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(-) Description

Title :  VOLTAGE-DEPENDENT K+ CHANNEL BETA SUBUNIT IN COMPLEX WITH CORTISONE
 
Authors :  Y. Pan, J. Weng, V. Kabaleeswaran, H. Li, Y. Cao, R. C. Bhosle, M. Zhou
Date :  26 Aug 08  (Deposition) - 23 Sep 08  (Release) - 11 Aug 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.82
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (4x)
Keywords :  Kvbeta, Cortisone, Nadph, Cytoplasm, Ion Transport, Ionic Channel, Nadp, Phosphoprotein, Potassium, Potassium Transport, Transport, Voltage-Gated Channel, Transport Protein, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  Y. Pan, J. Weng, V. Kabaleeswaran, H. Li, Y. Cao, R. C. Bhosle, M. Zhou
Cortisone Dissociates The Shaker Family K+ Channels From Their Beta Subunits.
Nat. Chem. Biol. V. 4 708 2008
PubMed-ID: 18806782  |  Reference-DOI: 10.1038/NCHEMBIO.114
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - VOLTAGE-GATED POTASSIUM CHANNEL SUBUNIT BETA-2
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Taxid562
    Expression System Vector TypePLASMID
    FragmentCYTOPLASMIC KVBETA SUBUNIT
    GeneKCNAB2, CKBETA2, KCNB3
    Organism CommonBROWN RAT,RAT,RATS
    Organism ScientificRATTUS NORVEGICUS
    Organism Taxid10116
    SynonymK(+) CHANNEL SUBUNIT BETA-2, KV-BETA-2

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit A
Biological Unit 1 (4x)A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric Unit (2, 3)
No.NameCountTypeFull Name
1NDP1Ligand/IonNADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDEPHOSPHATE
2PDN2Ligand/Ion17,21-DIHYDROXYPREGNA-1,4-DIENE-3,11,20-TRIONE
Biological Unit 1 (2, 12)
No.NameCountTypeFull Name
1NDP4Ligand/IonNADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDEPHOSPHATE
2PDN8Ligand/Ion17,21-DIHYDROXYPREGNA-1,4-DIENE-3,11,20-TRIONE

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:55 , THR A:56 , TRP A:57 , GLN A:63 , ASP A:85 , TYR A:90 , LYS A:118 , ASN A:158 , SER A:188 , ARG A:189 , GLN A:214 , TRP A:243 , SER A:244 , PRO A:245 , LEU A:246 , ALA A:247 , CYS A:248 , GLY A:249 , SER A:252 , LYS A:254 , ARG A:264 , LEU A:321 , LEU A:322 , GLY A:323 , SER A:325 , GLN A:329 , GLU A:332 , ASN A:333 , PDN A:501 , HOH A:1009 , HOH A:1011 , HOH A:1013BINDING SITE FOR RESIDUE NDP A1001
2AC2SOFTWARETRP A:57 , VAL A:89 , TYR A:90 , LYS A:118 , TRP A:121 , ASN A:158 , ARG A:189 , NDP A:1001 , HOH A:1145BINDING SITE FOR RESIDUE PDN A 501
3AC3SOFTWAREPRO A:165 , GLU A:167 , GLU A:168 , ARG A:203 , ILE A:208 , PRO A:209 , PRO A:210 , ILE A:211 , ILE A:236 , HOH A:1002 , HOH A:1027 , HOH A:1073 , HOH A:1142BINDING SITE FOR RESIDUE PDN A 601

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3EAU)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3EAU)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3EAU)

(-) Exons   (14, 14)

Asymmetric Unit (14, 14)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1ENSRNOT000000158401ENSRNOE00000308500chr5:169710725-169710296430KCAB2_RAT-00--
1.2ENSRNOT000000158402ENSRNOE00000112803chr5:169670219-169670091129KCAB2_RAT1-26260--
1.3ENSRNOT000000158403ENSRNOE00000109396chr5:169668964-16966892342KCAB2_RAT26-40151A:35-406
1.4ENSRNOT000000158404ENSRNOE00000109593chr5:169644460-16964441744KCAB2_RAT40-55161A:40-5516
1.5ENSRNOT000000158405ENSRNOE00000112181chr5:169643660-16964362338KCAB2_RAT55-67131A:55-6713
1.6ENSRNOT000000158406ENSRNOE00000112310chr5:169638175-16963809680KCAB2_RAT68-94271A:68-9427
1.7ENSRNOT000000158407ENSRNOE00000109963chr5:169635470-16963542645KCAB2_RAT94-109161A:94-10916
1.8ENSRNOT000000158408ENSRNOE00000110175chr5:169633990-16963394645KCAB2_RAT109-124161A:109-12416
1.9ENSRNOT000000158409ENSRNOE00000112448chr5:169632945-16963290244KCAB2_RAT124-139161A:124-13916
1.10ENSRNOT0000001584010ENSRNOE00000112513chr5:169632029-16963194387KCAB2_RAT139-168301A:139-16830
1.11ENSRNOT0000001584011ENSRNOE00000110546chr5:169628084-16962799986KCAB2_RAT168-196291A:168-19629
1.12ENSRNOT0000001584012ENSRNOE00000110711chr5:169626318-169626198121KCAB2_RAT197-237411A:197-23741
1.13ENSRNOT0000001584013ENSRNOE00000110885chr5:169626108-16962601495KCAB2_RAT237-268321A:237-26832
1.14ENSRNOT0000001584014ENSRNOE00000111076chr5:169625453-169625333121KCAB2_RAT269-309411A:269-30941
1.15ENSRNOT0000001584015ENSRNOE00000111256chr5:169624855-16962476789KCAB2_RAT309-338301A:309-33830
1.16ENSRNOT0000001584016ENSRNOE00000111460chr5:169624192-16962409994KCAB2_RAT339-367291A:339-36123

