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(-) Description

Title :  X-RAY STRUCTURE OF DROSOPHILA DOPAMINE TRANSPORTER WITH SUBSITEB MUTATIONS D121G/S426M AND EL2 DELETION OF 162-201 IN COMPLEX WITH SUBSTRATE ANALOGUE 3,4 DICHLOROPHEN ETHYLAMINE
 
Authors :  P. Aravind, K. Wang, E. Gouaux
Date :  17 Jan 15  (Deposition) - 06 May 15  (Release) - 14 Oct 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.36
Chains :  Asym./Biol. Unit :  A,H,L
Keywords :  Integral Membrane Protein, All-Alpha Helical Antidepressant Complex, Transport Protein-Inhibitor Complex, Protein Transport-Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. H. Wang, A. Penmatsa, E. Gouaux
Neurotransmitter And Psychostimulant Recognition By The Dopamine Transporter.
Nature V. 521 322 2015
PubMed-ID: 25970245  |  Reference-DOI: 10.1038/NATURE14431

(-) Compounds

Molecule 1 - DOPAMINE TRANSPORTER
    Chains: A
    Engineered: YES
    Expression System: HOMO SAPIENS
    Expression System Cell Line: GNTI-HEK293S
    Expression System Taxid: 9606
    Gene: DAT, CG8380, DMEL_CG8380
    Mutation: YES
    Organism Common: FRUIT FLY
    Organism Scientific: DROSOPHILA MELANOGASTER
    Organism Taxid: 7227
    Synonym: DOPAMINE TRANSPORTER,ISOFORM A,GH22929P
 
Molecule 2 - ANTIBODY FRAGMENT LIGHT CHAIN
    Chains: L
    Engineered: YES
    Expression System: MUS MUSCULUS
    Expression System Cell Line: HYBRIDOMA
    Expression System Taxid: 10090
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
 
Molecule 3 - ANTIBODY FRAGMENT HEAVY CHAIN
    Chains: H
    Engineered: YES
    Expression System: MUS MUSCULUS
    Expression System Cell Line: HYBRIDOMA
    Expression System Taxid: 10090
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : AHL

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (7, 12)

Asymmetric/Biological Unit (7, 12)
No.NameCountTypeFull Name
142J1Ligand/Ion2-(3,4-DICHLOROPHENYL)ETHANAMINE
2CL1Ligand/IonCHLORIDE ION
3CLR1Ligand/IonCHOLESTEROL
4N9S5Ligand/Ion4-O-ALPHA-D-GLUCOPYRANOSYL-BETA-D-GLUCOPYRANOSE
5NA2Ligand/IonSODIUM ION
6NAG1Ligand/IonN-ACETYL-D-GLUCOSAMINE
7Y011Ligand/IonCHOLESTEROL HEMISUCCINATE

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREALA A:74 , ILE A:78 , TYR A:342 , GLY A:516 , TYR A:518 , TRP A:519binding site for residue Y01 A 601
02AC2SOFTWAREPHE A:43 , ASP A:46 , VAL A:120 , PHE A:319 , PHE A:325 , SER A:421 , GLY A:425binding site for residue 42J A 602
03AC3SOFTWAREHIS A:230 , GLY A:233binding site for residue N9S A 604
04AC4SOFTWAREGLU A:222 , LYS A:236binding site for residue N9S A 605
05AC5SOFTWAREARG A:133 , TYR A:219 , N9S A:607 , GLN L:157binding site for residue N9S A 606
06AC6SOFTWARETHR A:140 , ASN A:141 , N9S A:606binding site for residue N9S A 607
07AC7SOFTWAREASP A:312 , GLY A:480 , TYR A:481 , GLY A:538binding site for residue N9S A 608
08AC8SOFTWARELEU A:37 , LEU A:38 , LEU A:270 , LEU A:277 , ILE A:351binding site for residue CLR A 609
09AC9SOFTWARETYR A:69 , GLN A:316 , SER A:320 , SER A:356binding site for residue CL A 610
10AD1SOFTWAREALA A:44 , ASP A:46 , ASN A:49 , SER A:320 , ASN A:352binding site for residue NA A 611
11AD2SOFTWAREGLY A:42 , VAL A:45 , LEU A:417 , ASP A:420 , SER A:421binding site for residue NA A 612
12AD3SOFTWAREASN A:141binding site for Mono-Saccharide NAG A 603 bound to ASN A 141

(-) SS Bonds  (5, 5)

Asymmetric/Biological Unit
No.Residues
1A:148 -A:157
2H:22 -H:96
3H:146 -H:201
4L:23 -L:89
5L:135 -L:195

(-) Cis Peptide Bonds  (10, 10)

