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(-) Description

Title :  THE CRYSTAL STRUCTURE OF AN ATP PHOSPHORIBOSYLTRANSFERASE REGULATORY SUBUNIT/HISTIDYL-TRNA SYNTHETASE FROM BACILLUS HALODURANS C
 
Authors :  K. Tan, L. Bigelow, J. Hamilton, J. Bearden, A. Joachimiak, Midwest Ce Structural Genomics (Mcsg)
Date :  10 Aug 10  (Deposition) - 25 Aug 10  (Release) - 25 Aug 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.97
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Structural Genomics, Psi-2, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Tan, L. Bigelow, J. Hamilton, J. Bearden, A. Joachimiak
The Crystal Structure Of Aatp Phosphoribosyltransferase Regulatory Subunit/Histidyl-Trna Synthetase From Bacillus Halodurans C
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - ATP PHOSPHORIBOSYLTRANSFERASE REGULATORY SUBUNIT
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG19B
    Expression System Strain: PPK1037
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: BH3584, HISZ
    Organism Scientific: BACILLUS HALODURANS
    Organism Taxid: 86665
    Strain: C

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 28)

Asymmetric/Biological Unit (3, 28)
No.NameCountTypeFull Name
1BME3Ligand/IonBETA-MERCAPTOETHANOL
2MSE23Mod. Amino AcidSELENOMETHIONINE
3PEG2Ligand/IonDI(HYDROXYETHYL)ETHER

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPRO A:290 , CYS A:292 , SER A:293 , GLY A:314 , ARG A:316BINDING SITE FOR RESIDUE PEG A 398
2AC2SOFTWAREILE A:60 , LEU A:61 , GLN A:64 , ARG A:111 , ARG A:316 , HOH A:502BINDING SITE FOR RESIDUE PEG A 399
3AC3SOFTWAREARG A:181 , ARG A:184 , LEU A:204 , ASN A:205 , HOH A:587BINDING SITE FOR RESIDUE BME A 400
4AC4SOFTWAREARG A:221 , GLY A:223 , ALA A:225BINDING SITE FOR RESIDUE BME A 401
5AC5SOFTWAREARG A:187 , HOH A:588BINDING SITE FOR RESIDUE BME A 402

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3OD1)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Tyr A:99 -Pro A:100
2Tyr B:99 -Pro B:100

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3OD1)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3OD1)

(-) Exons   (0, 0)

(no "Exon" information available for 3OD1)

(-) 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:379
 aligned with HISZ_BACHD | Q9K6Z0 from UniProtKB/Swiss-Prot  Length:397

    Alignment length:388
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382        
           HISZ_BACHD     3 KPFMFEKPFGMRDTLPEWYKTKKNICDQMTEEINLWGYDMIETPTLEYYETVGVVSAILDQQLFKLLDQQGNTLVLRPDMTAPIARLVASSLKDRAYPLRLAYQSNVYRAQQNEGGKPAEFEQLGVELIGDGTASADGEVIALMIAALKRAGLSEFKVAIGHVGYVNALLMDVVGNEQRADRLRRFLYEKNYVGYREHVKSLNLSTIDKSRLMNLLSLRGGRAAIEEARGLIQTEKGKTALAEMTKLYEVLESYGASEYVKFDLTLVLHMSYYTGVVFEGYGNRLGVPLCSGGRYDELLSKFHRPAQATGFGVRIDLLVEALNGEIISNGHEQTCILFSNERRFEAIELARKKRANGEAVVLQDLAGVTDVDAMSSNYQDVIYCIGTA 390
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..............hhhhhhhhhhhhhhhhhhhhhh..ee.....eee..hhhhhh..hhhhh.eee.....eeee...hhhhhhhhhhhhh......eeeeeeeeee....---....eeeeeeeeee...hhhhhhhhhhhhhhhhhhh....eeeeeeehhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh..hhhhhhhhhhh...eehhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhh.hhh.eeee............eeeeeee.....eeeeeee..hhhhhh.....eeeeeeehhhhhhhhh------....eeeee...hhhhhhhhhhhhhh....eeeee.hhh.hhhhhhh...eeeee.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3od1 A   3 KPFmFEKPFGmRDTLPEWYKTKKNICDQmTEEINLWGYDmIETPTLEYYETVGVVSAILDQQLFKLLDQQGNTLVLRPDmTAPIARLVASSLKDRAYPLRLAYQSNVYRAQQ---GKPAEFEQLGVELIGDGTASADGEVIALmIAALKRAGLSEFKVAIGHVGYVNALLmDVVGNEQRADRLRRFLYEKNYVGYREHVKSLNLSTIDKSRLmNLLSLRGGRAAIEEARGLIQTEKGKTALAEmTKLYEVLESYGASEYVKFDLTLVLHmSYYTGVVFEGYGNRLGVPLCSGGRYDELLSKFHRPAQATGFGVRIDLLVEALN------GHEQTCILFSNERRFEAIELARKKRANGEAVVLQDLAGVTDVDAmSSNYQDVIYCIGTA 390
                               |    12|       22        32        42        52        62        72        82        92       102       112 |   | 122       132       142   |   152       162       172|      182       192       202       212  |    222       232       242   |   252       262       272       282       292       302       312       322  |    332       342       352       362       372   |   382        
                               |     13-MSE            31-MSE     42-MSE                                  82-MSE                         114 118                         146-MSE                    173-MSE                                   215-MSE                        246-MSE                   272-MSE                                              325    332                                         376-MSE          
                               6-MSE                                                                                                                                                                                                                                                                                                                                                                                            


