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(-) Description

Title :  CRYSTAL STRUCTURE OF A PUTATIVE NITROREDUCTASE (AVA_2154) FROM ANABAENA VARIABILIS ATCC 29413 AT 1.80 A RESOLUTION
 
Authors :  Joint Center For Structural Genomics (Jcsg)
Date :  26 Sep 08  (Deposition) - 28 Oct 08  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym./Biol. Unit :  A
Keywords :  Structural Genomics, Joint Center For Structural Genomics, Jcsg, Protein Structure Initiative, Psi-2, Flavoprotein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Joint Center For Structural Genomics (Jcsg)
Crystal Structure Of Putative Nitroreductase (Yp_322669. 1) From Anabaena Variabilis Atcc 29413 At 1. 80 A Resolution
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - PUTATIVE NITROREDUCTASE
    Atcc: 29413
    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: YP_322669.1, AVA_2154
    Organism Scientific: ANABAENA VARIABILIS ATCC 29413
    Organism Taxid: 240292

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (6, 22)

Asymmetric/Biological Unit (6, 22)
No.NameCountTypeFull Name
1ACT12Ligand/IonACETATE ION
2CA1Ligand/IonCALCIUM ION
3CL2Ligand/IonCHLORIDE ION
4FMN1Ligand/IonFLAVIN MONONUCLEOTIDE
5MSE4Mod. Amino AcidSELENOMETHIONINE
6PGR2Ligand/IonR-1,2-PROPANEDIOL

(-) Sites  (18, 18)

Asymmetric Unit (18, 18)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREARG A:97 , PRO A:100 , SER A:101 , ALA A:102 , TYR A:106 , LEU A:186 , ASP A:187 , HIS A:190 , ARG A:333 , ARG A:334 , SER A:335 , GLN A:424 , LEU A:426 , SER A:478 , GLY A:479 , ILE A:480 , GLY A:481 , CA A:701 , HOH A:757 , HOH A:816 , HOH A:1091 , HOH A:1092 , HOH A:1094 , HOH A:1225BINDING SITE FOR RESIDUE FMN A 700
02AC2SOFTWAREFMN A:700 , HOH A:879 , HOH A:1095 , HOH A:1207 , HOH A:1223 , HOH A:1225BINDING SITE FOR RESIDUE CA A 701
03AC3SOFTWARELYS A:271 , PHE A:304 , PRO A:305 , PHE A:306BINDING SITE FOR RESIDUE CL A 702
04AC4SOFTWARETRP A:138 , GLU A:139 , ACT A:711 , HOH A:1128BINDING SITE FOR RESIDUE CL A 703
05AC5SOFTWAREILE A:48 , TYR A:53 , TRP A:70 , HOH A:1030BINDING SITE FOR RESIDUE ACT A 704
06AC6SOFTWARELYS A:34 , GLN A:227 , PHE A:306 , HOH A:958 , HOH A:1036BINDING SITE FOR RESIDUE ACT A 705
07AC7SOFTWARESER A:255 , ALA A:256 , THR A:257 , ALA A:445 , GLY A:448BINDING SITE FOR RESIDUE ACT A 706
08AC8SOFTWAREASP A:203 , ASN A:322 , LEU A:323 , SER A:366 , HOH A:1124 , HOH A:1125BINDING SITE FOR RESIDUE ACT A 707
09AC9SOFTWAREGLU A:41 , TYR A:42 , GLN A:128 , ILE A:135 , ACT A:710 , HOH A:983BINDING SITE FOR RESIDUE ACT A 708
10BC1SOFTWAREGLU A:343 , GLN A:389 , HOH A:933BINDING SITE FOR RESIDUE ACT A 709
11BC2SOFTWARETYR A:42 , LYS A:43 , ILE A:44 , GLY A:45 , ILE A:135 , ACT A:708BINDING SITE FOR RESIDUE ACT A 710
12BC3SOFTWAREHIS A:136 , GLU A:139 , CL A:703 , HOH A:1128BINDING SITE FOR RESIDUE ACT A 711
13BC4SOFTWAREASP A:219 , GLU A:490 , HOH A:1154BINDING SITE FOR RESIDUE ACT A 712
14BC5SOFTWAREGLY A:390 , LEU A:391 , GLU A:392 , TYR A:396 , HOH A:1115 , HOH A:1187BINDING SITE FOR RESIDUE ACT A 713
15BC6SOFTWAREASP A:224 , LEU A:226 , ARG A:409 , GLY A:493 , HOH A:1003BINDING SITE FOR RESIDUE ACT A 714
16BC7SOFTWAREGLU A:215 , ASN A:218 , PRO A:225 , HOH A:858BINDING SITE FOR RESIDUE ACT A 715
17BC8SOFTWAREASP A:486 , ASN A:489 , GLU A:490 , ASN A:496 , GLU A:498 , HOH A:1166BINDING SITE FOR RESIDUE PGR A 716
18BC9SOFTWARELYS A:271 , TYR A:272 , HIS A:275 , HIS A:276 , CYS A:307 , LEU A:308 , GLN A:407 , ILE A:408BINDING SITE FOR RESIDUE PGR A 717

