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(-) Description

Title :  CRYSTAL STRUCTURE OF LEUBAT (DELTA6 MUTANT) IN COMPLEX WITH MAZINDOL
 
Authors :  H. Wang, E. Gouaux
Date :  08 Sep 13  (Deposition) - 16 Oct 13  (Release) - 20 Nov 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  A,B  (1x)
Keywords :  Transporter, Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Wang, A. Goehring, K. H. Wang, A. Penmatsa, R. Ressler, E. Gouaux
Structural Basis For Action By Diverse Antidepressants On Biogenic Amine Transporters.
Nature V. 503 141 2013
PubMed-ID: 24121440  |  Reference-DOI: 10.1038/NATURE12648

(-) Compounds

Molecule 1 - TRANSPORTER
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: SNF, AQ_2077
    Mutation: YES
    Organism Scientific: AQUIFEX AEOLICUS
    Organism Taxid: 224324
    Strain: VF5

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B
Biological Unit 3 (1x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 11)

Asymmetric Unit (3, 11)
No.NameCountTypeFull Name
129Q2Ligand/Ion(5R)-5-(4-CHLOROPHENYL)-2,5-DIHYDRO-3H-IMIDAZO[2,1-A]ISOINDOL-5-OL
2BOG5Ligand/IonB-OCTYLGLUCOSIDE
3NA4Ligand/IonSODIUM ION
Biological Unit 1 (2, 4)
No.NameCountTypeFull Name
129Q1Ligand/Ion(5R)-5-(4-CHLOROPHENYL)-2,5-DIHYDRO-3H-IMIDAZO[2,1-A]ISOINDOL-5-OL
2BOG3Ligand/IonB-OCTYLGLUCOSIDE
3NA-1Ligand/IonSODIUM ION
Biological Unit 2 (2, 3)
No.NameCountTypeFull Name
129Q1Ligand/Ion(5R)-5-(4-CHLOROPHENYL)-2,5-DIHYDRO-3H-IMIDAZO[2,1-A]ISOINDOL-5-OL
2BOG2Ligand/IonB-OCTYLGLUCOSIDE
3NA-1Ligand/IonSODIUM ION
Biological Unit 3 (2, 7)
No.NameCountTypeFull Name
129Q2Ligand/Ion(5R)-5-(4-CHLOROPHENYL)-2,5-DIHYDRO-3H-IMIDAZO[2,1-A]ISOINDOL-5-OL
2BOG5Ligand/IonB-OCTYLGLUCOSIDE
3NA-1Ligand/IonSODIUM ION

(-) Sites  (11, 11)

Asymmetric Unit (11, 11)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLY A:20 , VAL A:23 , ALA A:351 , THR A:354 , SER A:355BINDING SITE FOR RESIDUE NA A 601
02AC2SOFTWAREALA A:22 , ASN A:27 , SER A:254 , ASN A:286 , HOH A:713BINDING SITE FOR RESIDUE NA A 602
03AC3SOFTWARETYR A:21 , ALA A:22 , ASP A:24 , PRO A:101 , VAL A:104 , ALA A:105 , TYR A:108 , PHE A:253 , GLY A:256 , PHE A:259 , SER A:355 , GLY A:359BINDING SITE FOR RESIDUE 29Q A 603
04AC4SOFTWARELYS A:163 , PHE A:395 , HOH A:744 , TRP B:484 , PHE B:488 , BOG B:604BINDING SITE FOR RESIDUE BOG A 604
05AC5SOFTWARELYS A:163 , PRO A:164 , TYR A:169 , HIS A:391 , PHE A:395 , HOH A:729BINDING SITE FOR RESIDUE BOG A 605
06AC6SOFTWAREPHE A:320 , ASN A:397 , LYS A:398 , HOH A:733BINDING SITE FOR RESIDUE BOG A 606
07AC7SOFTWAREGLY B:20 , VAL B:23 , ALA B:351 , THR B:354 , SER B:355BINDING SITE FOR RESIDUE NA B 601
08AC8SOFTWAREALA B:22 , ASN B:27 , SER B:254 , ASN B:286 , HOH B:768BINDING SITE FOR RESIDUE NA B 602
09AC9SOFTWARETYR B:21 , ALA B:22 , ASP B:24 , PRO B:101 , VAL B:104 , TYR B:108 , PHE B:253 , GLY B:256 , PHE B:259 , SER B:355 , GLY B:359 , HOH B:767BINDING SITE FOR RESIDUE 29Q B 603
10BC1SOFTWAREILE A:161 , BOG A:604 , MET B:476 , GLU B:477 , THR B:479 , TRP B:484 , HOH B:727BINDING SITE FOR RESIDUE BOG B 604
11BC2SOFTWAREPHE B:320 , ASN B:397 , LYS B:398 , ASP B:401BINDING SITE FOR RESIDUE BOG B 605

