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(-) Description

Title :  STRUCTURE OF A PEPTIDE-SUBSTRATE BOUND TO PKCIOTA CORE KINASE DOMAIN
 
Authors :  E. V. Soriano, A. G. Purkiss, N. Q. Mcdonald
Date :  14 Jul 16  (Deposition) - 14 Sep 16  (Release) - 14 Sep 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.25
Chains :  Asym. Unit :  A,B,F,G
Biol. Unit 1:  A,F  (1x)
Biol. Unit 2:  B,G  (1x)
Keywords :  Apkc, Polarity, Complex, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  E. V. Soriano, M. E. Ivanova, G. Fletcher, P. Riou, P. P. Knowles, K. Barnouin, A. Purkiss, B. Kostelecky, P. Saiu, M. Linch, A. Elbediwy S. Kjr, N. O'Reilly, A. P. Snijders, P. J. Parker, B. J. Thompson, N. Q. Mcdonald
Apkc Inhibition By Par3 Cr3 Flanking Regions Controls Substrate Access And Underpins Apical-Junctional Polarization.
Dev. Cell V. 38 384 2016
PubMed-ID: 27554858  |  Reference-DOI: 10.1016/J.DEVCEL.2016.07.018

(-) Compounds

Molecule 1 - PROTEIN KINASE C IOTA TYPE
    Chains: A, B
    EC Number: 2.7.11.13
    Engineered: YES
    Expression System: UNIDENTIFIED BACULOVIRUS
    Expression System Taxid: 10469
    Gene: PRKCI, DXS1179E
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: ATYPICAL PROTEIN KINASE C-LAMBDA/IOTA,APKC-LAMBDA/IOTA,NPKC- IOTA
 
Molecule 2 - PKC EPSILON PSEUDO SUBSTRATE SEQUENCE
    Chains: F, G
    Engineered: YES
    Expression System: SYNTHETIC CONSTRUCT
    Expression System Taxid: 32630
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABFG
Biological Unit 1 (1x): A F 
Biological Unit 2 (1x):  B G

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 17)

Asymmetric Unit (5, 17)
No.NameCountTypeFull Name
1ADP2Ligand/IonADENOSINE-5'-DIPHOSPHATE
2AF34Ligand/IonALUMINUM FLUORIDE
3MN5Ligand/IonMANGANESE (II) ION
4SCN2Ligand/IonTHIOCYANATE ION
5TPO4Mod. Amino AcidPHOSPHOTHREONINE
Biological Unit 1 (4, 6)
No.NameCountTypeFull Name
1ADP1Ligand/IonADENOSINE-5'-DIPHOSPHATE
2AF32Ligand/IonALUMINUM FLUORIDE
3MN-1Ligand/IonMANGANESE (II) ION
4SCN1Ligand/IonTHIOCYANATE ION
5TPO2Mod. Amino AcidPHOSPHOTHREONINE
Biological Unit 2 (4, 6)
No.NameCountTypeFull Name
1ADP1Ligand/IonADENOSINE-5'-DIPHOSPHATE
2AF32Ligand/IonALUMINUM FLUORIDE
3MN-1Ligand/IonMANGANESE (II) ION
4SCN1Ligand/IonTHIOCYANATE ION
5TPO2Mod. Amino AcidPHOSPHOTHREONINE

(-) Sites  (13, 13)

Asymmetric Unit (13, 13)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLY A:261 , GLY A:263 , SER A:264 , TYR A:265 , ALA A:266 , VAL A:268 , ALA A:281 , LYS A:283 , ILE A:332 , GLU A:333 , VAL A:335 , ASP A:339 , ASP A:382 , ASN A:383 , LEU A:385 , THR A:395 , ASP A:396 , PHE A:552 , MN A:603 , MN A:604 , AF3 A:605 , ARG F:8binding site for residue ADP A 601
02AC2SOFTWAREARG A:377 , GLY A:415 , THR A:416 , TYR A:419 , ILE A:420 , ALA A:421 , ILE A:424 , VAL A:434 , ALA A:438binding site for residue AF3 A 602
03AC3SOFTWAREASN A:383 , ASP A:396 , ADP A:601 , AF3 A:605binding site for residue MN A 603
04AC4SOFTWAREASP A:396 , ADP A:601 , AF3 A:605binding site for residue MN A 604
05AC5SOFTWARESER A:264 , LYS A:380 , ASN A:383 , ASP A:396 , ADP A:601 , MN A:603 , MN A:604 , GLY F:10 , SER F:11binding site for residue AF3 A 605
06AC6SOFTWAREGLU A:288 , PRO A:565binding site for residue SCN A 606
07AC7SOFTWAREHIS A:354 , HIS B:354binding site for residue MN A 607
08AC8SOFTWAREGLY B:263 , SER B:264 , TYR B:265 , ALA B:266 , VAL B:268 , LYS B:283 , ILE B:332 , GLU B:333 , VAL B:335 , ASP B:339 , ASP B:382 , ASN B:383 , LEU B:385 , THR B:395 , ASP B:396 , PHE B:552 , MN B:603 , MN B:604 , AF3 B:605 , ARG G:8binding site for residue ADP B 601
09AC9SOFTWAREARG B:377 , ASP B:378 , TYR B:419 , ILE B:424 , VAL B:434 , ASP B:435 , ALA B:438binding site for residue AF3 B 602
10AD1SOFTWARELYS B:380 , ASN B:383 , ASP B:396 , ADP B:601 , AF3 B:605binding site for residue MN B 603
11AD2SOFTWAREASP B:396 , ADP B:601 , AF3 B:605 , HOH B:705binding site for residue MN B 604
12AD3SOFTWAREGLY B:263 , SER B:264 , TYR B:265 , LYS B:380 , ASN B:383 , ASP B:396 , ADP B:601 , MN B:603 , MN B:604 , GLY G:10 , SER G:11binding site for residue AF3 B 605
13AD4SOFTWARELEU B:404binding site for residue SCN B 606

