RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy6426
         (74 letters)



>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
           programmed cell death; HET: DTP; 6.90A {Drosophila
           melanogaster} PDB: 3iz8_A*
          Length = 1221

 Score = 31.7 bits (71), Expect = 0.013
 Identities = 17/77 (22%), Positives = 33/77 (42%), Gaps = 21/77 (27%)

Query: 4   EPSDKKVKSYGGIPEAVFVDDVD---KYMSL-----PENDRIEVVLKKLD-----EEHNK 50
           EP++ + K +  +  +VF          +SL      ++D + VV+ KL      E+  K
Sbjct: 367 EPAEYR-KMFDRL--SVFPPSAHIPTILLSLIWFDVIKSD-VMVVVNKLHKYSLVEKQPK 422

Query: 51  YKFMEYSLSLLGVLFSL 67
               E ++S+  +   L
Sbjct: 423 ----ESTISIPSIYLEL 435


>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
          photosynthetic reaction center, peripheral antenna;
          HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
          Length = 154

 Score = 26.8 bits (58), Expect = 0.55
 Identities = 9/28 (32%), Positives = 13/28 (46%), Gaps = 5/28 (17%)

Query: 47 EHNKYKFMEYSLSLLGVLFSLVGSASAL 74
          E    K ++ SL     L++   SA AL
Sbjct: 18 EKQALKKLQASLK----LYA-DDSAPAL 40


>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 = 26.6 bits (58), Expect = 0.76
 Identities = 15/61 (24%), Positives = 23/61 (37%), Gaps = 11/61 (18%)

Query: 15  GIPEAVFVDDVDKY-MSLPENDRIEVVLKKLDEEHNKYKFMEYSLSLLGVLFSLVGSASA 73
            + +    D V+K    LP   ++E+ L       N  K    +L + G   SL G    
Sbjct: 343 NLTQEQVQDYVNKTNSHLPAGKQVEISL------VNGAK----NLVVSGPPQSLYGLNLT 392

Query: 74  L 74
           L
Sbjct: 393 L 393



 Score = 25.8 bits (56), Expect = 1.5
 Identities = 6/34 (17%), Positives = 14/34 (41%), Gaps = 6/34 (17%)

Query: 26   DKYMSL------PENDRIEVVLKKLDEEHNKYKF 53
            + Y ++          + E + K+++E    Y F
Sbjct: 1686 ENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTF 1719


>3r8n_B 30S ribosomal protein S2; protein biosynthesis, RNA, tRNA, transfer
           RNA, 16S ribosomal subunit, RRF; 3.00A {Escherichia
           coli} PDB: 2ykr_B 3fih_B* 2wwl_B 3oar_B 3oaq_B 3ofb_B
           3ofa_B 3ofp_B 3ofx_B 3ofy_B 3ofo_B 3r8o_B 4a2i_B 3i1m_B
           1vs7_B* 3e1a_B 3e1c_B 1vs5_B 3i1o_B 3i1q_B ...
          Length = 218

 Score = 25.9 bits (58), Expect = 1.1
 Identities = 11/27 (40%), Positives = 14/27 (51%), Gaps = 6/27 (22%)

Query: 7   DKKVKSYGGI------PEAVFVDDVDK 27
           +K   S GGI      P+A+FV D D 
Sbjct: 134 EKLENSLGGIKDMGGLPDALFVIDADH 160


>2vqe_B 30S ribosomal protein S2; tRNA-binding, rRNA-binding,
           metal-binding, zinc-finger, translation; HET: TM2 PAR;
           2.5A {Thermus thermophilus} SCOP: c.23.15.1 PDB: 1gix_E*
           1hnw_B* 1hnx_B* 1hnz_B* 1hr0_B 1ibk_B* 1ibl_B* 1ibm_B
           1j5e_B 1jgo_E* 1jgp_E* 1jgq_E* 1ml5_E* 1n32_B* 1n33_B*
           1n34_B 1n36_B 1xmo_B* 1xmq_B* 1xnq_B* ...
          Length = 256

 Score = 25.3 bits (56), Expect = 1.9
 Identities = 8/27 (29%), Positives = 12/27 (44%), Gaps = 6/27 (22%)

Query: 7   DKKVKSYGGI------PEAVFVDDVDK 27
           ++  K   G       P+A+FV D  K
Sbjct: 143 ERLQKYLSGFRLLKRLPDAIFVVDPTK 169


>3bbn_B Ribosomal protein S2; small ribosomal subunit, spinach chloroplast
           ribosome, ribonucleoprotein particle, macromolecular
           complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1
          Length = 231

 Score = 24.8 bits (55), Expect = 2.7
 Identities = 6/27 (22%), Positives = 9/27 (33%), Gaps = 6/27 (22%)

Query: 7   DKKVKSYGGI------PEAVFVDDVDK 27
                  GGI      P+ V + D  +
Sbjct: 142 SHLQTYLGGIKYMTGLPDIVIIVDQQE 168


>2x3g_A SIRV1 hypothetical protein ORF119; viral protein, HOST membrane;
           1.80A {Sulfolobus islandicus rudivirus 1
           variorganism_taxid}
          Length = 119

 Score = 24.3 bits (52), Expect = 3.9
 Identities = 12/30 (40%), Positives = 18/30 (60%)

Query: 25  VDKYMSLPENDRIEVVLKKLDEEHNKYKFM 54
           V K+M    + RIE+V K + +  N YK+M
Sbjct: 80  VHKHMPSHSDIRIELVPKSISDIKNVYKYM 109


>3oqg_A HPY188I; endonuclease-DNA complex, restriction enzyme, HPY188I,
          inter GIY-YIG nuclease, catalytic mechanism; HET: DNA;
          1.75A {Helicobacter pylori} PDB: 3or3_A
          Length = 180

 Score = 23.7 bits (50), Expect = 7.3
 Identities = 16/81 (19%), Positives = 35/81 (43%), Gaps = 7/81 (8%)

Query: 1  MADEPSDKKVKSYGGIPEAVFVDDVDKYMS-------LPENDRIEVVLKKLDEEHNKYKF 53
          MA   SD  +KS   + + +   D +           +P N   ++ +  +DE++ K + 
Sbjct: 11 MAKRKSDIILKSVDDLKDEIDYKDFEYKEYFNLLCELVPNNSLEKLEINAIDEKNMKNEG 70

Query: 54 MEYSLSLLGVLFSLVGSASAL 74
          + Y   + G +F +  S + +
Sbjct: 71 LVYVFVIQGKIFKIGHSITPI 91


  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
   0.313    0.134    0.365 

Gapped
Lambda     K      H
   0.267   0.0842    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,124,319
Number of extensions: 57890
Number of successful extensions: 104
Number of sequences better than 10.0: 1
Number of HSP's gapped: 104
Number of HSP's successfully gapped: 14
Length of query: 74
Length of database: 6,701,793
Length adjustment: 44
Effective length of query: 30
Effective length of database: 5,473,269
Effective search space: 164198070
Effective search space used: 164198070
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 51 (23.2 bits)