Show PDB file:   
         Plain Text   HTML   (compressed file size)
QuickSearch:   
by PDB,NDB,UniProt,PROSITE Code or Search Term(s)  
(-)Asymmetric Unit
(-)Asym. Unit - sites
(-)Biological Unit 1
(-)Biol. Unit 1 - sites
(-)Biological Unit 2
collapse expand < >
Image Asymmetric Unit
Asymmetric Unit  (Jmol Viewer)
Image Asym. Unit - sites
Asym. Unit - sites  (Jmol Viewer)
Image Biological Unit 1
Biological Unit 1  (Jmol Viewer)
Image Biol. Unit 1 - sites
Biol. Unit 1 - sites  (Jmol Viewer)
Image Biological Unit 2
Biological Unit 2  (Jmol Viewer)

(-) Description

Title :  DIHYDROOROTATE DEHYDROGENASE
 
Authors :  T. L. Arakaki, E. A. Merritt, Structural Genomics Of Pathogenic Pr Consortium (Sgpp)
Date :  23 Sep 05  (Deposition) - 11 Oct 05  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.95
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  Structural Genomics, Psi, Protein Structure Initiative, Structural Genomics Of Pathogenic Protozoa Consortium, Sgpp, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. L. Arakaki, F. S. Buckner, J. R. Gillespie, N. A. Malmquist, M. A. Phillips, O. Kalyuzhniy, J. R. Luft, G. T. Detitta, C. L. Verlinde W. C. Van Voorhis, W. G. Hol, E. A. Merritt
Characterization Of Trypanosoma Brucei Dihydroorotate Dehydrogenase As A Possible Drug Target; Structural, Kineti And Rnai Studies
Mol. Microbiol. V. 68 37 2008
PubMed-ID: 18312275  |  Reference-DOI: 10.1111/J.1365-2958.2008.06131.X

(-) Compounds

Molecule 1 - DIHYDROOROTATE DEHYDROGENASE
    Chains: A, B, C, D
    EC Number: 1.3.99.11
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET14B
    Expression System Taxid: 562
    Expression System Vector: AVA421
    Expression System Vector Type: PLASMID
    Gene: TB927.5.3830
    Organism Scientific: TRYPANOSOMA BRUCEI
    Organism Taxid: 5691

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 23)

Asymmetric Unit (4, 23)
No.NameCountTypeFull Name
1BR11Ligand/IonBROMIDE ION
2FMN4Ligand/IonFLAVIN MONONUCLEOTIDE
3GOL4Ligand/IonGLYCEROL
4ORO4Ligand/IonOROTIC ACID
Biological Unit 1 (3, 6)
No.NameCountTypeFull Name
1BR-1Ligand/IonBROMIDE ION
2FMN2Ligand/IonFLAVIN MONONUCLEOTIDE
3GOL2Ligand/IonGLYCEROL
4ORO2Ligand/IonOROTIC ACID
Biological Unit 2 (3, 6)
No.NameCountTypeFull Name
1BR-1Ligand/IonBROMIDE ION
2FMN2Ligand/IonFLAVIN MONONUCLEOTIDE
3GOL2Ligand/IonGLYCEROL
4ORO2Ligand/IonOROTIC ACID

(-) Sites  (20, 20)

