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(-) Description

Title :  CRYSTAL STRUCTURE OF TANDEM FF DOMAINS
 
Authors :  M. Lu, J. Yang, Z. Ren, S. Subir, M. T. Bedford, R. H. Jacobson, J. S. Mcmurray, X. Chen
Date :  11 May 09  (Deposition) - 18 Aug 09  (Release) - 06 Oct 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.70
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Helix Bundle, Activator, Alternative Splicing, Coiled Coil, Nucleus, Phosphoprotein, Repressor, Transcription, Transcription Regulation, Transcription Regulator (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  M. Lu, J. Yang, Z. Ren, S. Sabui, A. Espejo, M. T. Bedford, R. H. Jacobson, D. Jeruzalmi, J. S. Mcmurray, X. Chen
Crystal Structure Of The Three Tandem Ff Domains Of The Transcription Elongation Regulator Ca150.
J. Mol. Biol. V. 393 397 2009
PubMed-ID: 19660470  |  Reference-DOI: 10.1016/J.JMB.2009.07.086
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - TRANSCRIPTION ELONGATION REGULATOR 1
    ChainsA, B
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPGEX-6P-1
    Expression System StrainROSETTA(DE3)
    Expression System Taxid562
    Expression System Vector TypePLASMID
    FragmentFF DOMAINS: UNP RESIDUES 661-845
    GeneCA150, TAF2S, TCERG1
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymTATA BOX-BINDING PROTEIN-ASSOCIATED FACTOR 2S, TRANSCRIPTION FACTOR CA150

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 71)

Asymmetric Unit (2, 71)
No.NameCountTypeFull Name
1MLY57Mod. Amino AcidN-DIMETHYL-LYSINE
2MSE14Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (2, 34)
No.NameCountTypeFull Name
1MLY27Mod. Amino AcidN-DIMETHYL-LYSINE
2MSE7Mod. Amino AcidSELENOMETHIONINE
Biological Unit 2 (2, 37)
No.NameCountTypeFull Name
1MLY30Mod. Amino AcidN-DIMETHYL-LYSINE
2MSE7Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 3HFH)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3HFH)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3HFH)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3HFH)

(-) PROSITE Motifs  (1, 6)

Asymmetric Unit (1, 6)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1FFPS51676 FF domain profile.TCRG1_HUMAN659-712
 
725-779
 
791-846
 
896-952
954-1010
1012-1077
  6A:661-712
B:661-712
A:725-779
B:725-779
A:791-845
B:791-845
-
-
-
Biological Unit 1 (1, 3)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1FFPS51676 FF domain profile.TCRG1_HUMAN659-712
 
725-779
 
791-846
 
896-952
954-1010
1012-1077
  3A:661-712
-
A:725-779
-
A:791-845
-
-
-
-
Biological Unit 2 (1, 3)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1FFPS51676 FF domain profile.TCRG1_HUMAN659-712
 
725-779
 
791-846
 
896-952
954-1010
1012-1077
  3-
B:661-712
-
B:725-779
-
B:791-845
-
-
-

(-) Exons   (6, 12)

