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(-) Description

Title :  BCL_2-NAVITOCLAX ANALOG (WITH INDOLE) COMPLEX
 
Authors :  C. H. Park
Date :  16 Aug 13  (Deposition) - 29 Jan 14  (Release) - 29 Jan 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.07
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  8 Helices, Apoptosis Regulator-Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. J. Souers, J. D. Leverson, E. R. Boghaert, S. L. Ackler, N. D. Catron, J. Chen, B. D. Dayton, H. Ding, S. H. Enschede, W. J. Fairbrother, D. C. Huang, S. G. Hymowitz, S. Jin, S. L. Khaw, P. J. Kovar, L. T. Lam, J. Lee, H. L. Maecker, K. C. Marsh, K. D. Mason, M. J. Mitten, P. M. Nimmer A. Oleksijew, C. H. Park, C. M. Park, D. C. Phillips, A. W. Roberts, D. Sampath, J. F. Seymour, M. L. Smith, G. M. Sullivan, S. K. Tahir, C. Tse, M. D. Wendt, Y. Xiao, J. C. Xue, H. Zhang, R. A. Humerickhouse, S. H. Rosenberg, S. W. Elmore
Abt-199, A Potent And Selective Bcl-2 Inhibitor, Achieves Antitumor Activity While Sparing Platelets.
Nat. Med. (N. Y. ) V. 19 202 2013
PubMed-ID: 23291630  |  Reference-DOI: 10.1038/NM.3048

(-) Compounds

Molecule 1 - APOPTOSIS REGULATOR BCL-2
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 1-34, 92-207
    Gene: BCL2
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606

 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  (1, 2)

Asymmetric Unit (1, 2)
No.NameCountTypeFull Name
11Y12Ligand/Ion4-[4-({4'-CHLORO-3-[2-(DIMETHYLAMINO)ETHOXY]BIPHENYL-2-YL}METHYL)PIPERAZIN-1-YL]-2-(1H-INDOL-5-YLOXY)-N-({3-NITRO-4-[(TETRAHYDRO-2H-PYRAN-4-YLMETHYL)AMINO]PHENYL}SULFONYL)BENZAMIDE
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
11Y11Ligand/Ion4-[4-({4'-CHLORO-3-[2-(DIMETHYLAMINO)ETHOXY]BIPHENYL-2-YL}METHYL)PIPERAZIN-1-YL]-2-(1H-INDOL-5-YLOXY)-N-({3-NITRO-4-[(TETRAHYDRO-2H-PYRAN-4-YLMETHYL)AMINO]PHENYL}SULFONYL)BENZAMIDE
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
11Y11Ligand/Ion4-[4-({4'-CHLORO-3-[2-(DIMETHYLAMINO)ETHOXY]BIPHENYL-2-YL}METHYL)PIPERAZIN-1-YL]-2-(1H-INDOL-5-YLOXY)-N-({3-NITRO-4-[(TETRAHYDRO-2H-PYRAN-4-YLMETHYL)AMINO]PHENYL}SULFONYL)BENZAMIDE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREALA A:97 , ASP A:100 , PHE A:101 , TYR A:105 , ASP A:108 , PHE A:109 , MET A:112 , LEU A:134 , TRP A:141 , GLY A:142 , ARG A:143 , ALA A:146 , ASN A:160 , GLU A:162 , SER A:164 , PRO A:165 , TYR A:199 , HOH A:406 , HOH A:519 , HOH A:521 , HOH A:531BINDING SITE FOR RESIDUE 1Y1 A 301
2AC2SOFTWAREHOH A:501 , ALA B:97 , ASP B:100 , PHE B:101 , TYR B:105 , ASP B:108 , PHE B:109 , MET B:112 , LEU B:134 , TRP B:141 , GLY B:142 , ARG B:143 , ALA B:146 , GLU B:162 , SER B:164 , PRO B:165 , TYR B:199 , HOH B:406 , HOH B:518 , HOH B:524BINDING SITE FOR RESIDUE 1Y1 B 301

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4MAN)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4MAN)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4MAN)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4MAN)

(-) Exons   (0, 0)

(no "Exon" information available for 4MAN)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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  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:136
                                                                                                                                                                        
               SCOP domains d4mana_ A: Bcl-2                                                                                                                         SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4man A   6 GYDNREIVMKYIHYKLSQRGYEEVVHLTLRQAGDDFSRRYRRDFAEMSSQLHLTPFTARGRFATVVEELFRDGVNWGRIVAFFEFGGVMCVESVNREMSPLVDNIALWMTEYLNRHLHTWIQDNGGWDAFVELYGP 201
                                    15        25 ||     95       105       115       125       135       145       155       165       175       185       195      
                                                27|                                                                                                                 
                                                 88                                                                                                                 


Chain B from PDB  Type:PROTEIN  Length:136
                                                                                                                                                                        
               SCOP domains d4manb_ B: Bcl-2                                                                                                                         SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4man B   6 GYDNREIVMKYIHYKLSQRGYEEVVHLTLRQAGDDFSRRYRRDFAEMSSQLHLTPFTARGRFATVVEELFRDGVNWGRIVAFFEFGGVMCVESVNREMSPLVDNIALWMTEYLNRHLHTWIQDNGGWDAFVELYGP 201
                                    15        25 ||     95       105       115       125       135       145       155       165       175       185       195      
                                                27|                                                                                                                 
                                                 88
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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  (1, 2)

Asymmetric Unit
(-)
Class: Membrane and cell surface proteins and peptides (2046)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4MAN)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4MAN)

(-) Gene Ontology  (170, 170)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        BCL2_HUMAN | P10415: 1g5m 1gjh 1ysw 2o21 2o22 2o2f 2w3l 2xa0 4aq3 4ieh 4lvt 4lxd 5agw 5agx 5fcg 5jsn

(-) Related Entries Specified in the PDB File

4lvt 4lxd