Bombyx BLAST Result against spombe

BLASTX 2.2.12 [Aug-07-2005]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Query= rbmnc16n12
         (769 letters)

Database: spombe 
           5004 sequences; 2,362,478 total letters

Searching..................................................done

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SPAC343.17c |||WD repeat protein, human WDR70 family|Schizosacch...    31   0.24 
SPBC3B9.09 |vps36||RBZ zinc finger protein Vps36|Schizosaccharom...    27   3.0  
SPAC19A8.05c |vps27|sst4|sorting receptor for ubiquitinated memb...    27   3.9  

>SPAC343.17c |||WD repeat protein, human WDR70
           family|Schizosaccharomyces pombe|chr 1|||Manual
          Length = 576

 Score = 30.7 bits (66), Expect = 0.24
 Identities = 30/104 (28%), Positives = 47/104 (45%), Gaps = 18/104 (17%)
 Frame = -1

Query: 427 DASVGLHINITPGCAYTSQFGVL-TCCPNGNIGFLANNSDGTVIAKLVEVIRKPR----- 266
           D S  +HIN   G A TS FG++     + +  FL        + K  ++ R+P+     
Sbjct: 448 DLSSTVHINSLSGSAGTSDFGLVEETTESASAYFLEARRRRNAVRKDPKLSRQPQVGRLL 507

Query: 265 --------PLTTVLNKNLSE-LINY---VKANPKILAIYSTSSP 170
                   PL T+LN++  E L+ Y    K+NP    +YS + P
Sbjct: 508 EENSVDDIPLATMLNEDPREALLKYADVAKSNPMFTKMYSETQP 551


>SPBC3B9.09 |vps36||RBZ zinc finger protein
           Vps36|Schizosaccharomyces pombe|chr 2|||Manual
          Length = 467

 Score = 27.1 bits (57), Expect = 3.0
 Identities = 13/37 (35%), Positives = 21/37 (56%)
 Frame = -3

Query: 137 LLHPRSYQSMGQGLITFPSFTNYKDISILDDICINYI 27
           ++ P+S     QGL T  +F NY D++   +IC N +
Sbjct: 127 IIKPKSDARFSQGLCTACTFQNYPDLNTC-EICGNQL 162


>SPAC19A8.05c |vps27|sst4|sorting receptor for ubiquitinated
           membrane proteins, ESCRT 0 complex|Schizosaccharomyces
           pombe|chr 1|||Manual
          Length = 610

 Score = 26.6 bits (56), Expect = 3.9
 Identities = 17/63 (26%), Positives = 30/63 (47%)
 Frame = -1

Query: 358 TCCPNGNIGFLANNSDGTVIAKLVEVIRKPRPLTTVLNKNLSELINYVKANPKILAIYST 179
           TC  NG  GFL   +    +  LV ++R P  +   +      ++ Y+++    LA+  T
Sbjct: 75  TCVKNGGSGFLLEIASREFMDNLVSILRSPAGIDEDVK---MVILRYIQS--WALAVPDT 129

Query: 178 SSP 170
           +SP
Sbjct: 130 NSP 132


  Database: spombe
    Posted date:  Oct 4, 2007 10:57 AM
  Number of letters in database: 2,362,478
  Number of sequences in database:  5004
  
Lambda     K      H
   0.318    0.134    0.401 

Gapped
Lambda     K      H
   0.279   0.0580    0.190 


Matrix: BLOSUM62
Gap Penalties: Existence: 9, Extension: 2
Number of Hits to DB: 3,251,436
Number of Sequences: 5004
Number of extensions: 72944
Number of successful extensions: 213
Number of sequences better than 10.0: 3
Number of HSP's better than 10.0 without gapping: 202
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 213
length of database: 2,362,478
effective HSP length: 71
effective length of database: 2,007,194
effective search space used: 369323696
frameshift window, decay const: 40,  0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 37 (14.9 bits)
X3: 62 (25.0 bits)
S1: 41 (21.7 bits)