Asymmetric/Biological Unit
No.Residues
1Gly A:203 -His A:204
2His A:204 -Val A:205
3Val A:205 -Glu A:206
4Ser L:7 -Pro L:8
5Tyr L:95 -Pro L:96
6Tyr L:141 -Pro L:142
7Arg H:98 -Gly H:99
8Phe H:152 -Pro H:153
9Glu H:154 -Pro H:155
10Trp H:194 -Pro H:195

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4XPT)

(-) 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:535
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh................................hhhhhhhhhh..hhhhh.........hhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhh.hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhh..hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhh....ee..ee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4xpt A  25 DERETWSGKVDFLLSVIGFAVDLANVWRFPYLCYKNGGGAFLVPYGIMLAVGGIPLFYMELALGQHNRKGAITCWGRLVPLFKGIGYAVVLIAFYVGFYYNVIIAWSLRFFFASFTNSLPWTSCNNIWNTPNCRPFEVGHVEGFQSAASEYFNRYILELNRSEGIHDLGAIKWDMALCLLIVYLICYFSLWKGISTSGKVVWFTALFPYAVLLILLIRGLTLPGSFLGIQYYLTPNFSAIYKAEVWVDAATQVFFSLGPGFGVLLAYASYNKYHNNVYKDALLTSFINSATSFIAGFVIFSVLGYMAHTLGVRIEDVATEGPGLVFVVYPAAIATMPASTFWALIFFMMLATLGLDSSFGGMEAIITALSDEFPKIKRNRELFVAGLFSLYFVVGLASCTQGGFYFFHLLDRYAAGYSILVAVFFEAIAVSWIYGTNRFSEDIRDMIGFPPGRYWQVCWRFVAPIFLLFITVYGLIGYEPLTYADYVYPSWANALGWCIAGSSVVMIPAVAIFKLLSTPGSLRQRFTILTTPWRD 599
                                    34        44        54        64        74        84        94       104       114       124       134       144       154      |204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484       494       504       514       524       534       544       554       564       574       584       594     
                                                                                                                                                                  161|                                                                                                                                                                                                                                                                                                                                                                                                             
                                                                                                                                                                   202                                                                                                                                                                                                                                                                                                                                                                                                             


Chain H from PDB  Type:PROTEIN  Length:219
                                                                                                                                                                                                                                                           
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee...ee......eeeeeee..hhhhh.eeeeee.....eeeeeee......eee........eeeee....eeeee....hhhhheeeeeee.........ee...eeeee........eeeee..........eeeeeeeeeee.....eeee........eee...ee....eeeeeeeeee.........eeeeee....eeeeee.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4xpt H   1 EVQLVESGGGLVKPGGSLKLSCAASGFTFSSYAMSWVRQSPEKRLEWVAEISSGGRYIYYSDTVTGRFTISRDNARNILHLEMSSLRSEDTAMYYCARGEVRQRGFDYWGQGTTLTVSSAKTTAPSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVTSSTWPSQSITCNVAHPASSTKVDKKIEPR 219
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210         


Chain L from PDB  Type:PROTEIN  Length:214
                                                                                                                                                                                                                                                      
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eeee.....eeeeeeeeeee....eeeeee.....eeeee.............eeeeeeeeeeeeee...hhhhh.eeeeee......ee...eeeee.......eeeee..hhhhhh..eeeeeeeeeee...................eeeee.........eeeeeeeeeehhhhhh...eeeee........eeeee.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4xpt L   1 ENVLTQSPAIMSTSPGEKVTMTCRASSSVGSSYLHWYQQKSGASPKLWIYSTSNLASGVPARFSGSGSGTSYSLTISSVEAEDAATYYCQQFSGYPLTFGSGTKLEMKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNE 214
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210
   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 4XPT)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (22, 22)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Arg H:98 - Gly H:99   [ RasMol ]  
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    Gly A:203 - His A:204   [ RasMol ]  
    His A:204 - Val A:205   [ RasMol ]  
    Phe H:152 - Pro H:153   [ RasMol ]  
    Ser L:7 - Pro L:8   [ RasMol ]  
    Trp H:194 - Pro H:195   [ RasMol ]  
    Tyr L:141 - Pro L:142   [ RasMol ]  
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    Val A:205 - Glu A:206   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/Swiss-Prot
        DAT_DROME | Q7K4Y6: 4m48 4xnu 4xnx 4xp1 4xp4 4xp5 4xp6 4xp9 4xpa 4xpb 4xpf 4xpg 4xph

(-) Related Entries Specified in the PDB File

4m48 4xnu 4xnx 4xp1 4xp4 4xp5 4xp6 4xp9 4xpa 4xpb 4xpf 4xpg 4xph