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(-) Description

Title :  CRYSTAL STRUCTURE OF HUMAN DIHYDROOROTATE DEHYDROGENASE (DHODH) WITH 057
 
Authors :  L. Zhu, H. Li, J. Zhu, X. Ren
Date :  22 Mar 13  (Deposition) - 26 Mar 14  (Release) - 26 Mar 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A
Keywords :  Oxidoreductase, Fmn Binding, Mitochondrion Inner Membrane (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. Zhu, H. Li, J. Zhu, X. Ren
Crystal Structure Of Human Dihydroorotate Dehydrogenase (Dhodh) With 057
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - DIHYDROOROTATE DEHYDROGENASE (QUINONE), MITOCHONDRIAL
    Chains: A
    EC Number: 1.3.5.2
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 29-395
    Gene: DHODH
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: DHODEHASE, DIHYDROOROTATE OXIDASE

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 15)

Asymmetric/Biological Unit (5, 15)
No.NameCountTypeFull Name
1ACY5Ligand/IonACETIC ACID
2FMN1Ligand/IonFLAVIN MONONUCLEOTIDE
3JS31Ligand/Ion2-CHLORO-4-METHYL-N-(NAPHTHALEN-2-YL)-1,3-THIAZOLE-5-CARBOXAMIDE
4ORO1Ligand/IonOROTIC ACID
5SO47Ligand/IonSULFATE ION

(-) Sites  (15, 15)

Asymmetric Unit (15, 15)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREALA A:95 , ALA A:96 , GLY A:97 , LYS A:100 , SER A:120 , ASN A:145 , TYR A:147 , ASN A:181 , ASN A:212 , LYS A:255 , THR A:283 , ASN A:284 , THR A:285 , SER A:305 , GLY A:306 , LEU A:309 , VAL A:333 , GLY A:334 , GLY A:335 , LEU A:355 , TYR A:356 , THR A:357 , ORO A:402 , HOH A:501 , HOH A:504BINDING SITE FOR RESIDUE FMN A 401
02AC2SOFTWARELYS A:100 , ASN A:145 , TYR A:147 , GLY A:148 , PHE A:149 , ASN A:212 , SER A:215 , ASN A:217 , ASN A:284 , THR A:285 , FMN A:401BINDING SITE FOR RESIDUE ORO A 402
03AC3SOFTWARETYR A:38 , PHE A:62 , THR A:63 , LEU A:67 , PRO A:364BINDING SITE FOR RESIDUE JS3 A 403
04AC4SOFTWAREARG A:245 , VAL A:247 , HIS A:248 , HOH A:699BINDING SITE FOR RESIDUE SO4 A 404
05AC5SOFTWAREARG A:57 , HIS A:101 , ASN A:150 , HOH A:517 , HOH A:611 , HOH A:612BINDING SITE FOR RESIDUE SO4 A 405
06AC6SOFTWAREARG A:160 , GLN A:325BINDING SITE FOR RESIDUE SO4 A 406
07AC7SOFTWARELYS A:170 , THR A:261 , GLN A:263 , HOH A:526BINDING SITE FOR RESIDUE SO4 A 407
08AC8SOFTWAREARG A:246 , ARG A:249 , HOH A:736 , HOH A:762BINDING SITE FOR RESIDUE SO4 A 408
09AC9SOFTWAREGLY A:220 , ARG A:222 , HOH A:597 , HOH A:622BINDING SITE FOR RESIDUE SO4 A 409
10BC1SOFTWARETHR A:261 , SER A:262 , HOH A:526BINDING SITE FOR RESIDUE SO4 A 410
11BC2SOFTWARELYS A:307 , PRO A:308 , ASP A:311 , GLN A:315 , ARG A:318 , HOH A:548BINDING SITE FOR RESIDUE ACY A 411
12BC3SOFTWAREGLN A:168 , ALA A:169 , THR A:172 , LEU A:205 , ASP A:207 , HOH A:552BINDING SITE FOR RESIDUE ACY A 412
13BC4SOFTWAREHIS A:56 , ALA A:59 , PHE A:98 , HOH A:619BINDING SITE FOR RESIDUE ACY A 413
14BC5SOFTWAREALA A:163 , LYS A:167 , LYS A:227 , ASP A:267BINDING SITE FOR RESIDUE ACY A 414
15BC6SOFTWARELYS A:227 , ARG A:231BINDING SITE FOR RESIDUE ACY A 415

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4JS3)

(-) Cis Peptide Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1Gly A:119 -Ser A:120
2Arg A:131 -Pro A:132
3Val A:282 -Thr A:283

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4JS3)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4JS3)

(-) Exons   (0, 0)

(no "Exon" information available for 4JS3)

(-) 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:365
                                                                                                                                                                                                                                                                                                                                                                                                             
               SCOP domains d4js3a_ A: Dihydroorotate dehydrogenase                                                                                                                                                                                                                                                                                                                                       SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..........hhhhheee..eee...eee.........hhhhhhhhh..eeeeeee............eeeehhh.eeee.......hhhhhhhhhhhhhhhhhhhhhh...eeeee.......hhhhhhhhhhhhhhhhh.eeeee.......hhhhhhhhhhhhhhhhhhhhhhhh.hhhhh.eeeeee....hhhhhhhhhhhhhhhh..eeee....................eeee..hhhhhhhhhhhhhhhh.....eeee....hhhhhhhhhhhh..eeeehhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4js3 A  32 TGDERFYAEHLMPTLQGLLDPESAHRLAVRFTSLGLLPRARFQDSDMLEVRVLGHKFRNPVGIAAGFDKHGEAVDGLYKMGFGFVEIGSVTPKPQEGNPRPRVFRLPEDQAVINRYGFNSHGLSVVEHRLRARQQKQAKLTEDGLPLGVNLGKNKTSVDAAEDYAEGVRVLGPLADYLVVNVSSPNTAGLRSLQGKAELRRLLTKVLQERDGLRRVHRPAVLVKIAPDLTSQDKEDIASVVKELGIDGLIVTNTTVSRPAGLQGALRSETGGLSGKPLRDLSTQTIREMYALTQGRVPIIGVGGVSSGQDALEKIRAGASLVQLYTALTFWGPPVVGKVKRELEALLKEQGFGGVTDAIGADHRR 396
                                    41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391
   Legend:   → Mismatch (orange background)
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  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 1)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4JS3)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4JS3)

(-) Gene Ontology  (27, 27)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Arg A:131 - Pro A:132   [ RasMol ]  
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    Val A:282 - Thr A:283   [ RasMol ]  
 

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  1.3.5.2
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 Related Entries

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

UniProtKB/Swiss-Prot
        PYRD_HUMAN | Q02127: 1d3g 1d3h 2b0m 2bxv 2fpt 2fpv 2fpy 2fqi 2prh 2prl 2prm 2wv8 3f1q 3fj6 3fjl 3g0u 3g0x 3kvj 3kvk 3kvl 3kvm 3u2o 3w7r 3zws 3zwt 4igh 4jgd 4jts 4jtt 4jtu 4ls0 4ls1 4ls2 4oqv 4rk8 4rka 4rli 4rr4 4ylw 4zl1 4zmg 5h2z 5hin 5hqe 5k9c 5k9d 5mut 5mvc 5mvd

(-) Related Entries Specified in the PDB File

4jts 4jtt 4jtu