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(-) Description

Title :  NEUTRON DIFFRACTION REVEALS HYDROGEN BONDS CRITICAL FOR CGMP-SELECTIVE ACTIVATION: INSIGHTS FOR PKG AGONIST DESIGN
 
Authors :  G. Y. Huang, O. O. Gerlits, M. P. Blakeley, B. Sankaran, A. Y. Kovalevsky
Date :  18 Jul 14  (Deposition) - 12 Nov 14  (Release) - 12 Nov 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.32
Chains :  Asym./Biol. Unit :  A
Keywords :  Phosphate Binding Cassette/Cyclic Gmp Binding Domain/Pkg, Serine/Threonine Kinase, Cyclic Gmp, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  G. Y. Huang, O. O. Gerlits, M. P. Blakeley, B. Sankaran, A. Y. Kovalevsky, C. Kim
Neutron Diffraction Reveals Hydrogen Bonds Critical For Cgmp-Selective Activation: Insights For Cgmp-Dependent Protein Kinase Agonist Design.
Biochemistry V. 53 6725 2014
PubMed-ID: 25271401  |  Reference-DOI: 10.1021/BI501012V

(-) Compounds

Molecule 1 - CGMP-DEPENDENT PROTEIN KINASE 1
    ChainsA
    EC Number2.7.11.12
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPQTEV
    Expression System StrainBL21(DE3)
    Expression System Taxid562
    Expression System Vector TypePLASMID
    FragmentC-TERMINAL CGMP-BINDING DOMAIN
    GenePRKG1, PRKG1B, PRKGR1A, PRKGR1B
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymCGK 1, CGK1, CGMP-DEPENDENT PROTEIN KINASE I, CGKI

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 19)

Asymmetric/Biological Unit (2, 19)
No.NameCountTypeFull Name
1CMP1Ligand/IonADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE
2IOD18Ligand/IonIODIDE ION

(-) Sites  (17, 17)

Asymmetric Unit (17, 17)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREILE A:264 , VAL A:283 , ARG A:285 , LEU A:296 , ARG A:297 , PHE A:305 , GLY A:306 , GLU A:307 , LYS A:308 , ALA A:309 , ARG A:316 , THR A:317 , ALA A:318 , TYR A:351BINDING SITE FOR RESIDUE CMP A 401
02AC2SOFTWAREASP A:334 , LYS A:337 , IOD A:403BINDING SITE FOR RESIDUE IOD A 402
03AC3SOFTWAREIOD A:402 , IOD A:411BINDING SITE FOR RESIDUE IOD A 403
04AC4SOFTWAREGLU A:226 , IOD A:406BINDING SITE FOR RESIDUE IOD A 404
05AC5SOFTWAREGLN A:311 , GLY A:341 , SER A:347BINDING SITE FOR RESIDUE IOD A 405
06AC6SOFTWAREGLU A:226 , GLU A:254 , SER A:277 , IOD A:404BINDING SITE FOR RESIDUE IOD A 406
07AC7SOFTWARETYR A:262 , HOH A:561BINDING SITE FOR RESIDUE IOD A 407
08AC8SOFTWAREHOH A:566BINDING SITE FOR RESIDUE IOD A 408
09AC9SOFTWAREPRO A:241 , GLU A:242 , GLU A:243 , ILE A:263BINDING SITE FOR RESIDUE IOD A 410
10BC1SOFTWAREIOD A:403 , HOH A:531BINDING SITE FOR RESIDUE IOD A 411
11BC2SOFTWAREILE A:244 , HIS A:256 , TYR A:257 , HIS A:338 , IOD A:415 , HOH A:509BINDING SITE FOR RESIDUE IOD A 412
12BC3SOFTWARELYS A:278 , THR A:327 , HOH A:526 , HOH A:559 , HOH A:560BINDING SITE FOR RESIDUE IOD A 413
13BC4SOFTWAREHIS A:256 , TYR A:257 , GLY A:267 , VAL A:326 , HOH A:521BINDING SITE FOR RESIDUE IOD A 414
14BC5SOFTWAREILE A:244 , TYR A:257 , GLU A:261 , HIS A:338 , IOD A:412 , HOH A:510BINDING SITE FOR RESIDUE IOD A 415
15BC6SOFTWAREGLU A:254 , HIS A:256 , GLU A:313 , HOH A:582BINDING SITE FOR RESIDUE IOD A 417
16BC7SOFTWAREGLU A:254 , HIS A:256 , HOH A:618BINDING SITE FOR RESIDUE IOD A 418
17BC8SOFTWAREASP A:303 , TRP A:304 , HOH A:551BINDING SITE FOR RESIDUE IOD A 419

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4QX5)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4QX5)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4QX5)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4QX5)

(-) Exons   (0, 0)

(no "Exon" information available for 4QX5)

(-) 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    
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SAPs(SNPs) PROSITE motifs Exons
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Chain A from PDB  Type:PROTEIN  Length:127
                                                                                                                                                               
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhh......hhhhhhhhhhhheeeee....eee.......eeeeeee..eeeee.....eeeeee....ee.hhhhh.......eeee...eeeeeeehhhhhhhh..hhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4qx5 A 222 IKHTEYMEFLKSVPTFQSLPEEILSKLADVLEETHYENGEYIIRQGARGDTFFIISKGTVNVTREDEDPVFLRTLGKGDWFGEKALQGEDVRTANVIAAEAVTCLVIDRDSFKHLIGGLDDVSNKAY 351
                                   231       241       251       261       271       281     ||294       304       314       324       334       344       
                                                                                           287|                                                            
                                                                                            291                                                            

   Legend:   → Mismatch (orange background)
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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  (0, 0)

(no "SCOP Domain" information available for 4QX5)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4QX5)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4QX5)

(-) Gene Ontology  (29, 29)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        KGP1_HUMAN | Q139761zxa 3nmd 3ocp 3od0 3ogj 4ku7 4ku8 4qxk 4r4l 4r4m 4z07 5j48 5jax

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 4QX5)