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(-) Description

Title :  MANIPULATING THE REGIOSELECTIVITY OF PHENYLALANINE AMINOMUTASE: NEW INSIGHTS INTO THE REACTION MECHANISM OF MIO-DEPENDENT ENZYMES FROM STRUCTURE-GUIDED DIRECTED EVOLUTION
 
Authors :  B. Wu, W. Szymanski, G. G. Wybenga, M. M. Heberling, S. Bartsch, S. Wilde G. J. Poelarends, B. L. Feringa, B. W. Dijkstra, D. B. Janssen
Date :  13 May 11  (Deposition) - 09 Nov 11  (Release) - 30 Jan 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.18
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. Wu, W. Szymanski, G. G. Wybenga, M. M. Heberling, S. Bartsch, S. De Wildeman, G. J. Poelarends, B. L. Feringa, B. W. Dijkstra, D. B. Janssen
Mechanism-Inspired Engineering Of Phenylalanine Aminomutase For Enhanced Beta-Regioselective Asymmetric Amination Of Cinnamates.
Angew. Chem. Int. Ed. Engl. V. 51 482 2012
PubMed-ID: 22113970  |  Reference-DOI: 10.1002/ANIE.201106372

(-) Compounds

Molecule 1 - PHENYLALANINE AMMONIA-LYASE
    Chains: A, B, C, D
    EC Number: 5.4.3.-, 4.3.1.24
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PBAD
    Expression System Strain: K-12
    Expression System Taxid: 83333
    Expression System Variant: TOP10
    Expression System Vector Type: PLASMID
    Organism Common: CHINESE YEW
    Organism Scientific: TAXUS WALLICHIANA VAR. CHINENSIS
    Organism Taxid: 29808
    Other Details: THIOESTER BOND BETWEEN THE MDO PROSTHETIC GROUP AND A MOLECULE OF BETA-MERCAPTOETHANOL, DISULFIDE BRIDGE BETWEEN RESIDUE C89 AND A BETA-MERCAPTOETHANOL MOLECULE, COVALENT BOND BETWEEN MDO 175 AND RESIDUE D178
    Synonym: PHENYLALANINE AMINOMUTASE

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 17)

Asymmetric/Biological Unit (4, 17)
No.NameCountTypeFull Name
1BME8Ligand/IonBETA-MERCAPTOETHANOL
2FMT4Ligand/IonFORMIC ACID
3GOL1Ligand/IonGLYCEROL
4MDO4Mod. Amino Acid{2-[(1S)-1-AMINOETHYL]-5-HYDROXY-4-METHYL-1H-IMIDAZOL-1-YL}ACETIC ACID

(-) Sites  (13, 13)

