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(-) Description

Title :  HUMAN CDC25A CATALYTIC DOMAIN
 
Authors :  E. B. Fauman, J. P. Cogswell, B. Lovejoy, W. J. Rocque, W. Holmes, V. G. Montana, H. Piwnica-Worms, M. J. Rink, M. A. Saper
Date :  17 Apr 98  (Deposition) - 19 Aug 98  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym./Biol. Unit :  A
Keywords :  Hydrolase, Cell Cycle Phosphatase, Dual Specificity Protein Phosphatase, Cdk2 (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  E. B. Fauman, J. P. Cogswell, B. Lovejoy, W. J. Rocque, W. Holmes, V. G. Montana, H. Piwnica-Worms, M. J. Rink, M. A. Saper
Crystal Structure Of The Catalytic Domain Of The Human Cell Cycle Control Phosphatase, Cdc25A.
Cell(Cambridge, Mass. ) V. 93 617 1998
PubMed-ID: 9604936  |  Reference-DOI: 10.1016/S0092-8674(00)81190-3
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - CDC25A
    Cellular LocationCYTOPLASM
    Cell LineBL21
    ChainsA
    EC Number3.1.3.48
    EngineeredYES
    Expression SystemESCHERICHIA COLI BL21(DE3)
    Expression System PlasmidBL21
    Expression System StrainBL21 (DE3)
    Expression System Taxid469008
    Expression System VectorPET21A
    FragmentCATALYTIC DOMAIN
    GeneCDC25A
    MutationYES
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymM-PHASE INDUCER PHOSPHATASE 1

 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 1C25)

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1DSUUNKNOWNCYS A:430 , CYS A:384CYS A 384 AND CYS A 340 MAY FORM DISULFIDE BOND UNDER CERTAIN CONDITIONS. SEE REFERENCE 1.
2POPUNKNOWNCYS A:430 , GLU A:431 , PHE A:432 , SER A:433 , SER A:434 , GLU A:435 , ARG A:436PUTATIVE PHOSPHATE BINDING LOOP, CYS-X(5)-ARG SIGNATURE MOTIF.

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1C25)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Tyr A:454 -Pro A:455
2Glu A:481 -Pro A:482

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1C25)

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1RHODANESE_3PS50206 Rhodanese domain profile.MPIP1_HUMAN376-482  1A:375-481

(-) Exons   (6, 6)

Asymmetric/Biological Unit (6, 6)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.2aENST000003025062aENSE00001314879chr3:48229846-48229268579MPIP1_HUMAN1-57570--
1.3ENST000003025063ENSE00001080846chr3:48228269-4822819377MPIP1_HUMAN57-83270--
1.4ENST000003025064ENSE00001171814chr3:48226185-4822614343MPIP1_HUMAN83-97150--
1.5ENST000003025065ENSE00001080840chr3:48225326-4822529037MPIP1_HUMAN97-109130--
1.6aENST000003025066aENSE00002190011chr3:48224520-48224419102MPIP1_HUMAN110-143340--
1.7ENST000003025067ENSE00001080851chr3:48222330-48222211120MPIP1_HUMAN144-183400--
1.8ENST000003025068ENSE00001080854chr3:48219478-48219344135MPIP1_HUMAN184-228450--
1.9aENST000003025069aENSE00001080848chr3:48218932-4821886172MPIP1_HUMAN229-252240--
1.10bENST0000030250610bENSE00001080839chr3:48215947-48215774174MPIP1_HUMAN253-310580--
1.11ENST0000030250611ENSE00001171858chr3:48209434-4820933699MPIP1_HUMAN311-343331A:335-3428
1.12ENST0000030250612ENSE00001171851chr3:48207383-4820732163MPIP1_HUMAN344-364211A:343-36321
1.13ENST0000030250613ENSE00001171845chr3:48207224-4820712699MPIP1_HUMAN365-397331A:364-39633
1.14bENST0000030250614bENSE00001080844chr3:48205927-48205797131MPIP1_HUMAN398-441441A:397-44044
1.15ENST0000030250615ENSE00001171824chr3:48200945-48200834112MPIP1_HUMAN441-478381A:440-47738
1.16ENST0000030250616ENSE00001293060chr3:48200575-481986361940MPIP1_HUMAN479-524461A:478-49518

(-) 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:161
 aligned with MPIP1_HUMAN | P30304 from UniProtKB/Swiss-Prot  Length:524

