RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy2167
         (79 letters)



>1zg2_A Hypothetical UPF0213 protein BH0048; BHR2, structure,
           autostructure, northeast structural genomics consortium,
           PSI; NMR {Bacillus halodurans}
          Length = 107

 Score = 23.8 bits (52), Expect = 5.4
 Identities = 7/27 (25%), Positives = 10/27 (37%)

Query: 24  RARKEALISSDHVVQTLLYELSEHRRK 50
           R +KE L+S          +LS     
Sbjct: 76  RRKKEQLVSLKGGPYENTTKLSTTLEH 102


>3psf_A Transcription elongation factor SPT6; nucleus; 2.59A {Saccharomyces
           cerevisiae}
          Length = 1030

 Score = 24.5 bits (53), Expect = 5.7
 Identities = 6/37 (16%), Positives = 10/37 (27%), Gaps = 7/37 (18%)

Query: 22  INRARKEALISSDHVVQTL-------LYELSEHRRKL 51
           I   R+  + S +     L       +  L      L
Sbjct: 162 IYAYRRNYISSREKDGFLLTEDDLWDIVSLDIEFHSL 198


>1iru_G 20S proteasome; cell cycle, immune response, proteolysis,
           ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4
           PDB: 3unb_F* 3une_F 3unf_F* 3unh_F
          Length = 254

 Score = 23.8 bits (52), Expect = 7.1
 Identities = 14/66 (21%), Positives = 22/66 (33%), Gaps = 17/66 (25%)

Query: 18  ATNIINRARKEAL---------ISSDHVVQTL-----LYELSEHRRKLGS---IISYDTV 60
           A ++ + AR+EA          I   H+   +      Y L    R  G    + SY   
Sbjct: 84  ARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFGCSFMLGSYSVN 143

Query: 61  CVPLVY 66
               +Y
Sbjct: 144 DGAQLY 149


>3cuq_B Vacuolar protein-sorting-associated protein 36; ESCRT, MBV, VPS,
           nucleus, protein transport, transc transcription
           regulation, transport, endosome; 2.61A {Homo sapiens}
           PDB: 2zme_B
          Length = 218

 Score = 23.8 bits (51), Expect = 7.5
 Identities = 9/28 (32%), Positives = 14/28 (50%)

Query: 13  MPLVWATNIINRARKEALISSDHVVQTL 40
           M L     ++NRAR   L+S + +V   
Sbjct: 96  MSLTEVYCLVNRARGMELLSPEDLVNAC 123


>1ryp_A 20S proteasome; multicatalytic proteinase, protein degradation,
           antigen processing, hydrolase, protease; 1.90A
           {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_G*
           1g65_G 1vsy_A 2f16_G* 2fak_G* 2fny_G* 2gpl_G* 3d29_G*
           3dy3_G* 3dy4_G* 3e47_G* 3gpj_G* 3gpt_G* 3gpw_G* 3hye_G*
           3l5q_A 3mg0_G* 3mg4_G* 3oeu_G* 3oev_G* ...
          Length = 243

 Score = 23.7 bits (52), Expect = 8.3
 Identities = 14/56 (25%), Positives = 20/56 (35%), Gaps = 20/56 (35%)

Query: 18  ATNIINRARKEALISSDHVVQTLLYELSEHRRKLGSIISYDTVC-----VPLVYTQ 68
           A N   RA+ EA               +E R K G  +  D +      +  +YTQ
Sbjct: 81  ARNAALRAKAEA---------------AEFRYKYGYDMPCDVLAKRMANLSQIYTQ 121


>2l2o_A UPF0727 protein C6ORF115; HSPC280, winged helix, unknown
          function; NMR {Homo sapiens}
          Length = 89

 Score = 23.2 bits (50), Expect = 8.6
 Identities = 7/34 (20%), Positives = 13/34 (38%), Gaps = 10/34 (29%)

Query: 24 RARKEALIS----------SDHVVQTLLYELSEH 47
           A++  +++           D V   LL +L  H
Sbjct: 52 AAKRRKIVTYPGELLLQGVHDDVDIILLQDLEHH 85


>3psi_A Transcription elongation factor SPT6; nucleus; 3.30A {Saccharomyces
           cerevisiae}
          Length = 1219

 Score = 23.7 bits (51), Expect = 9.7
 Identities = 6/37 (16%), Positives = 10/37 (27%), Gaps = 7/37 (18%)

Query: 22  INRARKEALISSDHVVQTL-------LYELSEHRRKL 51
           I   R+  + S +     L       +  L      L
Sbjct: 159 IYAYRRNYISSREKDGFLLTEDDLWDIVSLDIEFHSL 195


  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    0.133    0.408 

Gapped
Lambda     K      H
   0.267   0.0609    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,160,821
Number of extensions: 50946
Number of successful extensions: 100
Number of sequences better than 10.0: 1
Number of HSP's gapped: 100
Number of HSP's successfully gapped: 8
Length of query: 79
Length of database: 6,701,793
Length adjustment: 48
Effective length of query: 31
Effective length of database: 5,361,585
Effective search space: 166209135
Effective search space used: 166209135
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 (22.0 bits)
S2: 51 (23.7 bits)