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(-) Description

Title :  CRYSTAL STRUCTURE OF ESCHERICHIA COLI GADB (NEUTRAL PH)
 
Authors :  G. Capitani, D. De Biase, C. Aurizi, H. Gut, F. Bossa, M. G. Grutter
Date :  11 Jun 03  (Deposition) - 17 Feb 04  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym./Biol. Unit :  A,B,C,D,E,F
Keywords :  Neutral-Ph Form Of Gadb, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  G. Capitani, D. De Biase, C. Aurizi, H. Gut, F. Bossa, M. G. Grutter
Crystal Structure And Functional Analysis Of Escherichia Coli Glutamate Decarboxylase
Embo J. V. 22 4027 2003
PubMed-ID: 12912902  |  Reference-DOI: 10.1093/EMBOJ/CDG403
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - GLUTAMATE DECARBOXYLASE BETA
    Chains: A, B, C, D, E, F
    EC Number: 4.1.1.15
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PQE60
    Expression System Strain: JM109
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: GADB
    Gene: GADB
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562
    Synonym: GAD-BETA

 Structural Features

(-) Chains, Units

  123456
Asymmetric/Biological Unit : ABCDEF

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 24)

Asymmetric/Biological Unit (2, 24)
No.NameCountTypeFull Name
1PLR6Ligand/Ion(5-HYDROXY-4,6-DIMETHYLPYRIDIN-3-YL)METHYL DIHYDROGENPHOSPHATE
2TRS18Ligand/Ion2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL

(-) Sites  (24, 24)

