RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy10746
         (59 letters)



>1k78_A Paired box protein PAX5; paired domain, ETS domain, transcription
          factor, transcription/DNA complex; 2.25A {Homo sapiens}
          SCOP: a.4.1.5 a.4.1.5 PDB: 1mdm_A 6pax_A
          Length = 149

 Score = 66.7 bits (162), Expect = 2e-16
 Identities = 33/48 (68%), Positives = 35/48 (72%)

Query: 1  MRKYTNVTSKNIIKWSHGGVNQLGGVFVNGRPLPDVVRQRIVELAHNG 48
          M    N  +    +  HGGVNQLGGVFVNGRPLPDVVRQRIVELAH G
Sbjct: 1  MDLEKNYPTPRTSRTGHGGVNQLGGVFVNGRPLPDVVRQRIVELAHQG 48


>2k27_A Paired box protein PAX-8; paired domain, solution structure,
          triple frequency, 3D NMR, induced FIT, alternative
          splicing, developmental protein; NMR {Homo sapiens}
          Length = 159

 Score = 65.2 bits (158), Expect = 1e-15
 Identities = 27/33 (81%), Positives = 30/33 (90%)

Query: 16 SHGGVNQLGGVFVNGRPLPDVVRQRIVELAHNG 48
           HGG+NQLGG FVNGRPLP+VVRQRIV+LAH G
Sbjct: 9  GHGGLNQLGGAFVNGRPLPEVVRQRIVDLAHQG 41


>1pdn_C Protein (PRD paired); protein-DNA complex, double helix, PAX,
          paired domain, DNA-binding protein, gene regulation/DNA
          complex; HET: DNA; 2.50A {Drosophila melanogaster}
          SCOP: a.4.1.5
          Length = 128

 Score = 64.0 bits (155), Expect = 2e-15
 Identities = 21/32 (65%), Positives = 27/32 (84%)

Query: 17 HGGVNQLGGVFVNGRPLPDVVRQRIVELAHNG 48
           G VNQLGGVF+NGRPLP+ +R +IVE+A +G
Sbjct: 2  QGRVNQLGGVFINGRPLPNNIRLKIVEMAADG 33


>1jg8_A L-ALLO-threonine aldolase; glycine biosynthesis, pyridoxal-5'-
           phosphate, calcium binding site, structural genomics,
           PSI; HET: LLP; 1.80A {Thermotoga maritima} SCOP:
           c.67.1.1 PDB: 1lw4_A* 1lw5_A* 1m6s_A* 2fm1_A*
          Length = 347

 Score = 24.6 bits (54), Expect = 1.8
 Identities = 12/36 (33%), Positives = 15/36 (41%), Gaps = 6/36 (16%)

Query: 12  IIKWSHGGVNQLGGVFV------NGRPLPDVVRQRI 41
           I  +  G +  L GV        NG   PD VR+ I
Sbjct: 88  IFWYEVGAMAVLSGVMPHPVPGKNGAMDPDDVRKAI 123


>3gqb_A V-type ATP synthase alpha chain; A3B3, V-ATPase, ATP synthesis,
           ATP-binding, hydrogen ION TRA hydrolase, ION transport;
           2.80A {Thermus thermophilus HB8} PDB: 3a5c_A* 3a5d_A
           3j0j_A* 1um2_C
          Length = 578

 Score = 24.3 bits (53), Expect = 2.5
 Identities = 10/33 (30%), Positives = 17/33 (51%)

Query: 7   VTSKNIIKWSHGGVNQLGGVFVNGRPLPDVVRQ 39
           VT +++ KWS+  V    G    G  + DV+ +
Sbjct: 236 VTQQSLAKWSNADVVVYVGSGERGNEMTDVLVE 268


>3mfy_A V-type ATP synthase alpha chain; A-type ATP synthase, P loop,
           phenylalanine mutant, hydrolase; 2.35A {Pyrococcus
           horikoshii} PDB: 3i4l_A* 3i72_A 3i73_A* 3p20_A 3ikj_A
           3qg1_A 3nd8_A 3nd9_A 1vdz_A 3qia_A 3qjy_A 3m4y_A 3se0_A
           3sdz_A
          Length = 588

 Score = 23.9 bits (52), Expect = 3.8
 Identities = 10/33 (30%), Positives = 14/33 (42%)

Query: 7   VTSKNIIKWSHGGVNQLGGVFVNGRPLPDVVRQ 39
           VT   + KWS   V    G    G  + DV+ +
Sbjct: 242 VTQHQLAKWSDAQVVIYIGCGERGNEMTDVLEE 274


>2zkq_i 40S ribosomal protein S16E; protein-RNA complex, 40S ribosomal
          subunit, ribosomal protein/RNA complex; 8.70A {Canis
          familiaris}
          Length = 146

 Score = 23.8 bits (52), Expect = 4.2
 Identities = 9/24 (37%), Positives = 15/24 (62%), Gaps = 4/24 (16%)

Query: 24 GGVFVNGRPL----PDVVRQRIVE 43
          G + VNGRPL    P  ++ +++E
Sbjct: 30 GLIKVNGRPLEMIEPRTLQYKLLE 53


  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
   0.320    0.138    0.417 

Gapped
Lambda     K      H
   0.267   0.0667    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 943,412
Number of extensions: 43178
Number of successful extensions: 197
Number of sequences better than 10.0: 1
Number of HSP's gapped: 197
Number of HSP's successfully gapped: 7
Length of query: 59
Length of database: 6,701,793
Length adjustment: 30
Effective length of query: 29
Effective length of database: 5,864,163
Effective search space: 170060727
Effective search space used: 170060727
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 (23.6 bits)