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(-) Description

Title :  CRYSTAL STRUCTURE OF RENIN IN COMPLEX WITH NVP-AYL747 (COMPOUND 5)
 
Authors :  N. Ostermann, F. Zink, M. Kroemer
Date :  09 Aug 12  (Deposition) - 13 Feb 13  (Release) - 10 Apr 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Renin Inhibitor, Fragment Based Screening, 3, 5-Disubstituted Piperidines, Hydrolase-Hydrolase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  N. Ostermann, S. Ruedisser, C. Ehrhardt, W. Breitenstein, A. Marzinzik, E. Jacoby, E. Vangrevelinghe, J. Ottl, M. Klumpp, J. C. Hartwieg, F. Cumin, U. Hassiepen, J. Trappe, R. Sedrani, S. Geisse, B. Gerhartz, P. Richert, E. Francotte, T. Wagner, M. Kromer T. Kosaka, R. L. Webb, D. F. Rigel, J. Maibaum, D. K. Baeschlin
A Novel Class Of Oral Direct Renin Inhibitors: Highly Poten 3, 5-Disubstituted Piperidines Bearing A Tricyclic P3-P1 Pharmacophore.
J. Med. Chem. V. 56 2196 2013
PubMed-ID: 23360239  |  Reference-DOI: 10.1021/JM301706J

(-) Compounds

Molecule 1 - RENIN
    Chains: A, B
    EC Number: 3.4.23.15
    Engineered: YES
    Expression System: CRICETULUS GRISEUS
    Expression System Common: CHINESE HAMSTER
    Expression System Taxid: 10029
    Fragment: UNP RESIDUES 67-406
    Gene: REN
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: ANGIOTENSINOGENASE

 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  (3, 7)

Asymmetric Unit (3, 7)
No.NameCountTypeFull Name
10M32Ligand/Ion(3S,5R)-N-(2,2-DIPHENYLETHYL)-5-{[(4-METHYLPHENYL)SULFONYL]AMINO}PIPERIDINE-3-CARBOXAMIDE
2NAG2Ligand/IonN-ACETYL-D-GLUCOSAMINE
3SO43Ligand/IonSULFATE ION
Biological Unit 1 (3, 4)
No.NameCountTypeFull Name
10M31Ligand/Ion(3S,5R)-N-(2,2-DIPHENYLETHYL)-5-{[(4-METHYLPHENYL)SULFONYL]AMINO}PIPERIDINE-3-CARBOXAMIDE
2NAG1Ligand/IonN-ACETYL-D-GLUCOSAMINE
3SO42Ligand/IonSULFATE ION
Biological Unit 2 (3, 3)
No.NameCountTypeFull Name
10M31Ligand/Ion(3S,5R)-N-(2,2-DIPHENYLETHYL)-5-{[(4-METHYLPHENYL)SULFONYL]AMINO}PIPERIDINE-3-CARBOXAMIDE
2NAG1Ligand/IonN-ACETYL-D-GLUCOSAMINE
3SO41Ligand/IonSULFATE ION

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN A:67 , MET A:100 , HOH A:1168 , HOH A:1180 , HOH A:1197BINDING SITE FOR RESIDUE NAG A 1000
2AC2SOFTWAREGLN A:13 , ASP A:32 , GLY A:34 , TYR A:75 , SER A:76 , THR A:77 , VAL A:120 , ASP A:215 , GLY A:217 , MET A:289 , ILE A:291 , PRO A:292 , HOH A:1102 , HOH A:1202BINDING SITE FOR RESIDUE 0M3 A 1001
3AC3SOFTWARETHR A:12 , GLN A:13 , TYR A:14 , VAL A:30 , THR A:216 , GLY A:217 , ALA A:218BINDING SITE FOR RESIDUE SO4 A 1002
4AC4SOFTWAREASP A:11 , ALA A:272 , ASP A:273 , TYR A:274 , VAL A:275 , PHE A:276 , ALA A:285 , ARG A:307 , HOH A:1111BINDING SITE FOR RESIDUE SO4 A 1003
5AC5SOFTWAREASN B:67 , MET B:100BINDING SITE FOR RESIDUE NAG B 1000
6AC6SOFTWAREGLN B:13 , ASP B:32 , GLY B:34 , TYR B:75 , SER B:76 , THR B:77 , VAL B:120 , ASP B:215 , GLY B:217 , ILE B:291 , PRO B:292 , HOH B:1151 , HOH B:1198BINDING SITE FOR RESIDUE 0M3 B 1001
7AC7SOFTWARETHR B:12 , GLN B:13 , TYR B:14 , VAL B:30 , THR B:216 , GLY B:217 , ALA B:218BINDING SITE FOR RESIDUE SO4 B 1002

(-) SS Bonds  (6, 6)

Asymmetric Unit
No.Residues
1A:45 -A:50
2A:206 -A:210
3A:249 -A:282
4B:45 -B:50
5B:206 -B:210
6B:249 -B:282

(-) Cis Peptide Bonds  (8, 8)

Asymmetric Unit
No.Residues
1Thr A:22 -Pro A:23
2Leu A:110 -Pro A:111
3Pro A:293 -Pro A:294
4Gly A:296 -Pro A:297
5Thr B:22 -Pro B:23
6Leu B:110 -Pro B:111
7Pro B:293 -Pro B:294
8Gly B:296 -Pro B:297

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4GJA)

