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(-) Description

Title :  CRYSTAL STRUCTURE OF PANTOATE-BETA-ALANINE LIGASE FROM FRANCISELLA TULARENSIS COMPLEXED WITH BETA-GAMMA ATP AND BETA-ALANINE
 
Authors :  N. Maltseva, Y. Kim, K. Kwon, W. F. Anderson, A. Joachimiak, Center For Structural Genomics Of Infectious Diseases (Csgid)
Date :  23 Feb 11  (Deposition) - 23 Mar 11  (Release) - 23 Mar 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A (1x),B (1x)
Biol. Unit 2:  A  (1x)
Biol. Unit 3:  B  (1x)
Keywords :  Structural Genomics, Center For Structural Genomics Of Infectious Diseases, Csgid, Alpha-Beta Sandwich, Cytosol, Ligase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  N. Maltseva, Y. Kim, K. Kwon, W. F. Anderson, A. Joachimiak
Crystal Structure Of Pantoate-Beta-Alanine Ligase From Francisella Tularensis Complexed With Beta-Gamma Atp And Beta-Alanine.
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - PANTOTHENATE SYNTHETASE
    Chains: A, B
    EC Number: 6.3.2.1
    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_1390, PANC
    Organism Scientific: FRANCISELLA TULARENSIS SUBSP. TULARENSIS
    Organism Taxid: 119856
    Strain: SCHU S4
    Synonym: PS, PANTOATE--BETA-ALANINE LIGASE, PANTOATE-ACTIVATING ENZYME

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A (1x)B (1x)
Biological Unit 2 (1x): A 
Biological Unit 3 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 15)

Asymmetric Unit (5, 15)
No.NameCountTypeFull Name
1ANP2Ligand/IonPHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
2BAL2Ligand/IonBETA-ALANINE
3MG1Ligand/IonMAGNESIUM ION
4MSE8Mod. Amino AcidSELENOMETHIONINE
5PRO2Mod. Amino AcidPROLINE
Biological Unit 1 (4, 7)
No.NameCountTypeFull Name
1ANP1Ligand/IonPHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
2BAL1Ligand/IonBETA-ALANINE
3MG-1Ligand/IonMAGNESIUM ION
4MSE4Mod. Amino AcidSELENOMETHIONINE
5PRO1Mod. Amino AcidPROLINE
Biological Unit 2 (4, 7)
No.NameCountTypeFull Name
1ANP1Ligand/IonPHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
2BAL1Ligand/IonBETA-ALANINE
3MG-1Ligand/IonMAGNESIUM ION
4MSE4Mod. Amino AcidSELENOMETHIONINE
5PRO1Mod. Amino AcidPROLINE
Biological Unit 3 (4, 7)
No.NameCountTypeFull Name
1ANP1Ligand/IonPHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
2BAL1Ligand/IonBETA-ALANINE
3MG-1Ligand/IonMAGNESIUM ION
4MSE4Mod. Amino AcidSELENOMETHIONINE
5PRO1Mod. Amino AcidPROLINE

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPRO A:30 , MSE A:32 , HIS A:36 , GLY A:38 , HIS A:39 , LEU A:42 , TYR A:73 , LEU A:149 , GLY A:150 , LYS A:152 , ASP A:153 , PRO A:177 , THR A:178 , GLN A:179 , LEU A:187 , SER A:188 , SER A:189 , ARG A:190 , MG A:273 , PRO A:274 , BAL A:275 , HOH A:287 , HOH A:294 , HOH A:306BINDING SITE FOR RESIDUE ANP A 271
2AC2SOFTWAREMSE A:32 , GLN A:63 , MSE A:131 , VAL A:134 , VAL A:135 , GLN A:156 , ANP A:271 , HOH A:307BINDING SITE FOR RESIDUE PRO A 274
3AC3SOFTWAREMSE A:32 , GLY A:33 , TYR A:73 , SER A:189 , ANP A:271BINDING SITE FOR RESIDUE MG A 273
4AC4SOFTWAREPRO B:30 , GLN B:63 , VAL B:134 , GLN B:156 , ANP B:271 , HOH B:285BINDING SITE FOR RESIDUE PRO B 272
5AC5SOFTWAREMSE A:32 , GLN A:63 , ARG A:124 , HIS A:127 , ASP A:153 , ARG A:190 , ANP A:271BINDING SITE FOR RESIDUE BAL A 275
6AC6SOFTWAREPRO B:30 , THR B:31 , MSE B:32 , HIS B:36 , GLY B:38 , HIS B:39 , LEU B:42 , TYR B:73 , LEU B:149 , GLY B:150 , LYS B:152 , ASP B:153 , PRO B:177 , THR B:178 , GLN B:179 , LEU B:187 , SER B:188 , SER B:189 , ARG B:190 , PRO B:272 , BAL B:275 , HOH B:279 , HOH B:301 , HOH B:302BINDING SITE FOR RESIDUE ANP B 271
7AC7SOFTWAREMSE B:32 , GLN B:63 , ARG B:124 , ASP B:153 , ARG B:190 , ANP B:271BINDING SITE FOR RESIDUE BAL B 275

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Gly A:261 -Pro A:262

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3QTT)

(-) 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:261
 aligned with PANC_FRATT | Q5NF57 from UniProtKB/Swiss-Prot  Length:261