Asymmetric Unit (13, 13)
No.NameEvidenceResiduesDescription
01AC1SOFTWARECYS A:89 , GLY C:412 , ASN C:413 , SER C:415 , ASP C:423 , TYR C:424BINDING SITE FOR RESIDUE BME A1089
02AC2SOFTWARETYR A:80 , MDO A:175 , LEU A:179 , LEU A:227 , GLN A:459 , FMT A:1679 , TYR B:322BINDING SITE FOR RESIDUE BME A1175
03AC3SOFTWARETYR A:80 , ASN A:231 , ASN A:355 , PHE A:371 , BME A:1175 , HOH A:2190 , GLN B:319 , ARG B:325BINDING SITE FOR RESIDUE FMT A1679
04AC4SOFTWARECYS B:89 , ARG B:92 , HOH B:2193 , GLY D:412 , ASN D:413 , SER D:415 , LEU D:420 , ASP D:423BINDING SITE FOR RESIDUE BME B1089
05AC5SOFTWARETYR A:322 , TYR B:80 , MDO B:175 , LEU B:179 , GLN B:459 , FMT B:1680BINDING SITE FOR RESIDUE BME B1175
06AC6SOFTWAREASP B:423 , GLY B:425 , SER B:642 , ALA B:643 , PRO B:649 , HOH B:2129 , HOH B:2179 , ARG D:106 , CYS D:107BINDING SITE FOR RESIDUE GOL B1679
07AC7SOFTWAREGLN A:319 , ARG A:325 , HOH A:2118 , TYR B:80 , ASN B:231 , ASN B:355 , PHE B:371 , BME B:1175BINDING SITE FOR RESIDUE FMT B1680
08AC8SOFTWAREGLY A:412 , ASN A:413 , SER A:415 , ASP A:423 , CYS C:89 , ARG C:92BINDING SITE FOR RESIDUE BME C1089
09AC9SOFTWARETYR C:80 , GLY C:87 , MDO C:175 , LEU C:179 , LEU C:227 , ASN C:231 , GLN C:459 , FMT C:1680 , TYR D:322BINDING SITE FOR RESIDUE BME C1175
10BC1SOFTWARETYR C:80 , ASN C:231 , ASN C:355 , PHE C:371 , BME C:1175 , HOH C:2031 , GLN D:319 , ARG D:325BINDING SITE FOR RESIDUE FMT C1680
11BC2SOFTWAREGLY B:412 , ASN B:413 , SER B:415 , LEU B:420 , ASP B:423 , CYS D:89BINDING SITE FOR RESIDUE BME D1089
12BC3SOFTWARETYR C:322 , TYR D:80 , MDO D:175 , LEU D:179 , LEU D:227 , GLN D:459 , FMT D:1679BINDING SITE FOR RESIDUE BME D1175
13BC4SOFTWAREGLN C:319 , ARG C:325 , HOH C:2129 , TYR D:80 , ASN D:231 , ASN D:355 , PHE D:371 , BME D:1175BINDING SITE FOR RESIDUE FMT D1679

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2YII)

(-) Cis Peptide Bonds  (8, 8)

Asymmetric/Biological Unit
No.Residues
1Asn A:355 -Pro A:356
2Gly A:417 -Pro A:418
3Asn B:355 -Pro B:356
4Gly B:417 -Pro B:418
5Asn C:355 -Pro C:356
6Gly C:417 -Pro C:418
7Asn D:355 -Pro D:356
8Gly D:417 -Pro D:418

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2YII)

(-) PROSITE Motifs  (1, 4)

Asymmetric/Biological Unit (1, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1PAL_HISTIDASEPS00488 Phenylalanine and histidine ammonia-lyases signature.PAM_TAXWC171-187
 
 
 		  4A:171-187
B:171-187
C:171-187
D:171-187

(-) Exons   (0, 0)

(no "Exon" information available for 2YII)

(-) 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:644
 aligned with PAM_TAXWC | Q68G84 from UniProtKB/Swiss-Prot  Length:687

