RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy4238
         (67 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 = 70.5 bits (172), Expect = 3e-17
 Identities = 33/59 (55%), Positives = 43/59 (72%)

Query: 9   RVRKQVVNIPSFVVRLDSQKHIDFSLNSPFGGGGAGRVKRKNLRKAASSAAAPAEEDEE 67
            V KQ+VNIPSF+VRLDS+KHIDF+  SPFGG   GRV R+N  + A ++   A+E +E
Sbjct: 135 AVGKQIVNIPSFMVRLDSEKHIDFAPTSPFGGARPGRVARRNAARKAEASGEAADEADE 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 = 69.7 bits (170), Expect = 5e-17
 Identities = 39/59 (66%), Positives = 47/59 (79%)

Query: 9   RVRKQVVNIPSFVVRLDSQKHIDFSLNSPFGGGGAGRVKRKNLRKAASSAAAPAEEDEE 67
           RV +Q+VNIPSF+VR++S+KHIDFSL SPFGGG  GRVKRKN +KA+       EEDEE
Sbjct: 137 RVGRQIVNIPSFMVRVESEKHIDFSLTSPFGGGPPGRVKRKNQKKASGGGGDGEEEDEE 195


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

 Score = 62.0 bits (150), Expect = 4e-14
 Identities = 28/47 (59%), Positives = 36/47 (76%)

Query: 9   RVRKQVVNIPSFVVRLDSQKHIDFSLNSPFGGGGAGRVKRKNLRKAA 55
           +V K +VN+PSF+VR DS+K IDF+  SP GGG  GR KRKN +K+A
Sbjct: 135 KVGKNLVNVPSFMVRTDSEKSIDFASTSPLGGGREGRTKRKNAKKSA 181


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

 Score = 46.9 bits (112), Expect = 3e-09
 Identities = 10/36 (27%), Positives = 17/36 (47%)

Query: 9  RVRKQVVNIPSFVVRLDSQKHIDFSLNSPFGGGGAG 44
          RV   VV  P+F+V    +  + +  +S   G  +G
Sbjct: 36 RVGPDVVTDPAFLVTRSMEDFVTWVDSSKISGPSSG 71


>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 = 28.4 bits (62), Expect = 0.13
 Identities = 7/22 (31%), Positives = 13/22 (59%), Gaps = 6/22 (27%)

Query: 47 KRKNLRKAASS----A--AAPA 62
          +++ L+K  +S    A  +APA
Sbjct: 18 EKQALKKLQASLKLYADDSAPA 39


>3kp1_A D-ornithine aminomutase E component; 5 aminomutase (OAM), metal
           binding protein; HET: PLP B12 5AD; 2.01A {Clostridium
           sticklandii} PDB: 3kow_A* 3koy_A* 3koz_A* 3kp0_A*
           3kox_A*
          Length = 763

 Score = 23.0 bits (49), Expect = 9.5
 Identities = 14/46 (30%), Positives = 19/46 (41%), Gaps = 2/46 (4%)

Query: 21  VVRLDSQKHIDFSLNSPFGGGGAGRVKRKNLRKAASSAAAPAEEDE 66
           V+R   Q H D  +     G G   + RK +R  A   A    E+E
Sbjct: 107 VIRTAGQSHYDGLIEGTPQGIGGVPITRKQVR--AQRKALDLIEEE 150


  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    0.134    0.383 

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: 1,052,908
Number of extensions: 49107
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: 7
Length of query: 67
Length of database: 6,701,793
Length adjustment: 38
Effective length of query: 29
Effective length of database: 5,640,795
Effective search space: 163583055
Effective search space used: 163583055
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: 51 (23.9 bits)