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(-) Description

Title :  CRYSTAL STRUCTURE OF A PUTATIVE RACEMASE
 
Authors :  S. Eswaramoorthy, S. K. Burley, S. Swaminathan, New York Sgx Resear For Structural Genomics (Nysgxrc)
Date :  14 Apr 10  (Deposition) - 28 Apr 10  (Release) - 28 Apr 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.77
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  A  (8x)
Biol. Unit 3:  A  (2x)
Biol. Unit 4:  A  (2x)
Keywords :  Metabolic Process, Madalate Racemase, Psi2, Nysgxrc, Structural Genomics, Protein Structure Initiative, New York Sgx Research Center For Structural Genomics, Isomerase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Eswaramoorthy, S. K. Burley, S. Swaminathan
Crystal Structure Of A Putative Racemase
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - RACEMASE
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: BC - PSGX3 (BC)
    Expression System Strain: BL21(DE3)-CODON+RIL
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: PJE062_745
    Organism Scientific: PSEUDOVIBRIO SP. JE062
    Organism Taxid: 439495

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (1x): A
Biological Unit 2 (8x): A
Biological Unit 3 (2x): A
Biological Unit 4 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 9)

Asymmetric Unit (1, 9)
No.NameCountTypeFull Name
1MSE9Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (1, 9)
No.NameCountTypeFull Name
1MSE9Mod. Amino AcidSELENOMETHIONINE
Biological Unit 2 (1, 72)
No.NameCountTypeFull Name
1MSE72Mod. Amino AcidSELENOMETHIONINE
Biological Unit 3 (1, 18)
No.NameCountTypeFull Name
1MSE18Mod. Amino AcidSELENOMETHIONINE
Biological Unit 4 (1, 18)
No.NameCountTypeFull Name
1MSE18Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 3MKC)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Thr A:356 -Pro A:357

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3MKC)

(-) 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:380
 aligned with B6R2Z6_9RHOB | B6R2Z6 from UniProtKB/TrEMBL  Length:386

    Alignment length:385
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381     
         B6R2Z6_9RHOB     2 SLALNPAVAPIKSIEFIPVNYQASNWSQNTVVVKVTDENGVYGLGEADGSPDAILAYANIETEHKWLTNITEKAIGRLPIEINAIWDAMYDATQWQGMRGLGMFALSGIDMALYDLAGKQLGVPAYQLLGGTNKDKVHPYLTLYPAIPVDASLDVAIKGYAPLLEKAKAHNIRAVKVCVPIKADWSTKEVAYYLRELRGILGHDTDMMVDYLYRFTDWYEVARLLNSIEDLELYFAEATLQHDDLSGHAKLVENTRSRICGAEMSTTRFEAEEWITKGKVHLLQSDYNRCGGLTELRRITEMATANNVQVMPHNWKTGITSAAAIHYQFAVGNAPYFEYVHPEFCDGELRKYLVTPEAELVDGGFAKPTAPGLGIDLNQEFLASL 386
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) ------------MR_MLE_N-3    mkcA01 A:14-131                                                                                         ------------------ -------------------------------------------MR_MLE-3mkcA02 A:194-263                                              --------------------------------------------------------------------------------------------------------------------------- Pfam domains (1)
           Pfam domains (2) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MR_MLE_C-3mkcA03 A:263-377                                                                                         --------- Pfam domains (2)
         Sec.struct. author ..........eeeeeeeeeee.----.eeeeeeeeee....eeeeee..hhhhhhhhhh.....................hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh.hhhhhh......ee..eee......-..hhhhhhhhhhhhhhhhhhh...eeeee.......hhhhhhhhhhhhhhhhh...eeeee......hhhhhhhhhhhhhhhh..eee......hhhhhhhhhhhh....ee....hhhhhhhhhhhh....ee.......hhhhhhhhhhhhhhhh..ee......hhhhhhhhhhhhhhh......ee.hhhhh.hhhhhhhee.........ee.........eehhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3mkc A   2 SLALNPAVAPIKSIEFIPVNYQ----SQNTVVVKVTDENGVYGLGEADGSPDAILAYANIETEHKWLTNITEKAIGRLPIEINAIWDAmYDATQWQGmRGLGmFALSGIDmALYDLAGKQLGVPAYQLLGGTNKDKVHPYLTLYPAIP-DASLDVAIKGYAPLLEKAKAHNIRAVKVCVPIKADWSTKEVAYYLRELRGILGHDTDmmVDYLYRFTDWYEVARLLNSIEDLELYFAEATLQHDDLSGHAKLVENTRSRICGAEmSTTRFEAEEWITKGKVHLLQSDYNRCGGLTELRRITEmATANNVQVmPHNWKTGITSAAAIHYQFAVGNAPYFEYVHPEFCDGELRKYLVTPEAELVDGGFAKPTAPGLGIDLNQEFLASL 386
                                    11        21 |    | 31        41        51        61        71        81        91       101  |    111|      121       131       141       151       161       171       181       191       201      |211       221       231       241       251       261   |   271       281       291       301 |     311|      321       331       341       351       361       371       381     
                                                23   28                                                            90-MSE   99-MSE|     112-MSE                              149 |                                                      208-MSE                                                  265-MSE                               303-MSE  312-MSE                                                                      
                                                                                                                                104-MSE                                        151                                                       209-MSE
   Legend:   → Mismatch (orange background)
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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  (0, 0)

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

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (3, 3)

Asymmetric Unit
(-)
Clan: Enolase_N (69)
(-)
Clan: Enolase_TIM (82)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A   (B6R2Z6_9RHOB | B6R2Z6)
molecular function
    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:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
biological process
    GO:0008152    metabolic process    The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.

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    Thr A:356 - Pro A:357   [ RasMol ]  
 
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 Related Entries

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UniProtKB/TrEMBL
        B6R2Z6_9RHOB | B6R2Z6: 3nzg

(-) Related Entries Specified in the PDB File

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