Asymmetric Unit (6, 12)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1bENST000002967021bENSE00001958061chr5:145826875-14582697197TCRG1_HUMAN1-20200--
1.2ENST000002967022ENSE00000875393chr5:145834619-145834844226TCRG1_HUMAN20-95760--
1.3ENST000002967023ENSE00000875394chr5:145836746-145836898153TCRG1_HUMAN96-146510--
1.4aENST000002967024aENSE00001026741chr5:145838447-145838900454TCRG1_HUMAN147-2981520--
1.6ENST000002967026ENSE00000875396chr5:145843114-145843356243TCRG1_HUMAN298-379820--
1.7ENST000002967027ENSE00000766804chr5:145847904-14584796663TCRG1_HUMAN379-400220--
1.8aENST000002967028aENSE00000766805chr5:145849107-145849307201TCRG1_HUMAN400-467680--
1.9aENST000002967029aENSE00001126961chr5:145850199-145850311113TCRG1_HUMAN467-504380--
1.10ENST0000029670210ENSE00001126952chr5:145851051-14585113989TCRG1_HUMAN505-534300--
1.11bENST0000029670211bENSE00001126945chr5:145858056-145858216161TCRG1_HUMAN534-588550--
1.12ENST0000029670212ENSE00001126936chr5:145859418-14585947457TCRG1_HUMAN588-607200--
1.13aENST0000029670213aENSE00001126927chr5:145859591-14585965767TCRG1_HUMAN607-629232A:657-660
B:656-660
4
5
1.14cENST0000029670214cENSE00001126919chr5:145862155-145862290136TCRG1_HUMAN629-674462A:661-674
B:661-674
14
14
1.15ENST0000029670215ENSE00001126912chr5:145863103-14586319290TCRG1_HUMAN675-704302A:675-704
B:675-704
30
30
1.16cENST0000029670216cENSE00000766812chr5:145872483-145872601119TCRG1_HUMAN705-744402A:705-736
B:705-744
32
40
1.17ENST0000029670217ENSE00000766813chr5:145878099-145878249151TCRG1_HUMAN744-794512A:758-794
B:744-794
37
51
1.19bENST0000029670219bENSE00000766816chr5:145882938-145883102165TCRG1_HUMAN795-849552A:795-845
B:795-845
51
51
1.20aENST0000029670220aENSE00000766817chr5:145883387-145883569183TCRG1_HUMAN850-910610--
1.23bENST0000029670223bENSE00000766818chr5:145886591-145886770180TCRG1_HUMAN911-970600--
1.24cENST0000029670224cENSE00000766819chr5:145887436-14588751984TCRG1_HUMAN971-998280--
1.25ENST0000029670225ENSE00001082938chr5:145888708-145888808101TCRG1_HUMAN999-1032340--
1.27dENST0000029670227dENSE00001918127chr5:145890004-1458915241521TCRG1_HUMAN1032-1098670--

(-) 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:168
 aligned with TCRG1_HUMAN | O14776 from UniProtKB/Swiss-Prot  Length:1098

    Alignment length:224
                                   631       641       651       661       671       681       691       701       711       721       731       741       751       761       771       781       791       801       811       821       831       841    
          TCRG1_HUMAN   622 PVKAKKRKRDDNKDIDSEKEAAMEAEIKAARERAIVPLEARMKQFKDMLLERGVSAFSTWEKELHKIVFDPRYLLLNPKERKQVFDQYVKTRAEEERREKKNKIMQAKEDFKKMMEEAKFNPRATFSEFAAKHAKDSRFKAIEKMKDREALFNEFVAAARKKEKEDSKTRGEKIKSDFFELLSNHHLDSQSRWSKVKDKVESDPRYKAVDSSSMREDLFKQYIE 845
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...h-----------------------------------hhhhhhhhhhhhh......hhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...---------------------..............hhhhhhhhhh....hhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhh.hhhhhh..hhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------FF  PDB: A:661-712 UniProt: 659-712                   ------------FF  PDB: A:725-779 UniProt: 725-779                    -----------FF  PDB: A:791-845 UniProt: 791-846                     PROSITE
           Transcript 1 (1) 1.13a   ---------------------------------------------Exon 1.15  PDB: A:675-704     Exon 1.16c  PDB: A:705-736 [INCOMPLETE] --------------------------------------------------Exon 1.19b  PDB: A:795-845 UniProt: 795-849         Transcript 1 (1)
           Transcript 1 (2) -------Exon 1.14c  PDB: A:661-674 UniProt: 629-674   ---------------------------------------------------------------------Exon 1.17  PDB: A:758-794 UniProt: 744-794         --------------------------------------------------- Transcript 1 (2)
                 3hfh A 657 PLGS-----------------------------------ARmkQFkDmLLERGVSAFSTWEkELHkIVFDPRYLLLNPkERkQVFDQYVkTRAEEERREkkNkImQAkEDFkkmm---------------------SRFkAIEkmkDREALFNEFVAAARkkEkEDSkTRGEkIkSDFFELLSNHHLDSQSRWSkVkDkVESDPRYkAVDSSSmREDLFkQYIE 845
                               |     -         -         -       661 ||  | 671       681 |   | 691       701 |     711       721| | |  731 ||||    -         -      |761   ||| 771       781|| |   791  | |  801       811    | |821      |831   |   841    
                             660                                 661 ||  | |           683-MLY          700-MLY    711-MLY   721-MLY|  |   ||||                   758  |   |||            782-MLY  |    | |                 816-MLY     828-MLY  |     |    
                                                                   663-MSE |               687-MLY         703-MLY            722-MLY  |   ||||                      761-MLY||             783-MLY |    | |                   818-MLY          835-MSE |    
                                                                    664-MLY|                                                    724-MLY|   ||||                          765-MLY             785-MLY    | |                     820-MLY              841-MLY
                                                                       667-MLY                                                    726-MSE  ||||                           766-MSE                789-MLY| |                                                 
                                                                         669-MSE                                                     729-MLY|||                            767-MLY                    794-MLY                                               
                                                                                                                                         733-MLY                                                        796-MLY                                             
                                                                                                                                          734-MLY                                                                                                           
                                                                                                                                           735-MSE                                                                                                          
                                                                                                                                            736-MSE                                                                                                         