(-) 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:337
                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains d4gjaa_ A: Chymosin (synonym: renin)                                                                                                                                                                                                                                                                                                              SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeeeeee...eeeeeeee....eeeeeeee.....eeee.......hhhhhh....hhhhh...eeeeeeeeee....eeeeeeeeeeeee..eeeeeeeeeeee.hhhhhh.....eeee..hhhhhhhhh.hhhhhhhhh......eeeeee........eeeee...hhh.eeeeeeeee.......eeee.eeee..eeee....eeeee......eeehhhhhhhhhhhhh.ee....eeee.hhhhhh..eeeee..eeeeehhhhhh.........eee..eee..........eeehhhhhhheeeeee....eeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4gja A   -5 LTLGNTTSSVILTNYMDTQYYGEIGIGTPPQTFKVVFDTGSSNVWVPSSKCSRLYTACVYHKLFDASDSSSYKHNGTELTLRYSTGTVSGFLSQDIITVGGITVTQMFGEVTEMPALPFMLAEFDGVVGMGFIEQAIGRVTPIFDNIISQGVLKEDVFSFYYNRDSQSLGGQIVLGGSDPQHYEGNFHYINLIKTGVWQIQMKGVSVGSSTLLCEDGCLALVDTGASYISGSTSSIEKLMEALGAKKRLFDYVVKCNEGPTLPDISFHLGGKEYTLTSADYVFQESYSSKKLCTLAIHAMDIPPPTGPTWALGATFIRKFYTEFDRRNNRIGFALAR  326
                                     4        14        24        34        44   ||   52        62        72        82        92    || 103       113       123       133       143       153      |162       172       182       192       202       212       222       232       242|      253       263       273      281B||     289       299       309       319       
                                                                               47A|                                                97|                                                         160C|                                                                               242|                                  281A|||                                             
                                                                                47B                                                 99                                                          160D                                                                                244                                   281B||                                             
                                                                                                                                                                                                                                                                                                                           281C|                                             
                                                                                                                                                                                                                                                                                                                            281D                                             


Chain B from PDB  Type:PROTEIN  Length:337
                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains d4gjab_ B: Chymosin (synonym: renin)                                                                                                                                                                                                                                                                                                              SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeeeeee...eeeeeeee....eeeeeeee.....eeee.......hhhhhh....hhhhh...eeeeeeeeee....eeeeeeeeeeeee..eeeeeeeeeeee.hhhhhh.....eeee..hhhhhhhhh.hhhhhhhhh......eeeeee........eeeee...hhh.eeeeeeeee.......eeee.eeee..eeee....eeeee......eeehhhhhhhhhhhhh.ee....eeee.hhhhhh..eeeee..eeeeehhhhhh.........eee..eee..........eeehhhhhhheeeeee....eeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4gja B   -5 LTLGNTTSSVILTNYMDTQYYGEIGIGTPPQTFKVVFDTGSSNVWVPSSKCSRLYTACVYHKLFDASDSSSYKHNGTELTLRYSTGTVSGFLSQDIITVGGITVTQMFGEVTEMPALPFMLAEFDGVVGMGFIEQAIGRVTPIFDNIISQGVLKEDVFSFYYNRDSQSLGGQIVLGGSDPQHYEGNFHYINLIKTGVWQIQMKGVSVGSSTLLCEDGCLALVDTGASYISGSTSSIEKLMEALGAKKRLFDYVVKCNEGPTLPDISFHLGGKEYTLTSADYVFQESYSSKKLCTLAIHAMDIPPPTGPTWALGATFIRKFYTEFDRRNNRIGFALAR  326
                                     4        14        24        34        44   ||   52        62        72        82        92    || 103       113       123       133       143       153      |162       172       182       192       202       212       222       232       242|      253       263       273      281B||     289       299       309       319       
                                                                               47A|                                                97|                                                         160C|                                                                               242|                                  281A|||                                             
                                                                                47B                                                 99                                                          160D                                                                                244                                   281B||                                             
                                                                                                                                                                                                                                                                                                                           281C|                                             
                                                                                                                                                                                                                                                                                                                            281D
   Legend:   → Mismatch (orange background)
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  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: All beta proteins (24004)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (34, 34)

Asymmetric Unit(hide GO term definitions)

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  3.4.23.15
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 Related Entries

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

UniProtKB/Swiss-Prot
        RENI_HUMAN | P00797: 1bbs 1bil 1bim 1hrn 1rne 2bks 2bkt 2fs4 2g1n 2g1o 2g1r 2g1s 2g1y 2g20 2g21 2g22 2g24 2g26 2g27 2i4q 2iko 2iku 2il2 2ren 2v0z 2v10 2v11 2v12 2v13 2v16 2x0b 3d91 3g6z 3g70 3g72 3gw5 3k1w 3km4 3o9l 3oad 3oag 3oot 3oqf 3oqk 3own 3q3t 3q4b 3q5h 3sfc 3vcm 3vsw 3vsx 3vuc 3vyd 3vye 3vyf 4amt 4gj5 4gj6 4gj7 4gj8 4gj9 4gjb 4gjc 4gjd 4pyv 4q1n 4ryc 4ryg 4rz1 4s1g 4xx3 4xx4 5koq 5kos 5kot 5sxn 5sy2 5sy3 5sz9 5t4s

(-) Related Entries Specified in the PDB File

4gj8 4gj9 4gjb 4gjc 4gjd