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(-) Description

Title :  CRYSTAL STRUCTURE OF A DIMERIC FERREDOXIN-LIKE PROTEIN (JCVI_PEP_1096665735785) FROM UNCULTURED MARINE ORGANISM AT 1.70 A RESOLUTION
 
Authors :  Joint Center For Structural Genomics (Jcsg)
Date :  21 Dec 06  (Deposition) - 23 Jan 07  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Metagenomics Target, Structural Genomics, Joint Center For Structural Genomics, Jcsg, Protein Structure Initiative, Psi-2, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Joint Center For Structural Genomics (Jcsg)
Crystal Structure Of Hypothetical Protein (Jcvi_pep_1096665735785) From An Environmental Metagenome (Unidentified Marine Microbe), Sorcerer Ii Global Ocean Sampling Experiment At 1. 70 A Resolution
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - HYPOTHETICAL PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Scientific: UNCULTURED MARINE ORGANISM
    Organism Taxid: 360281
    Other Details: SYNTHETIC GENE: THE GENE PRODUCT WAS BASED ON JCVI_PEP_1096665735785 FROM THE SORCERER II GLOBAL OCEAN SAMPLING EXPERIMENT

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 13)

Asymmetric/Biological Unit (3, 13)
No.NameCountTypeFull Name
1CL4Ligand/IonCHLORIDE ION
2EDO1Ligand/Ion1,2-ETHANEDIOL
3MSE8Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG B:11 , TRP B:34 , ILE B:60 , TYR B:62BINDING SITE FOR RESIDUE CL B 101
2AC2SOFTWAREARG A:11 , TYR A:62 , EDO A:103BINDING SITE FOR RESIDUE CL A 101
3AC3SOFTWAREARG A:83 , GLN A:89 , ILE A:90BINDING SITE FOR RESIDUE CL A 102
4AC4SOFTWAREARG A:95 , ARG B:87BINDING SITE FOR RESIDUE CL B 102
5AC5SOFTWAREARG A:11 , TRP A:34 , PHE A:72 , ILE A:75 , CL A:101BINDING SITE FOR RESIDUE EDO A 103

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2OD4)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2OD4)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2OD4)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2OD4)

(-) Exons   (0, 0)

(no "Exon" information available for 2OD4)

(-) 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
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Chain A from PDB  Type:PROTEIN  Length:101
                                                                                                                                     
               SCOP domains -d2od4a1 A:1-100 Hypothetical protein GOS_3280838                                                     SCOP domains
               CATH domains -------2od4A01 A:7-94  [code=3.30.70.900, no name defined]                                     ------ CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........eeeeeeee..hhhhhhhhhhhhhhhhhhhhhhhh..eeeeeeee..eeeeeeee.hhhhhhhhhhhhhhhhhhhhhhheeeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------- Transcript
                 2od4 A   0 GmFAGSIPmYIRVVSITAQSKLQFDmTVTYFENVWSPKVISLGAISAEFVQSNENSGmYIIHYPDKQTAISVFDKIKPEVDEVRTQNRIQITEGKRLFRVD 100
                             |      |9        19     |  29        39        49       |59        69        79        89        99 
                             |      8-MSE           25-MSE                          57-MSE                                       
                             1-MSE                                                                                               


Chain B from PDB  Type:PROTEIN  Length:101
                                                                                                                                     
               SCOP domains d2od4b_ B: Hypothetical protein GOS_3280838                                                           SCOP domains
               CATH domains ------2od4B01 B:6-94  [code=3.30.70.900, no name defined]                                      ------ CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........eeeeeeee..hhhhhhhhhhhhhhhhhhhhhhhh..eeeeeeee..eeeeeeee.hhhhhhhhhhhhhhhhhhhhhhheeeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------- Transcript
                 2od4 B   0 GmFAGSIPmYIRVVSITAQSKLQFDmTVTYFENVWSPKVISLGAISAEFVQSNENSGmYIIHYPDKQTAISVFDKIKPEVDEVRTQNRIQITEGKRLFRVD 100
                             |      |9        19     |  29        39        49       |59        69        79        89        99 
                             1-MSE  8-MSE           25-MSE                          57-MSE
   Legend:   → Mismatch (orange background)
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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: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (1, 2)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2OD4)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 2OD4)

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