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(-) Description

Title :  CRYSTAL STRUCTURE OF PHOSPHORIBOSYLAMINOIMIDAZOLE SYNTHETASE FROM FRANCISELLA TULARENSIS COMPLEXED WITH PYROPHOSPHATE
 
Authors :  N. Maltseva, Y. Kim, J. Hasseman, W. F. Anderson, A. Joachimiak, Center Structural Genomics Of Infectious Diseases (Csgid)
Date :  23 Feb 11  (Deposition) - 16 Mar 11  (Release) - 16 Mar 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Structural Genomics, Center For Structural Genomics Of Infectious Diseases, Csgid, Alpha-Beta Fold, Ligase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  N. Maltseva, Y. Kim, J. Hasseman, W. F. Anderson, A. Joachimiak
Crystal Structure Of Phosphoribosylaminoimidazole Synthetas From Francisella Tularensis Complexed With Pyrophosphate
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - PHOSPHORIBOSYLAMINOIMIDAZOL (AIR) SYNTHETASE
    Chains: A, B
    EC Number: 6.3.3.1
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG7
    Expression System Strain: BL21 MAGIC
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Gene: FTT_0893, PURM
    Organism Scientific: FRANCISELLA TULARENSIS SUBSP. TULARENSIS
    Organism Taxid: 119856
    Strain: SCHU S4

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (6, 38)

Asymmetric/Biological Unit (6, 38)
No.NameCountTypeFull Name
1FMT2Ligand/IonFORMIC ACID
2MSE27Mod. Amino AcidSELENOMETHIONINE
3PO42Ligand/IonPHOSPHATE ION
4POP3Ligand/IonPYROPHOSPHATE 2-
5SO41Ligand/IonSULFATE ION
6TRS3Ligand/Ion2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL

(-) Sites  (11, 11)

Asymmetric Unit (11, 11)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLY A:68 , THR A:69 , ASN A:192 , GLY A:193 , TYR A:194 , SER A:195 , HOH A:357 , HOH A:441 , HOH A:502 , HOH A:507 , HOH B:442BINDING SITE FOR RESIDUE SO4 A 400
02AC2SOFTWAREASN A:234 , ILE A:235 , HIS A:327 , THR A:328 , ASN A:329 , THR A:330 , HOH A:370 , HOH A:459 , HOH B:545BINDING SITE FOR RESIDUE TRS A 401
03AC3SOFTWARELYS A:113 , LYS A:275 , ALA A:279 , THR A:280 , LYS A:285 , HOH A:486 , HOH A:524BINDING SITE FOR RESIDUE POP A 403
04AC4SOFTWAREPHE A:42 , ASP A:107 , MSE A:119 , VAL A:123 , MSE A:126 , LEU A:137 , GLY A:140 , HOH A:562BINDING SITE FOR RESIDUE POP A 404
05AC5SOFTWAREPRO A:146 , LYS A:331 , HOH A:387 , HOH A:449 , GLN B:150BINDING SITE FOR RESIDUE PO4 A 405
06AC6SOFTWAREMSE A:145 , PRO A:146 , GLY A:147 , HOH A:387 , THR B:69 , SER B:195 , ARG B:198 , HOH B:578BINDING SITE FOR RESIDUE PO4 B 402
07AC7SOFTWAREASN A:340 , ASN B:234 , HIS B:327 , ASN B:329 , HOH B:407 , HOH B:462 , HOH B:464BINDING SITE FOR RESIDUE TRS B 400
08AC8SOFTWAREASP B:107 , MSE B:119 , VAL B:123 , LEU B:137 , GLY B:139 , GLY B:140 , THR B:142BINDING SITE FOR RESIDUE POP B 401
09AC9SOFTWAREGLY B:68 , THR B:69 , ASN B:192 , GLY B:193 , TYR B:194 , SER B:195 , HOH B:385 , HOH B:457 , HOH B:574BINDING SITE FOR RESIDUE TRS B 348
10BC1SOFTWAREASN B:192 , THR B:253 , GLY B:254BINDING SITE FOR RESIDUE FMT B 403
11BC2SOFTWAREALA B:279 , THR B:280 , LYS B:285 , HOH B:368BINDING SITE FOR RESIDUE FMT B 404

