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= brP-1936
         (494 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SPBC1685.02c |rps1202|rps12-2|40S ribosomal protein S12|Schizosa...    64   8e-12
SPCC962.04 |rps1201|rps12-1, rps12|40S ribosomal protein S12|Sch...    64   8e-12
SPAC12B10.01c ||SPAC31F12.02c, SPAC637.15c|ubiquitin-protein lig...    25   6.3  
SPAPJ696.01c |vps17||retromer complex subunit Vps17|Schizosaccha...    25   6.3  

>SPBC1685.02c |rps1202|rps12-2|40S ribosomal protein
           S12|Schizosaccharomyces pombe|chr 2|||Manual
          Length = 148

 Score = 64.5 bits (150), Expect = 8e-12
 Identities = 29/64 (45%), Positives = 41/64 (64%)
 Frame = +2

Query: 206 MKLXXALCNDTSLFHWSRLTTXKSLVEWAGLCKIDKDGKARKIVGCSCXVIKDFGEETPX 385
           +KL  ALC ++      ++   K L EWAGLC +D+DG ARK+VGCSC  + D+GE++  
Sbjct: 80  VKLVEALCAESQT-PLVKVADPKILGEWAGLCVLDRDGNARKVVGCSCVAVTDYGEDSVA 138

Query: 386 LDVL 397
           L  L
Sbjct: 139 LQTL 142



 Score = 54.8 bits (126), Expect = 7e-09
 Identities = 29/63 (46%), Positives = 39/63 (61%)
 Frame = +1

Query: 94  ALIHGGLVHGLHETAKALDKRQXVLCVLAXNCDEAAYNETXSXSVQRYIIIPLVKVDNXK 273
           AL+H GL  G+ E +KALD+RQ  LCVL  +CD+ AY +    ++      PLVKV + K
Sbjct: 43  ALVHDGLARGIREASKALDRRQAHLCVLCESCDQEAYVKLVE-ALCAESQTPLVKVADPK 101

Query: 274 KLG 282
            LG
Sbjct: 102 ILG 104


>SPCC962.04 |rps1201|rps12-1, rps12|40S ribosomal protein
           S12|Schizosaccharomyces pombe|chr 3|||Manual
          Length = 145

 Score = 64.5 bits (150), Expect = 8e-12
 Identities = 29/66 (43%), Positives = 42/66 (63%)
 Frame = +2

Query: 206 MKLXXALCNDTSLFHWSRLTTXKSLVEWAGLCKIDKDGKARKIVGCSCXVIKDFGEETPX 385
           +KL  ALC ++      ++   K L EWAGLC +D+DG ARK+VGCSC  + D+GE++  
Sbjct: 77  VKLVEALCAESET-PLIKVADPKVLGEWAGLCVLDRDGNARKVVGCSCVAVTDYGEDSAA 135

Query: 386 LDVLXD 403
           L  L +
Sbjct: 136 LQKLLE 141



 Score = 54.8 bits (126), Expect = 7e-09
 Identities = 28/63 (44%), Positives = 39/63 (61%)
 Frame = +1

Query: 94  ALIHGGLVHGLHETAKALDKRQXVLCVLAXNCDEAAYNETXSXSVQRYIIIPLVKVDNXK 273
           AL+H GL  G+ E +KALD+RQ  LCVL  +CD+ AY +    ++      PL+KV + K
Sbjct: 40  ALVHDGLARGIREASKALDRRQAHLCVLCESCDQEAYVKLVE-ALCAESETPLIKVADPK 98

Query: 274 KLG 282
            LG
Sbjct: 99  VLG 101


>SPAC12B10.01c ||SPAC31F12.02c, SPAC637.15c|ubiquitin-protein ligase
            E3 |Schizosaccharomyces pombe|chr 1|||Manual
          Length = 1647

 Score = 25.0 bits (52), Expect = 6.3
 Identities = 14/37 (37%), Positives = 18/37 (48%), Gaps = 1/37 (2%)
 Frame = +1

Query: 88   STALIHGGLVHGLHETAKALDKRQXVLCVLAXN-CDE 195
            S  L+H GL+H L  + K          +LA N CDE
Sbjct: 893  SHELLHSGLIHNLLLSLKKFGSSSLRTFLLAMNTCDE 929


>SPAPJ696.01c |vps17||retromer complex subunit
           Vps17|Schizosaccharomyces pombe|chr 1|||Manual
          Length = 549

 Score = 25.0 bits (52), Expect = 6.3
 Identities = 11/26 (42%), Positives = 18/26 (69%), Gaps = 1/26 (3%)
 Frame = -1

Query: 347 RSSRQFSLPCHPCQSCRD-QPILPSF 273
           ++ +QF LP  PCQ+  + +PI+ SF
Sbjct: 228 KALKQFPLPPDPCQALANLRPIVKSF 253


  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: 1,779,273
Number of Sequences: 5004
Number of extensions: 28889
Number of successful extensions: 64
Number of sequences better than 10.0: 4
Number of HSP's better than 10.0 without gapping: 61
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): 64
length of database: 2,362,478
effective HSP length: 68
effective length of database: 2,022,206
effective search space used: 194131776
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)