    Alignment length:669
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428       438       448       458       468       478       488       498       508       518       528       538       548       558       568       578       588       598       608       618       628       638       648       658       668         
            PAM_TAXWC     9 SHVKDILGLINAFNEVKKITVDGTTPITVAHVAALARRHDVKVALEAEQCRARVETCSSWVQRKAEDGADIYGVTTGFGACSSRRTNRLSELQESLIRCLLAGVFTKGCAPSVDELPATATRSAMLLRLNSFTYGCSGIRWEVMEALEKLLNSNVSPKVPLRGSVSASGDLIPLAYIAGLLIGKPSVIARIGDDVEVPAPEALSRVGLRPFKLQAKEGLALVNGTSFATAVASTVMYDANVLLLLVETLCGMFCEVIFGREEFAHPLIHKVKPHPGQIESAELLEWLLRSSPFQELSREYYSIDKLKKPKQDRYALRSSPQWLAPLVQTIRDATTTVETEVNSANDNPIIDHANDRALHGANFQGSAVGFYMDYVRIAVAGLGKLLFAQFTELMIEYYSNGLPGNLSLGPDLSVDYGLKGLDIAMAAYSSELQYLANPVTTHVHSAEQHNQDINSLALISARKTEEALDILKLMIASHLTAMCQAVDLRQLEEALVKVVENVVSTLADECGLPNDTKARLLYVAKAVPVYTYLESPCDPTLPLLLGLKQSCFDTILALHKKDGIETDTLVDRLAEFEKRLSDRLENEMTAVRVLYEKKGHKTADNNDALVRIQGSKFLPFYRFVREELDTGVMSARREQTPQEDVQKVFDAIADGRITVPLLHCLQGFL 677
               SCOP domains d2yiia_ A: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhh.eeee......hhhhhhhhhhh...eeeehhhhhhhhhhhhhhhhhhhhhh..........hhhhh.....hhhhhhhhhhhhhh......-----....hhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhh.eee..........--hhhhhhhhhhhhh.....eeee....eeehhhhhhhh.........hhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh..hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......eeehhhheee......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhh...hhhhh..hhhhhhhhhhhhhhhhhhh..hhhhh............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhh..------hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh------------hhhhhh.hhhhhhhhhh.............hhhhhhhhhhhhhhh..hhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------PAL_HISTIDASE    ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2yii A   9 SHVKDILGLINAFNEVKKITVDGTTPITVAHVAALARRHDVKVALEAEQCRARVETCSSWVQRKAEDGADIYGVTTGFGACSSRRTNRLSELQESLIRCLLAGVFTK-----VDELPATATRSAMLLRLNSFTYGCSGIRWEVMEALEKLLNSNVSPKVPLRGSVSa--DLIPLAYIAGLLIGKPSVIARIGDDVEVPAPEALSRVGLRPFKLQAKEGLALVNGTSFATAVASTVMYDANVLLLLVETLCGMFCEVIFGREEFAHPLIHKVKPHPGQIESAELLEWLLRSSPFQELSREYYSIDKLKKPKQDRYALRSSPQWLAPLVQTIRDATTTVETEVNSANDNPIIDHANDRALHGANFQGSAVGFYMDYVRIAVAGLGKLLFAQFTELMIEYYSNGLPGNLSLGPDLSVDYGLKGLDIAMAAYSSELQYLANPVTTHVHSAEQHNQDINSLALISARKTEEALDILKLMIASHLTAMCQAVDLRQLEEALVKVVENVVSTLADECGLPNDTKARLLYVAKAVPVYTYLESPCDPTLPLLLGLKQSCFDTILALHK------DTLVDRLAEFEKRLSDRLENEMTAVRVLYEK------------VRIQGSKFLPFYRFVREELDTGVMSARREQTPQEDVQKVFDAIADGRITVPLLHCLQGFL 677
                                    18        28        38        48        58        68        78        88        98       108      |  -  |    128       138       148       158       168      |178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428       438       448       458       468       478       488       498       508       518       528       538       548       558       568      |578       588       598      |  -       618       628       638       648       658       668         
                                                                                                                                    115   121                                                   175-MDO                                                                                                                                                                                                                                                                                                                                                                                                  568    575                           605          618                                                           
                                                                                                                                                                                                   178                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   


Chain B from PDB  Type:PROTEIN  Length:650
 aligned with PAM_TAXWC | Q68G84 from UniProtKB/Swiss-Prot  Length:687

