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(-) Description

Title :  STRUCTURE OF TRYPANOSOMA CRUZI DIHYDROOROTATE DEHYDROGENASE IN COMPLEX WITH SH-1-200
 
Authors :  D. K. Inaoka, S. Hashimoto, J. R. Rocha, M. Iida, T. Tabuchi, N. Lee, S. Ma T. Kuranaga, T. Shiba, E. O. Balogun, K. Sakamoto, S. Suzuki, C. A. Mont T. Nara, T. Aoki, M. Inoue, T. Honma, A. Tanaka, S. Harada, K. Kita
Date :  12 Mar 13  (Deposition) - 12 Mar 14  (Release) - 12 Mar 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.40
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Rossmann Fold, Oxidoreductase, Dihydroorotate/Orotate And Fumarate/Succinate Binding, Cytosol, Oxidoreductase-Oxidoreductase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. K. Inaoka, S. Hashimoto, J. R. Rocha, M. Iida, T. Tabuchi, N. Lee, S. Matsuoka, T. Kuranaga, T. Shiba, E. O. Balogun, K. Sakamoto, S. Suzuki, C. A. Montanari, T. Nara, T. Aoki, M. Inoue, T. Honma, A. Tanaka, S. Harada, K. Kita
Structure Of Trypanosoma Cruzi Dihydroorotate Dehydrogenase In Complex With Sh-1-200
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - DIHYDROOROTATE DEHYDROGENASE (FUMARATE)
    Chains: A, B
    EC Number: 1.3.98.1
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET3A
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: PYRD
    Organism Scientific: TRYPANOSOMA CRUZI
    Organism Taxid: 353153
    Strain: CL BRENER
    Synonym: DHOD, DHODASE, DHODEHASE, DIHYDROOROTATE OXIDASE

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (7, 75)

Asymmetric/Biological Unit (7, 75)
No.NameCountTypeFull Name
1CAC4Ligand/IonCACODYLATE ION
2EDO33Ligand/Ion1,2-ETHANEDIOL
3FMN2Ligand/IonFLAVIN MONONUCLEOTIDE
4GOL24Ligand/IonGLYCEROL
5NCO2Ligand/IonCOBALT HEXAMMINE(III)
6PEG8Ligand/IonDI(HYDROXYETHYL)ETHER
7W882Ligand/Ion5-[4-(6-CARBOXYNAPHTHALEN-2-YL)BUTYL]-2,6-DIOXO-1,2,3,6-TETRAHYDROPYRIMIDINE-4-CARBOXYLIC ACID

(-) Sites  (75, 75)

