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(-) Description

Title :  CRYSTAL STRUCTURE OF TBX5 (1-239) DIMER
 
Authors :  L. Pradhan, S. Gopal, A. Patel, H. Kasahara, H. J. Nam
Date :  28 May 15  (Deposition) - 16 Mar 16  (Release) - 06 Apr 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.58
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Cardiac, Transcription Factor, Chd, Nkx, Tbx, Dna Binding, Transcription (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. Pradhan, S. Gopal, S. Li, S. Ashur, S. Suryanarayanan, H. Kasahara, H. J. Nam
Intermolecular Interactions Of Cardiac Transcription Factor Nkx2. 5 And Tbx5.
Biochemistry V. 55 1702 2016
PubMed-ID: 26926761  |  Reference-DOI: 10.1021/ACS.BIOCHEM.6B00171

(-) Compounds

Molecule 1 - T-BOX TRANSCRIPTION FACTOR TBX5
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Variant: RIPL
    Gene: TBX5
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: T-BOX PROTEIN 5

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 3)

Asymmetric/Biological Unit (1, 3)
No.NameCountTypeFull Name
1MG3Ligand/IonMAGNESIUM ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHOH A:308 , ILE B:75 , ARG B:81binding site for residue MG B 301
2AC2SOFTWAREARG B:81binding site for residue MG B 302
3AC3SOFTWAREASN A:119 , THR B:77 , ARG B:81binding site for residue MG B 303

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (5, 5)

Asymmetric/Biological Unit
No.Residues
1Phe A:84 -Pro A:85
2Ser A:141 -Pro A:142
3Phe B:84 -Pro B:85
4Met B:131 -Pro B:132
5Ser B:141 -Pro B:142

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5BQD)

(-) 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:197
                                                                                                                                                                                                                                     
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeeee......eeee.hhhhhhhhhhhh.eee.....ee.....eeeee......eeeeeeeeee....eeeee..eeeeee..........ee.....eehhhhhhh.ee....eee.........ee.....eeeeeeeeee............eeeeeehhhhheeee....hhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5bqd A  36 SKSPSSPQAAFTQQGMEGIKVFLHERELWLKFHEVGTEMIITKAGRRMFPSYKVKVTGLNPKTKYILLMDIVPADDHRYKFADNKWSVTGKAEPAMPGRLYVHPDSPATGAHWMRQLVSFQKLKLTNNHLDPFGHIILNSMHKYQPRLHIVKADENNGFGSKNTAFCTHVFPETAFIAVTSYQNHKITQLKIENNPF 232
                                    45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       


Chain B from PDB  Type:PROTEIN  Length:176
                                                                                                                                                                                                                
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........eeee.hhhhhhhhhhhh.eee.....ee.....eeeee......eeeeeeeeee...eeeeee..eeeeeee.........ee.....eehhhhhhh.ee....eee.........ee.....eeeeeeeeee...eeeeeehhhhheeee....hhhhhh...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5bqd B  46 FTQQGMEGIKVFLHERELWLKFHEVGTEMIITKAGRRMFPSYKVKVTGLNPKTKYILLMDIVPADDHRYKFADNKWSVTGKAEPAMPGRLYVHPDSPATGAHWMRQLVSFQKLKLTNNHLDPFGHIILNSMHKYQPRLHIVKANTAFCTHVFPETAFIAVTSYQNHKITQLKIENN 230
                                    55        65        75        85        95       105       115       125       135       145       155       165       175       185  ||   204       214       224      
                                                                                                                                                                        188|                                
                                                                                                                                                                         198
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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 5BQD)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (45, 45)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
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  5bqd
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  TBX5_HUMAN | Q99593
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 Related Entries

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

UniProtKB/Swiss-Prot
        TBX5_HUMAN | Q99593: 2x6u 2x6v 4s0h

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 5BQD)