Asymmetric Unit (20, 20)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLN A:139 , ASN A:199 , ILE B:172BINDING SITE FOR RESIDUE BR A 1411
02AC2SOFTWARETYR A:169 , PHE A:170 , HIS A:174BINDING SITE FOR RESIDUE BR A 1412
03AC3SOFTWAREHOH A:1515BINDING SITE FOR RESIDUE BR A 1414
04AC4SOFTWAREPRO A:161 , HOH A:1500BINDING SITE FOR RESIDUE BR A 1415
05AC5SOFTWAREALA A:19 , ALA A:20 , GLY A:21 , LYS A:44 , SER A:45 , TYR A:59 , ASN A:68 , MET A:70 , ASN A:128 , LYS A:165 , VAL A:194 , ASN A:195 , GLY A:222 , GLY A:223 , VAL A:226 , CYS A:249 , GLY A:250 , GLY A:251 , GLY A:272 , THR A:273 , ORO A:1399 , HOH A:1418 , HOH A:1438 , HOH A:1459BINDING SITE FOR RESIDUE FMN A 1400
06AC6SOFTWARELYS A:44 , ASN A:68 , MET A:70 , GLY A:71 , LEU A:72 , ASN A:128 , CYS A:131 , PRO A:132 , ASN A:133 , ASN A:195 , SER A:196 , FMN A:1400BINDING SITE FOR RESIDUE ORO A 1399
07AC7SOFTWAREILE A:172 , ARG A:239 , ARG A:240 , HOH A:1504 , HOH A:1521 , HOH A:1568 , LYS B:215 , PHE B:218BINDING SITE FOR RESIDUE GOL A 1401
08AC8SOFTWAREASP A:277 , ASP D:277BINDING SITE FOR RESIDUE GOL A 1403
09AC9SOFTWAREASN B:296 , GLU D:27BINDING SITE FOR RESIDUE BR B 2410
10BC1SOFTWAREALA B:19 , ALA B:20 , GLY B:21 , LYS B:44 , SER B:45 , ASN B:68 , ASN B:128 , LYS B:165 , VAL B:194 , ASN B:195 , GLY B:223 , VAL B:226 , CYS B:249 , GLY B:250 , GLY B:251 , GLY B:272 , THR B:273 , ORO B:2399 , HOH B:2411 , HOH B:2414 , HOH B:2435BINDING SITE FOR RESIDUE FMN B 2400
11BC2SOFTWARELYS B:44 , ASN B:68 , MET B:70 , GLY B:71 , LEU B:72 , ASN B:128 , CYS B:131 , PRO B:132 , ASN B:133 , ASN B:195 , SER B:196 , FMN B:2400BINDING SITE FOR RESIDUE ORO B 2399
12BC3SOFTWAREASN C:296BINDING SITE FOR RESIDUE BR C 3410
13BC4SOFTWARELEU C:23 , GOL C:3401BINDING SITE FOR RESIDUE BR C 3411
14BC5SOFTWAREILE D:172BINDING SITE FOR RESIDUE BR C 4410
15BC6SOFTWAREALA C:19 , ALA C:20 , GLY C:21 , LYS C:44 , SER C:45 , ASN C:68 , ASN C:128 , LYS C:165 , VAL C:194 , ASN C:195 , GLY C:223 , VAL C:226 , CYS C:249 , GLY C:250 , GLY C:251 , GLY C:272 , THR C:273 , ORO C:3399 , HOH C:4418 , HOH C:4421 , HOH C:4435BINDING SITE FOR RESIDUE FMN C 3400
16BC7SOFTWARELYS C:44 , ASN C:68 , MET C:70 , GLY C:71 , LEU C:72 , ASN C:128 , CYS C:131 , PRO C:132 , ASN C:133 , ASN C:195 , SER C:196 , FMN C:3400BINDING SITE FOR RESIDUE ORO C 3399
17BC8SOFTWAREHOH A:1556 , HOH A:1581 , TYR C:59 , MET C:70 , HIS C:276 , BR C:3411 , HOH C:4509 , HOH C:4567BINDING SITE FOR RESIDUE GOL C 3401
18BC9SOFTWAREALA D:19 , ALA D:20 , GLY D:21 , LYS D:44 , SER D:45 , TYR D:59 , ASN D:68 , ASN D:128 , LYS D:165 , VAL D:194 , ASN D:195 , GLY D:223 , CYS D:249 , GLY D:250 , GLY D:251 , GLY D:272 , THR D:273 , ORO D:4399 , HOH D:4416 , HOH D:4423 , HOH D:4457BINDING SITE FOR RESIDUE FMN D 4400
19CC1SOFTWARELYS D:44 , ASN D:68 , MET D:70 , GLY D:71 , LEU D:72 , ASN D:128 , CYS D:131 , PRO D:132 , ASN D:133 , ASN D:195 , SER D:196 , FMN D:4400BINDING SITE FOR RESIDUE ORO D 4399
20CC2SOFTWARELYS C:215 , PHE C:218 , ILE D:172 , ARG D:239 , ARG D:240 , HOH D:4443 , HOH D:4512 , HOH D:4540BINDING SITE FOR RESIDUE GOL D 4401