Asymmetric Unit (24, 24)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLY A:125 , SER A:126 , SER A:127 , GLN A:163 , THR A:212 , ASP A:243 , ALA A:245 , HIS A:275 , LYS A:276 , HIS A:465 , THR A:466 , HOH A:3266 , HOH A:3314 , HOH A:3427 , PHE B:317 , SER B:318BINDING SITE FOR RESIDUE PLR A 1500
02AC2SOFTWAREPHE A:317 , SER A:318 , HOH A:3307 , GLY B:125 , SER B:126 , SER B:127 , GLN B:163 , THR B:212 , ASP B:243 , ALA B:245 , SER B:273 , HIS B:275 , LYS B:276 , HIS B:465 , HOH B:3316 , HOH B:3425BINDING SITE FOR RESIDUE PLR B 1501
03AC3SOFTWAREGLY C:125 , SER C:126 , SER C:127 , GLN C:163 , THR C:208 , THR C:212 , ASP C:243 , ALA C:245 , SER C:273 , HIS C:275 , LYS C:276 , HIS C:465 , THR C:466 , HOH C:3317 , HOH C:3326 , PHE D:317 , SER D:318 , HOH D:3310BINDING SITE FOR RESIDUE PLR C 1502
04AC4SOFTWAREPHE C:317 , SER C:318 , HOH C:3364 , GLY D:125 , SER D:126 , SER D:127 , GLN D:163 , THR D:212 , ASP D:243 , ALA D:245 , SER D:273 , HIS D:275 , LYS D:276 , HIS D:465 , THR D:466 , HOH D:3328 , HOH D:3422BINDING SITE FOR RESIDUE PLR D 1503
05AC5SOFTWARESER E:126 , SER E:127 , GLN E:163 , THR E:212 , ASP E:243 , ALA E:245 , SER E:273 , HIS E:275 , LYS E:276 , HIS E:465 , THR E:466 , HOH E:3315 , HOH E:3319 , PHE F:317 , SER F:318 , HOH F:3295BINDING SITE FOR RESIDUE PLR E 1504
06AC6SOFTWAREPHE E:317 , SER E:318 , GLY F:125 , SER F:126 , SER F:127 , GLN F:163 , THR F:212 , ASP F:243 , ALA F:245 , SER F:273 , HIS F:275 , LYS F:276 , HIS F:465 , THR F:466 , HOH F:3267 , HOH F:3313 , HOH F:3318BINDING SITE FOR RESIDUE PLR F 1505
07AC7SOFTWAREGLN A:65 , THR A:66 , TRP A:67 , ASP A:69 , VAL A:72 , LEU A:279 , ALA A:280 , PRO A:281 , GLU A:330 , ARG A:427 , HOH A:3255 , HOH A:3305 , HOH A:3437 , ILE B:80 , ASN B:81BINDING SITE FOR RESIDUE TRS A 3236
08AC8SOFTWAREILE A:80 , ASN A:81 , GLN B:65 , TRP B:67 , VAL B:72 , LEU B:279 , ALA B:280 , PRO B:281 , GLU B:330 , ARG B:427BINDING SITE FOR RESIDUE TRS B 3237
09AC9SOFTWAREASN C:81 , GLN D:65 , TRP D:67 , ASP D:69 , VAL D:72 , LEU D:279 , GLU D:330 , ARG D:427 , HOH D:3363BINDING SITE FOR RESIDUE TRS D 3238
10BC1SOFTWAREGLN E:65 , THR E:66 , TRP E:67 , ASP E:69 , VAL E:72 , LEU E:279 , ALA E:280 , ARG E:427 , HOH E:3380 , HOH E:3437 , ASN F:81BINDING SITE FOR RESIDUE TRS E 3239
11BC2SOFTWAREASN E:81 , GLN F:65 , TRP F:67 , VAL F:72 , LEU F:279 , ALA F:280 , PRO F:281 , GLU F:330 , ARG F:427 , HOH F:3286BINDING SITE FOR RESIDUE TRS F 3240
12BC3SOFTWAREVAL A:119 , GLY A:120 , THR A:121 , VAL A:300 , GLY A:311 , PHE A:313 , TRS A:3251 , HOH A:3372 , HOH A:3438BINDING SITE FOR RESIDUE TRS A 3241
13BC4SOFTWARETRP B:84 , LYS B:87 , ASP B:97 , LEU B:98 , GLY B:120 , THR B:121 , ASN B:122 , HOH B:3390BINDING SITE FOR RESIDUE TRS B 3242
14BC5SOFTWARETRP C:84 , LYS C:87 , ASP C:97 , GLY C:120 , THR C:121 , ASN C:122 , THR C:312 , HOH C:3442BINDING SITE FOR RESIDUE TRS C 3243
15BC6SOFTWARETRP D:84 , ASP D:97 , LEU D:98 , VAL D:101 , GLY D:120 , THR D:121 , ASN D:122 , THR D:312 , TRS D:3245 , HOH D:3359BINDING SITE FOR RESIDUE TRS D 3244
16BC7SOFTWAREVAL D:119 , GLY D:120 , THR D:121 , GLY D:311 , THR D:312 , PHE D:313 , TRS D:3244BINDING SITE FOR RESIDUE TRS D 3245
17BC8SOFTWARETRP E:84 , LYS E:87 , ASP E:97 , LEU E:98 , VAL E:101 , GLY E:120 , THR E:121 , ASN E:122 , THR E:312 , TRS E:3247BINDING SITE FOR RESIDUE TRS E 3246
18BC9SOFTWAREVAL E:119 , GLY E:120 , LEU E:295 , VAL E:300 , GLY E:311 , THR E:312 , PHE E:313 , TRS E:3246 , HOH E:3342 , HOH E:3410BINDING SITE FOR RESIDUE TRS E 3247
19CC1SOFTWARETRP F:84 , ASP F:97 , LEU F:98 , VAL F:101 , GLY F:120 , THR F:121 , ASN F:122 , GLY F:311 , THR F:312 , TRS F:3249BINDING SITE FOR RESIDUE TRS F 3248
20CC2SOFTWAREVAL F:119 , GLY F:120 , THR F:121 , LEU F:295 , GLY F:311 , THR F:312 , PHE F:313 , TRS F:3248 , HOH F:3423 , HOH F:3438BINDING SITE FOR RESIDUE TRS F 3249
21CC3SOFTWAREGLN C:65 , TRP C:67 , ASP C:69 , VAL C:72 , LEU C:279 , ALA C:280 , PRO C:281 , GLU C:330 , HOH C:3399 , ASN D:81BINDING SITE FOR RESIDUE TRS C 3250
22CC4SOFTWARETRP A:84 , ASP A:97 , LEU A:98 , VAL A:101 , GLY A:120 , THR A:121 , ASN A:122 , TRS A:3241 , HOH A:3288 , HOH A:3439BINDING SITE FOR RESIDUE TRS A 3251
23CC5SOFTWAREPRO A:91 , GLN A:92 , LEU B:52 , GLN C:58 , ARG C:402 , LEU C:436 , ASP C:440 , HOH C:3407BINDING SITE FOR RESIDUE TRS C 3252
24CC6SOFTWAREPRO E:184 , GLY E:185 , LEU E:187 , GLU E:364 , LYS E:381 , ILE E:418BINDING SITE FOR RESIDUE TRS E 3253

