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(-) Description

Title :  WILD TYPE CRYSTAL STRUCTURE OF FULL LENGTH CIRCADIAN CLOCK PROTEIN KAIB FROM THERMOSYNECHOCOCCUS ELONGATUS BP-1
 
Authors :  R. Pattanayek, M. Egli, S. Pattanayek
Date :  10 Jul 07  (Deposition) - 17 Jun 08  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.70
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  A (1x),B (1x),E (1x),F (1x)
Biol. Unit 2:  C,D  (2x)
Biol. Unit 3:  A,B  (1x)
Biol. Unit 4:  C,D  (1x)
Biol. Unit 5:  E,F  (1x)
Keywords :  Cyanobacterial Circadian Clock Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. Pattanayek, D. R. Williams, S. Pattanayek, T. Mori, C. H. Johnson, P. L. Stewart, M. Egli
Structural Model Of The Circadian Clock Kaib-Kaic Complex And Mechanism For Modulation Of Kaic Phosphorylation.
Embo J. V. 27 1767 2008
PubMed-ID: 18497745  |  Reference-DOI: 10.1038/EMBOJ.2008.104
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - CIRCADIAN CLOCK PROTEIN KAIB
    Chains: A, B, C, D, E, F
    Organism Scientific: SYNECHOCOCCUS ELONGATUS
    Strain: BP-1

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABCDEF
Biological Unit 1 (1x): A (1x)B (1x)  E (1x)F (1x)
Biological Unit 2 (2x):   CD  
Biological Unit 3 (1x): AB    
Biological Unit 4 (1x):   CD  
Biological Unit 5 (1x):     EF

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 2QKE)

(-) Sites  (0, 0)

(no "Site" information available for 2QKE)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2QKE)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2QKE)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2QKE)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2QKE)

(-) Exons   (0, 0)

(no "Exon" information available for 2QKE)

(-) 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:98
 aligned with KAIB_THEEB | Q79V61 from UniProtKB/Swiss-Prot  Length:108

    Alignment length:98
                                    10        20        30        40        50        60        70        80        90        
           KAIB_THEEB     1 MAPLRKTYVLKLYVAGNTPNSVRALKTLNNILEKEFKGVYALKVIDVLKNPQLAEEDKILATPTLAKVLPPPVRRIIGDLSNREKVLIGLDLLYEEIG  98
               SCOP domains d2qkea_ A: automated matches                                                                       SCOP domains
               CATH domains 2qkeA00 A:1-98 Glutaredoxin                                                                        CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeeeeee...hhhhhhhhhhhhhhhhhh....eeeeeee...........eeehhhhhhh..hhhhhhhhhhh......eeeeeeeee... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------- Transcript
                 2qke A   1 MAPLRKTYVLKLYVAGNTPNSVRALKTLNNILEKEFKGVYALKVIDVLKNPQLAEEDKILATPTLAKVLPPPVRRIIGDLSNREKVLIGLDLLYEEIG  98
                                    10        20        30        40        50        60        70        80        90        


Chain B from PDB  Type:PROTEIN  Length:108
 aligned with KAIB_THEEB | Q79V61 from UniProtKB/Swiss-Prot  Length:108

    Alignment length:108
                                    10        20        30        40        50        60        70        80        90       100        
           KAIB_THEEB     1 MAPLRKTYVLKLYVAGNTPNSVRALKTLNNILEKEFKGVYALKVIDVLKNPQLAEEDKILATPTLAKVLPPPVRRIIGDLSNREKVLIGLDLLYEEIGDQAEDDLGLE 108
               SCOP domains d2qkeb_ B: automated matches                                                                                 SCOP domains
               CATH domains 2qkeB00 B:1-108 Glutaredoxin                                                                                 CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ......eeeeeeee.....hhhhhhhhhhhhhhhhh...eeeeeee...........eeehhhhhhh..hhhhhhhhhhhhhh...eeeeeeeee............. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------ Transcript
                 2qke B   1 MAPLRKTYVLKLYVAGNTPNSVRALKTLNNILEKEFKGVYALKVIDVLKNPQLAEEDKILATPTLAKVLPPPVRRIIGDLSNREKVLIGLDLLYEEIGDQAEDDLGLE 108
                                    10        20        30        40        50        60        70        80        90       100        


Chain C from PDB  Type:PROTEIN  Length:98
 aligned with KAIB_THEEB | Q79V61 from UniProtKB/Swiss-Prot  Length:108

    Alignment length:98
                                    14        24        34        44        54        64        74        84        94        
           KAIB_THEEB     5 RKTYVLKLYVAGNTPNSVRALKTLNNILEKEFKGVYALKVIDVLKNPQLAEEDKILATPTLAKVLPPPVRRIIGDLSNREKVLIGLDLLYEEIGDQAE 102
               SCOP domains d2qkec_ C: automated matches                                                                       SCOP domains
               CATH domains 2qkeC00 C:5-102 Glutaredoxin                                                                       CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeee...hhhhhhhhhhhhhhhhhhh...eeeeeee...........ee..hhhhhh..hhhhhhhhhhhhhh...eeeeee.......... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------- Transcript
                 2qke C   5 RKTYVLKLYVAGNTPNSVRALKTLNNILEKEFKGVYALKVIDVLKNPQLAEEDKILATPTLAKVLPPPVRRIIGDLSNREKVLIGLDLLYEEIGDQAE 102
                                    14        24        34        44        54        64        74        84        94        