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2B4G)

(-) Cis Peptide Bonds  (8, 8)

Asymmetric Unit
No.Residues
1Glu A:56 -Pro A:57
2Cys A:193 -Val A:194
3Glu B:56 -Pro B:57
4Cys B:193 -Val B:194
5Glu C:56 -Pro C:57
6Cys C:193 -Val C:194
7Glu D:56 -Pro D:57
8Cys D:193 -Val D:194

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2B4G)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2B4G)

(-) Exons   (0, 0)

(no "Exon" information available for 2B4G)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:312
 aligned with PYRD_TRYB2 | Q57U83 from UniProtKB/Swiss-Prot  Length:313

    Alignment length:312
                                    11        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  
           PYRD_TRYB2     2 SLKVNILGHEFSNPFMNAAGVLCTTEEDLRRMTESESGSLIGKSCTLAPRTGNPEPRYFGLPLGSINSMGLPNLGVDFYLSYAAQTHDYSRKPLFLSMSGLSVEESVEMVKKLAPITKEKGTILELNLSCPNVPGKPQVGYDFDTTRTYLQKVSEAYGLPFGVKMPPYFDIAHFDMAAAVLNDFPLVKFITCVNSIGNGLVIDPANETVVIKPKQGFGGLGGKYVLPTALANVNAFFRRCPDKLVFGCGGVYSGEEAFLHILAGASMVQVGTALHDEGPIIFARLNKELQEIMTNKGYKTLDEFRGRVKTMD 313
               SCOP domains d2b4ga1 A:2-313 Dihydroorotate dehydrogenase                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains 2b4gA01 A:2-53,A:72-196,A:223-313 Aldolase class I  2b4gA02           2b4gA01 A:2-53,A:72-196,A:223-313 Aldolase class I                                                                           2b4gA02 A:54-71,A:197-222 2b4gA01 A:2-53,A:72-196,A:223-313 Aldolase class I                                          CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eee..eee...eee.......hhhhhhhhhhh....eeeeee............eeee..eeee.......hhhhhhhhhhhh.......eeeee...hhhhhhhhhhhhhhhhhhhh.eeeee..........hhhhhhhhhhhhhhhhhhhhh..eeeee....hhhhhhhhhhhhh....eeeeee...eeeee.ee....ee..hhhh.eeeeee..hhhhhhhhhhhhhhhh...eeeee....hhhhhhhhhhhheeeeeehhhhhhhh.hhhhhhhhhhhhhhhhhh..hhhhh........ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2b4g A   2 SLKVNILGHEFSNPFMNAAGVLCTTEEDLRRMTESESGSLIGKSCTLAPRTGNPEPRYFGLPLGSINSMGLPNLGVDFYLSYAAQTHDYSRKPLFLSMSGLSVEESVEMVKKLVPITKEKGTILELNLSCPNVPGKPQVGYDFDTTRTYLQKVSEAYGLPFGVKMPPYFDIAHFDMAAAVLNDFPLVKFITCVNSIGNGLVIDPANETVVIKPKQGFGGLGGKYVLPTALANVNAFFRRCPDKLVFGCGGVYSGEEAFLHILAGASMVQVGTALHDEGPIIFARLNKELQEIMTNKGYKTLDEFRGRVKTMD 313
                                    11        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  


