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(-) Description

Title :  MCL-1 COMPLEXED WITH SMALL MOLECULE INHIBITOR
 
Authors :  B. Zhao
Date :  16 Dec 15  (Deposition) - 02 Mar 16  (Release) - 23 Mar 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Biol. Unit 4:  D  (1x)
Keywords :  Mcl-1, Inhibitor, Apoptosis-Apoptosis Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  N. F. Pelz, Z. Bian, B. Zhao, S. Shaw, J. C. Tarr, J. Belmar, C. Gregg, D. V. Camper, C. M. Goodwin, A. L. Arnold, J. L. Sensintaffar, A. Friberg, O. W. Rossanese, T. Lee, E. T. Olejniczak, S. W. Fesik
Discovery Of 2-Indole-Acylsulfonamide Myeloid Cell Leukemia 1 (Mcl-1) Inhibitors Using Fragment-Based Methods.
J. Med. Chem. V. 59 2054 2016
PubMed-ID: 26878343  |  Reference-DOI: 10.1021/ACS.JMEDCHEM.5B01660

(-) Compounds

Molecule 1 - INDUCED MYELOID LEUKEMIA CELL DIFFERENTIATION PROTEIN MCL- 1
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: MCL1, BCL2L3
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: BCL-2-LIKE PROTEIN 3,BCL2-L-3,BCL-2-RELATED PROTEIN EAT/MCL1,MCL1/EAT

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): A   
Biological Unit 2 (1x):  B  
Biological Unit 3 (1x):   C 
Biological Unit 4 (1x):    D

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 4)

Asymmetric Unit (1, 4)
No.NameCountTypeFull Name
15X34Ligand/Ion5-[[6-CHLORANYL-3-[3-(4-CHLORANYL-3,5-DIMETHYL-PHENOXY)PROPYL]-7-(3,5-DIMETHYL-1~{H}-PYRAZOL-4-YL)-1~{H}-INDOL-2-YL]CARBONYLSULFAMOYL]FURAN-2-CARBOXYLICACID
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
15X31Ligand/Ion5-[[6-CHLORANYL-3-[3-(4-CHLORANYL-3,5-DIMETHYL-PHENOXY)PROPYL]-7-(3,5-DIMETHYL-1~{H}-PYRAZOL-4-YL)-1~{H}-INDOL-2-YL]CARBONYLSULFAMOYL]FURAN-2-CARBOXYLICACID
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
15X31Ligand/Ion5-[[6-CHLORANYL-3-[3-(4-CHLORANYL-3,5-DIMETHYL-PHENOXY)PROPYL]-7-(3,5-DIMETHYL-1~{H}-PYRAZOL-4-YL)-1~{H}-INDOL-2-YL]CARBONYLSULFAMOYL]FURAN-2-CARBOXYLICACID
Biological Unit 3 (1, 1)
No.NameCountTypeFull Name
15X31Ligand/Ion5-[[6-CHLORANYL-3-[3-(4-CHLORANYL-3,5-DIMETHYL-PHENOXY)PROPYL]-7-(3,5-DIMETHYL-1~{H}-PYRAZOL-4-YL)-1~{H}-INDOL-2-YL]CARBONYLSULFAMOYL]FURAN-2-CARBOXYLICACID
Biological Unit 4 (1, 1)
No.NameCountTypeFull Name
15X31Ligand/Ion5-[[6-CHLORANYL-3-[3-(4-CHLORANYL-3,5-DIMETHYL-PHENOXY)PROPYL]-7-(3,5-DIMETHYL-1~{H}-PYRAZOL-4-YL)-1~{H}-INDOL-2-YL]CARBONYLSULFAMOYL]FURAN-2-CARBOXYLICACID

