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

(-) Description

Title :  STRUCTURE OF RAT XANTHINE OXIDOREDUCTASE, C535A/C992R/C1324S, NADH BOUND FORM
 
Authors :  T. Nishino, K. Okamoto, Y. Kawaguchi, T. Matsumura, B. T. Eger, E. F. Pai
Date :  18 Mar 15  (Deposition) - 22 Apr 15  (Release) - 09 Sep 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Xanthine Oxidoreductase, Xanthine Oxidase, Xanthine Dehydrogenase, D/O Conversion, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. Nishino, K. Okamoto, Y. Kawaguchi, T. Matsumura, B. T. Eger, E. F. Pai, T. Nishino
The C-Terminal Peptide Plays A Role In The Formation Of An Intermediate Form During The Transition Between Xanthine Dehydrogenase And Xanthine Oxidase.
Febs J. V. 282 3075 2015
PubMed-ID: 25817260  |  Reference-DOI: 10.1111/FEBS.13277

(-) Compounds

Molecule 1 - XANTHINE DEHYDROGENASE/OXIDASE
    Chains: A, B
    EC Number: 1.17.1.4, 1.17.3.2
    Engineered: YES
    Expression System: SPODOPTERA FRUGIPERDA
    Expression System Common: FALL ARMYWORM
    Expression System Taxid: 7108
    Expression System Vector Type: BACULOVIRUS
    Gene: XDH
    Mutation: YES
    Organism Common: RAT
    Organism Scientific: RATTUS NORVEGICUS
    Organism Taxid: 10116

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (7, 17)

Asymmetric/Biological Unit (7, 17)
No.NameCountTypeFull Name
1BCT2Ligand/IonBICARBONATE ION
2CA2Ligand/IonCALCIUM ION
3FAD2Ligand/IonFLAVIN-ADENINE DINUCLEOTIDE
4FES4Ligand/IonFE2/S2 (INORGANIC) CLUSTER
5GOL4Ligand/IonGLYCEROL
6NAI2Ligand/Ion1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE
7URC1Ligand/IonURIC ACID

(-) Sites  (17, 17)

