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(-) Description

Title :  CRYSTAL STRUCTURE OF W139G D-3-PHOSPHOGLYCERATE DEHYDROGENASE COMPLEXED WITH NAD+
 
Authors :  J. K. Bell, G. A. Grant, L. J. Banaszak
Date :  11 Feb 04  (Deposition) - 22 Feb 05  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.09
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Allosteric Regulation Phosphoglycerate Dehydrogenase Pgdh, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. K. Bell, G. A. Grant, L. J. Banaszak
Multiconformational States In Phosphoglycerate Dehydrogenase
Biochemistry V. 43 3450 2004
PubMed-ID: 15035616  |  Reference-DOI: 10.1021/BI035462E
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - D-3-PHOSPHOGLYCERATE DEHYDROGENASE
    Chains: A, B, C, D
    EC Number: 1.1.1.95
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PTRC99A
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: SERA, B2913, C3494, Z4251, ECS3784, SF2898, S3098
    Mutation: YES
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562
    Synonym: PGDH

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 36)

Asymmetric/Biological Unit (2, 36)
No.NameCountTypeFull Name
1MSE32Mod. Amino AcidSELENOMETHIONINE
2NAD4Ligand/IonNICOTINAMIDE-ADENINE-DINUCLEOTIDE

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPRO A:105 , PHE A:106 , ASN A:108 , THR A:109 , GLY A:158 , TYR A:159 , GLY A:160 , HIS A:161 , ILE A:162 , ASP A:181 , ILE A:182 , LYS A:185 , HIS A:210 , VAL A:211 , PRO A:212 , SER A:216 , THR A:217 , ARG A:240 , HOH A:1616 , HOH A:1894BINDING SITE FOR RESIDUE NAD A 2101
2AC2SOFTWAREILE B:84 , PRO B:105 , PHE B:106 , ASN B:108 , THR B:109 , GLY B:158 , TYR B:159 , GLY B:160 , HIS B:161 , ILE B:162 , ASP B:181 , ILE B:182 , LYS B:185 , HIS B:210 , VAL B:211 , PRO B:212 , SER B:216 , THR B:217 , SER B:239 , HOH B:1601 , HOH B:1671 , HOH B:1717 , HOH B:1871 , HOH B:1893 , HOH B:1958BINDING SITE FOR RESIDUE NAD B 2102
3AC3SOFTWAREPRO C:105 , PHE C:106 , ASN C:108 , THR C:109 , GLY C:158 , TYR C:159 , GLY C:160 , HIS C:161 , ILE C:162 , ASP C:181 , ILE C:182 , LYS C:185 , HIS C:210 , VAL C:211 , PRO C:212 , SER C:216 , THR C:217 , HOH C:1611 , HOH C:1637 , HOH C:1869 , HOH C:1900 , HOH C:1942BINDING SITE FOR RESIDUE NAD C 2103
4AC4SOFTWAREPRO D:105 , PHE D:106 , ASN D:108 , THR D:109 , GLY D:158 , TYR D:159 , GLY D:160 , HIS D:161 , ILE D:162 , TYR D:180 , ASP D:181 , ILE D:182 , LYS D:185 , HIS D:210 , VAL D:211 , PRO D:212 , SER D:216 , THR D:217 , SER D:239 , HOH D:1600 , HOH D:1732 , HOH D:1943BINDING SITE FOR RESIDUE NAD D 2104

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1SC6)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1SC6)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1SC6)

(-) PROSITE Motifs  (4, 16)

Asymmetric/Biological Unit (4, 16)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1D_2_HYDROXYACID_DH_1PS00065 D-isomer specific 2-hydroxyacid dehydrogenases NAD-binding signature.SERA_ECOLI154-181
 
 
 		  4A:154-181
B:154-181
C:154-181
D:154-181
2D_2_HYDROXYACID_DH_2PS00670 D-isomer specific 2-hydroxyacid dehydrogenases signature 2.SERA_ECOLI200-222
 
