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(-) Description

Title :  CRYSTAL STRUCTURE OF THE INTRACELLULAR DOMAIN OF THE M. TUBERCULOSIS SER/THR KINASE PKNA
 
Authors :  T. Wagner, A. Wehenkel, P. M. Alzari, M. Bellinzoni
Date :  28 Nov 14  (Deposition) - 21 Jan 15  (Release) - 22 Apr 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.90
Chains :  Asym. Unit :  A,B,C
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Keywords :  Kinase, Autoinhibition, Phosphorylation, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. Wagner, M. Alexandre, R. Duran, N. Barilone, A. Wehenkel, P. M. Alzari, M. Bellinzoni
The Crystal Structure Of The Catalytic Domain Of The Ser/Th Kinase Pkna From M. Tuberculosis Shows An Src-Like Autoinhibited Conformation.
Proteins V. 83 982 2015
PubMed-ID: 25586004  |  Reference-DOI: 10.1002/PROT.24754

(-) Compounds

Molecule 1 - SERINE/THREONINE-PROTEIN KINASE PKNA
    Chains: A
    EC Number: 2.7.11.1
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Taxid: 469008
    Gene: PKNA, RV0015C, MTCY10H4.15C
    Organism Scientific: MYCOBACTERIUM TUBERCULOSIS
    Organism Taxid: 83332
    Strain: ATCC 25618 / H37RV
 
Molecule 2 - SERINE/THREONINE-PROTEIN KINASE PKNA
    Chains: B
    EC Number: 2.7.11.1
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Taxid: 469008
    Gene: PKNA, RV0015C, MTCY10H4.15C
    Organism Scientific: MYCOBACTERIUM TUBERCULOSIS
    Organism Taxid: 83332
    Strain: ATCC 25618 / H37RV
 
Molecule 3 - SERINE/THREONINE-PROTEIN KINASE PKNA
    Chains: C
    EC Number: 2.7.11.1
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Taxid: 469008
    Gene: PKNA, RV0015C, MTCY10H4.15C
    Organism Scientific: MYCOBACTERIUM TUBERCULOSIS
    Organism Taxid: 83332
    Strain: ATCC 25618 / H37RV

 Structural Features

(-) Chains, Units

  123
Asymmetric Unit : ABC
Biological Unit 1 (1x): A  
Biological Unit 2 (1x):  B 
Biological Unit 3 (1x):   C

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 6)

Asymmetric Unit (2, 6)
No.NameCountTypeFull Name
1SEP1Mod. Amino AcidPHOSPHOSERINE
2TPO5Mod. Amino AcidPHOSPHOTHREONINE
Biological Unit 1 (2, 3)
No.NameCountTypeFull Name
1SEP1Mod. Amino AcidPHOSPHOSERINE
2TPO2Mod. Amino AcidPHOSPHOTHREONINE
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1SEP-1Mod. Amino AcidPHOSPHOSERINE
2TPO2Mod. Amino AcidPHOSPHOTHREONINE
Biological Unit 3 (1, 1)
No.NameCountTypeFull Name
1SEP-1Mod. Amino AcidPHOSPHOSERINE
2TPO1Mod. Amino AcidPHOSPHOTHREONINE

(-) Sites  (0, 0)

(no "Site" information available for 4X3F)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4X3F)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4X3F)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4X3F)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4X3F)

(-) Exons   (0, 0)

(no "Exon" information available for 4X3F)