Chain B from PDB  Type:PROTEIN  Length:190
 aligned with TCRG1_HUMAN | O14776 from UniProtKB/Swiss-Prot  Length:1098

    Alignment length:225
                                   630       640       650       660       670       680       690       700       710       720       730       740       750       760       770       780       790       800       810       820       830       840     
          TCRG1_HUMAN   621 EPVKAKKRKRDDNKDIDSEKEAAMEAEIKAARERAIVPLEARMKQFKDMLLERGVSAFSTWEKELHKIVFDPRYLLLNPKERKQVFDQYVKTRAEEERREKKNKIMQAKEDFKKMMEEAKFNPRATFSEFAAKHAKDSRFKAIEKMKDREALFNEFVAAARKKEKEDSKTRGEKIKSDFFELLSNHHLDSQSRWSKVKDKVESDPRYKAVDSSSMREDLFKQYIE 845
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....h-----------------------------------hhhhhhhhhhhhh......hhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhh..hhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhh.hhhhhh..hhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------FF  PDB: B:661-712 UniProt: 659-712                   ------------FF  PDB: B:725-779 UniProt: 725-779                    -----------FF  PDB: B:791-845 UniProt: 791-846                     PROSITE
           Transcript 1 (1) 1.13a    ---------------------------------------------Exon 1.15  PDB: B:675-704     Exon 1.16c  PDB: B:705-744              --------------------------------------------------Exon 1.19b  PDB: B:795-845 UniProt: 795-849         Transcript 1 (1)
           Transcript 1 (2) --------Exon 1.14c  PDB: B:661-674 UniProt: 629-674   ---------------------------------------------------------------------Exon 1.17  PDB: B:744-794 UniProt: 744-794         --------------------------------------------------- Transcript 1 (2)
                 3hfh B 656 GPLGS-----------------------------------ARmkQFkDmLLERGVSAFSTWEkELHkIVFDPRYLLLNPkERkQVFDQYVkTRAEEERREkkNkImQAkEDFkkmmEEAkFNPRATFSEFAAkHAkDSRFkAIEkmkDREALFNEFVAAARkkEkEDSkTRGEkIkSDFFELLSNHHLDSQSRWSkVkDkVESDPRYkAVDSSSmREDLFkQYIE 845
                                |    -         -         -         -| ||  |670       680  |   |690       700  |    710|      720|| | | 730  |||| 740       750  |  | 760|   |||770       780 || |  790   | | 800       810     | 820       830    |  840|    
                              660                                 661 ||  | |           683-MLY          700-MLY    711-MLY   721-MLY|  |   ||||   |          753-MLY   |   |||            782-MLY  |    | |                 816-MLY     828-MLY  |     |    
                                                                    663-MSE |               687-MLY         703-MLY            722-MLY  |   ||||   |             756-MLY|   |||             783-MLY |    | |                   818-MLY          835-MSE |    
                                                                     664-MLY|                                                    724-MLY|   ||||   |                  761-MLY||               785-MLY    | |                     820-MLY              841-MLY
                                                                        667-MLY                                                    726-MSE  ||||   |                      765-MLY                 789-MLY| |                                                 
                                                                          669-MSE                                                     729-MLY|||   |                       766-MSE                     794-MLY                                               
                                                                                                                                          733-MLY  |                        767-MLY                      796-MLY                                             
                                                                                                                                           734-MLY |                                                                                                         
                                                                                                                                            735-MSE|                                                                                                         
                                                                                                                                             736-MSE                                                                                                         

