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(-) Description

Title :  X-RAY STRUCTURE OF DROSOPHILA DOPAMINE TRANSPORTER BOUND TO PSYCHOSTIMULANT D-AMPHETAMINE
 
Authors :  P. Aravind, K. Wang, E. Gouaux
Date :  16 Jan 15  (Deposition) - 06 May 15  (Release) - 25 Nov 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.80
Chains :  Asym./Biol. Unit :  C,H,L
Keywords :  Integral Membrane Protein, All-Alpha Helical Antidepressant Complex, Membrane Protein, Protein Transport, Transport Protein-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 - TRANSPORTER
    Chains: C
    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
 
Molecule 2 - ANTIBODY FRAGMENT HEAVY CHAIN-PROTEIN, 9D5-HEAVY CHAIN
    Chains: L
    Engineered: YES
    Expression System: MUS MUSCULUS
    Expression System Taxid: 10090
    Organism Common: MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
 
Molecule 3 - ANTIBODY FRAGMENT LIGHT CHAIN-PROTEIN, 9D5-LIGHT CHAIN
    Chains: H
    Engineered: YES
    Expression System: MUS MUSCULUS
    Expression System Taxid: 10090
    Organism Common: MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : CHL

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (9, 11)

Asymmetric/Biological Unit (9, 11)
No.NameCountTypeFull Name
11WE1Ligand/Ion(2S)-1-PHENYLPROPAN-2-AMINE
2CL1Ligand/IonCHLORIDE ION
3CLR1Ligand/IonCHOLESTEROL
4MAL1Ligand/IonMALTOSE
5MPO1Ligand/Ion3[N-MORPHOLINO]PROPANE SULFONIC ACID
6NA2Ligand/IonSODIUM ION
7NAG1Ligand/IonN-ACETYL-D-GLUCOSAMINE
8P4G2Ligand/Ion1-ETHOXY-2-(2-ETHOXYETHOXY)ETHANE
9Y011Ligand/IonCHOLESTEROL HEMISUCCINATE

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWARETYR C:342 , PHE C:350 , GLY C:516 , TYR C:518 , TRP C:519binding site for residue Y01 C 701
02AC2SOFTWAREARG C:133 , ALA C:137 , PRO C:144 , TYR C:219binding site for residue MAL C 703
03AC3SOFTWAREGLU C:222binding site for residue MPO C 704
04AC4SOFTWAREVAL C:34 , LEU C:37 , LEU C:270 , TYR C:273 , ILE C:351binding site for residue CLR C 705
05AC5SOFTWAREPHE C:43 , ALA C:44 , ASP C:46 , PHE C:319 , SER C:320 , LEU C:321 , GLY C:322 , PHE C:325 , HOH C:805binding site for residue 1WE C 706
06AC6SOFTWAREPHE C:577binding site for residue P4G C 707
07AC7SOFTWAREALA C:44 , ASN C:49 , SER C:320 , ASN C:352 , HOH C:805binding site for residue NA C 709
08AC8SOFTWAREGLY C:42 , VAL C:45 , LEU C:417 , ASP C:420 , SER C:421binding site for residue NA C 710
09AC9SOFTWARETYR C:69 , GLN C:316 , SER C:320 , SER C:356binding site for residue CL C 711
10AD1SOFTWARETHR C:140 , ASN C:141binding site for Mono-Saccharide NAG C 702 bound to ASN C 141

(-) SS Bonds  (5, 5)

Asymmetric/Biological Unit
No.Residues
1C:148 -C: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
1Asp C:25 -Glu C:26
2Ser L:7 -Pro L:8
3Tyr L:95 -Pro L:96
4Tyr L:141 -Pro L:142
5Gly H:135 -Asp H:136
6Thr H:137 -Thr H:138
7Thr H:138 -Gly H:139
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 4XP9)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4XP9)

(-) Exons   (0, 0)

(no "Exon" information available for 4XP9)