Asymmetric Unit (75, 75)
No.NameEvidenceResiduesDescription
01AC1SOFTWARELYS A:43 , ASN A:53 , ASN A:67 , MET A:69 , GLY A:70 , LEU A:71 , ASN A:127 , CYS A:130 , PRO A:131 , ASN A:194 , SER A:195 , LYS A:214 , GOL A:405 , FMN A:417 , HOH A:824BINDING SITE FOR RESIDUE W88 A 401
02AC2SOFTWARECYS A:31 , ALA A:34 , SER A:35 , HOH A:528 , CYS B:31 , ALA B:34 , SER B:35 , HOH B:631BINDING SITE FOR RESIDUE GOL A 402
03AC3SOFTWAREILE A:171 , ARG A:238 , ARG A:239 , EDO A:429 , HOH A:584 , LYS B:214 , PHE B:217BINDING SITE FOR RESIDUE GOL A 403
04AC4SOFTWARELYS A:214 , PHE A:217 , GOL A:407 , HOH A:545 , HOH A:683 , HOH A:846 , ILE B:171 , ARG B:239BINDING SITE FOR RESIDUE GOL A 404
05AC5SOFTWAREPRO A:166 , ASN A:194 , SER A:195 , GLY A:197 , GLY A:219 , W88 A:401 , HOH A:519 , HOH A:526 , HOH A:824BINDING SITE FOR RESIDUE GOL A 405
06AC6SOFTWAREPHE A:61 , ASP A:203 , EDO A:434 , HOH A:567 , HOH A:628 , HOH A:801BINDING SITE FOR RESIDUE GOL A 406
07AC7SOFTWAREGLN A:215 , GOL A:404 , HOH A:682 , HOH A:691 , HOH A:771 , HOH A:772 , HOH A:830 , HOH A:847 , ARG B:238 , HOH B:659BINDING SITE FOR RESIDUE GOL A 407
08AC8SOFTWAREGLU A:277 , ARG A:284 , HOH A:635 , HOH A:806 , GLU B:27 , HOH B:582BINDING SITE FOR RESIDUE GOL A 408
09AC9SOFTWAREGLN A:275 , CAC A:415 , HOH A:536 , HOH A:604 , HOH A:671 , HOH A:848BINDING SITE FOR RESIDUE GOL A 409
10BC1SOFTWAREVAL A:10 , TYR A:89 , SER A:90 , LYS A:91 , PRO A:93 , EDO A:423 , HOH A:543 , HOH A:562 , HOH A:623 , HOH A:650BINDING SITE FOR RESIDUE GOL A 410
11BC2SOFTWAREPRO A:241 , LYS A:243 , GOL A:413 , HOH A:722 , HOH A:799 , ASP B:8BINDING SITE FOR RESIDUE GOL A 411
12BC3SOFTWAREPRO A:241 , ASP A:242 , EDO A:435 , HOH A:520 , HOH A:629 , HOH A:832 , GLU B:105 , HOH B:688BINDING SITE FOR RESIDUE GOL A 412
13BC4SOFTWARETYR A:237 , PRO A:241 , GOL A:411 , HOH A:720BINDING SITE FOR RESIDUE GOL A 413
14BC5SOFTWAREASP A:51 , GLY A:52 , ASN A:53 , PRO A:54 , ARG A:57 , HOH A:597 , HOH A:739 , HOH A:854BINDING SITE FOR RESIDUE GOL A 414
15BC6SOFTWAREASP A:28 , GOL A:409 , HOH A:544 , HOH A:590 , HOH A:782 , HOH A:784BINDING SITE FOR RESIDUE CAC A 415
16BC7SOFTWARELYS A:296 , TYR A:298 , EDO A:427 , HOH B:815 , HOH B:827 , HOH B:889BINDING SITE FOR RESIDUE CAC A 416
17BC8SOFTWAREALA A:18 , ALA A:19 , GLY A:20 , LYS A:43 , SER A:44 , ASN A:67 , ASN A:127 , LYS A:164 , VAL A:193 , ASN A:194 , GLY A:221 , GLY A:222 , ILE A:225 , CYS A:248 , GLY A:249 , GLY A:250 , GLY A:271 , THR A:272 , W88 A:401 , HOH A:508 , HOH A:515 , HOH A:524 , HOH A:798BINDING SITE FOR RESIDUE FMN A 417
