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(-) Description

Title :  CRYSTAL STRUCTURE OF THE INOSINE 5'-MONOPHOSPHATE DEHYDROGENASE, WITH A SHORT INTERNAL DELETION OF CBS DOMAIN FROM BACILLUS ANTHRACIS STR. AMES
 
Authors :  Y. Kim, M. Makowska-Grzyska, M. Gu, W. F. Anderson, A. Joachimiak, Cent Structural Genomics Of Infectious Diseases (Csgid)
Date :  03 Sep 13  (Deposition) - 09 Oct 13  (Release) - 09 Oct 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.25
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Structural Genomics, Niaid, National Institute Of Allergy And Infectious Diseases, Center For Structural Genomics Of Infectious Diseases, Csgid, Tim Barrel, Alpha-Beta Fold, Hydrolase, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Kim, M. Makowska-Grzyska, M. Gu, W. F. Anderson, A. Joachimiak
Crystal Structure Of The Inosine 5'-Monophosphate Dehydrogenase, With A Short Internal Deletion Of Cbs Domain From Bacillus Anthracis Str. Ames
To Be Published 2013
PubMed: search

(-) Compounds

Molecule 1 - INOSINE-5'-MONOPHOSPHATE DEHYDROGENASE
    Chains: A, B, C, D
    EC Number: 1.1.1.205
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG7
    Expression System Strain: BL21 MAGIC
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: IMPDH-S, APO FORM
    Gene: GUAB, BA_0008, BAS0011, GBAA_0008
    Mutation: YES
    Organism Common: ANTHRAX,ANTHRAX BACTERIUM
    Organism Scientific: BACILLUS ANTHRACIS
    Organism Taxid: 198094
    Strain: AMES
    Synonym: IMP DEHYDROGENASE, IMPD, IMPDH

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 8)

Asymmetric/Biological Unit (1, 8)
No.NameCountTypeFull Name
1EDO8Ligand/Ion1,2-ETHANEDIOL

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:376 , TYR A:388 , HOH A:634BINDING SITE FOR RESIDUE EDO A 501
2AC2SOFTWAREHOH A:633BINDING SITE FOR RESIDUE EDO A 502
3AC3SOFTWAREGLU A:38 , HOH A:644BINDING SITE FOR RESIDUE EDO A 503
4AC4SOFTWAREPRO B:20 , ALA B:21BINDING SITE FOR RESIDUE EDO B 501
5AC5SOFTWARELYS C:242BINDING SITE FOR RESIDUE EDO C 501
6AC6SOFTWAREASP D:430 , HOH D:682 , HOH D:719BINDING SITE FOR RESIDUE EDO D 501
7AC7SOFTWARELYS D:5 , PHE D:6 , VAL D:7BINDING SITE FOR RESIDUE EDO D 502
8AC8SOFTWAREARG D:383 , HOH D:642 , HOH D:713BINDING SITE FOR RESIDUE EDO D 503

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Gly A:279 -Asn A:280
2Gly B:279 -Asn B:280
3Gly C:279 -Asn C:280
4Gly D:279 -Asn D:280

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4MJM)

(-) 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:328
                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains d4mjma_ A: automated matches                                                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....ee..hhh.eee...............eeee..eee...eee.......hhhhhhhhhh...ee......hhhhhhhhhhhhhh.......hhhhhhhh.....................hhhhhhhhhhhh...eeeee.....hhhhhhhhhhhhhhh...eeeeeee.hhhhhhhhhh....eeee........hhhhhhh...hhhhhhhhhhhhhhh....eeee....hhhhhhhhhhh...eeee............eee....eee..ee...hhhhhhhhhhhhhhhhhhh....hhhhhhhh..eee........ Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4mjm A   4 SKFVKEGLTFDDVLLVPAKSDVLPREVSVKTVLSESLQLNIPLISAGMDTVTEADMAIAMARQGGLGIIHKNMSIEQQAEQVDKVKRSESGGIKDIEKVIEFPNSAKDKQGRLLVGAAVGVTADAMTRIDALVKASVDAIVLDTAHGHSQGVIDKVKEVRAKYPSLNIIAGNVATAEATKALIEAGANVVKVGIGPGSICTTRVVAGVGVPQLTAVYDCATEARKHGIPVIADGGIKYSGDMVKALAAGAHVVMLGSMFAGVAESPGETEIGRQFKVYRVPYKGPLADTVHQLVGGLRAGMGYCGAQDLEFLRENAQFIRMSGAGLLE 470
                                    13        23        33        43        53        63        73        83        93 ||    208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378||     422       432       442       452       462        
                                                                                                                      95|                                                                                                                                                                               379|   388|                                                 
                                                                                                                      201                                                                                                                                                                                382    421                                                 