(-) 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:327
 aligned with KCAB2_RAT | P62483 from UniProtKB/Swiss-Prot  Length:367

    Alignment length:327
                                    44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       
            KCAB2_RAT    35 QLQFYRNLGKSGLRVSCLGLGTWVTFGGQITDEMAEHLMTLAYDNGINLFDTAEVYAAGKAEVVLGNIIKKKGWRRSSLVITTKIFWGGKAETERGLSRKHIIEGLKASLERLQLEYVDVVFANRPDPNTPMEETVRAMTHVINQGMAMYWGTSRWSSMEIMEAYSVARQFNLIPPICEQAEYHMFQREKVEVQLPELFHKIGVGAMTWSPLACGIVSGKYDSGIPPYSRASLKGYQWLKDKILSEEGRRQQAKLKELQAIAERLGCTLPQLAIAWCLRNEGVSSVLLGASNAEQLMENIGAIQVLPKLSSSIVHEIDSILGNKPYS 361
               SCOP domains d3eaua_ A: Voltage-dependent K+ channel beta subunit                                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains 3eauA00 A:35-361 NADP-dependent oxidoreductase                                                                                                                                                                                                                                                                                          CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eee......eee.eeee.........hhhhhhhhhhhhhhh...eeeee.hhhhhhhhhhhhhhhhhhh.hhhhheeeeee.....hhhhh..hhhhhhhhhhhhhhhhh...eeeeee.......hhhhhhhhhhhhhhh..eeeeeee..hhhhhhhhhhhhhhh......eeeee.....hhhhhhhhhhhhhhhh.eeeee..hhhhhhhh.........hhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh.....eeee...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) 1.3   --------------Exon 1.5     Exon 1.6  PDB: A:68-94     --------------Exon 1.8        --------------Exon 1.10  PDB: A:139-168     ----------------------------Exon 1.12  PDB: A:197-237                -------------------------------Exon 1.14  PDB: A:269-309                -----------------------------Exon 1.16 [INCOMPLETE]  Transcript 1 (1)
           Transcript 1 (2) -----Exon 1.4        --------------------------------------Exon 1.7        --------------Exon 1.9        ----------------------------Exon 1.11  PDB: A:168-196    ----------------------------------------Exon 1.13  PDB: A:237-268       ----------------------------------------Exon 1.15  PDB: A:309-338     ----------------------- Transcript 1 (2)
                 3eau A  35 MLQFYRNLGKSGLRVSCLGLGTWVTFGGQITDEMAEHLMTLAYDNGINLFDTAEVYAAGKAEVVLGNIIKKKGWRRSSLVITTKIFWGGKAETERGLSRKHIIEGLKASLERLQLEYVDVVFANRPDPNTPMEETVRAMTHVINQGMAMYWGTSRWSSMEIMEAYSVARQFNLIPPICEQAEYHMFQREKVEVQLPELFHKIGVGAMTWSPLACGIVSGKYDSGIPPYSRASLKGYQWLKDKILSEEGRRQQAKLKELQAIAERLGCTLPQLAIAWCLRNEGVSSVLLGASNAEQLMENIGAIQVLPKLSSSIVHEIDSILGNKPYS 361
                                    44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       

   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 Unit

(-) CATH Domains  (1, 1)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (34, 34)