Asymmetric Unit (17, 17)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLN A:111 , CYS A:112 , GLY A:113 , CYS A:115 , CYS A:147 , ARG A:148 , CYS A:149binding site for residue FES A 3001
02AC2SOFTWAREGLY A:42 , CYS A:43 , GLY A:44 , GLY A:46 , GLY A:47 , CYS A:48 , GLY A:49 , CYS A:51 , ASN A:71 , CYS A:73binding site for residue FES A 3002
03AC3SOFTWAREGLY A:867 , THR A:870 , GLU A:871 , ASP A:872 , SER A:874 , SER A:907 , ASN A:908binding site for residue CA A 3003
04AC4SOFTWAREGLU A:45 , GLY A:46 , LYS A:255 , LEU A:256 , VAL A:257 , VAL A:258 , GLY A:259 , ASN A:260 , THR A:261 , GLU A:262 , ILE A:263 , ALA A:300 , PHE A:336 , ALA A:337 , VAL A:341 , ALA A:345 , SER A:346 , GLY A:349 , ASN A:350 , ILE A:352 , THR A:353 , SER A:358 , ASP A:359 , ILE A:402 , LEU A:403 , LYS A:421 , ASP A:428 , NAI A:3007 , HOH A:3189 , HOH A:3401 , HOH A:3454 , HOH A:3464binding site for residue FAD A 3004
05AC5SOFTWAREGLU A:802 , ARG A:880 , PHE A:914 , SER A:1008 , PHE A:1009 , THR A:1010 , ALA A:1078 , ALA A:1079 , GLU A:1261 , HOH A:3161 , HOH A:3500binding site for residue URC A 3005
06AC6SOFTWAREARG A:839 , HIS A:840 , THR A:909 , ALA A:910 , PHE A:911 , PHE A:914 , GLY A:915 , GLN A:918binding site for residue BCT A 3006
07AC7SOFTWAREGLU A:262 , LYS A:270 , SER A:355 , PRO A:356 , ILE A:357 , TYR A:392 , ARG A:393 , ASP A:429 , ILE A:430 , GLY A:457 , ALA A:459 , PRO A:500 , GLY A:501 , ARG A:507 , SER A:1225 , FAD A:3004 , HOH A:3249 , HOH A:3386 , HOH A:3399 , HOH A:3419 , HOH A:3454 , HOH A:3545binding site for residue NAI A 3007
08AC8SOFTWAREGLN A:561 , GLY A:574 , SER A:1184 , SER A:1185 , PRO A:1188 , HOH A:3120binding site for residue GOL A 3008
09AC9SOFTWAREILE A:666 , ARG A:804 , ILE A:835 , ASN A:869 , SER A:907 , HOH A:3370binding site for residue GOL A 3009
10AD1SOFTWAREGLN B:111 , CYS B:112 , GLY B:113 , CYS B:115 , CYS B:147 , ARG B:148 , CYS B:149 , LEU B:744binding site for residue FES B 4001
11AD2SOFTWAREGLY B:42 , CYS B:43 , GLY B:44 , GLY B:46 , GLY B:47 , CYS B:48 , GLY B:49 , CYS B:51 , ASN B:71 , CYS B:73binding site for residue FES B 4002
12AD3SOFTWAREGLY B:867 , THR B:870 , GLU B:871 , ASP B:872 , SER B:874 , SER B:907 , ASN B:908binding site for residue CA B 4003
13AD4SOFTWAREGLU B:45 , GLY B:46 , LYS B:255 , LEU B:256 , VAL B:257 , VAL B:258 , GLY B:259 , ASN B:260 , THR B:261 , GLU B:262 , ILE B:263 , ALA B:300 , PHE B:336 , ALA B:337 , VAL B:341 , ALA B:345 , SER B:346 , GLY B:349 , ASN B:350 , ILE B:352 , THR B:353 , SER B:358 , ASP B:359 , ILE B:402 , LEU B:403 , LYS B:421 , ASP B:428 , NAI B:4006 , HOH B:4176 , HOH B:4186 , HOH B:4414 , HOH B:4561 , HOH B:4619 , HOH B:4665 , HOH B:4689binding site for residue FAD B 4004
14AD5SOFTWAREARG B:839 , HIS B:840 , ILE B:877 , THR B:909 , ALA B:910 , PHE B:911 , PHE B:914 , GLY B:915 , GLN B:918binding site for residue BCT B 4005
15AD6SOFTWAREGLU B:262 , LYS B:270 , SER B:355 , PRO B:356 , ILE B:357 , TYR B:392 , ARG B:393 , ASP B:429 , ILE B:430 , GLY B:457 , ALA B:459 , PRO B:500 , GLY B:501 , ARG B:507 , SER B:1225 , FAD B:4004 , HOH B:4197 , HOH B:4227 , HOH B:4309 , HOH B:4414 , HOH B:4431 , HOH B:4530 , HOH B:4538 , HOH B:4628binding site for residue NAI B 4006
16AD7SOFTWAREGLN B:561 , GLY B:574 , SER B:1184 , SER B:1185 , HOH B:4175 , HOH B:4372binding site for residue GOL B 4007
17AD8SOFTWAREGLY B:664 , HIS B:665 , ILE B:666 , ARG B:804 , ILE B:835 , ASN B:869 , PRO B:906 , SER B:907 , HOH B:4167binding site for residue GOL B 4008

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (5, 5)

Asymmetric/Biological Unit
No.Residues
1Asn A:1288 -Ala A:1289
2Ser A:1297 -Pro A:1298
3Glu A:1322 -Asn A:1323
4Asn A:1323 -Ser A:1324
5Ser B:1297 -Pro B:1298

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4YTY)

