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(-) Description

Title :  SMAD1 CRYSTAL STRUCTURE REVEALS THE DETAILS OF BMP SIGNALING PATHWAY
 
Authors :  B. Y. Qin, K. Lin
Date :  01 Dec 01  (Deposition) - 12 Dec 01  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B,C  (1x)
Biol. Unit 2:  D  (3x)
Keywords :  Beta-Strand Sandwich, Transcription (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  B. Y. Qin, B. M. Chacko, S. S. Lam, M. P. De Caestecker, J. J. Correia, K. Lin
Structural Basis Of Smad1 Activation By Receptor Kinase Phosphorylation.
Mol. Cell V. 8 1303 2001
PubMed-ID: 11779505  |  Reference-DOI: 10.1016/S1097-2765(01)00417-8
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - SMAD1
    ChainsA, B, C, D
    FragmentDWB
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit ABCD
Biological Unit 1 (1x)ABC 
Biological Unit 2 (3x)   D

Summary Information (see also Sequences/Alignments below)

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

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

(-) Sites  (0, 0)

(no "Site" information available for 1KHU)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (1, 4)

Asymmetric Unit (1, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1MH2PS51076 MAD homology domain 2 (MH2) profile.SMAD1_HUMAN271-465
 
 
 
  4A:271-465
B:271-465
C:271-465
D:271-453
Biological Unit 1 (1, 3)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1MH2PS51076 MAD homology domain 2 (MH2) profile.SMAD1_HUMAN271-465
 
 
 
  3A:271-465
B:271-465
C:271-465
-
Biological Unit 2 (1, 3)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1MH2PS51076 MAD homology domain 2 (MH2) profile.SMAD1_HUMAN271-465
 
 
 
  3-
-
-
D:271-453

(-) Exons   (3, 12)

Asymmetric Unit (3, 12)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.4dENST000003940924dENSE00001517478chr4:146403957-14640402064SMAD1_HUMAN-00--
1.8iENST000003940928iENSE00002198357chr4:146435590-146436165576SMAD1_HUMAN1-1341340--
1.10bENST0000039409210bENSE00001143049chr4:146460956-146461213258SMAD1_HUMAN134-220870--
1.11ENST0000039409211ENSE00001143042chr4:146463734-146463850117SMAD1_HUMAN220-259400--
1.12dENST0000039409212dENSE00001143034chr4:146467855-146468076222SMAD1_HUMAN259-333754A:268-333
B:269-333
C:269-333
D:270-333
66
65
65
64
1.13cENST0000039409213cENSE00001698603chr4:146474936-146475192257SMAD1_HUMAN333-418864A:333-418
B:333-418
C:333-418
D:333-418
86
86
86
86
1.14aENST0000039409214aENSE00002060589chr4:146478943-146479106164SMAD1_HUMAN419-465474A:419-465
B:419-465
C:419-465
D:419-453
47
47
47
35

(-) 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:198
 aligned with SMAD1_HUMAN | Q15797 from UniProtKB/Swiss-Prot  Length:465

    Alignment length:198
                                   277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427       437       447       457        
          SMAD1_HUMAN   268 PKHWCSIVYYELNNRVGEAFHASSTSVLVDGFTDPSNNKNRFCLGLLSNVNRNSTIENTRRHIGKGVHLYYVGGEVYAECLSDSSIFVQSRNCNYHHGFHPTTVCKIPSGCSLKIFNNQEFAQLLAQSVNHGFETVYELTKMCTIRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNPISSVS 465
               SCOP domains d1khua_ A: Smad1                                                                                                                                                                                       SCOP domains
               CATH domains 1khuA00 A:268-465  [code=2.60.200.10, no name defined]                                                                                                                                                 CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....eeeeeee..ee....ee....eeeee..........eee.........hhhhhhhhh.....eeeee...eeeeee.....eeeehhhhhhhh.......eee....eeeeeehhhhhhhhhh....hhhhhhhhhhh.eeeeee...........hhhhh..eeeeeehhhhhhhhhhhh............. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ---MH2  PDB: A:271-465 UniProt: 271-465                                                                                                                                                                PROSITE
           Transcript 1 (1) Exon 1.12d  PDB: A:268-333 UniProt: 259-333 [INCOMPLETE]          -------------------------------------------------------------------------------------Exon 1.14a  PDB: A:419-465 UniProt: 419-465     Transcript 1 (1)
           Transcript 1 (2) -----------------------------------------------------------------Exon 1.13c  PDB: A:333-418 UniProt: 333-418                                           ----------------------------------------------- Transcript 1 (2)
                 1khu A 268 PKHWCSIVYYELNNRVGEAFHASSTSVLVDGFTDPSNNKNRFCLGLLSNVNRNSTIENTRRHIGKGVHLYYVGGEVYAECLSDSSIFVQSRNCNYHHGFHPTTVCKIPSGCSLKIFNNQEFAQLLAQSVNHGFETVYELTKMCTIRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNPISSVS 465
                                   277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427       437       447       457        