    Alignment length:261
                             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 
           PANC_FRATT     - -MIIADNIKQFHSIRNSLIKQQKIGFVPTMGALHNGHISLIKKAKSENDVVIVSIFVNPTQFNNPNDYQTYPNQLQQDIQILASLDVDVLFNPSEKDIYPDGNLLRIEPKLEIANILEGKSRPGHFSGMLTVVLKLLQITKPNNLYLGEKDYQQVMLIKQLVKDFFINTKIIVCPTQRQPSGLPLSSRNKNLTSTDIEIANKIYEILRQDDFSNLEELTNKINSTGAKLQYIQKLNNRIFLAFYIGKVRLIDNFLKETGPS 260
               SCOP domains d3qtta_ A: automated matches                                                                                                                                                                                                                                          SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee.hhhhhhhhhh.......eeeeee....hhhhhhhhhhhhhhh.eeeeee..hhhhh.hhhhhhhh..hhhhhhhhhhhh...eee..hhhhhh...........hhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh..eeeee..hhhhhhhhhhhhhhh....eeeee...........hhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhh..eeeeeeee..eeeeeeee..eeeeeeee...... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3qtt A   3 AmIIADNIKQFHSIRNSLIKQQKIGFVPTmGALHNGHISLIKKAKSENDVVIVSIFVNPTQFNNPNDYQTYPNQLQQDIQILASLDVDVLFNPSEKDIYPDGNLLRIEPKLEIANILEGKSRPGHFSGmLTVVLKLLQITKPNNLYLGEKDYQQVmLIKQLVKDFFINTKIIVCPTQRQPSGLPLSSRNKNLTSTDIEIANKIYEILRQDDFSNLEELTNKINSTGAKLQYIQKLNNRIFLAFYIGKVRLIDNFLKETGPS 263
                             |      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 
                             |                          32-MSE                                                                                            131-MSE                    158-MSE                                                                                                     
                             4-MSE                                                                                                                                                                                                                                                               


Chain B from PDB  Type:PROTEIN  Length:260
 aligned with PANC_FRATT | Q5NF57 from UniProtKB/Swiss-Prot  Length:261

    Alignment length:262
                             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  
           PANC_FRATT     - -MIIADNIKQFHSIRNSLIKQQKIGFVPTMGALHNGHISLIKKAKSENDVVIVSIFVNPTQFNNPNDYQTYPNQLQQDIQILASLDVDVLFNPSEKDIYPDGNLLRIEPKLEIANILEGKSRPGHFSGMLTVVLKLLQITKPNNLYLGEKDYQQVMLIKQLVKDFFINTKIIVCPTQRQPSGLPLSSRNKNLTSTDIEIANKIYEILRQDDFSNLEELTNKINSTGAKLQYIQKLNNRIFLAFYIGKVRLIDNFLKETGPSC 261
               SCOP domains d3qttb_ B: automated matches                                                                                                                                                                                                                                           SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -Pantoate_ligase-3qttB01 B:4-217                                                                                                                                                                                       ----------------------------------------------- Pfam domains (1)
           Pfam domains (2) -Pantoate_ligase-3qttB02 B:4-217                                                                                                                                                                                       ----------------------------------------------- Pfam domains (2)
         Sec.struct. author ..eee.hhhhhhhhhh.......eeeeee....hhhhhhhhhhhhhhh.eeeeee..hhhhh.hhhhhhhh..hhhhhhhhhhhh...eee..hhhhhh...........hhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh..eeeee..hhhhhhhhhhhhhhh....eeeee............hhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhh..eeeeeeee..eeeeeeee..eeeeeeee..--... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3qtt B   3 AmIIADNIKQFHSIRNSLIKQQKIGFVPTmGALHNGHISLIKKAKSENDVVIVSIFVNPTQFNNPNDYQTYPNQLQQDIQILASLDVDVLFNPSEKDIYPDGNLLRIEPKLEIANILEGKSRPGHFSGmLTVVLKLLQITKPNNLYLGEKDYQQVmLIKQLVKDFFINTKIIVCPTQRQPSGLPLSSRNKNLTSTDIEIANKIYEILRQDDFSNLEELTNKINSTGAKLQYIQKLNNRIFLAFYIGKVRLIDNFLKE--PSP 272
                             |      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||
                             4-MSE                      32-MSE                                                                                            131-MSE                    158-MSE                                                                                              259  |||
                                                                                                                                                                                                                                                                                             262||
                                                                                                                                                                                                                                                                                              263|
                                                                                                                                                                                                                                                                                               272
   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, 2)

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

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: HUP (230)

(-) Gene Ontology  (8, 8)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (PANC_FRATT | Q5NF57)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
    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:0004592    pantoate-beta-alanine ligase activity    Catalysis of the reaction: ATP + (R)-pantoate + beta-alanine = AMP + diphosphate + (R)-pantothenate.
biological process
    GO:0009058    biosynthetic process    The chemical reactions and pathways resulting in the formation of substances; typically the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones.
    GO:0015940    pantothenate biosynthetic process    The chemical reactions and pathways resulting in the formation of pantothenate, the anion of pantothenic acid. It is a B complex vitamin that is a constituent of coenzyme A and is distributed ubiquitously in foods.
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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 Related Entries

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

UniProtKB/Swiss-Prot
        PANC_FRATT | Q5NF57: 3n8h 5hg0

(-) Related Entries Specified in the PDB File

3n8h THE SAME PROTEIN COMPLEXED WITH AMP RELATED ID: IDP02771 RELATED DB: TARGETDB