RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy13912
         (76 letters)



>3iz6_C 40S ribosomal protein S9 (S4P); eukaryotic ribosome,homology
          modeling,de novo modeling,ribos proteins,novel
          ribosomal proteins, ribosome; 5.50A {Triticum aestivum}
          Length = 195

 Score = 69.3 bits (169), Expect = 1e-16
 Identities = 7/52 (13%), Positives = 23/52 (44%)

Query: 1  MVRKLKYHEQKLLKKVDFISWEADNNLHEVKIMRRFGIQKRQDYTTAGFKPN 52
          M R  + + +    K     +E +    E+K++  +G++ +++     +  +
Sbjct: 1  MPRAPRTYSKTYSTKKPRRPYEKERLDAELKLVGEYGLRCKRELWRVQYALS 52


>3u5c_J 40S ribosomal protein S9-A; translation, ribosome, ribosomal,
          ribosomal R ribosomal protein, eukaryotic ribosome,
          RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB:
          3izb_C 3o30_E 3o2z_E 3u5g_J 1s1h_D 3jyv_D*
          Length = 197

 Score = 43.2 bits (101), Expect = 9e-07
 Identities = 8/52 (15%), Positives = 22/52 (42%), Gaps = 2/52 (3%)

Query: 1  MVRKLKYHEQKLLKKVDFISWEADNNLHEVKIMRRFGIQKRQDYTTAGFKPN 52
          M R  + + +          +E+     E+K+   FG++ +++     F+ +
Sbjct: 1  MPRAPRTYSKTY--STPKRPYESSRLDAELKLAGEFGLKNKKEIYRISFQLS 50


>2xzm_D Ribosomal protein S4 containing protein; ribosome, translation;
          3.93A {Tetrahymena thermophila} PDB: 2xzn_D
          Length = 181

 Score = 33.9 bits (77), Expect = 0.002
 Identities = 5/25 (20%), Positives = 16/25 (64%)

Query: 21 WEADNNLHEVKIMRRFGIQKRQDYT 45
          +E +   +E+K++  FG++ +++  
Sbjct: 19 YEKERLDNEMKLIGTFGLKNKREVW 43


>2o0b_A 3-phosphoshikimate 1-carboxyvinyltransferase; shikimate pathway,
           EPSP synthase, structural genomics; HET: S3P; 1.15A
           {Mycobacterium tuberculosis} PDB: 2o0d_A* 2o0e_A*
           2o0x_A* 2o0z_A* 2o15_A 2bjb_A
          Length = 450

 Score = 26.4 bits (59), Expect = 0.83
 Identities = 5/33 (15%), Positives = 11/33 (33%), Gaps = 2/33 (6%)

Query: 30  VKIMRRFGIQ-KRQDYTTAGFKPNPV-PPELTV 60
             ++R+ G+            +P PV      +
Sbjct: 204 AAMLRQAGVDIDDSTPNRWQVRPGPVAARRWDI 236


>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 = 24.1 bits (51), Expect = 4.9
 Identities = 9/63 (14%), Positives = 16/63 (25%), Gaps = 37/63 (58%)

Query: 9  EQKLLKKVDFISWEADNNLHEVKIMRRFGIQKRQDYTTAGFKPNPVPPELTVLLHFYLCF 68
          E++ LKK+         +L   K+                +  +  P             
Sbjct: 18 EKQALKKL-------QASL---KL----------------YADDSAP-----------AL 40

Query: 69 AIN 71
          AI 
Sbjct: 41 AIK 43


>3mso_A Steroid delta-isomerase; structural genomics, joint center for
           structural genomics, J protein structure initiative,
           PSI-2; HET: MSE; 2.57A {Pseudomonas aeruginosa}
          Length = 143

 Score = 24.3 bits (52), Expect = 5.1
 Identities = 7/29 (24%), Positives = 16/29 (55%)

Query: 7   YHEQKLLKKVDFISWEADNNLHEVKIMRR 35
              ++ LK +D I ++ D  + + ++M R
Sbjct: 90  RVGERELKGIDMIRFDDDGRIVDFEVMVR 118


  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
   0.327    0.142    0.454 

Gapped
Lambda     K      H
   0.267   0.0520    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,233,974
Number of extensions: 58282
Number of successful extensions: 149
Number of sequences better than 10.0: 1
Number of HSP's gapped: 149
Number of HSP's successfully gapped: 9
Length of query: 76
Length of database: 6,701,793
Length adjustment: 45
Effective length of query: 31
Effective length of database: 5,445,348
Effective search space: 168805788
Effective search space used: 168805788
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 51 (23.9 bits)