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(-) Description

Title :  CRYSTAL STRUCTURE OF A PUTATIVE NADPH:QUINONE REDUCTASE (MLL3093) FROM MESORHIZOBIUM LOTI AT 1.71 A RESOLUTION
 
Authors :  Joint Center For Structural Genomics (Jcsg)
Date :  05 Nov 10  (Deposition) - 17 Nov 10  (Release) - 20 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.71
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Groes-Like Fold, Nad(P)-Binding Rossmann Fold, Structural Genomics, Joint Center For Structural Genomics, Jcsg, Protein Structure Initiative, Psi-Biology, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Joint Center For Structural Genomics (Jcsg)
Crystal Structure Of A Putative Nadph:Quinone Reductase (Mll3093) From Mesorhizobium Loti At 1. 71 A Resolution
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - NADH OXIDOREDUCTASE
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: SPEEDET
    Expression System Strain: HK100
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: MLL3093
    Organism Scientific: MESORHIZOBIUM LOTI
    Organism Taxid: 381

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 15)

Asymmetric Unit (4, 15)
No.NameCountTypeFull Name
1GOL3Ligand/IonGLYCEROL
2K1Ligand/IonPOTASSIUM ION
3MSE9Mod. Amino AcidSELENOMETHIONINE
4PO42Ligand/IonPHOSPHATE ION
Biological Unit 1 (3, 28)
No.NameCountTypeFull Name
1GOL6Ligand/IonGLYCEROL
2K-1Ligand/IonPOTASSIUM ION
3MSE18Mod. Amino AcidSELENOMETHIONINE
4PO44Ligand/IonPHOSPHATE ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPHE A:67 , GLN A:74 , PRO A:81 , ALA A:82 , GLY A:83 , THR A:111 , GLY A:112 , LEU A:113 , SER A:114 , ASN A:115 , GLY A:117 , HOH A:614BINDING SITE FOR RESIDUE GOL A 349
2AC2SOFTWAREGLY A:79 , HIS A:211 , GLU A:226 , GOL A:351 , HOH A:370 , HOH A:407BINDING SITE FOR RESIDUE GOL A 350
3AC3SOFTWAREILE A:41 , ALA A:42 , HIS A:211 , LEU A:213 , THR A:223 , GOL A:350 , HOH A:436 , HOH A:526BINDING SITE FOR RESIDUE GOL A 351
4AC4SOFTWAREASP A:18 , TYR A:20 , THR A:21 , LYS A:22 , ARG A:76 , K A:354 , HOH A:413 , HOH A:427 , HOH A:523BINDING SITE FOR RESIDUE PO4 A 352
5AC5SOFTWARELYS A:254 , ARG A:255 , ARG A:294 , HOH A:484BINDING SITE FOR RESIDUE PO4 A 353
6AC6SOFTWAREASP A:18 , TYR A:20 , PO4 A:352 , HOH A:384BINDING SITE FOR RESIDUE K A 354

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3PI7)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3PI7)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3PI7)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3PI7)

(-) Exons   (0, 0)

(no "Exon" information available for 3PI7)

(-) 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:344
 aligned with Q98H03_RHILO | Q98H03 from UniProtKB/TrEMBL  Length:348

    Alignment length:345
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343     
         Q98H03_RHILO     4 MTIPSEMKALLLVGDGYTKTPSGSALEAMEPYLEQGRIAVPAPGPSQVLIKVNLASINPSDVAFIKGQYGQPRVKGRPAGFEGVGTIVAGGDEPYAKSLVGKRVAFATGLSNWGSWAEYAVAEAAACIPLLDTVRDEDGAAMIVNPLTAIAMFDIVKQEGEKAFVMTAGASQLCKLIIGLAKEEGFRPIVTVRRDEQIALLKDIGAAHVLNEKAPDFEATLREVMKAEQPRIFLDAVTGPLASAIFNAMPKRARWIIYGRLDPDATVIREPGQLIFQHKHIEGFWLSEWMRQFKERRGPAILEAQKRFSDGRWSTDVTAVVPLAEAIAWVPAELTKPNGKVFIRP 348
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------ADH_N-3pi7A01 A:48-114                                             --------------------------------------------------------------ADH_zinc_N-3pi7A02 A:177-300                                                                                                ------------------------------------------------ Pfam domains
         Sec.struct. author .....eeeeeee....................eeeeeee.......eeeeeeeeee.hhhhhhhhh...............eeeeeeeee..hhhhhhhh..eeeee...........eeeee...eee.....hhhhhh..hhhhhhhhhhhhhhhhhh..eeee....hhhhhhhhhhhhhhh.eeeeee.hhhhhhhhhhhh..eeee....hhhhhhhhhhhhhh..eeee..hhhhhhhhhhhh....eeee.............hhhhhhh..eeee.hhhhhhhhhhhhhhhhhhhhhhhhhh.....-..eeeehhhhhhhhhhhhh.....eeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3pi7 A   4 mTIPSEmKALLLVGDGYTKTPSGSALEAmEPYLEQGRIAVPAPGPSQVLIKVNLASINPSDVAFIKGQYGQPRVKGRPAGFEGVGTIVAGGDEPYAKSLVGKRVAFATGLSNWGSWAEYAVAEAAACIPLLDTVRDEDGAAmIVNPLTAIAmFDIVKQEGEKAFVmTAGASQLCKLIIGLAKEEGFRPIVTVRRDEQIALLKDIGAAHVLNEKAPDFEATLREVmKAEQPRIFLDAVTGPLASAIFNAmPKRARWIIYGRLDPDATVIREPGQLIFQHKHIEGFWLSEWmRQFKERRGPAILEAQKRFSDGRWST-VTAVVPLAEAIAWVPAELTKPNGKVFIRP 348
                            |     | 13        23        33        43        53        63        73        83        93       103       113       123       133       143 |     153 |     163     | 173       183       193       203       213       223    |  233       243       253       263       273       283       293       303       313    | |323       333       343     
                            |     |                    32-MSE                                                                                                          145-MSE   155-MSE       169-MSE                                                    228-MSE                 252-MSE                                  293-MSE                  318 |                            
                            4-MSE |                                                                                                                                                                                                                                                                                                                   320                            
                                 10-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 3PI7)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3PI7)

(-) Pfam Domains  (2, 2)

Asymmetric Unit
(-)
Clan: GroES (70)
(-)
Clan: NADP_Rossmann (1239)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A   (Q98H03_RHILO | Q98H03)
molecular function
    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.
    GO:0008270    zinc ion binding    Interacting selectively and non-covalently with zinc (Zn) ions.
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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