Chain B from PDB  Type:PROTEIN  Length:313
 aligned with PYRD_TRYB2 | Q57U83 from UniProtKB/Swiss-Prot  Length:313

    Alignment length:313
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310   
           PYRD_TRYB2     1 MSLKVNILGHEFSNPFMNAAGVLCTTEEDLRRMTESESGSLIGKSCTLAPRTGNPEPRYFGLPLGSINSMGLPNLGVDFYLSYAAQTHDYSRKPLFLSMSGLSVEESVEMVKKLAPITKEKGTILELNLSCPNVPGKPQVGYDFDTTRTYLQKVSEAYGLPFGVKMPPYFDIAHFDMAAAVLNDFPLVKFITCVNSIGNGLVIDPANETVVIKPKQGFGGLGGKYVLPTALANVNAFFRRCPDKLVFGCGGVYSGEEAFLHILAGASMVQVGTALHDEGPIIFARLNKELQEIMTNKGYKTLDEFRGRVKTMD 313
               SCOP domains d2b4gb_ B: automated matches                                                                                                                                                                                                                                                                                              SCOP domains
               CATH domains 2b4gB01 B:1-53,B:72-196,B:223-313 Aldolase class I   2b4gB02           2b4gB01 B:1-53,B:72-196,B:223-313 Aldolase class I                                                                           2b4gB02 B:54-71,B:197-222 2b4gB01 B:1-53,B:72-196,B:223-313 Aldolase class I                                          CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eee..eee...eee.......hhhhhhhhhhh....eeeeee............eeee..eeee.......hhhhhhhhhhhh.......eeeee...hhhhhhhhhhhhhhhhhhhh.eeeee..........hhhhhhhhhhhhhhhhhhhhh..eeeee....hhhhhhhhhhhhhh...eeeeee...eeeee.ee....ee..hhhh.eeeeee..hhhhhhhhhhhhhhhh...eeeee....hhhhhhhhhhhheeeeeehhhhhhhh.hhhhhhhhhhhhhhhhhh..hhhhh........ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2b4g B   1 MSLKVNILGHEFSNPFMNAAGVLCTTEEDLRRMTESESGSLIGKSCTLAPRTGNPEPRYFGLPLGSINSMGLPNLGVDFYLSYAAQTHDYSRKPLFLSMSGLSVEESVEMVKKLVPITKEKGTILELNLSCPNVPGKPQVGYDFDTTRTYLQKVSEAYGLPFGVKMPPYFDIAHFDMAAAVLNDFPLVKFITCVNSIGNGLVIDPANETVVIKPKQGFGGLGGKYVLPTALANVNAFFRRCPDKLVFGCGGVYSGEEAFLHILAGASMVQVGTALHDEGPIIFARLNKELQEIMTNKGYKTLDEFRGRVKTMD 313
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310   


Chain C from PDB  Type:PROTEIN  Length:313
 aligned with PYRD_TRYB2 | Q57U83 from UniProtKB/Swiss-Prot  Length:313

