RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy6494
         (87 letters)



>3ecs_A Translation initiation factor EIF-2B subunit alpha; eukaryotic
           translation initiation factor 2balpha (EIF2balpha);
           2.65A {Homo sapiens}
          Length = 315

 Score =  135 bits (343), Expect = 4e-41
 Identities = 62/91 (68%), Positives = 74/91 (81%), Gaps = 4/91 (4%)

Query: 1   MAVCAKELKKPFYVLAESFKFVRLYPLNQRDLPNEFKFTSSILK----KENLSKYHPLVD 56
           MAVCAK   KPFYV+AESFKFVRL+PLNQ+D+P++FK+ +  LK     ++L + HP VD
Sbjct: 215 MAVCAKAQNKPFYVVAESFKFVRLFPLNQQDVPDKFKYKADTLKVAQTGQDLKEEHPWVD 274

Query: 57  YTPPQYITLLFTDLGILTPSAVSDELIKLYL 87
           YT P  ITLLFTDLG+LTPSAVSDELIKLYL
Sbjct: 275 YTAPSLITLLFTDLGVLTPSAVSDELIKLYL 305


>1vb5_A Translation initiation factor EIF-2B; 2.20A {Pyrococcus horikoshii}
           SCOP: c.124.1.5
          Length = 276

 Score = 75.3 bits (186), Expect = 2e-18
 Identities = 23/76 (30%), Positives = 35/76 (46%), Gaps = 6/76 (7%)

Query: 1   MAVCAKELKKPFYVLAESFKFVRLYPLNQRDLPNEFKFTSSILKKENLSKYHPLVDYTPP 60
           +A+   E   PFYV AE++KF          L          L + N+   + L D TP 
Sbjct: 203 LALACHENAIPFYVAAETYKFHPTLKSGDVMLMERD------LIRGNVRIRNVLFDVTPW 256

Query: 61  QYITLLFTDLGILTPS 76
           +Y+  + T+LGI+ P 
Sbjct: 257 KYVRGIITELGIVIPP 272


>3a11_A Translation initiation factor EIF-2B, delta subun; isomerase,
           hexamer, rossmann fold; 2.50A {Thermococcus
           kodakaraensis} PDB: 3a9c_A* 3vm6_A*
          Length = 338

 Score = 57.7 bits (140), Expect = 1e-11
 Identities = 27/92 (29%), Positives = 47/92 (51%), Gaps = 8/92 (8%)

Query: 2   AVCAKELKKPFYVLAESFKF------VRLYPLNQRDLPNEFKFTSSI-LKKENLSKYHPL 54
           A+ AKE +    + AE++KF       +L  +  RD P E      +    +N+  ++P 
Sbjct: 236 ALTAKEHRVWTMIAAETYKFHPETMLGQLVEIEMRD-PTEVIPEDELKTWPKNIEVWNPA 294

Query: 55  VDYTPPQYITLLFTDLGILTPSAVSDELIKLY 86
            D TPP+Y+ ++ T+ GI+ P A  D L + +
Sbjct: 295 FDVTPPEYVDVIITERGIIPPYAAIDILREEF 326


>2yvk_A Methylthioribose-1-phosphate isomerase; methionine salvage
           pathway,; HET: MRU; 2.40A {Bacillus subtilis} PDB:
           2yrf_A*
          Length = 374

 Score = 43.9 bits (104), Expect = 8e-07
 Identities = 24/95 (25%), Positives = 44/95 (46%), Gaps = 15/95 (15%)

Query: 2   AVCAKELKKPFYVLA---------ESFKFVRLYPLNQRDLPNEFKFTSSI-LKKENLSKY 51
           A+ A     PF+V A         +    +   P+ +RD P E +  S +     N+  +
Sbjct: 279 AILANAFDIPFFVAAPLSTFDTKVKCGADI---PIEERD-PEEVRQISGVRTAPSNVPVF 334

Query: 52  HPLVDYTPPQYITLLFTDLGILTPSAVSDELIKLY 86
           +P  D TP   I+ + T+ GI+T +   +E+ +L+
Sbjct: 335 NPAFDITPHDLISGIITEKGIMTGNY-EEEIEQLF 368


>1t5o_A EIF2BD, translation initiation factor EIF2B, subunit DELT; subunit
           delta, structural GEN PSI, protein structure initiative;
           1.90A {Archaeoglobus fulgidus} SCOP: c.124.1.5
          Length = 351

 Score = 43.0 bits (102), Expect = 1e-06
 Identities = 22/80 (27%), Positives = 34/80 (42%), Gaps = 7/80 (8%)

Query: 2   AVCAKELKKPFYVLAESFKF-----VRLYPLNQRDLPNEF-KFTSSILKKENLSKYHPLV 55
           +V AK    PFYV A    F      +   + +R    E        +   N+  Y+P  
Sbjct: 251 SVVAKHHNIPFYVAAPKATFDWERTAKDVVIEERP-REELIFCGKRQIAPLNVKVYNPAF 309

Query: 56  DYTPPQYITLLFTDLGILTP 75
           D TP + +T L T+ G++ P
Sbjct: 310 DPTPLENVTALITEYGVIYP 329


>1t9k_A Probable methylthioribose-1-phosphate isomerase; structural
           genomics, translation initiation factor, AIF-2B subunit,
           PSI; 2.60A {Thermotoga maritima} SCOP: c.124.1.5
          Length = 347