 
 		  4A:200-222
B:200-222
C:200-222
D:200-222
3D_2_HYDROXYACID_DH_3PS00671 D-isomer specific 2-hydroxyacid dehydrogenases signature 3.SERA_ECOLI229-245
 
 
 		  4A:229-245
B:229-245
C:229-245
D:229-245
4ACTPS51671 ACT domain profile.SERA_ECOLI339-410
 
 
 		  4A:339-410
B:339-410
C:339-410
D:339-410

(-) Exons   (0, 0)

(no "Exon" information available for 1SC6)

(-) 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:390
 aligned with SERA_ECOLI | P0A9T0 from UniProtKB/Swiss-Prot  Length:410

    Alignment length:404
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406    
           SERA_ECOLI     7 EKDKIKFLLVEGVHQKALESLRAAGYTNIEFHKGALDDEQLKESIRDAHFIGLRSRTHLTEDVINAAEKLVAIGCFCIGTNQVDLDAAAKRGIPVFNAPFSNTRSVAELVIGELLLLLRGVPEANAKAHRGVWNKLAAGSFEARGKKLGIIGYGHIGTQLGILAESLGMYVYFYDIENKLPLGNATQVQHLSDLLNMSDVVSLHVPENPSTKNMMGAKEISLMKPGSLLINASRGTVVDIPALCDALASKHLAGAAIDVFPTEPATNSDPFTSPLCEFDNVLLTPHIGGSTQEAQENIGLEVAGKLIKYSDNGSTLSAVNFPEVSLPLHGGRRLMHIHENRPGVLTALNKIFAEQGVNIAAQYLQTSAQMGYVVIDIEADEDVAEKALQAMKAIPGTIRARLLY 410
               SCOP domains d1sc6a2 A:7-107,A:296-326 Phosphoglycerate dehydrogenase                                             d1sc6a1 A:108-295 Phosphoglycerat     e dehydrogenase                                                                                                                                       d1sc6a2 A:7-107,A:296-326      d1sc6a3 A:327-410 Phosphoglycerate dehydrogenase, regulatory (C-terminal) domain     SCOP domains
               CATH domains 1sc6A01 A:7-108,A:296-326 NAD(P)-binding Rossmann-like Domain                                         1sc6A02 A:109-295 NAD(P)-binding      Rossmann-like Domain                                                                                                                                 1sc6A01 A:7-108,A:296-326      -1sc6A03 A:328-409  [code=3.30.70.260, no name defined]                            - CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eee....hhhhhhhhhhh....eee.....hhhhhhhhh....eeee......hhhhhhhh....eeee........hhhhhhhh...ee.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...-----.......eeeee..hhhhhhhhhhhhhh..eeeee...........ee..hhhhhhhhh.eeee............hhhhhhhh...eeeee.......hhhhhhhhhhh..eeeeeee.---------...hhhhh....eeee......hhhhhhhhhhhhhhhhhhhhhhh..................eeeeeeee...hhhhhhhhhhhhh..eeeeeeeee...eeeeeeeee.hhhhhhhhhhhhhh...eeeeeeee Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------D_2_HYDROXYACID_DH_1        ------------------D_2_HYDROXYACID_DH_2   ------D_2_HYDROXYACID_D---------------------------------------------------------------------------------------------ACT  PDB: A:339-410 UniProt: 339-410                                     PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1sc6 A   7 EKDKIKFLLVEGVHQKALESLRAAGYTNIEFHKGALDDEQLKESIRDAHFIGLRSRTHLTEDVINAAEKLVAIGAFAIGTNQVDLDAAAKRGIPVFNAPFSNTRSVAELVIGELLLLLRGVPEANAKAHRGVGN-----SFEARGKKLGIIGYGHIGTQLGILAESLGmYVYFYDIENKLPLGNATQVQHLSDLLNmSDVVSLHVPENPSTKNmmGAKEISLmKPGSLLINASRGTVVDIPALADALASKHLAGAAIDV---------DPFTSPLAEFDNVLLTPHIGGSTQEAQENIGLEVAGKLIKYSDNGSTLSAVNFPEVSLPLHGGRRLmHIHENRPGVLTALNKIFAEQGVNIAAQYLQTSAQmGYVVIDIEADEDVAEKALQAmKAIPGTIRARLLY 410
                                    16        26        36        46        56        66        76        86        96       106       116       126       136   |   146       156       166       176       186       196      |206       216   ||  226  |    236       246       256        |-       276       286       296       306       316       326       336    |  346       356       366       376       386       396|      406    
                                                                                                                                                               140   146                          175-MSE                     203-MSE          220-MSE  229-MSE                             265       275                                                               341-MSE                            376-MSE              397-MSE         
                                                                                                                                                                                                                                                221-MSE                                                                                                                                                                                         


