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(-) Description

Title :  TRNA-GUANINE TRANSGLYCOSYLASE (TGT) IN COMPLEX WITH 2-{[2-(PIPERIDIN-1-YL)ETHYL]AMINO}-3,5-DIHYDRO-8H-IMIDAZO[4,5-G]QUINAZOLIN-8-ONE
 
Authors :  M. Neeb, A. Heine, G. Klebe
Date :  15 Apr 14  (Deposition) - 09 Jul 14  (Release) - 23 Jul 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.54
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Transferase, Guanine Exchange Enzyme, Preq1, Trna, Transferase- Transferase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Neeb, M. Betz, A. Heine, L. J. Barandun, C. Hohn, F. Diederich, G. Klebe
Beyond Affinity: Enthalpy-Entropy Factorization Unravels Complexity Of A Flat Structure-Activity Relationship For Inhibition Of A Trna-Modifying Enzyme.
J. Med. Chem. V. 57 5566 2014
PubMed-ID: 24960372  |  Reference-DOI: 10.1021/JM5006868

(-) Compounds

Molecule 1 - QUEUINE TRNA-RIBOSYLTRANSFERASE
    Chains: A
    EC Number: 2.4.2.29
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET9D-ZM4
    Expression System Strain: BL21(DE3)PLYSS
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: GUANINE INSERTION ENZYME
    Gene: TGT, ZMO0363
    Organism Scientific: ZYMOMONAS MOBILIS SUBSP. MOBILIS
    Organism Taxid: 264203
    Strain: ATCC 31821 / ZM4 / CP4
    Synonym: GUANINE INSERTION ENZYME, TRNA-GUANINE TRANSGLYCOSYLASE

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (5, 5)
No.NameCountTypeFull Name
12YO1Ligand/Ion2-{[2-(PIPERIDIN-1-YL)ETHYL]AMINO}-3,5-DIHYDRO-8H-IMIDAZO[4,5-G]QUINAZOLIN-8-ONE
2CL1Ligand/IonCHLORIDE ION
3DMS1Ligand/IonDIMETHYL SULFOXIDE
4GOL1Ligand/IonGLYCEROL
5ZN1Ligand/IonZINC ION
Biological Unit 1 (3, 6)
No.NameCountTypeFull Name
12YO2Ligand/Ion2-{[2-(PIPERIDIN-1-YL)ETHYL]AMINO}-3,5-DIHYDRO-8H-IMIDAZO[4,5-G]QUINAZOLIN-8-ONE
2CL-1Ligand/IonCHLORIDE ION
3DMS2Ligand/IonDIMETHYL SULFOXIDE
4GOL2Ligand/IonGLYCEROL
5ZN-1Ligand/IonZINC ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS A:318 , CYS A:320 , CYS A:323 , HIS A:349BINDING SITE FOR RESIDUE ZN A 401
2AC2SOFTWAREPRO A:56 , GLU A:57 , GLY A:94 , TRP A:95 , ASP A:96 , ARG A:97 , LYS A:325 , HOH A:760BINDING SITE FOR RESIDUE GOL A 402
3AC3SOFTWAREHIS A:145 , SER A:188 , LYS A:190 , GLU A:191BINDING SITE FOR RESIDUE DMS A 403
4AC4SOFTWAREVAL A:282 , 2YO A:405BINDING SITE FOR RESIDUE CL A 404
5AC5SOFTWARETYR A:106 , ASP A:156 , CYS A:158 , GLN A:203 , GLY A:229 , GLY A:230 , LEU A:231 , ALA A:232 , MET A:260 , GLY A:261 , LEU A:283 , ARG A:286 , CL A:404 , HOH A:537 , HOH A:555BINDING SITE FOR RESIDUE 2YO A 405

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4Q4P)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Thr A:39 -Pro A:40
2Arg A:77 -Pro A:78
3Tyr A:161 -Pro A:162
4Val A:262 -Gly A:263

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4Q4P)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4Q4P)

(-) Exons   (0, 0)

(no "Exon" information available for 4Q4P)

(-) 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    
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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:364
                                                                                                                                                                                                                                                                                                                                                                                                            
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeee..eeeeeeee..eeeee.eee.ee........hhhhhhhh....eee.hhhhhhh.hhhhhhhh.hhhhhhh....eee..hhhhhhhhh.ee....ee...eehhhhhhhhhhhhh..eee..........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhheeeeee....hhhhhhhhhhhhhhhh..eeee.......hhhhhhhhhhhhhhhh.....eee....hhhhhhhhhhh...eee.hhhhhhhhh.ee......ee..hhhhh...........hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4q4p A  11 RPRFSFSIAAREGKARTGTIEMKRGVIRTPAFMPVGTAATVKALKPETVRATGADIILGNTYHLMLRPGAERIAKLGGLHSFMGWDRPILTDSGGYQVMSLSTKQSEEGVTFKHMLSPERSIEIQHLLGSDIVMAFDECTPYPATPSRAASSMERSMRWAKRSRDAFDSRKEQAENAALFGIQQGSVFENLRQQSADALAEIGFDGYAVGGLAVGEGQDEMFRVLDFSVPMLPDDKPHYLMGVGKPDDIVGAVERGIDMFDCVLPTRSGRNGQAFTWDGPINIRNARFSEDLKPLDSECHCAVCQKWSRAYIHHLIRAGEILGAMLMTEHNIAFYQQLMQKIRDSISEGRFSQFAQDFRARYFA 383
                                    20        30        40        50        60        70        80        90       100       110 ||    122  ||   139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379    
                                                                                                                               112|       125|                                                                                                                                                                                                                                                          
                                                                                                                                115        133
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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  (0, 0)

(no "SCOP Domain" information available for 4Q4P)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4Q4P)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4Q4P)

(-) Gene Ontology  (7, 7)

Asymmetric Unit(hide GO term definitions)

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  4q4p
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  TGT_ZYMMO | P28720
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  2.4.2.29
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 Related Entries

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

UniProtKB/Swiss-Prot
        TGT_ZYMMO | P28720: 1efz 1enu 1f3e 1k4g 1k4h 1n2v 1ozm 1ozq 1p0b 1p0d 1p0e 1pud 1pxg 1q2r 1q2s 1q4w 1q63 1q65 1q66 1r5y 1s38 1s39 1wkd 1wke 1wkf 1y5v 1y5w 1y5x 2bbf 2nqz 2nso 2oko 2pot 2pwu 2pwv 2qii 2qzr 2z1v 2z1w 2z1x 2z7k 3bl3 3bld 3bll 3blo 3c2y 3eos 3eou 3gc4 3gc5 3ge7 3hfy 3rr4 3s1g 3sm0 3tll 3unt 3uvi 4dxx 4dy1 4e2v 4fps 4fr1 4fr6 4fsa 4gcx 4gd0 4gg9 4gh1 4gh3 4ghr 4gi4 4giy 4gkt 4h6e 4h7z 4hqv 4hsh 4htb 4hvx 4ipp 4jbr 4kwo 4l56 4lbu 4leq 4puj 4puk 4pul 4pum 4pun 4q4m 4q4o 4q4q 4q4r 4q4s 4q8m 4q8n 4q8o 4q8p 4q8q 4q8t 4q8u 4q8v 4q8w 5egr 5i00 5i02 5i03 5i06 5i07 5i09 5j9m 5j9n 5j9o 5jgm 5jgo 5jsv 5jsw 5jt5 5jt6 5jt7 5jxq

(-) Related Entries Specified in the PDB File

1p0d 4q4m 4q4o 4q4q 4q4r 4q4s