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3EO7)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Thr A:57 -Pro A:58

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3EO7)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3EO7)

(-) Exons   (0, 0)

(no "Exon" information available for 3EO7)

(-) 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:487
 aligned with Q3MB62_ANAVT | Q3MB62 from UniProtKB/TrEMBL  Length:510

    Alignment length:506
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484       494       504      
         Q3MB62_ANAVT     5 HQSIAQHYHERTKYDPETIASKSQRLDWAKQPVPFKEYKIGSAIDLKPYLQETPEVFVNDTNGQWWQRLSRLLFRSYGLTARMPSMGNTVYLRAAPSAGGLYPAEVYVVSRGTPLLSPGLYNYQCRTHSLIHYWESDVWQSLQEACFWHPALESTQLAIIVTAVFYRSAWRYEDRAYRRICLDTGHLLGNIELSAAITDYRPHLIGGFIDEAVNDLLYIDPLQEGAIAVLPLADLLDIQQNISPGCTALPSATETNYPQVPDGELLKYFHHHTQISASITGKLNLPTVIQEKSLEDKYNFPFCLKISTVSAPIYWGENLSDLEITMHKRRSTRAYNGEELTFDELKALLDFTYQPQNYIDQSLDNSPDYFDLNLIETFIAVCGVQGLEAGCYYYAPKAQELRQIRFKNFRRELHFLCLGQELGRDAAAVIFHTSDLKSAIAQYGDRVYRYLHMDAGHLGQRLNLAAIQLNLGVSGIGGFFDDQVNEVLGIPNDEAVIYITTLGRPR 510
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhh..........--..hhhhh..........eeee.hhhh....-----hhhhhhhhhhhhhhhhhhheeeeeee..eeeeee...hhhhh..eeeeeee........eeeeee....eeeeee...hhhhhhhhh..hhhhhhh.eeeeeeeehhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh.eee......hhhhhhhhhh.....eeeeeeeeeee..hhhhh......................hhhhhhhhh.........------------...........eee........hhhhhhhhhhhhhh..........eehhhhhhhhhhhhhhhhhhhhh........hhhhheeeeee..ee....eeeeee....eeeeeee..hhhhhhhhh..hhhhhhh.eeeeeeehhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh..eeeee...hhhhhhhhhh.....eeeeeeeee... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3eo7 A   5 HQSIAQHYHERTKYDPETIASK--RLDWAKQPVPFKEYKIGSAIDLKPYLQETP-----DTNGQWWQRLSRLLFRSYGLTARmPSmGNTVYLRAAPSAGGLYPAEVYVVSRGTPLLSPGLYNYQCRTHSLIHYWESDVWQSLQEACFWHPALESTQLAIIVTAVFYRSAWRYEDRAYRRICLDTGHLLGNIELSAAITDYRPHLIGGFIDEAVNDLLYIDPLQEGAIAVLPLADLLDIQQNISPGCTALPSATETNYPQVPDGELLKYFHHHTQISASITG------------LEDKYNFPFCLKISTVSAPIYWGENLSDLEITmHKRRSTRAYNGEELTFDELKALLDFTYQPQNYIDQSLDNSPDYFDLNLIETFIAVCGVQGLEAGCYYYAPKAQELRQIRFKNFRRELHFLCLGQELGRDAAAVIFHTSDLKSAIAQYGDRVYRYLHmDAGHLGQRLNLAAIQLNLGVSGIGGFFDDQVNEVLGIPNDEAVIYITTLGRPR 510
                                    14        24 |  |   34        44        54   |    64        74        84  |  |  94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284|        -   |   304       314       324     | 334       344       354       364       374       384       394       404       414       424       434       444       454  |    464       474       484       494       504      
                                                26 29                           58    64                     87-MSE                                                                                                                                                                                               285          298                             330-MSE                                                                                                                        457-MSE                                                 
                                                                                                                90-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 3EO7)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3EO7)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3EO7)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q3MB62_ANAVT | Q3MB62)
molecular function
    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.
    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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