18BC9SOFTWAREARG A:238 , GLY A:306 , VAL A:308 , HOH A:576 , HOH A:811BINDING SITE FOR RESIDUE EDO A 418
19CC1SOFTWAREGLU A:119 , HOH A:791BINDING SITE FOR RESIDUE EDO A 419
20CC2SOFTWAREARG A:50 , ASP A:51 , HOH A:534 , HOH A:611BINDING SITE FOR RESIDUE EDO A 420
21CC3SOFTWAREPHE A:61 , PRO A:62 , GLU A:276 , HOH A:636BINDING SITE FOR RESIDUE EDO A 421
22CC4SOFTWAREARG A:299 , GLU A:303 , HOH A:836 , SER B:90BINDING SITE FOR RESIDUE EDO A 422
23CC5SOFTWAREALA A:12 , SER A:36 , SER A:37 , LYS A:91 , GOL A:410 , HOH A:543 , HOH A:789BINDING SITE FOR RESIDUE EDO A 423
24CC6SOFTWAREGLU A:255 , ARG A:295 , LYS A:296 , GLU B:205BINDING SITE FOR RESIDUE EDO A 424
25CC7SOFTWARELEU A:63 , LYS A:223 , HOH A:633 , EDO B:430 , HOH B:862 , HOH B:897BINDING SITE FOR RESIDUE EDO A 425
26CC8SOFTWAREGLU A:302 , GLU A:303 , ARG A:307 , HOH A:868 , SER B:90 , GOL B:407 , HOH B:914BINDING SITE FOR RESIDUE EDO A 426
27CC9SOFTWARETYR A:298 , CAC A:416 , HOH A:665 , HOH A:868BINDING SITE FOR RESIDUE EDO A 427
28DC1SOFTWARESER A:47 , ASP A:77 , HOH A:516 , HOH A:850 , HOH B:932BINDING SITE FOR RESIDUE EDO A 428
29DC2SOFTWAREGOL A:403 , ARG B:111 , W88 B:401 , HOH B:576 , HOH B:930BINDING SITE FOR RESIDUE EDO A 429
30DC3SOFTWARECYS A:130 , PRO A:131 , VAL A:133 , LYS A:136 , PRO A:137 , EDO A:431 , HOH A:688BINDING SITE FOR RESIDUE EDO A 430
31DC4SOFTWARELEU A:101 , SER A:102 , VAL A:103 , TYR A:149 , EDO A:430BINDING SITE FOR RESIDUE EDO A 431
32DC5SOFTWARESER A:84 , ASP A:85 , HIS A:87 , LYS A:120 , HOH A:579BINDING SITE FOR RESIDUE EDO A 432
33DC6SOFTWAREASN A:5 , LEU A:6 , LEU A:7 , ASP A:8 , ASN B:5BINDING SITE FOR RESIDUE EDO A 433
34DC7SOFTWAREMET A:59 , PHE A:61 , ASP A:203 , VAL A:210 , GOL A:406 , NCO A:442 , HOH A:565 , HOH A:734BINDING SITE FOR RESIDUE EDO A 434
35DC8SOFTWAREASN A:182 , PRO A:185 , ASP A:242 , GOL A:412 , HOH A:657 , GOL B:409BINDING SITE FOR RESIDUE EDO A 435
36DC9SOFTWARETYR A:141 , TYR A:168 , PHE A:169 , HIS A:173 , HOH A:775 , TYR B:168 , PHE B:169 , HIS B:173 , HOH B:808BINDING SITE FOR RESIDUE PEG A 436
37EC1SOFTWARECYS A:1 , LEU A:2 , LYS A:3 , ALA A:12 , GLU A:286 , HOH A:653 , SER B:-1BINDING SITE FOR RESIDUE PEG A 437
38EC2SOFTWAREGLN A:151 , SER A:154 , LEU A:155 , GLY A:158 , LEU A:186 , PEG A:440 , HOH A:759 , HOH A:813 , HOH A:870BINDING SITE FOR RESIDUE PEG A 438
39EC3SOFTWAREARG A:147 , GLN A:151 , GLU A:183 , PHE A:184 , PRO A:185 , PEG A:440 , HOH A:870 , GOL B:409BINDING SITE FOR RESIDUE PEG A 439