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5LIH)

(-) 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:326
                                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhh.eeeeeeeee...eeeeeeee.....eeeeeeee......hhhhhhhhhhh.......eeeeee...eeeeee........hhhhhh....hhhhhhhhhhhhhhhhhhhhh............eee.....eee...................ee.....hhhhhh.....hhhhhhhhhhhhhhhhhh........hhhhhhhhhhhh........hhhhhhhhhhhh.............hhhhhhhhhhhhh..hhhhhhh............hhhhhhhh.................hhhhhhhhhh....ee... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5lih A 248 SLGLQDFDLLRVIGRGSYAKVLLVRLKKTDRIYAMKVVKKELVWVQTEKHVFEQASNHPFLVGLHSCFQTESRLFFVIEYVNGGDLMFHMQRQRKLPEEHARFYSAEISLALNYLHERGIIYRDLKLDNVLLDSEGHIKLTDYGMCKEGLRPGDTTStFCGTPNYIAPEILRGEDYGFSVDWWALGVLMFEMMAGRSPFDIQNTEDYLFQVILEKQIRIPRSLSVKAASVLKSFLNKDPKERLGCHPQTGFADIQGHPFFRNVDWDMMEQKQVVPPFKPNISGEFGLDNFDSQFTNEPVQLtPDDDDIVRKIDQSEFEGFEYINPL 588
                                   257       267       277       287  ||   304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454||     472       482       492       502       512       522       532       542       552       562 |     572       582      
                                                                    290|                                                                                                               412-TPO                                    455|                                                                                                 564-TPO                    
                                                                     298                                                                                                                                                           464                                                                                                                            


Chain B from PDB  Type:PROTEIN  Length:320
                                                                                                                                                                                                                                                                                                                                                                
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhh.eeeeeeeee...eeeeeeee.....eeeeeeee.....hhhhhhhhhh.......eeeeee...eeeeee........hhhhhh....hhhhhhhhhhhhhhhhhhhhh........hhh.eee.....eee...................ee.....hhhhhh.....hhhhhhhhhhhhhhhhhh......hhhhhhhhhhh........hhhhhhhhhhhh.............hhhhhhhhhhhhhh.hhhhhhh............hhhhhhhh.................hhhhhhhhhh....ee... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5lih B 249 LGLQDFDLLRVIGRGSYAKVLLVRLKKTDRIYAMKVVKKELVQTEKHVFEQASNHPFLVGLHSCFQTESRLFFVIEYVNGGDLMFHMQRQRKLPEEHARFYSAEISLALNYLHERGIIYRDLKLDNVLLDSEGHIKLTDYGMCKEGLRPGDTTStFCGTPNYIAPEILRGEDYGFSVDWWALGVLMFEMMAGRSPFDTEDYLFQVILEKQIRIPRSLSVKAASVLKSFLNKDPKERLGCHPQTGFADIQGHPFFRNVDWDMMEQKQVVPPFKPNISGEFGLDNFDSQFTNEPVQLtPDDDDIVRKIDQSEFEGFEYINPL 588
                                   258       268       278       288 ||    307       317       327       337       347       357       367       377       387       397       407    |  417       427       437       447      |468       478       488       498       508       518       528       538       548       558     | 568       578       588
                                                                   290|                                                                                                             412-TPO                                   454|                                                                                               564-TPO                    
                                                                    300                                                                                                                                                        466                                                                                                                          


Chain F from PDB  Type:PROTEIN  Length:13
                                             
               SCOP domains ------------- SCOP domains
               CATH domains ------------- CATH domains
               Pfam domains ------------- Pfam domains
         Sec.struct. author ..........ee. Sec.struct. author
                 SAPs(SNPs) ------------- SAPs(SNPs)
                    PROSITE ------------- PROSITE
                 Transcript ------------- Transcript
                 5lih F   2 RMRPFKRQGSVRR  14
                                    11   


Chain G from PDB  Type:PROTEIN  Length:10
                                          
               SCOP domains ---------- SCOP domains
               CATH domains ---------- CATH domains
               Pfam domains ---------- Pfam domains
         Sec.struct. author .......ee. Sec.struct. author
                 SAPs(SNPs) ---------- SAPs(SNPs)
                    PROSITE ---------- PROSITE
                 Transcript ---------- Transcript
                 5lih G   5 PFKRQGSVRR  14
                                    14
   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 5LIH)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (109, 127)

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 Related Entries

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        KPCE_HUMAN | Q02156: 2wh0
        KPCI_HUMAN | P41743: 1vd2 1wmh 1zrz 3a8w 3a8x 3zh8 5li1 5li9

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