhhhhh...hhhhhhhhhhhhhhhhhhhhh.............eeee....eee....----------------..hhhhhhhhhhhhhhhhhh...........hhhhhhhhhhh..-----------------------------...hhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---KIND  PDB: C:40-231 UniProt: 40-231                                                                                                                                                             - PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3rbw C  37 RDALSLEEILRLYNQPINEEQAWAVCYQCCGSLRAAARRRQPRHRVRSAAQIRVWRDGAVTLAPAA----------------QCMETEVIESLGIIIYKALDYGLKENEERELSPPLEQLIDHMAN-----------------------------AIRSYRDVMKLCAAHLPTESDAPNHYQAVCRALFAETMELH 232
                                    46        56        66        76        86        96     |   -         -  |    126       136       146       156     |   -         -         -     | 196       206       216       226      
                                                                                           102              119                                        162                           192                                        

Chain D from PDB  Type:PROTEIN  Length:149
 aligned with SPIR1_HUMAN | Q08AE8 from UniProtKB/Swiss-Prot  Length:756

    Alignment length:195
                                    46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226     
          SPIR1_HUMAN    37 RDALSLEEILRLYNQPINEEQAWAVCYQCCGSLRAAARRRQPRHRVRSAAQIRVWRDGAVTLAPAADDAGEPPPVAGKLGYSQCMETEVIESLGIIIYKALDYGLKENEERELSPPLEQLIDHMANTVEADGSNDEGYEAAEEGLGDEDEKRKISAIRSYRDVMKLCAAHLPTESDAPNHYQAVCRALFAETMEL 231
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeehhhhhhhhh...hhhhhhhhhhhhhhhhhhhhh.............eeee....eee...-----------------..hhhhhhhhhhhhhhhhhh...........hhhhhhhhhhh..-----------------------------...hhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---KIND  PDB: D:40-231 UniProt: 40-231                                                                                                                                                              PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3rbw D  37 RDALSLEEILRLYNQPINEEQAWAVCYQCCGSLRAAARRRQPRHRVRSAAQIRVWRDGAVTLAPA-----------------QCMETEVIESLGIIIYKALDYGLKENEERELSPPLEQLIDHMAN-----------------------------AIRSYRDVMKLCAAHLPTESDAPNHYQAVCRALFAETMEL 231
                                    46        56        66        76        86        96    |    -         -  |    126       136       146       156     |   -         -         -     | 196       206       216       226     
                                                                                          101               119                                        162                           192                                       

   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 3RBW)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3RBW)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3RBW)

(-) Gene Ontology  (20, 20)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (SPIR1_HUMAN | Q08AE8)
molecular function
    GO:0003779    actin binding    Interacting selectively and non-covalently with monomeric or multimeric forms of actin, including actin filaments.
biological process
    GO:0030036    actin cytoskeleton organization    A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of cytoskeletal structures comprising actin filaments and their associated proteins.
    GO:0045010    actin nucleation    The initial step in the formation of an actin filament, in which actin monomers combine to form a new filament. Nucleation is slow relative to the subsequent addition of more monomers to extend the filament.
    GO:0036089    cleavage furrow formation    Generation of the cleavage furrow, a shallow groove in the cell surface near the old metaphase plate that marks the site of cytokinesis. This process includes the recruitment and localized activation of signals such as RhoA at the site of the future furrow to ensure that furrowing initiates at the correct site in the cell.
    GO:0051295    establishment of meiotic spindle localization    The cell cycle process in which the directed movement of the meiotic spindle to a specific location in the cell occurs.
    GO:0070649    formin-nucleated actin cable assembly    The aggregation, arrangement and bonding together of a set of components to form a formin-nucleated actin cable. A formin-nucleated actin cable is an actin filament bundle that consists of short filaments organized into bundles of uniform polarity, and is nucleated by formins.
    GO:0046907    intracellular transport    The directed movement of substances within a cell.
    GO:0040038    polar body extrusion after meiotic divisions    The cell cycle process in which two small cells are generated, as byproducts destined to degenerate, as a result of the first and second meiotic divisions of a primary oocyte during its development to a mature ovum. One polar body is formed in the first division of meiosis and the other in the second division; at each division, the cytoplasm divides unequally, so that the polar body is of much smaller size than the developing oocyte. At the second division in which a polar body is formed, the polar body and the developing oocyte each contain a haploid set of chromosomes.
    GO:0015031    protein transport    The directed movement of proteins into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    GO:0006810    transport    The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
    GO:0016192    vesicle-mediated transport    A cellular transport process in which transported substances are moved in membrane-bounded vesicles; transported substances are enclosed in the vesicle lumen or located in the vesicle membrane. The process begins with a step that directs a substance to the forming vesicle, and includes vesicle budding and coating. Vesicles are then targeted to, and fuse with, an acceptor membrane.
cellular component
    GO:0005938    cell cortex    The region of a cell that lies just beneath the plasma membrane and often, but not always, contains a network of actin filaments and associated proteins.
    GO:0032154    cleavage furrow    The cleavage furrow is a plasma membrane invagination at the cell division site. The cleavage furrow begins as a shallow groove and eventually deepens to divide the cytoplasm.
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0031410    cytoplasmic vesicle    A vesicle found in the cytoplasm of a cell.
    GO:0030659    cytoplasmic vesicle membrane    The lipid bilayer surrounding a cytoplasmic vesicle.
    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:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0048471    perinuclear region of cytoplasm    Cytoplasm situated near, or occurring around, the nucleus.
    GO:0005886    plasma membrane    The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

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 Related Entries

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

UniProtKB/Swiss-Prot
        SPIR1_HUMAN | Q08AE82yle 2ylf 3r7g

(-) Related Entries Specified in the PDB File

3r7g