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3QTY)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3QTY)

(-) 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:348
 aligned with Q5NGF2_FRATT | Q5NGF2 from UniProtKB/TrEMBL  Length:347

    Alignment length:348
                             1                                                                                                                                                                                                                                                                                                                                                          
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339        
         Q5NGF2_FRATT     - -MAGLKYEDAGVNIEAGNQAVERMKQHVKKTFTQDVLTGLGSFGSLYSLKNIINNYDDPVLVQSIDGVGTKTKVAVMCGKFENLGYDLFSAATNDIVVMGAKPITFLDYVAHDKLDPAIMEELVKGMSKACAECGVSLVGGETAEMPGVYQAGEIDMVGVITGIVDRKRIINGENIKEGDIVFGLSSSGLHTNGYSFARKLFFDVAGNKHTDTYPELEGKTIGDVLLEPHINYTNIIHDFLDNGVDIKGMAHITGGGFIENIPRVLPQGLGAQIDKDSFATPAIFKLMQRIGDISEFEMYRSFNMGIGMTIIASQDQFDKMQELAKKHTNTKLYQIGKITNSGKVEII 347
               SCOP domains d3qtya1 A:0-170 automated matches                                                                                                                                          d3qtya2 A:171-347 automated matches                                                                                                                                               SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ................hhhhhhhhhhhhhh.....eee......eeeehhhhhhhh..eeeeeeeee..hhhhhhhhhh...hhhhhhhhhhhhhhhh...eeeeeeeeeee...hhhhhhhhhhhhhhhhhhh..eeeeeeeee.........eeeeeeeeeeee.hhh..........eeeeee.......hhhhhhhhhhh.........hhhhh..hhhhhhhh....hhhhhhhhhhh.....eeee...hhhhhhhhhhh....eeee.hhhh..hhhhhhhhhhh..hhhhhhhhh...eeeeeeehhhhhhhhhhhhh......eeeeeeee....eee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3qty A   0 AmAGLKYEDAGVNIEAGNQAVERmKQHVKKTFTQDVLTGLGSFGSLYSLKNIINNYDDPVLVQSIDGVGTKTKVAVmCGKFENLGYDLFSAATNDIVVmGAKPITFLDYVAHDKLDPAImEELVKGmSKACAECGVSLVGGETAEmPGVYQAGEIDmVGVITGIVDRKRIINGENIKEGDIVFGLSSSGLHTNGYSFARKLFFDVAGNKHTDTYPELEGKTIGDVLLEPHINYTNIIHDFLDNGVDIKGmAHITGGGFIENIPRVLPQGLGAQIDKDSFATPAIFKLmQRIGDISEFEmYRSFNmGIGmTIIASQDQFDKmQELAKKHTNTKLYQIGKITNSGKVEII 347
                             |       9        19   |    29        39        49        59        69      | 79        89        99       109       119      |129       139     | 149      |159       169       179       189       199       209       219       229       239       249       259       269       279       289       299    |  309       319|      329       339        
                             |                    23-MSE                                               76-MSE                98-MSE              119-MSE  |                145-MSE    156-MSE                                                                                      249-MSE                               287-MSE    298-MSE |   |         320-MSE                       
                             1-MSE                                                                                                                      126-MSE                                                                                                                                                                           304-MSE                                       
                                                                                                                                                                                                                                                                                                                                              308-MSE                                   


Chain B from PDB  Type:PROTEIN  Length:330
 aligned with Q5NGF2_FRATT | Q5NGF2 from UniProtKB/TrEMBL  Length:347

