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(-) Description

Title :  CRYSTAL STRUCTURE OF WNK3 KINASE DOMAIN IN A DIPHOSPHORYLATED STATE AND IN COMPLEX WITH AMP-PNP/MG2+
 
Authors :  D. M. Pinkas, J. C. Bufton, J. A. Newman, J. Kopec, O. Borkowska, R. Chalk N. A. Burgess-Brown, F. Von Delft, C. H. Arrowsmith, A. M. Edwards, C. A. Bullock
Date :  19 May 17  (Deposition) - 28 Jun 17  (Release) - 28 Jun 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.38
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Wnk3, Structural Genomics (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  D. M. Pinkas, G. M. Daubner, J. C. Bufton, S. G. Bartual, C. E. Sanvitale D. R. Alessi, A. Bullock
Crystal Structure Of Wnk3 Kinase Domain In A Diphosphorylated State And In Complex With Amp-Pnp/Mg2+
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - SERINE/THREONINE-PROTEIN KINASE WNK3
    ChainsA, B
    EC Number2.7.11.1
    EngineeredYES
    Expression SystemSPODOPTERA FRUGIPERDA
    Expression System CommonFALL ARMYWORM
    Expression System Taxid7108
    FragmentUNP RESIDUES 132-414
    GeneWNK3, KIAA1566, PRKWNK3
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymPROTEIN KINASE LYSINE-DEFICIENT 3,PROTEIN KINASE WITH NO LYSINE 3

 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, 11)

Asymmetric Unit (4, 11)
No.NameCountTypeFull Name
1ANP2Ligand/IonPHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
2EDO1Ligand/Ion1,2-ETHANEDIOL
3MG4Ligand/IonMAGNESIUM ION
4SEP4Mod. Amino AcidPHOSPHOSERINE
Biological Unit 1 (3, 4)
No.NameCountTypeFull Name
1ANP1Ligand/IonPHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
2EDO1Ligand/Ion1,2-ETHANEDIOL
3MG-1Ligand/IonMAGNESIUM ION
4SEP2Mod. Amino AcidPHOSPHOSERINE
Biological Unit 2 (2, 3)
No.NameCountTypeFull Name
1ANP1Ligand/IonPHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
2EDO-1Ligand/Ion1,2-ETHANEDIOL
3MG-1Ligand/IonMAGNESIUM ION
4SEP2Mod. Amino AcidPHOSPHOSERINE

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:156 , ALA A:157 , PHE A:158 , LYS A:159 , VAL A:161 , GLU A:228 , MET A:230 , ASP A:275 , LYS A:277 , ASP A:279 , ASN A:280 , ASP A:294 , MG A:502 , MG A:503 , HOH A:613 , HOH A:614 , HOH A:615 , HOH A:620 , HOH A:621 , HOH A:645binding site for residue ANP A 501
2AC2SOFTWAREASN A:280 , ASP A:294 , ANP A:501 , HOH A:615 , HOH A:645binding site for residue MG A 502
3AC3SOFTWAREANP A:501binding site for residue MG A 503
4AC4SOFTWARESER A:143 , ARG A:145 , GLU A:168 , ARG A:412 , GLU A:414binding site for residue EDO A 504
5AC5SOFTWAREGLY B:156 , ALA B:157 , PHE B:158 , LYS B:159 , VAL B:161 , GLU B:228 , LEU B:229 , MET B:230 , ASP B:275 , LYS B:277 , ASP B:279 , ASN B:280 , PHE B:282 , ASP B:294 , MG B:502 , MG B:503 , HOH B:602 , HOH B:608 , HOH B:622 , HOH B:629 , HOH B:645 , HOH B:653binding site for residue ANP B 501
6AC6SOFTWAREASP B:279 , ASN B:280 , ASP B:294 , ANP B:501 , HOH B:602 , HOH B:629binding site for residue MG B 502
7AC7SOFTWARELYS B:277 , ANP B:501binding site for residue MG B 503
8AC8SOFTWAREGLN A:356 , ARG A:359 , HOH A:630 , ARG B:274 , ALA B:306 , VAL B:309 , ILE B:310 , GLU B:323 , TYR B:325 , HOH B:637binding site for Di-peptide LYS B 307 and SEP B 308
9AC9SOFTWAREGLN A:356 , ARG A:359 , HOH A:630 , ARG B:274 , LYS B:307 , ILE B:310 , MET B:320 , GLU B:323 , TYR B:325 , HOH B:637binding site for Di-peptide SEP B 308 and VAL B 309

