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(-) Description

Title :  NMR STRUCTURE OF THE THKAIA180C-CIIABD COMPLEX (25-STRUCTURE ENSEMBLE)
 
Authors :  I. Vakonakis, A. C. Liwang
Date :  26 Mar 04  (Deposition) - 03 Aug 04  (Release) - 13 Jul 11  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A,B,C,D  (25x)
NMR Structure *:  A,B,C,D  (1x)
Keywords :  X-Class Four Helix Bundle, Protein-Peptide Complex, Circadian Clock Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  I. Vakonakis, A. C. Liwang
Structure Of The C-Terminal Domain Of The Clock Protein Kai In Complex With A Kaic-Derived Peptide: Implications For Kaic Regulation.
Proc. Natl. Acad. Sci. Usa V. 101 10925 2004
PubMed-ID: 15256595  |  Reference-DOI: 10.1073/PNAS.0403037101

(-) Compounds

Molecule 1 - CIRCADIAN CLOCK PROTEIN KAIA
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET32A+
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: C-TERMINAL RESIDUES 180-283
    Gene: KAIA
    Organism Scientific: THERMOSYNECHOCOCCUS ELONGATUS
    Organism Taxid: 197221
    Strain: BP-1
    Synonym: THKAIA180C
 
Molecule 2 - CIRCADIAN CLOCK PROTEIN KAIC
    Chains: C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET32A+
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: C-TERMINAL RESIDUES 488-518
    Gene: KAIC
    Organism Scientific: THERMOSYNECHOCOCCUS ELONGATUS
    Organism Taxid: 197221
    Strain: BP-1
    Synonym: CIIABD

 Structural Features

(-) Chains, Units

  1234
NMR Structure (25x): ABCD
NMR Structure * (1x): ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1SV1)

(-) Sites  (0, 0)

(no "Site" information available for 1SV1)

(-) SS Bonds  (1, 1)

NMR Structure
No.Residues
1A:96 -B:296

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1SV1)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1SV1)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1SV1)

(-) Exons   (0, 0)

(no "Exon" information available for 1SV1)

(-) Sequences/Alignments

NMR Structure
   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:107
 aligned with KAIA_THEEB | Q79V62 from UniProtKB/Swiss-Prot  Length:283

    Alignment length:107
                                   186       196       206       216       226       236       246       256       266       276       
           KAIA_THEEB   177 FFRRMSPADKRKLLDELRSIYRTIVLEYFNTDAKVNERIDEFVSKAFFADISVSQVLEIHVELMDTFSKQLKLEGRSEDILLDYRLTLIDVIAHLCEMYRRSIPREV 283
               SCOP domains d1sv1a_ A: Circadian clock protein KaiA, C-terminal domain                                                  SCOP domains
               CATH domains 1sv1A00 A:1-107 KaiA/RbsU domain                                                                            CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------- Transcript
                 1sv1 A   1 AMARMSPADKRKLLDELRSIYRTIVLEYFNTDAKVNERIDEFVSKAFFADISVSQVLEIHVELMDTFSKQLKLEGRSEDILLDYRLTLIDVIAHLCEMYRRSIPREV 107
                                    10        20        30        40        50        60        70        80        90       100       


Chain B from PDB  Type:PROTEIN  Length:107
 aligned with KAIA_THEEB | Q79V62 from UniProtKB/Swiss-Prot  Length:283

    Alignment length:107
                                   186       196       206       216       226       236       246       256       266       276       
           KAIA_THEEB   177 FFRRMSPADKRKLLDELRSIYRTIVLEYFNTDAKVNERIDEFVSKAFFADISVSQVLEIHVELMDTFSKQLKLEGRSEDILLDYRLTLIDVIAHLCEMYRRSIPREV 283
               SCOP domains d1sv1b_ B: Circadian clock protein KaiA, C-terminal domain                                                  SCOP domains
               CATH domains 1sv1B00 B:201-307 KaiA/RbsU domain                                                                          CATH domains
           Pfam domains (1) ---KaiA-1sv1B01 B:204-306                                                                                 - Pfam domains (1)
           Pfam domains (2) ---KaiA-1sv1B02 B:204-306                                                                                 - Pfam domains (2)
         Sec.struct. author .....hhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------- Transcript
                 1sv1 B 201 AMARMSPADKRKLLDELRSIYRTIVLEYFNTDAKVNERIDEFVSKAFFADISVSQVLEIHVELMDTFSKQLKLEGRSEDILLDYRLTLIDVIAHLCEMYRRSIPREV 307
                                   210       220       230       240       250       260       270       280       290       300       