Chain B from PDB  Type:PROTEIN  Length:385
 aligned with SERA_ECOLI | P0A9T0 from UniProtKB/Swiss-Prot  Length:410

    Alignment length:404
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406    
           SERA_ECOLI     7 EKDKIKFLLVEGVHQKALESLRAAGYTNIEFHKGALDDEQLKESIRDAHFIGLRSRTHLTEDVINAAEKLVAIGCFCIGTNQVDLDAAAKRGIPVFNAPFSNTRSVAELVIGELLLLLRGVPEANAKAHRGVWNKLAAGSFEARGKKLGIIGYGHIGTQLGILAESLGMYVYFYDIENKLPLGNATQVQHLSDLLNMSDVVSLHVPENPSTKNMMGAKEISLMKPGSLLINASRGTVVDIPALCDALASKHLAGAAIDVFPTEPATNSDPFTSPLCEFDNVLLTPHIGGSTQEAQENIGLEVAGKLIKYSDNGSTLSAVNFPEVSLPLHGGRRLMHIHENRPGVLTALNKIFAEQGVNIAAQYLQTSAQMGYVVIDIEADEDVAEKALQAMKAIPGTIRARLLY 410
               SCOP domains d1sc6b2 B:7-107,B:296-326 Phosphoglycerate dehydrogenase                                             d1sc6b1 B:108-295 Phosphoglycerat     e dehydrogenase                                                                                                                                       d1sc6b2 B:7-107,B:296-326      d1sc6b3 B:327-410 Phosphoglycerate dehydrogenase, regulatory (C-terminal) domain     SCOP domains
               CATH domains 1sc6B01 B:7-108,B:296-326 NAD(P)-binding Rossmann-like Domain                                         1sc6B02 B:109-295 NAD(P)-binding      Rossmann-like Domain                                                                                                                                 1sc6B01 B:7-108,B:296-326      -1sc6B03 B:328-409  [code=3.30.70.260, no name defined]                            - CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eee....hhhhhhhhhhh....eee.....hhhhhhhhhh...eeee......hhhhhhhh....eeee........hhhhhhhh...ee.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhh....-----.......eeeee..hhhhhhhhhhhhhh..eeeee...........ee..hhhhhhhhh.eeee............hhhhhhhh...eeeee.......hhhhhhhhhhh..eeeeee.--------------........eee..........hhhhhhhhhhhhhhhhhhhh..................eeeeeeee...hhhhhhhhhhhhh...eeeeeeeee..eeeeeeee..hhhhhhhhhhhhhh...eeeeeeee Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------D_2_HYDROXYACID_DH_1        ------------------D_2_HYDROXYACID_DH_2   ------D_2_HYDROXYACID_D---------------------------------------------------------------------------------------------ACT  PDB: B:339-410 UniProt: 339-410                                     PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1sc6 B   7 EKDKIKFLLVEGVHQKALESLRAAGYTNIEFHKGALDDEQLKESIRDAHFIGLRSRTHLTEDVINAAEKLVAIGAFAIGTNQVDLDAAAKRGIPVFNAPFSNTRSVAELVIGELLLLLRGVPEANAKAHRGVGN-----SFEARGKKLGIIGYGHIGTQLGILAESLGmYVYFYDIENKLPLGNATQVQHLSDLLNmSDVVSLHVPENPSTKNmmGAKEISLmKPGSLLINASRGTVVDIPALADALASKHLAGAAID--------------SPLAEFDNVLLTPHIGGSTQEAQENIGLEVAGKLIKYSDNGSTLSAVNFPEVSLPLHGGRRLmHIHENRPGVLTALNKIFAEQGVNIAAQYLQTSAQmGYVVIDIEADEDVAEKALQAmKAIPGTIRARLLY 410
                                    16        26        36        46        56        66        76        86        96       106       116       126       136   |   146       156       166       176       186       196      |206       216   ||  226  |    236       246       256       | -         -  |    286       296       306       316       326       336    |  346       356       366       376       386       396|      406    
                                                                                                                                                               140   146                          175-MSE                     203-MSE          220-MSE  229-MSE                            264            279                                                           341-MSE                            376-MSE              397-MSE         
                                                                                                                                                                                                                                                221-MSE                                                                                                                                                                                         