Chain B from PDB  Type:PROTEIN  Length:197
 aligned with SMAD1_HUMAN | Q15797 from UniProtKB/Swiss-Prot  Length:465

    Alignment length:197
                                   278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428       438       448       458       
          SMAD1_HUMAN   269 KHWCSIVYYELNNRVGEAFHASSTSVLVDGFTDPSNNKNRFCLGLLSNVNRNSTIENTRRHIGKGVHLYYVGGEVYAECLSDSSIFVQSRNCNYHHGFHPTTVCKIPSGCSLKIFNNQEFAQLLAQSVNHGFETVYELTKMCTIRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNPISSVS 465
               SCOP domains d1khub_ B: Smad1                                                                                                                                                                                      SCOP domains
               CATH domains 1khuB00 B:269-465  [code=2.60.200.10, no name defined]                                                                                                                                                CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeee..ee....ee....eeeee..........eee.........hhhhhhhhhhh...eeeeee..eeeeee.....eeeehhhhhhhhh.....eeee....eeeeeehhhhhhhhhhhh..hhhhhhhhhhh.eeeeee...........hhhhh..eeeeeehhhhhhhhhhhh............. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --MH2  PDB: B:271-465 UniProt: 271-465                                                                                                                                                                PROSITE
           Transcript 1 (1) Exon 1.12d  PDB: B:269-333 UniProt: 259-333 [INCOMPLETE]         -------------------------------------------------------------------------------------Exon 1.14a  PDB: B:419-465 UniProt: 419-465     Transcript 1 (1)
           Transcript 1 (2) ----------------------------------------------------------------Exon 1.13c  PDB: B:333-418 UniProt: 333-418                                           ----------------------------------------------- Transcript 1 (2)
                 1khu B 269 KHWCSIVYYELNNRVGEAFHASSTSVLVDGFTDPSNNKNRFCLGLLSNVNRNSTIENTRRHIGKGVHLYYVGGEVYAECLSDSSIFVQSRNCNYHHGFHPTTVCKIPSGCSLKIFNNQEFAQLLAQSVNHGFETVYELTKMCTIRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNPISSVS 465
                                   278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428       438       448       458       

Chain C from PDB  Type:PROTEIN  Length:197
 aligned with SMAD1_HUMAN | Q15797 from UniProtKB/Swiss-Prot  Length:465

    Alignment length:197
                                   278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428       438       448       458       
          SMAD1_HUMAN   269 KHWCSIVYYELNNRVGEAFHASSTSVLVDGFTDPSNNKNRFCLGLLSNVNRNSTIENTRRHIGKGVHLYYVGGEVYAECLSDSSIFVQSRNCNYHHGFHPTTVCKIPSGCSLKIFNNQEFAQLLAQSVNHGFETVYELTKMCTIRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNPISSVS 465
               SCOP domains d1khuc_ C: Smad1                                                                                                                                                                                      SCOP domains
               CATH domains 1khuC00 C:269-465  [code=2.60.200.10, no name defined]                                                                                                                                                CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeee..ee....ee....eeee.......................hhhhhhhhh.....eeeeee..eeeeee.....eeeehhhhhhhhh......eee....eeeeeehhhhhhhhhhhh..hhhhhhhhhhh.eeeeee...........hhhhh..eeeeeehhhhhhhhhhhhhh........... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --MH2  PDB: C:271-465 UniProt: 271-465                                                                                                                                                                PROSITE
           Transcript 1 (1) Exon 1.12d  PDB: C:269-333 UniProt: 259-333 [INCOMPLETE]         -------------------------------------------------------------------------------------Exon 1.14a  PDB: C:419-465 UniProt: 419-465     Transcript 1 (1)
           Transcript 1 (2) ----------------------------------------------------------------Exon 1.13c  PDB: C:333-418 UniProt: 333-418                                           ----------------------------------------------- Transcript 1 (2)
                 1khu C 269 KHWCSIVYYELNNRVGEAFHASSTSVLVDGFTDPSNNKNRFCLGLLSNVNRNSTIENTRRHIGKGVHLYYVGGEVYAECLSDSSIFVQSRNCNYHHGFHPTTVCKIPSGCSLKIFNNQEFAQLLAQSVNHGFETVYELTKMCTIRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNPISSVS 465
                                   278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428       438       448       458       

