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(-) Description

Title :  FTASE IN COMPLEX WITH BMS ANALOGUE 11
 
Authors :  Z. Guo, E. A. Stigter, R. S. Bon, H. Waldmann, W. Blankenfeldt, R. S. Good
Date :  28 Aug 12  (Deposition) - 24 Oct 12  (Release) - 24 Oct 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Protein Prenylation, Inhibitor, Transferase-Transferase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  E. A. Stigter, Z. Guo, R. S. Bon, Y. W. Wu, A. Choidas, A. Wolf, S. Menninger, H. Waldmann, W. Blankenfeldt, R. S. Goody
Development Of Selective, Potent Rabggtase Inhibitors
J. Med. Chem. V. 55 8330 2012
PubMed-ID: 22963166  |  Reference-DOI: 10.1021/JM300624S

(-) Compounds

Molecule 1 - PROTEIN FARNESYLTRANSFERASE/GERANYLGERANYLTRANSFERASE TYPE- 1 SUBUNIT ALPHA
    Chains: A
    EC Number: 2.5.1.58, 2.5.1.59
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PGATEV
    Expression System Strain: BL21 CODON-PLUS RIL (DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: FNTA
    Organism Common: RAT
    Organism Scientific: RATTUS NORVEGICUS
    Organism Taxid: 10116
    Synonym: CAAX FARNESYLTRANSFERASE SUBUNIT ALPHA, FTASE-ALPHA, RAS PROTEINS PRENYLTRANSFERASE SUBUNIT ALPHA, TYPE I PROTEIN GERANYL- GERANYLTRANSFERASE SUBUNIT ALPHA, GGTASE-I-ALPHA
 
Molecule 2 - PROTEIN FARNESYLTRANSFERASE SUBUNIT BETA
    Chains: B
    EC Number: 2.5.1.58
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET27B
    Expression System Strain: BL21 CODON-PLUS RIL (DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: C-TERMINAL 10 RESIDUES DELETED
    Gene: FNTB
    Organism Common: RAT
    Organism Scientific: RATTUS NORVEGICUS
    Organism Taxid: 10116
    Synonym: FTASE-BETA, CAAX FARNESYLTRANSFERASE SUBUNIT BETA, RAS PROTEINS PRENYLTRANSFERASE SUBUNIT BETA

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 5)

Asymmetric/Biological Unit (4, 5)
No.NameCountTypeFull Name
17TM1Ligand/Ion4-({(3R)-7-CYANO-4-[(4-METHOXYPHENYL)SULFONYL]-1-[(1-METHYL-1H-IMIDAZOL-5-YL)METHYL]-2,3,4,5-TETRAHYDRO-1H-1,4-BENZODIAZEPIN-3-YL}METHYL)PHENYL HEXYLCARBAMATE
2DMS2Ligand/IonDIMETHYL SULFOXIDE
3FPP1Ligand/IonFARNESYL DIPHOSPHATE
4ZN1Ligand/IonZINC ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP B:297 , CYS B:299 , HIS B:362 , 7TM B:503BINDING SITE FOR RESIDUE ZN B 501
2AC2SOFTWARELYS A:164 , ARG B:202 , HIS B:248 , GLY B:250 , TYR B:251 , ARG B:291 , LYS B:294 , TYR B:300 , 7TM B:503 , DMS B:504 , HOH B:617 , HOH B:624 , HOH B:774 , HOH B:815BINDING SITE FOR RESIDUE FPP B 502
3AC3SOFTWARETYR B:93 , LEU B:96 , ALA B:98 , SER B:99 , TRP B:102 , ALA B:151 , PRO B:152 , ARG B:202 , ASP B:297 , ASP B:359 , TYR B:361 , HIS B:362 , ZN B:501 , FPP B:502 , DMS B:504 , DMS B:505 , HOH B:782 , HOH B:818BINDING SITE FOR RESIDUE 7TM B 503
4AC4SOFTWARECYS B:299 , TYR B:300 , TYR B:361 , FPP B:502 , 7TM B:503 , HOH B:820BINDING SITE FOR RESIDUE DMS B 504
5AC5SOFTWARETYR B:93 , LEU B:96 , ARG B:358 , ASP B:359 , 7TM B:503 , HOH B:620BINDING SITE FOR RESIDUE DMS B 505

