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(-) Description

Title :  CRYSTAL STRUCTURE OF XOL-1
 
Authors :  J. G. Luz, C. A. Hassig, A. Godzik, B. J. Meyer, I. A. Wilson
Date :  14 Aug 02  (Deposition) - 22 Apr 03  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.55
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Alpha-Beta, Gene Regulation (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. G. Luz, C. A. Hassig, C. Pickle, A. Godzik, B. J. Meyer, I. A. Wilson
Xol-1, Primary Determinant Of Sexual Fate In C. Elegans, Is A Ghmp Kinase Family Member And A Structural Prototype For A Class Of Developmental Regulators
Genes Dev. V. 17 977 2003
PubMed-ID: 12672694  |  Reference-DOI: 10.1101/GAD.1082303
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - EARLY SWITCH PROTEIN XOL-1 2.2K SPLICE FORM
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PRSETA
    Expression System Strain: BL21DE3
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Organism Scientific: CAENORHABDITIS ELEGANS
    Organism Taxid: 6239

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 1MG7)

(-) Sites  (0, 0)

(no "Site" information available for 1MG7)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1MG7)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1MG7)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1MG7)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1MG7)

(-) Exons   (0, 0)

(no "Exon" information available for 1MG7)

(-) 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:351
 aligned with XOL1_CAEEL | Q23229 from UniProtKB/Swiss-Prot  Length:417

    Alignment length:367
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       
           XOL1_CAEEL     8 ERRVKILGIDRSENSPVLTYMETEDDPNFRNSKLAAAPHTVHMMDSGFLAINRQCLVKGKAILAREPKSSNEHMIDDLPKHAHDQHTLSILRDFIDQLKLHNVYEINFYDPLDSSGKLAVIPMLIALWKCMLASETDICDQEVLKSIMNSVIAKFELQIPCKNAVIDATLSGSREEVHIIAEDGSLENSNGTTEHFNKKHDLVFVKTDLHPEDFTPQMFPSQAKAKLLRDAFNNEEDEDTFPDILVPAYMTAHSKNRVRQEDYTCLEVEFDSQVALEKLMNEHEQVEGFEVQQGGILVALKKDSFFDDELIEKIAIAIATESRQSVSSVSFDLLKLGPGASLVTLANSRRFEPECRVVLQIEVKPVS 374
               SCOP domains d1mg7a1 A:14-187 Earl          y switch protein XOL-1, N-terminal domain                                                                                                      d1mg7a2       A:188-380 Early switch protein XOL-1                                                                                                                                                SCOP domains
               CATH domains 1mg7A01       1mg7A02           A:28-194  [code=3.30.230.10, no name defined]                                                                                                        -      -1mg7A01 A:14-27,A:203-348,A:366-380 rly switch protein xol-1 2.2k splice form; domain 1                                                           -----------------1mg7A01         CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeeeeeehhhhhh.----------.eeeeeeeeeee...eeeeeeeeeeeeeeeee.....hhhhhee.......hhhhhhhhhhhhhhhhh...eeeeeee.........hhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhh.....hhhhhhhhhhhh...eeee...------..eehhhhhhheeeeeeee.............hhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhh..eeeeee....eeeeee.hhhhhhhhhhhhhhhhhhhh.....eeeeeee......ee...........eeeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1mg7 A  14 ERRVKILGIDRSENSPVLTYM----------SKLAAAPHTVHMMDSGFLAINRQCLVKGKAILAREPKSSNEHMIDDLPKHAHDQHTLSILRDFIDQLKLHNVYEINFYDPLDSSGKLAVIPMLIALWKCMLASETDICDQEVLKSIMNSVIAKFELQIPCKNAVIDATLSGSREEVHIIAE------SNGTTEHFNKKHDLVFVKTDLHPEDFTPQMFPSQAKAKLLRDAFNNEEDEDTFPDILVPAYMTAHSKNRVRQEDYTCLEVEFDSQVALEKLMNEHEQVEGFEVQQGGILVALKKDSFFDDELIEKIAIAIATESRQSVSSVSFDLLKLGPGASLVTLANSRRFEPECRVVLQIEVKPVS 380
                                    23        33|        - |      53        63        73        83        93       103       113       123       133       143       153       163       173       183       193 |     203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       
                                               34         45                                                                                                                                                   195    202                                                                                                                                                                                  


Chain B from PDB  Type:PROTEIN  Length:352
 aligned with XOL1_CAEEL | Q23229 from UniProtKB/Swiss-Prot  Length:417

