RPS-BLAST 2.2.26 [Sep-21-2011]

Database: pdb70 
           27,921 sequences; 6,701,793 total letters

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

Query= psy205
         (108 letters)



>2a65_A Leutaa, Na(+):neurotransmitter symporter (SNF family); membrane
           protein, transport protein; HET: BOG; 1.65A {Aquifex
           aeolicus} SCOP: f.54.1.1 PDB: 2q6h_A* 2q72_A* 2qb4_A*
           2qei_A* 3f3a_A* 3f3c_A* 3f3d_A* 3f3e_A* 3f48_A* 3f4i_A*
           3f4j_A* 3usg_A* 3usi_A 3usj_A 3usk_A 3usl_A* 3usm_A*
           3uso_A 3usp_A* 3qs5_A* ...
          Length = 519

 Score = 74.3 bits (183), Expect = 3e-17
 Identities = 18/42 (42%), Positives = 26/42 (61%), Gaps = 1/42 (2%)

Query: 62  AERGSWGSRWEFLLSCVGLSVGIGNVWRFPYLAYQNGGG-FL 102
            +R  W +R   +L+  G +VG+GN  RFP  A +NGGG F+
Sbjct: 3   VKREHWATRLGLILAMAGNAVGLGNFLRFPVQAAENGGGAFM 44


>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR;
           fatty acid synthase, acyl-carrier-protein, beta-ketoacyl
           RED beta-ketoacyl synthase, dehydratase; 4.00A
           {Saccharomyces cerevisiae}
          Length = 1688

 Score = 27.9 bits (62), Expect = 0.63
 Identities = 16/47 (34%), Positives = 22/47 (46%), Gaps = 16/47 (34%)

Query: 62  AERGSWGS---RWEF----LLS---CVGLSVGIGNVWRFPYLAYQNG 98
           AE G WGS   RWE       S   CV ++  +G      +++Y NG
Sbjct: 826 AEVGPWGSARTRWEMEAFGEFSLEGCVEMAWIMG------FISYHNG 866


>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
           acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
           synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
          Length = 2006

 Score = 27.3 bits (60), Expect = 1.0
 Identities = 11/60 (18%), Positives = 21/60 (35%), Gaps = 8/60 (13%)

Query: 39  VARRESTFTSIDAAIRRPSLAAVAERGSWGSRWEFLLSCVGLSVGIGNVWR----FPYLA 94
           +       T     +   +  A+AE  SW S +  +   + +   IG   R    +P  +
Sbjct: 263 LRSYLKGATGHSQGL--VTAVAIAETDSWESFFVSVRKAITVLFFIG--VRCYEAYPNTS 318


>4a17_E RPL9, 60S ribosomal protein L9; eukaryotic ribosome, ribosome,
          eukaryotic initiation factor 60S, translation, large
          ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB:
          4a1a_E 4a1c_E 4a1e_E
          Length = 188

 Score = 25.4 bits (56), Expect = 3.8
 Identities = 4/26 (15%), Positives = 14/26 (53%)

Query: 13 GGSLRERTYSGDKQERAHHRRFSAHI 38
            +++ + +   ++ERA  +  ++ I
Sbjct: 50 ADNVKLQIWQASRKERAVLQSIASQI 75


>3u5e_H L8, RP24, YL11, 60S ribosomal protein L9-A; translation,
          ribosome, ribosomal R ribosomal protein, STM1,
          eukaryotic ribosome; 3.00A {Saccharomyces cerevisiae}
          PDB: 3izc_F 1s1i_H 3izs_F* 3j16_F 3o5h_I 3o58_I 3u5i_H
          3jyw_H
          Length = 191

 Score = 25.0 bits (55), Expect = 4.7
 Identities = 3/26 (11%), Positives = 11/26 (42%)

Query: 13 GGSLRERTYSGDKQERAHHRRFSAHI 38
             ++   ++G ++  A  R   + +
Sbjct: 50 NQLIKVAVHNGGRKHVAALRTVKSLV 75


>3uor_A ABC transporter sugar binding protein; ALFA/beta protein,
           periplasmic-binding protein, maltose, SUG binding
           protein; 2.20A {Xanthomonas axonopodis PV}
          Length = 458

 Score = 24.7 bits (54), Expect = 6.9
 Identities = 3/24 (12%), Positives = 7/24 (29%)

Query: 79  GLSVGIGNVWRFPYLAYQNGGGFL 102
            + + +    +    A Q     L
Sbjct: 186 AILMPLNEFEQQLSFALQQDDRLL 209


  Database: pdb70
    Posted date:  Sep 4, 2012  3:40 AM
  Number of letters in database: 6,701,793
  Number of sequences in database:  27,921
  
Lambda     K      H
   0.323    0.135    0.423 

Gapped
Lambda     K      H
   0.267   0.0704    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,773,997
Number of extensions: 93053
Number of successful extensions: 212
Number of sequences better than 10.0: 1
Number of HSP's gapped: 212
Number of HSP's successfully gapped: 11
Length of query: 108
Length of database: 6,701,793
Length adjustment: 72
Effective length of query: 36
Effective length of database: 4,691,481
Effective search space: 168893316
Effective search space used: 168893316
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 51 (23.5 bits)