RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy8931
         (95 letters)



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

 Score = 42.2 bits (99), Expect = 1e-06
 Identities = 20/82 (24%), Positives = 38/82 (46%), Gaps = 2/82 (2%)

Query: 5   KPIDLQVATRSGNKKVTLVNNLDVYGIDLKEFCKLCQHGVAASTCINMVNNAAQV-QVQG 63
             I +++  R+G K +T V  +     DLK   K+ +   A +  I       ++ Q+QG
Sbjct: 24  NYIHIRIQQRNGRKTLTTVQGVPE-EYDLKRILKVLKKDFACNGNIVKDPEMGEIIQLQG 82

Query: 64  NQIVFVHNLLTEKFNIQKRFIR 85
           +Q   V   +  +  +QK+ I+
Sbjct: 83  DQRAKVCEFMISQLGLQKKNIK 104


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

 Score = 38.4 bits (89), Expect = 4e-05
 Identities = 17/82 (20%), Positives = 34/82 (41%), Gaps = 2/82 (2%)

Query: 5   KPIDLQVATRSGNKKVTLVNNLDVYGIDLKEFCKLCQHGVAASTCINMVNNAAQV-QVQG 63
             I +++  R+G K +T V  +     D K+  K  +   A +  +       +V Q+QG
Sbjct: 42  DYIHIRIQQRNGRKTLTTVQGIA-DDYDKKKLVKAFKKKFACNGTVIEHPEYGEVIQLQG 100

Query: 64  NQIVFVHNLLTEKFNIQKRFIR 85
           +Q   +   L E    +   ++
Sbjct: 101 DQRKNICQFLVEIGLAKDDQLK 122


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

 Score = 36.8 bits (85), Expect = 1e-04
 Identities = 15/80 (18%), Positives = 32/80 (40%), Gaps = 2/80 (2%)

Query: 7  IDLQVATRSGNKKVTLVNNLDVYGIDLKEFCKLCQHGVAASTCINMVNNAAQV-QVQGNQ 65
          I ++V  R G K  T V  +     D ++  K  +  ++ +  I   +   +V ++ G+ 
Sbjct: 19 IHIRVEQRRGRKCFTTVEGIP-PEFDYEKIMKYWKKWLSCNATIVEEDEGKKVIKLNGDH 77

Query: 66 IVFVHNLLTEKFNIQKRFIR 85
             +   L+E+       I 
Sbjct: 78 RNQIQQFLSEEGIAAVDNIT 97


>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 = 34.8 bits (80), Expect = 0.001
 Identities = 10/63 (15%), Positives = 24/63 (38%), Gaps = 4/63 (6%)

Query: 14 RSGNKKVTLVNNLDVYGIDLKEFCKLCQHGVAASTCINMVNNAAQVQVQGNQIVFVHNLL 73
              K V L+  +D+   +L +     +        +        +++QG++   + +LL
Sbjct: 41 GRKGKGVCLITGVDLDDAELTKLAAELKKKCGCGGAV----KDGVIEIQGDKRDLLKSLL 96

Query: 74 TEK 76
            K
Sbjct: 97 EAK 99


>1vq8_Y 50S ribosomal protein L32E; ribosome 50S, protein-protein complex,
           RNA-RNA complex, PROT complex, peptidyl transferase
           reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A
           {Haloarcula marismortui} SCOP: c.9.2.1 PDB: 1vq4_Y*
           1vq5_Y* 1vq6_Y* 1vq7_Y* 1s72_Y* 1vq9_Y* 1vqk_Y* 1vql_Y*
           1vqm_Y* 1vqn_Y* 1vqo_Y* 1vqp_Y* 1yhq_Y* 1yi2_Y* 1yij_Y*
           1yit_Y* 1yj9_Y* 1yjn_Y* 1yjw_Y* 2otj_Y* ...
          Length = 241

 Score = 26.4 bits (57), Expect = 1.6
 Identities = 10/45 (22%), Positives = 16/45 (35%)

Query: 14  RSGNKKVTLVNNLDVYGIDLKEFCKLCQHGVAASTCINMVNNAAQ 58
            SG ++V + N  D+ G+D           V A     +   A  
Sbjct: 180 PSGFEEVRVHNVDDLEGVDGDTEAVRIASKVGARKRERIEEEAED 224


>2hlg_A Fruit-specific protein; beta antiparallel, plant protein; NMR
          {Lycopersicon esculentum}
          Length = 39

 Score = 24.3 bits (52), Expect = 2.3
 Identities = 12/28 (42%), Positives = 16/28 (57%), Gaps = 2/28 (7%)

Query: 24 NNLDVYGIDLKEFCKL--CQHGVAASTC 49
          +N D  GI L +FCK    Q+G+   TC
Sbjct: 8  SNSDCIGITLCQFCKEKTDQYGLTYRTC 35


>3opy_B 6-phosphofructo-1-kinase beta-subunit; ATP binding,
           fructose-6-phosphate bindi magnesium binding, citrate
           binding, ADP binding; HET: ATP; 3.05A {Pichia pastoris}
          Length = 941

 Score = 25.1 bits (55), Expect = 4.1
 Identities = 11/79 (13%), Positives = 32/79 (40%), Gaps = 9/79 (11%)

Query: 6   PIDLQVATRSGNKKVTLVNNLDVYGIDLKEFCKLCQHGVAASTCINMVNNAAQVQVQGNQ 65
           P+D   A+R   + V+ +           + C+  ++ ++      + + A  + +  +Q
Sbjct: 847 PMDRVRASRFAIRAVSFIE-------RHSDRCQTFKNSISFRQTDEITSTAVVLGIHKSQ 899

Query: 66  IVFV--HNLLTEKFNIQKR 82
           + F     L   + ++ +R
Sbjct: 900 LRFTPIRQLYDFESDVPRR 918


  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
   0.322    0.136    0.392 

Gapped
Lambda     K      H
   0.267   0.0796    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,338,377
Number of extensions: 65254
Number of successful extensions: 139
Number of sequences better than 10.0: 1
Number of HSP's gapped: 135
Number of HSP's successfully gapped: 15
Length of query: 95
Length of database: 6,701,793
Length adjustment: 62
Effective length of query: 33
Effective length of database: 4,970,691
Effective search space: 164032803
Effective search space used: 164032803
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (23.3 bits)