Chain D from PDB  Type:PROTEIN  Length:184
 aligned with SMAD1_HUMAN | Q15797 from UniProtKB/Swiss-Prot  Length:465

    Alignment length:184
                                   279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429       439       449    
          SMAD1_HUMAN   270 HWCSIVYYELNNRVGEAFHASSTSVLVDGFTDPSNNKNRFCLGLLSNVNRNSTIENTRRHIGKGVHLYYVGGEVYAECLSDSSIFVQSRNCNYHHGFHPTTVCKIPSGCSLKIFNNQEFAQLLAQSVNHGFETVYELTKMCTIRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQ 453
               SCOP domains d1khud_ D: Smad1                                                                                                                                                                         SCOP domains
               CATH domains 1khuD00 D:270-453  [code=2.60.200.10, no name defined]                                                                                                                                   CATH domains
           Pfam domains (1) MH2-1khuD01 D:270-443                                                                                                                                                         ---------- Pfam domains (1)
           Pfam domains (2) MH2-1khuD02 D:270-443                                                                                                                                                         ---------- Pfam domains (2)
           Pfam domains (3) MH2-1khuD03 D:270-443                                                                                                                                                         ---------- Pfam domains (3)
           Pfam domains (4) MH2-1khuD04 D:270-443                                                                                                                                                         ---------- Pfam domains (4)
         Sec.struct. author ..eeeeeee..ee....ee....eeeee..........eee.........hhhhhhhhh.....eeeee...eeeeee.....eeeehhhhhhhhh......eee....eeeeeehhhhhhhhhhhh...hhhhhhhhhh.eeeeee...........hhhhh..eeeeeehhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -MH2  PDB: D:271-453 UniProt: 271-465                                                                                                                                                    PROSITE
           Transcript 1 (1) Exon 1.12d  PDB: D:270-333 UniProt: 259-333 [INCOMPLETE]        -------------------------------------------------------------------------------------Exon 1.14a  PDB: D:419-453          Transcript 1 (1)
           Transcript 1 (2) ---------------------------------------------------------------Exon 1.13c  PDB: D:333-418 UniProt: 333-418                                           ----------------------------------- Transcript 1 (2)
                 1khu D 270 HWCSIVYYELNNRVGEAFHASSTSVLVDGFTDPSNNKNRFCLGLLSNVNRNSTIENTRRHIGKGVHLYYVGGEVYAECLSDSSIFVQSRNCNYHHGFHPTTVCKIPSGCSLKIFNNQEFAQLLAQSVNHGFETVYELTKMCTIRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQ 453
                                   279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429       439       449    

   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, 4)

Asymmetric Unit

(-) CATH Domains  (1, 4)

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

(-) Pfam Domains  (1, 4)

Asymmetric Unit
(-)
Clan: SMAD-FHA (27)
(-)
Family: MH2 (8)
1aMH2-1khuD01D:270-443
1bMH2-1khuD02D:270-443
1cMH2-1khuD03D:270-443
1dMH2-1khuD04D:270-443

