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(-) Description

Title :  GAMMA-AMINOBUTYRIC ACID AMINOTRANSFERASE INACTIVATED BY (1S,3S)-3-AMINO-4-DIFLUOROMETHYLENYL-1-CYCLOPENTANOIC ACID (CPP-115)
 
Authors :  W. Rui, S. Ruslan, L. Hyunbeom, H. D. Emma, I. J. Jose, K. Neil, B. S. Richa
Date :  06 Feb 15  (Deposition) - 11 Mar 15  (Release) - 11 Mar 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.63
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  Gaba-At, Inactivator, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. Hyunbeom, H. D. Emma, W. Rui, S. Ruslan, I. J. Jose, L. Dali, K. Neil, B. S. Richard
Mechanism Of Inactivation Of Gamma-Aminobutyric Acid Aminotransferase By (1S, 3S)-3-Amino-4-Difluoromethylenyl-1-Cyclopentanoic Acid (Cpp-115)
J. Am. Chem. Soc. 2015
PubMed-ID: 25616005  |  Reference-DOI: 10.1021/JA512299N

(-) Compounds

Molecule 1 - 4-AMINOBUTYRATE AMINOTRANSFERASE, MITOCHONDRIAL
    Chains: A, B, C, D
    EC Number: 2.6.1.19, 2.6.1.22
    Engineered: YES
    Expression System: SUS SCROFA
    Expression System Taxid: 9823
    Gene: ABAT, GABAT
    Organism Common: PIG
    Organism Scientific: SUS SCROFA
    Organism Taxid: 9823
    Synonym: (S)-3-AMINO-2-METHYLPROPIONATE TRANSAMINASE,GABA AMINOTRANSFERASE,GABA-AT,GAMMA-AMINO-N-BUTYRATE TRANSAMINASE,GABA-T, L-AIBAT

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): AB  
Biological Unit 2 (1x):   CD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 8)

Asymmetric Unit (3, 8)
No.NameCountTypeFull Name
1FES2Ligand/IonFE2/S2 (INORGANIC) CLUSTER
2GOL2Ligand/IonGLYCEROL
3PLP4Ligand/IonPYRIDOXAL-5'-PHOSPHATE
Biological Unit 1 (3, 4)
No.NameCountTypeFull Name
1FES1Ligand/IonFE2/S2 (INORGANIC) CLUSTER
2GOL1Ligand/IonGLYCEROL
3PLP2Ligand/IonPYRIDOXAL-5'-PHOSPHATE
Biological Unit 2 (3, 4)
No.NameCountTypeFull Name
1FES1Ligand/IonFE2/S2 (INORGANIC) CLUSTER
2GOL1Ligand/IonGLYCEROL
3PLP2Ligand/IonPYRIDOXAL-5'-PHOSPHATE

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREALA A:134 , CYS A:135 , CYS A:138 , ALA B:134 , CYS B:135 , CYS B:138binding site for residue FES A 501
2AC2SOFTWARECYS A:135 , GLY A:136 , SER A:137 , PHE A:189 , HIS A:190 , GLU A:265 , ASP A:298 , VAL A:300 , GLN A:301 , LYS A:329 , HOH A:775 , THR B:353binding site for residue PLP A 502
3AC3SOFTWARELYS B:125 , HIS B:313 , GLU B:314 , TRP B:316 , GLY B:317 , LEU B:318 , PRO B:321 , HOH B:658binding site for residue GOL B 501
4AC4SOFTWAREALA C:134 , CYS C:135 , CYS C:138 , ALA D:134 , CYS D:135 , CYS D:138binding site for residue FES C 501
5AC5SOFTWAREASP C:278 , ARG C:282 , HIS C:315 , HOH C:605 , HOH C:663binding site for residue GOL C 502
6AC6SOFTWARETHR A:353 , TRP A:354 , ILE B:72 , SER B:73 , SER B:74 , CYS B:135 , GLY B:136 , SER B:137 , PHE B:189 , HIS B:190 , GLU B:265 , ASP B:298 , VAL B:300 , GLN B:301 , SER B:328 , LYS B:330 , MET B:331 , MET B:332 , HOH B:623binding site for Di-peptide PLP B 502 and LYS B 329
7AC7SOFTWAREILE C:72 , SER C:73 , SER C:74 , CYS C:135 , GLY C:136 , SER C:137 , PHE C:189 , HIS C:190 , GLU C:265 , ASP C:298 , VAL C:300 , GLN C:301 , SER C:328 , LYS C:330 , MET C:331 , MET C:332 , HOH C:721 , HOH C:738 , HOH C:777 , THR D:353 , TRP D:354binding site for Di-peptide PLP C 503 and LYS C 329
8AC8SOFTWARETHR C:353 , TRP C:354 , ILE D:72 , SER D:73 , SER D:74 , CYS D:135 , GLY D:136 , SER D:137 , PHE D:189 , HIS D:190 , GLU D:265 , ASP D:298 , VAL D:300 , GLN D:301 , SER D:328 , LYS D:330 , MET D:331 , MET D:332 , HOH D:808binding site for Di-peptide PLP D 501 and LYS D 329

