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(-) Description

Title :  CRYSTAL STRUCTURE OF KCSA-FAB-TBA COMPLEX IN RB+
 
Authors :  S. Yohannan, Y. Zhou
Date :  10 Aug 06  (Deposition) - 20 Feb 07  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym. Unit :  A,B,C
Biol. Unit 1:  A,B,C  (4x)
Keywords :  Potassium Channel, Membrane Protein, Tetrabutylammonium, K+, Kcsa (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Yohannan, Y. Hu, Y. Zhou
Crystallographic Study Of The Tetrabutylammonium Block To The Kcsa K(+) Channel
J. Mol. Biol. V. 366 806 2007
PubMed-ID: 17196615  |  Reference-DOI: 10.1016/J.JMB.2006.11.081

(-) Compounds

Molecule 1 - ANTIBODY FAB HEAVY CHAIN
    Chains: A
    Organism Common: HOUSE MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
    Other Details: HYBRIDOMA CELL LINE
 
Molecule 2 - ANTIBODY FAB LIGHT CHAIN
    Chains: B
    Organism Common: HOUSE MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
    Other Details: HYBRIDOMA CELL LINE
 
Molecule 3 - VOLTAGE-GATED POTASSIUM CHANNEL
    Chains: C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PQE60
    Expression System Strain: XL1-BLUE
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: RESIDUES 22-124
    Mutation: YES
    Organism Scientific: STREPTOMYCES LIVIDANS
    Organism Taxid: 1916

 Structural Features

(-) Chains, Units

  123
Asymmetric Unit : ABC
Biological Unit 1 (4x): ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 6)

Asymmetric Unit (4, 6)
No.NameCountTypeFull Name
1F091Ligand/IonNONAN-1-OL
2L2C1Ligand/Ion(2S)-3-HYDROXY-2-(NONANOYLOXY)PROPYL LAURATE
3RB3Ligand/IonRUBIDIUM ION
4TBA1Ligand/IonTETRABUTYLAMMONIUM ION
Biological Unit 1 (3, 12)
No.NameCountTypeFull Name
1F094Ligand/IonNONAN-1-OL
2L2C4Ligand/Ion(2S)-3-HYDROXY-2-(NONANOYLOXY)PROPYL LAURATE
3RB-1Ligand/IonRUBIDIUM ION
4TBA4Ligand/IonTETRABUTYLAMMONIUM ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY C:77 , TYR C:78BINDING SITE FOR RESIDUE RB C 3001
2AC2SOFTWARETHR C:75BINDING SITE FOR RESIDUE RB C 3002
3AC3SOFTWARETHR C:75 , VAL C:76BINDING SITE FOR RESIDUE RB C 3003
4AC4SOFTWAREGLU B:53 , PRO C:63 , LEU C:66 , VAL C:70 , VAL C:84 , THR C:85 , LEU C:86 , ARG C:89 , VAL C:93BINDING SITE FOR RESIDUE L2C C 201
5AC5SOFTWARETYR A:55 , ARG A:57 , VAL C:91BINDING SITE FOR RESIDUE F09 C 202
6AC6SOFTWAREALA C:73 , THR C:74 , THR C:75 , ILE C:100BINDING SITE FOR RESIDUE TBA C 4001

(-) SS Bonds  (4, 4)

Asymmetric Unit
No.Residues
1A:22 -A:96
2A:145 -A:200
3B:23 -B:88
4B:134 -B:194

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Trp B:94 -Pro B:95

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2DWE)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2DWE)

(-) Exons   (0, 0)

(no "Exon" information available for 2DWE)

(-) 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:219
                                                                                                                                                                                                                                                           
               SCOP domains d2dwea1 A:1-118 Immunoglobulin heavy chain variable domain, VH                                                        d2dwea2 A:119-219 Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma                       SCOP domains
               CATH domains 2dweA01 A:1-118 Immunoglobulins                                                                                       2dweA02 A:119-217 Immunoglobulins                                                                  -- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...ee...eeee.....eeeeeee........eeeeeee......eeeeee......eee.......eeeeeehhh.eeeeee...hhhhheeeeeeee.......ee...eeeee........eeeee..........eeeeeeeeeee.....eeee........eee...eee..eeeeeeeeeee.hhh.....eeeeeehhhheeeeee..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2dwe A   1 QVQLQQPGAELVKPGASVKLSCKASGYTFTSDWIHWVKQRPGHGLEWIGEIIPSYGRANYNEKIQKKATLTADKSSSTAFMQLSSLTSEDSAVYYCARERGDGYFAVWGAGTTVTVSSAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVPSSSWPSETVTCNVAHPASSTKVDKKIVPRD 219
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210         