(-) Gene Ontology  (57, 57)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (SMAD1_HUMAN | Q15797)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0070411    I-SMAD binding    Interacting selectively and non-covalently with an inhibitory SMAD signaling protein.
    GO:0000978    RNA polymerase II core promoter proximal region sequence-specific DNA binding    Interacting selectively and non-covalently with a sequence of DNA that is in cis with and relatively close to a core promoter for RNA polymerase II.
    GO:0000979    RNA polymerase II core promoter sequence-specific DNA binding    Interacting selectively and non-covalently with the regulatory region composed of the transcription start site and binding sites for transcription factors of the RNA polymerase II basal transcription machinery.
    GO:0070410    co-SMAD binding    Interacting selectively and non-covalently with a common mediator SMAD signaling protein.
    GO:0042802    identical protein binding    Interacting selectively and non-covalently with an identical protein or proteins.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    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:0046982    protein heterodimerization activity    Interacting selectively and non-covalently with a nonidentical protein to form a heterodimer.
    GO:0042803    protein homodimerization activity    Interacting selectively and non-covalently with an identical protein to form a homodimer.
    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:0005057    signal transducer activity, downstream of receptor    Conveys a signal from an upstream receptor or intracellular signal transducer, converting the signal into a form where it can ultimately trigger a change in the state or activity of a cell.
    GO:0003700    transcription factor activity, sequence-specific DNA binding    Interacting selectively and non-covalently with a specific DNA sequence in order to modulate transcription. The transcription factor may or may not also interact selectively with a protein or macromolecular complex.
    GO:0001077    transcriptional activator activity, RNA polymerase II core promoter proximal region sequence-specific binding    Interacting selectively and non-covalently with a sequence of DNA that is in cis with and relatively close to a core promoter for RNA polymerase II (RNAP II) in order to activate or increase the frequency, rate or extent of transcription from the RNAP II promoter.
    GO:0030618    transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity    A TGF-beta cytoplasmic mediator that is phosphorylated by a TGFbeta receptor and complexes with a common-partner mediator. The- heterocomplex translocates to the nucleus to regulate transcription.
biological process
    GO:0030509    BMP signaling pathway    A series of molecular signals initiated by the binding of a member of the BMP (bone morphogenetic protein) family to a receptor on the surface of a target cell, and ending with regulation of a downstream cellular process, e.g. transcription.
    GO:0000165    MAPK cascade    An intracellular protein kinase cascade containing at least a MAPK, a MAPKK and a MAP3K. The cascade can also contain two additional tiers: the upstream MAP4K and the downstream MAP Kinase-activated kinase (MAPKAPK). The kinases in each tier phosphorylate and activate the kinases in the downstream tier to transmit a signal within a cell.
    GO:0007183    SMAD protein complex assembly    The aggregation, arrangement and bonding together of a set of components to form a protein complex that contains SMAD proteins.
    GO:0060395    SMAD protein signal transduction    The cascade of processes by which a signal interacts with a receptor, causing a change in the activity of a SMAD protein, and ultimately effecting a change in the functioning of the cell.
    GO:0060348    bone development    The process whose specific outcome is the progression of bone over time, from its formation to the mature structure. Bone is the hard skeletal connective tissue consisting of both mineral and cellular components.
    GO:0060038    cardiac muscle cell proliferation    The expansion of a cardiac muscle cell population by cell division.
    GO:0051216    cartilage development    The process whose specific outcome is the progression of a cartilage element over time, from its formation to the mature structure. Cartilage elements are skeletal elements that consist of connective tissue dominated by extracellular matrix containing collagen type II and large amounts of proteoglycan, particularly chondroitin sulfate.
    GO:0071773    cellular response to BMP stimulus    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 a bone morphogenetic protein (BMP) stimulus.
    GO:0071407    cellular response to organic cyclic compound    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 organic cyclic compound stimulus.
    GO:0009880    embryonic pattern specification    The process that results in the patterns of cell differentiation that will arise in an embryo.
    GO:0007276    gamete generation    The generation and maintenance of gametes in a multicellular organism. A gamete is a haploid reproductive cell.
    GO:0030902    hindbrain development    The process whose specific outcome is the progression of the hindbrain over time, from its formation to the mature structure. The hindbrain is the posterior of the three primary divisions of the developing chordate brain, or the corresponding part of the adult brain (in vertebrates, includes the cerebellum, pons, and medulla oblongata and controls the autonomic functions and equilibrium).
    GO:0042592    homeostatic process    Any biological process involved in the maintenance of an internal steady state.
    GO:0006954    inflammatory response    The immediate defensive reaction (by vertebrate tissue) to infection or injury caused by chemical or physical agents. The process is characterized by local vasodilation, extravasation of plasma into intercellular spaces and accumulation of white blood cells and macrophages.
