Show PDB file:   
         Plain Text   HTML   (compressed file size)
QuickSearch:   
by PDB,NDB,UniProt,PROSITE Code or Search Term(s)  
(-)Asym./Biol. Unit
(-)Asym./Biol. Unit - sites
collapse expand < >
Image Asym./Biol. Unit
Asym./Biol. Unit  (Jmol Viewer)
Image Asym./Biol. Unit - sites
Asym./Biol. Unit - sites  (Jmol Viewer)

(-) Description

Title :  CRYSTAL STRUCTURE OF HUMAN TWO PORE DOMAIN POTASSIUM ION CHANNEL TREK1 (K2P2.1)
 
Authors :  A. C. W. Pike, Y. Y. Dong, A. Tessitore, S. Goubin, C. Strain-Damerell, S. Mukhopadhyay, K. Kupinska, D. Wang, R. Chalk, G. Berridge, M. Grieb L. Shrestha, J. H. Ang, A. Mackenzie, A. Quigley, S. R. Bushell, C. A. Sh B. Faust, A. Chu, L. Dong, F. Von Delft, C. H. Arrowsmith, A. M. Edwards C. Bountra, N. A. Burgess-Brown, E. P. Carpenter
Date :  30 Jun 14  (Deposition) - 06 Aug 14  (Release) - 06 Aug 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Ion Channel, Membrane Protein, K2P, Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  A. C. W. Pike, Y. Y. Dong, A. Tessitore, S. Goubin, C. Strain-Damerell, S. Mukhopadhyay, K. Kupinska, D. Wang, R. Chalk, G. Berridge, M. Grieben, L. Shrestha, J. H. Ang, A. Mackenzie, A. Quigley, S. R. Bushell, C. A. Shintre, B. Faust, A. Chu, L. Dong, F. Von Delft, C. H. Arrowsmith, A. M. Edwards, C. Bountra, N. A. Burgess-Brown, E. P. Carpenter
Crystal Structure Of Human Two Pore Domain Potassium Ion Channel Trek1 (K2P2. 1)
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - POTASSIUM CHANNEL SUBFAMILY K MEMBER 2
    ChainsA, B
    EngineeredYES
    Expression SystemSPODOPTERA FRUGIPERDA
    Expression System CommonFALL ARMYWORM
    Expression System PlasmidPFB-CT10HF-LIC
    Expression System Taxid7108
    Expression System Vector TypeBACULOVIRUS
    FragmentUNP RESIDUES 26-300
    GeneKCNK2, TREK, TREK1
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymOUTWARD RECTIFYING POTASSIUM CHANNEL PROTEIN TREK-1,TREK-1 K(+) CHANNEL SUBUNIT,TWO PORE DOMAIN POTASSIUM CHANNEL TREK-1,TWO PORE POTASSIUM CHANNEL TPKC1

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 10)

Asymmetric/Biological Unit (4, 10)
No.NameCountTypeFull Name
137X5Ligand/IonOCTYL GLUCOSE NEOPENTYL GLYCOL
2K3Ligand/IonPOTASSIUM ION
3MG1Ligand/IonMAGNESIUM ION
4NAG1Ligand/IonN-ACETYL-D-GLUCOSAMINE

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWARETHR A:142 , THR A:251 , K B:403 , THR B:142 , THR B:251binding site for residue K A 401
02AC2SOFTWAREILE A:143 , GLY A:146 , HOH A:509 , PHE B:145binding site for residue K A 402
03AC3SOFTWARETRP A:295 , VAL A:298 , ILE A:299 , GLU A:302 , 37X A:406 , SER B:75binding site for residue 37X A 403
04AC4SOFTWARETHR A:79 , LYS A:191 , THR A:195binding site for residue 37X A 404
05AC5SOFTWAREASP A:179 , GLY A:182 , THR A:183 , GLY A:186 , ILE A:189 , SER A:210 , THR A:211binding site for residue 37X A 405
06AC6SOFTWAREMET A:291 , VAL A:298 , 37X A:403binding site for residue 37X A 406
07AC7SOFTWAREGLY A:113 , HIS A:126 , GLY A:260binding site for residue MG A 407
08AC8SOFTWARETHR A:142 , ILE A:143 , THR A:251 , ILE A:252 , K A:401 , THR B:142 , ILE B:143 , THR B:251 , ILE B:252binding site for residue K B 403
09AC9SOFTWAREGLN A:105 , ALA A:112 , ILE A:114 , ARG A:151 , GLN A:203 , GLN B:76 , GLN B:83 , LYS B:84binding site for residue 37X B 402
10AD1SOFTWAREASN B:95 , THR B:97binding site for Mono-Saccharide NAG B 401 bound to ASN B 95

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:93 -B:93

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Leu A:117 -Gly A:118

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4TWK)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4TWK)

(-) Exons   (0, 0)

(no "Exon" information available for 4TWK)