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1PMO)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1PMO)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1PMO)

(-) PROSITE Motifs  (1, 6)

Asymmetric/Biological Unit (1, 6)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1DDC_GAD_HDC_YDCPS00392 DDC / GAD / HDC / TyrDC pyridoxal-phosphate attachment site.DCEB_ECOLI269-290
 
 
 
 
 		  6A:269-290
B:269-290
C:269-290
D:269-290
E:269-290
F:269-290

(-) Exons   (0, 0)

(no "Exon" information available for 1PMO)

(-) 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:455
 aligned with DCEB_ECOLI | P69910 from UniProtKB/Swiss-Prot  Length:466

    Alignment length:455
                                    21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461     
           DCEB_ECOLI    12 ELLDSRFGAKSISTIAESKRFPLHEMRDDVAFQIINDELYLDGNARQNLATFCQTWDDENVHKLMDLSINKNWIDKEEYPQSAAIDLRCVNMVADLWHAPAPKNGQAVGTNTIGSSEACMLGGMAMKWRWRKRMEAAGKPTDKPNLVCGPVQICWHKFARYWDVELREIPMRPGQLFMDPKRMIEACDENTIGVVPTFGVTYTGNYEFPQPLHDALDKFQADTGIDIDMHIDAASGGFLAPFVAPDIVWDFRLPRVKSISASGHKFGLAPLGCGWVIWRDEEALPQELVFNVDYLGGQIGTFAINFSRPAGQVIAQYYEFLRLGREGYTKVQNASYQVAAYLADEIAKLGPYEFICTGRPDEGIPAVCFKLKDGEDPGYTLYDLSERLRLRGWQVPAFTLGGEATDIVVMRIMCRRGFEMDFAELLLEDYKASLKYLSDHPKLQGIAQQNSFKHT 466
               SCOP domains d1pmoa_ A: Glutamate decarboxylase beta, GadB                                                                                                                                                                                                                                                                                                                                                                                                                           SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..ee....ee................hhhhhhhhhhhhhhhh...............hhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhh..........eeeee.hhhhhhhhhhhhhhhhhhhhhhhh.......eeee...hhhhhhhhhhh..eeee..........hhhhhhhhh...eeeee............hhhhhhhhhhhhhhhhh....eeee..hhhhhhhhhh...........eeeeeee...........eeeee.hhhhhhhhhheeeee..eeeee........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeeee........eeeeee........hhhhhhhhhhh......eee........eeeeee.....hhhhhhhhhhhhhhhhhhhhhhhhhh........... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------DDC_GAD_HDC_YDC       -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1pmo A  12 ELLDSRFGAKSISTIAESKRFPLHEMRDDVAFQIINDELYLDGNARQNLATFCQTWDDENVHKLMDLSINKNWIDKEEYPQSAAIDLRCVNMVADLWHAPAPKNGQAVGTNTIGSSEACMLGGMAMKWRWRKRMEAAGKPTDKPNLVCGPVQICWHKFARYWDVELREIPMRPGQLFMDPKRMIEACDENTIGVVPTFGVTYTGNYEFPQPLHDALDKFQADTGIDIDMHIDAASGGFLAPFVAPDIVWDFRLPRVKSISASGHKFGLAPLGCGWVIWRDEEALPQELVFNVDYLGGQIGTFAINFSRPAGQVIAQYYEFLRLGREGYTKVQNASYQVAAYLADEIAKLGPYEFICTGRPDEGIPAVCFKLKDGEDPGYTLYDLSERLRLRGWQVPAFTLGGEATDIVVMRIMCRRGFEMDFAELLLEDYKASLKYLSDHPKLQGIAQQNSFKHT 466
                                    21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461     


