RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy13868
         (128 letters)



>3p1g_A Xenotropic murine leukemia virus-related virus (X H domain; XMRV,
           RNAse H, reverse transcriptase, transcription; 1.50A
           {Xenotropic mulv-related virus} PDB: 3v1q_A 3v1o_A
           3v1r_A* 2hb5_A
          Length = 165

 Score = 34.4 bits (79), Expect = 0.004
 Identities = 18/97 (18%), Positives = 36/97 (37%), Gaps = 10/97 (10%)

Query: 25  ETQLLKKGAVVWYTDGSKT----EAGSGAGIHCVKPRVNISLPLGTYTGVYQAEVLAIRN 80
             Q +      WYTDGS      +  +GA +      +     L   T   +AE++A+  
Sbjct: 15  TDQPIPDADYTWYTDGSSFLQEGQRRAGAAVTTETEVIWAR-ALPAGTSAQRAELIALTQ 73

Query: 81  CAEENINMGLSKREIYIFSDSQAALRAIGNFQTKSKI 117
             +         +++ +++DS+ A           +I
Sbjct: 74  ALKM-----AEGKKLNVYTDSRYAFATAHVHSEGREI 105


>3hst_B Protein RV2228C/MT2287; ribonuclease H1, RV2228C N-terminal domain,
           fusion protein, maltose binding protein, HYDR; HET: MLR
           TAR; 2.25A {Mycobacterium tuberculosis}
          Length = 141

 Score = 27.6 bits (62), Expect = 0.75
 Identities = 6/47 (12%), Positives = 17/47 (36%), Gaps = 7/47 (14%)

Query: 71  YQAEVLAIRNCAEENINMGLSKREIYIFSDSQAALRAI-GNFQTKSK 116
           Y+  +  + +  +          E  +  DS+  +  + G ++ K  
Sbjct: 51  YRGLIAGLDDAVKLGA------TEAAVLMDSKLVVEQMSGRWKVKHP 91


>2kq2_A Ribonuclease H-related protein; PSI, NESG, protein structure, APO
           enzyme, structural genomics, protein structure
           initiative; NMR {Desulfitobacterium hafniense dcb-2}
           PDB: 2kw4_A
          Length = 147

 Score = 27.3 bits (61), Expect = 0.91
 Identities = 17/97 (17%), Positives = 28/97 (28%), Gaps = 11/97 (11%)

Query: 30  KKGAVVWYTDGSKTEAGSGAGIHCVKPRVNISLPLGTY-------TGVYQAEVLAIRNCA 82
            +     YTDGS            VK                         E+ A     
Sbjct: 3   DRTEYDVYTDGSYVNGQYAWAYAFVKDGKVHYEDADVGKNPAAATMRNVAGEIAAALYAV 62

Query: 83  EENINMGLSKREIYIFSDSQAALR-AIGNFQTKSKIT 118
           ++   +G+   +I I  D       A G ++ K++ T
Sbjct: 63  KKASQLGV---KIRILHDYAGIAFWATGEWKAKNEFT 96


>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 = 27.6 bits (60), Expect = 0.98
 Identities = 8/19 (42%), Positives = 10/19 (52%), Gaps = 2/19 (10%)

Query: 25 ETQLLKK--GAVVWYTDGS 41
          E Q LKK   ++  Y D S
Sbjct: 18 EKQALKKLQASLKLYADDS 36


  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
   0.314    0.131    0.387 

Gapped
Lambda     K      H
   0.267   0.0623    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,919,849
Number of extensions: 104443
Number of successful extensions: 110
Number of sequences better than 10.0: 1
Number of HSP's gapped: 110
Number of HSP's successfully gapped: 4
Length of query: 128
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 45
Effective length of database: 4,384,350
Effective search space: 197295750
Effective search space used: 197295750
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 (23.6 bits)