RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= 029752
         (188 letters)



>2ogh_A Eukaryotic translation initiation factor EIF-1; alpha-beta protein;
           NMR {Saccharomyces cerevisiae}
          Length = 108

 Score = 78.0 bits (192), Expect = 2e-19
 Identities = 26/82 (31%), Positives = 36/82 (43%), Gaps = 1/82 (1%)

Query: 87  GKIKKKDKKEVVIEKVVRNKRKCITTVKGLELFGVKLSDASKKLGKKFATGASVVKGPTE 146
           G  +      + I    RN RK +TTV+G+      L    K L K FA   ++VK P  
Sbjct: 16  GDDETATSNYIHIRIQQRNGRKTLTTVQGVPE-EYDLKRILKVLKKDFACNGNIVKDPEM 74

Query: 147 KEQIDVQGDISYDIVEFITDTW 168
            E I +QGD    + EF+    
Sbjct: 75  GEIIQLQGDQRAKVCEFMISQL 96


>2if1_A EIF1, SUI1; translation initiation factor; NMR {Homo sapiens} SCOP:
           d.64.1.1
          Length = 126

 Score = 77.7 bits (191), Expect = 5e-19
 Identities = 28/103 (27%), Positives = 45/103 (43%), Gaps = 3/103 (2%)

Query: 65  STGISSPASSAPKAEEVKHLPGGKIKKKDKKEVVIEKVVRNKRKCITTVKGLELFGVKLS 124
            + I +  S  P A+  K      +    +  + I    RN RK +TTV+G+        
Sbjct: 14  MSAIQNLHSFDPFADASK--GDDLLPAGTEDYIHIRIQQRNGRKTLTTVQGIA-DDYDKK 70

Query: 125 DASKKLGKKFATGASVVKGPTEKEQIDVQGDISYDIVEFITDT 167
              K   KKFA   +V++ P   E I +QGD   +I +F+ + 
Sbjct: 71  KLVKAFKKKFACNGTVIEHPEYGEVIQLQGDQRKNICQFLVEI 113


>2xzm_F EIF1; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB:
           2xzn_F
          Length = 101

 Score = 72.2 bits (177), Expect = 4e-17
 Identities = 19/83 (22%), Positives = 34/83 (40%), Gaps = 1/83 (1%)

Query: 92  KDKKEVVIEKVVRNKRKCITTVKGLELFGVKLSDASKKLGKKFATGASVVKGPTEKEQID 151
             +  + I    R  RKC TTV+G+           K   K  +  A++V+    K+ I 
Sbjct: 14  DFQTHIHIRVEQRRGRKCFTTVEGIPP-EFDYEKIMKYWKKWLSCNATIVEEDEGKKVIK 72

Query: 152 VQGDISYDIVEFITDTWPDVPET 174
           + GD    I +F+++      + 
Sbjct: 73  LNGDHRNQIQQFLSEEGIAAVDN 95


>1d1r_A Hypothetical 11.4 KD protein YCIH in PYRF-OSMB intergenic region;
           alpha-beta plait, open-faced beta sandwich,
           ferredoxin-like fold; NMR {Escherichia coli} SCOP:
           d.64.1.1
          Length = 116

 Score = 53.7 bits (129), Expect = 6e-10
 Identities = 17/82 (20%), Positives = 32/82 (39%), Gaps = 5/82 (6%)

Query: 85  PGGKIKKKDKKEVVIEKVVRNKRKCITTVKGLELFGVKLSDASKKLGKKFATGASVVKGP 144
                 K D    +  +    K K +  + G++L   +L+  + +L KK   G +V  G 
Sbjct: 22  AAPVRPKGDGVVRIQRQTSGRKGKGVCLITGVDLDDAELTKLAAELKKKCGCGGAVKDG- 80

Query: 145 TEKEQIDVQGDISYDIVEFITD 166
                I++QGD    +   +  
Sbjct: 81  ----VIEIQGDKRDLLKSLLEA 98


>3bbo_Q Ribosomal protein L18; large ribosomal subunit, spinach chloroplast
           ribosome, ribonucleoprotein particle, macromolecular
           complex; 9.40A {Spinacea oleracea}
          Length = 161

 Score = 29.7 bits (67), Expect = 0.33
 Identities = 8/44 (18%), Positives = 13/44 (29%), Gaps = 6/44 (13%)

Query: 65  STGISSPASSAPKAEEVKHLPGGKIKKKDKKEVVIEKVVRNKRK 108
           S  +      A     +   P  + K K ++E       R  R 
Sbjct: 15  SQQLPLLPKFAAAKPLLPSFPIIEAKAKTRRE------DRTARH 52


>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 = 27.5 bits (60), Expect = 3.3
 Identities = 13/63 (20%), Positives = 21/63 (33%), Gaps = 14/63 (22%)

Query: 9   RVLYCAVCSLPAEYCEFGPDL-----EKCKPWLIQNTPDLYPDLAEELNSREADKVGEQL 63
           + L C    LP E     P       E  +  L   T D +  +         DK+   +
Sbjct: 309 KYLDCRPQDLPREVLTTNPRRLSIIAESIRDGL--ATWDNWKHV-------NCDKLTTII 359

Query: 64  QST 66
           +S+
Sbjct: 360 ESS 362


  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    0.133    0.389 

Gapped
Lambda     K      H
   0.267   0.0684    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,878,726
Number of extensions: 165238
Number of successful extensions: 311
Number of sequences better than 10.0: 1
Number of HSP's gapped: 308
Number of HSP's successfully gapped: 13
Length of query: 188
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 100
Effective length of database: 4,244,745
Effective search space: 424474500
Effective search space used: 424474500
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: 54 (24.7 bits)