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(-) Description

Title :  CRYSTAL STRUCTURE OF A XANTHINE DEHYDROGENASE (BH1974) FROM BACILLUS HALODURANS AT 2.80 A RESOLUTION
 
Authors :  Joint Center For Structural Genomics (Jcsg)
Date :  27 Aug 10  (Deposition) - 15 Sep 10  (Release) - 20 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.80
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (2x)
Biol. Unit 2:  A,B  (1x)
Keywords :  Structural Genomics, Joint Center For Structural Genomics, Jcsg, Protein Structure Initiative, Psi-Biology, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Joint Center For Structural Genomics (Jcsg)
Crystal Structure Of A Xanthine Dehydrogenase (Bh1974) From Bacillus Halodurans At 2. 80 A Resolution
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - BH1974 PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: SPEEDET
    Expression System Strain: HK100
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: 10174592, BH1974
    Organism Scientific: BACILLUS HALODURANS
    Organism Taxid: 86665

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (2x): AB
Biological Unit 2 (1x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 14)

Asymmetric Unit (2, 14)
No.NameCountTypeFull Name
1CL2Ligand/IonCHLORIDE ION
2MSE12Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (1, 24)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2MSE24Mod. Amino AcidSELENOMETHIONINE
Biological Unit 2 (1, 12)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2MSE12Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN A:287 , ARG A:288BINDING SITE FOR RESIDUE CL A 345
2AC2SOFTWAREGLY A:87 , HIS B:253 , LYS B:256BINDING SITE FOR RESIDUE CL B 344

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3ON5)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Ser A:296 -Pro A:297
2Ser B:296 -Pro B:297

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3ON5)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3ON5)

(-) Exons   (0, 0)

(no "Exon" information available for 3ON5)

(-) 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:336
 aligned with Q9KBF4_BACHD | Q9KBF4 from UniProtKB/TrEMBL  Length:343

    Alignment length:336
                                    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       320       330      
         Q9KBF4_BACHD     1 MSDIELLETLAGTDQPRVMATIIHVEGSSYRKEGAMMLFQEDGTQVGLLSGGCLETDLTIKAQKVWQEQLPRTVVYDLSSEDDLSWGQGSGCNGTISVLLEPVDLKLRQHLKRVYDYLCAGKSVFHVKKLSTSGAVLEYAFILDESVYFGEWHSGHPVEWIRKIDENEEPLMFTHIYSPKERLIIFGAGPDVPPLVTFASNVGFYTVVTDWRPNQCEKHFFPDADEIIVDFPADFLRKFLIRPDDFVLIMTHHFQKDQEILHFLLEKELRYIGILGSKERTRRLLQNRKPPDHLYSPVGLSIDAQGPEEIAISIVAQLIQLIRSRKQASSPFSYLF 336
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhh....eeeeeeeeeee........eeeee....ee......hhhhhhhhhhhhhhhhh..eeeeee..hhhhhh........eeeeeeeee.hhhhhhhhhhhhhhhhhh..eeeeeee.....eeeeeee.....eeee....hhhhhhhh........eeeeee...eeeeee....hhhhhhhhhhhhheeeeeee.hhhhhhhhhh....eeee.hhhhhhhhh......eeee...hhhhhhhhhhhhh.....eeee..hhhhhhhhhh.......ee..........hhhhhhhhhhhhhhhhhhhh........... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3on5 A   1 mSDIELLETLAGTDQPRVmATIIHVEGSSYRKEGAmmLFQEDGTQVGLLSGGCLETDLTIKAQKVWQEQLPRTVVYDLSSEDDLSWGQGSGCNGTISVLLEPVDLKLRQHLKRVYDYLCAGKSVFHVKKLSTSGAVLEYAFILDESVYFGEWHSGHPVEWIRKIDENEEPLmFTHIYSPKERLIIFGAGPDVPPLVTFASNVGFYTVVTDWRPNQCEKHFFPDADEIIVDFPADFLRKFLIRPDDFVLImTHHFQKDQEILHFLLEKELRYIGILGSKERTRRLLQNRKPPDHLYSPVGLSIDAQGPEEIAISIVAQLIQLIRSRKQASSPFSYLF 336
                            |       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       320       330      
                            |                19-MSE           36-MSE                                                                                                                                 172-MSE                                                                       250-MSE                                                                                  
                            1-MSE                              37-MSE                                                                                                                                                                                                                                                                                                       


