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(-) Description

Title :  CRYSTAL STRUCTURE OF SLR1438 PROTEIN FROM SYNECHOCYSTIS SP. PCC 6803, NORTHEAST STRUCTURAL GENOMICS CONSORTIUM TARGET SGR112
 
Authors :  A. Kuzin, M. Su, J. Seetharaman, S. Sahdev, R. Xiao, C. Ciccosanti, R. L. J. K. Everett, R. Nair, T. B. Acton, B. Rost, G. T. Montelione, L. Tong, J Northeast Structural Genomics Consortium (Nesg)
Date :  29 Sep 09  (Deposition) - 13 Oct 09  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.55
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Structural Genomics, Psi-2, Protein Structure Initiative, Northeast Structural Genomics Consortium, Nesg, Sgr112, P73504_syny3, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Kuzin, M. Su, J. Seetharaman, S. Sahdev, R. Xiao, C. Ciccosanti, R. L. Belote, J. K. Everett, R. Nair, T. B. Acton, B. Rost, G. T. Montelione, L. Tong, J. F. Hunt
Northeast Structural Genomics Consortium Target Sgr112
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - SLR1438 PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: BL21
    Expression System Strain: BL21(DE3)+ MAGIC
    Expression System Taxid: 469008
    Expression System Vector Type: PET 21-23C
    Gene: SLR1438
    Organism Scientific: SYNECHOCYSTIS SP.
    Organism Taxid: 1148
    Strain: PCC 6803

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 7)

Asymmetric Unit (2, 7)
No.NameCountTypeFull Name
1MSE4Mod. Amino AcidSELENOMETHIONINE
2PO43Ligand/IonPHOSPHATE ION
Biological Unit 1 (2, 3)
No.NameCountTypeFull Name
1MSE2Mod. Amino AcidSELENOMETHIONINE
2PO41Ligand/IonPHOSPHATE ION
Biological Unit 2 (2, 4)
No.NameCountTypeFull Name
1MSE2Mod. Amino AcidSELENOMETHIONINE
2PO42Ligand/IonPHOSPHATE ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:193 , GLY A:194BINDING SITE FOR RESIDUE PO4 A 290
2AC2SOFTWARESER B:59 , ARG B:61 , GLN B:90 , ARG B:95BINDING SITE FOR RESIDUE PO4 B 290
3AC3SOFTWAREARG B:170 , GLU B:171 , LYS B:172 , LEU B:173 , THR B:202BINDING SITE FOR RESIDUE PO4 B 291

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3K25)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Phe A:68 -Pro A:69
2Phe B:68 -Pro B:69

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3K25)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3K25)

(-) Exons   (0, 0)

(no "Exon" information available for 3K25)

(-) 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:289
 aligned with P73504_SYNY3 | P73504 from UniProtKB/TrEMBL  Length:289

    Alignment length:289
                                    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         
         P73504_SYNY3     1 MYNISFTPDRPLTYHLEDDQSLARLSLVPGRGGLVTEWTVQGQPILYFDRERFQDPSLSVRGGIPILFPICGNLPQDQFNHAGKSYRLKQHGFARDLPWEVIGQQTQDNARLDLRLSHNDATLEAFPFAFELVFSYQLQGHSLRIEQRIANLGDQRMPFSLGFHPYFFCREKLGITLAIPANDYLDQKTGDCHGYDGQLNLTSPELDLAFTQISQPRAHFIDPDRNLKIEVSFSELYQTLVLWTVAGKDYLCLEPWSGPRNALNSGEQLAWVEPYSSRSAWVNFQVSTE 289
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee.....eeeeee....eeeeee.....eeeeeee..ee......hhhhh..........ee......hhh.eeee..eeee.....hhhhh..eeeeee....eeeeeeee.hhhhhh.....eeeeeeeeee..eeeeeeeeee.....eee..ee..eee.......eee....eeee.....eee..........eeeeee......eeeeee....eeeeeee.....eeeeeee....eeeeeee....hhhhhh...eee...eeeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3k25 A   1 mYNISFTPDRPLTYHLEDDQSLARLSLVPGRGGLVTEWTVQGQPILYFDRERFQDPSLSVRGGIPILFPICGNLPQDQFNHAGKSYRLKQHGFARDLPWEVIGQQTQDNARLDLRLSHNDATLEAFPFAFELVFSYQLQGHSLRIEQRIANLGDQRmPFSLGFHPYFFCREKLGITLAIPANDYLDQKTGDCHGYDGQLNLTSPELDLAFTQISQPRAHFIDPDRNLKIEVSFSELYQTLVLWTVAGKDYLCLEPWSGPRNALNSGEQLAWVEPYSSRSAWVNFQVSTE 289
                            |       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         
                            |                                                                                                                                                         157-MSE                                                                                                                                
                            1-MSE                                                                                                                                                                                                                                                                                            