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4Y0H)

(-) Cis Peptide Bonds  (14, 14)

Asymmetric Unit
No.Residues
1Val A:22 -Pro A:23
2Gly A:157 -Glu A:158
3Ala A:174 -Pro A:175
4Tyr A:225 -Pro A:226
5Val B:22 -Pro B:23
6Ala B:174 -Pro B:175
7Tyr B:225 -Pro B:226
8Val C:22 -Pro C:23
9Ala C:174 -Pro C:175
10Tyr C:225 -Pro C:226
11Gly D:10 -Phe D:11
12Val D:22 -Pro D:23
13Ala D:174 -Pro D:175
14Tyr D:225 -Pro D:226

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4Y0H)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4Y0H)

(-) Exons   (0, 0)

(no "Exon" information available for 4Y0H)

(-) 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:461
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............hhhhhhhhhhhhhhh.........hhhhh...eee.....eeee.hhhhhh......hhhhhhhhhh..hhhhhhh..........hhhhhhhhhhhhhh.....eeeee.hhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhh..........eeeee.......hhhhhhhh..hhhhhh........ee.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeee............hhhhhhhhhhhhhhh..eeeee............hhhhhhh......eeeehhhhh.eeeee.hhhh.............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeeee..eeeee..hhhhhhhhhhhhhhh.ee.eee...eee.......hhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4y0h A  11 FDYDGPLMKTEVPGPRSRELMKQLNIIQNAEAVHFFCNYEESRGNYLVDVDGNRMLDLYSQISSIPIGYSHPALVKLVQQPQNVSTFINRPALGILPPENFVEKLRESLLSVAPKGMSQLITMACGSCSNENAFKTIFMWYRSKERGESAFSKEELETCMINQAPGCPDYSILSFMGAFHGRTMGCLATTHSKAIHKIDIPSFDWPIAPFPRLKYPLEEFVKENQQEEARCLEEVEDLIVKYRKKKKTVAGIIVEPIQSEGGDNHASDDFFRKLRDISRKHGCAFLVDEVQTGGGSTGKFWAHEHWGLDDPADVMTFSKKMMTGGFFHKEEFRPNAPYRIFNTWLGDPSKNLLLAEVINIIKREDLLSNAAHAGKVLLTGLLDLQARYPQFISRVRGRGTFCSFDTPDESIRNKLISIARNKGVMLGGCGDKSIRFRPTLVFRDHHAHLFLNIFSDILADF 471
                                    20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470 


Chain B from PDB  Type:PROTEIN  Length:462
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .............hhhhhhhhhhhhhhh.........hhhhh...eee.....eeee.hhhhhh......hhhhhhhhhh..hhhhhhh..........hhhhhhhhhhhhhh.....eeeee.hhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhh..........eeeee.......hhhhhhh...hhhhhh........ee.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeee............hhhhhhhhhhhhhhhh.eeeee............hhhhhhh......eeeehhhhh.eeeee.hhhh.............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeeee..eeeee..hhhhhhhhhhhhhhh.ee.eee...eee.......hhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4y0h B  11 FDYDGPLMKTEVPGPRSRELMKQLNIIQNAEAVHFFCNYEESRGNYLVDVDGNRMLDLYSQISSIPIGYSHPALVKLVQQPQNVSTFINRPALGILPPENFVEKLRESLLSVAPKGMSQLITMACGSCSNENAFKTIFMWYRSKERGESAFSKEELETCMINQAPGCPDYSILSFMGAFHGRTMGCLATTHSKAIHKIDIPSFDWPIAPFPRLKYPLEEFVKENQQEEARCLEEVEDLIVKYRKKKKTVAGIIVEPIQSEGGDNHASDDFFRKLRDISRKHGCAFLVDEVQTGGGSTGKFWAHEHWGLDDPADVMTFSKKMMTGGFFHKEEFRPNAPYRIFNTWLGDPSKNLLLAEVINIIKREDLLSNAAHAGKVLLTGLLDLQARYPQFISRVRGRGTFCSFDTPDESIRNKLISIARNKGVMLGGCGDKSIRFRPTLVFRDHHAHLFLNIFSDILADFK 472
                                    20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470  


