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(-) Description

Title :  CRYSTAL STRUCTURE OF PUTATIVE NITROALKAN DIOXYGENASE (TM0800) FROM THERMOTOGA MARITIMA AT 2.71 A RESOLUTION
 
Authors :  Joint Center For Structural Genomics (Jcsg)
Date :  17 Dec 07  (Deposition) - 25 Dec 07  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.71
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Tm0800, Putative Nitroalkan Dioxygenase, Structural Genomics, Joint Center For Structural Genomics, Jcsg, Protein Structure Initiative, Psi-2, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Joint Center For Structural Genomics (Jcsg)
Crystal Structure Of Putative Nitroalkan Dioxygenase (Tm0800) From Thermotoga Maritima At 2. 71 A Resolution
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - PUTATIVE NITROALKAN DIOXYGENASE
    Atcc: 43589
    Chains: A, B
    EC Number: 1.3.1.9
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: MH1
    Expression System Strain: DL41
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: TM0800
    Organism Scientific: THERMOTOGA MARITIMA MSB8
    Organism Taxid: 243274
    Strain: MSB8 / DSM 3109 / JCM 10099

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 42)

Asymmetric/Biological Unit (5, 42)
No.NameCountTypeFull Name
12PE9Ligand/IonNONAETHYLENE GLYCOL
2EDO1Ligand/Ion1,2-ETHANEDIOL
3MSE24Mod. Amino AcidSELENOMETHIONINE
4PO42Ligand/IonPHOSPHATE ION
5SO46Ligand/IonSULFATE ION

(-) Sites  (18, 18)

Asymmetric Unit (18, 18)
No.NameEvidenceResiduesDescription
01AC1SOFTWARESER A:143 , GLY A:144 , GLY A:171 , GLY A:172 , MSE A:192 , GLY A:193 , THR A:194 , SER A:280 , HOH A:329 , HOH A:330BINDING SITE FOR RESIDUE PO4 A 315
02AC2SOFTWARESER B:143 , GLY B:144 , GLY B:172 , MSE B:192 , GLY B:193 , THR B:194 , SER B:280 , HOH B:324BINDING SITE FOR RESIDUE PO4 B 315
03AC3SOFTWARETRP A:24 , GLY A:259 , SER A:260 , LEU A:261 , ARG A:262BINDING SITE FOR RESIDUE SO4 A 316
04AC4SOFTWARETRP B:24 , GLY B:259 , SER B:260 , LEU B:261 , ARG B:262BINDING SITE FOR RESIDUE SO4 B 316
05AC5SOFTWARESER A:121 , ASP A:122 , SER A:123 , SER B:216 , ILE B:217 , ARG B:218BINDING SITE FOR RESIDUE SO4 B 317
06AC6SOFTWARESER A:216 , ILE A:217 , ARG A:218 , ASP B:122 , SER B:123BINDING SITE FOR RESIDUE SO4 A 317
07AC7SOFTWAREGLY A:259 , ARG A:262 , ARG A:263 , HOH A:333BINDING SITE FOR RESIDUE SO4 A 318
08AC8SOFTWARELYS A:214 , 2PE A:321BINDING SITE FOR RESIDUE SO4 A 319
09AC9SOFTWAREARG A:61 , THR A:64 , ASP A:65 , LYS A:66BINDING SITE FOR RESIDUE EDO A 320
10BC1SOFTWARELYS A:211 , LYS A:214 , ASP A:219 , ARG A:235 , LEU A:270 , SO4 A:319BINDING SITE FOR RESIDUE 2PE A 321
11BC2SOFTWARELYS B:211 , ARG B:235BINDING SITE FOR RESIDUE 2PE B 318
12BC3SOFTWAREGLU A:59 , GLN A:62 , LYS A:63BINDING SITE FOR RESIDUE 2PE A 322
13BC4SOFTWAREGLU A:303 , THR A:304 , LYS A:307 , ALA B:184BINDING SITE FOR RESIDUE 2PE A 323
14BC5SOFTWAREPHE A:183 , ALA A:184 , ALA A:187 , THR B:304 , LYS B:307 , TYR B:311 , 2PE B:321BINDING SITE FOR RESIDUE 2PE B 319
15BC6SOFTWARELYS B:63BINDING SITE FOR RESIDUE 2PE B 320
16BC7SOFTWARESER A:160 , ARG B:177 , 2PE B:319BINDING SITE FOR RESIDUE 2PE B 321
17BC8SOFTWARELYS B:241 , GLU B:271BINDING SITE FOR RESIDUE 2PE B 322
18BC9SOFTWARELYS A:226 , PHE B:247BINDING SITE FOR RESIDUE 2PE A 324

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3BO9)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3BO9)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3BO9)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3BO9)

(-) Exons   (0, 0)

(no "Exon" information available for 3BO9)

(-) Sequences/Alignments

Asymmetric/Biological 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:314
 aligned with Q9WZQ7_THEMA | Q9WZQ7 from UniProtKB/TrEMBL  Length:314