Asymmetric Unit(hide GO term definitions)
Chain A   (KCAB2_RAT | P62483)
molecular function
    GO:0004033    aldo-keto reductase (NADP) activity    Catalysis of the reaction: an alcohol + NADP+ = an aldehyde or a ketone + NADPH + H+.
    GO:0044325    ion channel binding    Interacting selectively and non-covalently with one or more specific sites on an ion channel, a protein complex that spans a membrane and forms a water-filled channel across the phospholipid bilayer allowing selective ion transport down its electrochemical gradient.
    GO:0016491    oxidoreductase activity    Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
    GO:0015459    potassium channel regulator activity    Modulates potassium channel activity via direct interaction interaction with a potassium channel (binding or modification).
    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:0005244    voltage-gated ion channel activity    Enables the transmembrane transfer of an ion by a voltage-gated channel. An ion is an atom or group of atoms carrying an electric charge by virtue of having gained or lost one or more electrons. A voltage-gated channel is a channel whose open state is dependent on the voltage across the membrane in which it is embedded.
    GO:0005249    voltage-gated potassium channel activity    Enables the transmembrane transfer of a potassium ion by a voltage-gated channel. A voltage-gated channel is a channel whose open state is dependent on the voltage across the membrane in which it is embedded.
biological process
    GO:0070995    NADPH oxidation    A metabolic process that results in the oxidation of reduced nicotinamide adenine dinucleotide, NADPH, to the oxidized form, NADP.
    GO:0006811    ion transport    The directed movement of charged atoms or small charged molecules into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    GO:0045445    myoblast differentiation    The process in which a relatively unspecialized cell acquires specialized features of a myoblast. A myoblast is a mononucleate cell type that, by fusion with other myoblasts, gives rise to the myotubes that eventually develop into striated muscle fibers.
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
    GO:0071805    potassium ion transmembrane transport    A process in which a potassium ion is transported from one side of a membrane to the other.
    GO:0006813    potassium ion transport    The directed movement of potassium ions (K+) into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    GO:0051291    protein heterooligomerization    The process of creating protein oligomers, compounds composed of a small number, usually between three and ten, of component monomers that are not all identical. Oligomers may be formed by the polymerization of a number of monomers or the depolymerization of a large protein polymer.
    GO:0034765    regulation of ion transmembrane transport    Any process that modulates the frequency, rate or extent of the directed movement of ions from one side of a membrane to the other.
    GO:1901379    regulation of potassium ion transmembrane transport    Any process that modulates the frequency, rate or extent of potassium ion transmembrane transport.
    GO:2000008    regulation of protein localization to cell surface    Any process that modulates the frequency, rate or extent of protein localization to the cell surface.
    GO:0006810    transport    The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
cellular component
    GO:0030424    axon    The long process of a neuron that conducts nerve impulses, usually away from the cell body to the terminals and varicosities, which are sites of storage and release of neurotransmitter.
    GO:0030054    cell junction    A cellular component that forms a specialized region of connection between two or more cells or between a cell and the extracellular matrix. At a cell junction, anchoring proteins extend through the plasma membrane to link cytoskeletal proteins in one cell to cytoskeletal proteins in neighboring cells or to proteins in the extracellular matrix.
    GO:0042995    cell projection    A prolongation or process extending from a cell, e.g. a flagellum or axon.
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005856    cytoskeleton    Any of the various filamentous elements that form the internal framework of cells, and typically remain after treatment of the cells with mild detergent to remove membrane constituents and soluble components of the cytoplasm. The term embraces intermediate filaments, microfilaments, microtubules, the microtrabecular lattice, and other structures characterized by a polymeric filamentous nature and long-range order within the cell. The various elements of the cytoskeleton not only serve in the maintenance of cellular shape but also have roles in other cellular functions, including cellular movement, cell division, endocytosis, and movement of organelles.
    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:0031234    extrinsic component of cytoplasmic side of plasma membrane    The component of a plasma membrane consisting of gene products and protein complexes that are loosely bound to its cytoplasmic surface, but not integrated into the hydrophobic region.
    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:0044224    juxtaparanode region of axon    A region of an axon near a node of Ranvier that is between the paranode and internode regions.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0005874    microtubule    Any of the long, generally straight, hollow tubes of internal diameter 12-15 nm and external diameter 24 nm found in a wide variety of eukaryotic cells; each consists (usually) of 13 protofilaments of polymeric tubulin, staggered in such a manner that the tubulin monomers are arranged in a helical pattern on the microtubular surface, and with the alpha/beta axes of the tubulin subunits parallel to the long axis of the tubule; exist in equilibrium with pool of tubulin monomers and can be rapidly assembled or disassembled in response to physiological stimuli; concerned with force generation, e.g. in the spindle.
    GO:0043005    neuron projection    A prolongation or process extending from a nerve cell, e.g. an axon or dendrite.
    GO:1990031    pinceau fiber    Dense plexus formed by the descending collaterals of cerebellar basket cells that wrap around a Purkinje cell axonal initial segment.
    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:0034705    potassium channel complex    An ion channel complex through which potassium ions pass.
    GO:0045202    synapse    The junction between a nerve fiber of one neuron and another neuron, muscle fiber or glial cell. As the nerve fiber approaches the synapse it enlarges into a specialized structure, the presynaptic nerve ending, which contains mitochondria and synaptic vesicles. At the tip of the nerve ending is the presynaptic membrane; facing it, and separated from it by a minute cleft (the synaptic cleft) is a specialized area of membrane on the receiving cell, known as the postsynaptic membrane. In response to the arrival of nerve impulses, the presynaptic nerve ending secretes molecules of neurotransmitters into the synaptic cleft. These diffuse across the cleft and transmit the signal to the postsynaptic membrane.

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 Related Entries

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

UniProtKB/Swiss-Prot
        KCAB2_RAT | P624831exb 1qrq 2a79 2r9r 3eb3 3eb4 3lnm 3lut 4jta 4jtc 4jtd

(-) Related Entries Specified in the PDB File

1exb KVBETA IN COMPLEXED WITH T1-DOMAIN
1qrq KVBETA PROTEIN
3eb3
3eb4