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4MME)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Pro A:130 -Pro A:131
2Pro B:130 -Pro B:131

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4MME)

(-) 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:504
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains d4mmea_ A: Na(+):neurotransmitter symporter homologue LeuT                                                                                                                                                                                                                                                                                                                                                                                                                                                               SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhh...........hhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhh.ee..eehhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh....hhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhh.hhhhhhhhhhhhhhhhh..hhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4mme A   5 REHWATRLGLILAMAGYAVDLGNFLRFPVQAAENGGGAFMIPYIIAFLLVGIPLMWIEWAMGRYGGAQGHGTTPAIFYLLWRNRFAKILGVFGLWIPLVVAIYYVYIESWTLGFAIKFLVGLVPEPPTDPDSILRPFKEFLYSYIGVPKGDEPILKPSLFAYIVFLITMFINVSILIRGISKGIERFAKIAMPTLFILAVFLVIRVFLLETPNGTAADGLNFLWTPDFEKLKDPGVWIAAVGQIFFSLGLGFGAIITFASYVRKDQDIVLSGLTAATLNEKAEVILGGSISIPAAVAFFGVANAVAIAKAGAFNLGFITLPAIFSQTAGGTFLGFLWFFLLFFAGLTSSIAGMQPMIAFLEDELKLSRKHAVLWTAAIVFFSAHLVMFLNKSLDEMDFWAGTIGVVFFGLTELIIFFWIFGADKAWEEINRGGIIKVPRIYYYVMRYITPAFLAVLLVVWAREYIPKIMEETHWTVWITRFYIIGLFLFLTFLVFLAERRRNHE 511
                                    14        24        34        44        54        64        74        84        94       104       114       124      |137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427       437       447       457       467       477       487       497       507    
                                                                                                                                                        131|                                                                                                                                                                                                                                                                                                                                                                                        
                                                                                                                                                         135                                                                                                                                                                                                                                                                                                                                                                                        


Chain B from PDB  Type:PROTEIN  Length:504
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains d4mmeb_ B: Na(+):neurotransmitter symporter homologue LeuT                                                                                                                                                                                                                                                                                                                                                                                                                                                               SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhh...........hhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhh.ee..eehhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh....hhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhh.hhhhhhhhhhhhhhhhh..hhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4mme B   5 REHWATRLGLILAMAGYAVDLGNFLRFPVQAAENGGGAFMIPYIIAFLLVGIPLMWIEWAMGRYGGAQGHGTTPAIFYLLWRNRFAKILGVFGLWIPLVVAIYYVYIESWTLGFAIKFLVGLVPEPPTDPDSILRPFKEFLYSYIGVPKGDEPILKPSLFAYIVFLITMFINVSILIRGISKGIERFAKIAMPTLFILAVFLVIRVFLLETPNGTAADGLNFLWTPDFEKLKDPGVWIAAVGQIFFSLGLGFGAIITFASYVRKDQDIVLSGLTAATLNEKAEVILGGSISIPAAVAFFGVANAVAIAKAGAFNLGFITLPAIFSQTAGGTFLGFLWFFLLFFAGLTSSIAGMQPMIAFLEDELKLSRKHAVLWTAAIVFFSAHLVMFLNKSLDEMDFWAGTIGVVFFGLTELIIFFWIFGADKAWEEINRGGIIKVPRIYYYVMRYITPAFLAVLLVVWAREYIPKIMEETHWTVWITRFYIIGLFLFLTFLVFLAERRRNHE 511
                                    14        24        34        44        54        64        74        84        94       104       114       124      |137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427       437       447       457       467       477       487       497       507    
                                                                                                                                                        131|                                                                                                                                                                                                                                                                                                                                                                                        
                                                                                                                                                         135
   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
(-)
Class: Membrane and cell surface proteins and peptides (2046)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (9, 9)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/TrEMBL
        O67854_AQUAE | O67854: 2a65 2q6h 2q72 2qb4 2qei 2qju 3f3a 3f3c 3f3d 3f3e 3f48 3f4i 3f4j 3gjc 3gjd 3gwu 3gwv 3gww 3mpn 3mpq 3qs4 3qs5 3qs6 3tt1 3tt3 3tu0 3usg 3usi 3usj 3usk 3usl 3usm 3uso 3usp 4fxz 4fy0 4hmk 4hod 4mm4 4mm5 4mm6 4mm7 4mm8 4mm9 4mma 4mmb 4mmc 4mmd 4mmf 5jae 5jaf 5jag

(-) Related Entries Specified in the PDB File

4mm4 4mm5 4mm6 4mm7 4mm8 4mm9 4mma 4mmb 4mmc 4mmd 4mmf