RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy16397
         (60 letters)



>3sg8_A APH(2'')-ID; antibiotic resistance enzyme, transferase,
           aminoglycoside, phosphorylation, transferase-antibiotic
           complex; HET: TOY; 1.80A {Enterococcus casseliflavus}
           PDB: 3sg9_A* 3n4v_A 3n4t_A 3n4u_A 3r81_A* 3r80_A*
           3r7z_A* 3r82_A* 3vcq_A* 4dbx_A 4de4_A* 4dfb_A* 4dfu_A*
           4dt9_A* 4dt8_A* 4dtb_A* 3sgc_A 4dta_A* 3lzh_A
          Length = 304

 Score = 25.5 bits (56), Expect = 0.91
 Identities = 5/22 (22%), Positives = 10/22 (45%), Gaps = 4/22 (18%)

Query: 9   TEGTLTAMLDFYIDNEMIHIAD 30
            + T+  ++DF        I+D
Sbjct: 208 EKNTICGIIDF----GDAAISD 225


>3fsi_A RT, reverse transcriptase domain; transferase/DNA MMLV RT,
           protein-DNA complex, drug-DNA complex; HET: OWL; 1.75A
           {Moloney murine leukemia virus} PDB: 1d1u_A 1n4l_A*
           1ztt_A 2fjv_A* 2fjw_A 2fjx_A* 2fvp_A 2fvq_A 2fvr_A
           2fvs_A 2r2r_A* 2r2s_A* 2r2t_A* 2r2u_A* 1ztw_A* 1i6j_A
           1qaj_A* 1d0e_A* 1nnd_A 1mml_A ...
          Length = 255

 Score = 25.7 bits (56), Expect = 0.98
 Identities = 5/18 (27%), Positives = 10/18 (55%)

Query: 43  RKIIKFEELNKKLQAIKI 60
           R +    E+NK+++ I  
Sbjct: 87  RPVQDLREVNKRVEDIHP 104


>2zd1_B P51 RT; P51/P66, hetero dimer, NNRTI, nonnucleoside inhibitor,
          AIDS, HIV, rilpivirine, diarylpyrimidine, DAPY, DNA
          recombination; HET: T27; 1.80A {Human immunodeficiency
          virus 1} SCOP: e.8.1.2 PDB: 2ykm_B* 2ykn_B* 2ze2_B*
          3bgr_B* 3ig1_B* 3irx_B* 3is9_B* 3qo9_B* 3v4i_B* 3v6d_B*
          3v81_B* 3klf_B* 3kk1_B* 3kjv_B* 3kk2_B* 3kk3_B* 2be2_B*
          1n5y_B* 1bqm_B* 1n6q_B* ...
          Length = 428

 Score = 25.1 bits (55), Expect = 1.3
 Identities = 8/14 (57%), Positives = 11/14 (78%)

Query: 43 RKIIKFEELNKKLQ 56
          RK++ F ELNK+ Q
Sbjct: 72 RKLVDFRELNKRTQ 85


>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR;
           fatty acid synthase, acyl-carrier-protein, beta-ketoacyl
           RED beta-ketoacyl synthase, dehydratase; 4.00A
           {Saccharomyces cerevisiae}
          Length = 1688

 Score = 25.2 bits (55), Expect = 1.5
 Identities = 6/23 (26%), Positives = 8/23 (34%), Gaps = 5/23 (21%)

Query: 28  IADTKVAHRYGDFF-----IRKI 45
           + D  V  +Y         IR I
Sbjct: 885 VDDKDVKAKYETSILEHSGIRLI 907


>1mu2_A HIV-2 RT; HIV-2 reverse transcriptase, AIDS, polymerase, drug
          design, transferase; 2.35A {Human immunodeficiency
          virus 2} SCOP: c.55.3.1 e.8.1.2 PDB: 1mu2_B
          Length = 555

 Score = 23.9 bits (52), Expect = 3.2
 Identities = 8/14 (57%), Positives = 9/14 (64%)

Query: 43 RKIIKFEELNKKLQ 56
          R +I F ELNK  Q
Sbjct: 72 RMLIDFRELNKVTQ 85


>2zd1_A Reverse transcriptase/ribonuclease H; P51/P66, hetero dimer,
          NNRTI, nonnucleoside inhibitor, AIDS, HIV, rilpivirine,
          diarylpyrimidine, DAPY, DNA recombination; HET: T27;
          1.80A {Human immunodeficiency virus 1} PDB: 3is9_A*
          3irx_A* 2ze2_A* 3bgr_A* 3qlh_A* 3klf_A* 3qo9_A* 1dlo_A
          1bqm_A 2be2_A* 1s6q_A* 1s6p_A* 1s9g_A* 1suq_A* 2b5j_A*
          2b6a_A* 2ban_A* 1s9e_A* 1hni_A* 1hnv_A* ...
          Length = 557

 Score = 24.0 bits (52), Expect = 3.5
 Identities = 8/14 (57%), Positives = 11/14 (78%)

Query: 43 RKIIKFEELNKKLQ 56
          RK++ F ELNK+ Q
Sbjct: 74 RKLVDFRELNKRTQ 87


>1kmd_A VAM7P, vacuolar morphogenesis protein VAM7; PX domain,
          phosphoinositide binding, endocytosis/exocytosis
          complex; NMR {Saccharomyces cerevisiae} SCOP: d.189.1.1
          Length = 117

 Score = 23.3 bits (50), Expect = 4.9
 Identities = 5/31 (16%), Positives = 13/31 (41%), Gaps = 8/31 (25%)

Query: 26 IHIADTKVAHRYGDFFIRKIIKFEELNKKLQ 56
          +   + ++  RY +        F +L  +L+
Sbjct: 24 VSTPNKRLYKRYSE--------FWKLKTRLE 46


>1u1z_A (3R)-hydroxymyristoyl-[acyl carrier protein] dehydratase; fatty
          acid biosynthesis, hot DOG fold, lyase; 2.50A
          {Pseudomonas aeruginosa} SCOP: d.38.1.6
          Length = 168

 Score = 23.4 bits (51), Expect = 6.0
 Identities = 6/25 (24%), Positives = 15/25 (60%)

Query: 35 HRYGDFFIRKIIKFEELNKKLQAIK 59
          HRY    + ++++ +   K+++A K
Sbjct: 33 HRYPFLLVDRVVELDIEGKRIRAYK 57


  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
   0.326    0.142    0.395 

Gapped
Lambda     K      H
   0.267   0.0638    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 936,639
Number of extensions: 43467
Number of successful extensions: 153
Number of sequences better than 10.0: 1
Number of HSP's gapped: 153
Number of HSP's successfully gapped: 11
Length of query: 60
Length of database: 6,701,793
Length adjustment: 31
Effective length of query: 29
Effective length of database: 5,836,242
Effective search space: 169251018
Effective search space used: 169251018
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 51 (23.6 bits)