40EC4SOFTWAREPRO A:185 , LEU A:186 , PEG A:438 , PEG A:439 , HOH A:505BINDING SITE FOR RESIDUE PEG A 440
41EC5SOFTWAREGLN A:275 , GLU A:276 , GLY A:278 , HOH A:626 , HOH A:655 , HOH A:667 , HOH A:706 , GLN B:275 , GLU B:276 , GLY B:278BINDING SITE FOR RESIDUE NCO A 441
42EC6SOFTWAREASP A:203 , GLU A:205 , EDO A:434 , HOH A:734 , HOH A:863 , ASP B:203 , GLU B:205 , GOL B:410BINDING SITE FOR RESIDUE NCO A 442
43EC7SOFTWAREEDO A:429 , LYS B:43 , ARG B:50 , ASN B:67 , MET B:69 , GLY B:70 , LEU B:71 , LEU B:101 , ASN B:127 , PRO B:131 , ASN B:194 , SER B:195 , GOL B:402 , FMN B:415 , EDO B:429 , PEG B:433 , HOH B:930 , HOH B:937 , HOH B:938BINDING SITE FOR RESIDUE W88 B 401
44EC8SOFTWARESER B:129 , GLN B:138 , ASN B:194 , SER B:195 , GLY B:197 , W88 B:401 , HOH B:514 , HOH B:676 , HOH B:834 , HOH B:903BINDING SITE FOR RESIDUE GOL B 402
45EC9SOFTWAREPHE B:61 , ASP B:203 , PEG B:431 , HOH B:598 , HOH B:647 , HOH B:648 , HOH B:742BINDING SITE FOR RESIDUE GOL B 403
46FC1SOFTWARETYR B:58 , GLN B:275 , CAC B:413 , HOH B:559 , HOH B:570 , HOH B:621 , HOH B:831 , HOH B:872 , HOH B:912BINDING SITE FOR RESIDUE GOL B 404
47FC2SOFTWAREASN A:5 , LEU B:4 , ASN B:5 , GLU B:302 , ARG B:305 , GOL B:406 , HOH B:619 , HOH B:776 , HOH B:778 , HOH B:931BINDING SITE FOR RESIDUE GOL B 405
48FC3SOFTWAREASP A:8 , PRO B:241 , ASP B:242 , LYS B:243 , LEU B:244 , GOL B:405 , GOL B:408 , CAC B:414 , HOH B:556 , HOH B:778 , HOH B:845BINDING SITE FOR RESIDUE GOL B 406
49FC4SOFTWARETHR A:300 , GLU A:302 , GLU A:303 , EDO A:426 , VAL B:10 , TYR B:89 , SER B:90 , PRO B:93 , HOH B:591 , HOH B:658 , HOH B:666BINDING SITE FOR RESIDUE GOL B 407
50FC5SOFTWARETYR B:237 , ARG B:238 , PRO B:241 , GOL B:406 , CAC B:414BINDING SITE FOR RESIDUE GOL B 408
51FC6SOFTWAREGLU A:183 , EDO A:435 , PEG A:439 , HOH A:810 , HOH B:691 , HOH B:693 , HOH B:694 , HOH B:696 , HOH B:913BINDING SITE FOR RESIDUE GOL B 409
52FC7SOFTWAREILE A:311 , NCO A:442 , ASP B:203 , SER B:206 , SER B:208 , VAL B:209 , HOH B:612 , HOH B:647BINDING SITE FOR RESIDUE GOL B 410
53FC8SOFTWAREARG A:112 , ASP B:175 , HOH B:725 , HOH B:730BINDING SITE FOR RESIDUE GOL B 411
54FC9SOFTWAREPRO B:62 , LYS B:223 , EDO B:418 , EDO B:430 , HOH B:628 , HOH B:629 , HOH B:756BINDING SITE FOR RESIDUE GOL B 412
55GC1SOFTWAREHOH A:785 , ASP B:28 , GOL B:404 , HOH B:542 , HOH B:593 , HOH B:754BINDING SITE FOR RESIDUE CAC B 413
56GC2SOFTWAREPRO B:241 , GOL B:406 , GOL B:408 , HOH B:907BINDING SITE FOR RESIDUE CAC B 414