    Alignment length:670
                                    17        27        37        47        57        67        77        87        97       107       117       127       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       517       527       537       547       557       567       577       587       597       607       617       627       637       647       657       667       677
            PAM_TAXWC     8 RSHVKDILGLINAFNEVKKITVDGTTPITVAHVAALARRHDVKVALEAEQCRARVETCSSWVQRKAEDGADIYGVTTGFGACSSRRTNRLSELQESLIRCLLAGVFTKGCAPSVDELPATATRSAMLLRLNSFTYGCSGIRWEVMEALEKLLNSNVSPKVPLRGSVSASGDLIPLAYIAGLLIGKPSVIARIGDDVEVPAPEALSRVGLRPFKLQAKEGLALVNGTSFATAVASTVMYDANVLLLLVETLCGMFCEVIFGREEFAHPLIHKVKPHPGQIESAELLEWLLRSSPFQELSREYYSIDKLKKPKQDRYALRSSPQWLAPLVQTIRDATTTVETEVNSANDNPIIDHANDRALHGANFQGSAVGFYMDYVRIAVAGLGKLLFAQFTELMIEYYSNGLPGNLSLGPDLSVDYGLKGLDIAMAAYSSELQYLANPVTTHVHSAEQHNQDINSLALISARKTEEALDILKLMIASHLTAMCQAVDLRQLEEALVKVVENVVSTLADECGLPNDTKARLLYVAKAVPVYTYLESPCDPTLPLLLGLKQSCFDTILALHKKDGIETDTLVDRLAEFEKRLSDRLENEMTAVRVLYEKKGHKTADNNDALVRIQGSKFLPFYRFVREELDTGVMSARREQTPQEDVQKVFDAIADGRITVPLLHCLQGFL 677
               SCOP domains d2yiib_ B: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhh.eeee......hhhhhhhhhhh...eeee....hhhhhhhhhhhhhhhhhh..........hhhhh.....hhhhhhhhhhhhhh.....------....hhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhh.eee..........--hhhhhhhhhhhhh.....eeee...eeeehhhhhhh..........hhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh..hhhhhhhhhhhhhhhh.hhhhhhhhhhhh.hhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......eee....eee......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhh...hhhhh..hhhhhhhhhhhhhhhhhhh..hhhhh............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhh-....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh-----------hhhhhh.hhhhhhhhhh.............hhhhhhhhhhhhhhh..hhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------PAL_HISTIDASE    ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2yii B   8 RSHVKDILGLINAFNEVKKITVDGTTPITVAHVAALARRHDVKVALEAEQCRARVETCSSWVQRKAEDGADIYGVTTGFGACSSRRTNRLSELQESLIRCLLAGVFT------VDELPATATRSAMLLRLNSFTYGCSGIRWEVMEALEKLLNSNVSPKVPLRGSVSa--DLIPLAYIAGLLIGKPSVIARIGDDVEVPAPEALSRVGLRPFKLQAKEGLALVNGTSFATAVASTVMYDANVLLLLVETLCGMFCEVIFGREEFAHPLIHKVKPHPGQIESAELLEWLLRSSPFQELSREYYSIDKLKKPKQDRYALRSSPQWLAPLVQTIRDATTTVETEVNSANDNPIIDHANDRALHGANFQGSAVGFYMDYVRIAVAGLGKLLFAQFTELMIEYYSNGLPGNLSLGPDLSVDYGLKGLDIAMAAYSSELQYLANPVTTHVHSAEQHNQDINSLALISARKTEEALDILKLMIASHLTAMCQAVDLRQLEEALVKVVENVVSTLADECGLPNDTKARLLYVAKAVPVYTYLESPCDPTLPLLLGLKQSCFDTILALH-KDGIETDTLVDRLAEFEKRLSDRLENEMTAVRVLYEKK-----------VRIQGSKFLPFYRFVREELDTGVMSARREQTPQEDVQKVFDAIADGRITVPLLHCLQGFL 677
                                    17        27        37        47        57        67        77        87        97       107      |  -   |   127       137       147       157       167       | -|      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       517       527       537       547       557       567 |     577       587       597        |-         -|      627       637       647       657       667       677
                                                                                                                                    114    121                                                   175-MDO                                                                                                                                                                                                                                                                                                                                                                                                 567 |                                  606         618                                                           
                                                                                                                                                                                                    178                                                                                                                                                                                                                                                                                                                                                                                                    569                                                                                                            


Chain C from PDB  Type:PROTEIN  Length:646
 aligned with PAM_TAXWC | Q68G84 from UniProtKB/Swiss-Prot  Length:687