(-) 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:1304
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee..eeeee.......hhhhhhhhh..................eeeeeeee....eeeeeeee....hhhhh...eeehhhhhh.....hhhhhhhhhh.......hhhhhhhhhhhhhhhh...hhhhhhhhh.........hhhhhhhhhhhh.......hhhhh...hhhhh...hhhhhhhh......eeee....eeee..hhhhhhhhhhhh...ee.....hhhhhhhhh.....eeee...hhhhh.eee...eeeee...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhh..hhhhhhhhh.....hhhhhhhh..eeeeee..eeeeee.hhhhh............eeeeeeee.....eeeeeeee..........eeeeeeeee......eeeeeeeee......ee....hhhhh....hhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhh.....hhhhhh.......eeeee.....................hhhhhhh....hhhhh......eeeeeee.....eeeeeee..hhhhh..eeeeehhhhh....ee.....ee.....ee.....eeeeeee.hhhhhhhhhhh.eeeeee.....hhhhhhhh.......eeeee.hhhhhhhhh.eeeeeeeee...........eeeeee......eeeee...hhhhhhhhhhhhhh.hhh.eeeee.............hhhhhhhhhhhhhhhh..eeee.hhhhhhhhh.....eeeeeeeee.....eeeeeeeeeee......hhhhhhhhhhhh.........eeeeeeee.............hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhh................hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeeeeeeeeeeee...hhhh.eeeeeeee.....eeeee.......hhhhhhhhhhhhhhh.hhh.eee..ee.............hhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhh....eeeeeee.................eeeeeeeeeeeeee.....eeeeeeeeeee.....hhhhhhhhhhhhhhhhhhhhhh......................hhhhh..eeeeee........hhhhh......hhhhhhhhhhhhhhhhhhhhhhh..............hhhhhhhhh.hhhhhh................ Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4yty A    3 ADELVFFVNGKKVVEKNADPETTLLVYLRRKLGLCGTKLGCGEGGCGACTVMISKYDRLQNKIVHFSVNACLAPICSLHHVAVTTVEGIGNTQKLHPVQERIARSHGSQCGFCTPGIVMSMYTLLRNQPEPTVEEIENAFQGNLCRCTGYRPILQGFRTFAKDGPSLFNPEDFKPLDPTQEPIFPPELLRLKDTPQKKLRFEGERVTWIQASTMEELLDLKAQHPDAKLVVGNTEIGIEMKFKNMLFPLIVCPAWIPELNSVVHGPEGISFGASCPLSLVESVLAEEIAKLPEQKTEVFRGVMEQLRWFAGKQVKSVASIGGNIITASPISDLNPVFMASGAKLTLVSRGTRRTVRMDHTFFPGYRKTLLRPEEILLSIEIPYSKEGEFFSAFKQASRREDDIAKVTSGMRVLFKPGTIEVQELSLCFGGMADRTISALKTTPKQLSKSWNEELLQSVCAGLAEELQLAPDAPGGMVEFRRTLTLSFFFKFYLTVLQKLGRADLEDMAGKLDPTFASATLLFQKDPPANVQLFQEVPKDQSEEDMVGRPLPHLAANMQASGEAVYCDDIPRYENELSLRLVTSTRAHAKITSIDTSEAKKVPGFVCFLTAEDVPNSNATGLFNDETVFAKDEVTCVGHIIGAVVADTPEHAQRAARGVKITYEDLPAIITIQDAINNNSFYGSEIKIEKGDLKKGFSEADNVVSGELYIGGQEHFYLETNCTIAVPKGEAGEMELFVSTQNTMKTQSFVAKMLGVPDNRIVVRVKRMGGGFGGKETRSTVVSTALALAAHKTGRPVRCMLDRDEDMLITGGRHPFLAKYKVGFMKTGTVVALEVAHFSNGGNTEDLSRSIMERALFHMDNAYKIPNIRGTGRICKTNLPSNTAFRGFGGPQGMLIAEYWMSEVAITCGLPAEEVRRKNMYKEGDLTHFNQKLEGFTLPRCWDECIASSQYLARKREVEKFNRENRWKKRGLCIIPTKFGISFTLPFLNQGGALVHVYTDGSVLLTHGGTEMGQGLHTKMVQVASRALKIPTSKIHISETSTNTVPNTSPTAASASADLNGQGVYEACQTILKRLEPFKKKKPTGPWEAWVMDAYTSAVSLSATGFYKTPNLGYSFETNSGNPFHYFSYGVACSEVEIDCLTGDHKNLRTDIVMDVGSSLNPAIDIGQVEGAFVQGLGLFTMEELHYSPEGSLHTRGPSTYKIPAFGSIPIEFRVSLLRDCPNKRAIYASKAVGEPPLFLASSIFFAIKDAIRAARAQHGDNAKQLFQLDSPATPEKIRNACVDQFTTLCVTGVPENSKSWSVRI 1331
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162   ||  197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427       437       447       457       467       477       487       497       507       517       527       537       547       557       567       577       587       597       607       617       627       637       647       657       667       677       687       697       707       717       727       737       747       757       767       777       787       797       807       817       827       837       847       857       867       877       887       897       907       917       927       937       947       957       967       977       987       997      1007      1017      1027      1037      1047      1057      1067      1077      1087      1097      1107      1117      1127      1137      1147      1157      1167      1177      1187      1197      1207      1217      1227      1237      1247      1257      1267      1277      1287      1297      1307      1317      1327    
                                                                                                                                                                                             166|                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   
                                                                                                                                                                                              192                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   


