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= psy5946
         (63 letters)

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

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



>sp|Q9DCU6|RM04_MOUSE 39S ribosomal protein L4, mitochondrial OS=Mus musculus GN=Mrpl4
           PE=2 SV=1
          Length = 294

 Score = 50.4 bits (119), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 23/39 (58%), Positives = 27/39 (69%)

Query: 5   LGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEER 43
           LGL   L++KLMQDDLHIV  L LP  DP+YL  L + R
Sbjct: 172 LGLKVALTVKLMQDDLHIVDSLELPTADPQYLTELAQYR 210


>sp|Q9BYD3|RM04_HUMAN 39S ribosomal protein L4, mitochondrial OS=Homo sapiens GN=MRPL4
           PE=1 SV=1
          Length = 311

 Score = 46.6 bits (109), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 21/39 (53%), Positives = 25/39 (64%)

Query: 5   LGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEER 43
           LGL   L++KL QDDLHI+  L LP  DP+YL  L   R
Sbjct: 172 LGLKVALTVKLAQDDLHIMDSLELPTGDPQYLTELAHYR 210


>sp|Q32PI6|RM04_BOVIN 39S ribosomal protein L4, mitochondrial OS=Bos taurus GN=MRPL4 PE=1
           SV=1
          Length = 294

 Score = 46.6 bits (109), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 22/40 (55%), Positives = 25/40 (62%)

Query: 4   VLGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEER 43
           V GL   L++KL QDDLHIV  L LP  DP+YL  L   R
Sbjct: 171 VQGLKVALTVKLAQDDLHIVDSLELPTTDPQYLMELARYR 210


>sp|Q503X2|RM04_DANRE 39S ribosomal protein L4, mitochondrial OS=Danio rerio GN=mrpl4
           PE=2 SV=1
          Length = 302

 Score = 43.9 bits (102), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 22/40 (55%), Positives = 27/40 (67%)

Query: 4   VLGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEER 43
           V GL   LS KL QD LHIV  L +P  DP+YL++LV+ R
Sbjct: 180 VQGLKIALSAKLAQDYLHIVDSLEIPTPDPQYLQDLVKHR 219


>sp|Q85438|MVP_RDVF Movement protein OS=Rice dwarf virus (isolate Fujian) PE=2 SV=1
          Length = 509

 Score = 30.4 bits (67), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 17/51 (33%), Positives = 26/51 (50%), Gaps = 3/51 (5%)

Query: 13  IKLMQDDLHIVKD---LVLPVDDPKYLENLVEERCSQVSLSARLGIRDLQY 60
           I  ++  +H+  D   LV+P D   ++ NL ++    V LS  L IRD  Y
Sbjct: 409 IDWLRTFVHMFPDSGSLVIPADSYTWIHNLAQDMFPWVQLSTTLDIRDDHY 459


  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
   0.319    0.138    0.374 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,116,391
Number of Sequences: 539616
Number of extensions: 615464
Number of successful extensions: 1525
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 1520
Number of HSP's gapped (non-prelim): 5
length of query: 63
length of database: 191,569,459
effective HSP length: 35
effective length of query: 28
effective length of database: 172,682,899
effective search space: 4835121172
effective search space used: 4835121172
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (25.8 bits)