    Alignment length:313
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310   
           PYRD_TRYB2     1 MSLKVNILGHEFSNPFMNAAGVLCTTEEDLRRMTESESGSLIGKSCTLAPRTGNPEPRYFGLPLGSINSMGLPNLGVDFYLSYAAQTHDYSRKPLFLSMSGLSVEESVEMVKKLAPITKEKGTILELNLSCPNVPGKPQVGYDFDTTRTYLQKVSEAYGLPFGVKMPPYFDIAHFDMAAAVLNDFPLVKFITCVNSIGNGLVIDPANETVVIKPKQGFGGLGGKYVLPTALANVNAFFRRCPDKLVFGCGGVYSGEEAFLHILAGASMVQVGTALHDEGPIIFARLNKELQEIMTNKGYKTLDEFRGRVKTMD 313
               SCOP domains d2b4gc_ C: automated matches                                                                                                                                                                                                                                                                                              SCOP domains
               CATH domains 2b4gC01 C:1-53,C:72-196,C:223-313 Aldolase class I   2b4gC02           2b4gC01 C:1-53,C:72-196,C:223-313 Aldolase class I                                                                           2b4gC02 C:54-71,C:197-222 2b4gC01 C:1-53,C:72-196,C:223-313 Aldolase class I                                          CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eee..eee...eee.......hhhhhhhhhhh....eeeeee............eeee..eeee.......hhhhhhhhhhh........eeeee...hhhhhhhhhhhhhhhhhhhh.eeeee..........hhhhhhhhhhhhhhhhhhhhh..eeeee....hhhhhhhhhhhhhh...eeeeee...eeeee.ee....ee..hhhh.eeeeehhhhhhhhhhhhhhhhhhh...eeeee....hhhhhhhhhhhheeeeeehhhhhhhh.hhhhhhhhhhhhhhhhhh..hhhhh........ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2b4g C   1 MSLKVNILGHEFSNPFMNAAGVLCTTEEDLRRMTESESGSLIGKSCTLAPRTGNPEPRYFGLPLGSINSMGLPNLGVDFYLSYAAQTHDYSRKPLFLSMSGLSVEESVEMVKKLVPITKEKGTILELNLSCPNVPGKPQVGYDFDTTRTYLQKVSEAYGLPFGVKMPPYFDIAHFDMAAAVLNDFPLVKFITCVNSIGNGLVIDPANETVVIKPKQGFGGLGGKYVLPTALANVNAFFRRCPDKLVFGCGGVYSGEEAFLHILAGASMVQVGTALHDEGPIIFARLNKELQEIMTNKGYKTLDEFRGRVKTMD 313
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310   


Chain D from PDB  Type:PROTEIN  Length:312
 aligned with PYRD_TRYB2 | Q57U83 from UniProtKB/Swiss-Prot  Length:313

    Alignment length:312
                                    11        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  
           PYRD_TRYB2     2 SLKVNILGHEFSNPFMNAAGVLCTTEEDLRRMTESESGSLIGKSCTLAPRTGNPEPRYFGLPLGSINSMGLPNLGVDFYLSYAAQTHDYSRKPLFLSMSGLSVEESVEMVKKLAPITKEKGTILELNLSCPNVPGKPQVGYDFDTTRTYLQKVSEAYGLPFGVKMPPYFDIAHFDMAAAVLNDFPLVKFITCVNSIGNGLVIDPANETVVIKPKQGFGGLGGKYVLPTALANVNAFFRRCPDKLVFGCGGVYSGEEAFLHILAGASMVQVGTALHDEGPIIFARLNKELQEIMTNKGYKTLDEFRGRVKTMD 313
               SCOP domains d2b4gd_ D: automated matches                                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains 2b4gD01 D:2-53,D:72-196,D:223-313 Aldolase class I  2b4gD02           2b4gD01 D:2-53,D:72-196,D:223-313 Aldolase class I                                                                           2b4gD02 D:54-71,D:197-222 2b4gD01 D:2-53,D:72-196,D:223-313 Aldolase class I                                          CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eee..eee...eee.......hhhhhhhhhhh....eeeeee............eeee..eeee.......hhhhhhhhhhhh.......eeeee...hhhhhhhhhhhhhhhhhhhh.eeeee..........hhhhhhhhhhhhhhhhhhhhh..eeeee....hhhhhhhhhhhhhh...eeeeee...eeeee.ee....ee..hhhh.eeeeehhhhhhhhhhhhhhhhhhh...eeeee....hhhhhhhhhhhheeeeeehhhhhhhh.hhhhhhhhhhhhhhhhhh............... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2b4g D   2 SLKVNILGHEFSNPFMNAAGVLCTTEEDLRRMTESESGSLIGKSCTLAPRTGNPEPRYFGLPLGSINSMGLPNLGVDFYLSYAAQTHDYSRKPLFLSMSGLSVEESVEMVKKLVPITKEKGTILELNLSCPNVPGKPQVGYDFDTTRTYLQKVSEAYGLPFGVKMPPYFDIAHFDMAAAVLNDFPLVKFITCVNSIGNGLVIDPANETVVIKPKQGFGGLGGKYVLPTALANVNAFFRRCPDKLVFGCGGVYSGEEAFLHILAGASMVQVGTALHDEGPIIFARLNKELQEIMTNKGYKTLDEFRGRVKTMD 313
                                    11        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
   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  (2, 4)