(-) 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 C from PDB  Type:PROTEIN  Length:537
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhh.....................hhhhhhhhhh..hhhhh.........hhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh....hhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhh..hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhh....ee..ee.hhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhh.hhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4xp9 C  25 DERETWSGKVDFLLSVIGFAVDLANVWRFPYLCYKNGGGAFLVPYGIMLAVGGIPLFYMELALGQHNRKGAITCWGRLVPLFKGIGYAVVLIAFYVDFYYNVIIAWSLRFFFASFTNSLPWTSCNNIWNTPNCRPFEGHVEGFQSAASEYFNRYILELNRSEGIHDLGAIKWDMALCLLIVYLICYFSLWKGISTSGKVVWFTALFPYAVLLILLIRGLTLPGSFLGIQYYLTPNFSAIYKAEVWVDAATQVFFSLGPGFGVLLAYASYNKYHNNVYKDALLTSFINSATSFIAGFVIFSVLGYMAHTLGVRIEDVATEGPGLVFVVYPAAIATMPASTFWALIFFMMLATLGLDSSFGGSEAIITALSDEFPKIKRNRELFVAGLFSLYFVVGLASCTQGGFYFFHLLDRYAAGYSILVAVFFEAIAVSWIYGTNRFSEDIRDMIGFPPGRYWQVCWRFVAPIFLLFITVYGLIGYEPLTYADYVYPSWANALGWCIAGSSVVMIPAVAIFKLLSTPGSLRQRFTILTTPWRDQQL 602
                                    34        44        54        64        74        84        94       104       114       124       134       144       154      |205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485       495       505       515       525       535       545       555       565       575       585       595       
                                                                                                                                                                  161|                                                                                                                                                                                                                                                                                                                                                                                                               
                                                                                                                                                                   203                                                                                                                                                                                                                                                                                                                                                                                                               


Chain H from PDB  Type:PROTEIN  Length:219
                                                                                                                                                                                                                                                           
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....ee...ee......eeeee....hhhhh.eeeeee.....eeeeeee......eee........eeeee....eeeee....hhhhheeeeeee.........ee...eeeee........eeeee..........eeeeeeeeeee.....eeee.hhh....eeeeeeee....eeeeeeeeee.........eeeeeehhhheeeeee.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4xp9 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:213
                                                                                                                                                                                                                                                     
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eeee.....eeeeeee....hhh.eeeeee......eeeee...ee.......eeeeee..eeeeee...hhhhh.eeeeee......ee...eeeee.......eeeee..hhhhhh..eeeeeeeeeee....eeeeeee..eee...eeeee.........eeeeeeeeeehhhhhh..eeeeeeee..eeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4xp9 L   1 ENVLTQSPAIMSTSPGEKVTMTCRASSSVGSSYLHWYQQKSGASPKLWIYSTSNLASGVPARFSGSGSGTSYSLTISSVEAEDAATYYCQQFSGYPLTFGSGTKLEMKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIEGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRN 213
                                    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 4XP9)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4XP9)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4XP9)

(-) Gene Ontology  (22, 22)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Asp C:25 - Glu C:26   [ RasMol ]  
    Glu H:154 - Pro H:155   [ RasMol ]  
    Gly H:135 - Asp H:136   [ RasMol ]  
    Phe H:152 - Pro H:153   [ RasMol ]  
    Ser L:7 - Pro L:8   [ RasMol ]  
    Thr H:137 - Thr H:138   [ RasMol ]  
    Thr H:138 - Gly H:139   [ RasMol ]  
    Trp H:194 - Pro H:195   [ RasMol ]  
    Tyr L:141 - Pro L:142   [ RasMol ]  
    Tyr L:95 - Pro L:96   [ 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 4xpa 4xpb 4xpf 4xpg 4xph 4xpt

(-) Related Entries Specified in the PDB File

4xnx 4xp1 4xp4 4xp5 4xp6 4xpa 4xpb 4xpf 4xpg 4xph 4xpt