Chain B from PDB  Type:PROTEIN  Length:380
 aligned with HISZ_BACHD | Q9K6Z0 from UniProtKB/Swiss-Prot  Length:397

    Alignment length:388
                                    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       340       350       360       370       380        
           HISZ_BACHD     1 MSKPFMFEKPFGMRDTLPEWYKTKKNICDQMTEEINLWGYDMIETPTLEYYETVGVVSAILDQQLFKLLDQQGNTLVLRPDMTAPIARLVASSLKDRAYPLRLAYQSNVYRAQQNEGGKPAEFEQLGVELIGDGTASADGEVIALMIAALKRAGLSEFKVAIGHVGYVNALLMDVVGNEQRADRLRRFLYEKNYVGYREHVKSLNLSTIDKSRLMNLLSLRGGRAAIEEARGLIQTEKGKTALAEMTKLYEVLESYGASEYVKFDLTLVLHMSYYTGVVFEGYGNRLGVPLCSGGRYDELLSKFHRPAQATGFGVRIDLLVEALNGEIISNGHEQTCILFSNERRFEAIELARKKRANGEAVVLQDLAGVTDVDAMSSNYQDVIYCIG 388
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -----------tRNA-synt_His-3od1B01 B:12-320                                                                                                                                                                                                                                                                                       -----     ---------------------------------------------------------- Pfam domains (1)
           Pfam domains (2) -----------tRNA-synt_His-3od1B02 B:12-320                                                                                                                                                                                                                                                                                       -----     ---------------------------------------------------------- Pfam domains (2)
         Sec.struct. author ................hhhhhhhhhhhhhhhhhhhhhh..ee.....eee..hhhhhh..hhhhheeee.....eeee...hhhhhhhhhhh........eeeeeeeeee.....---...eeeeeeeeee...hhhhhhhhhhhhhhhhhhh.....eeeeeehhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh..hhhhhhhhhhhh..ee.hhhhhhhhh...hhhhhhhhhhhhhhhhhhhhh.hhh.eeee............eeeeee........eeee...hhhhhh.....eeeeeeehhhhhhhhh-----.....eeeee...hhhhhhhhhhhhhh....eeeee.hhh.hhhhhhhh..eeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3od1 B   1 mSKPFmFEKPFGmRDTLPEWYKTKKNICDQmTEEINLWGYDmIETPTLEYYETVGVVSAILDQQLFKLLDQQGNTLVLRPDmTAPIARLVASSLKDRAYPLRLAYQSNVYRAQQN---KPAEFEQLGVELIGDGTASADGEVIALmIAALKRAGLSEFKVAIGHVGYVNALLmDVVGNEQRADRLRRFLYEKNYVGYREHVKSLNLSTIDKSRLmNLLSLRGGRAAIEEARGLIQTEKGKTALAEmTKLYEVLESYGASEYVKFDLTLVLHmSYYTGVVFEGYGNRLGVPLCSGGRYDELLSKFHRPAQATGFGVRIDLLVEALN-----NGHEQTCILFSNERRFEAIELARKKRANGEAVVLQDLAGVTDVDAmSSNYQDVIYCIG 388
                            |    |  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    |    -|      340       350       360       370     | 380        
                            1-MSE|     13-MSE            31-MSE     42-MSE                                  82-MSE                          115 119                        146-MSE                    173-MSE                                   215-MSE                        246-MSE                   272-MSE                                              325   331                                          376-MSE        
                                 6-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 3OD1)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3OD1)

(-) Pfam Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Clan: tRNA_synt_II (64)

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (HISZ_BACHD | Q9K6Z0)
molecular function
    GO:0004812    aminoacyl-tRNA ligase activity    Catalysis of the formation of aminoacyl-tRNA from ATP, amino acid, and tRNA with the release of diphosphate and AMP.
biological process
    GO:0008652    cellular amino acid biosynthetic process    The chemical reactions and pathways resulting in the formation of amino acids, organic acids containing one or more amino substituents.
    GO:0000105    histidine biosynthetic process    The chemical reactions and pathways resulting in the formation of histidine, 2-amino-3-(1H-imidazol-4-yl)propanoic acid.
    GO:0006418    tRNA aminoacylation for protein translation    The synthesis of aminoacyl tRNA by the formation of an ester bond between the 3'-hydroxyl group of the most 3' adenosine of the tRNA, to be used in ribosome-mediated polypeptide synthesis.
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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