Chain B from PDB  Type:PROTEIN  Length:1293
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee..eeeee.......hhhhhhhhh..................eeeeeeee....eeeeeeee....hhhhh...eeehhhhhh.....hhhhhhhhhh.......hhhhhhhhhhhhhhhh...hhhhhhhh..........hhhhhhhhhhhh.....hhhhh...hhhhh...hhhhhhhh......eeee....eeee..hhhhhhhhhhhh...ee.....hhhhhhhhh.....eeee...hhhhh.eee...eeeee...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhh..hhhhhhhhh.....hhhhhhhh..eeeeee..eeeeee.hhhhh............eeeeeeee.....eeeeeeee..........eeeeeeeee......eeeeeeeee......ee....hhhhh....hhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhh.............hhhhhh.........eee................................hhhhh......eeeeeee.....eeeeeeehhhhhh...eeeeehhhhh....ee.....ee.....ee.....eeeeeee.hhhhhhhhhhh.eeeeee.....hhhhhhhhh......eeeee.hhhhhhhh..eeeeeeeee...........eeeeee......eeeee...hhhhhhhhhhhhhh.hhh.eeeee.............hhhhhhhhhhhhhhhh..eeee.hhhhhhhhh.....eeeeeeeee.....eeeeeeeeeee......hhhhhhhhhhhh........eeeeeeeee.............hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhh................hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeeeeeeeeeeee...hhhh.eeeeeeee.....eeeee.......hhhhhhhhhhhhhhh.hhh.eee..ee.............hhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhh....eeeeeee.................eeeeeeeeeeeeee.....eeeeeeeeeee.....hhhhhhhhhhhhhhhhhhhhhh......................hhhhh..eeeeee........hhhhh......hhhhhhhhhhhhhhhhhhhhhhh..............hhhhhhhhh.hhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4yty B    3 ADELVFFVNGKKVVEKNADPETTLLVYLRRKLGLCGTKLGCGEGGCGACTVMISKYDRLQNKIVHFSVNACLAPICSLHHVAVTTVEGIGNTQKLHPVQERIARSHGSQCGFCTPGIVMSMYTLLRNQPEPTVEEIENAFQGNLCRCTGYRPILQGFRTFAKPSLFNPEDFKPLDPTQEPIFPPELLRLKDTPQKKLRFEGERVTWIQASTMEELLDLKAQHPDAKLVVGNTEIGIEMKFKNMLFPLIVCPAWIPELNSVVHGPEGISFGASCPLSLVESVLAEEIAKLPEQKTEVFRGVMEQLRWFAGKQVKSVASIGGNIITASPISDLNPVFMASGAKLTLVSRGTRRTVRMDHTFFPGYRKTLLRPEEILLSIEIPYSKEGEFFSAFKQASRREDDIAKVTSGMRVLFKPGTIEVQELSLCFGGMADRTISALKTTPKQLSKSWNEELLQSVCAGLAEELQLAPDAPGGMVEFRRTLTLSFFFKFYLTVLQKLGRADLEDMAGKLDPTFASATLLFQKDPPANVQLFQEVPKDQSEEDMVGRPLPHLAANMQASGEAVYCDDIPRYENELSLRLVTSTRAHAKITSIDTSEAKKVPGFVCFLTAEDVPNSNATGLFNDETVFAKDEVTCVGHIIGAVVADTPEHAQRAARGVKITYEDLPAIITIQDAINNNSFYGSEIKIEKGDLKKGFSEADNVVSGELYIGGQEHFYLETNCTIAVPKGEAGEMELFVSTQNTMKTQSFVAKMLGVPDNRIVVRVKRMGGGFGGKETRSTVVSTALALAAHKTGRPVRCMLDRDEDMLITGGRHPFLAKYKVGFMKTGTVVALEVAHFSNGGNTEDLSRSIMERALFHMDNAYKIPNIRGTGRICKTNLPSNTAFRGFGGPQGMLIAEYWMSEVAITCGLPAEEVRRKNMYKEGDLTHFNQKLEGFTLPRCWDECIASSQYLARKREVEKFNRENRWKKRGLCIIPTKFGISFTLPFLNQGGALVHVYTDGSVLLTHGGTEMGQGLHTKMVQVASRALKIPTSKIHISETSTNTVPNTSPTAASASADLNGQGVYEACQTILKRLEPFKKKKPTGPWEAWVMDAYTSAVSLSATGFYKTPNLGYSFETNSGNPFHYFSYGVACSEVEIDCLTGDHKNLRTDIVMDVGSSLNPAIDIGQVEGAFVQGLGLFTMEELHYSPEGSLHTRGPSTYKIPAFGSIPIEFRVSLLRDCPNKRAIYASKAVGEPPLFLASSIFFAIKDAIRAARAQHGDNAKQLFQLDSPATPEKIRNACVDQFTTLCVTGVPE 1322
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162 ||    199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429       439       449       459       469       479       489       499       509       519       529       539       549       559       569       579       589       599       609       619       629       639       649       659       669       679       689       699       709       719       729       739       749       759       769       779       789       799       809       819       829       839       849       859       869       879       889       899       909       919       929       939       949       959       969       979       989       999      1009      1019      1029      1039      1049      1059      1069      1079      1089      1099      1109      1119      1129      1139      1149      1159      1169      1179      1189      1199      1209      1219      1229      1239      1249      1259      1269      1279      1289      1299      1309      1319   
                                                                                                                                                                                           164|                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          
                                                                                                                                                                                            192
   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  (0, 0)

