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(-) Description

Title :  ENSEMBLE REFINEMENT OF THE PROTEIN CRYSTAL STRUCTURE OF AT1G24000 FROM ARABIDOPSIS THALIANA
 
Authors :  E. J. Levin, D. A. Kondrashov, G. E. Wesenberg, G. N. Phillips Jr. , Cent Eukaryotic Structural Genomics (Cesg)
Date :  30 May 07  (Deposition) - 19 Jun 07  (Release) - 10 Aug 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym. Unit :  A,B  (16x)
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Plant Protein, Ensemble Refinement, Refinement Methodology Development, Structural Genomics, Protein Structure Initiative, Psi, Center For Eukaryotic Structural Genomics, Cesg (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  E. J. Levin, D. A. Kondrashov, G. E. Wesenberg, G. N. Phillips
Ensemble Refinement Of Protein Crystal Structures: Validation And Application.
Structure V. 15 1040 2007
PubMed-ID: 17850744  |  Reference-DOI: 10.1016/J.STR.2007.06.019

(-) Compounds

Molecule 1 - UNCHARACTERIZED PROTEIN AT1G24000
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PVP13
    Expression System Strain: ROSETTA
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: AT1G24000, T23E23.17
    Organism Common: THALE CRESS
    Organism Scientific: ARABIDOPSIS THALIANA
    Organism Taxid: 3702
    Strain: CV. COLUMBIA

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit (16x): AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 4)

Asymmetric Unit (1, 4)
No.NameCountTypeFull Name
1MSE4Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1MSE2Mod. Amino AcidSELENOMETHIONINE
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1MSE2Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 2Q3Q)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2Q3Q)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2Q3Q)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2Q3Q)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2Q3Q)

(-) Exons   (0, 0)

(no "Exon" information available for 2Q3Q)

(-) 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:120
 aligned with Y1400_ARATH | P0C0B0 from UniProtKB/Swiss-Prot  Length:122

    Alignment length:120
                                    10        20        30        40        50        60        70        80        90       100       110       120
          Y1400_ARATH     1 MTLKGALSVKFDVKCPADKFFSAFVEDTNRPFEKNGKTEIEAVDLVKKTMTIQMSGSEIQKYFKTLKGSIAVTPIGVGDGSHVVWTFHFEKVHKDIDDPHSIIDESVKYFKKLDEAILNF 120
               SCOP domains d2q3qa_ A: Hypothetical protein At1G24000                                                                                SCOP domains
               CATH domains 2q3qA00 A:1-120  [code=3.30.530.20, no name defined]                                                                     CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...ee..eeeeee..hhhhhhhhhhhhh........eeeeeeee....eeeeeee..hhhh.eeeeeeeeeeee......eeeeee..eee.......hhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------ Transcript
                 2q3q A   1 STLKGALSVKFDVKCPADKFFSAFVEDTNRPFEKNGKTEIEAVDLVKKTmTIQmSGSEIQKYFKTLKGSIAVTPIGVGDGSHVVWTFHFEKVHKDIDDPHSIIDESVKYFKKLDEAILNF 120
                                    10        20        30        40        50   |    60        70        80        90       100       110       120
                                                                            50-MSE                                                                  
                                                                                54-MSE                                                              


Chain B from PDB  Type:PROTEIN  Length:120
 aligned with Y1400_ARATH | P0C0B0 from UniProtKB/Swiss-Prot  Length:122

    Alignment length:120
                                    10        20        30        40        50        60        70        80        90       100       110       120
          Y1400_ARATH     1 MTLKGALSVKFDVKCPADKFFSAFVEDTNRPFEKNGKTEIEAVDLVKKTMTIQMSGSEIQKYFKTLKGSIAVTPIGVGDGSHVVWTFHFEKVHKDIDDPHSIIDESVKYFKKLDEAILNF 120
               SCOP domains d2q3qb_ B: Hypothetical protein At1G24000                                                                                SCOP domains
               CATH domains 2q3qB00 B:1-120  [code=3.30.530.20, no name defined]                                                                     CATH domains
           Pfam domains (1) -------------------------------Bet_v_1-2q3qB01 B:32-119                                                                - Pfam domains (1)
           Pfam domains (2) -------------------------------Bet_v_1-2q3qB02 B:32-119                                                                - Pfam domains (2)
         Sec.struct. author ...eeeeeeeeee..hhhhhhhhhhhhh.......eeeeeeeee....eeeeeeee.hhhhheeeeeeeeeeee......eeeeeeeeeee.......hhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------ Transcript
                 2q3q B   1 STLKGALSVKFDVKCPADKFFSAFVEDTNRPFEKNGKTEIEAVDLVKKTmTIQmSGSEIQKYFKTLKGSIAVTPIGVGDGSHVVWTFHFEKVHKDIDDPHSIIDESVKYFKKLDEAILNF 120
                                    10        20        30        40        50   |    60        70        80        90       100       110       120
                                                                            50-MSE                                                                  
                                                                                54-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 Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (1, 2)

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

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: Bet_V_1_like (93)

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Y1400_ARATH | P0C0B0)
biological process
    GO:0006952    defense response    Reactions, triggered in response to the presence of a foreign body or the occurrence of an injury, which result in restriction of damage to the organism attacked or prevention/recovery from the infection caused by the attack.
    GO:0009607    response to biotic stimulus    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a biotic stimulus, a stimulus caused or produced by a living organism.

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        Y1400_ARATH | P0C0B0: 1vjh

(-) Related Entries Specified in the PDB File

1vjh ORIGINAL REFINEMENT BASED ON SAME DATA AND R-FREE SET.