    Alignment length:330
                                    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       347
         Q5NGF2_FRATT    18 QAVERMKQHVKKTFTQDVLTGLGSFGSLYSLKNIINNYDDPVLVQSIDGVGTKTKVAVMCGKFENLGYDLFSAATNDIVVMGAKPITFLDYVAHDKLDPAIMEELVKGMSKACAECGVSLVGGETAEMPGVYQAGEIDMVGVITGIVDRKRIINGENIKEGDIVFGLSSSGLHTNGYSFARKLFFDVAGNKHTDTYPELEGKTIGDVLLEPHINYTNIIHDFLDNGVDIKGMAHITGGGFIENIPRVLPQGLGAQIDKDSFATPAIFKLMQRIGDISEFEMYRSFNMGIGMTIIASQDQFDKMQELAKKHTNTKLYQIGKITNSGKVEII 347
               SCOP domains d3qtyb1 B:18-170 automated matches                                                                                                                       d3qtyb2 B:171-347 automated matches                                                                                                                                               SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
           Pfam domains (1) AIRS-3qtyB01 B:18-142                                                                                                        ---------------------------------AIRS_C-3qtyB03 B:176-347                                                                                                                                                     Pfam domains (1)
           Pfam domains (2) AIRS-3qtyB02 B:18-142                                                                                                        ---------------------------------AIRS_C-3qtyB04 B:176-347                                                                                                                                                     Pfam domains (2)
         Sec.struct. author hhhhhhhhhhhh.....eee......eeeehhhhhhhh..eeeeeeeee..hhhhhhhhhh...hhhhhhhhhhhhhhhh...eeeeeeeeeee...hhhhhhhhhhhhhhhhhhh..eeeeeeeee.........eeeeeeeeeeee.hhh..........eeeeee.......hhhhhhhhhhh.........hhhhh..hhhhhhh.....hhhhhhhhhhh.....eeee...hhhhhhhhhhh....eeeee.hhh..hhhhhhhhhhh..hhhhhhhhh...eeeeeeehhhhhhhhhhhhh......eeeeeeee....eeee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3qty B  18 QAVERmKQHVKKTFTQDVLTGLGSFGSLYSLKNIINNYDDPVLVQSIDGVGTKTKVAVmCGKFENLGYDLFSAATNDIVVmGAKPITFLDYVAHDKLDPAImEELVKGmSKACAECGVSLVGGETAEmPGVYQAGEIDmVGVITGIVDRKRIINGENIKEGDIVFGLSSSGLHTNGYSFARKLFFDVAGNKHTDTYPELEGKTIGDVLLEPHINYTNIIHDFLDNGVDIKGmAHITGGGFIENIPRVLPQGLGAQIDKDSFATPAIFKLmQRIGDISEFEmYRSFNmGIGmTIIASQDQFDKmQELAKKHTNTKLYQIGKITNSGKVEII 347
                                 |  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       347
                                23-MSE                                               76-MSE                98-MSE              119-MSE  |                145-MSE    156-MSE                                                                                      249-MSE                               287-MSE    298-MSE |   |         320-MSE                       
                                                                                                                                      126-MSE                                                                                                                                                                           304-MSE                                       
                                                                                                                                                                                                                                                                                                                            308-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)
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (2, 4)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (2, 4)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: AIRS] (11)
(-)
Clan: no clan defined [family: AIRS_C] (13)

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q5NGF2_FRATT | Q5NGF2)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0016874    ligase activity    Catalysis of the joining of two substances, or two groups within a single molecule, with the concomitant hydrolysis of the diphosphate bond in ATP or a similar triphosphate.
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
    GO:0004641    phosphoribosylformylglycinamidine cyclo-ligase activity    Catalysis of the reaction: 2-(formamido)-N(1)-(5-phospho-D-ribosyl)acetamidine + ATP = 5-amino-1-(5-phospho-D-ribosyl)imidazole + ADP + 2 H(+) + phosphate.
biological process
    GO:0006189    'de novo' IMP biosynthetic process    The chemical reactions and pathways resulting in the formation of IMP, inosine monophosphate, by the stepwise assembly of a purine ring on ribose 5-phosphate.
    GO:0006164    purine nucleotide biosynthetic process    The chemical reactions and pathways resulting in the formation of a purine nucleotide, a compound consisting of nucleoside (a purine 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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  3qty
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 Related Entries

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

UniProtKB/TrEMBL
        Q5NGF2_FRATT | Q5NGF2: 3m84

(-) Related Entries Specified in the PDB File

3m84 SAME PROTEIN COMPLEXED WITH AMP RELATED ID: IDP04643 RELATED DB: TARGETDB