Input parameters:

  Query = NP_003316 (Len=1017)
  Tmplt = WD40-str (Len=40)
  Method = bdp  Gap-open = 50  Gap-extend = 3
  Database = /home/pub/blastdb/nr90  E-value = 0.001  Iteration = 3

Query sequence (NP_003316, Len=1017):

(BLUE - beta-strands, RED - alpha-helices, predicted by PSIPRED)

                       10        20        30        40        50        60        70        80
               ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Query        1 MKLLKPTWVNHNGKPIFSVDIHPDGTKFATGGQGQDSGKVVIWNMSPVLQEDDEKDENIPKMLCQMDNHLACVNCVRWSN 80  
WD40-rpts      (___________________WD 1___________________)               (_________________WD 

Query       81 SGMYLASGGDDKLIMVWKRATYIGPSTVFGSSGKLANVEQWRCVSILRNHSGDVMDVAWSPHDAWLASCSVDNTVVIWNA 160 
WD40-rpts      2________________)                      (_________________WD 3________________) 

Query      161 VKFPEILATLRGHSGLVKGLTWDPVGKYIASQADDRSLKVWRTLDWQLETSITKPFDECGGTTHVLRLSWSPDGHYLVSA 240 
WD40-rpts         (_________________WD 4________________)           (__________________WD 5____

Query      241 HAMNNSGPTAQIIEREGWKTNMDFVGHRKAVTVVKFNPKIFKKKQKNGSSAKPSCPYCCCAVGSKDRSLSVWLTCLKRPL 320 
WD40-rpts      _____________)   (_________________________WD 6_________________________)    (__

Query      321 VVIHELFDKSIMDISWTLNGLGILVCSMDGSVAFLDFSQDELGDPLSEEEKSRIHQSTYGKSLAIMTEAQLSTAVIENPE 400 
WD40-rpts      _______________WD 7________________)                                            

Query      401 MLKYQRRQQQQQLDQKSAATREMGSATSVAGVVNGESLEDIRKNLLKKQVETRTADGRRRITPLCIAQLDTGDFSTAFFN 480 
WD40-rpts            (_________________WD 8________________)   (________________WD 9___________

Query      481 SIPLSGSLAGTMLSSHSSPQLLPLDSSTPNSFGASKPCTEPVVAASARPAGDSVNKDSMNATSTPAALSPSVLTTPSKIE 560 
WD40-rpts      _____)__________________WD10__________________)                                 

Query      561 PMKAFDSRFTERSKATPGAPALTSMTPTAVERLKEQNLVKELRPRDLLESSSDSDEKVPLAKASSLSKRKLELEVETVEK 640 
WD40-rpts                                                                                      

Query      641 KKKGRPRKDSRLMPVSLSVQSPAALTAEKEAMCLSAPALALKLPIPSPQRAFTLQVSSDPSMYIEVENEVTVVGGVKLSR 720 
WD40-rpts                                                                                      

Query      721 LKCNREGKEWETVLTSRILTAAGSCDVVCVACEKRMLSVFSTCGRRLLSPILLPSPISTLHCTGSYVMALTAAATLSVWD 800 
WD40-rpts         (________________WD11________________)(_________________WD12________________)

Query      801 VHRQVVVVKEESLHSILAGSDMTVSQILLTQHGIPVMNLSDGKAYCFNPSLSTWNLVSDKQDSLAQCADFRSSLPSQDAM 880 
WD40-rpts               (____________________WD13____________________)                         

Query      881 LCSGPLAIIQGRTSNSGRQAARLFSVPHVVQQETTLAYLENQVAAALTLQSSHEYRHWLLVYARYLVNEGFEYRLREICK 960 
WD40-rpts                                                                                      

Query      961 DLLGPVHYSTGSQWESTVVGLRKRELLKELLPVIGQNLRFQRLFTECQEQLDILRDK 1017
WD40-rpts                                                               

13 WD40-repeats found in QUERY=NP_003316 (Len=1017):

(Red - Z-score>4.0)

  Rpts  Segment   Boundary  Z-score   Score  P-value  Identities  SS-score
  WD 1:  Seg  1     1-44       6.42  379.82  0.00047       25.0%     52.53
  WD 2:  Seg  5    60-98       7.86  439.51  7.4e-05       32.5%     54.35
  WD 3:  Seg  9   121-159      7.88  440.19  7.3e-05       32.5%     55.29
  WD 4:  Seg 13   164-202      9.22  495.57  1.3e-05       37.5%     57.81
  WD 5:  Seg 18   214-254      4.97  320.02  0.00303       30.0%     40.50
  WD 6:  Seg 21   258-313      5.92  359.32  0.00089       30.0%     58.68
  WD 7:  Seg 25   318-356      6.88  398.91  0.00026       15.0%     57.65
  WD 8:  Seg 31   407-445      5.04  322.84  0.00277       10.0%     20.73
  WD 9:  Seg 32   449-486      4.44  298.01  0.00598       15.0%     30.50
  WD10:  Seg 35   486-527      2.77  229.05  0.04979       10.0%     -2.93
  WD11:  Seg 41   724-761      3.50  259.33  0.01975       12.5%     43.10
  WD12:  Seg 45   762-800      5.24  331.26  0.00214       22.5%     33.53
  WD13:  Seg 49   810-855      5.18  328.69  0.00231       15.0%     38.33

Multiple sequence alignment of 13 WD40-repeats:

(BLUE - beta-strands, RED - alpha-helices, predicted by PSIPRED)

   WD 1    1-44     MKLLKPTWV--NHNGKPIFSVDIHP-----------------DGTKFATG----GQGQD------SGKVVIWN
   WD 2   60-98     -PKMLCQMD--NHLA-CVNCVRWSN-----------------SGMYLASG----G---D------DKLIMVWK
   WD 3  121-159    -WRCVSILR--NHSG-DVMDVAWSP-----------------HDAWLASC----S---V------DNTVVIWN
   WD 4  164-202    -PEILATLR--GHSG-LVKGLTWDP-----------------VGKYIASQ----A---D------DRSLKVWR
   WD 5  214-254    KP---FDEC--GGTT-HVLRLSWSP-----------------DGHYLVSAHAMNN---S------GPTAQIIE
   WD 6  258-313    -WKTNMDFV--GHRK-AVTVVKFNPKIFKKKQKNGSSAKPSCPYCCCAVG----S---K------DRSLSVWL
   WD 7  318-356    -RPLVVIHE--LFDK-SIMDISWTL-----------------NGLGILVC----S---M------DGSVAFLD
   WD 8  407-445    -RQQQQQLD--QKSA-ATREMGSAT-----------------SVAGVVNG----E---S------LEDIRKNL
   WD 9  449-486    -QVETRTAD--GRRR--ITPLCIAQ-----------------LDTGDFST----A---F------FNSIPLSG
   WD10  486-527    GSLAGTMLSSHSSPQ-LLPLDSSTP-----------------NSFGASKP----C---T------EPVVAASA
   WD11  724-761    NREGKEWET--VLTS-RI--LTAAG-----------------SCDVVCVA----C---E------KRMLSVFS
   WD12  762-800    T-CGRRLLS--PILL-PSPISTLHC-----------------TGSYVMAL----T---A------AATLSVWD
   WD13  810-855    EESLHSILA--GSDM-TVSQILLTQ-----------------HGIPVMNL----S---DGKAYCFNPSLSTWN

   WD40 Template    TGECLRTLS--GHTS-GVTSVSFSP-----------------DGKRLVSG----S---E------DGTIKVWD