Chain C from PDB  Type:PROTEIN  Length:378
 aligned with SERA_ECOLI | P0A9T0 from UniProtKB/Swiss-Prot  Length:410

    Alignment length:402
                                    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  
           SERA_ECOLI     9 DKIKFLLVEGVHQKALESLRAAGYTNIEFHKGALDDEQLKESIRDAHFIGLRSRTHLTEDVINAAEKLVAIGCFCIGTNQVDLDAAAKRGIPVFNAPFSNTRSVAELVIGELLLLLRGVPEANAKAHRGVWNKLAAGSFEARGKKLGIIGYGHIGTQLGILAESLGMYVYFYDIENKLPLGNATQVQHLSDLLNMSDVVSLHVPENPSTKNMMGAKEISLMKPGSLLINASRGTVVDIPALCDALASKHLAGAAIDVFPTEPATNSDPFTSPLCEFDNVLLTPHIGGSTQEAQENIGLEVAGKLIKYSDNGSTLSAVNFPEVSLPLHGGRRLMHIHENRPGVLTALNKIFAEQGVNIAAQYLQTSAQMGYVVIDIEADEDVAEKALQAMKAIPGTIRARLLY 410
               SCOP domains d1sc6c2 C:9-107,C:299-326 Phosphoglycerate dehydrogenase                                           d1sc6c1 C:108-291 Phosphoglycerat    e dehydrogenase                                                                                                                                           d1sc6c2 C:9-107,C:299-326   d1sc6c3 C:327-410 Phosphoglycerate dehydrogenase, regulatory (C-terminal) domain     SCOP domains
               CATH domains 1sc6C01 C:9-108,C:299-326 NAD(P)-binding Rossmann-like Domain                                       1sc6C02 C:109-291 NAD(P)-binding     Rossmann-like Domain                                                                                                                                     1sc6C01 C:9-108,C:299-326   -1sc6C03 C:328-409  [code=3.30.70.260, no name defined]                            - CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....eee....hhhhhhhhhhh....eee.....hhhhhhhhhh...eeee......hhhhhhhh....eeee........hhhhhhhh...ee.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhh....----........eeeee..hhhhhhhhhhhhhh..eeeee...........ee..hhhhhhhhh.eeee............hhhhhhhh...eeeee.......hhhhhhhhhhh..eeeeeee.-------------........eeee.-------.hhhhhhhhhhhhhhhhhhhh..................eeeeeeee...hhhhhhhhhhhhh...eeeeeeee...eeeeeeee..hhhhhhhhhhhhhh...eeeeeeee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------D_2_HYDROXYACID_DH_1        ------------------D_2_HYDROXYACID_DH_2   ------D_2_HYDROXYACID_D---------------------------------------------------------------------------------------------ACT  PDB: C:339-410 UniProt: 339-410                                     PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1sc6 C   9 DKIKFLLVEGVHQKALESLRAAGYTNIEFHKGALDDEQLKESIRDAHFIGLRSRTHLTEDVINAAEKLVAIGAFAIGTNQVDLDAAAKRGIPVFNAPFSNTRSVAELVIGELLLLLRGVPEANAKAHRGVGN----GSFEARGKKLGIIGYGHIGTQLGILAESLGmYVYFYDIENKLPLGNATQVQHLSDLLNmSDVVSLHVPENPSTKNmmGAKEISLmKPGSLLINASRGTVVDIPALADALASKHLAGAAIDV-------------SPLAEFDNVLLTP-------EAQENIGLEVAGKLIKYSDNGSTLSAVNFPEVSLPLHGGRRLmHIHENRPGVLTALNKIFAEQGVNIAAQYLQTSAQmGYVVIDIEADEDVAEKALQAmKAIPGTIRARLLY 410
                                    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      |  -         -|      288  |      -|      308       318       328       338  |    348       358       368       378       388       398       408  
                                                                                                                                                             140  145                           175-MSE                     203-MSE          220-MSE  229-MSE                             265           279         291     299                                       341-MSE                            376-MSE              397-MSE         
                                                                                                                                                                                                                                              221-MSE                                                                                                                                                                                         