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:224 , ALA A:227 , PHE A:228 , MET A:231 , MET A:250 , VAL A:253 , ASN A:260 , GLY A:262 , ARG A:263 , THR A:266 , LEU A:267 , PHE A:270 , GLY A:271 , THR B:226 , ASP C:256 , GLY C:257binding site for residue 5X3 A 400
2AC2SOFTWAREGLY A:219 , ARG A:222 , ASN A:223 , ALA B:227 , PHE B:228 , MET B:231 , VAL B:249 , MET B:250 , VAL B:253 , ASP B:256 , GLY B:257 , ARG B:263 , LEU B:267 , PHE B:270binding site for residue 5X3 B 400
3AC3SOFTWAREASP A:256 , GLY A:257 , HIS C:224 , ALA C:227 , PHE C:228 , MET C:231 , MET C:250 , VAL C:253 , ASN C:260 , GLY C:262 , ARG C:263 , THR C:266 , LEU C:267 , PHE C:270 , THR D:226binding site for residue 5X3 C 400
4AC4SOFTWAREGLY C:219 , ARG C:222 , ASN C:223 , ALA D:227 , PHE D:228 , MET D:231 , MET D:250 , VAL D:253 , PHE D:254 , ASP D:256 , GLY D:257 , ARG D:263 , THR D:266 , LEU D:267 , PHE D:270 , ILE D:294binding site for residue 5X3 D 400

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Arg A:201 -Ser A:202

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5FDR)

(-) 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:155
                                                                                                                                                                                           
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5fdr A 171 DDELYRQSLEIISRYLREQATGAKDTKPMGRSGATSRKALETLRRVGDGVQRNHETAFQGMLRKLDIKNEDDVKSLSRVMIHVFSDGVTNWGRIVTLISFGAFVAKHLKTINQESCIEPLAESITDVLVRTKRDWLVKQRGWDGFVEFFHVEDLE 325
                                   180       190       200       210       220       230       240       250       260       270       280       290       300       310       320     


Chain B from PDB  Type:PROTEIN  Length:149
                                                                                                                                                                                     
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5fdr B 171 DDELYRQSLEIISRYLREQATGAKDTMGRSGATSRKALETLRRVGDGVQRNHETAFQGMLRKLDIKNEDDVKSLSRVMIHVFSDGVTNWGRIVTLISFGAFVAKHLKTINQESCIEPLAESITDVLVRTKRDWLVKQRGWDGFVEFFHV 321
                                   180       190     ||202       212       222       232       242       252       262       272       282       292       302       312         
                                                   196|                                                                                                                          
                                                    199                                                                                                                          


Chain C from PDB  Type:PROTEIN  Length:143
                                                                                                                                                                               
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5fdr C 172 DELYRQSLEIISRYLREQATGGATSRKALETLRRVGDGVQRNHETAFQGMLRKLDIKNEDDVKSLSRVMIHVFSDGVTNWGRIVTLISFGAFVAKHLKTINQESCIEPLAESITDVLVRTKRDWLVKQRGWDGFVEFFHVEDL 324
                                   181       191||     211       221       231       241       251       261       271       281       291       301       311       321   
                                              192|                                                                                                                         
                                               203                                                                                                                         


Chain D from PDB  Type:PROTEIN  Length:148
                                                                                                                                                                                    
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5fdr D 172 DELYRQSLEIISRYLREQATGAKDTMGRSGATSRKALETLRRVGDGVQRNHETAFQGMLRKLDIKNEDDVKSLSRVMIHVFSDGVTNWGRIVTLISFGAFVAKHLKTINQESCIEPLAESITDVLVRTKRDWLVKQRGWDGFVEFFHV 321
                                   181       191    || 203       213       223       233       243       253       263       273       283       293       303       313        
                                                  196|                                                                                                                          
                                                   199
   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 5FDR)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (32, 32)

Asymmetric Unit(hide GO term definitions)

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  MCL1_HUMAN | Q07820
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 Related Entries

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

UniProtKB/Swiss-Prot
        MCL1_HUMAN | Q07820: 2kbw 2mhs 2nl9 2nla 2pqk 3d7v 3io9 3kj0 3kj1 3kj2 3kz0 3mk8 3pk1 3twu 3wix 3wiy 4bpi 4bpj 4hw2 4hw3 4hw4 4oq5 4oq6 4wgi 4wmr 4wms 4wmt 4wmu 4wmv 4wmw 4wmx 4zbf 4zbi 5c3f 5c6h 5fc4 5fdo 5iez 5if4 5jsb 5ku9 5lof 5mes 5mev 5uum 5vkc

(-) Related Entries Specified in the PDB File

4hw2 4HW2 CONTAINS THE SAME PROTEIN