Chain C from PDB  Type:PROTEIN  Length:462
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .............hhhhhhhhhhhhh...........hhhhh...eee.....eeee.hhhhhh......hhhhhhhhhh..hhhhhhh..........hhhhhhhhhhhhhh.....eeeee.hhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhh..........eeeee.......hhhhhhhh..hhhhhh........ee.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeee............hhhhhhhhhhhhhhhh.eeeee............hhhhhhh......eeeehhhhh.eeeee.hhhh.............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeeee..eeeee..hhhhhhhhhhhhhhh.ee.eee...eeee......hhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4y0h C  11 FDYDGPLMKTEVPGPRSRELMKQLNIIQNAEAVHFFCNYEESRGNYLVDVDGNRMLDLYSQISSIPIGYSHPALVKLVQQPQNVSTFINRPALGILPPENFVEKLRESLLSVAPKGMSQLITMACGSCSNENAFKTIFMWYRSKERGESAFSKEELETCMINQAPGCPDYSILSFMGAFHGRTMGCLATTHSKAIHKIDIPSFDWPIAPFPRLKYPLEEFVKENQQEEARCLEEVEDLIVKYRKKKKTVAGIIVEPIQSEGGDNHASDDFFRKLRDISRKHGCAFLVDEVQTGGGSTGKFWAHEHWGLDDPADVMTFSKKMMTGGFFHKEEFRPNAPYRIFNTWLGDPSKNLLLAEVINIIKREDLLSNAAHAGKVLLTGLLDLQARYPQFISRVRGRGTFCSFDTPDESIRNKLISIARNKGVMLGGCGDKSIRFRPTLVFRDHHAHLFLNIFSDILADFK 472
                                    20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470  


Chain D from PDB  Type:PROTEIN  Length:463
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..............hhhhhhhhhhhhhhh.........hhhhh...eee.....eeee.hhhhhh......hhhhhhhhhh..hhhhhhh..........hhhhhhhhhhhhhh.....eeeee.hhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhh.........eeeee.......hhhhhhhh..hhhhhh........ee.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeee............hhhhhhhhhhhhhhh..eeeee............hhhhhhh......eeeehhhhh.eeeee.hhhh.............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeeee..eeeee..hhhhhhhhhhhhhhh.ee.eee...eeee......hhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4y0h D  10 GFDYDGPLMKTEVPGPRSRELMKQLNIIQNAEAVHFFCNYEESRGNYLVDVDGNRMLDLYSQISSIPIGYSHPALVKLVQQPQNVSTFINRPALGILPPENFVEKLRESLLSVAPKGMSQLITMACGSCSNENAFKTIFMWYRSKERGESAFSKEELETCMINQAPGCPDYSILSFMGAFHGRTMGCLATTHSKAIHKIDIPSFDWPIAPFPRLKYPLEEFVKENQQEEARCLEEVEDLIVKYRKKKKTVAGIIVEPIQSEGGDNHASDDFFRKLRDISRKHGCAFLVDEVQTGGGSTGKFWAHEHWGLDDPADVMTFSKKMMTGGFFHKEEFRPNAPYRIFNTWLGDPSKNLLLAEVINIIKREDLLSNAAHAGKVLLTGLLDLQARYPQFISRVRGRGTFCSFDTPDESIRNKLISIARNKGVMLGGCGDKSIRFRPTLVFRDHHAHLFLNIFSDILADFK 472
                                    19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429       439       449       459       469
   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 4Y0H)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4Y0H)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4Y0H)

(-) Gene Ontology  (19, 19)

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        GABT_PIG | P80147: 1ohv 1ohw 1ohy 4y0d 4y0i 4zsw 4zsy

(-) Related Entries Specified in the PDB File

4y0d