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(-) Description

Title :  CRYSTAL STRUCTURE OF MONOBODY MB(S4) BOUND TO PRDM14 IN COMPLEX WITH MTGR1
 
Authors :  A. Gupta, S. Koide
Date :  20 Oct 15  (Deposition) - 02 Dec 15  (Release) - 04 May 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.05
Chains :  Asym. Unit :  A,B,E,F
Biol. Unit 1:  A,E  (1x)
Biol. Unit 2:  B,F  (1x)
Keywords :  Transferase, Protein Binding, Gene Regulation-Transcription Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  N. Nady, A. Gupta, Z. Ma, T. Swigut, A. Koide, S. Koide, J. Wysocka
Eto Family Protein Mtgr1 Mediates Prdm14 Functions In Stem Cell Maintenance And Primordial Germ Cell Formation.
Elife V. 4 10150 2015
PubMed-ID: 26523391  |  Reference-DOI: 10.7554/ELIFE.10150

(-) Compounds

Molecule 1 - PR DOMAIN ZINC FINGER PROTEIN 14,PROTEIN CBFA2T2
    Chains: A, B
    EC Number: 2.1.1.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Gene: PRDM14, CBFA2T2, CBFA2T2H, MTGR1
    Mutation: YES
    Organism Common: MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
    Synonym: PR DOMAIN-CONTAINING PROTEIN 14,MTG8-LIKE PROTEIN,MTG8- RELATED PROTEIN 1
 
Molecule 2 - MONOBODY MB(S4)
    Chains: F, E
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABEF
Biological Unit 1 (1x): A E 
Biological Unit 2 (1x):  B F

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 5ECJ)

(-) Sites  (0, 0)

(no "Site" information available for 5ECJ)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Gly A:88 -Pro A:89
2Gly B:88 -Pro B:89

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5ECJ)

(-) 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:263
                                                                                                                                                                                                                                                                                                       
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhheee.....eee..............eeeeeeee..eeeeeeee........ee.....eeee............eeeeee..eeeeeee.....hhhhhhee..hhhhh.eeeeee..eeeeee..........eeee....eee..eeee...............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ecj A   2 FNFTEEELSFVLYGAIASPEHPTDLQHAISGISLQLPEGLCLMQTSFGDVPHFGVFCSDFIAKGVRFGPFRGRVVNASEVKAHRDNSRMWEIFEDGHLSHFIDGKGSGNWMSYVNCARFPKEQNLLAVQHQGQIFYESCRDIQRNQELLVWYGNGYEKFLGVPMNLRVTSSGSLPATCGARQLSKLKRFLTTLQQFGNDISPEIGEKVRTLVLALVNSTVTIEEFHCKLQEATNFPLRPFVIPFLKANLPLLQRELLHCARAA 288
                                    11        21        31 ||     60        70        80        90       100       110       120       130       140       150       160       170       180       195       205       215       225       235       245       255       265       275       285   
                                                          33|                                                                                                                                     189|                                                                                             
                                                           53                                                                                                                                      195                                                                                             


Chain B from PDB  Type:PROTEIN  Length:263
                                                                                                                                                                                                                                                                                                       
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhh.ee.....ee......hhhhh....eeeeeeee..eeeeeeee........ee.....eeee............eeeeee..eeeeeee.....hhhhhhee..hhhhh.eeeeee..eeeeee..........eeee...eeee..eeeee.......ee.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ecj B   2 FNFTEEELSFVLYGAIASPEHPTDLQHAISKDSLQLPEGLCLMQTSFGDVPHFGVFCSDFIAKGVRFGPFRGRVVNASEVKAHRDNSRMWEIFEDGHLSHFIDGKGSGNWMSYVNCARFPKEQNLLAVQHQGQIFYESCRDIQRNQELLVWYGNGYEKFLGVPMNLRVTEGSSGSLPATCGARQLSKLKRFLTTLQQFGNDISPEIGEKVRTLVLALVNSTVTIEEFHCKLQEATNFPLRPFVIPFLKANLPLLQRELLHCAR 286
                                    11        21        31|       60        70        80        90       100       110       120       130       140       150       160       170       180       190|      203       213       223       233       243       253       263       273       283   
                                                        31|                                                                                                                                        190|                                                                                            
                                                         51                                                                                                                                         194                                                                                            


Chain E from PDB  Type:PROTEIN  Length:93
                                                                                                                             
               SCOP domains --------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeeeeee..eeeeeee.....eeeeeeeeee.......eeeeee....eeee.......eeeeeeeeeee...eee...eeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------- Transcript
                 5ecj E   1 VSSVPTKLEVVAATPTSLLISWDAPAVTVDLYFITYGETGGNSPVQKFTVPGSKSTATISGLKPGVDYTITVYAQYYYRGWYVGSPISINYRT  93
                                    10        20        30        40        50        60        70        80        90   


Chain F from PDB  Type:PROTEIN  Length:93
                                                                                                                             
               SCOP domains --------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeeeeee..eeeeeee.....eeeeeeeeee.......eeeeee....eeeee......eeeeeeeeeee...eee...eeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------- Transcript
                 5ecj F   1 VSSVPTKLEVVAATPTSLLISWDAPAVTVDLYFITYGETGGNSPVQKFTVPGSKSTATISGLKPGVDYTITVYAQYYYRGWYVGSPISINYRT  93
                                    10        20        30        40        50        60        70        80        90
   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  (0, 0)

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

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (35, 40)

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  Cis Peptide Bonds
    Gly A:88 - Pro A:89   [ RasMol ]  
    Gly B:88 - Pro B:89   [ RasMol ]  
 
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