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(-) Description

Title :  CRYSTAL STRUCTURE OF KV4.3 T1 DOMAIN
 
Authors :  R. H. Scannevin, K. W. Wang, F. Jow, J. Megules, D. C. Kopsco, W. Edris, K. C. Carroll, Q. Lu, W. X. Xu, Z. B. Xu, A. H. Katz, S. Olland, L. Lin, M. Ta M. Stahl, K. Malakian, W. Somers, L. Mosyak, M. R. Bowlby, P. Chanda, K.
Date :  06 Jan 04  (Deposition) - 23 Mar 04  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (2x)
Keywords :  K+ Channels, Tetramerization Domain, T1 Domain, Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  R. H. Scannevin, K. W. Wang, F. Jow, J. Megules, D. C. Kopsco, W. Edris, K. C. Carroll, W. X. Xu, Z. B. Xu, A. H. Katz, S. Olland, L. Lin, M. Taylor, M. Stahl, K. Malakian, W. Somers, L. Mosyak, M. R. Bowlby, P. Chanda, K. J. Rhodes
Two N-Terminal Domains Of Kv4 K(+) Channels Regulate Bindin To And Modulation By Kchip1.
Neuron V. 41 587 2004
PubMed-ID: 14980207  |  Reference-DOI: 10.1016/S0896-6273(04)00049-2

(-) Compounds

Molecule 1 - POTASSIUM VOLTAGE-GATED CHANNEL SUBFAMILY D MEMBER 3
    ChainsA, B
    EngineeredYES
    Expression SystemESCHERICHIA COLI BL21(DE3)
    Expression System PlasmidPET-21
    Expression System StrainBL21-DE3
    Expression System Taxid469008
    Expression System Vector TypePLASMID
    FragmentKV4.3T1 (RESIDUE 29-143, SWS Q9UK17)
    GeneKCND3
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymPOTASSIUM CHANNEL KV4.3

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric Unit (1, 2)
No.NameCountTypeFull Name
1ZN2Ligand/IonZINC ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1ZN-1Ligand/IonZINC ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:104 , CYS A:131 , CYS A:132 , CYS B:110BINDING SITE FOR RESIDUE ZN A 152
2AC2SOFTWARECYS A:110 , HIS B:104 , CYS B:131 , CYS B:132BINDING SITE FOR RESIDUE ZN B 152

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1S1G)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1S1G)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (1, 2)

Asymmetric Unit (1, 2)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_035775V94MKCND3_HUMANUnclassified  ---A/BV94M

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)
Biological Unit 1 (1, 4)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_035775V94MKCND3_HUMANUnclassified  ---A/BV94M

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

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1S1G)

(-) Exons   (1, 2)

Asymmetric Unit (1, 2)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1ENST000003159871ENSE00001330124chr1:112531777-112531370408KCND3_HUMAN-00--
1.2aENST000003159872aENSE00001381593chr1:112525420-1125242431178KCND3_HUMAN1-3693692A:39-145
B:38-147
107
110
1.3ENST000003159873ENSE00001274673chr1:112329728-112329566163KCND3_HUMAN369-423550--
1.4ENST000003159874ENSE00001159860chr1:112323413-112323312102KCND3_HUMAN424-457340--
1.5ENST000003159875ENSE00001159851chr1:112322936-11232284790KCND3_HUMAN458-487300--
1.6ENST000003159876ENSE00001159844chr1:112321114-11232105857KCND3_HUMAN488-506190--
1.7ENST000003159877ENSE00001159838chr1:112319895-112319648248KCND3_HUMAN507-589830--
1.8aENST000003159878aENSE00001274705chr1:112318900-112318431470KCND3_HUMAN589-655670--

(-) 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:107
 aligned with KCND3_HUMAN | Q9UK17 from UniProtKB/Swiss-Prot  Length:655

    Alignment length:107
                                    48        58        68        78        88        98       108       118       128       138       
          KCND3_HUMAN    39 DELIVLNVSGRRFQTWRTTLERYPDTLLGSTEKEFFFNEDTKEYFFDRDPEVFRCVLNFYRTGKLHYPRYECISAYDDELAFYGILPEIIGDCCYEEYKDRKRENAE 145
               SCOP domains d1s1ga_ A: Potassium channel kv4.3                                                                          SCOP domains
               CATH domains 1s1gA00 A:39-145 Potassium Channel Kv1.1; Chain A                                                           CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee..eeeeeehhhhh.........hhhhhh.......eee..hhhhhhhhhhhhhhh........hhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------M--------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------- PROSITE
               Transcript 1 Exon 1.2a  PDB: A:39-145 UniProt: 1-369 [INCOMPLETE]                                                        Transcript 1
                 1s1g A  39 DELIVLNVSGRRFQTWRTTLERYPDTLLGSTEKEFFFNEDTKEYFFDRDPEVFRCVLNFYRTGKLHYPRYECISAYDDELAFYGILPEIIGDCCYEEYKDRKRENLE 145
                                    48        58        68        78        88        98       108       118       128       138       

