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(-) Description

Title :  PKG I'S CARBOYL TERMINAL CYCLIC NUCLEOTIDE BINDING DOMAIN (CNB-B) IN A COMPLEX WITH 8-PCPT-CGMP
 
Authors :  J. C. Campbell, B. Sankaran, C. W. Kim
Date :  31 Mar 16  (Deposition) - 12 Apr 17  (Release) - 12 Apr 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.49
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Binding Sites, Cyclic Amp, Cyclic Gmp, Cyclic Gmp-Dependent Protein Kinase Type Ii, Mutagenesis, Site-Directed, Protein Binding, Analogs (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. C. Campbell, B. Sankaran, C. W. Kim
Structural Basis Of Analog Specificity In Cgmp Dependent Protein Kinase I And Ii
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - CGMP-DEPENDENT PROTEIN KINASE 1
    Chains: A, B
    EC Number: 2.7.11.12
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 204-336
    Gene: PRKG1, PRKG1B, PRKGR1A, PRKGR1B
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: CGK1,CGMP-DEPENDENT PROTEIN KINASE I,CGKI

 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  (4, 13)

Asymmetric Unit (4, 13)
No.NameCountTypeFull Name
16FW2Ligand/Ion2-AMINO-8-[(4-CHLOROPHENYL)SULFANYL]-9-[(2S,4AR,6R,7R,7AS)-2,7-DIHYDROXY-2-OXOTETRAHYDRO-2H,4H-2LAMBDA~5~-FURO[3,2-D][1,3,2]DIOXAPHOSPHININ-6-YL]-3,9-DIHYDRO-6H-PURIN-6-ONE
2CA1Ligand/IonCALCIUM ION
3EDO8Ligand/Ion1,2-ETHANEDIOL
4NA2Ligand/IonSODIUM ION
Biological Unit 1 (2, 5)
No.NameCountTypeFull Name
16FW1Ligand/Ion2-AMINO-8-[(4-CHLOROPHENYL)SULFANYL]-9-[(2S,4AR,6R,7R,7AS)-2,7-DIHYDROXY-2-OXOTETRAHYDRO-2H,4H-2LAMBDA~5~-FURO[3,2-D][1,3,2]DIOXAPHOSPHININ-6-YL]-3,9-DIHYDRO-6H-PURIN-6-ONE
2CA-1Ligand/IonCALCIUM ION
3EDO4Ligand/Ion1,2-ETHANEDIOL
4NA-1Ligand/IonSODIUM ION
Biological Unit 2 (2, 5)
No.NameCountTypeFull Name
16FW1Ligand/Ion2-AMINO-8-[(4-CHLOROPHENYL)SULFANYL]-9-[(2S,4AR,6R,7R,7AS)-2,7-DIHYDROXY-2-OXOTETRAHYDRO-2H,4H-2LAMBDA~5~-FURO[3,2-D][1,3,2]DIOXAPHOSPHININ-6-YL]-3,9-DIHYDRO-6H-PURIN-6-ONE
2CA-1Ligand/IonCALCIUM ION
3EDO4Ligand/Ion1,2-ETHANEDIOL
4NA-1Ligand/IonSODIUM ION

(-) Sites  (13, 13)

Asymmetric Unit (13, 13)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREHIS A:256 , GLU A:261binding site for residue EDO A 401
02AC2SOFTWAREASP A:303 , TRP A:304 , 6FW A:404 , HOH A:539binding site for residue EDO A 402
03AC3SOFTWAREGLN A:311 , GLU A:313 , EDO A:405 , NA A:406 , 6FW B:405 , CA B:406binding site for residue EDO A 403
04AC4SOFTWAREILE A:264 , LEU A:296 , ARG A:297 , LEU A:299 , TRP A:304 , 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:351 , EDO A:402 , ASP B:287 , HOH B:505binding site for residue 6FW A 404
05AC5SOFTWARELYS A:308 , THR A:317 , EDO A:403 , HOH A:533 , ARG B:285 , ASP B:287 , LEU B:296binding site for residue EDO A 405
06AC6SOFTWARELYS A:308 , GLN A:311 , GLU A:313 , EDO A:403 , HOH A:573binding site for residue NA A 406
07AC7SOFTWAREHIS B:338 , HOH B:529binding site for residue EDO B 401
08AC8SOFTWAREGLU B:226 , TYR B:227 , SER B:277 , HOH B:507 , HOH B:543binding site for residue EDO B 402
09AC9SOFTWAREGLY B:220 , TYR B:227 , ALA B:249 , HOH B:508binding site for residue EDO B 403
10AD1SOFTWAREASP B:303 , TRP B:304 , 6FW B:405 , HOH B:535binding site for residue EDO B 404
11AD2SOFTWAREEDO A:403 , ILE B:264 , LEU B:296 , ARG B:297 , LEU B:299 , TRP B:304 , PHE B:305 , GLY B:306 , GLU B:307 , LYS B:308 , ALA B:309 , ARG B:316 , THR B:317 , ALA B:318 , EDO B:404 , CA B:406binding site for residue 6FW B 405
12AD3SOFTWARELYS A:308 , EDO A:403 , ARG B:285 , 6FW B:405binding site for residue CA B 406
13AD4SOFTWAREASN A:348 , LYS B:308 , GLN B:311 , GLU B:313 , HOH B:571binding site for residue NA B 407

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5J48)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5J48)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5J48)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5J48)

(-) Exons   (0, 0)

(no "Exon" information available for 5J48)

(-) 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:131
                                                                                                                                                                   
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhheeeee....eee.......eeeeeee..eeeee....eeeeee....ee.hhhhh.......eeee...eeeeeeehhhhhhhh..hhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5j48 A 217 GSTGLIKHTEYMEFLKSVPTFQSLPEEILSKLADVLEETHYENGEYIIRQGARGDTFFIISKGTVNVTREDDPVFLRTLGKGDWFGEKALQGEDVRTANVIAAEAVTCLVIDRDSFKHLIGGLDDVSNKAY 351
                                   226       236       246       256       266       276       286||     300       310       320       330       340       350 
                                                                                                287|                                                           
                                                                                                 292                                                           


Chain B from PDB  Type:PROTEIN  Length:127
                                                                                                                                                               
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhheeeee....eee.......eeeeeee..eeeee........eeeeee....ee.hhhhh.......eeee...eeeeeeehhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5j48 B 217 GSTGLIKHTEYMEFLKSVPTFQSLPEEILSKLADVLEETHYENGEYIIRQGARGDTFFIISKGTVNVTREDSPSEDPVFLRTLGKGDWFGEKALQGEDVRTANVIAAEAVTCLVIDRDSFKHLIGGL 343
                                   226       236       246       256       266       276       286       296       306       316       326       336
   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 5J48)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5J48)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5J48)

(-) Gene Ontology  (29, 29)

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        KGP1_HUMAN | Q13976: 1zxa 3nmd 3ocp 3od0 3ogj 4ku7 4ku8 4qx5 4qxk 4r4l 4r4m 4z07 5jax

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