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(-) Description

Title :  CRYSTAL STRUCTURE OF A PYRIDOXAMINE 5'-PHOSPHATE OXIDASE-LIKE FAMILY PROTEIN (NPUN_R6570) FROM NOSTOC PUNCTIFORME PCC 73102 AT 1.80 A RESOLUTION
 
Authors :  Joint Center For Structural Genomics (Jcsg)
Date :  09 Aug 06  (Deposition) - 29 Aug 06  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym./Biol. Unit :  A,B
Keywords :  General Stress Protein Of Cog3871, Pyridoxamine 5'-Phosphate Oxidase- Like Family Protein, 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 General Stress Protein Of Cog3871 (Zp_00108720. 1) From Nostoc Punctiforme Pcc 73102 At 1. 80 A Resolution
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - GENERAL STRESS PROTEIN OF COG3871
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: ZP_00108720.1
    Organism Scientific: NOSTOC PUNCTIFORME
    Organism Taxid: 63737
    Strain: PCC 73102

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 10)

Asymmetric/Biological Unit (4, 10)
No.NameCountTypeFull Name
1CL1Ligand/IonCHLORIDE ION
2FMN1Ligand/IonFLAVIN MONONUCLEOTIDE
3MSE6Mod. Amino AcidSELENOMETHIONINE
4P332Ligand/Ion3,6,9,12,15,18-HEXAOXAICOSANE-1,20-DIOL

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS B:15 , LYS B:42 , ILE B:46BINDING SITE FOR RESIDUE CL B 148
2AC2SOFTWARETYR A:23 , TYR A:38 , PRO A:39 , MSE A:40 , SER A:41 , PHE A:55 , THR A:56 , SER A:60 , HIS A:61 , LYS A:62 , TRP A:111 , PHE A:112 , HOH A:224 , HOH A:227 , HOH A:270 , HOH A:290 , TRP B:134 , PHE B:140BINDING SITE FOR RESIDUE FMN A 200
3AC3SOFTWAREALA A:58 , LYS A:95 , ARG A:97 , MSE A:100 , PRO A:119 , ASP A:120 , ILE A:121BINDING SITE FOR RESIDUE P33 A 201
4AC4SOFTWARETYR B:23BINDING SITE FOR RESIDUE P33 B 149

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2I02)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2I02)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2I02)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2I02)

(-) Exons   (0, 0)

(no "Exon" information available for 2I02)

(-) 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:140
 aligned with B2J0D8_NOSP7 | B2J0D8 from UniProtKB/TrEMBL  Length:147

    Alignment length:143
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144   
         B2J0D8_NOSP7     5 TDRTQEIQKLHELIKNIDYGMFTTVDDDGSLHSYPMSKSGDINSEATLWFFTYAGSHKVTEIEHHEQVNVSFSSPEQQRYVSISGTSQLVKDRNKMRELWKPELQTWFPKGLDEPDIALLKVNINQVNYWDSTSSFKPQTISF 147
               SCOP domains d2i02a1 A:5-147 General stress protein 26                                                                                                       SCOP domains
               CATH domains 2i02A00 A:5-147 Electron Transport, Fmn-b   inding Protein; Chain A                                                                             CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhh...eeeeeee.....eeeeeee....---..eeeeeee..hhhhhhhhhh.eeeeeeee....eeeeeeeeeeee.hhhhhhhhhhhhhhhh..hhhhh..eeeeeeeeeeeeeee.hhh...eeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2i02 A   5 TDRTQEIQKLHELIKNIDYGmFTTVDDDGSLHSYPmSKSGD---EATLWFFTYAGSHKVTEIEHHEQVNVSFSSPEQQRYVSISGTSQLVKDRNKmRELWKPELQTWFPKGLDEPDIALLKVNINQVNYWDSTSSFKPQTISF 147
                                    14        24|       34     |  44|   |   54        64        74        84        94     | 104       114       124       134       144   
                                               25-MSE         40-MSE5  49                                                100-MSE                                           


Chain B from PDB  Type:PROTEIN  Length:140
 aligned with B2J0D8_NOSP7 | B2J0D8 from UniProtKB/TrEMBL  Length:147

    Alignment length:143
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144   
         B2J0D8_NOSP7     5 TDRTQEIQKLHELIKNIDYGMFTTVDDDGSLHSYPMSKSGDINSEATLWFFTYAGSHKVTEIEHHEQVNVSFSSPEQQRYVSISGTSQLVKDRNKMRELWKPELQTWFPKGLDEPDIALLKVNINQVNYWDSTSSFKPQTISF 147
               SCOP domains d2i02b_ B: General stress protein 26                                                                                                            SCOP domains
               CATH domains 2i02B00 B:5-147 Electron Transport, Fmn-binding Protein; Chain A                                                                                CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhh....eeeeee.....eeeeee..........eeeeeee..hhhhhhhhhh.eeeeeeeehhhheeeeeeeeeeee.hhhhhhhhhhhhhhhh..hhhhh..eeeeeeeeeeeeee.---....eeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2i02 B   5 TDRTQEIQKLHELIKNIDYGmFTTVDDDGSLHSYPmSKSGDINSEATLWFFTYAGSHKVTEIEHHEQVNVSFSSPEQQRYVSISGTSQLVKDRNKmRELWKPELQTWFPKGLDEPDIALLKVNINQVNYWD---SFKPQTISF 147
                                    14        24|       34     |  44        54        64        74        84        94     | 104       114       124       134|   |  144   
                                               25-MSE         40-MSE                                                     100-MSE                            135 139
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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  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  (1, 2)

Asymmetric/Biological Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2I02)

(-) Gene Ontology  (4, 7)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (B2J0D8_NOSP7 | B2J0D8)
molecular function
    GO:0010181    FMN binding    Interacting selectively and non-covalently with flavin mono nucleotide. Flavin mono nucleotide (FMN) is the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes.
    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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