    Alignment length:161
                                   345       355       365       375       385       395       405       415       425       435       445       455       465       475       485       495 
          MPIP1_HUMAN   336 DLIGDFSKGYLFHTVAGKHQDLKYISPEIMASVLNGKFANLIKEFVIIDCRYPYEYEGGHIKGAVNLHMEEEVEDFLLKKPIVPTDGKRVIVVFHCEFSSERGPRMCRYVRERDRLGNEYPKLHYPELYVLKGGYKEFFMKCQSYCEPPSYRPMHHEDFKE 496
               SCOP domains d1c25a_ A: CDC25a                                                                                                                                                 SCOP domains
               CATH domains 1c25A00 A:335-495 Oxidized Rhodanese, domain 1                                                                                                                    CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........................hhhhhhhh.......eeeeeeee...hhhhhh...........hhhhhhh............eeeeeee......hhhhhhhhhhhhhhh...........eee...hhhhhhhh.hhh................ Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------RHODANESE_3  PDB: A:375-481 UniProt: 376-482                                                               -------------- PROSITE
           Transcript 1 (1) 1.11    Exon 1.12            Exon 1.13  PDB: A:364-396        Exon 1.14b  PDB: A:397-440 UniProt: 398-441 -------------------------------------Exon 1.16          Transcript 1 (1)
           Transcript 1 (2) ---------------------------------------------------------------------------------------------------------Exon 1.15  PDB: A:440-477             ------------------ Transcript 1 (2)
                 1c25 A 335 MLIGDFSKGYLFHTVAGKHQDLKYISPEIMASVLNGKFANLIKEFVIIDCRYPYEYEGGHIKGAVNLHMEEEVEDFLLKKPIVPTDGKRVIVVFHCEFSSERGPRMCRYVRERDRLGNEYPKLHYPELYVLKGGYKEFFMKCQSYCEPPSYRPMHHEDFKE 495
                                   344       354       364       374       384       394       404       414       424       434       444       454       464       474       484       494 

   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, 1)

Asymmetric/Biological Unit

(-) CATH Domains  (1, 1)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1C25)

(-) Gene Ontology  (22, 22)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (MPIP1_HUMAN | P30304)
molecular function
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0004721    phosphoprotein phosphatase activity    Catalysis of the reaction: a phosphoprotein + H2O = a protein + phosphate. Together with protein kinases, these enzymes control the state of phosphorylation of cell proteins and thereby provide an important mechanism for regulating cellular activity.
    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).
    GO:0019901    protein kinase binding    Interacting selectively and non-covalently with a protein kinase, any enzyme that catalyzes the transfer of a phosphate group, usually from ATP, to a protein substrate.
    GO:0004725    protein tyrosine phosphatase activity    Catalysis of the reaction: protein tyrosine phosphate + H2O = protein tyrosine + phosphate.
biological process
    GO:0006260    DNA replication    The cellular metabolic process in which a cell duplicates one or more molecules of DNA. DNA replication begins when specific sequences, known as origins of replication, are recognized and bound by initiation proteins, and ends when the original DNA molecule has been completely duplicated and the copies topologically separated. The unit of replication usually corresponds to the genome of the cell, an organelle, or a virus. The template for replication can either be an existing DNA molecule or RNA.
    GO:0000082    G1/S transition of mitotic cell cycle    The mitotic cell cycle transition by which a cell in G1 commits to S phase. The process begins with the build up of G1 cyclin-dependent kinase (G1 CDK), resulting in the activation of transcription of G1 cyclins. The process ends with the positive feedback of the G1 cyclins on the G1 CDK which commits the cell to S phase, in which DNA replication is initiated.
    GO:0000086    G2/M transition of mitotic cell cycle    The mitotic cell cycle transition by which a cell in G2 commits to M phase. The process begins when the kinase activity of M cyclin/CDK complex reaches a threshold high enough for the cell cycle to proceed. This is accomplished by activating a positive feedback loop that results in the accumulation of unphosphorylated and active M cyclin/CDK complex.
    GO:0007049    cell cycle    The progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events. Canonically, the cell cycle comprises the replication and segregation of genetic material followed by the division of the cell, but in endocycles or syncytial cells nuclear replication or nuclear division may not be followed by cell division.
    GO:0051301    cell division    The process resulting in division and partitioning of components of a cell to form more cells; may or may not be accompanied by the physical separation of a cell into distinct, individually membrane-bounded daughter cells.
    GO:0008283    cell proliferation    The multiplication or reproduction of cells, resulting in the expansion of a cell population.
    GO:0034644    cellular response to UV    Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an ultraviolet radiation (UV light) stimulus. Ultraviolet radiation is electromagnetic radiation with a wavelength in the range of 10 to 380 nanometers.
    GO:0035335    peptidyl-tyrosine dephosphorylation    The removal of phosphoric residues from peptidyl-O-phospho-tyrosine to form peptidyl-tyrosine.
    GO:0006470    protein dephosphorylation    The process of removing one or more phosphoric residues from a protein.
    GO:0051726    regulation of cell cycle    Any process that modulates the rate or extent of progression through the cell cycle.
    GO:0000079    regulation of cyclin-dependent protein serine/threonine kinase activity    Any process that modulates the frequency, rate or extent of cyclin-dependent protein serine/threonine kinase activity.
    GO:0009314    response to radiation    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 an electromagnetic radiation stimulus. Electromagnetic radiation is a propagating wave in space with electric and magnetic components. These components oscillate at right angles to each other and to the direction of propagation.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    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:0005622    intracellular    The living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm.
    GO:0005654    nucleoplasm    That part of the nuclear content other than the chromosomes or the nucleolus.
    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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