 Score = 42.7 bits (101), Expect = 2e-06
 Identities = 23/85 (27%), Positives = 34/85 (40%), Gaps = 14/85 (16%)

Query: 2   AVCAKELKKPFYVLA---------ESFKFVRLYPLNQRDLPNEFKFTSSI-LKKENLSKY 51
           AV AK    PFYV A          S + +   P+ +R  P E        +  E +   
Sbjct: 254 AVLAKRNNIPFYVAAPVSTIDPTIRSGEEI---PIEERR-PEEVTHCGGNRIAPEGVKVL 309

Query: 52  HPLVDYTPPQYITLLFTDLGILTPS 76
           +P  D T    IT + T+ G++ P 
Sbjct: 310 NPAFDVTENTLITAIITEKGVIRPP 334


>2a0u_A Initiation factor 2B; SGPP, structural genomics, PSI, protein
           structure initiative eukaryotic initiation factor; 2.10A
           {Leishmania major} SCOP: c.124.1.5
          Length = 383

 Score = 36.1 bits (84), Expect = 5e-04
 Identities = 24/91 (26%), Positives = 38/91 (41%), Gaps = 19/91 (20%)

Query: 2   AVCAKELKKPFYVLA---------ESFKFVRLYPLNQRDLPNEFKFTSSILKK-----EN 47
           AV AK      YV A          S   V    + +R+ P E        ++      +
Sbjct: 283 AVSAKFHGVKLYVAAPTTTLDVKTASGNHV---EIEERE-PTEITTNLVTKQRVVADGPH 338

Query: 48  LSKYHPLVDYTPPQYITL-LFTDLGILTPSA 77
           LS ++P+ D TP + IT  + T+ G+  P+A
Sbjct: 339 LSIWNPVFDITPSELITGGIITEKGVQAPAA 369


>1w2w_B 5-methylthioribose-1-phosphate isomerase; EIF2B, methionine salvage
           pathway, translation initiation, oxidoreductase; 1.75A
           {Saccharomyces cerevisiae} SCOP: c.124.1.5
          Length = 191

 Score = 34.1 bits (79), Expect = 0.002
 Identities = 19/111 (17%), Positives = 39/111 (35%), Gaps = 28/111 (25%)

Query: 2   AVCAKELKKPFYVLA----------------------ESFKFVRLYPLNQRDLPNEFKFT 39
           AV  K+    F+V+A                      E FK V    +N  +       +
Sbjct: 78  AVICKQFGIKFFVVAPKTTIDNVTETGDDIIVEERNPEEFKVVTGTVINPENGSLILNES 137

Query: 40  SSILKK------ENLSKYHPLVDYTPPQYITLLFTDLGILTPSAVSDELIK 84
              +          ++ ++P  D TP + I  + T+ G+ T ++  +  ++
Sbjct: 138 GEPITGKVGIAPLEINVWNPAFDITPHELIDGIITEEGVFTKNSSGEFQLE 188


>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 = 26.0 bits (56), Expect = 1.8
 Identities = 15/71 (21%), Positives = 26/71 (36%), Gaps = 10/71 (14%)

Query: 24  LYPLNQRDLPNEFKFTSSILKKENLSKYHPLVDYTPP---QYITLLFTDLG----ILTPS 76
           +Y   +  L NE+    SI+   N+ K     D  PP   QY    ++ +G     +   
Sbjct: 431 IYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYF---YSHIGHHLKNIEHP 487

Query: 77  AVSDELIKLYL 87
                   ++L
Sbjct: 488 ERMTLFRMVFL 498


>1t47_A 4-hydroxyphenylpyruvate dioxygenase; triketone inhibitor, iron,
           oxidoreductase; HET: NTD; 2.50A {Streptomyces
           avermitilis} SCOP: d.32.1.3 d.32.1.3
          Length = 381

 Score = 25.2 bits (54), Expect = 3.1
 Identities = 10/53 (18%), Positives = 17/53 (32%), Gaps = 2/53 (3%)

Query: 16  AESFKFVRLYPLNQRDLPNEFKFTSSILKKENLSKYHPLVDYTPPQYITLLFT 68
           A   +F+         L      T   +  + L +   L D     Y+  +FT
Sbjct: 287 AAGVQFLDTPDSYYDTLGEWVGDTRVPV--DTLRELKILADRDEDGYLLQIFT 337


>2aby_A Hypothetical protein TA0743; helix-turn-helix, unknown function;
           NMR {Thermoplasma acidophilum}
          Length = 146

 Score = 24.4 bits (52), Expect = 5.0
 Identities = 14/46 (30%), Positives = 25/46 (54%)

Query: 9   KKPFYVLAESFKFVRLYPLNQRDLPNEFKFTSSILKKENLSKYHPL 54
           +K F +L +S K   L+P  ++ +  +F   S +   E ++KYH L
Sbjct: 70  QKYFRILFQSKKLSELHPEERKKVREKFDENSRMQYSELMTKYHDL 115


  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
   0.322    0.140    0.407 

Gapped
Lambda     K      H
   0.267   0.0736    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,294,933
Number of extensions: 60743
Number of successful extensions: 108
Number of sequences better than 10.0: 1
Number of HSP's gapped: 101
Number of HSP's successfully gapped: 15
Length of query: 87
Length of database: 6,701,793
Length adjustment: 55
Effective length of query: 32
Effective length of database: 5,166,138
Effective search space: 165316416
Effective search space used: 165316416
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 (21.9 bits)
S2: 51 (23.4 bits)