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(-) Description

Title :  CRYSTAL STRUCTURE OF A PUTATIVE NUCLEIC ACID BINDING PROTEIN (JCVI_PEP_1096688149193) FROM UNCULTURED MARINE ORGANISM AT 1.79 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 :  1.79
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  A  (4x)
Keywords :  Metagenomics, Structural Genomics, Joint Center For Structural Genomics, Jcsg, Protein Structure Initiative, Psi-2, Dna Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Joint Center For Structural Genomics (Jcsg)
Crystal Structure Of Hypothetical Protein (Jcvi_pep_1096688149193) From An Environmental Metagenome (Unidentified Marine Microbe), Sorcerer Ii Global Ocean Sampling Experiment At 1. 79 A Resolution
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - HYPOTHETICAL PROTEIN
    Chains: A
    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_1096688149193 FROM THE SORCERER II GLOBAL OCEAN SAMPLING EXPERIMENT

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (1x): A
Biological Unit 2 (4x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 9)

Asymmetric Unit (5, 9)
No.NameCountTypeFull Name
11PE2Ligand/IonPENTAETHYLENE GLYCOL
2CL1Ligand/IonCHLORIDE ION
3EDO3Ligand/Ion1,2-ETHANEDIOL
4IMD1Ligand/IonIMIDAZOLE
5MSE2Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (4, 8)
No.NameCountTypeFull Name
11PE2Ligand/IonPENTAETHYLENE GLYCOL
2CL-1Ligand/IonCHLORIDE ION
3EDO3Ligand/Ion1,2-ETHANEDIOL
4IMD1Ligand/IonIMIDAZOLE
5MSE2Mod. Amino AcidSELENOMETHIONINE
Biological Unit 2 (4, 32)
No.NameCountTypeFull Name
11PE8Ligand/IonPENTAETHYLENE GLYCOL
2CL-1Ligand/IonCHLORIDE ION
3EDO12Ligand/Ion1,2-ETHANEDIOL
4IMD4Ligand/IonIMIDAZOLE
5MSE8Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:14 , HIS A:43 , GLY A:44BINDING SITE FOR RESIDUE CL A 116
2AC2SOFTWARELEU A:34 , GLU A:35 , ASN A:38 , 1PE A:121 , HOH A:191BINDING SITE FOR RESIDUE IMD A 117
3AC3SOFTWAREASN A:29 , GLU A:32 , TYR A:76 , ASP A:77 , HOH A:185 , HOH A:192BINDING SITE FOR RESIDUE EDO A 118
4AC4SOFTWAREGLU A:32 , GLU A:35 , HIS A:36 , HOH A:190BINDING SITE FOR RESIDUE EDO A 119
5AC5SOFTWAREGLU A:6 , THR A:7 , MSE A:10 , LYS A:11 , ARG A:14BINDING SITE FOR RESIDUE EDO A 120
6AC6SOFTWAREASN A:38 , SER A:39 , ARG A:42 , HIS A:43 , IMD A:117 , 1PE A:122 , HOH A:139 , HOH A:191BINDING SITE FOR RESIDUE 1PE A 121
7AC7SOFTWARELYS A:11 , HIS A:43 , GLY A:44 , THR A:45 , 1PE A:121BINDING SITE FOR RESIDUE 1PE A 122

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2OD5)

(-) Cis Peptide Bonds  (0, 0)

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 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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  UniProt sequence: complete  aligned part    
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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:91
                                                                                                                          
               SCOP domains d2od5a1 A:6-96 Hypothetical protein GOS_3836187                                             SCOP domains
               CATH domains 2od5A00 A:6-96 'winged helix' repressor DNA binding domain                                  CATH domains
               Pfam domains ------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhh....eehhhhhhhhhh......hhhhhhhhhhhh..eeeeeeeeeee...eeeeeeeeeehhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------- Transcript
                  2od5 A  6 ETESmKTVRIREKIKKFLGDRPRNTAEILEHINSTmRHGTTSQQLGNVLSKDKDIVKVGYIKRSGILSGGYDICEWATRNWVAEHCPEWTE 96
                                |   15        25        35     |  45        55        65        75        85        95 
                                |                             41-MSE                                                   
                               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  (1, 1)

Asymmetric Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (1, 1)

Asymmetric Unit
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2OD5)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
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