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Pro B:421 -Gly B:422

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4GTM)

(-) 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:318
                                                                                                                                                                                                                                                                                                                                                              
               SCOP domains d4gtma_ A: Protein farnesyltransferase alpha-subunit                                                                                                                                                                                                                                                                           SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...........hhhhhhhhh...............ee..hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhh...hhhhhhhhhhhhh..hhhhhhhhhhhhhhh....hhhhhhhhhhhhh..hhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4gtm A  54 GFLSLDSPTYVLYRDRAEWADIDPVPQNDGPSPVVQIIYSEKFRDVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLRSLQKDLQEEMNYIIAIIEEQPKNYQVWHHRRVLVEWLKDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFRLWDNELQYVDQLLKEDVRNNSVWNQRHFVISNTTGYSDRAVLEREVQYTLEMIKLVPHNESAWNYLKGILQDRGLSRYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKEDILNKALELCEILAKEKDTIRKEYWRYIGRSLQSKHSRES 371
                                    63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363        


Chain B from PDB  Type:PROTEIN  Length:405
                                                                                                                                                                                                                                                                                                                                                                                                                                                     
               SCOP domains d4gtmb_ B: Protein farnesyltransferase, beta-subunit                                                                                                                                                                                                                                                                                                                                                                  SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhh.eehhhhhhhh.hhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhh..............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..............hhhhhhhhhhhhhhh.........hhhhhhhhhh..............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...................hhhhhh.hhhhhhhhhhhhh............hhhhhhhhhhhhh...............hhhhhhhhhhhhhhhheeee..eeee....hhhhh..........hhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4gtm B  19 WSEPLYSLRPEHARERLQDDSVETVTSIEQAKVEEKIQEVFSSYKFNHLVPRLVLQREKHFHYLKRGLRQLTDAYECLDASRPWLCYWILHSLELLDEPIPQIVATDVCQFLELCQSPDGGFGGGPGQYPHLAPTYAAVNALCIIGTEEAYNVINREKLLQYLYSLKQPDGSFLMHVGGEVDVRSAYCAASVASLTNIITPDLFEGTAEWIARCQNWEGGIGGVPGMEAHGGYTFCGLAALVILKKERSLNLKSLLQWVTSRQMRFEGGFQGRCNKLVDGCYSFWQAGLLPLLHRALHAQGDPALSMSHWMFHQQALQEYILMCCQCPAGGLLDKPGKSRDFYHTCYCLSGLSIAQHFGSGAMLHDVVMGVPENVLQPTHPVYNIGPDKVIQATTHFLQKPVPGF 423
                                    28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398       408       418
   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  (2, 2)

Asymmetric/Biological Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (34, 50)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Pro B:421 - Gly B:422   [ RasMol ]  
 

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  FNTB_RAT | Q02293
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 Related Entries

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

UniProtKB/Swiss-Prot
        FNTA_RAT | Q04631: 1d8d 1d8e 1fpp 1ft1 1ft2 1fti 1hz7 1jcr 1jcs 1kzo 1kzp 1kzr 1n4p 1n4q 1n4r 1n4s 1n94 1n95 1n9a 1ni1 1nl4 1o1r 1o1s 1o1t 1o5m 1qbq 1qe2 1s64 1sa5 1tn7 1tn8 1tnb 1tno 1tnu 1tny 1tnz 1x81 2bed 2fti 2r2l 2zir 2zis 3dpy 3e30 3e32 3e33 3e34 3eu5 3euv 3fti 3ksl 3ksq 3pz4 4gto 4gtp 4gtq 4gtr
        FNTB_RAT | Q02293: 1d8d 1d8e 1fpp 1ft1 1ft2 1fti 1hz7 1jcr 1jcs 1kzo 1kzp 1kzr 1n94 1n95 1n9a 1ni1 1nl4 1o1r 1o1s 1o1t 1o5m 1qbq 1qe2 1sa5 1tn7 1tn8 1x81 2bed 2fti 2r2l 2zir 2zis 3dpy 3e30 3e32 3e33 3e34 3eu5 3euv 3fti 3ksl 3ksq 3pz4 4gto 4gtp 4gtq 4gtr

(-) Related Entries Specified in the PDB File

4gto 4gtp 4gtq 4gtr 4gts 4gtt 4gtv