RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy11263
         (80 letters)



>1nvp_C Transcription initiation factor IIA beta chain; transcription
          regulation, DNA, complex, transcription/DNA complex;
          2.10A {Homo sapiens} SCOP: b.56.1.1
          Length = 76

 Score = 86.9 bits (215), Expect = 8e-25
 Identities = 49/69 (71%), Positives = 61/69 (88%), Gaps = 1/69 (1%)

Query: 13 GIEDEPLNSSDDVSEEDPA-LFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVF 71
           +E+EPLNS DDVS+E+   LFDT+N+VVCQYDKI RS+NKWKF+LKDGIMNLNG+D++F
Sbjct: 8  QVEEEPLNSEDDVSDEEGQELFDTENVVVCQYDKIHRSKNKWKFHLKDGIMNLNGRDYIF 67

Query: 72 LKANGDADW 80
           KA GDA+W
Sbjct: 68 SKAIGDAEW 76


>1nh2_C Transcription initiation factor IIA large chain;
          transcription/DNA; HET: 5IU; 1.90A {Saccharomyces
          cerevisiae} SCOP: b.56.1.1 PDB: 1ytf_C*
          Length = 79

 Score = 84.7 bits (209), Expect = 7e-24
 Identities = 24/68 (35%), Positives = 41/68 (60%), Gaps = 1/68 (1%)

Query: 14 IEDEPLNSSDDVSEEDP-ALFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFL 72
          +  E  +S DD    +       +N+++C YDK+TR++ +WK  LKDG++ +N  D+ F 
Sbjct: 11 VGSELDDSDDDYLISEGEEDGPDENLMLCLYDKVTRTKARWKCSLKDGVVTINRNDYTFQ 70

Query: 73 KANGDADW 80
          KA  +A+W
Sbjct: 71 KAQVEAEW 78


>1rm1_C Transcription initiation factor IIA large chain; yeast TFIIA, TBP
           protein, ATA-box DNA, transcription/DNA complex; 2.50A
           {Saccharomyces cerevisiae}
          Length = 286

 Score = 87.7 bits (215), Expect = 5e-23
 Identities = 24/68 (35%), Positives = 41/68 (60%), Gaps = 1/68 (1%)

Query: 14  IEDEPLNSSDDVSEEDP-ALFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFL 72
           +  E  +S DD    +       +N+++C YDK+TR++ +WK  LKDG++ +N  D+ F 
Sbjct: 218 VGSELDDSDDDYLISEGEEDGPDENLMLCLYDKVTRTKARWKCSLKDGVVTINRNDYTFQ 277

Query: 73  KANGDADW 80
           KA  +A+W
Sbjct: 278 KAQVEAEW 285


>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
           programmed cell death; HET: DTP; 6.90A {Drosophila
           melanogaster} PDB: 3iz8_A*
          Length = 1221

 Score = 28.7 bits (63), Expect = 0.17
 Identities = 14/63 (22%), Positives = 27/63 (42%), Gaps = 9/63 (14%)

Query: 14  IEDEPLNSSDD----VSEEDPALFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDF 69
           I+ E    S      + + D  L+  DN V  +Y+ ++R +   K  L+  ++ L     
Sbjct: 98  IKTEQRQPSMMTRMYIEQRDR-LY-NDNQVFAKYN-VSRLQPYLK--LRQALLELRPAKN 152

Query: 70  VFL 72
           V +
Sbjct: 153 VLI 155


>4e5n_A Thermostable phosphite dehydrogenase; D-2-hydroxyacid
           dehydrogenase, oxidoreductase; HET: NAD; 1.70A
           {Pseudomonas stutzeri} PDB: 4e5k_A* 4ebf_A* 4e5p_A*
           4e5m_A*
          Length = 330

 Score = 24.9 bits (55), Expect = 3.5
 Identities = 8/26 (30%), Positives = 11/26 (42%)

Query: 15  EDEPLNSSDDVSEEDPALFDTDNIVV 40
           E E    +D   + DPAL    N + 
Sbjct: 264 EMEDWARADRPQQIDPALLAHPNTLF 289


>2o5v_A DNA replication and repair protein RECF; ABC ATPase, walker A
           motif, P-loop, signature motif,
           replication/recombination complex; HET: DNA; 1.61A
           {Deinococcus radiodurans}
          Length = 359

 Score = 23.7 bits (52), Expect = 7.8
 Identities = 5/19 (26%), Positives = 9/19 (47%), Gaps = 3/19 (15%)

Query: 42  QYDKITRSRNKWKFYLKDG 60
           +Y++    RN     L+ G
Sbjct: 152 RYERTVSQRNA---ALRGG 167


>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein
           transport, G protein, proline isomerization, circular
           permutation; 2.20A {Saccharomyces cerevisiae}
          Length = 193

 Score = 23.5 bits (51), Expect = 9.5
 Identities = 7/23 (30%), Positives = 10/23 (43%)

Query: 48  RSRNKWKFYLKDGIMNLNGKDFV 70
           + R K   YLK     + G  F+
Sbjct: 103 KLRYKLSDYLKTRAKFVKGLIFM 125


>3dxo_A Uncharacterized snoal-like protein; putative isomerase of the
           snoal-like family; HET: MSE PGE; 2.70A {Agrobacterium
           tumefaciens str} SCOP: d.17.4.19
          Length = 121

 Score = 23.4 bits (50), Expect = 9.5
 Identities = 9/29 (31%), Positives = 11/29 (37%)

Query: 48  RSRNKWKFYLKDGIMNLNGKDFVFLKANG 76
            +R  W+    DG     G D V L   G
Sbjct: 79  FTRFSWRLISPDGDDVAGGTDVVSLNTEG 107


  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
   0.318    0.138    0.424 

Gapped
Lambda     K      H
   0.267   0.0786    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,263,127
Number of extensions: 61884
Number of successful extensions: 101
Number of sequences better than 10.0: 1
Number of HSP's gapped: 100
Number of HSP's successfully gapped: 11
Length of query: 80
Length of database: 6,701,793
Length adjustment: 49
Effective length of query: 31
Effective length of database: 5,333,664
Effective search space: 165343584
Effective search space used: 165343584
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 (21.7 bits)
S2: 51 (23.3 bits)