    Alignment length:367
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       
           XOL1_CAEEL     8 ERRVKILGIDRSENSPVLTYMETEDDPNFRNSKLAAAPHTVHMMDSGFLAINRQCLVKGKAILAREPKSSNEHMIDDLPKHAHDQHTLSILRDFIDQLKLHNVYEINFYDPLDSSGKLAVIPMLIALWKCMLASETDICDQEVLKSIMNSVIAKFELQIPCKNAVIDATLSGSREEVHIIAEDGSLENSNGTTEHFNKKHDLVFVKTDLHPEDFTPQMFPSQAKAKLLRDAFNNEEDEDTFPDILVPAYMTAHSKNRVRQEDYTCLEVEFDSQVALEKLMNEHEQVEGFEVQQGGILVALKKDSFFDDELIEKIAIAIATESRQSVSSVSFDLLKLGPGASLVTLANSRRFEPECRVVLQIEVKPVS 374
               SCOP domains d1mg7b1 B:14-187 Earl          y switch protein XOL-1, N-terminal domain                                                                                                      d1mg7b2      B:188-380 Early switch protein XOL-1                                                                                                                                                 SCOP domains
               CATH domains 1mg7B01       1mg7B02           B:28-194  [code=3.30.230.10, no name defined]                                                                                                        -     --1mg7B01 B:14-27,B:203-348,B:366-380 rly switch protein xol-1 2.2k splice form; domain 1                                                           -----------------1mg7B01         CATH domains
           Pfam domains (1) --------Xol-1_N-1mg7B          01 B:22-184                                                                                                                                 -----Xol-1_     GHMP-like-1mg7B03 B:190-380                                                                                                                                                          Pfam domains (1)
           Pfam domains (2) --------Xol-1_N-1mg7B          02 B:22-184                                                                                                                                 -----Xol-1_     GHMP-like-1mg7B04 B:190-380                                                                                                                                                          Pfam domains (2)
         Sec.struct. author .eeeeeeeeeeeeehhhhhhh----------.eeeeeeeeeee...eeeeeeeeeeeeeeeee.....hhhhhee.......hhhhhhhhhhhhhhhhh...eeeeeee.........hhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhh.....hhhhhhhhhhhh...eeee...-----...eehhhhhhheeeeeeee.............hhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhh..eeeeee....eeeeee.hhhhhhhhhhhhhhhhhhhh.....eeeeeee......ee....hhhhh..eeeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1mg7 B  14 ERRVKILGIDRSENSPVLTYM----------SKLAAAPHTVHMMDSGFLAINRQCLVKGKAILAREPKSSNEHMIDDLPKHAHDQHTLSILRDFIDQLKLHNVYEINFYDPLDSSGKLAVIPMLIALWKCMLASETDICDQEVLKSIMNSVIAKFELQIPCKNAVIDATLSGSREEVHIIAE-----NSNGTTEHFNKKHDLVFVKTDLHPEDFTPQMFPSQAKAKLLRDAFNNEEDEDTFPDILVPAYMTAHSKNRVRQEDYTCLEVEFDSQVALEKLMNEHEQVEGFEVQQGGILVALKKDSFFDDELIEKIAIAIATESRQSVSSVSFDLLKLGPGASLVTLANSRRFEPECRVVLQIEVKPVS 380
                                    23        33|        - |      53        63        73        83        93       103       113       123       133       143       153       163       173       183       193 |     203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       
                                               34         45                                                                                                                                                   195   201
   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  (2, 4)

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

(-) CATH Domains  (2, 4)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (2, 4)

Asymmetric/Biological Unit
(-)
Clan: S5 (103)
(-)
Clan: no clan defined [family: Xol-1_GHMP-like] (1)

(-) Gene Ontology  (8, 8)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (XOL1_CAEEL | Q23229)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    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.
biological process
    GO:0030154    cell differentiation    The process in which relatively unspecialized cells, e.g. embryonic or regenerative cells, acquire specialized structural and/or functional features that characterize the cells, tissues, or organs of the mature organism or some other relatively stable phase of the organism's life history. Differentiation includes the processes involved in commitment of a cell to a specific fate and its subsequent development to the mature state.
    GO:0042464    dosage compensation by hypoactivation of X chromosome    Compensating for the two-fold variation in X:autosome chromosome ratios between sexes by an inactivation of a proportion of genes on both of the X chromosomes of the XX sex, leading to a decrease, of half, of the levels of gene expression from these chromosomes. An example of this process is found in Caenorhabditis elegans.
    GO:0030238    male sex determination    The specification of male sex of an individual organism.
    GO:0007275    multicellular organism development    The biological process whose specific outcome is the progression of a multicellular organism over time from an initial condition (e.g. a zygote or a young adult) to a later condition (e.g. a multicellular animal or an aged adult).
cellular component
    GO:0005575    cellular_component    The part of a cell, extracellular environment or virus in which a gene product is located. A gene product may be located in one or more parts of a cell and its location may be as specific as a particular macromolecular complex, that is, a stable, persistent association of macromolecules that function together.
    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.

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