(no "SCOP Domain" information available for 4YTY)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (22, 22)

Asymmetric/Biological Unit(hide GO term definitions)

 Visualization

(-) Interactive Views

Asymmetric/Biological 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
    BCT  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    CA  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    FAD  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    FES  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    GOL  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    NAI  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    URC  [ 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 ]
    AD1  [ RasMol ]  +environment [ RasMol ]
    AD2  [ RasMol ]  +environment [ RasMol ]
    AD3  [ RasMol ]  +environment [ RasMol ]
    AD4  [ RasMol ]  +environment [ RasMol ]
    AD5  [ RasMol ]  +environment [ RasMol ]
    AD6  [ RasMol ]  +environment [ RasMol ]
    AD7  [ RasMol ]  +environment [ RasMol ]
    AD8  [ RasMol ]  +environment [ RasMol ]
 
  Cis Peptide Bonds
    Asn A:1288 - Ala A:1289   [ RasMol ]  
    Asn A:1323 - Ser A:1324   [ RasMol ]  
    Glu A:1322 - Asn A:1323   [ RasMol ]  
    Ser A:1297 - Pro A:1298   [ RasMol ]  
    Ser B:1297 - Pro B:1298   [ RasMol ]  
 

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
[ Asym./Biol. Unit PNG format | Asym./Biol. Unit - sites 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
  4yty
    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
  XDH_RAT | P22985
    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)
  1.17.1.4
    General Enzyme Information: BRENDA | EC-PDB | Enzyme | IntEnz
    Pathway: KEGG | MetaCyc
  1.17.3.2
    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
  XDH_RAT | P22985
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

UniProtKB/Swiss-Prot
        XDH_RAT | P22985: 1wyg 2e3t 3an1 4yrw 4ysw 4ytz

(-) Related Entries Specified in the PDB File

4ysw