Chain B from PDB  Type:PROTEIN  Length:110
 aligned with KCND3_HUMAN | Q9UK17 from UniProtKB/Swiss-Prot  Length:655

    Alignment length:110
                                    47        57        67        77        87        97       107       117       127       137       147
          KCND3_HUMAN    38 QDELIVLNVSGRRFQTWRTTLERYPDTLLGSTEKEFFFNEDTKEYFFDRDPEVFRCVLNFYRTGKLHYPRYECISAYDDELAFYGILPEIIGDCCYEEYKDRKRENAERL 147
               SCOP domains d1s1gb_ B: Potassium channel kv4.3                                                                             SCOP domains
               CATH domains 1s1gB00 B:38-147 Potassium Channel Kv1.1; Chain A                                                              CATH domains
           Pfam domains (1) ----K_tetra-1s1gB01 B:42-131                                                                  ---------------- Pfam domains (1)
           Pfam domains (2) ----K_tetra-1s1gB02 B:42-131                                                                  ---------------- Pfam domains (2)
         Sec.struct. author ...eeeeee..eeeeeehhhhhh.......hhhhhhh.......eee..hhhhhhhhhhhhhhh........hhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------M----------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------- PROSITE
               Transcript 1 Exon 1.2a  PDB: B:38-147 UniProt: 1-369 [INCOMPLETE]                                                           Transcript 1
                 1s1g B  38 QDELIVLNVSGRRFQTWRTTLERYPDTLLGSTEKEFFFNEDTKEYFFDRDPEVFRCVLNFYRTGKLHYPRYECISAYDDELAFYGILPEIIGDCCYEEYKDRKRENLEHH 147
                                    47        57        67        77        87        97       107       117       127       137       147

   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
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: POZ (36)

(-) Gene Ontology  (31, 31)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (KCND3_HUMAN | Q9UK17)
molecular function
    GO:0005250    A-type (transient outward) potassium channel activity    Enables the transmembrane transfer of a potassium ion by an outwardly-rectifying voltage-gated channel that produces a transient outward current upon a step change in membrane potential.
    GO:0005251    delayed rectifier potassium channel activity    Enables the transmembrane transfer of a potassium ion by a delayed rectifying voltage-gated channel. A delayed rectifying current-voltage relation is one where channel activation kinetics are time-dependent, and inactivation is slow.
    GO:0005216    ion channel activity    Enables the facilitated diffusion of an ion (by an energy-independent process) by passage through a transmembrane aqueous pore or channel without evidence for a carrier-mediated mechanism. May be either selective (it enables passage of a specific ion only) or non-selective (it enables passage of two or more ions of same charge but different size).
    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:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0005267    potassium channel activity    Enables the facilitated diffusion of a potassium ion (by an energy-independent process) involving passage through a transmembrane aqueous pore or channel without evidence for a carrier-mediated mechanism.
    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:0061337    cardiac conduction    Transfer of an organized electrical impulse across the heart to coordinate the contraction of cardiac muscles. The process begins with generation of an action potential (in the sinoatrial node (SA) in humans) and ends with a change in the rate, frequency, or extent of the contraction of the heart muscles.
    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: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:0086009    membrane repolarization    The process in which ions are transported across a membrane such that the membrane potential changes in the repolarizing direction, toward the steady state potential. For example, the repolarization during an action potential is from a positive membrane potential towards a negative resting potential.
    GO:0071435    potassium ion export    The directed movement of potassium ions out of a cell or organelle.
    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:0051260    protein homooligomerization    The process of creating protein oligomers, compounds composed of a small number, usually between three and ten, of identical component monomers. 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:0055085    transmembrane transport    The process in which a solute is transported across a lipid bilayer, from one side of a membrane to the other
    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:0042995    cell projection    A prolongation or process extending from a cell, e.g. a flagellum or axon.
    GO:0030425    dendrite    A neuron projection that has a short, tapering, often branched, morphology, receives and integrates signals from other neurons or from sensory stimuli, and conducts a nerve impulse towards the axon or the cell body. In most neurons, the impulse is conveyed from dendrites to axon via the cell body, but in some types of unipolar neuron, the impulse does not travel via the cell body.
    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:0005887    integral component of plasma membrane    The component of the plasma 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: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:0097038    perinuclear endoplasmic reticulum    The portion of endoplasmic reticulum, the intracellular network of tubules and cisternae, that occurs near the nucleus. The lumen of the perinuclear endoplasmic reticulum is contiguous with the nuclear envelope lumen (also called perinuclear space), the region between the inner and outer nuclear membranes.
    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:0042383    sarcolemma    The outer membrane of a muscle cell, consisting of the plasma membrane, a covering basement membrane (about 100 nm thick and sometimes common to more than one fiber), and the associated loose network of collagen fibers.
    GO:0008076    voltage-gated potassium channel complex    A protein complex that forms a transmembrane channel through which potassium ions may cross a cell membrane in response to changes in membrane potential.

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 Related Entries

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

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        KCND3_HUMAN | Q9UK172nz0

(-) Related Entries Specified in the PDB File

1s1e CRYSTAL STRUCTURE OF KV CHANNEL-INTERACTING PROTEIN 1