Chain B from PDB  Type:PROTEIN  Length:323
 aligned with Q9KBF4_BACHD | Q9KBF4 from UniProtKB/TrEMBL  Length:343

    Alignment length:341
                               1                                                                                                                                                                                                                                                                                                                                                 
                               |     7        17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337 
         Q9KBF4_BACHD     - ---MSDIELLETLAGTDQPRVMATIIHVEGSSYRKEGAMMLFQEDGTQVGLLSGGCLETDLTIKAQKVWQEQLPRTVVYDLSSEDDLSWGQGSGCNGTISVLLEPVDLKLRQHLKRVYDYLCAGKSVFHVKKLSTSGAVLEYAFILDESVYFGEWHSGHPVEWIRKIDENEEPLMFTHIYSPKERLIIFGAGPDVPPLVTFASNVGFYTVVTDWRPNQCEKHFFPDADEIIVDFPADFLRKFLIRPDDFVLIMTHHFQKDQEILHFLLEKELRYIGILGSKERTRRLLQNRKPPDHLYSPVGLSIDAQGPEEIAISIVAQLIQLIRSRKQASSPFSYLFQP 338
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) ----------XdhC_CoxI-3on5B03 B:8-78                                               ------          ----------------------------------------------------------------------------------------XdhC_C-3on5B01 B:183-318                                                                                                                -------------------- Pfam domains (1)
           Pfam domains (2) ----------XdhC_CoxI-3on5B04 B:8-78                                               ------          ----------------------------------------------------------------------------------------XdhC_C-3on5B02 B:183-318                                                                                                                -------------------- Pfam domains (2)
         Sec.struct. author ....hhhhhhhhhhh....eeeeeeeee..........eeeee..--------.hhhhhhhhhhhhhhhhhh..eeeee........----------.eeeeeee.hhhhhhhhhhhhhhhhhh..eeeeeee.....eeeeeee.....eeee....hhhhhhhh........eeeeee...eeeeee....hhhhhhhhhhhhheeeeeee.hhhhhhhhhh....eeee.hhhhhhhhh......eeee...hhhhhhhhhhhhh.....eeee..hhhhhhhhh........ee..........hhhhhhhhhhhhhhhhhhhh......hhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3on5 B  -2 FQGmSDIELLETLAGTDQPRVmATIIHVEGSSYRKEGAmmLFQED--------GGCLETDLTIKAQKVWQEQLPRTVVYDLSSEDDL----------TISVLLEPVDLKLRQHLKRVYDYLCAGKSVFHVKKLSTSGAVLEYAFILDESVYFGEWHSGHPVEWIRKIDENEEPLmFTHIYSPKERLIIFGAGPDVPPLVTFASNVGFYTVVTDWRPNQCEKHFFPDADEIIVDFPADFLRKFLIRPDDFVLImTHHFQKDQEILHFLLEKELRYIGILGSKERTRRLLQNRKPPDHLYSPVGLSIDAQGPEEIAISIVAQLIQLIRSRKQASSPFSYLFQP 338
                               |     7        17 |      27        37    |    -   |    57        67        77      |  -       |97       107       117       127       137       147       157       167    |  177       187       197       207       217       227       237       247  |    257       267       277       287       297       307       317       327       337 
                               1-MSE            19-MSE           36-MSE42       51                               84         95                                                                          172-MSE                                                                       250-MSE                                                                                    
                                                                  37-MSE
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 3ON5)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3ON5)

(-) Pfam Domains  (2, 4)

Asymmetric Unit
(-)
Clan: NADP_Rossmann (1239)
(-)
Clan: no clan defined [family: XdhC_CoxI] (3)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 3ON5)

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