Chain B from PDB  Type:PROTEIN  Length:463
 aligned with DCEB_ECOLI | P69910 from UniProtKB/Swiss-Prot  Length:466

    Alignment length:463
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463   
           DCEB_ECOLI     4 KQVTDLRSELLDSRFGAKSISTIAESKRFPLHEMRDDVAFQIINDELYLDGNARQNLATFCQTWDDENVHKLMDLSINKNWIDKEEYPQSAAIDLRCVNMVADLWHAPAPKNGQAVGTNTIGSSEACMLGGMAMKWRWRKRMEAAGKPTDKPNLVCGPVQICWHKFARYWDVELREIPMRPGQLFMDPKRMIEACDENTIGVVPTFGVTYTGNYEFPQPLHDALDKFQADTGIDIDMHIDAASGGFLAPFVAPDIVWDFRLPRVKSISASGHKFGLAPLGCGWVIWRDEEALPQELVFNVDYLGGQIGTFAINFSRPAGQVIAQYYEFLRLGREGYTKVQNASYQVAAYLADEIAKLGPYEFICTGRPDEGIPAVCFKLKDGEDPGYTLYDLSERLRLRGWQVPAFTLGGEATDIVVMRIMCRRGFEMDFAELLLEDYKASLKYLSDHPKLQGIAQQNSFKHT 466
               SCOP domains d1pmob_ B: Glutamate decarboxylase beta, GadB                                                                                                                                                                                                                                                                                                                                                                                                                                   SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........ee....ee................hhhhhhhhhhhhhhhh...............hhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhh..........eeeee.hhhhhhhhhhhhhhhhhhhhhhhh.......eeee...hhhhhhhhhhh..eeee..........hhhhhhhhh...eeeee............hhhhhhhhhhhhhhhhh....eeee..hhhhhhhhhh...........eeeeeee...........eeeee.hhhhhhhhhheee......eee........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeeee........eeeeee........hhhhhhhhhhh......eee.hhhhh..eeeeee.....hhhhhhhhhhhhhhhhhhhhhhhhhh........... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------DDC_GAD_HDC_YDC       -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1pmo B   4 KQVTDLRSELLDSRFGAKSISTIAESKRFPLHEMRDDVAFQIINDELYLDGNARQNLATFCQTWDDENVHKLMDLSINKNWIDKEEYPQSAAIDLRCVNMVADLWHAPAPKNGQAVGTNTIGSSEACMLGGMAMKWRWRKRMEAAGKPTDKPNLVCGPVQICWHKFARYWDVELREIPMRPGQLFMDPKRMIEACDENTIGVVPTFGVTYTGNYEFPQPLHDALDKFQADTGIDIDMHIDAASGGFLAPFVAPDIVWDFRLPRVKSISASGHKFGLAPLGCGWVIWRDEEALPQELVFNVDYLGGQIGTFAINFSRPAGQVIAQYYEFLRLGREGYTKVQNASYQVAAYLADEIAKLGPYEFICTGRPDEGIPAVCFKLKDGEDPGYTLYDLSERLRLRGWQVPAFTLGGEATDIVVMRIMCRRGFEMDFAELLLEDYKASLKYLSDHPKLQGIAQQNSFKHT 466
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463   