(-) 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:255
                                                                                                                                                                                                                                                                                               
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhh..............hhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhh...............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4twk A  38 TINVMKWKTVSTIFLVVVLYLIIGATVFKALEQPHEISQRTTIVIQKQTFISQHSCVNSTELDELIQQIVAAINAGIIPLGNTSNQISHWDLGSSFFFAGTVITTIGFGNISPRTEGGKIFCIIYALLGIPLFGFLLAGVGDQLGTIFGKGIAKVEDTFIKWNVSQTKIRIISTIIFILFGCVLFVALPGWSALDAIYFVVITLTTIGFGDYVAGGSDIKPVVWFWILVGLAYFAAVLSMIGDWLRVISAENLYF 306
                                    47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       235       245       255       271       281       291       301     
                                                                                                                                                                                                                      226|                          264|                                   
                                                                                                                                                                                                                       235                           271                                   

Chain B from PDB  Type:PROTEIN  Length:241
                                                                                                                                                                                                                                                                                 
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4twk B  42 MKWKTVSTIFLVVVLYLIIGATVFKALEQPHEISQRTTIVIQKQTFISQHSCVNSTELDELIQQIVAAINAGIIPISHWDLGSSFFFAGTVITTIGFGNISPRTEGGKIFCIIYALLGIPLFGFLLAGVGDQLGTIFGKGIAKVEDTFIKWNVSQTKIRIISTIIFILFGCVLFVALPAIIFKHIEGWSALDAIYFVVITLTTIGFGDYKPVVWFWILVGLAYFAAVLSMIGDWLRVISAE 302
                                    51        61        71        81        91       101       111    || 128       138       148       158       168       178       188       198       208       218       228       238       248       271       281       291       301 
                                                                                                    116|                                                                                                                                  257|                               
                                                                                                     124                                                                                                                                   271                               

   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  (0, 0)

(no "SCOP Domain" information available for 4TWK)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4TWK)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4TWK)

(-) Gene Ontology  (38, 38)

Asymmetric/Biological Unit(hide GO term definitions)

 Visualization

(-) Interactive Views

Asymmetric/Biological Unit
  Complete Structure
    Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
    WebMol | AstexViewer[tm]@PDBe
(Java Applets, require no local installation except for Java; loading may be slow)
    STRAP
(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    RasMol
(require local installation)
    Molscript (VRML)
(requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)
 
  Ligands, Modified Residues, Ions
    37X  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    K  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    MG  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    NAG  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
 
  Sites
    AC1  [ RasMol ]  +environment [ RasMol ]
    AC2  [ RasMol ]  +environment [ RasMol ]
    AC3  [ RasMol ]  +environment [ RasMol ]
    AC4  [ RasMol ]  +environment [ RasMol ]
    AC5  [ RasMol ]  +environment [ RasMol ]
    AC6  [ RasMol ]  +environment [ RasMol ]
    AC7  [ RasMol ]  +environment [ RasMol ]
    AC8  [ RasMol ]  +environment [ RasMol ]
    AC9  [ RasMol ]  +environment [ RasMol ]
    AD1  [ RasMol ]  +environment [ RasMol ]
 
  Cis Peptide Bonds
    Leu A:117 - Gly A:118   [ RasMol ]  
 

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
Molscript
  protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick

 Databases and Analysis Tools

(-) Databases

Access by PDB/NDB ID
  4twk
    Family and Domain InformationProDom | SYSTERS
    General Structural InformationGlycoscienceDB | MMDB | NDB | OCA | PDB | PDBe | PDBj | PDBsum | PDBWiki | PQS | PROTEOPEDIA
    Orientation in MembranesOPM
    Protein SurfaceSURFACE
    Secondary StructureDSSP (structure derived) | HSSP (homology derived)
    Structural GenomicsGeneCensus
    Structural NeighboursCE | VAST
    Structure ClassificationCATH | Dali | SCOP
    Validation and Original DataBMRB Data View | BMRB Restraints Grid | EDS | PROCHECK | RECOORD | WHAT_CHECK
 
Access by UniProt ID/Accession number
  KCNK2_HUMAN | O95069
    Comparative Protein Structure ModelsModBase
    Genomic InformationEnsembl
    Protein-protein InteractionDIP
    Sequence, Family and Domain InformationInterPro | Pfam | SMART | UniProtKB/SwissProt
 
Access by Enzyme Classificator   (EC Number)
  (no 'Enzyme Classificator' available)
    General Enzyme InformationBRENDA | EC-PDB | Enzyme | IntEnz
    PathwayKEGG | MetaCyc
 
Access by Disease Identifier   (MIM ID)
  (no 'MIM ID' available)
    Disease InformationOMIM
 
Access by GenAge ID
  (no 'GenAge ID' available)
    Age Related InformationGenAge

(-) Analysis Tools

Access by PDB/NDB ID
    Domain InformationXDom
    Interatomic Contacts of Structural UnitsCSU
    Ligand-protein ContactsLPC
    Protein CavitiescastP
    Sequence and Secondary StructurePDBCartoon
    Structure AlignmentSTRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    Structure and Sequence BrowserSTING
 
Access by UniProt ID/Accession number
  KCNK2_HUMAN | O95069
    Protein Disorder PredictionDisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

(no "Entries Sharing at Least One Protein Chain" available for 4TWK)

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 4TWK)