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(-) Description

Title :  PROTEIN KINASE A IN COMPLEX WITH AN INHIBITOR
 
Authors :  K. A. Alam, R. A. Engh
Date :  09 Apr 15  (Deposition) - 13 Apr 16  (Release) - 13 Apr 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.87
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (1x)
Keywords :  Transferase, Pka (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. S. Lauber, L. A. Hardegger, A. K. Asraful, B. A. Lund, O. Dumele, M. Harder, B. Kuhn, R. A. Engh, F. Diederich
Addressing The Glycine-Rich Loop Of Protein Kinases By A Multi-Facetted Interaction Network: Inhibition Of Pka And A Pkb Mimic.
Chemistry V. 22 211 2016
PubMed-ID: 26578105  |  Reference-DOI: 10.1002/CHEM.201503552

(-) Compounds

Molecule 1 - CAMP-DEPENDENT PROTEIN KINASE CATALYTIC SUBUNIT ALPHA
    Chains: A
    EC Number: 2.7.11.11
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Taxid: 469008
    Fragment: KINASE DOMAIN, UNP RESIDUES 1-351
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: PKA C-ALPHA, PKA
 
Molecule 2 - PEPTIDE
    Chains: B
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (4, 5)
No.NameCountTypeFull Name
1MPD2Ligand/Ion(4S)-2-METHYL-2,4-PENTANEDIOL
2S3N1Ligand/Ion7-[(3S,4R)-4-[4-(TRIFLUOROMETHYL)PHENYL]CARBONYLPYRROLIDIN-3-YL]-3H-QUINAZOLIN-4-ONE
3SEP1Mod. Amino AcidPHOSPHOSERINE
4TPO1Mod. Amino AcidPHOSPHOTHREONINE
Biological Unit 1 (4, 5)
No.NameCountTypeFull Name
1MPD2Ligand/Ion(4S)-2-METHYL-2,4-PENTANEDIOL
2S3N1Ligand/Ion7-[(3S,4R)-4-[4-(TRIFLUOROMETHYL)PHENYL]CARBONYLPYRROLIDIN-3-YL]-3H-QUINAZOLIN-4-ONE
3SEP1Mod. Amino AcidPHOSPHOSERINE
4TPO1Mod. Amino AcidPHOSPHOTHREONINE

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:50 , THR A:51 , GLY A:52 , SER A:53 , PHE A:54 , GLY A:55 , VAL A:57 , ALA A:70 , LYS A:72 , LEU A:74 , VAL A:104 , MET A:120 , GLU A:121 , TYR A:122 , VAL A:123 , GLU A:127 , GLU A:170 , ASN A:171 , LEU A:173 , THR A:183 , ASP A:184 , HOH A:2138 , HOH A:2217 , HOH A:2227BINDING SITE FOR RESIDUE S3N A1351
2AC2SOFTWARESER A:130 , ARG A:134 , ASN A:326 , PHE A:327BINDING SITE FOR RESIDUE MPD A1352
3AC3SOFTWAREVAL A:15 , GLU A:155 , TYR A:306BINDING SITE FOR RESIDUE MPD A1353

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4UJ9)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4UJ9)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4UJ9)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4UJ9)

(-) Exons   (0, 0)

(no "Exon" information available for 4UJ9)

(-) 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:341
                                                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhh......hhh.eeeeeeeeee..eeeeeeee.....eeeeeeeehhhhhhh.hhhhhhhhhhhhh.........eeeeee...eeeeeee.....hhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh.ee....hhh.eee.....eee......ee.......eehhhhhhhhhhh.....hhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhh........hhhhhhhhhhhh..............hhhhhhhhhhh..hhhhhhh............................................ Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4uj9 A   10 SEQESVKEFLAKAKEDFLKKWESPAQNTAHLDQFERIKTLGTGSFGRVMLVKHKETGNHYAMKILDKQKVVKLKQIEHTLNEKRILQAVNFPFLVKLEFSFKDNSNLYMVMEYVPGGEMFSHLRRIGRFSEPHARFYAAQIVLTFEYLHSLDLIYRDLKPENLLIDQQGYIQVTDFGFAKRVKGRTWLCGTPEYLAPEIILSKGYNKAVDWWALGVLIYEMAAGYPPFFADQPIQIYEKIVSGKVRFPSHFSSDLKDLLRNLLQVDLTKRFGNLKNGVNDIKNHKWFATTDWIAIYQRKVEAPFIPKFKGPGDTSNFDDYEEEEIRVsINEKCGKEFSEFt 1354
                                    19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189      |200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350|
                                                                                                                                                                                                                    196|                                                                                                                                         338-SEP     350|
                                                                                                                                                                                                                     198                                                                                                                                                     1354-TPO


Chain B from PDB  Type:PROTEIN  Length:20
                                                     
               SCOP domains -------------------- SCOP domains
               CATH domains -------------------- CATH domains
               Pfam domains -------------------- Pfam domains
         Sec.struct. author hhhhhhhhh........ee. Sec.struct. author
                 SAPs(SNPs) -------------------- SAPs(SNPs)
                    PROSITE -------------------- PROSITE
                 Transcript -------------------- Transcript
                4uj9 B    5 TTYADFIASGRTGRRNAIHD   24
                                    14        24
   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  (0, 0)

(no "SCOP Domain" information available for 4UJ9)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4UJ9)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4UJ9)

(-) Gene Ontology  (86, 89)

Asymmetric Unit(hide GO term definitions)

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  4uj9
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  IPKA_HUMAN | P61925
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/SwissProt
  KAPCA_HUMAN | P17612
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    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/SwissProt
 
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  2.7.11.11
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 Related Entries

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

UniProtKB/Swiss-Prot
        IPKA_HUMAN | P61925: 1cdk 1cmk 1ctp 1jlu 1q24 1q61 1q62 1q8t 1q8u 1q8w 1smh 1stc 1sve 1svg 1svh 1veb 1xh4 1xh5 1xh6 1xh7 1xh8 1xh9 1xha 1ydr 1yds 1ydt 2c1a 2c1b 2f7e 2gni 2jds 2jdt 2jdv 2l1l 2uvx 2uvy 2uvz 2uw0 2uw3 2uw4 2uw5 2uw6 2uw7 2uw8 2vnw 2vny 2vo0 2vo3 2vo6 2vo7 3ama 3amb 3l9l 3l9m 3l9n 3mvj 3nx8 3oog 3ovv 3owp 3oxt 3p0m 3poo 3vqh 3wyg 3x2u 3x2v 3x2w 4axa 4iac 4iad 4iaf 4iai 4iak 4iay 4iaz 4ib0 4ib1 4ib3 4ie9 4ij9 4o21 4o22 4uj1 4uj2 4uja 4ujb 4wb5 4wb6 4wb7 4wb8 4z83 4z84 5bx6 5bx7 5dh9
        KAPCA_HUMAN | P17612: 2gu8 3agl 3agm 3ama 3amb 3l9l 3l9m 3l9n 3mvj 3nx8 3oog 3ovv 3owp 3oxt 3p0m 3poo 3vqh 4ae6 4ae9 4uj1 4uj2 4uja 4ujb 4wb5 4wb6 4wb7 4wb8 5bx6 5bx7 5izf 5izj 5j5x

(-) Related Entries Specified in the PDB File

4uj1 PKA INHIBITOR COMPLEX
4uj2 PKA INHIBITOR COMPLEX
4uja PROTEIN KINASE A IN COMPLEX WITH AN INHIBITOR
4ujb PROTEIN KINASE A IN COMPLEX WITH AN INHIBITOR