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(-) Description

Title :  CRYSTAL STRUCTURE OF G PROTEIN-COUPLED RECEPTOR KINASE 2 IN COMPLEX WITH A A RATIONALLY DESIGNED PAROXETINE DERIVATIVE
 
Authors :  K. T. Homan, J. J. G. Tesmer
Date :  04 Sep 13  (Deposition) - 22 Jan 14  (Release) - 22 Jan 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.40
Chains :  Asym./Biol. Unit :  A,B,G
Keywords :  Inhibitor Complex, Protein Kinase, Hydrolase, Atp Binding, Phosphorylation, Peripheral Membrane Protein, Signaling Protein- Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. T. Homan, E. Wu, M. W. Wilson, P. Singh, S. D. Larsen, J. J. Tesmer
Structural And Functional Analysis Of G Protein-Coupled Receptor Kinase Inhibition By Paroxetine And A Rationally Designed Analog.
Mol. Pharmacol. V. 85 237 2014
PubMed-ID: 24220010  |  Reference-DOI: 10.1124/MOL.113.089631

(-) Compounds

Molecule 1 - BETA-ADRENERGIC RECEPTOR KINASE 1
    Chains: A
    EC Number: 2.7.11.15
    Engineered: YES
    Expression System: TRICHOPLUSIA NI
    Expression System Taxid: 7111
    Fragment: UNP RESIDUES 30-668
    Gene: ADRBK1, BARK, BARK1, GRK2
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: BETA-ARK-1, G-PROTEIN COUPLED RECEPTOR KINASE 2
 
Molecule 2 - GUANINE NUCLEOTIDE-BINDING PROTEIN G(I)/G(S)/G(T) SUBUNIT BETA-1
    Chains: B
    Engineered: YES
    Expression System: TRICHOPLUSIA NI
    Expression System Taxid: 7111
    Gene: GNB1
    Organism Common: COW
    Organism Scientific: BOS TAURUS
    Organism Taxid: 9913
    Synonym: TRANSDUCIN BETA CHAIN 1
 
Molecule 3 - GUANINE NUCLEOTIDE-BINDING PROTEIN G(I)/G(S)/G(O) SUBUNIT GAMMA-2
    Chains: G
    Engineered: YES
    Expression System: TRICHOPLUSIA NI
    Expression System Taxid: 7111
    Gene: GNG2
    Organism Common: COW
    Organism Scientific: BOS TAURUS
    Organism Taxid: 9913
    Synonym: G GAMMA-I

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABG

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name
129X1Ligand/Ion5-{[(3S,4R)-4-(4-FLUOROPHENYL)PIPERIDIN-3-YL]METHOXY}-1H-ISOINDOL-1-ONE
2GOL1Ligand/IonGLYCEROL

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:653 , HOH A:806BINDING SITE FOR RESIDUE GOL A 701
2AC2SOFTWAREILE A:197 , ARG A:199 , GLY A:200 , GLY A:203 , GLU A:204 , VAL A:205 , ALA A:218 , LYS A:220 , LEU A:222 , VAL A:255 , ASP A:272 , LEU A:273 , MET A:274 , ALA A:321 , LEU A:324 , SER A:334 , ASP A:335 , ALA A:480BINDING SITE FOR RESIDUE 29X A 702

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4MK0)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4MK0)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4MK0)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4MK0)

(-) Exons   (0, 0)

(no "Exon" information available for 4MK0)