Chain B from PDB  Type:PROTEIN  Length:289
 aligned with P73504_SYNY3 | P73504 from UniProtKB/TrEMBL  Length:289

    Alignment length:289
                                    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         
         P73504_SYNY3     1 MYNISFTPDRPLTYHLEDDQSLARLSLVPGRGGLVTEWTVQGQPILYFDRERFQDPSLSVRGGIPILFPICGNLPQDQFNHAGKSYRLKQHGFARDLPWEVIGQQTQDNARLDLRLSHNDATLEAFPFAFELVFSYQLQGHSLRIEQRIANLGDQRMPFSLGFHPYFFCREKLGITLAIPANDYLDQKTGDCHGYDGQLNLTSPELDLAFTQISQPRAHFIDPDRNLKIEVSFSELYQTLVLWTVAGKDYLCLEPWSGPRNALNSGEQLAWVEPYSSRSAWVNFQVSTE 289
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -------------Aldose_epim-3k25B01 B:14-278                                                                                                                                                                                                                                             ----------- Pfam domains (1)
           Pfam domains (2) -------------Aldose_epim-3k25B02 B:14-278                                                                                                                                                                                                                                             ----------- Pfam domains (2)
         Sec.struct. author .eeeeee.....eeeeee....eeeeee.....eeeeeee..ee....hhhhhh...........ee......hhh.eee....eee............eeeeee....eeeeeeee.hhhhhhhh...eeeeeeeeee..eeeeeeeeee.....eee..ee..eee.......eee....eeee.....eee..........eeeeee......eeeeee....eeeeeee.....eeeeeee....eeeeeee....hhhhhh...eee...eeeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3k25 B   1 mYNISFTPDRPLTYHLEDDQSLARLSLVPGRGGLVTEWTVQGQPILYFDRERFQDPSLSVRGGIPILFPICGNLPQDQFNHAGKSYRLKQHGFARDLPWEVIGQQTQDNARLDLRLSHNDATLEAFPFAFELVFSYQLQGHSLRIEQRIANLGDQRmPFSLGFHPYFFCREKLGITLAIPANDYLDQKTGDCHGYDGQLNLTSPELDLAFTQISQPRAHFIDPDRNLKIEVSFSELYQTLVLWTVAGKDYLCLEPWSGPRNALNSGEQLAWVEPYSSRSAWVNFQVSTE 289
                            |       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         
                            1-MSE                                                                                                                                                     157-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 3K25)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3K25)

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: Gal_mutarotase (81)

(-) Gene Ontology  (4, 4)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (P73504_SYNY3 | P73504)
molecular function
    GO:0030246    carbohydrate binding    Interacting selectively and non-covalently with any carbohydrate, which includes monosaccharides, oligosaccharides and polysaccharides as well as substances derived from monosaccharides by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom. Cyclitols are generally not regarded as carbohydrates.
    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:0016853    isomerase activity    Catalysis of the geometric or structural changes within one molecule. Isomerase is the systematic name for any enzyme of EC class 5.
biological process
    GO:0005975    carbohydrate metabolic process    The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y. Includes the formation of carbohydrate derivatives by the addition of a carbohydrate residue to another molecule.

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