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(-) Description

Title :  DISCOVERY OF POTENT AND EFFICACIOUS CYANOGUANIDINE-CONTAINING NICOTINAMIDE PHOSPHORIBOSYLTRANSFERASE (NAMPT) INHIBITORS
 
Authors :  X. Zheng, T. Baumeister, A. J. Buckmelter, M. Caligiuri, K. H. Clodfelt Y. Ho, N. Kley, J. Lin, D. J. Reynoids, G. Sharma, C. C. Smith, Z. Wang, P. S. Dragovich, A. Oh, W. Wang, M. Zak, L Wang, P. Yuen, K. W. Bair
Date :  23 Jul 13  (Deposition) - 25 Dec 13  (Release) - 15 Jan 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.69
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Transferase, Transferase-Transferase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  X. Zheng, T. Baumeister, A. J. Buckmelter, M. Caligiuri, K. H. Clodfelter, B. Han, Y. C. Ho, N. Kley, J. Lin, D. J. Reynolds, G. Sharma, C. C. Smith, Z. Wang, P. S. Dragovich, A. Oh, W. Wang, M. Zak, Y. Wang, P. W. Yuen, K. W. Bair
Discovery Of Potent And Efficacious Cyanoguanidine-Containing Nicotinamide Phosphoribosyltransferase (Nampt) Inhibitors.
Bioorg. Med. Chem. Lett. V. 24 337 2014
PubMed-ID: 24279990  |  Reference-DOI: 10.1016/J.BMCL.2013.11.006

(-) Compounds

Molecule 1 - NICOTINAMIDE PHOSPHORIBOSYLTRANSFERASE
    Chains: A, B
    EC Number: 2.4.2.12
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: NAMPT, PBEF, PBEF1
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: NAMPRTASE, NAMPT, PRE-B-CELL COLONY-ENHANCING FACTOR 1, PRE- B CELL-ENHANCING FACTOR, VISFATIN

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 13)

Asymmetric/Biological Unit (3, 13)
No.NameCountTypeFull Name
1EDO9Ligand/Ion1,2-ETHANEDIOL
2LTS2Ligand/Ion2-CYANO-1-PYRIDIN-4-YL-3-(4-{[3-(TRIFLUOROMETHOXY)PHENYL]SULFONYL}BENZYL)GUANIDINE
3PO42Ligand/IonPHOSPHATE ION

(-) Sites  (13, 13)

Asymmetric Unit (13, 13)
No.NameEvidenceResiduesDescription
01AC1SOFTWARETYR A:188 , HIS A:191 , PHE A:193 , ARG A:196 , ASP A:219 , TYR A:240 , SER A:241 , VAL A:242 , ALA A:244 , SER A:275 , ILE A:309 , ARG A:311 , ILE A:351 , ALA A:379 , HOH A:803 , TYR B:18BINDING SITE FOR RESIDUE LTS A 601
02AC2SOFTWAREARG A:40 , ARG A:392 , SER A:398 , LYS A:400 , HOH A:721 , HOH A:767 , HOH A:772 , HOH A:906 , HOH A:933 , HOH A:1204BINDING SITE FOR RESIDUE PO4 A 602
03AC3SOFTWARELYS A:169 , GLU A:187 , VAL A:213 , ASN A:214 , LYS A:216 , ARG A:477BINDING SITE FOR RESIDUE EDO A 603
04AC4SOFTWAREPHE A:123 , VAL A:124 , ARG A:434 , ASN A:479 , HOH A:824 , HOH A:1072BINDING SITE FOR RESIDUE EDO A 604
05AC5SOFTWAREHIS A:247 , SER A:248 , THR A:251 , HOH A:751 , LYS B:400 , CYS B:401 , PHE B:414BINDING SITE FOR RESIDUE EDO A 605
06AC6SOFTWAREGLY A:384 , HOH A:806 , HOH A:862 , HOH A:917 , HOH A:1166 , HOH A:1201 , ARG B:392 , HOH B:1206BINDING SITE FOR RESIDUE EDO A 606
07AC7SOFTWARETYR A:18 , TYR B:188 , HIS B:191 , PHE B:193 , ARG B:196 , ASP B:219 , TYR B:240 , SER B:241 , VAL B:242 , ALA B:244 , SER B:275 , ILE B:309 , ARG B:311 , ALA B:379 , HOH B:855 , HOH B:927BINDING SITE FOR RESIDUE LTS B 601
08AC8SOFTWAREARG B:40 , ARG B:392 , SER B:398 , LYS B:400 , HOH B:725 , HOH B:781 , HOH B:844 , HOH B:849 , HOH B:859 , HOH B:934 , HOH B:1088BINDING SITE FOR RESIDUE PO4 B 602
09AC9SOFTWARELYS B:169 , GLU B:187 , VAL B:213 , ASN B:214 , LYS B:216 , ARG B:477BINDING SITE FOR RESIDUE EDO B 603
10BC1SOFTWARESER B:31 , LYS B:32 , ASN B:136 , PRO B:139 , HOH B:926BINDING SITE FOR RESIDUE EDO B 604
11BC2SOFTWARELYS B:174 , GLU B:178 , LYS B:369BINDING SITE FOR RESIDUE EDO B 605
12BC3SOFTWAREARG A:392 , HOH A:1204 , GLY B:383 , GLY B:384 , HOH B:836 , HOH B:1031 , HOH B:1208BINDING SITE FOR RESIDUE EDO B 606
13BC4SOFTWARELYS A:400 , CYS A:401 , PHE A:414 , HIS B:247 , SER B:248 , THR B:251 , HOH B:734BINDING SITE FOR RESIDUE EDO B 607