Chain C from PDB  Type:PROTEIN  Length:454
 aligned with DCEB_ECOLI | P69910 from UniProtKB/Swiss-Prot  Length:466

    Alignment length:454
                                    22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462    
           DCEB_ECOLI    13 LLDSRFGAKSISTIAESKRFPLHEMRDDVAFQIINDELYLDGNARQNLATFCQTWDDENVHKLMDLSINKNWIDKEEYPQSAAIDLRCVNMVADLWHAPAPKNGQAVGTNTIGSSEACMLGGMAMKWRWRKRMEAAGKPTDKPNLVCGPVQICWHKFARYWDVELREIPMRPGQLFMDPKRMIEACDENTIGVVPTFGVTYTGNYEFPQPLHDALDKFQADTGIDIDMHIDAASGGFLAPFVAPDIVWDFRLPRVKSISASGHKFGLAPLGCGWVIWRDEEALPQELVFNVDYLGGQIGTFAINFSRPAGQVIAQYYEFLRLGREGYTKVQNASYQVAAYLADEIAKLGPYEFICTGRPDEGIPAVCFKLKDGEDPGYTLYDLSERLRLRGWQVPAFTLGGEATDIVVMRIMCRRGFEMDFAELLLEDYKASLKYLSDHPKLQGIAQQNSFKHT 466
               SCOP domains d1pmoc_ C: Glutamate decarboxylase beta, GadB                                                                                                                                                                                                                                                                                                                                                                                                                          SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee....ee................hhhhhhhhhhhhhhhh...............hhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhh..........eeeee.hhhhhhhhhhhhhhhhhhhhhhh........eeee...hhhhhhhhhhh..eeee..........hhhhhhhhh...eeeee............hhhhhhhhhhhhhhhhh....eeee..hhhhhhhhhh...........eeeeeee...........eeeee.hhhhhhhhhheeeee..eeeee........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeeee........eeeeee........hhhhhhhhhhh......eee.hhhhhh.eeeeee.....hhhhhhhhhhhhhhhhhhhhhhhhhh........... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------DDC_GAD_HDC_YDC       -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1pmo C  13 LLDSRFGAKSISTIAESKRFPLHEMRDDVAFQIINDELYLDGNARQNLATFCQTWDDENVHKLMDLSINKNWIDKEEYPQSAAIDLRCVNMVADLWHAPAPKNGQAVGTNTIGSSEACMLGGMAMKWRWRKRMEAAGKPTDKPNLVCGPVQICWHKFARYWDVELREIPMRPGQLFMDPKRMIEACDENTIGVVPTFGVTYTGNYEFPQPLHDALDKFQADTGIDIDMHIDAASGGFLAPFVAPDIVWDFRLPRVKSISASGHKFGLAPLGCGWVIWRDEEALPQELVFNVDYLGGQIGTFAINFSRPAGQVIAQYYEFLRLGREGYTKVQNASYQVAAYLADEIAKLGPYEFICTGRPDEGIPAVCFKLKDGEDPGYTLYDLSERLRLRGWQVPAFTLGGEATDIVVMRIMCRRGFEMDFAELLLEDYKASLKYLSDHPKLQGIAQQNSFKHT 466
                                    22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462    


Chain D from PDB  Type:PROTEIN  Length:454
 aligned with DCEB_ECOLI | P69910 from UniProtKB/Swiss-Prot  Length:466

