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(-) Description

Title :  MCL1 FAB COMPLEX IN COMPLEX WITH COMPOUND 21
 
Authors :  D. Hargreaves
Date :  16 Nov 16  (Deposition) - 18 Jan 17  (Release) - 08 Mar 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.94
Chains :  Asym./Biol. Unit :  A,H,L
Keywords :  Mcl1 Fab Macrocycle, Mcl1-Fab_55_c6His, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. W. Johannes, S. Bates, C. Beigie, M. Belmonte, J. Breen, S. Cao, P. A. Centrella, M. A. Clark, J. W. Cuozzo, C. E. Dumelin, A. D. Ferguson S. Habeshian, D. Hargreaves, C. Joubran, S. Kazmirski, A. Keefe, M. L. Lamb, H. Lan, Y. Li, H. Ma, S. Mlynarski, M. J. Packer, P. Rawlins, D. W. Robbins, H. Shen, E. A. Sigel, H. H. Soutter, N. Su, D. M. Trost, H. Wang, K. F. Wickson, C. Wu, Y. Zhang, Q. Zhao, X. Zheng, A. Hird
Structure Based Design Of Non-Natural Peptidic Macrocyclic Mcl-1 Inhibitors
Acs Med. Chem. Lett. V. 8 239 2017
PubMed-ID: 28197319  |  Reference-DOI: 10.1021/ACSMEDCHEMLETT.6B00464

(-) Compounds

Molecule 1 - INDUCED MYELOID LEUKEMIA CELL DIFFERENTIATION PROTEIN MCL-1 HOMOLOG,INDUCED MYELOID LEUKEMIA CELL DIFFERENTIATION PROTEIN MCL-1
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: MCL1, MCL1, BCL2L3
    Organism Common: MOUSE, HUMAN
    Organism Scientific: MUS MUSCULUS, HOMO SAPIENS
    Organism Taxid: 10090, 9606
    Synonym: BCL-2-RELATED PROTEIN EAT/MCL1,BCL-2-LIKE PROTEIN 3,BCL2-L- 3,BCL-2-RELATED PROTEIN EAT/MCL1,MCL1/EAT
 
Molecule 2 - FAB HEAVY CHAIN
    Chains: H
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
 
Molecule 3 - FAB LIGHT CHAIN
    Chains: L
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : AHL

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
17LW1Ligand/Ion(5~{R},13~{S},17~{S})-5-[(3,4-DICHLOROPHENYL)METHYL]-8-METHYL-13-[(4-METHYLSULFONYLPHENYL)METHYL]-1,4,8,12,16-PENTAZATRICYCLO[15.8.1.0^{20,25}]HEXACOSA-20,22,24-TRIENE-3,7,15,26-TETRONE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:224 , ALA A:227 , MET A:231 , VAL A:249 , HIS A:252 , VAL A:253 , ARG A:263 , THR A:266 , PHE A:270 , GLU L:82 , SER L:172 , ASN L:173 , ASN L:174binding site for residue 7LW A 401

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1L:22 -L:89

(-) Cis Peptide Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1Phe H:152 -Pro H:153
2Glu H:154 -Pro H:155
3Tyr L:144 -Pro L:145

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5MEV)

(-) 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:151
                                                                                                                                                                                       
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5mev A 172 DDLYRQSLEIISRYLREQATGSKDSKPLGEAGAAGRRALETLRRVGDGVQRNHETAFQGMLRKLDIKNEDDVKSLSRVMIHVFSDGVTNWGRIVTLISFGAFVAKHLKTINQESCIEPLAESITDVLVRTKRDWLVKQRGWDGFVEFFHVE 322
                                   181       191       201       211       221       231       241       251       261       271       281       291       301       311       321 


Chain H from PDB  Type:PROTEIN  Length:207
                                                                                                                                                                                                                                               
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee...ee.....eeeeeeee..hhhhheeeeeee.....eeeeeee......eee.......eeeeee....eeeeee...hhhhheeeeeeee......eeee...eeeee........eeeee....eeeeeeeeee.....eeee.hhh....eee...eee..eeeeeeeeee.....eeeeeee....eeeeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5mev H   1 QVTLKESGGGLVKPGGSLRLSCAASGFTFSSYSMNWVRQAPGKGLEWVSSISSSSSYIYYADSVKGRFTISRDNAKNSLYLQMNSLRAEDTAVYYCARQVGATWAFDIWGQGTLVTVSAAKTTPPSVYPLAPGMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVPSSETVTCNVAHPASSTKVDKKIVP 218
                                    10        20        30        40        50        60        70        80        90       100       110       120       130  ||   147       157       167       177       187    || 201       211       
                                                                                                                                                              133|                                                192|                     
                                                                                                                                                               141                                                 197                     


Chain L from PDB  Type:PROTEIN  Length:213
                                                                                                                                                                                                                                                     
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........ee......ee..............eeeee......eeee..............ee........ee..........eeeeeeee....eeee...ee.ee........eeeee..hhhhhh..eeeeeeeeeee.....eee.ee..ee....eee...ee.....eeeeeeeeeehhhhhh..ee..eeee..eeee..ee... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5mev L   2 SVLTQPPSASGTPGQRVTISCSGSSSNIGSNTVNWYQQLPGTAPKLLIYSNNQRPSGVPDRFSGSKSGTSASLAISGLQSEDEADYYCAAWDDSLNAWVFGGGTKLTVLGQPKSSPSVTLFPPSSEELETNKATLVCTITDFYPGVVTVDWKVDGTPVTQGMETTQPSKQSNNKYMASSYLTLTARAWERHSSYSCQVTHEGHTVEKSLSRAD 214
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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 5MEV)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (32, 60)

Asymmetric/Biological Unit(hide GO term definitions)

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  MCL1_HUMAN | Q07820
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  MCL1_MOUSE | P97287
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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 5fdr 5iez 5if4 5jsb 5ku9 5lof 5mes 5uum 5vkc
        MCL1_MOUSE | P97287: 1wsx 2jm6 2nl9 2nla 2roc 2rod 3d7v 3io9 4bpi 4bpj 4g35 5ku9 5mes

(-) Related Entries Specified in the PDB File

5ku9 5KU9 MCL1 FAB COMPLEX WITH COMPOUND 1
5mes 5MES MCL1 FAB COMPLEX WITH COMPOUND 29