   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 3HFH)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3HFH)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3HFH)

(-) Gene Ontology  (12, 12)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (TCRG1_HUMAN | O14776)
molecular function
    GO:0001103    RNA polymerase II repressing transcription factor binding    Interacting selectively and non-covalently with an RNA polymerase II transcription repressing factor, a protein involved in negative regulation of transcription.
    GO:0001106    RNA polymerase II transcription corepressor activity    Interacting selectively and non-covalently with an RNA polymerase II repressing transcription factor and also with the RNA polymerase II basal transcription machinery in order to stop, prevent, or reduce the frequency, rate or extent of transcription. Cofactors generally do not bind DNA, but rather mediate protein-protein interactions between repressive transcription factors and the basal transcription machinery.
    GO:0070064    proline-rich region binding    Interacting selectively and non-covalently with a proline-rich region, i.e. a region that contains a high proportion of proline residues, in a protein.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
    GO:0003713    transcription coactivator activity    Interacting selectively and non-covalently with a activating transcription factor and also with the basal transcription machinery in order to increase the frequency, rate or extent of transcription. Cofactors generally do not bind the template nucleic acid, but rather mediate protein-protein interactions between activating transcription factors and the basal transcription machinery.
biological process
    GO:0000122    negative regulation of transcription from RNA polymerase II promoter    Any process that stops, prevents, or reduces the frequency, rate or extent of transcription from an RNA polymerase II promoter.
    GO:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0006366    transcription from RNA polymerase II promoter    The synthesis of RNA from a DNA template by RNA polymerase II, originating at an RNA polymerase II promoter. Includes transcription of messenger RNA (mRNA) and certain small nuclear RNAs (snRNAs).
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.
cellular component
    GO:0015629    actin cytoskeleton    The part of the cytoskeleton (the internal framework of a cell) composed of actin and associated proteins. Includes actin cytoskeleton-associated complexes.
    GO:0005730    nucleolus    A small, dense body one or more of which are present in the nucleus of eukaryotic cells. It is rich in RNA and protein, is not bounded by a limiting membrane, and is not seen during mitosis. Its prime function is the transcription of the nucleolar DNA into 45S ribosomal-precursor RNA, the processing of this RNA into 5.8S, 18S, and 28S components of ribosomal RNA, and the association of these components with 5S RNA and proteins synthesized outside the nucleolus. This association results in the formation of ribonucleoprotein precursors; these pass into the cytoplasm and mature into the 40S and 60S subunits of the ribosome.
    GO:0005634    nucleus    A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

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 Related Entries

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

UniProtKB/Swiss-Prot
        TCRG1_HUMAN | O147762dk7 2dod 2doe 2dof 2e71 2kiq 2kis 2mw9 2mwa 2mwb 2mwd 2mwe 2mwf 2n4r 2n4s 2n4t 2n4u 2n4v 2n4w 2nnt 3q1i 4fqg

(-) Related Entries Specified in the PDB File

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