    Alignment length:670
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428       438       448       458       468       478       488       498       508       518       528       538       548       558       568       578       588       598       608       618       628       638       648       658       668       678
            PAM_TAXWC     9 SHVKDILGLINAFNEVKKITVDGTTPITVAHVAALARRHDVKVALEAEQCRARVETCSSWVQRKAEDGADIYGVTTGFGACSSRRTNRLSELQESLIRCLLAGVFTKGCAPSVDELPATATRSAMLLRLNSFTYGCSGIRWEVMEALEKLLNSNVSPKVPLRGSVSASGDLIPLAYIAGLLIGKPSVIARIGDDVEVPAPEALSRVGLRPFKLQAKEGLALVNGTSFATAVASTVMYDANVLLLLVETLCGMFCEVIFGREEFAHPLIHKVKPHPGQIESAELLEWLLRSSPFQELSREYYSIDKLKKPKQDRYALRSSPQWLAPLVQTIRDATTTVETEVNSANDNPIIDHANDRALHGANFQGSAVGFYMDYVRIAVAGLGKLLFAQFTELMIEYYSNGLPGNLSLGPDLSVDYGLKGLDIAMAAYSSELQYLANPVTTHVHSAEQHNQDINSLALISARKTEEALDILKLMIASHLTAMCQAVDLRQLEEALVKVVENVVSTLADECGLPNDTKARLLYVAKAVPVYTYLESPCDPTLPLLLGLKQSCFDTILALHKKDGIETDTLVDRLAEFEKRLSDRLENEMTAVRVLYEKKGHKTADNNDALVRIQGSKFLPFYRFVREELDTGVMSARREQTPQEDVQKVFDAIADGRITVPLLHCLQGFLG 678
               SCOP domains d2yiic_ C: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhh.eeee......hhhhhhhhhhh...eeee..--hhhhhhhhhhhhhhhhhh..........hhhhh.....hhhhhhhhhhhhhh.....------..eehhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhh.eee.ee.......--hhhhhhhhhhhhh.....eeee...eeeehhhhhhhh.........hhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh..hhhhhhhhhhhhhhhh.hhhhhhhhhhhh.hhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......eeehhhheee......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhh...hhhhh..hhhhhhhhhhhhhhhhhhh..hhhhh............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhh..---hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh-----------hhhhhh.hhhhhhhhhh.............hhhhhhhhhhhhhhh..hhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------PAL_HISTIDASE    ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2yii C   9 SHVKDILGLINAFNEVKKITVDGTTPITVAHVAALARRHDVKVALEA--CRARVETCSSWVQRKAEDGADIYGVTTGFGACSSRRTNRLSELQESLIRCLLAGVFT------VDELPATATRSAMLLRLNSFTYGCSGIRWEVMEALEKLLNSNVSPKVPLRGSVSa--DLIPLAYIAGLLIGKPSVIARIGDDVEVPAPEALSRVGLRPFKLQAKEGLALVNGTSFATAVASTVMYDANVLLLLVETLCGMFCEVIFGREEFAHPLIHKVKPHPGQIESAELLEWLLRSSPFQELSREYYSIDKLKKPKQDRYALRSSPQWLAPLVQTIRDATTTVETEVNSANDNPIIDHANDRALHGANFQGSAVGFYMDYVRIAVAGLGKLLFAQFTELMIEYYSNGLPGNLSLGPDLSVDYGLKGLDIAMAAYSSELQYLANPVTTHVHSAEQHNQDINSLALISARKTEEALDILKLMIASHLTAMCQAVDLRQLEEALVKVVENVVSTLADECGLPNDTKARLLYVAKAVPVYTYLESPCDPTLPLLLGLKQSCFDTILALHKK---ETDTLVDRLAEFEKRLSDRLENEMTAVRVLYEKK-----------VRIQGSKFLPFYRFVREELDTGVMSARREQTPQEDVQKVFDAIADGRITVPLLHCLQGFLG 678
                                    18        28        38        48      | 58        68        78        88        98       108     |   -  |    128       138       148       158       168      |178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428       438       448       458       468       478       488       498       508       518       528       538       548       558       568|   |  578       588       598       | -       618       628       638       648       658       668       678
                                                                         55 58                                                     114    121                                                   175-MDO                                                                                                                                                                                                                                                                                                                                                                                                   569 573                              606         618                                                            
                                                                                                                                                                                                   178                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    


