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= bmmt4k03
         (780 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SPBP8B7.21 |ubp3||ubiquitin C-terminal hydrolase Ubp3|Schizosacc...    29   0.99 
SPBC6B1.03c |||Pal1 family protein|Schizosaccharomyces pombe|chr...    29   0.99 
SPBC27B12.04c |||conserved eukaryotic protein|Schizosaccharomyce...    28   1.3  
SPAC23G3.01 |rpb2|SPAC521.06|DNA-directed RNA polymerase II comp...    28   1.7  
SPCC645.07 |rgf1||RhoGEF for Rho1, Rgf1|Schizosaccharomyces pomb...    27   3.0  
SPBC119.05c |||Wiskott-Aldrich syndrome homolog binding protein ...    27   4.0  
SPCC576.15c |ksg1||serine/threonine protein kinase Ksg1|Schizosa...    25   9.2  

>SPBP8B7.21 |ubp3||ubiquitin C-terminal hydrolase
           Ubp3|Schizosaccharomyces pombe|chr 2|||Manual
          Length = 512

 Score = 28.7 bits (61), Expect = 0.99
 Identities = 16/38 (42%), Positives = 20/38 (52%), Gaps = 4/38 (10%)
 Frame = +3

Query: 138 EPLKGLYAGVQ----HSPVRVLVNHKAPIYLPLWHSSK 239
           EP + L   +Q    HS +  L +  AP  LP WHSSK
Sbjct: 334 EPFQPLQLDIQAEDIHSVIDALEHMTAPEILPEWHSSK 371


>SPBC6B1.03c |||Pal1 family protein|Schizosaccharomyces pombe|chr
           2|||Manual
          Length = 272

 Score = 28.7 bits (61), Expect = 0.99
 Identities = 10/13 (76%), Positives = 12/13 (92%)
 Frame = +1

Query: 727 HSGQNLNKYKHHE 765
           HSG NLN+Y+HHE
Sbjct: 47  HSGINLNQYQHHE 59


>SPBC27B12.04c |||conserved eukaryotic protein|Schizosaccharomyces
           pombe|chr 2|||Manual
          Length = 817

 Score = 28.3 bits (60), Expect = 1.3
 Identities = 14/31 (45%), Positives = 20/31 (64%), Gaps = 2/31 (6%)
 Frame = +1

Query: 388 YLSLRV-KMFKHWILVKNWWSLDL-QKHHFL 474
           Y  LRV +  +HW L +NW S+ L QK +F+
Sbjct: 64  YSKLRVYQTVRHWSLKQNWSSMSLDQKRNFI 94


>SPAC23G3.01 |rpb2|SPAC521.06|DNA-directed RNA polymerase II complex
           subunit Rpb2|Schizosaccharomyces pombe|chr 1|||Manual
          Length = 1210

 Score = 27.9 bits (59), Expect = 1.7
 Identities = 14/35 (40%), Positives = 22/35 (62%)
 Frame = +2

Query: 653 QEVTATVKIYHQKCFNRNKEFNINSIQVKT*TSTN 757
           +++T  V  Y QKC   N+EFN+ ++ VK+   TN
Sbjct: 408 RKMTRDVYKYMQKCVETNREFNL-TLAVKSNIITN 441


>SPCC645.07 |rgf1||RhoGEF for Rho1, Rgf1|Schizosaccharomyces pombe|chr
            3|||Manual
          Length = 1334

 Score = 27.1 bits (57), Expect = 3.0
 Identities = 19/68 (27%), Positives = 34/68 (50%), Gaps = 6/68 (8%)
 Frame = +3

Query: 12   CCLQIAVYALATAGLAISVHKIRPVSKFSKASKVPD--HFIR-NHEPL---KGLYAGVQH 173
            C  ++ V A+ ++ L+ ++    PV+ +SK   +P    F+  N +PL   K LY   + 
Sbjct: 1096 CLGKVLVCAVKSSVLSATIKVFEPVTNYSKTRNMPSLKKFLTVNQDPLRIVKELYIPTES 1155

Query: 174  SPVRVLVN 197
            + V  L N
Sbjct: 1156 TSVHFLKN 1163


>SPBC119.05c |||Wiskott-Aldrich syndrome homolog binding protein
           Lsb1 |Schizosaccharomyces pombe|chr 2|||Manual
          Length = 296

 Score = 26.6 bits (56), Expect = 4.0
 Identities = 24/108 (22%), Positives = 42/108 (38%)
 Frame = +3

Query: 273 VVSGNAVNWLECVARGQQVTLKPIGRDNDDLVSTVLLHLPQPKSKDVQTLDIGKKLVELG 452
           VV  +A++W+      Q     P+       V + +  LP PK K       G     + 
Sbjct: 26  VVERSALDWVHANIHLQDGPASPVTAPAAQPVESSV-PLPLPKRKSSVEKRAGSVASAVA 84

Query: 453 FAKASFPKELKKNTIESQIAPALLSAEAQAKSLRNGIWSENLPPIPAY 596
               S     K+   E +  P + + + Q+++      +E LPP P+Y
Sbjct: 85  AMSLSQNSGEKRTPEEPRKLPGVPAPQKQSEASSVNSSTEKLPPPPSY 132


>SPCC576.15c |ksg1||serine/threonine protein kinase
           Ksg1|Schizosaccharomyces pombe|chr 3|||Manual
          Length = 592

 Score = 25.4 bits (53), Expect = 9.2
 Identities = 11/33 (33%), Positives = 17/33 (51%)
 Frame = +3

Query: 249 PVKLWGIEVVSGNAVNWLECVARGQQVTLKPIG 347
           P K W  E  +G A  W+E + +   ++L P G
Sbjct: 545 PTKSWSFEDPNGPASAWVELLDKASSISL-PFG 576


  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: 3,322,346
Number of Sequences: 5004
Number of extensions: 71796
Number of successful extensions: 197
Number of sequences better than 10.0: 7
Number of HSP's better than 10.0 without gapping: 192
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): 197
length of database: 2,362,478
effective HSP length: 71
effective length of database: 2,007,194
effective search space used: 377352472
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)