Chain D from PDB  Type:PROTEIN  Length:107
 aligned with KAIB_THEEB | Q79V61 from UniProtKB/Swiss-Prot  Length:108

    Alignment length:107
                                    11        21        31        41        51        61        71        81        91       101       
           KAIB_THEEB     2 APLRKTYVLKLYVAGNTPNSVRALKTLNNILEKEFKGVYALKVIDVLKNPQLAEEDKILATPTLAKVLPPPVRRIIGDLSNREKVLIGLDLLYEEIGDQAEDDLGLE 108
               SCOP domains d2qked_ D: automated matches                                                                                SCOP domains
               CATH domains 2qkeD00 D:2-108 Glutaredoxin                                                                                CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeeeee.....hhhhhhhhhhhhhhhh......eeeee............eehhhhhhh..hhhhhhhhhhhhhh...eeeeeeeee............. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------- Transcript
                 2qke D   2 APLRKTYVLKLYVAGNTPNSVRALKTLNNILEKEFKGVYALKVIDVLKNPQLAEEDKILATPTLAKVLPPPVRRIIGDLSNREKVLIGLDLLYEEIGDQAEDDLGLE 108
                                    11        21        31        41        51        61        71        81        91       101       


Chain E from PDB  Type:PROTEIN  Length:104
 aligned with KAIB_THEEB | Q79V61 from UniProtKB/Swiss-Prot  Length:108

    Alignment length:104
                                    14        24        34        44        54        64        74        84        94       104    
           KAIB_THEEB     5 RKTYVLKLYVAGNTPNSVRALKTLNNILEKEFKGVYALKVIDVLKNPQLAEEDKILATPTLAKVLPPPVRRIIGDLSNREKVLIGLDLLYEEIGDQAEDDLGLE 108
               SCOP domains d2qkee_ E: automated matches                                                                             SCOP domains
               CATH domains 2qkeE00 E:5-108 Glutaredoxin                                                                             CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeee.....hhhhhhhhhhhhhhhhh......eeee...........eeehhhhhhh....hhhhhhhhhhhh...eeeeeeeee............. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------- Transcript
                 2qke E   5 RKTYVLKLYVAGNTPNSVRALKTLNNILEKEFKGVYALKVIDVLKNPQLAEEDKILATPTLAKVLPPPVRRIIGDLSNREKVLIGLDLLYEEIGDQAEDDLGLE 108
                                    14        24        34        44        54        64        74        84        94       104    


Chain F from PDB  Type:PROTEIN  Length:100
 aligned with KAIB_THEEB | Q79V61 from UniProtKB/Swiss-Prot  Length:108

    Alignment length:100
                                    11        21        31        41        51        61        71        81        91       101
           KAIB_THEEB     2 APLRKTYVLKLYVAGNTPNSVRALKTLNNILEKEFKGVYALKVIDVLKNPQLAEEDKILATPTLAKVLPPPVRRIIGDLSNREKVLIGLDLLYEEIGDQA 101
               SCOP domains d2qkef_ F: automated matches                                                                         SCOP domains
               CATH domains 2qkeF00 F:2-101 Glutaredoxin                                                                         CATH domains
           Pfam domains (1) ---------KaiB-2qkeF01 F:11-92                                                              --------- Pfam domains (1)
           Pfam domains (2) ---------KaiB-2qkeF02 F:11-92                                                              --------- Pfam domains (2)
           Pfam domains (3) ---------KaiB-2qkeF03 F:11-92                                                              --------- Pfam domains (3)
           Pfam domains (4) ---------KaiB-2qkeF04 F:11-92                                                              --------- Pfam domains (4)
           Pfam domains (5) ---------KaiB-2qkeF05 F:11-92                                                              --------- Pfam domains (5)
           Pfam domains (6) ---------KaiB-2qkeF06 F:11-92                                                              --------- Pfam domains (6)
         Sec.struct. author ......eeeeeee...hhhhhhhhhhhhhhhhhh....eeeeeee...........eeehhhhhhh..hhhhhhhhhhhhh....eeeeeeee....... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------- Transcript
                 2qke F   2 APLRKTYVLKLYVAGNTPNSVRALKTLNNILEKEFKGVYALKVIDVLKNPQLAEEDKILATPTLAKVLPPPVRRIIGDLSNREKVLIGLDLLYEEIGDQA 101
                                    11        21        31        41        51        61        71        81        91       101
   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, 6)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (1, 6)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (1, 6)

Asymmetric Unit
(-)
Clan: Thioredoxin (367)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D,E,F   (KAIB_THEEB | Q79V61)
molecular function
    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:0048511    rhythmic process    Any process pertinent to the generation and maintenance of rhythms in the physiology of an organism.

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 Related Entries

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

UniProtKB/Swiss-Prot
        KAIB_THEEB | Q79V61: 1vgl 5jwo 5jwq 5jwr 5jyt 5jyv

(-) Related Entries Specified in the PDB File

1r5p CRYSTAL STRUCTURE ANALYSIS OF KAIB FROM PCC7120
1vgl CRYSTAL STRUCTURE OF THE T64C MUTANT OF TETRAMERIC KAIB FROM T.ELONGATUS BP-1
1wwj CRYSTAL STRUCTURE OF KAIB FROM SYNECHOCYSTIS SP.