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

(-) CATH Domains  (2, 8)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)
(-)
Architecture: Alpha-Beta Barrel (2994)
(-)
Topology: TIM Barrel (2806)
(-)
Homologous Superfamily: Aldolase class I (887)
(-)
Trypanosoma brucei. Organism_taxid: 5691. (2)
1a2b4gB01B:1-53,B:72-196,B:223-313
1b2b4gC01C:1-53,C:72-196,C:223-313
1c2b4gA01A:2-53,A:72-196,A:223-313
1d2b4gD01D:2-53,D:72-196,D:223-313
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2B4G)

(-) Gene Ontology  (13, 13)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (PYRD_TRYB2 | Q57U83)
molecular function
    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:1990663    dihydroorotate dehydrogenase (fumarate) activity    Catalysis of the reaction: (S)-dihydroorotate + fumarate = orotate + succinate.
    GO:0004152    dihydroorotate dehydrogenase activity    Catalysis of the reaction: (S)-dihydroorotate + A = AH(2) + orotate.
    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:0016627    oxidoreductase activity, acting on the CH-CH group of donors    Catalysis of an oxidation-reduction (redox) reaction in which a CH-CH group acts as a hydrogen or electron donor and reduces a hydrogen or electron acceptor.
biological process
    GO:0044205    'de novo' UMP biosynthetic process    The chemical reactions and pathways resulting in the formation of UMP, uridine monophosphate, starting with the synthesis of (S)-dihydroorotate from bicarbonate; UMP biosynthesis may either occur via reduction by quinone, NAD(+) or oxygen.
    GO:0006207    'de novo' pyrimidine nucleobase biosynthetic process    The chemical reactions and pathways resulting in the formation of pyrimidine nucleobases, 1,3-diazine, organic nitrogenous bases, beginning with the synthesis of a pyrimidine ring from simpler precursors.
    GO:0006222    UMP biosynthetic process    The chemical reactions and pathways resulting in the formation of UMP, uridine monophosphate.
    GO:0006106    fumarate metabolic process    The chemical reactions and pathways involving fumarate, the anion of trans-1,2-ethenedicarboxylic acid, the diastereoisomer of maleate. It is a key intermediate in metabolism and is formed in the TCA cycle from succinate and converted into malate.
    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.
    GO:0006221    pyrimidine nucleotide biosynthetic process    The chemical reactions and pathways resulting in the formation of a pyrimidine nucleotide, a compound consisting of nucleoside (a pyrimidine base linked to a deoxyribose or ribose sugar) esterified with a phosphate group at either the 3' or 5'-hydroxyl group of the sugar.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0020015    glycosome    A membrane-bounded organelle found in organisms from the order Kinetoplastida that houses the enzymes of glycolysis.

 Visualization

(-) Interactive Views

Asymmetric Unit
  Complete Structure
    Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
    WebMol | AstexViewer[tm]@PDBe
(Java Applets, require no local installation except for Java; loading may be slow)
    STRAP
(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    RasMol
(require local installation)
    Molscript (VRML)
(requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)
 
  Ligands, Modified Residues, Ions
    BR  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    FMN  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    GOL  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    ORO  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
 