Chain B from PDB  Type:PROTEIN  Length:328
                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains d4mjmb_ B: automated matches                                                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............hhh.eee...............ee.....ee...eee.......hhhhhhhhhhhh.eeee....hhhhhhhhhhhhhh......hhhhhhh.............eee......hhhhhhhhhhh...eeee......hhhhhhhhhhhhhhh...eeeeeee.hhhhhhhhhhhh..eeee.................hhhhhhhhhhhhhhhhh..eeee....hhhhhhhhhhh...eeeehhhhh........eee....eee......hhhhhhhhhhhhhhhhhhhhh..hhhhhhhh..eee.hhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4mjm B   0 AMWESKFVKEGLTFDDVLLVPAKSDVLPREVSVKTVLSESLQLNIPLISAGMDTVTEADMAIAMARQGGLGIIHKNMSIEQQAEQVDKVKRSESGKDIEKVIEFPNSAKDKQGRLLVGAAVGVTADAMTRIDALVKASVDAIVLDTAHGHSQGVIDKVKEVRAKYPSLNIIAGNVATAEATKALIEAGANVVKVGIGPGSCTTRVVAGVGVPQLTAVYDCATEARKHGIPVIADGGIKYSGDMVKALAAGAHVVMLGSMFAGVAESPGETEIYQGRQFKVVPYKGPLADTVHQLVGGLRAGMGYCGAQDLEFLRENAQFIRMSGAGLL 469
                                     9        19        29        39        49        59        69        79        89    || 206       216       226       236       246       256       266       276       286       296       306|      317       327       337       347       357       367       377       387|      431       441       451       461        
                                                                                                                         94|                                                                                                     306|                                                                            387|                                               
                                                                                                                         202                                                                                                      308                                                                             422                                               


Chain C from PDB  Type:PROTEIN  Length:329
                                                                                                                                                                                                                                                                                                                                                                         
               SCOP domains d4mjmc_ C: automated matches                                                                                                                                                                                                                                                                                                              SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............hhh.eee...............ee.....ee...eee.......hhhhhhhhhhhh.eeee....hhhhhhhhhhhhhhh......hhhhhh..............eeeee....hhhhhhhhhhh....eeeee.....hhhhhhhhhhhhh.....eeeeeee.hhhhhhhhhhhh..eeee..................hhhhhhhhhhhhhhhhh..eeee....hhhhhhhhhhhh..eeeehhhhh.....................hhhhhhhhhhhhhhhhhhh....hhhhhhhh..eeee....... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4mjm C   0 AMWESKFVKEGLTFDDVLLVPAKSDVLPREVSVKTVLSESLQLNIPLISAGMDTVTEADMAIAMARQGGLGIIHKNMSIEQQAEQVDKVKRSESGGIKDIEKVIEFPNSAKDKQGRLLVGAAVGVTADAMTRIDALVKASVDAIVLDTAHGHSQGVIDKVKEVRAKYPSLNIIAGNVATAEATKALIEAGANVVKVGIGPGSICTTRVVAGVGVPQLTAVYDCATEARKHGIPVIADGGIKYSGDMVKALAAGAHVVMLGSMFAGVAESPGETEIRQFKVVPYKGPLADTVHQLVGGLRAGMGYCGAQDLEFLRENAQFIRMSGAGLLE 470
                                     9        19        29        39        49        59        69        79        89     ||204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374    || 387|      431       441       451       461         
                                                                                                                          95|                                                                                                                                                                               379| 387|                                                
                                                                                                                          201                                                                                                                                                                                383  422                                                


Chain D from PDB  Type:PROTEIN  Length:328
                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains d4mjmd_ D: automated matches                                                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....ee.....eee...............eeee..eee...eee.......hhhhhhhhhh....eee....hhhhhhhhhhhh.......hhhhhhh.............eeee.....hhhhhhhhhhh....eeee.hhhhhhhhhhhhhhhhhhhh...eeeeeee.hhhhhhhhhh....eeee..................hhhhhhhhhhhhhhhh...eeee....hhhhhhhhhhh.eeeeee............eee....eee...ee...hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhh.eee.......... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4mjm D   5 KFVKEGLTFDDVLLVPAKSDVLPREVSVKTVLSESLQLNIPLISAGMDTVTEADMAIAMARQGGLGIIHKNMSIEQQAEQVDKVKRSESIKDIEKVIEFPNSAKDKQGRLLVGAAVGVTADAMTRIDALVKASVDAIVLDTAHGHSQGVIDKVKEVRAKYPSLNIIAGNVATAEATKALIEAGANVVKVGIGPGSICTTRVVAGVGVPQLTAVYDCATEARKHGIPVIADGGIKYSGDMVKALAAGAHVVMLGSMFAGVAESPGETEIGRQFKVYGRVPYKGPLADTVHQLVGGLRAGMGYCGAQDLEFLRENAQFIRMSGAGLLESH 472
                                    14        24        34        44        54        64        74        84       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       383    || 424       434       444       454       464        
                                                                                                                   93|                                                                                                                                                                               379|   388|                                                    
                                                                                                                   201                                                                                                                                                                                382    420
   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  (1, 4)

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

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (8, 8)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Gly A:279 - Asn A:280   [ RasMol ]  
    Gly B:279 - Asn B:280   [ RasMol ]  
    Gly C:279 - Asn C:280   [ RasMol ]  
    Gly D:279 - Asn D:280   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/TrEMBL
        Q81W29_BACAN | Q81W29: 3tsb 3tsd 3usb 4my1 4my8 4my9 4mya 4myx 4qm1 5urr 5urs 5uuv 5uuw 5uuz

(-) Related Entries Specified in the PDB File

3tsb WILD-TYPE, PHOSPHATE BOUND FORM
3tsd WILD-TYPE, COMPLEXED WITH PRODUCT, XMP
3usb WILD-TYPE, SUBSTRATE IMP BOUND-FORM RELATED ID: IDP01178 RELATED DB: TARGETTRACK