RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy10589
         (66 letters)



>3eud_A Protein SHQ1; CS domain HSP20-like domain SHQ1 H/ACA snoRNP
          ribosome biogenesis, nucleus, nuclear protein; HET:
          MSE; 2.40A {Saccharomyces cerevisiae}
          Length = 115

 Score = 62.9 bits (153), Expect = 4e-15
 Identities = 16/50 (32%), Positives = 24/50 (48%), Gaps = 2/50 (4%)

Query: 19 MLTPMFELLQSEEDVTIIIKAPYANI--ADTEVYVEDTDFRFSSSPYYLR 66
          M+TP F + Q EE + + I            E+ +++    F  SPYYLR
Sbjct: 15 MITPRFSITQDEEFIFLKIFISNIRFSAVGLEIIIQENMIIFHLSPYYLR 64


>2k8q_A Protein SHQ1; beta-sandwich, CS domain, nucleus, structural
          protein; NMR {Saccharomyces cerevisiae}
          Length = 134

 Score = 59.6 bits (144), Expect = 1e-13
 Identities = 15/49 (30%), Positives = 23/49 (46%), Gaps = 2/49 (4%)

Query: 20 LTPMFELLQSEEDVTIIIKAPYANI--ADTEVYVEDTDFRFSSSPYYLR 66
          +TP F + Q EE + + I            E+ +++    F  SPYYLR
Sbjct: 2  ITPRFSITQDEEFIFLKIFISNIRFSAVGLEIIIQENMIIFHLSPYYLR 50


>2c81_A Glutamine-2-deoxy-scyllo-inosose aminotransferase; SMAT, butirosin,
           aminoglycoside antibiotics; HET: PMP; 1.7A {Bacillus
           circulans} PDB: 2c7t_A*
          Length = 418

 Score = 24.6 bits (54), Expect = 2.4
 Identities = 4/23 (17%), Positives = 11/23 (47%), Gaps = 1/23 (4%)

Query: 17  VIMLTPMFELLQSEEDVTIIIKA 39
            I++     LL     +++++ A
Sbjct: 385 SIVI-HHAILLAEPSHLSLLVDA 406


>4dgw_C PRE-mRNA-splicing factor PRP11; zinc finger; 3.11A {Saccharomyces
           cerevisiae}
          Length = 231

 Score = 23.9 bits (51), Expect = 4.3
 Identities = 11/69 (15%), Positives = 24/69 (34%), Gaps = 21/69 (30%)

Query: 2   LPPMFELVQSEEDQAVIMLTPMFELLQSEEDVT---IIIKA-PYANIA----DTEVYVED 53
           +PP+  +V   E             L   +      ++I   P+ NIA      E+   +
Sbjct: 141 VPPLIRIVSGLE-------------LSDTKQKGKKFLVIAYEPFENIAIELPPNEILFSE 187

Query: 54  TDFRFSSSP 62
            +   +++ 
Sbjct: 188 NNDMDNNND 196


>1b9h_A AHBA synthase, protein (3-amino-5-hydroxybenzoic acid synthase);
           rifamycin biosynthesis (RIFD gene); HET: PLP; 2.00A
           {Amycolatopsis mediterranei} SCOP: c.67.1.4 PDB: 1b9i_A*
          Length = 388

 Score = 23.3 bits (51), Expect = 7.4
 Identities = 3/39 (7%), Positives = 11/39 (28%)

Query: 1   MLPPMFELVQSEEDQAVIMLTPMFELLQSEEDVTIIIKA 39
           +         ++   +  +      LL  E ++    + 
Sbjct: 342 VDAIARRCPNTDAISSDCVWLHHRVLLAGEPELHATAEI 380


>1q8f_A Pyrimidine nucleoside hydrolase; open alpha-beta structure,
           NH-fold; 1.70A {Escherichia coli} SCOP: c.70.1.1 PDB:
           3b9x_A* 3mkn_A* 3mkm_A*
          Length = 313

 Score = 23.3 bits (51), Expect = 8.0
 Identities = 8/20 (40%), Positives = 14/20 (70%)

Query: 26  LLQSEEDVTIIIKAPYANIA 45
           L+ S+ D+T++   P +NIA
Sbjct: 112 LMASDGDITLVPVGPLSNIA 131


>3epw_A IAG-nucleoside hydrolase; rossmann fold, active site loops,
           aromatic stacking; HET: JMQ; 1.30A {Trypanosoma vivax}
           PDB: 3epx_A* 1hoz_A 1hp0_A* 2ff1_A* 2ff2_A* 1kic_A*
           1kie_A* 1r4f_A* 3b9g_A*
          Length = 338

 Score = 23.1 bits (50), Expect = 8.4
 Identities = 9/20 (45%), Positives = 14/20 (70%)

Query: 26  LLQSEEDVTIIIKAPYANIA 45
           ++ SEE VTI +  P +N+A
Sbjct: 136 VMNSEEKVTICVTGPLSNVA 155


>2ght_A Carboxy-terminal domain RNA polymerase II polypeptide A small
           phosphatase 1; protein-peptide complex, HAD superfamily,
           hydrolase; HET: SEP; 1.80A {Homo sapiens} PDB: 2ghq_A*
           3pgl_A* 1t9z_A* 1ta0_A* 3l0c_A 3l0y_A 3l0b_A* 2q5e_A
          Length = 181

 Score = 23.1 bits (50), Expect = 9.3
 Identities = 8/27 (29%), Positives = 13/27 (48%)

Query: 12  EEDQAVIMLTPMFELLQSEEDVTIIIK 38
             D  +  L P FE L   +DV  +++
Sbjct: 154 MSDTELHDLLPFFEQLSRVDDVYSVLR 180


>1yoe_A Hypothetical protein YBEK; pyrimidine nucleoside hydrolase,
           bacterial nucleosidase, RIB enzyme-product complex,
           hydrolase; HET: RIB; 1.78A {Escherichia coli} PDB:
           3g5i_A*
          Length = 322

 Score = 22.9 bits (50), Expect = 9.6
 Identities = 9/20 (45%), Positives = 12/20 (60%)

Query: 26  LLQSEEDVTIIIKAPYANIA 45
           L +S E VTI+   P  N+A
Sbjct: 123 LRESAEPVTIVSTGPQTNVA 142


  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
   0.319    0.135    0.374 

Gapped
Lambda     K      H
   0.267   0.0515    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 975,223
Number of extensions: 43629
Number of successful extensions: 94
Number of sequences better than 10.0: 1
Number of HSP's gapped: 92
Number of HSP's successfully gapped: 9
Length of query: 66
Length of database: 6,701,793
Length adjustment: 37
Effective length of query: 29
Effective length of database: 5,668,716
Effective search space: 164392764
Effective search space used: 164392764
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 (21.8 bits)
S2: 51 (23.9 bits)