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(-) Description

Title :  STRUCTURE OF P18INK4C (F82Q)
 
Authors :  R. Marmorstein, R. N. Venkataramani, T. K. Maclachlan, X. Chai, W. S. El-Deiry
Date :  01 Oct 02  (Deposition) - 16 Oct 02  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Ankyrin Repeats, Cell Cycle Inhibitor (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  R. N. Venkataramani, T. K. Maclachlan, X. Chai, W. S. El-Deiry, R. Marmorstein
Structure-Based Design Of P18Ink4C Proteins With Increased Thermodynamic Stability And Cell Cycle Inhibitory Activity
J. Biol. Chem. V. 277 48827 2002
PubMed-ID: 12370184  |  Reference-DOI: 10.1074/JBC.M208061200
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - CYCLIN-DEPENDENT KINASE 6 INHIBITOR
    ChainsA, B
    EngineeredYES
    Expression SystemESCHERICHIA COLI BL21(DE3)
    Expression System PlasmidPRSETA
    Expression System StrainBL21(DE3)
    Expression System Taxid469008
    Expression System Vector TypePLASMID
    MutationYES
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymP18-INK6, CYCLIN-DEPENDENT KINASE 4 INHIBITOR C, P18-INK4C

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit AB
Biological Unit 1 (1x)A 
Biological Unit 2 (1x) B

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 1MX4)

(-) Sites  (0, 0)

(no "Site" information available for 1MX4)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1MX4)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1MX4)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (2, 4)

Asymmetric Unit (2, 4)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_001490A72PCDN2C_HUMANUnclassified  ---A/BA72P
2UniProtVAR_038604T126MCDN2C_HUMANPolymorphism17851380A/BT126M

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)
Biological Unit 1 (2, 2)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_001490A72PCDN2C_HUMANUnclassified  ---AA72P
2UniProtVAR_038604T126MCDN2C_HUMANPolymorphism17851380AT126M

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)
Biological Unit 2 (2, 2)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_001490A72PCDN2C_HUMANUnclassified  ---BA72P
2UniProtVAR_038604T126MCDN2C_HUMANPolymorphism17851380BT126M

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (2, 6)

Asymmetric Unit (2, 6)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ANK_REP_REGIONPS50297 Ankyrin repeat region circular profile.CDN2C_HUMAN9-161
 
  2A:9-160
B:9-161
2ANK_REPEATPS50088 Ankyrin repeat profile.CDN2C_HUMAN69-101
 
102-128
 
  4A:69-101
B:69-101
A:102-128
B:102-128
Biological Unit 1 (2, 3)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ANK_REP_REGIONPS50297 Ankyrin repeat region circular profile.CDN2C_HUMAN9-161
 
  1A:9-160
-
2ANK_REPEATPS50088 Ankyrin repeat profile.CDN2C_HUMAN69-101
 
102-128
 
  2A:69-101
-
A:102-128
-
Biological Unit 2 (2, 3)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ANK_REP_REGIONPS50297 Ankyrin repeat region circular profile.CDN2C_HUMAN9-161
 
  1-
B:9-161
2ANK_REPEATPS50088 Ankyrin repeat profile.CDN2C_HUMAN69-101
 
102-128
 
  2-
B:69-101
-
B:102-128

(-) Exons   (2, 4)

Asymmetric Unit (2, 4)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.2bENST000003961482bENSE00001524054chr1:51434367-514355711205CDN2C_HUMAN-00--
1.3bENST000003961483bENSE00001064516chr1:51436030-51436169140CDN2C_HUMAN1-43432A:5-43
B:4-43
39
40
1.4bENST000003961484bENSE00001064515chr1:51439565-51440305741CDN2C_HUMAN44-1681252A:44-160
B:44-162
117
119

(-) 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:156
 aligned with CDN2C_HUMAN | P42773 from UniProtKB/Swiss-Prot  Length:168

    Alignment length:156
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154      
          CDN2C_HUMAN     5 WGNELASAAARGDLEQLTSLLQNNVNVNAQNGFGRTALQVMKLGNPEIARRLLLRGANPDLKDRTGFAVIHDAARAGFLDTLQTLLEFQADVNIEDNEGNLPLHLAAKEGHLRVVEFLVKHTASNVGHRNHKGDTACDLARLYGRNEVVSLMQANG 160
               SCOP domains d1mx4a_ A: p18ink4C(ink6)                                                                                                                                    SCOP domains
               CATH domains 1mx4A00 A:5-160  [code=1.25.40.20, no name defined]                                                                                                          CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhh..............hhhhhh...hhhhhhhhhhh............hhhhhhhhh.hhhhhhhhhhh............hhhhhhhhhhhhhhhhhhhhhh............hhhhhhhhh.hhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------P-----------------------------------------------------M---------------------------------- SAPs(SNPs)
                PROSITE (1) ----ANK_REP_REGION  PDB: A:9-160 UniProt: 9-161                                                                                                              PROSITE (1)
                PROSITE (2) ----------------------------------------------------------------ANK_REPEAT  PDB: A:69-101        ANK_REPEAT  PDB: A:102-128 -------------------------------- PROSITE (2)
               Transcript 1 Exon 1.3b  PDB: A:5-43 UniProt: 1-43   Exon 1.4b  PDB: A:44-160 UniProt: 44-168 [INCOMPLETE]                                                                 Transcript 1
                 1mx4 A   5 WGNELASAAARGDLEQLTSLLQNNVNVNAQNGFGRTALQVMKLGNPEIARRLLLRGANPDLKDRTGFAVIHDAARAGQLDTLQTLLEFQADVNIEDNEGNLPLHLAAKEGHLRVVEFLVKHTASNVGHRNHKGDTACDLARLYGRNEVVSLMQANG 160
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154      