Chain B from PDB  Type:PROTEIN  Length:212
                                                                                                                                                                                                                                                    
               SCOP domains d2dweb1 B:1-107 Immunoglobulin light chain kappa variable domain, VL-kappa                                 d2dweb2 B:108-212 Immunoglobulin light chain kappa constant domain, CL-kappa                              SCOP domains
               CATH domains 2dweB01 B:1-108 Immunoglobulins                                                                             2dweB02 B:109-211 Immunoglobulins                                                                      - CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...ee....eeee.....eeeeeee.......eeeeee......eeeee...ee.......eeeeee..eeeeee...hhhhh.eeeeee......ee...eeeee.......eeeee..hhhhhh..eeeeeeeeeee.....eeeeee..eee...eeeee.........eeeeeeeeeehhhhhh..eeeeeeee..eeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2dwe B   1 DILLTQSPAILSVSPGERVSFSCRASQSIGTDIHWYQQRTNGSPRLLIKYASESISGIPSRFSGSGSGTDFTLSINSVESEDIANYYCQQSNRWPFTFGSGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRN 212
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210  


Chain C from PDB  Type:PROTEIN  Length:103
 aligned with KCSA_STRLI | P0A334 from UniProtKB/Swiss-Prot  Length:160

    Alignment length:103
                                    31        41        51        61        71        81        91       101       111       121   
           KCSA_STRLI    22 SALHWRAAGAATVLLVIVLLAGSYLAVLAERGAPGAQLITYPRALWWSVETATTVGYGDLYPVTLWGRLVAVVVMVAGITSFGLVTAALATWFVGREQERRGH 124
               SCOP domains d2dwec_ C: automated matches                                                                            SCOP domains
               CATH domains 2dweC00 C:22-124  [code=1.10.287.70, no name defined]                                                   CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------- Transcript
                 2dwe C  22 SALHWRAAGAATVLLVIVLLAGSYLAVLAERGAPGAQLITYPRALWWSVETATTVGYGDLYPVTLWGRCVAVVVMVAGITSFGLVTAALATWFVGREQERRGH 124
                                    31        41        51        61        71        81        91       101       111       121
   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  (5, 5)

Asymmetric Unit
(-)
Class: All beta proteins (24004)
(-)
Class: Membrane and cell surface proteins and peptides (2046)

(-) CATH Domains  (2, 5)

Asymmetric Unit
(-)
Class: Mainly Alpha (13335)
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2DWE)

(-) Gene Ontology  (10, 10)

Asymmetric Unit(hide GO term definitions)
Chain C   (KCSA_STRLI | P0A334)
molecular function
    GO:0042802    identical protein binding    Interacting selectively and non-covalently with an identical protein or proteins.
    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: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: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: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: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: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.
    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)

UniProtKB/Swiss-Prot
        KCSA_STRLI | P0A334: 1bl8 1f6g 1j95 1jq1 1jq2 1jvm 1k4c 1k4d 1r3i 1r3j 1r3k 1r3l 1s33 1s5h 1zwi 2a9h 2atk 2bob 2boc 2dwd 2h8p 2hg5 2hjf 2hvj 2hvk 2ih1 2ih3 2itc 2itd 2jk5 2nlj 2p7t 2qto 2w0f 3eff 3f5w 3f7v 3f7y 3fb5 3fb6 3fb7 3fb8 3gb7 3hpl 3ifx 3iga 3ogc 3or6 3or7 3pjs 3stl 3stz 4lbe 4lcu 4msw 4uuj 5e1a 5ebl 5ebm 5ebw 5ec1 5ec2 5j9p

(-) Related Entries Specified in the PDB File

1k4c KCSA-FAB CRYSTAL STRUCTURE IN HIGH K+
2dwd KCSA-FAB-TBA CRYSTAL STRUCTURE COMPLEX IN TL+
2hvj KCSA-FAB-TBA CRYSTAL STRUCTURE IN LOW K+
2hvk KCSA-FAB-TBA CRYSTAL STRUCTURE IN HIGH K+