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(-) Description

Title :  ANCMR DNA BINDING DOMAIN - (+)GRE COMPLEX
 
Authors :  W. H. Hudson, E. A. Ortlund
Date :  01 Jul 15  (Deposition) - 23 Dec 15  (Release) - 16 Mar 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym. Unit :  A,B,C,D,E,F,G,H
Biol. Unit 1:  A,B,C,D  (1x)
Biol. Unit 2:  E,F,G,H  (1x)
Keywords :  Dna Binding Protein, Dna Binding Protein-Dna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  W. H. Hudson, B. R. Kossmann, I. M. De Vera, S. W. Chuo, E. R. Weikum, G. N. Eick, J. W. Thornton, I. N. Ivanov, D. J. Kojetin, E. A. Ortlund
Distal Substitutions Drive Divergent Dna Specificity Among Paralogous Transcription Factors Through Subdivision Of Conformational Space.
Proc. Natl. Acad. Sci. Usa V. 113 326 2016
PubMed-ID: 26715749  |  Reference-DOI: 10.1073/PNAS.1518960113

(-) Compounds

Molecule 1 - ANCMR DNA BINDING DOMAIN
    Chains: A, B, E, F
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: NR3C2, MLR
    Organism Scientific: UNIDENTIFIED
    Organism Taxid: 32644
    Synonym: ANCMR DNA BINDING DOMAIN, MR,NUCLEAR RECEPTOR SUBFAMILY 3 GROUP C MEMBER 2
 
Molecule 2 - DNA (5'- D(*CP*CP*AP*GP*AP*AP*CP*AP*CP*TP*CP*TP*GP*TP*TP*CP*TP*G)-3')
    Chains: C, G
    Engineered: YES
    Organism Scientific: SYNTHETIC CONSTRUCT
    Organism Taxid: 32630
    Synthetic: YES
 
Molecule 3 - DNA (5'- D(*TP*CP*AP*GP*AP*AP*CP*AP*GP*AP*GP*TP*GP*TP*TP*CP*TP*G)-3')
    Chains: D, H
    Engineered: YES
    Organism Scientific: SYNTHETIC CONSTRUCT
    Organism Taxid: 32630
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12345678
Asymmetric Unit : ABCDEFGH
Biological Unit 1 (1x): ABCD    
Biological Unit 2 (1x):     EFGH

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 8)

Asymmetric Unit (1, 8)
No.NameCountTypeFull Name
1ZN8Ligand/IonZINC ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1ZN-1Ligand/IonZINC ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1ZN-1Ligand/IonZINC ION

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS A:421 , CYS A:424 , CYS A:438 , CYS A:441binding site for residue ZN A 501
2AC2SOFTWARECYS A:457 , CYS A:463 , CYS A:473 , CYS A:476binding site for residue ZN A 502
3AC3SOFTWARECYS B:421 , CYS B:424 , CYS B:438 , CYS B:441binding site for residue ZN B 501
4AC4SOFTWARECYS B:457 , CYS B:463 , CYS B:473 , CYS B:476binding site for residue ZN B 502
5AC5SOFTWARECYS E:421 , CYS E:424 , CYS E:438 , CYS E:441binding site for residue ZN E 501
6AC6SOFTWARECYS E:457 , CYS E:463 , CYS E:473 , CYS E:476binding site for residue ZN E 502
7AC7SOFTWARECYS F:421 , CYS F:424 , CYS F:438 , CYS F:441binding site for residue ZN F 501
8AC8SOFTWARECYS F:457 , CYS F:463 , CYS F:473 , CYS F:476binding site for residue ZN F 502

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5CBZ)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5CBZ)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5CBZ)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5CBZ)

(-) Exons   (0, 0)

(no "Exon" information available for 5CBZ)

(-) Sequences/Alignments

Asymmetric 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:73
                                                                                                         
               SCOP domains ------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............eee..eeehhhhhhhhhhhhhh.....................hhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------- Transcript
                 5cbz A 418 SKVCLVCGDEASGCHYGVLTCGSCKVFFKRAVEGQHNYLCAGRNDCIIDKIRRKNCPACRLRKCLQAGMNLGA 490
                                   427       437       447       457       467       477       487   


Chain B from PDB  Type:PROTEIN  Length:74
                                                                                                          
               SCOP domains -------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............eee..eeehhhhhhhhhhhhhh.....................hhhhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------- Transcript
                 5cbz B 418 SKVCLVCGDEASGCHYGVLTCGSCKVFFKRAVEGQHNYLCAGRNDCIIDKIRRKNCPACRLRKCLQAGMNLGAR 491
                                   427       437       447       457       467       477       487    


Chain C from PDB  Type:DNA  Length:18
                                                  
                 5cbz C   1 CCAGAACAGAGTGTTCTG  18
                                    10        


Chain D from PDB  Type:DNA  Length:18
                                                  
                 5cbz D   1 TCAGAACACTCTGTTCTG  18
                                    10        


Chain E from PDB  Type:PROTEIN  Length:76
                                                                                                            
               SCOP domains ---------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..............eee..eeehhhhhhhhhhhhhh.....................hhhhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------- Transcript
                 5cbz E 416 PPSKVCLVCGDEASGCHYGVLTCGSCKVFFKRAVEGQHNYLCAGRNDCIIDKIRRKNCPACRLRKCLQAGMNLGAR 491
                                   425       435       445       455       465       475       485      


Chain F from PDB  Type:PROTEIN  Length:73
                                                                                                         
               SCOP domains ------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............eee..eeehhhhhhhhhhhhhhh....................hhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------- Transcript
                 5cbz F 417 PSKVCLVCGDEASGCHYGVLTCGSCKVFFKRAVEGQHNYLCAGRNDCIIDKIRRKNCPACRLRKCLQAGMNLG 489
                                   426       436       446       456       466       476       486   


Chain G from PDB  Type:DNA  Length:18
                                                  
                 5cbz G   1 CCAGAACAGAGTGTTCTG  18
                                    10        


Chain H from PDB  Type:DNA  Length:18
                                                  
                 5cbz H   1 TCAGAACACTCTGTTCTG  18
                                    10
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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  (0, 0)

(no "SCOP Domain" information available for 5CBZ)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5CBZ)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5CBZ)

(-) Gene Ontology  (37, 37)

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 Related Entries

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

UniProtKB/Swiss-Prot
        GCR_HUMAN | P04150: 1m2z 1nhz 1p93 3bqd 3cld 3e7c 3h52 3k22 3k23 4csj 4hn5 4hn6 4lsj 4mdd 4p6w 4p6x 4udc 4udd 5cbx 5cby 5cc1 5e69 5e6a 5e6b 5e6c 5e6d 5emc 5emp 5emq 5g3j 5g5w

(-) Related Entries Specified in the PDB File

5cbx 5cby 5cc0 5cc1