Chain D from PDB  Type:PROTEIN  Length:384
 aligned with SERA_ECOLI | P0A9T0 from UniProtKB/Swiss-Prot  Length:410

    Alignment length:404
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406    
           SERA_ECOLI     7 EKDKIKFLLVEGVHQKALESLRAAGYTNIEFHKGALDDEQLKESIRDAHFIGLRSRTHLTEDVINAAEKLVAIGCFCIGTNQVDLDAAAKRGIPVFNAPFSNTRSVAELVIGELLLLLRGVPEANAKAHRGVWNKLAAGSFEARGKKLGIIGYGHIGTQLGILAESLGMYVYFYDIENKLPLGNATQVQHLSDLLNMSDVVSLHVPENPSTKNMMGAKEISLMKPGSLLINASRGTVVDIPALCDALASKHLAGAAIDVFPTEPATNSDPFTSPLCEFDNVLLTPHIGGSTQEAQENIGLEVAGKLIKYSDNGSTLSAVNFPEVSLPLHGGRRLMHIHENRPGVLTALNKIFAEQGVNIAAQYLQTSAQMGYVVIDIEADEDVAEKALQAMKAIPGTIRARLLY 410
               SCOP domains d1sc6d2 D:7-107,D:296-326 Phosphoglycerate dehydrogenase                                             d1sc6d1 D:108-291 Phosphoglycera      te dehydrogenase                                                                                                                                      d1sc6d2 D:7-107,D:296-326      d1sc6d3 D:327-410 Phosphoglycerate dehydrogenase, regulatory (C-terminal) domain     SCOP domains
               CATH domains 1sc6D01 D:7-108,D:298-326 NAD(P)-binding Rossmann-like Domain                                         1sc6D02 D:109-297 NAD(P)-bindin      g Rossmann-like Domain                                                                                                                                  1sc6D01 D:7-108,D:298-326    -1sc6D03 D:328-409  [code=3.30.70.260, no name defined]                            - CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eee....hhhhhhhhhhh....eee.....hhhhhhhhhh...eeee......hhhhhhhh....eeee........hhhhhhhh...ee.....hhhhhhhhhhhhhhhhhhhhhhhhhhhh....------.......eeeee..hhhhhhhhhhhhhh..eeeee...........ee..hhhhhhhhh.eeee............hhhhhhhh...eeeee.......hhhhhhhhhhh..eeeeeee.----------..hhhhh....eeee.----...hhhhhhhhhhhhhhhhhhhhh..................eeeeeeee...hhhhhhhhhhhh...eeeeeeeee...eeeeeeeee.hhhhhhhhhhhhhhh..eeeeeeee Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------D_2_HYDROXYACID_DH_1        ------------------D_2_HYDROXYACID_DH_2   ------D_2_HYDROXYACID_D---------------------------------------------------------------------------------------------ACT  PDB: D:339-410 UniProt: 339-410                                     PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1sc6 D   7 EKDKIKFLLVEGVHQKALESLRAAGYTNIEFHKGALDDEQLKESIRDAHFIGLRSRTHLTEDVINAAEKLVAIGAFAIGTNQVDLDAAAKRGIPVFNAPFSNTRSVAELVIGELLLLLRGVPEANAKAHRGVG------SFEARGKKLGIIGYGHIGTQLGILAESLGmYVYFYDIENKLPLGNATQVQHLSDLLNmSDVVSLHVPENPSTKNmmGAKEISLmKPGSLLINASRGTVVDIPALADALASKHLAGAAIDV----------PFTSPLAEFDNVLLTP----STQEAQENIGLEVAGKLIKYSDNGSTLSAVNFPEVSLPLHGGRRLmHIHENRPGVLTALNKIFAEQGVNIAAQYLQTSAQmGYVVIDIEADEDVAEKALQAmKAIPGTIRARLLY 410
                                    16        26        36        46        56        66        76        86        96       106       116       126       136  |    146       156       166       176       186       196      |206       216   ||  226  |    236       246       256        |-       276       286    |  296       306       316       326       336    |  346       356       366       376       386       396|      406    
                                                                                                                                                              139    146                          175-MSE                     203-MSE          220-MSE  229-MSE                             265        276            291  296                                          341-MSE                            376-MSE              397-MSE         
                                                                                                                                                                                                                                                221-MSE
   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  (3, 12)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (2, 12)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1SC6)

