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(-) Description

Title :  CRYSTAL STRUCTURE OF ADENYLATE/GUANYLATE CYCLASE/HYDROLASE FROM SILICIBACTER POMEROYI
 
Authors :  Y. Kim, H. Li, S. Clancy, A. Joachimiak, Midwest Center For Structur Genomics (Mcsg)
Date :  28 Apr 10  (Deposition) - 23 Jun 10  (Release) - 23 Jun 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym. Unit :  A,B,C
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C  (2x)
Keywords :  Alpha-Beta Fold, Structural Genomics, Psi-2, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Kim, H. Li, S. Clancy, A. Joachimiak
Crystal Structure Of Adenylate/Guanylate Cyclase/Hydrolase From Silicibacter Pomeroyi
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - ADENYLATE/GUANYLATE CYCLASE/HYDROLASE, ALPHA/BETA FOLD FAMILY
    Chains: A, B, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG19
    Expression System Strain: BL21 MAGIC
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Fragment: RESIDUES 2-187
    Gene: SPO3024
    Organism Scientific: RUEGERIA POMEROYI
    Organism Taxid: 246200
    Strain: DSS-3

 Structural Features

(-) Chains, Units

  123
Asymmetric Unit : ABC
Biological Unit 1 (1x): AB 
Biological Unit 2 (2x):   C

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 12)

Asymmetric Unit (1, 12)
No.NameCountTypeFull Name
1MSE12Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (1, 8)
No.NameCountTypeFull Name
1MSE8Mod. Amino AcidSELENOMETHIONINE
Biological Unit 2 (1, 8)
No.NameCountTypeFull Name
1MSE8Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 3MR7)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3MR7)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3MR7)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3MR7)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3MR7)

(-) Exons   (0, 0)

(no "Exon" information available for 3MR7)

(-) 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:173
 aligned with Q5LP28_RUEPO | Q5LP28 from UniProtKB/TrEMBL  Length:465

    Alignment length:173
                             1                                                                                                                                                                           
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169   
         Q5LP28_RUEPO     - -MERRLCAILAADMAGYSRLMERNETDVLNRQKLYRRELIDPAIAQAGGQIVKTTGDGMLARFDTAQAALRCALEIQQAMQQREEDTPRKERIQYRIGINIGDIVLEDGDIFGDAVNVAARLEAISEPGAICVSDIVHQITQDRVSEPFTDLGLQKVKNITRPIRVWQWVPDA 172
               SCOP domains d3mr7a_ A: automated matches                                                                                                                                                  SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeeeeee...hhhhh..hhhhhhhhhhhhhhhhhhhhhhh..eeeeee..eeeeee.hhhhhhhhhhhhhhhhhhhh...hhhhh..eeeeeeeeeeee....eehhhhhhhhhhhhhh....eeeehhhhhhhh.......eeeeeeee..eeeeeeeeee.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3mr7 A  -1 NAERRLCAILAADmAGYSRLmERNETDVLNRQKLYRRELIDPAIAQAGGQIVKTTGDGmLARFDTAQAALRCALEIQQAmQQREEDTPRKERIQYRIGINIGDIVLEDGDIFGDAVNVAARLEAISEPGAICVSDIVHQITQDRVSEPFTDLGLQKVKNITRPIRVWQWVPDA 171
                                     8   |    18|       28        38        48        58        68        78        88        98       108       118       128       138       148       158       168   
                                        12-MSE 19-MSE                                57-MSE               78-MSE                                                                                         


Chain B from PDB  Type:PROTEIN  Length:172
 aligned with Q5LP28_RUEPO | Q5LP28 from UniProtKB/TrEMBL  Length:465

    Alignment length:172
                             1                                                                                                                                                                          
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169  
         Q5LP28_RUEPO     - -MERRLCAILAADMAGYSRLMERNETDVLNRQKLYRRELIDPAIAQAGGQIVKTTGDGMLARFDTAQAALRCALEIQQAMQQREEDTPRKERIQYRIGINIGDIVLEDGDIFGDAVNVAARLEAISEPGAICVSDIVHQITQDRVSEPFTDLGLQKVKNITRPIRVWQWVPD 171
               SCOP domains d3mr7b_ B: automated matches                                                                                                                                                 SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeeeeee.........hhhhhhhhhhhhhhhhhhhhhhhh..eeeeee..eeeeee.hhhhhhhhhhhhhhhhhhh....hhhhh..eeeeeeeeeeeee..eeehhhhhhhhhhhhhh....eeeehhhhhhhh.......eeeeee........eeeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3mr7 B  -1 NAERRLCAILAADmAGYSRLmERNETDVLNRQKLYRRELIDPAIAQAGGQIVKTTGDGmLARFDTAQAALRCALEIQQAmQQREEDTPRKERIQYRIGINIGDIVLEDGDIFGDAVNVAARLEAISEPGAICVSDIVHQITQDRVSEPFTDLGLQKVKNITRPIRVWQWVPD 170
                                     8   |    18|       28        38        48        58        68        78        88        98       108       118       128       138       148       158       168  
                                        12-MSE 19-MSE                                57-MSE               78-MSE                                                                                        


Chain C from PDB  Type:PROTEIN  Length:169
 aligned with Q5LP28_RUEPO | Q5LP28 from UniProtKB/TrEMBL  Length:465

    Alignment length:172
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170  
         Q5LP28_RUEPO     1 MERRLCAILAADMAGYSRLMERNETDVLNRQKLYRRELIDPAIAQAGGQIVKTTGDGMLARFDTAQAALRCALEIQQAMQQREEDTPRKERIQYRIGINIGDIVLEDGDIFGDAVNVAARLEAISEPGAICVSDIVHQITQDRVSEPFTDLGLQKVKNITRPIRVWQWVPDA 172
               SCOP domains d3mr7c_ C: automated    matches                                                                                                                                              SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeeeeee......---hhhhhhhhhhhhhhhhhhhhhhh..eeeeee..eeeeee.hhhhhhhhhhhhhhhhhhhhh..hhhhh.eeeeeeeeeeeeee..eeehhhhhhhhhhhhhh....eeeehhhhhhhhhhh....eeeeee........eeeeee.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3mr7 C   0 AERRLCAILAADmAGYSRLm---ETDVLNRQKLYRRELIDPAIAQAGGQIVKTTGDGmLARFDTAQAALRCALEIQQAmQQREEDTPRKERIQYRIGINIGDIVLEDGDIFGDAVNVAARLEAISEPGAICVSDIVHQITQDRVSEPFTDLGLQKVKNITRPIRVWQWVPDA 171
                                     9  |     19   |    29        39        49       |59        69        79        89        99       109       119       129       139       149       159       169  
                                       12-MSE 19-MSE                                57-MSE               78-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  (1, 3)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3MR7)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3MR7)

(-) Gene Ontology  (5, 5)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C   (Q5LP28_RUEPO | Q5LP28)
molecular function
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0016849    phosphorus-oxygen lyase activity    Catalysis of the cleavage of a phosphorus-oxygen bond by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond.
biological process
    GO:0009190    cyclic nucleotide biosynthetic process    The chemical reactions and pathways resulting in the formation of a cyclic nucleotide, a nucleotide in which the phosphate group is in diester linkage to two positions on the sugar residue.
    GO:0035556    intracellular signal transduction    The process in which a signal is passed on to downstream components within the cell, which become activated themselves to further propagate the signal and finally trigger a change in the function or state of the cell.
cellular component
    GO:0005622    intracellular    The living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm.

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