57GC3SOFTWAREALA B:18 , ALA B:19 , GLY B:20 , LYS B:43 , SER B:44 , ASN B:67 , ASN B:127 , LYS B:164 , VAL B:193 , ASN B:194 , GLY B:221 , GLY B:222 , ILE B:225 , CYS B:248 , GLY B:249 , GLY B:250 , GLY B:271 , THR B:272 , W88 B:401 , HOH B:505 , HOH B:516 , HOH B:522 , HOH B:675BINDING SITE FOR RESIDUE FMN B 415
58GC4SOFTWAREGLU A:183 , SER B:47 , GLY B:75 , PHE B:76 , ASP B:77 , HOH B:539 , HOH B:586 , HOH B:694BINDING SITE FOR RESIDUE EDO B 416
59GC5SOFTWAREHOH A:708 , PHE B:61 , PRO B:62 , GLU B:276 , PEG B:431 , HOH B:629 , HOH B:756 , HOH B:868BINDING SITE FOR RESIDUE EDO B 417
60GC6SOFTWARETYR B:252 , ALA B:273 , GLU B:276 , GLU B:277 , ARG B:284 , GOL B:412 , HOH B:628 , HOH B:629 , HOH B:757BINDING SITE FOR RESIDUE EDO B 418
61GC7SOFTWARELEU A:63 , LYS B:223 , HOH B:627 , HOH B:863 , HOH B:897 , HOH B:940BINDING SITE FOR RESIDUE EDO B 419
62GC8SOFTWAREGLU B:55 , HOH B:669 , HOH B:829BINDING SITE FOR RESIDUE EDO B 420
63GC9SOFTWARESER B:84 , ASP B:85 , HIS B:87 , LYS B:120 , HOH B:564 , HOH B:584BINDING SITE FOR RESIDUE EDO B 421
64HC1SOFTWAREPRO B:54 , LYS B:212 , PRO B:213 , HOH B:527 , HOH B:655 , HOH B:745BINDING SITE FOR RESIDUE EDO B 422
65HC2SOFTWAREALA B:117 , GLN B:118 , GLU B:119 , LYS B:120 , GLY B:121 , HOH B:859BINDING SITE FOR RESIDUE EDO B 423
66HC3SOFTWAREARG A:299 , ALA B:12 , SER B:35 , SER B:36 , SER B:37 , LYS B:91 , HOH B:512 , HOH B:634BINDING SITE FOR RESIDUE EDO B 424
67HC4SOFTWARELEU B:7 , ASP B:8 , PRO B:160 , HOH B:592 , HOH B:909 , HOH B:929BINDING SITE FOR RESIDUE EDO B 425
68HC5SOFTWAREGLU A:205 , ARG B:295 , LYS B:296 , HOH B:925BINDING SITE FOR RESIDUE EDO B 426
69HC6SOFTWARELEU B:2 , GLU B:286 , EDO B:428 , HOH B:657BINDING SITE FOR RESIDUE EDO B 427
70HC7SOFTWAREMET A:0 , MET B:0 , EDO B:427 , HOH B:819BINDING SITE FOR RESIDUE EDO B 428
71HC8SOFTWAREARG B:50 , GLY B:52 , ASN B:53 , W88 B:401 , HOH B:555 , HOH B:875BINDING SITE FOR RESIDUE EDO B 429
72HC9SOFTWAREEDO A:425 , PRO B:62 , GOL B:412 , HOH B:897 , HOH B:940BINDING SITE FOR RESIDUE EDO B 430
73IC1SOFTWAREPHE B:61 , PRO B:62 , GOL B:403 , EDO B:417 , HOH B:868BINDING SITE FOR RESIDUE PEG B 431
74IC2SOFTWAREASP A:175 , ARG A:239 , HOH A:589 , HOH A:720 , HOH A:753 , HOH A:832 , GLU B:104 , ALA B:108 , ARG B:111 , HOH B:802BINDING SITE FOR RESIDUE PEG B 432
75IC3SOFTWAREASN B:53 , SER B:68 , MET B:69 , GLY B:70 , LYS B:214 , W88 B:401 , HOH B:527 , HOH B:930 , HOH B:938BINDING SITE FOR RESIDUE PEG B 433