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Ala B:488 -Ala B:489

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4LTS)

(-) 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:472
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhh.hhhhhhhhhh....eeeeeeeeee........eee..hhhhhhhhhh.....hhhhhhhhhhhhhhhhh....hhhhhhhhhhhhh....eeeee.....eee...eeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhh.eee.hhhhh.hhhhhhhhhhhhh........hhhhhhhhhhh..............hhhhhhhhhhhhhhhhhhhhhhhh....eeee....hhhhhhhh.....hhhhhh.......eeee....hhhhhhhhhhhhhhhhh..ee.....ee....eeeee....hhhhhhhhhhhhhhh..hhh.eeeeehhhhhh........eeeeeeeeee..eeee.......hhhhh......eeee.....eeee..hhhhhh.......eeeee..ee....hhhhhhhhh.hhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4lts A   8 EFNILLATDSYKVTHYKQYPPNTSKVYSYFECREKKVKYEETVFYGLQYILNKYLKGKVVTKEKIQEAKDVYKEHFQDDVFNEKGWNYILEKYDGHLPIEIKAVPEGFVIPRGNVLFTVENTDPECYWLTNWIETILVQSWYPITVATNSREQKKILAKYLLETSGNLDGLEYKLHDFGYRGVSSQETAGIGASAHLVNFKGTDTVAGLALIKKYYGTKDPVPGYSVPAAEHSTITAWGKDHEKDAFEHIVTQFSSVPVSVVSDSYDIYNACEKIWGEDLRHLIVSRSTQAPLIIRPDSGNPLDTVLKVLEILGKKFPVTENSKGYKLLPPYLRVIQGDGVDINTLQEIVEGMKQKMWSIENIAFGSGGGLLQKLTRDLLNCSFKCSYVVTNGLGINVFKDPVADPNKRSKKGRLSLHRTPAGNFVTLEEGKGDLEEYGQDLLHTVFKNGKVTKSYSFDEIRKNAQLNIELE 487
                                    17        27        37     || 55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485  
                                                              43|                                                                                                                                                                                                                                                                                                                                                                                                                                                   
                                                               52                                                                                                                                                                                                                                                                                                                                                                                                                                                   


Chain B from PDB  Type:PROTEIN  Length:473
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhh.hhhhhhhhhh....eeeeeeeeee.......eee..hhhhhhhhhh.....hhhhhhhhhhhhhhhhh....hhhhhhhhhhhhh....eeeee.....eee...eeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhh.eee.hhhhh.hhhhhhhhhhhhh........hhhhhhhhhhh..............hhhhhhhhhhhhhhhhhhhhhhhh....eeee....hhhhhhhh.....hhhhhh.......eeee....hhhhhhhhhhhhhhhhh..ee.....ee....eeeee....hhhhhhhhhhhhhhh..hhh.eeeeehhhhhh........eeeeeeeeee..eeee.......hhhhh......eeee.....eeee..hhhhhh.......eeeee..ee....hhhhhhhhh.hhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4lts B   8 EFNILLATDSYKVTHYKQYPPNTSKVYSYFECREKVKYEETVFYGLQYILNKYLKGKVVTKEKIQEAKDVYKEHFQDDVFNEKGWNYILEKYDGHLPIEIKAVPEGFVIPRGNVLFTVENTDPECYWLTNWIETILVQSWYPITVATNSREQKKILAKYLLETSGNLDGLEYKLHDFGYRGVSSQETAGIGASAHLVNFKGTDTVAGLALIKKYYGTKDPVPGYSVPAAEHSTITAWGKDHEKDAFEHIVTQFSSVPVSVVSDSYDIYNACEKIWGEDLRHLIVSRSTQAPLIIRPDSGNPLDTVLKVLEILGKKFPVTENSKGYKLLPPYLRVIQGDGVDINTLQEIVEGMKQKMWSIENIAFGSGGGLLQKLTRDLLNCSFKCSYVVTNGLGINVFKDPVADPNKRSKKGRLSLHRTPAGNFVTLEEGKGDLEEYGQDLLHTVFKNGKVTKSYSFDEIRKNAQLNIELEAA 489
                                    17        27        37    ||  56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456       466       476       486   
                                                             42|                                                                                                                                                                                                                                                                                                                                                                                                                                                     
                                                              52
   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 4LTS)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (32, 32)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Ala B:488 - Ala B:489   [ RasMol ]  
 

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  2.4.2.12
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 Related Entries

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

UniProtKB/Swiss-Prot
        NAMPT_HUMAN | P43490: 2e5b 2e5c 2e5d 2gvg 2gvj 3dgr 3dhd 3dhf 3dkj 3dkl 4jnm 4jr5 4kfn 4kfo 4kfp 4l4l 4l4m 4lv9 4lva 4lvb 4lvd 4lvf 4lvg 4lww 4m6p 4m6q 4n9b 4n9c 4n9d 4n9e 4o0z 4o10 4o12 4o13 4o14 4o15 4o16 4o17 4o18 4o19 4o1a 4o1b 4o1c 4o1d 4o28 4wq6 5kit 5u2m 5u2n 5upe 5upf

(-) Related Entries Specified in the PDB File

4lww