(-) Gene Ontology  (13, 13)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C,D   (SERA_ECOLI | P0A9T0)
molecular function
    GO:0047545    2-hydroxyglutarate dehydrogenase activity    Catalysis of the reaction: (S)-2-hydroxyglutarate + acceptor = 2-oxoglutarate + reduced acceptor.
    GO:0051287    NAD binding    Interacting selectively and non-covalently with nicotinamide adenine dinucleotide, a coenzyme involved in many redox and biosynthetic reactions; binding may be to either the oxidized form, NAD+, or the reduced form, NADH.
    GO:0016597    amino acid binding    Interacting selectively and non-covalently with an amino acid, organic acids containing one or more amino substituents.
    GO:0042802    identical protein binding    Interacting selectively and non-covalently with an identical protein or proteins.
    GO:0016491    oxidoreductase activity    Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
    GO:0016616    oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor    Catalysis of an oxidation-reduction (redox) reaction in which a CH-OH group acts as a hydrogen or electron donor and reduces NAD+ or NADP.
    GO:0004617    phosphoglycerate dehydrogenase activity    Catalysis of the reaction: 3-phosphoglycerate + NAD+ = 3-phosphohydroxypyruvate + NADH + H+.
    GO:0070905    serine binding    Interacting selectively and non-covalently with 2-amino-3-hydroxypropanoic acid.
biological process
    GO:0006564    L-serine biosynthetic process    The chemical reactions and pathways resulting in the formation of L-serine, the L-enantiomer of serine, i.e. (2S)-2-amino-3-hydroxypropanoic acid.
    GO:0008652    cellular amino acid biosynthetic process    The chemical reactions and pathways resulting in the formation of amino acids, organic acids containing one or more amino substituents.
    GO:0008152    metabolic process    The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
cellular component
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

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  1.1.1.95
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 Related Entries

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        SERA_ECOLI | P0A9T0: 1psd 1yba 2p9c 2p9e 2p9g 2pa3

(-) Related Entries Specified in the PDB File

1psd THE ALLOSTERIC LIGAND SITE IN THE VMAX-TYPE COOPERATIVE ENZYME PHOSPHOGLYCERATE DEHYDROGENASE