BLASTP 2.2.26 [Sep-21-2011]


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.


Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= 010224
         (514 letters)

Database: swissprot 
           539,616 sequences; 191,569,459 total letters

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



>sp|Q9BZI7|REN3B_HUMAN Regulator of nonsense transcripts 3B OS=Homo sapiens GN=UPF3B PE=1
           SV=1
          Length = 483

 Score = 88.2 bits (217), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 60/163 (36%), Positives = 94/163 (57%), Gaps = 8/163 (4%)

Query: 8   TKVVVRNLPPAITQPAFTEQIDGAFGGRYNWVSFRQGKTSQKHQSCARAYLDFKKPEDVL 67
           +KVV+R LPP +T+    E +       +++  F    TS      ARAY++FK  ED++
Sbjct: 51  SKVVIRRLPPTLTKEQLQEHLQPM--PEHDYFEFFSNDTSLYPHMYARAYINFKNQEDII 108

Query: 68  EFAEFFNGHVFVNEKGVQFKTIVEYAPSQRVPKQWSKKDGRE-GTLLKDPEYLEFLEFIS 126
            F + F+G+VF++ KG ++  IVE+AP Q+  K+ +KK   + GT+  DPEY +FLE  +
Sbjct: 109 LFRDRFDGYVFLDNKGQEYPAIVEFAPFQKAAKKKTKKRDTKVGTIDDDPEYRKFLESYA 168

Query: 127 KPVENLPSA-EIQLERREAE-RAGAAKEALIVTPLMDFVRQKR 167
              E + S  E  LE  EA+ R   AK+    TPL+ F++ K+
Sbjct: 169 TDNEKMTSTPETLLEEIEAKNRELIAKK---TTPLLSFLKNKQ 208


>sp|B0S733|REN3A_DANRE Regulator of nonsense transcripts 3A OS=Danio rerio GN=upf3a PE=2
           SV=2
          Length = 452

 Score = 82.8 bits (203), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 57/166 (34%), Positives = 96/166 (57%), Gaps = 8/166 (4%)

Query: 8   TKVVVRNLPPAITQPAFTEQIDGAFGGRYNWVSFRQGKTSQKHQSCARAYLDFKKPEDVL 67
           +KVV+R LPP++++    E +       +++  F     S      +RAY++FK PED++
Sbjct: 43  SKVVIRRLPPSLSKDQLQEHLSPL--PSFDYFEFFPADQSLYPHLFSRAYINFKNPEDII 100

Query: 68  EFAEFFNGHVFVNEKGVQFKTIVEYAPSQRVPKQWSKKDGRE-GTLLKDPEYLEFLEFIS 126
            F + F+G+VF++ KG ++  +VE+AP Q+V K+  KK   + GT+ +DPEY  FLE  S
Sbjct: 101 IFRDRFDGYVFIDNKGQEYPAVVEFAPFQKVSKKKLKKKDAKAGTIEEDPEYRRFLENYS 160

Query: 127 KPVE-NLPSAEIQLERREAE-RAGAAKEALIVTPLMDFVRQKRAAK 170
              E ++ + E  L   EA+ R   AK     TPL+++++ K+  K
Sbjct: 161 CDEEKSMANPETLLGEIEAKTRELIAKR---TTPLLEYIKNKKLEK 203


>sp|Q9H1J1|REN3A_HUMAN Regulator of nonsense transcripts 3A OS=Homo sapiens GN=UPF3A PE=1
           SV=1
          Length = 476

 Score = 80.1 bits (196), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 50/164 (30%), Positives = 91/164 (55%), Gaps = 4/164 (2%)

Query: 8   TKVVVRNLPPAITQPAFTEQIDGAFGGRYNWVSFRQGKTSQKHQSCARAYLDFKKPEDVL 67
           +KVV+R LPP +T+    EQ+       +++  F     S      +RAY++F+ P+D+L
Sbjct: 68  SKVVIRRLPPGLTKEQLEEQLRPLPA--HDYFEFFAADLSLYPHLYSRAYINFRNPDDIL 125

Query: 68  EFAEFFNGHVFVNEKGVQFKTIVEYAPSQRVPKQWSKKDGRE-GTLLKDPEYLEFLEFIS 126
            F + F+G++F++ KG+++  +VE+AP Q++ K+  +K   + G++  DPEY +FLE   
Sbjct: 126 LFRDRFDGYIFLDSKGLEYPAVVEFAPFQKIAKKKLRKKDAKTGSIEDDPEYKKFLETYC 185

Query: 127 KPVENLPSAEIQLERREAERAGAAKEALIVTPLMDFVRQKRAAK 170
              E   SA  +    E E       A   TPL+++++ ++  K
Sbjct: 186 VEEEKT-SANPETLLGEMEAKTRELIARRTTPLLEYIKNRKLEK 228


>sp|Q10267|UPF3_SCHPO Nonsense-mediated mRNA decay protein 3 OS=Schizosaccharomyces pombe
           (strain 972 / ATCC 24843) GN=upf3 PE=3 SV=1
          Length = 278

 Score = 79.0 bits (193), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 40/116 (34%), Positives = 64/116 (55%), Gaps = 3/116 (2%)

Query: 8   TKVVVRNLPPAITQPAFTEQIDGAFGGRYNWVSFRQGKTS--QKHQSCARAYLDFKKPED 65
            KV+V NLPP + +  F + I+ +F     W  F +GK +   + +  + AYL F+    
Sbjct: 12  CKVLVFNLPPTLPEQVFLQSIN-SFLPHVEWHRFSKGKATVGTRSELLSFAYLKFQSATA 70

Query: 66  VLEFAEFFNGHVFVNEKGVQFKTIVEYAPSQRVPKQWSKKDGREGTLLKDPEYLEF 121
           V EF   + GH F+++K   ++ IV  AP Q++P    K D  EG+L +DP++ EF
Sbjct: 71  VQEFFRVYQGHTFIDKKNNTYRAIVTIAPYQKIPPSKVKADSLEGSLEQDPKFQEF 126


>sp|B9W9A9|RRT5_CANDC Regulator of rDNA transcription protein 5 OS=Candida dubliniensis
          (strain CD36 / ATCC MYA-646 / CBS 7987 / NCPF 3949 /
          NRRL Y-17841) GN=RRT5 PE=3 SV=1
          Length = 299

 Score = 33.1 bits (74), Expect = 4.8,   Method: Compositional matrix adjust.
 Identities = 17/51 (33%), Positives = 27/51 (52%), Gaps = 1/51 (1%)

Query: 47 SQKHQSCARAYLDFKKPEDVLEFAEFFNGHVFVNEKGVQFKTIVEYAPSQR 97
          S +H+    AY +F+ PE +    + F+GHV  N K +  K  + Y P+ R
Sbjct: 49 SGRHRPLGIAYAEFRTPEQIESVVKEFDGHVLKNRK-ITVKKHMAYDPNNR 98


  Database: swissprot
    Posted date:  Mar 23, 2013  2:32 AM
  Number of letters in database: 191,569,459
  Number of sequences in database:  539,616
  
Lambda     K      H
   0.309    0.127    0.352 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 194,482,656
Number of Sequences: 539616
Number of extensions: 8544634
Number of successful extensions: 21796
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 210
Number of HSP's that attempted gapping in prelim test: 21286
Number of HSP's gapped (non-prelim): 670
length of query: 514
length of database: 191,569,459
effective HSP length: 122
effective length of query: 392
effective length of database: 125,736,307
effective search space: 49288632344
effective search space used: 49288632344
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 64 (29.3 bits)