    Alignment length:454
                                    22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462    
           DCEB_ECOLI    13 LLDSRFGAKSISTIAESKRFPLHEMRDDVAFQIINDELYLDGNARQNLATFCQTWDDENVHKLMDLSINKNWIDKEEYPQSAAIDLRCVNMVADLWHAPAPKNGQAVGTNTIGSSEACMLGGMAMKWRWRKRMEAAGKPTDKPNLVCGPVQICWHKFARYWDVELREIPMRPGQLFMDPKRMIEACDENTIGVVPTFGVTYTGNYEFPQPLHDALDKFQADTGIDIDMHIDAASGGFLAPFVAPDIVWDFRLPRVKSISASGHKFGLAPLGCGWVIWRDEEALPQELVFNVDYLGGQIGTFAINFSRPAGQVIAQYYEFLRLGREGYTKVQNASYQVAAYLADEIAKLGPYEFICTGRPDEGIPAVCFKLKDGEDPGYTLYDLSERLRLRGWQVPAFTLGGEATDIVVMRIMCRRGFEMDFAELLLEDYKASLKYLSDHPKLQGIAQQNSFKHT 466
               SCOP domains d1pmod_ D: Glutamate decarboxylase beta, GadB                                                                                                                                                                                                                                                                                                                                                                                                                          SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee....ee................hhhhhhhhhhhhhhhh...............hhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhh..........eeeee.hhhhhhhhhhhhhhhhhhhhhhhh.......eeee...hhhhhhhhhhh..eeee..........hhhhhhhhh...eeeee............hhhhhhhhhhhhhhhhh....eeee..hhhhhhhhhh...........eeeeeee...........eeeee.hhhhhhhhhheee......eee........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeeee........eeeeee........hhhhhhhhhhh......eee...hhhh.eeeeee.....hhhhhhhhhhhhhhhhhhhhhhhhhh........... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------DDC_GAD_HDC_YDC       -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1pmo D  13 LLDSRFGAKSISTIAESKRFPLHEMRDDVAFQIINDELYLDGNARQNLATFCQTWDDENVHKLMDLSINKNWIDKEEYPQSAAIDLRCVNMVADLWHAPAPKNGQAVGTNTIGSSEACMLGGMAMKWRWRKRMEAAGKPTDKPNLVCGPVQICWHKFARYWDVELREIPMRPGQLFMDPKRMIEACDENTIGVVPTFGVTYTGNYEFPQPLHDALDKFQADTGIDIDMHIDAASGGFLAPFVAPDIVWDFRLPRVKSISASGHKFGLAPLGCGWVIWRDEEALPQELVFNVDYLGGQIGTFAINFSRPAGQVIAQYYEFLRLGREGYTKVQNASYQVAAYLADEIAKLGPYEFICTGRPDEGIPAVCFKLKDGEDPGYTLYDLSERLRLRGWQVPAFTLGGEATDIVVMRIMCRRGFEMDFAELLLEDYKASLKYLSDHPKLQGIAQQNSFKHT 466
                                    22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462    


Chain E from PDB  Type:PROTEIN  Length:463
 aligned with DCEB_ECOLI | P69910 from UniProtKB/Swiss-Prot  Length:466