Chain D from PDB  Type:PROTEIN  Length:645
 aligned with PAM_TAXWC | Q68G84 from UniProtKB/Swiss-Prot  Length:687

    Alignment length:669
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428       438       448       458       468       478       488       498       508       518       528       538       548       558       568       578       588       598       608       618       628       638       648       658       668         
            PAM_TAXWC     9 SHVKDILGLINAFNEVKKITVDGTTPITVAHVAALARRHDVKVALEAEQCRARVETCSSWVQRKAEDGADIYGVTTGFGACSSRRTNRLSELQESLIRCLLAGVFTKGCAPSVDELPATATRSAMLLRLNSFTYGCSGIRWEVMEALEKLLNSNVSPKVPLRGSVSASGDLIPLAYIAGLLIGKPSVIARIGDDVEVPAPEALSRVGLRPFKLQAKEGLALVNGTSFATAVASTVMYDANVLLLLVETLCGMFCEVIFGREEFAHPLIHKVKPHPGQIESAELLEWLLRSSPFQELSREYYSIDKLKKPKQDRYALRSSPQWLAPLVQTIRDATTTVETEVNSANDNPIIDHANDRALHGANFQGSAVGFYMDYVRIAVAGLGKLLFAQFTELMIEYYSNGLPGNLSLGPDLSVDYGLKGLDIAMAAYSSELQYLANPVTTHVHSAEQHNQDINSLALISARKTEEALDILKLMIASHLTAMCQAVDLRQLEEALVKVVENVVSTLADECGLPNDTKARLLYVAKAVPVYTYLESPCDPTLPLLLGLKQSCFDTILALHKKDGIETDTLVDRLAEFEKRLSDRLENEMTAVRVLYEKKGHKTADNNDALVRIQGSKFLPFYRFVREELDTGVMSARREQTPQEDVQKVFDAIADGRITVPLLHCLQGFL 677
               SCOP domains d2yiid_ D: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhh.eeee......hhhhhhhhhhh...eeeehhhhhhhhhhhhhhhhhhhhhh..........hhhhh.....hhhhhhhhhhhhhh......-----....hhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhh.eee..........--hhhhhhhhhhhhh.....eeee...eeeehhhhhhhh.........hhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh..hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......eeehhhheee......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhh...hhhhh..hhhhhhhhhhhhhhhhhhh..hhhhh............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhh-----hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh------------hhhhhh.hhhhhhhhhh.............hhhhhhhhhhhhhhh..hhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------PAL_HISTIDASE    ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2yii D   9 SHVKDILGLINAFNEVKKITVDGTTPITVAHVAALARRHDVKVALEAEQCRARVETCSSWVQRKAEDGADIYGVTTGFGACSSRRTNRLSELQESLIRCLLAGVFTK-----VDELPATATRSAMLLRLNSFTYGCSGIRWEVMEALEKLLNSNVSPKVPLRGSVSa--DLIPLAYIAGLLIGKPSVIARIGDDVEVPAPEALSRVGLRPFKLQAKEGLALVNGTSFATAVASTVMYDANVLLLLVETLCGMFCEVIFGREEFAHPLIHKVKPHPGQIESAELLEWLLRSSPFQELSREYYSIDKLKKPKQDRYALRSSPQWLAPLVQTIRDATTTVETEVNSANDNPIIDHANDRALHGANFQGSAVGFYMDYVRIAVAGLGKLLFAQFTELMIEYYSNGLPGNLSLGPDLSVDYGLKGLDIAMAAYSSELQYLANPVTTHVHSAEQHNQDINSLALISARKTEEALDILKLMIASHLTAMCQAVDLRQLEEALVKVVENVVSTLADECGLPNDTKARLLYVAKAVPVYTYLESPCDPTLPLLLGLKQSCFDTILALH-----ETDTLVDRLAEFEKRLSDRLENEMTAVRVLYEK------------VRIQGSKFLPFYRFVREELDTGVMSARREQTPQEDVQKVFDAIADGRITVPLLHCLQGFL 677
                                    18        28        38        48        58        68        78        88        98       108      |  -  |    128       138       148       158       168      |178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428       438       448       458       468       478       488       498       508       518       528       538       548       558        |-    |  578       588       598      |  -       618       628       638       648       658       668         
                                                                                                                                    115   121                                                   175-MDO                                                                                                                                                                                                                                                                                                                                                                                                 567   573                             605          618                                                           
                                                                                                                                                                                                   178
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 Classification and Annotation