    Alignment length:314
                             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       269       279       289       299       309    
         Q9WZQ7_THEMA     - -MTVRTRVTDLLEIEHPILMGGMAWAGTPTLAAAVSEAGGLGIIGSGAMKPDDLRKAISELRQKTDKPFGVNIILVSPWADDLVKVCIEEKVPVVTFGAGNPTKYIRELKENGTKVIPVVASDSLARMVERAGADAVIAEGMESGGHIGEVTTFVLVNKVSRSVNIPVIAAGGIADGRGMAAAFALGAEAVQMGTRFVASVESDVHPVYKEKIVKASIRDTVVTGAKLGHPARVLRTPFARKIQEMEFENPMQAEEMLVGSLRRAVVEGDLERGSFMVGQSAGLIDEIKPVKQIIEDILKEFKETVEKLRGYIE 313
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhh....eee.......hhhhhhhhhhh...eeee....hhhhhhhhhhhhhh.....eeeeee....hhhhhhhhhhhh...eeeee...hhhhhhhhhhh..eeeeee.hhhhhhhhhhh....eeee.....ee....hhhhhhhhhhhhh...eeee....hhhhhhhhhhhh..eeeehhhhhh......hhhhhhhhhhh....eeee.......eeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...........hhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3bo9 A   0 HmTVRTRVTDLLEIEHPILmGGmAWAGTPTLAAAVSEAGGLGIIGSGAmKPDDLRKAISELRQKTDKPFGVNIILVSPWADDLVKVCIEEKVPVVTFGAGNPTKYIRELKENGTKVIPVVASDSLARmVERAGADAVIAEGmESGGHIGEVTTFVLVNKVSRSVNIPVIAAGGIADGRGmAAAFALGAEAVQmGTRFVASVESDVHPVYKEKIVKASIRDTVVTGAKLGHPARVLRTPFARKIQEmEFENPmQAEEmLVGSLRRAVVEGDLERGSFmVGQSAGLIDEIKPVKQIIEDILKEFKETVEKLRGYIE 313
                             |       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       269      |279       289       299       309    
                             |                19-MSE                       48-MSE                                                                        127-MSE       141-MSE                               179-MSE      192-MSE                                              245-MSE |    |                 276-MSE                                 
                             1-MSE               22-MSE                                                                                                                                                                                                                              251-MSE|                                                         
                                                                                                                                                                                                                                                                                          256-MSE                                                     


Chain B from PDB  Type:PROTEIN  Length:314
 aligned with Q9WZQ7_THEMA | Q9WZQ7 from UniProtKB/TrEMBL  Length:314

    Alignment length:314
                             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       269       279       289       299       309    
         Q9WZQ7_THEMA     - -MTVRTRVTDLLEIEHPILMGGMAWAGTPTLAAAVSEAGGLGIIGSGAMKPDDLRKAISELRQKTDKPFGVNIILVSPWADDLVKVCIEEKVPVVTFGAGNPTKYIRELKENGTKVIPVVASDSLARMVERAGADAVIAEGMESGGHIGEVTTFVLVNKVSRSVNIPVIAAGGIADGRGMAAAFALGAEAVQMGTRFVASVESDVHPVYKEKIVKASIRDTVVTGAKLGHPARVLRTPFARKIQEMEFENPMQAEEMLVGSLRRAVVEGDLERGSFMVGQSAGLIDEIKPVKQIIEDILKEFKETVEKLRGYIE 313
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhh....eee.......hhhhhhhhhhhh..eeee....hhhhhhhhhhhhhh.....eeeeee....hhhhhhhhhhhh...eeeee...hhhhhhhhhhh..eeeeee.hhhhhhhhhhh....eeee.....ee....hhhhhhhhhhhhh...eeee....hhhhhhhhhhhh..eeeehhhhhh......hhhhhhhhhhh....eeee.......eeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3bo9 B   0 HmTVRTRVTDLLEIEHPILmGGmAWAGTPTLAAAVSEAGGLGIIGSGAmKPDDLRKAISELRQKTDKPFGVNIILVSPWADDLVKVCIEEKVPVVTFGAGNPTKYIRELKENGTKVIPVVASDSLARmVERAGADAVIAEGmESGGHIGEVTTFVLVNKVSRSVNIPVIAAGGIADGRGmAAAFALGAEAVQmGTRFVASVESDVHPVYKEKIVKASIRDTVVTGAKLGHPARVLRTPFARKIQEmEFENPmQAEEmLVGSLRRAVVEGDLERGSFmVGQSAGLIDEIKPVKQIIEDILKEFKETVEKLRGYIE 313
                             |       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       269      |279       289       299       309    
                             1-MSE            19-MSE                       48-MSE                                                                        127-MSE       141-MSE                               179-MSE      192-MSE                                              245-MSE |    |                 276-MSE                                 
                                                 22-MSE                                                                                                                                                                                                                              251-MSE|                                                         
                                                                                                                                                                                                                                                                                          256-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 3BO9)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3BO9)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3BO9)

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q9WZQ7_THEMA | Q9WZQ7)
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:0004318    enoyl-[acyl-carrier-protein] reductase (NADH) activity    Catalysis of the reaction: acyl-[acyl-carrier protein] + NAD+ = trans-2,3-dehydroacyl-[acyl-carrier protein] + NADH + H+.
    GO:0018580    nitronate monooxygenase activity    Catalysis of the reaction: ethylnitronate + O(2) = acetaldehyde + nitrite.
    GO:0016491    oxidoreductase activity    Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
biological process
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.

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 Related Entries

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        Q9WZQ7_THEMA | Q9WZQ7: 5gvh 5gvj

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