Chain C from PDB  Type:PROTEIN  Length:34
 aligned with KAIC_THEEB | Q79V60 from UniProtKB/Swiss-Prot  Length:518

    Alignment length:34
                                   494       504       514    
           KAIC_THEEB   485 NFEGIISGTPTRISVDEKTELARIAKGMQDLESE 518
               SCOP domains ---------------------------------- SCOP domains
               CATH domains ---------------------------------- CATH domains
               Pfam domains ---------------------------------- Pfam domains
         Sec.struct. author ..........................hhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------- PROSITE
                 Transcript ---------------------------------- Transcript
                 1sv1 C 401 AMAGIISGTPTRISVDEKTELARIAKGMQDLESE 434
                                   410       420       430    


Chain D from PDB  Type:PROTEIN  Length:34
 aligned with KAIC_THEEB | Q79V60 from UniProtKB/Swiss-Prot  Length:518

    Alignment length:34
                                   494       504       514    
           KAIC_THEEB   485 NFEGIISGTPTRISVDEKTELARIAKGMQDLESE 518
               SCOP domains ---------------------------------- SCOP domains
               CATH domains ---------------------------------- CATH domains
               Pfam domains ---------------------------------- Pfam domains
         Sec.struct. author ..........................hhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------- PROSITE
                 Transcript ---------------------------------- Transcript
                 1sv1 D 501 AMAGIISGTPTRISVDEKTELARIAKGMQDLESE 534
                                   510       520       530
   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  (1, 2)

NMR Structure
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (1, 2)

NMR Structure
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (1, 2)

NMR Structure
(-)
Clan: no clan defined [family: KaiA] (7)

(-) Gene Ontology  (19, 23)

NMR Structure(hide GO term definitions)
Chain A,B   (KAIA_THEEB | Q79V62)
molecular function
    GO:0042802    identical protein binding    Interacting selectively and non-covalently with an identical protein or proteins.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
biological process
    GO:0007623    circadian rhythm    Any biological process in an organism that recurs with a regularity of approximately 24 hours.
    GO:0006468    protein phosphorylation    The process of introducing a phosphate group on to a protein.
    GO:0048511    rhythmic process    Any process pertinent to the generation and maintenance of rhythms in the physiology of an organism.

Chain C,D   (KAIC_THEEB | Q79V60)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0042802    identical protein binding    Interacting selectively and non-covalently with an identical protein or proteins.
    GO:0016301    kinase activity    Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule.
    GO:0000287    magnesium ion binding    Interacting selectively and non-covalently with magnesium (Mg) ions.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
    GO:0004674    protein serine/threonine kinase activity    Catalysis of the reactions: ATP + protein serine = ADP + protein serine phosphate, and ATP + protein threonine = ADP + protein threonine phosphate.
    GO:0004712    protein serine/threonine/tyrosine kinase activity    Catalysis of the reactions: ATP + a protein serine = ADP + protein serine phosphate; ATP + a protein threonine = ADP + protein threonine phosphate; and ATP + a protein tyrosine = ADP + protein tyrosine phosphate.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
biological process
    GO:0007623    circadian rhythm    Any biological process in an organism that recurs with a regularity of approximately 24 hours.
    GO:0016310    phosphorylation    The process of introducing a phosphate group into a molecule, usually with the formation of a phosphoric ester, a phosphoric anhydride or a phosphoric amide.
    GO:0046777    protein autophosphorylation    The phosphorylation by a protein of one or more of its own amino acid residues (cis-autophosphorylation), or residues on an identical protein (trans-autophosphorylation).
    GO:0042752    regulation of circadian rhythm    Any process that modulates the frequency, rate or extent of a circadian rhythm. A circadian rhythm is a biological process in an organism that recurs with a regularity of approximately 24 hours.
    GO:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0048511    rhythmic process    Any process pertinent to the generation and maintenance of rhythms in the physiology of an organism.
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.

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 Related Entries

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

UniProtKB/Swiss-Prot
        KAIA_THEEB | Q79V62: 1q6a 1q6b 1suy 1v2z 5jwr
        KAIC_THEEB | Q79V60: 1suy 4o0m 5jwo 5jwq 5jwr

(-) Related Entries Specified in the PDB File

1q6b 25-STRUCTURE ENSEMBLE OF FREE THKAIA180C
1suy NMR STRUCTURE OF THE THKAIA180C-CIIABD COMPLEX (AVERAGE MINIMIZED STRUCTURE)