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(-) Description

Title :  CRYSTAL STRUCTURE OF HCNK2-SAM/DHYP-SAM COMPLEX
 
Authors :  T. Rajakulendran, D. F. Ceccarelli, I. Kurinov, F. Sicheri
Date :  22 Dec 07  (Deposition) - 26 Feb 08  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Sterile Alpha Motif, Sam Domain, Sam Domain Dimer, Sam Domain Complex, Cytoplasm, Membrane, Sensory Transduction, Vision, Alternative Splicing, Coiled Coil, Phosphoprotein, Polymorphism, Signaling Protein/Membrane Protein Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  T. Rajakulendran, M. Sahmi, I. Kurinov, M. Tyers, M. Therrien, F. Sicheri
Cnk And Hyp Form A Discrete Dimer By Their Sam Domains To Mediate Raf Kinase Signaling.
Proc. Natl. Acad. Sci. Usa V. 105 2836 2008
PubMed-ID: 18287031  |  Reference-DOI: 10.1073/PNAS.0709705105
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PROTEIN AVEUGLE
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Taxid562
    GeneAVE
    Organism CommonFRUIT FLY
    Organism ScientificDROSOPHILA MELANOGASTER
    Organism Taxid7227
 
Molecule 2 - CONNECTOR ENHANCER OF KINASE SUPPRESSOR OF RAS 2
    ChainsB
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Taxid562
    FragmentSAM DOMAIN, UNP RESIDUES 5-84
    GeneCNKSR2, CNK2, KIAA0902, KSR2
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymCONNECTOR ENHANCER OF KSR2, CNK2

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 4)

Asymmetric/Biological Unit (1, 4)
No.NameCountTypeFull Name
1MSE4Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 3BS5)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3BS5)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Asn A:104 -Ile A:105

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (1, 1)

Asymmetric/Biological Unit (1, 1)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_035681R46HCNKR2_HUMANUnclassified771705122BR151H

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

(-) PROSITE Motifs  (1, 2)

Asymmetric/Biological Unit (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1SAM_DOMAINPS50105 SAM domain profile.CNKR2_HUMAN11-76  1B:116-181
AVE_DROME26-91  1A:26-91

(-) Exons   (3, 3)

Asymmetric/Biological Unit (3, 3)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1bENST000003795101bENSE00002140359X:21392980-21393079100CNKR2_HUMAN1-22221B:111-12717
1.2ENST000003795102ENSE00001726580X:21444615-21444778164CNKR2_HUMAN22-76551B:127-18155
1.3aENST000003795103aENSE00001630949X:21450730-21450932203CNKR2_HUMAN77-144681B:182-1854
1.4ENST000003795104ENSE00001770982X:21458812-2145889988CNKR2_HUMAN144-173300--
1.5aENST000003795105aENSE00001767832X:21488884-2148892542CNKR2_HUMAN174-187140--
1.6ENST000003795106ENSE00001685248X:21508577-21508696120CNKR2_HUMAN188-227400--
1.7ENST000003795107ENSE00001656729X:21515905-2151596460CNKR2_HUMAN228-247200--
1.8ENST000003795108ENSE00001668703X:21519638-2151970669CNKR2_HUMAN248-270230--
1.9ENST000003795109ENSE00001771932X:21534603-21534749147CNKR2_HUMAN271-319490--
1.10ENST0000037951010ENSE00001776000X:21544985-21545118134CNKR2_HUMAN320-364450--
1.11bENST0000037951011bENSE00001697079X:21549974-21550185212CNKR2_HUMAN364-435720--
1.12ENST0000037951012ENSE00001229010X:21579589-2157967890CNKR2_HUMAN435-465310--
1.13ENST0000037951013ENSE00001229121X:21581356-21581570215CNKR2_HUMAN465-536720--
1.14ENST0000037951014ENSE00001198948X:21608690-2160873849CNKR2_HUMAN537-553170--
1.15bENST0000037951015bENSE00001198942X:21609140-21609312173CNKR2_HUMAN553-610580--
1.16ENST0000037951016ENSE00001146970X:21613092-2161316574CNKR2_HUMAN611-635250--
1.17ENST0000037951017ENSE00001146961X:21613442-2161351372CNKR2_HUMAN635-659250--
1.18ENST0000037951018ENSE00001146953X:21619400-2161946768CNKR2_HUMAN659-682240--
1.19ENST0000037951019ENSE00001198920X:21624897-21624997101CNKR2_HUMAN682-715340--
1.20ENST0000037951020ENSE00002166275X:21627189-21627735547CNKR2_HUMAN716-8981830--
1.22ENST0000037951022ENSE00001690112X:21666949-21667145197CNKR2_HUMAN898-963660--
1.23bENST0000037951023bENSE00001655743X:21670424-216728132390CNKR2_HUMAN964-1034710--

(-) 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:86
 aligned with AVE_DROME | Q8ML92 from UniProtKB/Swiss-Prot  Length:106

    Alignment length:86
                                    29        39        49        59        69        79        89        99      
            AVE_DROME    20 PKAVYLWTVSDVLKWYRRHCGEYTQYEQLFAQHDITGRALLRITDSSLQRMGVTDNRDREAIWREIVKQRLKTDIMEIRDMERLNI 105
               SCOP domains -------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhh..hhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (2) ------SAM_DOMAIN  PDB: A:26-91 UniProt: 26-91                           -------------- PROSITE (2)
                 Transcript -------------------------------------------------------------------------------------- Transcript
                 3bs5 A  20 PKAVYLWTVSDVLKWYRRHCGEYTQYEQLFAQHDITGRALLRITDSSLQRmGVTDNRDREAIWREIVKQRLKTDImEIRDmERLNI 105
                                    29        39        49        59        69|       79        89     |  99|     
                                                                             70-MSE                   95-MSE|     
                                                                                                          100-MSE 