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5O26)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Thr A:268 -Pro A:269
2Gly A:285 -Pro A:286
3Thr B:268 -Pro B:269
4Gly B:285 -Pro B:286

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5O26)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5O26)

(-) Exons   (0, 0)

(no "Exon" information available for 5O26)

(-) 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:273
                                                                                                                                                                                                                                                                                                                 
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....ee.....eeeeeeeeee...eeeeeeee.....eeeeeeee..hhhhhhhhhhhhhhh.........eeeeeee..eeeeeee.....hhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhh....ee........eeee....eeee.hhhhhee...........hhhhhhhhhh.....hhhhhhhhhhhhhhhhhh........hhhhhhhhhhh...hhhhhhh.hhhhhhhhhhhh..hhhhh.hhhhhhh.hhhhh....... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5o26 A 135 MKAVATSPSGRFLKFDIELGRGAFKTVYKGLDTETWVEVAWCELQDTKAEQQRFKEEAEMLKGLQHPNIVRFYDSWESIKCIVLVTELMTSGTLKTYLKRFKVMKPKVLRSWCRQILKGLQFLHTRTPPIIHRDLKCDNIFITGPTGSVKIGDLGLATLMRTsFAKsVIGTPEFMAPEMYEEHYDESVDVYAFGMCMLEMATSEYPYSECQNAAQIYRKVTSGIKPASFNKVTDPEVKEIIEGCIRQNKSERLSIRDLLNHAFFAEDTGLRVE 414
                                   144       154       164       174     ||187       197       207       221       231       241       251       261       271       281       291       301  |   |311       321       331       341       351       361       371       381       391       401       411   
                                                                       180|                             216|                                                                                304-SEP                                                                                                          
                                                                        184                              221                                                                                    308-SEP                                                                                                      

Chain B from PDB  Type:PROTEIN  Length:267
                                                                                                                                                                                                                                                                                                           
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee.....eeeeeeeeee...eeeeeeee....eeeeeeee...hhhhhhhhhhhhh........eeeeee...eeeeee.....hhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhh....ee........eee......eee.hhhhhee...........hhhhhhhhhh.....hhhhhhhhhhhhhhhhhh........hhhhhhhhhhh...hhhhhhh.hhhhhhhhhhhh........hhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5o26 B 136 KAVATSPSGRFLKFDIELGRGAFKTVYKGLDTETWVEVAWCELQDEQQRFKEEAEMLKGLQHPNIVRFYDSWESKCIVLVTELMTSGTLKTYLKRFKVMKPKVLRSWCRQILKGLQFLHTRTPPIIHRDLKCDNIFITGPTGSVKIGDLGLATLMRTsFAKsVIGTPEFMAPEMYEEHYDESVDVYAFGMCMLEMATSEYPYSECQNAAQIYRKVTSGIKPASFNKVTDPEVKEIIEGCIRQNKSERLSIRDLLNHAFFAEDTGLRV 413
                                   145       155       165       175    || 191       201       211   ||  226       236       246       256       266       276       286       296       306 |     316       326       336       346       356       366       376       386       396       406       
                                                                      180|                         215|                                                                                304-SEP                                                                                                         
                                                                       187                          221                                                                                    308-SEP                                                                                                     

   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 5O26)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5O26)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5O26)

(-) Gene Ontology  (27, 27)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        WNK3_HUMAN | Q9BYP75nkp 5o1v 5o21 5o23 5o2b 5o2c

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