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(-) Description

Title :  THE CRYSTAL STRUCTURE OF HYPOTHETIC PROTEIN SMU.573 FROM STREPTOCOCCUS MUTANS
 
Authors :  Y. H. Liang, Y. F. Zhou, C. Yang, X. D. Su
Date :  26 Nov 07  (Deposition) - 16 Dec 08  (Release) - 16 Dec 08  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (4x)
Keywords :  Alpha/Beta Three Layer Sandwich, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. H. Liang, Y. F. Zhou, L. F. Li, X. D. Su, C. Yang
The Crystal Structure Of Streptococcus Mutans Protein Smu. 573 Solved From The Anomalous Signal Measured With In-House Chromium Radiation
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PUTATIVE UNCHARACTERIZED PROTEIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-28A (+)
    Expression System Strain: BL21 (DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: SMU.573
    Organism Scientific: STREPTOCOCCUS MUTANS
    Organism Taxid: 1309
    Strain: UA159
    Synonym: SMU.573

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (4x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 11)

Asymmetric Unit (3, 11)
No.NameCountTypeFull Name
1K1Ligand/IonPOTASSIUM ION
2MSE9Mod. Amino AcidSELENOMETHIONINE
3PO41Ligand/IonPHOSPHATE ION
Biological Unit 1 (2, 40)
No.NameCountTypeFull Name
1K-1Ligand/IonPOTASSIUM ION
2MSE36Mod. Amino AcidSELENOMETHIONINE
3PO44Ligand/IonPHOSPHATE ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:152 , GLY A:213 , GLY A:214 , MSE A:215 , GLY A:216 , ASP A:217 , HOH A:292BINDING SITE FOR RESIDUE PO4 A 278
2AC2SOFTWARELYS A:9 , ILE A:12 , MSE A:275 , SER A:276BINDING SITE FOR RESIDUE K A 279

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Tyr A:34 -Pro A:35

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

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(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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  UniProt sequence: complete  aligned part    
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SAPs(SNPs) PROSITE motifs Exons
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Chain A from PDB  Type:PROTEIN  Length:276
 aligned with Q8DVC0_STRMU | Q8DVC0 from UniProtKB/TrEMBL  Length:277

    Alignment length:277
                                    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       
         Q8DVC0_STRMU     1 MIIDDLLTKKIIKPRPLNSHKGTFGRVLLIGGNYPYGGAIIMAALACVNSGAGLVTVATHKDNITALHSHLPEAMAFDMVEKDRLSEQITAADVVLMGPGLAEDDLAQTTFDVVWQAIEPKQTLIIDGSAINLLAKRKPAIWPTKQIILTPHQKEWERLSGLTIPEQIEAATQTALAHFPKETILVAKSHQTKIYQGQKIGHIQVGGPYQATGGMGDTLAGMIAGFVAQFHTDRFEVAAAAVFLHSYIADQLSKEAYVVLPTRISAEITRVMKEMSE 277
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -3bgkA00 A:2-277  [code=3.40.1190.20, no name defined]                                                                                                                                                                                                                                CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eehhhhhhhhh.............eeeee.....hhhhhhhhhhhhhhh...eeeeeehhhhhhhhhhhh...eeee..hhhhhhhhhhhh.eeee......hhhhhhhhhhhhhhh....eeeeehhhhhhhhhh.-.......eeee...hhhhhh........hhhhhhhhhh......eeee.....eeee..eeeee...hhhhh..hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3bgk A   1 mIIDDLLTKKIIKPRPLNSHKGTFGRVLLIGGNYPYGGAIImAALACVNSGAGLVTVATHKDNITALHSHLPEAmAFDmVEKDRLSEQITAADVVLmGPGLAEDDLAQTTFDVVWQAIEPKQTLIIDGSAINLLAKRK-AIWPTKQIILTPHQKEWERLSGLTIPEQIEAATQTALAHFPKETILVAKSHQTKIYQGQKIGHIQVGGPYQATGGmGDTLAGmIAGFVAQFHTDRFEVAAAAVFLHSYIADQLSKEAYVVLPTRISAEITRVmKEmSE 277
                            |       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 |  |  
                            |                                       42-MSE                           75-MSE                97-MSE                                  138 |                                                                        215-MSE  |                                               272-MSE 
                            1-MSE                                                                        79-MSE                                                      140                                                                               222-MSE                                              275-MSE
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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 3BGK)

(-) CATH Domains  (1, 1)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (5, 5)

Asymmetric Unit(hide GO term definitions)
Chain A   (Q8DVC0_STRMU | Q8DVC0)
molecular function
    GO:0052855    ADP-dependent NAD(P)H-hydrate dehydratase activity    Catalysis of the reaction: (6S)-6beta-hydroxy-1,4,5,6-tetrahydronicotinamide adenine dinucleotide + ADP = AMP + 3 H(+) + NADH + phosphate.
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0016829    lyase activity    Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring.
    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.
biological process
    GO:0046496    nicotinamide nucleotide metabolic process    The chemical reactions and pathways involving nicotinamide nucleotides, any nucleotide that contains combined nicotinamide.

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