Chain B from PDB  Type:PROTEIN  Length:75
 aligned with CNKR2_HUMAN | Q8WXI2 from UniProtKB/Swiss-Prot  Length:1034

    Alignment length:75
                                    15        25        35        45        55        65        75     
          CNKR2_HUMAN     6 EPVSKWSPSQVVDWMKGLDDCLQQYIKNFEREKISGDQLLRITHQELEDLGVSRIGHQELILEAVDLLCALNYGL  80
               SCOP domains d3bs5b_ B: automated matches                                                SCOP domains
               CATH domains --------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhh.hhhhhhhh...hhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------H---------------------------------- SAPs(SNPs)
                    PROSITE -----SAM_DOMAIN  PDB: B:116-181 UniProt: 11-76                         ---- PROSITE
           Transcript 1 (1) Exon 1.1b        ------------------------------------------------------1.3a Transcript 1 (1)
           Transcript 1 (2) ----------------Exon 1.2  PDB: B:127-181 UniProt: 22-76                ---- Transcript 1 (2)
                 3bs5 B 111 EPVSKWSPSQVVDWmKGLDDCLQQYIKNFEREKISGDQLLRITHQELEDLGVSRIGHQELILEAVDLLCALNYGL 185
                                   120    |  130       140       150       160       170       180     
                                        125-MSE                                                        

   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  (0, 0)

(no "CATH Domain" information available for 3BS5)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3BS5)

(-) Gene Ontology  (21, 24)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (AVE_DROME | Q8ML92)
molecular function
    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.
    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).
biological process
    GO:0042675    compound eye cone cell differentiation    The process in which a relatively unspecialized cell acquires the specialized features of a compound eye cone cell, a cone-shaped cell, that focuses light in a compound eye.
    GO:0001751    compound eye photoreceptor cell differentiation    The process in which a relatively unspecialized cell acquires the specialized features of an eye photoreceptor cell.
    GO:0007173    epidermal growth factor receptor signaling pathway    A series of molecular signals initiated by binding of a ligand to the tyrosine kinase receptor EGFR (ERBB1) on the surface of a cell. The pathway ends with regulation of a downstream cellular process, e.g. transcription.
    GO:0001754    eye photoreceptor cell differentiation    The process in which a relatively unspecialized cell acquires the specialized features of a photoreceptor cell, as found in the eye, the primary visual organ of most organisms.
    GO:0070374    positive regulation of ERK1 and ERK2 cascade    Any process that activates or increases the frequency, rate or extent of signal transduction mediated by the ERK1 and ERK2 cascade.
    GO:0046579    positive regulation of Ras protein signal transduction    Any process that activates or increases the frequency, rate or extent of Ras protein signal transduction.
    GO:0050896    response to stimulus    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 a stimulus. The process begins with detection of the stimulus and ends with a change in state or activity or the cell or organism.
    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:0007601    visual perception    The series of events required for an organism to receive a visual stimulus, convert it to a molecular signal, and recognize and characterize the signal. Visual stimuli are detected in the form of photons and are processed to form an image.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    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.

Chain B   (CNKR2_HUMAN | Q8WXI2)
molecular function
    GO:0042802    identical protein binding    Interacting selectively and non-covalently with an identical protein or proteins.
biological process
    GO:0009966    regulation of signal transduction    Any process that modulates the frequency, rate or extent of signal transduction.
cellular component
    GO:0005794    Golgi apparatus    A compound membranous cytoplasmic organelle of eukaryotic cells, consisting of flattened, ribosome-free vesicles arranged in a more or less regular stack. The Golgi apparatus differs from the endoplasmic reticulum in often having slightly thicker membranes, appearing in sections as a characteristic shallow semicircle so that the convex side (cis or entry face) abuts the endoplasmic reticulum, secretory vesicles emerging from the concave side (trans or exit face). In vertebrate cells there is usually one such organelle, while in invertebrates and plants, where they are known usually as dictyosomes, there may be several scattered in the cytoplasm. The Golgi apparatus processes proteins produced on the ribosomes of the rough endoplasmic reticulum; such processing includes modification of the core oligosaccharides of glycoproteins, and the sorting and packaging of proteins for transport to a variety of cellular locations. Three different regions of the Golgi are now recognized both in terms of structure and function: cis, in the vicinity of the cis face, trans, in the vicinity of the trans face, and medial, lying between the cis and trans regions.
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0070062    extracellular exosome    A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0043005    neuron projection    A prolongation or process extending from a nerve cell, e.g. an axon or dendrite.
    GO:0043025    neuronal cell body    The portion of a neuron that includes the nucleus, but excludes cell projections such as axons and dendrites.
    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.
    GO:0045211    postsynaptic membrane    A specialized area of membrane facing the presynaptic membrane on the tip of the nerve ending and separated from it by a minute cleft (the synaptic cleft). Neurotransmitters cross the synaptic cleft and transmit the signal to the postsynaptic membrane.

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 Related Entries

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

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        AVE_DROME | Q8ML923bs7
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(-) Related Entries Specified in the PDB File

3bs7 CRYSTAL STRUCTURE OF THE STERILE ALPHA MOTIF (SAM) DOMAIN OF HYPHEN/AVEUGLE