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:1 -B:1

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Glu A:55 -Pro A:56
2Cys A:192 -Val A:193
3Glu B:55 -Pro B:56
4Cys B:192 -Val B:193

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (8, 16)

Asymmetric/Biological Unit (8, 16)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_PYRD_TRYCC_001 *M2TPYRD_TRYCC  ---  ---A/BM0T
2UniProtVAR_PYRD_TRYCC_002 *C3RPYRD_TRYCC  ---  ---A/BC1R
3UniProtVAR_PYRD_TRYCC_003 *F63VPYRD_TRYCC  ---  ---A/BF61V
4UniProtVAR_PYRD_TRYCC_004 *S86IPYRD_TRYCC  ---  ---A/BS84I
5UniProtVAR_PYRD_TRYCC_005 *L98VPYRD_TRYCC  ---  ---A/BL96V
6UniProtVAR_PYRD_TRYCC_006 *L222IPYRD_TRYCC  ---  ---A/BL220I
7UniProtVAR_PYRD_TRYCC_007 *T285RPYRD_TRYCC  ---  ---A/BT283R
8UniProtVAR_PYRD_TRYCC_008 *R301KPYRD_TRYCC  ---  ---A/BR299K
   * ID not provided by source
  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3W88)

(-) Exons   (0, 0)

(no "Exon" information available for 3W88)

(-) 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:314
 aligned with PYRD_TRYCC | Q4D3W2 from UniProtKB/Swiss-Prot  Length:314

    Alignment length:314
                                    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_TRYCC     1 MMCLKLNLLDHVFANPFMNAAGVLCSTEEDLRCMTASSSGALVSKSCTSAPRDGNPEPRYMAFPLGSINSMGLPNLGFDFYLKYASDLHDYSKKPLFLSISGLSVEENVAMVRRLAPVAQEKGVLLELNLSCPNVPGKPQVAYDFEAMRTYLQQVSLAYGLPFGVKMPPYFDIAHFDTAAAVLNEFPLVKFVTCVNSVGNGLVIDAESESVVIKPKQGFGGLGGKYILPTALANVNAFYRRCPDKLVFGCGGVYSGEDAFLHILAGASMVQVGTALQEEGPGIFTRLEDELLEIMARKGYRTLEEFRGRVKTIE 314
               SCOP domains d3w88a_ A: Dihydroorotate dehydrogenase                                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eee..eee...eee.......hhhhhhhhhhh....ee................eeee..eeee.......hhhhhhhhhhhh.......eeeee...hhhhhhhhhhhhhhhhhhhh.eeeee..........hhhhhhhhhhhhhhhhhhhhh..eeeee....hhhhhhhhhhhhhh...eeeeee...eeeee.ee....ee..hhhh.eeeeehhhhhhhhhhhhhhhhhhh...eeeee....hhhhhhhhhhhh...eeehhhhhhhh.hhhhhhhhhhhhhhhhhh............... Sec.struct. author
                 SAPs(SNPs) -TR-----------------------------------------------------------V----------------------I-----------V---------------------------------------------------------------------------------------------------------------------------I--------------------------------------------------------------R---------------K------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3w88 A  -1 SMCLKLNLLDHVFANPFMNAAGVLCSTEEDLRCMTASSSGALVSKSCTSAPRDGNPEPRYMAFPLGSINSMGLPNLGFDFYLKYASDLHDYSKKPLFLSISGLSVEENVAMVRRLAPVAQEKGVLLELNLSCPNVPGKPQVAYDFEAMRTYLQQVSLAYGLPFGVKMPPYFDIAHFDTAAAVLNEFPLVKFVTCVNSVGNGLVIDAESESVVIKPKQGFGGLGGKYILPTALANVNAFYRRCPDKLVFGCGGVYSGEDAFLHILAGASMVQVGTALQEEGPGIFTRLEDELLEIMARKGYRTLEEFRGRVKTIE 312
                                     8        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    


Chain B from PDB  Type:PROTEIN  Length:314
 aligned with PYRD_TRYCC | Q4D3W2 from UniProtKB/Swiss-Prot  Length:314