(-) 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:277
                                                                                                                                                                                                                                                                                                                     
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....ee...eeeeeeeee...eeeeeeee.....eeeeeeehhhhhhhhhhhhhhhhhhhhhhh........eeeeeeeee...eeeeeeee.....eehhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh.......hhh.eee.....eee...hhhhhhh.......hhhhhhh...hhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhh..........hhhhhhhhhhhh..hhhhh..hhhhhhhhhhhhhhh............ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4x3f A   3 PRVGVTLSGRYRLQRLIATGGMGQVWEAVDNRLGRRVAVKVLKsEFSSDPEFIERFRAEARTTAMLNHPGIASVHDYGESQMNGEGRTAYLVMELVNGEPLNSVLKRTGRLSLRHALDMLEQTGRALQIAHAAGLVHRDVKPGNILITPtGQVKITDFGIAKAVDMGTAQYIAPEQALGHDASPASDVYSLGVVGYEAVSGKRPFAGDGALtVAMKHIKEPPPPLPPDLPPNVRELIEITLVKNPAMRYRSGGPFADAVAAVRAGRRPPRPSQTPPP 289
                                    12        22        32        42   |    52        62        72        82        92       102       112       122       132       142       152       162    || 182       192       202       212       222 |     232       242       252       262       272       282       
                                                                      46-SEP                                                                                                   152-TPO        167|                                           224-TPO                                                             
                                                                                                                                                                                               178                                                                                                               


Chain B from PDB  Type:PROTEIN  Length:280
                                                                                                                                                                                                                                                                                                                        
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........ee...eeeeeeeee...eeeeeeee.....eeeeeeehhhhhhhhhhhhhhhhhhhhhhh........eeeeeeeee...eeeeeeee.....eehhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh.......hhh.eee.....eee.........hhhhhh..hhhhhhh...hhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhh..........hhhhhhhhhhhh..hhhhh..hhhhhhhhhhhhhhh............ Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4x3f B   0 GMSPRVGVTLSGRYRLQRLIAtGGMGQVWEAVDNRLGRRVAVKVLKSEFSSDPEFIERFRAEARTTAMLNHPGIASVHDYGESQMNGEGRTAYLVMELVNGEPLNSVLKRTGRLSLRHALDMLEQTGRALQIAHAAGLVHRDVKPGNILITPTGQVKITDFGIAKGMVMGTAQYIAPEQALGHDASPASDVYSLGVVGYEAVSGKRPFAGDGALtVAMKHIKEPPPPLPPDLPPNVRELIEITLVKNPAMRYRSGGPFADAVAAVRAGRRPPRPSQTPPP 289
                                     9        19 |      29        39        49        59        69        79        89        99       109       119       129       139       149       159    || 179       189       199       209       219    |  229       239       249       259       269       279       289
                                                21-TPO                                                                                                                                        164|                                              224-TPO                                                             
                                                                                                                                                                                               175                                                                                                                  


Chain C from PDB  Type:PROTEIN  Length:274
                                                                                                                                                                                                                                                                                                                  
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......ee...eeeeeeeee...eeeeeeee.....eeeeeeehhhhhhhhhhhhhhhhhhhhhhh........eeeeeeee...eeeeeee.....eehhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh.......hhh.eee.....eee.......hhhhhh..hhhhhhh...hhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhh..........hhhhhhhhhhhh..hhhhh..hhhhhhhhhhhhhhh............ Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4x3f C   2 SPRVGVTLSGRYRLQRLIATGGMGQVWEAVDNRLGRRVAVKVLKSEFSSDPEFIERFRAEARTTAMLNHPGIASVHDYGESQMEGRTAYLVMELVNGEPLNSVLKRTGRLSLRHALDMLEQTGRALQIAHAAGLVHRDVKPGNILITPTGQVKITDFGIAMVMGTAQYIAPEQALGHDASPASDVYSLGVVGYEAVSGKRPFAGDGALtVAMKHIKEPPPPLPPDLPPNVRELIEITLVKNPAMRYRSGGPFADAVAAVRAGRRPPRPSQTPPP 289
                                    11        21        31        41        51        61        71        81  ||    93       103       113       123       133       143       153       163|      185       195       205       215       225       235       245       255       265       275       285    
                                                                                                             84|                                                                         163|                                             224-TPO                                                             
                                                                                                              87                                                                          176
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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 4X3F)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4X3F)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4X3F)

(-) Gene Ontology  (23, 23)

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        PKNA_MYCTU | P9WI83: 4ow8

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