(-) SCOP Domains  (1, 4)

Asymmetric/Biological Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2YII)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2YII)

(-) Gene Ontology  (15, 15)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C,D   (PAM_TAXWC | Q68G84)
molecular function
    GO:0016841    ammonia-lyase activity    Catalysis of the release of ammonia by the cleavage of a carbon-nitrogen bond or the reverse reaction with ammonia as a substrate.
    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:0016869    intramolecular transferase activity, transferring amino groups    Catalysis of the transfer of an amino group from one position to another within a single molecule.
    GO:0016853    isomerase activity    Catalysis of the geometric or structural changes within one molecule. Isomerase is the systematic name for any enzyme of EC class 5.
    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:0045548    phenylalanine ammonia-lyase activity    Catalysis of the reaction: L-phenylalanine = NH(4)(+) + trans-cinnamate.
biological process
    GO:0006559    L-phenylalanine catabolic process    The chemical reactions and pathways resulting in the breakdown of phenylalanine, 2-amino-3-phenylpropanoic acid.
    GO:0006558    L-phenylalanine metabolic process    The chemical reactions and pathways involving L-phenylalanine, the L-enantiomer of 2-amino-3-phenylpropanoic acid, i.e. (2S)-2-amino-3-phenylpropanoic acid.
    GO:0009821    alkaloid biosynthetic process    The chemical reactions and pathways resulting in the formation of alkaloids, nitrogen-containing natural products which are not otherwise classified as nonprotein amino acids, amines, peptides, amines, cyanogenic glycosides, glucosinolates, cofactors, phytohormones, or primary metabolite (such as purine or pyrimidine bases).
    GO:0009820    alkaloid metabolic process    The chemical reactions and pathways involving alkaloids, nitrogen containing natural products which are not otherwise classified as peptides, nonprotein amino acids, amines, cyanogenic glycosides, glucosinolates, cofactors, phytohormones or primary metabolites (such as purine or pyrimidine bases).
    GO:0009800    cinnamic acid biosynthetic process    The chemical reactions and pathways resulting in the formation of cinnamic acid, 3-phenyl-2-propenoic acid.
    GO:0042617    paclitaxel biosynthetic process    The chemical reactions and pathways resulting in the formation of paclitaxel, an alkaloid compound used as an anticancer treatment.
    GO:0009698    phenylpropanoid metabolic process    The chemical reactions and pathways involving aromatic derivatives of trans-cinnamic acid.
    GO:0051289    protein homotetramerization    The formation of a protein homotetramer, a macromolecular structure consisting of four noncovalently associated identical subunits.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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  2yii
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  PAM_TAXWC | Q68G84
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 Related Entries

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

UniProtKB/Swiss-Prot
        PAM_TAXWC | Q68G84: 4baa 4bab 4c5r 4c5s 4c5u 4c6g 4cq5 4v2q 4v2r

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 2YII)