    Alignment length:314
                                    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_TRYCC     1 MMCLKLNLLDHVFANPFMNAAGVLCSTEEDLRCMTASSSGALVSKSCTSAPRDGNPEPRYMAFPLGSINSMGLPNLGFDFYLKYASDLHDYSKKPLFLSISGLSVEENVAMVRRLAPVAQEKGVLLELNLSCPNVPGKPQVAYDFEAMRTYLQQVSLAYGLPFGVKMPPYFDIAHFDTAAAVLNEFPLVKFVTCVNSVGNGLVIDAESESVVIKPKQGFGGLGGKYILPTALANVNAFYRRCPDKLVFGCGGVYSGEDAFLHILAGASMVQVGTALQEEGPGIFTRLEDELLEIMARKGYRTLEEFRGRVKTIE 314
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eee..eee...eee.......hhhhhhhhhhh....ee................eeee..eeee.......hhhhhhhhhhhh.......eeeee...hhhhhhhhhhhhhhhhhhhh.eeeee..........hhhhhhhhhhhhhhhhhhhhh..eeeee....hhhhhhhhhhhhhh...eeeeee...eeeee.ee....ee..hhhh.eeeeehhhhhhhhhhhhhhhhhhh...eeeee....hhhhhhhhhhhh...eeehhhhhhhh.hhhhhhhhhhhhhhhhhh..hhhhh........ Sec.struct. author
                 SAPs(SNPs) -TR-----------------------------------------------------------V----------------------I-----------V---------------------------------------------------------------------------------------------------------------------------I--------------------------------------------------------------R---------------K------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3w88 B  -1 SMCLKLNLLDHVFANPFMNAAGVLCSTEEDLRCMTASSSGALVSKSCTSAPRDGNPEPRYMAFPLGSINSMGLPNLGFDFYLKYASDLHDYSKKPLFLSISGLSVEENVAMVRRLAPVAQEKGVLLELNLSCPNVPGKPQVAYDFEAMRTYLQQVSLAYGLPFGVKMPPYFDIAHFDTAAAVLNEFPLVKFVTCVNSVGNGLVIDAESESVVIKPKQGFGGLGGKYILPTALANVNAFYRRCPDKLVFGCGGVYSGEDAFLHILAGASMVQVGTALQEEGPGIFTRLEDELLEIMARKGYRTLEEFRGRVKTIE 312
                                     8        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
   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)
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 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 3W88)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3W88)

(-) Gene Ontology  (10, 10)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (PYRD_TRYCC | Q4D3W2)
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:0006222    UMP biosynthetic process    The chemical reactions and pathways resulting in the formation of UMP, uridine monophosphate.
    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.

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  3w88
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  PYRD_TRYCC | Q4D3W2
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  1.3.98.1
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 Related Entries

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

UniProtKB/Swiss-Prot
        PYRD_TRYCC | Q4D3W2: 2djl 2djx 2e68 2e6a 2e6d 2e6f 3c3n 3w1a 3w1l 3w1m 3w1n 3w1p 3w1q 3w1r 3w1t 3w1u 3w1x 3w22 3w23 3w2j 3w2k 3w2l 3w2m 3w2n 3w2u 3w3o 3w6y 3w70 3w71 3w72 3w73 3w74 3w75 3w76 3w7c 3w7d 3w7e 3w7g 3w7h 3w7i 3w7j 3w7k 3w7l 3w7m 3w7n 3w7o 3w7p 3w7q 3w83 3w84 3w85 3w86 3w87 4jd4 4jdb 5e93 5ea9

(-) Related Entries Specified in the PDB File

3w1a 3w1l 3w1m 3w1n 3w1p 3w1q 3w1r 3w1t 3w1u 3w1x 3w22 3w23 3w2j 3w2k 3w2l 3w2m 3w2n 3w2u 3w6y 3w70 3w71 3w72 3w73 3w74 3w75 3w76 3w7c 3w7d 3w7e 3w7g 3w7h 3w7i 3w7j 3w7k 3w7l 3w7m 3w7n 3w7o 3w7p 3w7q 3w83 3w84 3w85 3w86 3w87 4jd4 4jdb