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(-) Description

Title :  MENIN IN COMPLEX WITH MI-333
 
Authors :  J. Pollock, B. Dmitry, T. Cierpicki, J. Grembecka
Date :  24 Aug 15  (Deposition) - 09 Sep 15  (Release) - 14 Oct 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.83
Chains :  Asym./Biol. Unit :  A
Keywords :  Protein Binding-Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Pollock, D. Borkin, G. Lund, T. Purohit, E. Dyguda-Kazimierowicz, J. Grembecka, T. Cierpicki
Rational Design Of Orthogonal Multipolar Interactions With Fluorine In Protein-Ligand Complexes.
J. Med. Chem. V. 58 7465 2015
PubMed-ID: 26288158  |  Reference-DOI: 10.1021/ACS.JMEDCHEM.5B00975

(-) Compounds

Molecule 1 - MENIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 1-459, 537-593
    Gene: MEN1, SCG2
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 13)

Asymmetric/Biological Unit (5, 13)
No.NameCountTypeFull Name
159M1Ligand/Ion4-{4-[5-(FLUOROMETHYL)-1,3,4-THIADIAZOL-2-YL]PIPERAZIN-1-YL}-6-(2,2,2-TRIFLUOROETHYL)THIENO[2,3-D]PYRIMIDINE
2DMS4Ligand/IonDIMETHYL SULFOXIDE
3EDO1Ligand/Ion1,2-ETHANEDIOL
4PGE2Ligand/IonTRIETHYLENE GLYCOL
5SO45Ligand/IonSULFATE ION

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWARESER A:155 , LEU A:177 , SER A:178 , ASP A:180 , HIS A:181 , ALA A:182 , PHE A:238 , CYS A:241 , TYR A:276 , MET A:278 , ASN A:282 , TYR A:319 , MET A:322 , TYR A:323 , DMS A:602 , HOH A:843 , HOH A:905binding site for residue 59M A 601
02AC2SOFTWARESER A:155 , PHE A:238 , 59M A:601 , DMS A:607binding site for residue DMS A 602
03AC3SOFTWAREPHE A:43 , PHE A:47 , GLY A:386binding site for residue DMS A 603
04AC4SOFTWARELEU A:75 , THR A:76 , PHE A:365 , HOH A:718 , HOH A:771binding site for residue PGE A 604
05AC5SOFTWARETYR A:268 , GLU A:274 , LYS A:304binding site for residue PGE A 605
06AC6SOFTWARESER A:155 , PHE A:238 , ALA A:242 , DMS A:602binding site for residue DMS A 607
07AC7SOFTWARETYR A:133 , PHE A:134 , ARG A:137 , LYS A:151 , ARG A:332binding site for residue SO4 A 608
08AC8SOFTWARELYS A:377 , ARG A:446 , HOH A:750binding site for residue SO4 A 609
09AC9SOFTWAREARG A:108 , GLY A:111 , GLY A:169 , ARG A:171 , HOH A:705binding site for residue SO4 A 610
10AD1SOFTWAREARG A:207 , GLY A:294 , ARG A:295binding site for residue SO4 A 611
11AD2SOFTWAREARG A:332 , VAL A:334 , ARG A:335 , ALA A:403binding site for residue SO4 A 612
12AD3SOFTWAREVAL A:185 , GLY A:190 , GLU A:191 , TYR A:227 , ARG A:229 , SER A:583binding site for residue DMS A 613

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Phe A:11 -Pro A:12

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5DDA)

(-) 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:465
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhh.....hhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhh...........hhhhhhhhhhhhhhhhhhhhhhhhh.hhhhh.hhhhhhhhhhhhhhh.............hhhhhhhhh..hhhhhhhhhhhhhhhh.....eeee....eeeeehhhhheee................hhhhhhh.hhhhhhhh.ee.hhhhhhhhhhhhh..eee..eehhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhh.hhhhhh..eee..eee..hhhhhhhhhhhh....hhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5dda A   2 GLKAAQKTLFPLRSIDDVVRLFAAELGREEPDLVLLSLVLGFVEHFLAVNRVGLTYFPVADLSIIAALYARFTAQIRGAVDLSLYPREGGVSSRELVKKVSDVIWNSLSRSYFKDRAHIQSLFSFITGTKLDSSGVAFAVVGACQALGLRDVHLALSEDHAWVVFGPNGEQTAEVTWHGKGNEDRRGQTVNAGVAERSWLYLKGSYMRCDRKMEVAFMVCAINPSIDLHTDSLELLQLQQKLLWLLYDLGHLERYPMALGNLADLEELEPTPGRPDPLTLYHKGIASAKTYYRDEHIYPYMYLAGYHCRNRNVREALQAWADTATVIQDYNYCREDEEIYKEFFEVANDVIPNLLKEAASLLEAGSQGSALQDPECFAHLLRFYDGICKWEEGSPTPVLHVGWATFLVQSLGRFEGQVRQKVRIVSPVLTFQSEKMKGMKELLVATKINSSAIKLQLTAQSQVQM 587
                                    11        21        31        41        51 ||     81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381    || 403       413       423       433       443       453     ||552       562       572       582     
                                                                              53|                                                                                                                                                                                                                                                                                                                     386|                                                         459|                                      
                                                                               74                                                                                                                                                                                                                                                                                                                      399                                                          549
   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 5DDA)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (57, 57)

Asymmetric/Biological Unit(hide GO term definitions)

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  5dda
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  MEN1_HUMAN | O00255
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 Related Entries

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

UniProtKB/Swiss-Prot
        MEN1_HUMAN | O00255: 3u84 3u85 3u86 3u88 4gpq 4gq3 4gq4 4gq6 4i80 4og3 4og4 4og5 4og6 4og7 4og8 4x5y 4x5z 5db0 5db1 5db2 5db3 5dd9 5ddb 5ddc 5ddd 5dde 5ddf

(-) Related Entries Specified in the PDB File

5db0 5db1 5db2 5db3 5dd9 5ddb 5ddc 5ddd 5dde 5ddf