ORF      STATUS       Function Best COG  Functional category                                          Pathways and functional systems
r_klactIV0967   suspect: LH   A     KOG1295  RNA processing and modification                                Nonsense-mediated decay protein Upf3

BLASTP 2.2.3 [May-13-2002]


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= r_klactIV0967  318725  319954 410  
         (410 letters)

Database: KOG eukaryal database 04/03 
           60,738 sequences; 30,389,216 total letters

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

Color Key for Alignment Scores:   


                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

YGR072w [A] KOG1295 Nonsense-mediated decay protein Upf3              119   8e-27

>YGR072w [A] KOG1295 Nonsense-mediated decay protein Upf3
          Length = 387

 Score =  119 bits (298), Expect = 8e-27
 Identities = 66/182 (36%), Positives = 102/182 (55%), Gaps = 11/182 (6%)

Query: 22  FKLCIRSLPPNLTEEQFISTLQENNIDVHSFQ--------KSFYYVQGHYSSKVFKKQTL 73
           FKL IR LPPNLT ++F + L++NN D    Q          + + +GHYSSKVFK  T 
Sbjct: 86  FKLVIRLLPPNLTADEFFAILRDNNNDDGDKQDIQGKLKYSDWCFFEGHYSSKVFKNSTY 145

Query: 74  SRAYIQLDSFETIQSLSKTIRTCRFIDDLDNSMIPDLQISPFVKKWVSPNEVN-PIQGTI 132
           SR     D+   ++  +  I+TC+FID+ DN  IPD+++SP+VKK+   ++ +  + GTI
Sbjct: 146 SRCNFLFDNLSDLEKCANFIKTCKFIDNKDNITIPDMKLSPYVKKFTQTSKKDAALVGTI 205

Query: 133 QKDHVFQTFVKSWKLINEDETNSLQFKNLSVIAPXXXXXXXXXXXXXXXXXXXQRALIEL 192
           ++D +F+TF+ S K +NE++  S  F++ SV+                     +R L EL
Sbjct: 206 EEDEIFKTFMNSMKQLNENDEYS--FQDFSVLKSLEKEFSKSIELENKIAERTERVLTEL 263

Query: 193 AG 194
            G
Sbjct: 264 VG 265


  Database: KOG eukaryal database 04/03
    Posted date:  Apr 14, 2003  1:07 PM
  Number of letters in database: 30,389,216
  Number of sequences in database:  60,738
  
Lambda     K      H
   0.309    0.127    0.349 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,960,579
Number of Sequences: 60738
Number of extensions: 466567
Number of successful extensions: 1526
Number of sequences better than 1.0e-05: 1
Number of HSP's better than  0.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 1523
Number of HSP's gapped (non-prelim): 1
length of query: 410
length of database: 30,389,216
effective HSP length: 109
effective length of query: 301
effective length of database: 23,768,774
effective search space: 7154400974
effective search space used: 7154400974
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)