RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy7990
         (76 letters)



>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 = 74.8 bits (183), Expect = 1e-18
 Identities = 32/76 (42%), Positives = 47/76 (61%)

Query: 1   MCSALFLSTQYWEHQGPGVRKQVVNIPSFVVRLDSQKHIDFSLNSPFGGGGTGRVKRKNL 60
           +  ++  +      +   V KQ+VNIPSF+VRLDS+KHIDF+  SPFGG   GRV R+N 
Sbjct: 118 LAKSVHHARVLITQRHIAVGKQIVNIPSFMVRLDSEKHIDFAPTSPFGGARPGRVARRNA 177

Query: 61  RKAASSATAPTEEDEE 76
            + A ++    +E +E
Sbjct: 178 ARKAEASGEAADEADE 193


>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 = 72.0 bits (176), Expect = 9e-18
 Identities = 39/76 (51%), Positives = 51/76 (67%)

Query: 1   MCSALFLSTQYWEHQGPGVRKQVVNIPSFVVRLDSQKHIDFSLNSPFGGGGTGRVKRKNL 60
           M  ++  +      +   V +Q+VNIPSF+VR++S+KHIDFSL SPFGGG  GRVKRKN 
Sbjct: 120 MAKSIHHARVLIRQRHIRVGRQIVNIPSFMVRVESEKHIDFSLTSPFGGGPPGRVKRKNQ 179

Query: 61  RKAASSATAPTEEDEE 76
           +KA+       EEDEE
Sbjct: 180 KKASGGGGDGEEEDEE 195


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

 Score = 66.6 bits (162), Expect = 9e-16
 Identities = 29/64 (45%), Positives = 41/64 (64%)

Query: 1   MCSALFLSTQYWEHQGPGVRKQVVNIPSFVVRLDSQKHIDFSLNSPFGGGGTGRVKRKNL 60
           + +++  S      +   V K +VN+PSF+VR DS+K IDF+  SP GGG  GR KRKN 
Sbjct: 118 LANSIHHSRVLIRQRHIKVGKNLVNVPSFMVRTDSEKSIDFASTSPLGGGREGRTKRKNA 177

Query: 61  RKAA 64
           +K+A
Sbjct: 178 KKSA 181


>2cqj_A BRMS2, U3 small nucleolar ribonucleoprotein protein IMP3 homolog;
          S4 domain, structural genomics, NPPSFA; NMR {Homo
          sapiens}
          Length = 71

 Score = 48.9 bits (117), Expect = 8e-10
 Identities = 12/53 (22%), Positives = 21/53 (39%)

Query: 1  MCSALFLSTQYWEHQGPGVRKQVVNIPSFVVRLDSQKHIDFSLNSPFGGGGTG 53
          M   L  +  + E     V   VV  P+F+V    +  + +  +S   G  +G
Sbjct: 19 MAQHLQAAVAFVEQGHVRVGPDVVTDPAFLVTRSMEDFVTWVDSSKISGPSSG 71


>3dzo_A Rhoptry kinase domain; parasitic disease, transferase, structural
          genomics, structural genomics consortium, SGC; 1.80A
          {Toxoplasma gondii}
          Length = 413

 Score = 23.9 bits (51), Expect = 6.1
 Identities = 3/31 (9%), Positives = 6/31 (19%)

Query: 27 PSFVVRLDSQKHIDFSLNSPFGGGGTGRVKR 57
          P  V     ++       +  G         
Sbjct: 66 PFRVESELGERPRTLVRGTVLGQEDPYAYLE 96


>2vqe_D 30S ribosomal protein S4; tRNA-binding, rRNA-binding,
           metal-binding, zinc-finger, translation; HET: TM2 PAR;
           2.5A {Thermus thermophilus} SCOP: d.66.1.2 PDB: 1hnw_D*
           1hnx_D* 1hnz_D* 1ibk_D* 1fka_D* 1ibm_D 1xmo_D* 1ibl_D*
           1xnq_D* 1xnr_D* 1yl4_G 2b64_D* 2b9m_D* 2b9o_D* 2hgi_G
           2hgp_G 2hgr_G 2hhh_D* 1xmq_D* 2j02_D* ...
          Length = 209

 Score = 23.4 bits (51), Expect = 9.6
 Identities = 6/14 (42%), Positives = 10/14 (71%)

Query: 19  VRKQVVNIPSFVVR 32
           V  + V++PS+ VR
Sbjct: 128 VNGRRVDLPSYRVR 141


  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
   0.315    0.131    0.386 

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: 1,119,350
Number of extensions: 50961
Number of successful extensions: 64
Number of sequences better than 10.0: 1
Number of HSP's gapped: 64
Number of HSP's successfully gapped: 6
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: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 51 (23.9 bits)