RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy13097
         (123 letters)



>1n0u_A EF-2, elongation factor 2; G-protein, CIS-proline, translation;
           HET: SO1; 2.12A {Saccharomyces cerevisiae} SCOP:
           b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB:
           1n0v_C 1s1h_T 2e1r_A* 2npf_A* 2p8w_T* 3dny_T 3b82_A*
           1zm2_A* 1zm3_A* 1zm4_A* 1zm9_A* 2p8x_T* 2p8y_T* 2p8z_T*
           2zit_A* 1u2r_A* 3b78_A* 3b8h_A*
          Length = 842

 Score =  125 bits (315), Expect = 7e-35
 Identities = 40/117 (34%), Positives = 61/117 (52%), Gaps = 24/117 (20%)

Query: 1   KLYAVLGRRHGRIVYGDVTQGSVTFTVQAYLPVVESFSFAPEIRKSTSGLASPQLVFSHW 60
            +Y+VL ++ G++V  +   G+  FTV+AYLPV ESF F  E+R++T G A PQ+VF HW
Sbjct: 742 GIYSVLNKKRGQVVSEEQRPGTPLFTVKAYLPVNESFGFTGELRQATGGQAFPQMVFDHW 801

Query: 61  EVINIDPYWEPRTEEEYLHFGDKADTENRARKYMDSVRKRKGLPVQ--------DKL 109
             +  DP                 D  ++A + + + RKR G+  +        DKL
Sbjct: 802 STLGSDPL----------------DPTSKAGEIVLAARKRHGMKEEVPGWQEYYDKL 842


>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
           acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
           synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
          Length = 2006

 Score = 34.3 bits (78), Expect = 0.007
 Identities = 18/91 (19%), Positives = 30/91 (32%), Gaps = 27/91 (29%)

Query: 1   KLYAVLGRRHGRIVYGDVTQGSVT--F-----TVQAYLPVVESF--SFAPEIRKSTSGLA 51
           +L A+ G   G        QG+    F       Q Y  +V       A  + +      
Sbjct: 155 QLVAIFG---G--------QGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTL 203

Query: 52  SPQLVFSHWEVINIDPYW----EPRTEEEYL 78
             + VF+    +NI   W        +++YL
Sbjct: 204 DAEKVFTQ--GLNILE-WLENPSNTPDKDYL 231


>2dy1_A Elongation factor G; translocation, GTP complex, structural
           genomics, NPPSFA; HET: GTP; 1.60A {Thermus thermophilus}
           SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1
           PDB: 1wdt_A*
          Length = 665

 Score = 31.3 bits (72), Expect = 0.064
 Identities = 15/56 (26%), Positives = 23/56 (41%), Gaps = 2/56 (3%)

Query: 6   LGRRHGRIVYGDVTQGSVTFTVQAYLPVVESFSFAPEIRKSTSGLASPQLVFSHWE 61
           L  R GRI+  +         V A +P+ E   +   +   T G  +  L FSH+ 
Sbjct: 594 LQARRGRILGMEQEGALSV--VHAEVPLAEVLEYYKALPGLTGGAGAYTLEFSHYA 647


>1dar_A EF-G, elongation factor G; ribosomal translocase, translational
           GTPase; HET: GDP; 2.40A {Thermus thermophilus} SCOP:
           b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 PDB: 1elo_A 1ktv_A
           2om7_L* 2wri_Y* 2wrk_Y* 2xsy_Y* 2xuy_Y* 2j7k_A* 2efg_A*
           1jqm_B 1efg_A* 1fnm_A* 1pn6_A 2bm1_A* 2bm0_A* 2bv3_A*
           3izp_E 1zn0_B 1jqs_C 2bcw_C ...
          Length = 691

 Score = 30.9 bits (71), Expect = 0.089
 Identities = 15/56 (26%), Positives = 30/56 (53%), Gaps = 2/56 (3%)

Query: 6   LGRRHGRIVYGDVTQGSVTFTVQAYLPVVESFSFAPEIRKSTSGLASPQLVFSHWE 61
           L  R G+I+  +    +    ++A++P+ E F +A ++R  T G  S  + F H++
Sbjct: 624 LNARRGQILGMEPRGNAQV--IRAFVPLAEMFGYATDLRSKTQGRGSFVMFFDHYQ 677


>2rdo_7 EF-G, elongation factor G; elongation factor G, EF-G, RRF, GDPNP,
           50S subunit, cryo-EM, REAL-space refinement,
           ribonucleoprotein; 9.10A {Escherichia coli} PDB: 3j0e_H
          Length = 704

 Score = 30.6 bits (70), Expect = 0.099
 Identities = 16/56 (28%), Positives = 27/56 (48%), Gaps = 2/56 (3%)

Query: 6   LGRRHGRIVYGDVTQGSVTFTVQAYLPVVESFSFAPEIRKSTSGLASPQLVFSHWE 61
           L RR G +   +     V   + A +P+ E F +A ++R  T G AS  + F  ++
Sbjct: 635 LSRRRGMLKGQESEVTGVK--IHAEVPLSEMFGYATQLRSLTKGRASYTMEFLKYD 688


>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 = 30.2 bits (67), Expect = 0.14
 Identities = 24/101 (23%), Positives = 39/101 (38%), Gaps = 17/101 (16%)

Query: 30  YLPVVESFSF-APEIRKSTSGLASP--------QLVFSHWEVINIDPYWEPRTEEEYLHF 80
           +L     F F   +IR  ++   +         QL F    + + DP +E R     L F
Sbjct: 497 FL----DFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYE-RLVNAILDF 551

Query: 81  GDKADTENRARKYMDSVRKRKGLPVQDKLVAHAEKQRTVKR 121
             K +      KY D +  R  L  +D+ +   E  + V+R
Sbjct: 552 LPKIEENLICSKYTDLL--RIALMAEDEAI-FEEAHKQVQR 589


>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein;
           1.90A {Staphylococcus aureus}
          Length = 693

 Score = 29.8 bits (68), Expect = 0.22
 Identities = 15/56 (26%), Positives = 27/56 (48%), Gaps = 2/56 (3%)

Query: 6   LGRRHGRIVYGDVTQGSVTFTVQAYLPVVESFSFAPEIRKSTSGLASPQLVFSHWE 61
           +  R GR+   +    +    V AY+P+ E F +A  +R +T G  +  + F H+ 
Sbjct: 623 VTSRRGRVDGMEPRGNAQV--VNAYVPLSEMFGYATSLRSNTQGRGTYTMYFDHYA 676


  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    0.134    0.395 

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: 1,902,672
Number of extensions: 103404
Number of successful extensions: 322
Number of sequences better than 10.0: 1
Number of HSP's gapped: 321
Number of HSP's successfully gapped: 16
Length of query: 123
Length of database: 6,701,793
Length adjustment: 82
Effective length of query: 41
Effective length of database: 4,412,271
Effective search space: 180903111
Effective search space used: 180903111
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: 41 (21.7 bits)
S2: 51 (23.9 bits)