(-) 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:631
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhh.eeeeeeeee...eeeeeeee....eeeeeeeeehhhhhhhhhhhhhhhhhhhhhhhh.........eeeeeee..eeeeee......hhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh.ee........eee.....eee......ee................hhhhhh......hhhhhhhhhhhhhhhhhh....hhhhh.hhhhhhhhhhh.........hhhhhhhhhhhh.............hhhhhhhhhhhh..hhhhhhh..........................hhhhhhhhh...eehhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh............eeeeeeee.hhhhh.eeeeeeeee..eeeee.......eeee...eeeeeeee....eeeeeee....eeeee..hhhhhhhhhhhhhhhhhhhhhhhh.......... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4mk0 A  30 KKILLPEPSIRSVMQKYLEDRGEVTFEKIFSQKLGYLLFRDFCLNHLEEARPLVEFYEEIKKYEKLETEEERVARSREIFDSYIMKELLACSHPFSKSATEHVQGHLGKKQVPPDLFQPYIEEICQNLRGDVFQKFIESDKFTRFCQWKNVELNIHLTMNDFSVHRIIGRGGFGEVYGCRKADTGKMYAMKCLDKKRIKMKQGETLALNERIMLSLVSTGDCPFIVCMSYAFHTPDKLSFILDLMNGGDLHYHLSQHGVFSEADMRFYAAEIILGLEHMHNRFVVYRDLKPANILLDEHGHVRISDLGLACDFSKKKPHASVGTHGYMAPEVLQKGVAYDSSADWFSLGCMLFKLLRGHSPFRQHKTKDKHEIDRMTLTMAVELPDSFSPELRSLLEGLLQRDVNRRLGCLGRGAQEVKESPFFRSLDWQMVFLQKYPPPLIPPRGEVNAADAFTKGIKLLDSDQELYRNFPLTISERWQQEVAETVFDTINAETDRLEARKKAKNKQLGHEEDYALGKDCIMHGYMSKMGNPFLTQWQRRYFYLFPNRLEWRGEGEAPQSLLTMEEIQSVEETQIKERKCLLLKIRGGKQFILQCDSDPELVQWKKELRDAYREAQQLVQRVPKMKNKPA 669
                                    39        49        59        69        79        89        99       109       119       129       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       389       399       409       419       429       439       449       459       469       479   ||  498       508       518       528       538       548       558       568       578       588       598       608       618       628       638       648       658       668 
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               483|                                                                                                                                                                                
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                493                                                                                                                                                                                


Chain B from PDB  Type:PROTEIN  Length:339
                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhh........eeeeee......eeeeee.....eeeeee...eeeeee.....eeeeee.....eeeeee.....eeeeee...eeeeee........eeeeeee.....eeeeeeee..eeeeee...eeeeee....eeeeeee.....eeeeee.....eeeeee...eeeeee....eeeeeee.....eeeeee.....eeeeee....eeeee....eeeeee........eeeeee.....eeeeee...eeeeee.....eeeeee.....eeeeee......eeeee....eeeee Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4mk0 B   2 SELDQLRQEAEQLKNQIRDARKACADATLSQITNNIDPVGRIQMRTRRTLRGHLAKIYAMHWGTDSRLLVSASQDGKLIIWDSYTTNKVHAIPLRSSWVMTCAYAPSGNYVACGGLDNICSIYNLKTREGNVRVSRELAGHTGYLSCCRFLDDNQIVTSSGDTTCALWDIETGQQTTTFTGHTGDVMSLSLAPDTRLFVSGACDASAKLWDVREGMCRQTFTGHESDINAICFFPNGNAFATGSDDATCRLFDLRADQELMTYSHDNIICGITSVSFSKSGRLLLAGYDDFNCNVWDALKADRAGVLAGHDNRVSCLGVTDDGMAVATGSWDSFLKIWN 340
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331         


Chain G from PDB  Type:PROTEIN  Length:59
                                                                                           
               SCOP domains ----------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhh................ Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------- Transcript
                 4mk0 G   6 TASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENPFREK  64
                                    15        25        35        45        55
   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 4MK0)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4MK0)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4MK0)

(-) Gene Ontology  (55, 71)

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
        ARBK1_HUMAN | P25098: 1bak 3cik 3krw 3krx 3v5w 4pnk 5he1 5ukk 5ukl
        GBB1_BOVIN | P62871: 1a0r 1b9x 1b9y 1gg2 1got 1gp2 1omw 1tbg 1xhm 2bcj 2trc 3ah8 3cik 3krw 3krx 3psc 3pvu 3pvw 3uzs 3v5w 5kdo
        GBG2_BOVIN | P63212: 1gg2 1gp2 1omw 1xhm 2bcj 3ah8 3cik 3krw 3krx 3psc 3pvu 3pvw 3sn6 3uzs 3v5w 4pnk 5tdh 5vai

(-) Related Entries Specified in the PDB File

1omw 3v5w 4l9i