Chain B from PDB  Type:PROTEIN  Length:159
 aligned with CDN2C_HUMAN | P42773 from UniProtKB/Swiss-Prot  Length:168

    Alignment length:159
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153         
          CDN2C_HUMAN     4 PWGNELASAAARGDLEQLTSLLQNNVNVNAQNGFGRTALQVMKLGNPEIARRLLLRGANPDLKDRTGFAVIHDAARAGFLDTLQTLLEFQADVNIEDNEGNLPLHLAAKEGHLRVVEFLVKHTASNVGHRNHKGDTACDLARLYGRNEVVSLMQANGAG 162
               SCOP domains d1mx4b_ B: p18ink4C(ink6)                                                                                                                                       SCOP domains
               CATH domains 1mx4B00 B:4-162  [code=1.25.40.20, no name defined]                                                                                                             CATH domains
           Pfam domains (1) --------------------------------------------------------------------------------------------------Ank-1mx4B01 B:102-129       --------------------------------- Pfam domains (1)
           Pfam domains (2) --------------------------------------------------------------------------------------------------Ank-1mx4B02 B:102-129       --------------------------------- Pfam domains (2)
           Pfam domains (3) --------------------------------------------------------------------------------------------------Ank-1mx4B03 B:102-129       --------------------------------- Pfam domains (3)
           Pfam domains (4) --------------------------------------------------------------------------------------------------Ank-1mx4B04 B:102-129       --------------------------------- Pfam domains (4)
           Pfam domains (5) --------------------------------------------------------------------------------------------------Ank-1mx4B05 B:102-129       --------------------------------- Pfam domains (5)
           Pfam domains (6) --------------------------------------------------------------------------------------------------Ank-1mx4B06 B:102-129       --------------------------------- Pfam domains (6)
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhh............hhhhhh...hhhhhhhhhhh............hhhhhhhhh.hhhhhhhhhhh............hhhhhhhhh.hhhhhhhhhhhh............hhhhhhhhh.hhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------P-----------------------------------------------------M------------------------------------ SAPs(SNPs)
                PROSITE (1) -----ANK_REP_REGION  PDB: B:9-161 UniProt: 9-161                                                                                                              - PROSITE (1)
                PROSITE (2) -----------------------------------------------------------------ANK_REPEAT  PDB: B:69-101        ANK_REPEAT  PDB: B:102-128 ---------------------------------- PROSITE (2)
               Transcript 1 Exon 1.3b  PDB: B:4-43 UniProt: 1-43    Exon 1.4b  PDB: B:44-162 UniProt: 44-168 [INCOMPLETE]                                                                   Transcript 1
                 1mx4 B   4 PWGNELASAAARGDLEQLTSLLQNNVNVNAQNGFGRTALQVMKLGNPEIARRLLLRGANPDLKDRTGFAVIHDAARAGQLDTLQTLLEFQADVNIEDNEGNLPLHLAAKEGHLRVVEFLVKHTASNVGHRNHKGDTACDLARLYGRNEVVSLMQANGAG 162
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153         

   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 Unit

(-) CATH Domains  (1, 2)

Asymmetric Unit

(-) Pfam Domains  (1, 6)

Asymmetric Unit
(-)
Clan: Ank (35)
(-)
Family: Ank (23)
1aAnk-1mx4B01B:102-129
1bAnk-1mx4B02B:102-129
1cAnk-1mx4B03B:102-129
1dAnk-1mx4B04B:102-129
1eAnk-1mx4B05B:102-129
1fAnk-1mx4B06B:102-129

(-) Gene Ontology  (15, 15)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (CDN2C_HUMAN | P42773)
molecular function
    GO:0004861    cyclin-dependent protein serine/threonine kinase inhibitor activity    Stops, prevents or reduces the activity of a cyclin-dependent protein serine/threonine kinase.
    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.
biological process
    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: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:0007050    cell cycle arrest    A regulatory process that halts progression through the cell cycle during one of the normal phases (G1, S, G2, M).
    GO:0030308    negative regulation of cell growth    Any process that stops, prevents, or reduces the frequency, rate, extent or direction of cell growth.
    GO:0008285    negative regulation of cell proliferation    Any process that stops, prevents or reduces the rate or extent of cell proliferation.
    GO:0042326    negative regulation of phosphorylation    Any process that stops, prevents or decreases the rate of addition of phosphate groups to a molecule.
    GO:0071901    negative regulation of protein serine/threonine kinase activity    Any process that decreases the rate, frequency, or extent of protein serine/threonine kinase activity.
    GO:0048709    oligodendrocyte differentiation    The process in which a relatively unspecialized cell acquires the specialized features of an oligodendrocyte. An oligodendrocyte is a type of glial cell involved in myelinating the axons of neurons in the central nervous system.
    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.
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: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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 Related Entries

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

UniProtKB/Swiss-Prot
        CDN2C_HUMAN | P427731bu9 1g3n 1ihb 1mx2 1mx6

(-) Related Entries Specified in the PDB File

1mx2 STRUCTURE OF P18INK4C (F71N)
1mx6 STRUCTURE OF P18INK4C (F92N)