    Alignment length:463
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463   
           DCEB_ECOLI     4 KQVTDLRSELLDSRFGAKSISTIAESKRFPLHEMRDDVAFQIINDELYLDGNARQNLATFCQTWDDENVHKLMDLSINKNWIDKEEYPQSAAIDLRCVNMVADLWHAPAPKNGQAVGTNTIGSSEACMLGGMAMKWRWRKRMEAAGKPTDKPNLVCGPVQICWHKFARYWDVELREIPMRPGQLFMDPKRMIEACDENTIGVVPTFGVTYTGNYEFPQPLHDALDKFQADTGIDIDMHIDAASGGFLAPFVAPDIVWDFRLPRVKSISASGHKFGLAPLGCGWVIWRDEEALPQELVFNVDYLGGQIGTFAINFSRPAGQVIAQYYEFLRLGREGYTKVQNASYQVAAYLADEIAKLGPYEFICTGRPDEGIPAVCFKLKDGEDPGYTLYDLSERLRLRGWQVPAFTLGGEATDIVVMRIMCRRGFEMDFAELLLEDYKASLKYLSDHPKLQGIAQQNSFKHT 466
               SCOP domains d1pmoe_ E: Glutamate decarboxylase beta, GadB                                                                                                                                                                                                                                                                                                                                                                                                                                   SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........ee....ee................hhhhhhhhhhhhhhhh...............hhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhh..........eeeee.hhhhhhhhhhhhhhhhhhhhhhhh.......eeee...hhhhhhhhhhh..eeee..........hhhhhhhhh...eeeee............hhhhhhhhhhhhhhhhh....eeee..hhhhhhhhhh...........eeeeeee...........eeeee.hhhhhhhhhheeeee..eeeee........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeeee........eeeeee........hhhhhhhhhhh......eee.hhhhh..eeeeee.....hhhhhhhhhhhhhhhhhhhhhhhhhh........... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------DDC_GAD_HDC_YDC       -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1pmo E   4 KQVTDLRSELLDSRFGAKSISTIAESKRFPLHEMRDDVAFQIINDELYLDGNARQNLATFCQTWDDENVHKLMDLSINKNWIDKEEYPQSAAIDLRCVNMVADLWHAPAPKNGQAVGTNTIGSSEACMLGGMAMKWRWRKRMEAAGKPTDKPNLVCGPVQICWHKFARYWDVELREIPMRPGQLFMDPKRMIEACDENTIGVVPTFGVTYTGNYEFPQPLHDALDKFQADTGIDIDMHIDAASGGFLAPFVAPDIVWDFRLPRVKSISASGHKFGLAPLGCGWVIWRDEEALPQELVFNVDYLGGQIGTFAINFSRPAGQVIAQYYEFLRLGREGYTKVQNASYQVAAYLADEIAKLGPYEFICTGRPDEGIPAVCFKLKDGEDPGYTLYDLSERLRLRGWQVPAFTLGGEATDIVVMRIMCRRGFEMDFAELLLEDYKASLKYLSDHPKLQGIAQQNSFKHT 466
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463   


Chain F from PDB  Type:PROTEIN  Length:454
 aligned with DCEB_ECOLI | P69910 from UniProtKB/Swiss-Prot  Length:466

