RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy6028
         (141 letters)



>3iz5_B 60S ribosomal protein L2 (L2P); eukaryotic ribosome,homology
           modeling,de novo modeling,ribos proteins,novel ribosomal
           proteins, ribosome; 5.50A {Triticum aestivum} PDB:
           3izr_B 2zkr_a
          Length = 261

 Score = 96.8 bits (240), Expect = 7e-27
 Identities = 6/142 (4%), Positives = 18/142 (12%), Gaps = 4/142 (2%)

Query: 2   VSSHLIWNIVKNNNAYLMK---ADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTA 58
           V             ++          +     E                       + T 
Sbjct: 4   VIRAQRKGAGSVFKSHTHHRKGPARFRSLDFGERNGYLKGVVTDIIHDPGRGAPLAKVTF 63

Query: 59  D-NKGFACVTKRATKKYKPGKAVIKQEWKSGPRRSLLKLRKYIVGNKYRKELTKAALRRA 117
                +    +                 +         L    V         +  +   
Sbjct: 64  RHPFRYKHQKELFVAAEGMYTGQFVYCGRRATLSIGNVLPIRSVPEGAVVCNVEHHVGDR 123

Query: 118 SAVLQSQKRAQIPAKKSNKKKA 139
               ++     I    +     
Sbjct: 124 GVFARASGDYAIVISHNPDNGT 145


>4a18_O RPL28, ribosomal protein L22; ribosome, eukaryotic initiation
           factor 6, EIF6, transla large ribosomal subunit, rRNA;
           3.52A {Tetrahymena thermophila} PDB: 4a19_O 4a1b_O
           4a1d_O
          Length = 134

 Score = 86.0 bits (212), Expect = 1e-22
 Identities = 34/135 (25%), Positives = 61/135 (45%), Gaps = 4/135 (2%)

Query: 4   SHLIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNKGF 63
           S L+W IVKNNNA+L+K + +   F+ +P ++    +    G  H   + ++  A  K  
Sbjct: 2   SQLVWEIVKNNNAFLVKNNGVA--FTTDPFSVTGRNTQVGLGFTHRHGVALKGGA--KQA 57

Query: 64  ACVTKRATKKYKPGKAVIKQEWKSGPRRSLLKLRKYIVGNKYRKELTKAALRRASAVLQS 123
              + R  + +K  K    +      +  + ++ K I G    K L + AL++     ++
Sbjct: 58  IATSLRKNQSHKVKKTGTIEAETLTVKGGVQRVAKVIRGRFQSKGLKQFALKKLVNFHRA 117

Query: 124 QKRAQIPAKKSNKKK 138
             RAQ   K  +K K
Sbjct: 118 NVRAQANLKAESKAK 132


>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 = 29.2 bits (65), Expect = 0.50
 Identities = 18/62 (29%), Positives = 24/62 (38%), Gaps = 22/62 (35%)

Query: 76  PGKAVIKQEWKSGPRRSLLKLRKYIVGNKYRKELTKAALRRASAVLQSQKRAQIPAKKSN 135
               V+     SGP +SL  L   +     RK   KA     S + QS    +IP   S 
Sbjct: 374 AKNLVV-----SGPPQSLYGLNLTL-----RKA--KA----PSGLDQS----RIPF--SE 411

Query: 136 KK 137
           +K
Sbjct: 412 RK 413



 Score = 27.3 bits (60), Expect = 2.2
 Identities = 7/35 (20%), Positives = 11/35 (31%), Gaps = 6/35 (17%)

Query: 99   YIVGNKYRKELTKAALRRASAVLQSQKRAQIPAKK 133
            Y+            AL   + VL   K  +I   +
Sbjct: 1853 YVAAG------DLRALDTVTNVLNFIKLQKIDIIE 1881


>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp
           contractIle protein-transport protein complex; 24.00A
           {Gallus gallus}
          Length = 1080

 Score = 27.0 bits (60), Expect = 3.0
 Identities = 11/44 (25%), Positives = 25/44 (56%)

Query: 90  RRSLLKLRKYIVGNKYRKELTKAALRRASAVLQSQKRAQIPAKK 133
           RR+ + +++Y+ G++ R   T     RA+ ++Q  +R  +  K+
Sbjct: 791 RRAAITIQRYVRGHQARCYATFLRRTRAAIIIQKFQRMYVVRKR 834


>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 = 26.1 bits (56), Expect = 4.2
 Identities = 5/21 (23%), Positives = 8/21 (38%), Gaps = 4/21 (19%)

Query: 23 NIKKWFSK----EPGNLPNLA 39
           +KK  +        + P LA
Sbjct: 21 ALKKLQASLKLYADDSAPALA 41



 Score = 25.3 bits (54), Expect = 6.8
 Identities = 8/25 (32%), Positives = 9/25 (36%), Gaps = 10/25 (40%)

Query: 68 KRATKK-------YKPGKA---VIK 82
          K+A KK       Y    A    IK
Sbjct: 19 KQALKKLQASLKLYADDSAPALAIK 43


>3f9m_A Glucokinase; hexokinase IV, ATP-binding, diabetes mellitus,
           mutation, glycolysis, nucleotide-binding, transfera;
           HET: GLC MRK; 1.50A {Homo sapiens} PDB: 3fgu_A* 3id8_A*
           3idh_A* 3vev_A* 3vf6_A* 3qic_A* 3s41_A* 4dhy_A* 4dch_A*
           3vey_A* 1v4s_A* 3a0i_X* 3fr0_A* 3goi_A* 3imx_A* 3h1v_X*
           1v4t_A*
          Length = 470

 Score = 25.8 bits (56), Expect = 6.9
 Identities = 4/19 (21%), Positives = 8/19 (42%)

Query: 14  NNAYLMKADNIKKWFSKEP 32
           N  Y+ +  N++     E 
Sbjct: 236 NACYMEEMQNVELVEGDEG 254


  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
   0.314    0.128    0.370 

Gapped
Lambda     K      H
   0.267   0.0658    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,947,671
Number of extensions: 99592
Number of successful extensions: 196
Number of sequences better than 10.0: 1
Number of HSP's gapped: 191
Number of HSP's successfully gapped: 15
Length of query: 141
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 57
Effective length of database: 4,356,429
Effective search space: 248316453
Effective search space used: 248316453
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 52 (24.0 bits)