    GO:0001710    mesodermal cell fate commitment    The cell differentiation process that results in commitment of a cell to become part of the mesoderm.
    GO:0030901    midbrain development    The process whose specific outcome is the progression of the midbrain over time, from its formation to the mature structure. The midbrain is the middle division of the three primary divisions of the developing chordate brain or the corresponding part of the adult brain (in vertebrates, includes a ventral part containing the cerebral peduncles and a dorsal tectum containing the corpora quadrigemina and that surrounds the aqueduct of Sylvius connecting the third and fourth ventricles).
    GO:0008285    negative regulation of cell proliferation    Any process that stops, prevents or reduces the rate or extent of cell proliferation.
    GO:0002051    osteoblast fate commitment    The commitment of mesenchymal cells to the specific cell fate of an osteoblast. An osteoblast is a bone-forming cell which secretes an extracellular matrix. Hydroxyapatite crystals are then deposited into the matrix to form bone.
    GO:0061036    positive regulation of cartilage development    Any process that increases the rate, frequency, or extent of cartilage development, the process whose specific outcome is the progression of the cartilage over time, from its formation to the mature structure. Cartilage is a connective tissue dominated by extracellular matrix containing collagen type II and large amounts of proteoglycan, particularly chondroitin sulfate.
    GO:0010628    positive regulation of gene expression    Any process that increases the frequency, rate or extent of gene expression. Gene expression is the process in which a gene's coding sequence is converted into a mature gene product or products (proteins or RNA). This includes the production of an RNA transcript as well as any processing to produce a mature RNA product or an mRNA or circRNA (for protein-coding genes) and the translation of that mRNA or circRNA into protein. Protein maturation is included when required to form an active form of a product from an inactive precursor form.
    GO:0045669    positive regulation of osteoblast differentiation    Any process that activates or increases the frequency, rate or extent of osteoblast differentiation.
    GO:0045944    positive regulation of transcription from RNA polymerase II promoter    Any process that activates or increases the frequency, rate or extent of transcription from an RNA polymerase II promoter.
    GO:1901522    positive regulation of transcription from RNA polymerase II promoter involved in cellular response to chemical stimulus    Any positive regulation of transcription from RNA polymerase II promoter that is involved in cellular response to chemical stimulus.
    GO:0031053    primary miRNA processing    Any process involved in the conversion of a primary microRNA transcript into a pre-microRNA molecule.
    GO:0006468    protein phosphorylation    The process of introducing a phosphate group on to a protein.
    GO:0006357    regulation of transcription from RNA polymerase II promoter    Any process that modulates the frequency, rate or extent of transcription from an RNA polymerase II promoter.
    GO:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0007165    signal transduction    The cellular process in which a signal is conveyed to trigger a change in the activity or state of a cell. Signal transduction begins with reception of a signal (e.g. a ligand binding to a receptor or receptor activation by a stimulus such as light), or for signal transduction in the absence of ligand, signal-withdrawal or the activity of a constitutively active receptor. Signal transduction ends with regulation of a downstream cellular process, e.g. regulation of transcription or regulation of a metabolic process. Signal transduction covers signaling from receptors located on the surface of the cell and signaling via molecules located within the cell. For signaling between cells, signal transduction is restricted to events at and within the receiving cell.
    GO:0006366    transcription from RNA polymerase II promoter    The synthesis of RNA from a DNA template by RNA polymerase II, originating at an RNA polymerase II promoter. Includes transcription of messenger RNA (mRNA) and certain small nuclear RNAs (snRNAs).
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.
    GO:0007179    transforming growth factor beta receptor signaling pathway    A series of molecular signals initiated by the binding of an extracellular ligand to a transforming growth factor beta receptor on the surface of a target cell, and ending with regulation of a downstream cellular process, e.g. transcription.
    GO:0001657    ureteric bud development    The process whose specific outcome is the progression of the ureteric bud over time, from its formation to the mature structure.
cellular component
    GO:0071141    SMAD protein complex    A protein complex that consists of only SMAD proteins; may be homomeric or heteromeric.
    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:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    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:0005637    nuclear inner membrane    The inner, i.e. lumen-facing, lipid bilayer of the nuclear envelope.
    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.
    GO:0043234    protein complex    A stable macromolecular complex composed (only) of two or more polypeptide subunits along with any covalently attached molecules (such as lipid anchors or oligosaccharide) or non-protein prosthetic groups (such as nucleotides or metal ions). Prosthetic group in this context refers to a tightly bound cofactor. The component polypeptide subunits may be identical.
    GO:0005667    transcription factor complex    A protein complex that is capable of associating with DNA by direct binding, or via other DNA-binding proteins or complexes, and regulating transcription.

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        SMAD1_HUMAN | Q157972law 2lax 2lay 2laz 2lb0 2lb1 3q47 3q4a

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