  Sites
    AC1  [ RasMol ]  +environment [ RasMol ]
    AC2  [ RasMol ]  +environment [ RasMol ]
    AC3  [ RasMol ]  +environment [ RasMol ]
    AC4  [ RasMol ]  +environment [ RasMol ]
    AC5  [ RasMol ]  +environment [ RasMol ]
    AC6  [ RasMol ]  +environment [ RasMol ]
    AC7  [ RasMol ]  +environment [ RasMol ]
    AC8  [ RasMol ]  +environment [ RasMol ]
    AC9  [ RasMol ]  +environment [ RasMol ]
    BC1  [ RasMol ]  +environment [ RasMol ]
    BC2  [ RasMol ]  +environment [ RasMol ]
    BC3  [ RasMol ]  +environment [ RasMol ]
    BC4  [ RasMol ]  +environment [ RasMol ]
    BC5  [ RasMol ]  +environment [ RasMol ]
    BC6  [ RasMol ]  +environment [ RasMol ]
    BC7  [ RasMol ]  +environment [ RasMol ]
    BC8  [ RasMol ]  +environment [ RasMol ]
    BC9  [ RasMol ]  +environment [ RasMol ]
    CC1  [ RasMol ]  +environment [ RasMol ]
    CC2  [ RasMol ]  +environment [ RasMol ]
 
  Cis Peptide Bonds
    Cys A:193 - Val A:194   [ RasMol ]  
    Cys B:193 - Val B:194   [ RasMol ]  
    Cys C:193 - Val C:194   [ RasMol ]  
    Cys D:193 - Val D:194   [ RasMol ]  
    Glu A:56 - Pro A:57   [ RasMol ]  
    Glu B:56 - Pro B:57   [ RasMol ]  
    Glu C:56 - Pro C:57   [ RasMol ]  
    Glu D:56 - Pro D:57   [ RasMol ]  
 
Biological Units
  Complete Structure
    Biological Unit 1  [ Jena3D ]
    Biological Unit 2  [ Jena3D ]

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
[ Asym. Unit PNG format | Asym. Unit - sites PNG format | Biol. Unit 1 PNG format | Biol. Unit 1 - sites PNG format | Biol. Unit 2 PNG format ](automatic orientation, automatically generated)
Molscript
  protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick
[ mono PDF format | stereo PDF format ](default orientation, automatically generated)

 Databases and Analysis Tools

(-) Databases

Access by PDB/NDB ID
  2b4g
    Family and Domain Information: ProDom | SYSTERS
    General Structural Information: GlycoscienceDB | MMDB | NDB | OCA | PDB | PDBe | PDBj | PDBsum | PDBWiki | PQS | PROTEOPEDIA
    Orientation in Membranes: OPM
    Protein Surface: SURFACE
    Secondary Structure: DSSP (structure derived) | HSSP (homology derived)
    Structural Genomics: GeneCensus
    Structural Neighbours: CE | VAST
    Structure Classification: CATH | Dali | SCOP
    Validation and Original Data: BMRB Data View | BMRB Restraints Grid | EDS | PROCHECK | RECOORD | WHAT_CHECK
 
Access by UniProt ID/Accession number
  PYRD_TRYB2 | Q57U83
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/SwissProt
 
Access by Enzyme Classificator   (EC Number)
  1.3.99.11
    General Enzyme Information: BRENDA | EC-PDB | Enzyme | IntEnz
    Pathway: KEGG | MetaCyc
 
Access by Disease Identifier   (MIM ID)
  (no 'MIM ID' available)
    Disease Information: OMIM
 
Access by GenAge ID
  (no 'GenAge ID' available)
    Age Related Information: GenAge

(-) Analysis Tools

Access by PDB/NDB ID
    Domain Information: XDom
    Interatomic Contacts of Structural Units: CSU
    Ligand-protein Contacts: LPC
    Protein Cavities: castP
    Sequence and Secondary Structure: PDBCartoon
    Structure Alignment: STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    Structure and Sequence Browser: STING
 
Access by UniProt ID/Accession number
  PYRD_TRYB2 | Q57U83
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

(no "Entries Sharing at Least One Protein Chain" available for 2B4G)

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 2B4G)