    Alignment length:454
                                    22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462    
           DCEB_ECOLI    13 LLDSRFGAKSISTIAESKRFPLHEMRDDVAFQIINDELYLDGNARQNLATFCQTWDDENVHKLMDLSINKNWIDKEEYPQSAAIDLRCVNMVADLWHAPAPKNGQAVGTNTIGSSEACMLGGMAMKWRWRKRMEAAGKPTDKPNLVCGPVQICWHKFARYWDVELREIPMRPGQLFMDPKRMIEACDENTIGVVPTFGVTYTGNYEFPQPLHDALDKFQADTGIDIDMHIDAASGGFLAPFVAPDIVWDFRLPRVKSISASGHKFGLAPLGCGWVIWRDEEALPQELVFNVDYLGGQIGTFAINFSRPAGQVIAQYYEFLRLGREGYTKVQNASYQVAAYLADEIAKLGPYEFICTGRPDEGIPAVCFKLKDGEDPGYTLYDLSERLRLRGWQVPAFTLGGEATDIVVMRIMCRRGFEMDFAELLLEDYKASLKYLSDHPKLQGIAQQNSFKHT 466
               SCOP domains d1pmof_ F: Glutamate decarboxylase beta, GadB                                                                                                                                                                                                                                                                                                                                                                                                                          SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) --------------------Pyridoxal_deC-1pmoF01 F:33-383                                                                                                                                                                                                                                                                                                                                 ----------------------------------------------------------------------------------- Pfam domains (1)
           Pfam domains (2) --------------------Pyridoxal_deC-1pmoF02 F:33-383                                                                                                                                                                                                                                                                                                                                 ----------------------------------------------------------------------------------- Pfam domains (2)
           Pfam domains (3) --------------------Pyridoxal_deC-1pmoF03 F:33-383                                                                                                                                                                                                                                                                                                                                 ----------------------------------------------------------------------------------- Pfam domains (3)
           Pfam domains (4) --------------------Pyridoxal_deC-1pmoF04 F:33-383                                                                                                                                                                                                                                                                                                                                 ----------------------------------------------------------------------------------- Pfam domains (4)
           Pfam domains (5) --------------------Pyridoxal_deC-1pmoF05 F:33-383                                                                                                                                                                                                                                                                                                                                 ----------------------------------------------------------------------------------- Pfam domains (5)
           Pfam domains (6) --------------------Pyridoxal_deC-1pmoF06 F:33-383                                                                                                                                                                                                                                                                                                                                 ----------------------------------------------------------------------------------- Pfam domains (6)
         Sec.struct. author .ee....ee................hhhhhhhhhhhhhhhh...............hhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhh..........eeeee.hhhhhhhhhhhhhhhhhhhhhhhh.......eeee...hhhhhhhhhhh..eeee..........hhhhhhhhh...eeeee............hhhhhhhhhhhhhhhhh....eeee..hhhhhhhhhh...........eeeeeee...........eeeee.hhhhhhhhhheee......eee........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeeee........eeeeee........hhhhhhhhhhh......eee.hhhhh..eeeeee.....hhhhhhhhhhhhhhhhhhhhhhhhhh........... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------DDC_GAD_HDC_YDC       -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1pmo F  13 LLDSRFGAKSISTIAESKRFPLHEMRDDVAFQIINDELYLDGNARQNLATFCQTWDDENVHKLMDLSINKNWIDKEEYPQSAAIDLRCVNMVADLWHAPAPKNGQAVGTNTIGSSEACMLGGMAMKWRWRKRMEAAGKPTDKPNLVCGPVQICWHKFARYWDVELREIPMRPGQLFMDPKRMIEACDENTIGVVPTFGVTYTGNYEFPQPLHDALDKFQADTGIDIDMHIDAASGGFLAPFVAPDIVWDFRLPRVKSISASGHKFGLAPLGCGWVIWRDEEALPQELVFNVDYLGGQIGTFAINFSRPAGQVIAQYYEFLRLGREGYTKVQNASYQVAAYLADEIAKLGPYEFICTGRPDEGIPAVCFKLKDGEDPGYTLYDLSERLRLRGWQVPAFTLGGEATDIVVMRIMCRRGFEMDFAELLLEDYKASLKYLSDHPKLQGIAQQNSFKHT 466
                                    22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462
   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, 6)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1PMO)

(-) Pfam Domains  (1, 6)

Asymmetric/Biological Unit
(-)
Clan: PLP_aminotran (240)

(-) Gene Ontology  (11, 11)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C,D,E,F   (DCEB_ECOLI | P69910)
molecular function
    GO:0016831    carboxy-lyase activity    Catalysis of the nonhydrolytic addition or removal of a carboxyl group to or from a compound.
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
    GO:0004351    glutamate decarboxylase activity    Catalysis of the reaction: L-glutamate = 4-aminobutanoate + CO2.
    GO:0016829    lyase activity    Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring.
    GO:0030170    pyridoxal phosphate binding    Interacting selectively and non-covalently with pyridoxal 5' phosphate, 3-hydroxy-5-(hydroxymethyl)-2-methyl4-pyridine carboxaldehyde 5' phosphate, the biologically active form of vitamin B6.
biological process
    GO:0019752    carboxylic acid metabolic process    The chemical reactions and pathways involving carboxylic acids, any organic acid containing one or more carboxyl (COOH) groups or anions (COO-).
    GO:0006536    glutamate metabolic process    The chemical reactions and pathways involving glutamate, the anion of 2-aminopentanedioic acid.
    GO:0051454    intracellular pH elevation    Any process that increases the internal pH of a cell, measured by the concentration of the hydrogen ion.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

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 Related Entries

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

UniProtKB/Swiss-Prot
        DCEB_ECOLI | P69910: 1pmm 2dgk 2dgl 2dgm 3fz6 3fz7 3fz8

(-) Related Entries Specified in the PDB File

1pmm THE SAME PROTEIN AT LOW PH