RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy13552
         (173 letters)



>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 = 34.4 bits (78), Expect = 0.014
 Identities = 19/159 (11%), Positives = 42/159 (26%), Gaps = 48/159 (30%)

Query: 24  LTQWLLLIGVYENFIKNGIHQFVDLCSVANVSVFILTTENYGYYIHGRSAHGFADTDMES 83
           ++  L L     +  +  + +FV+           +   NY +              M  
Sbjct: 61  VSGTLRLFWTLLSKQEEMVQKFVE----------EVLRINYKFL-------------MSP 97

Query: 84  MATQML---REEEDLVGHRGLLPGTEQQTFEMTVPR-----QLRTYYKRVMAPLSMALKD 135
           + T+           +  R  L    Q   +  V R     +LR             L+ 
Sbjct: 98  IKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLE--------LRP 149

Query: 136 LDYQVKDKMF--------VEALLDIEFSDASADKGVFYI 166
               + D +         ++  L  +         +F++
Sbjct: 150 AKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDF-KIFWL 187



 Score = 30.2 bits (67), Expect = 0.39
 Identities = 23/166 (13%), Positives = 46/166 (27%), Gaps = 55/166 (33%)

Query: 2   VYIPEDPLLKLGVAICTYLVVYLTQWLLLIGVYENFIKNGIHQFVDLCSVANVSVFILTT 61
            +IP   L  +              W        + IK+ +   V+       S+     
Sbjct: 385 AHIPTILLSLI--------------W-------FDVIKSDVMVVVNKL--HKYSLVEKQP 421

Query: 62  ENYGYYIHGRSAHGFADTDMESMATQMLREEEDLVGHRGLLPGTEQQTFEMTVPRQLRTY 121
           +     I            +E      L  E  L  HR ++   +            +T+
Sbjct: 422 KESTISIP--------SIYLELKVK--LENEYAL--HRSIV---DHY-------NIPKTF 459

Query: 122 YKRVMAPLSMA----------LKDLDYQVKDKMFVEALLDIEFSDA 157
               + P  +           LK++++  +  +F    LD  F + 
Sbjct: 460 DSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQ 505



 Score = 27.1 bits (59), Expect = 3.5
 Identities = 25/156 (16%), Positives = 46/156 (29%), Gaps = 47/156 (30%)

Query: 47  DLCSVANVSVF------ILTTENYGYYIHGRSAHGFADTDMESMATQMLREEEDLVGHRG 100
           ++ +    + F      +LTT                 TD  S AT        L  H  
Sbjct: 252 NVQNAKAWNAFNLSCKILLTTRFKQ------------VTDFLSAAT---TTHISLDHHSM 296

Query: 101 LLPGTEQQTFEM----------TVPRQLRTYYKRVMAPLSMALKD-------LDYQVKDK 143
            L  T  +   +           +PR++ T   R ++ ++ +++D         +   DK
Sbjct: 297 TL--TPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDK 354

Query: 144 ------MFVEALLDIEFSDASADKGVF-YIVRLPRK 172
                   +  L   E+        VF     +P  
Sbjct: 355 LTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTI 390


>3bbn_T Ribosomal protein S20; small ribosomal subunit, spinach chloroplast
           ribosome, ribonucleoprotein particle, macromolecular
           complex; 9.40A {Spinacea oleracea}
          Length = 202

 Score = 32.0 bits (72), Expect = 0.062
 Identities = 13/50 (26%), Positives = 21/50 (42%), Gaps = 2/50 (4%)

Query: 117 QLRTYYKRVMAPLSMALKDLDYQVKDKMFVEALLDIEFS--DASADKGVF 164
           + RT  K+V+  L    K  D Q  + + VE L+   +S  D +      
Sbjct: 110 EARTRMKKVLEALEGLKKKTDAQADEIVTVEKLIGEAYSAIDKAVKVKAL 159


>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 = 31.9 bits (72), Expect = 0.11
 Identities = 27/167 (16%), Positives = 47/167 (28%), Gaps = 71/167 (42%)

Query: 23   YLTQW----LLLIGV--YENFIKNGIHQFVD------------LCSVANVSVFILTTENY 64
              TQ+    L L+    +E+    G+                 L S+A+V    ++    
Sbjct: 1727 SATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADV----MS---- 1778

Query: 65   GYYIHGRSAHGFADTDMESMATQMLREEEDLVGHRGLLPGTEQQTFEMTVPR--QLRTYY 122
                                    +     +V +RG        T ++ VPR    R+ Y
Sbjct: 1779 -----------IESL---------VE----VVFYRG-------MTMQVAVPRDELGRSNY 1807

Query: 123  KRVMA--PLSMALKDLDYQVKDKMFVEALLDIEFSDASADKGVFYIV 167
              ++A  P  +A              EAL  +          +  IV
Sbjct: 1808 -GMIAINPGRVAASFSQ---------EALQYVVERVGKRTGWLVEIV 1844


>1zs3_A Lactococcus lactis Mg1363 DPSA; oxidative stress, DNA binding,
           lactic acid bacteria, DNA binding protein; 2.70A
           {Lactococcus lactis} SCOP: a.25.1.1
          Length = 182

 Score = 29.0 bits (65), Expect = 0.54
 Identities = 13/117 (11%), Positives = 28/117 (23%), Gaps = 12/117 (10%)

Query: 51  VANVSVFILTTENYGYYIHGRSAHGFADTDMESMATQMLREEEDLVGHR-----GLLPGT 105
           ++N+ +  +     G Y        +     +             +         ++P T
Sbjct: 35  LSNLFIENIRLTQAGIYAKSPVKCEYLREIAQREVEYF-----FKISDLLLDENEIVPST 89

Query: 106 EQQTFEMTVPRQLRTYYKRVMAP--LSMALKDLDYQVKDKMFVEALLDIEFSDASAD 160
            ++  +           K       L   + D   Q         L + E   A A 
Sbjct: 90  TEEFLKYHKFITEDPKAKYWTDEDLLESFIVDFQAQNMFITRAIKLANKEEKFALAA 146


>3b0p_A TRNA-dihydrouridine synthase; TIM barrel, oxidoreductase; HET: FMN;
           1.70A {Thermus thermophilus} PDB: 3b0u_X* 3b0v_C*
          Length = 350

 Score = 26.4 bits (59), Expect = 5.8
 Identities = 12/43 (27%), Positives = 19/43 (44%), Gaps = 9/43 (20%)

Query: 31  IGVYENFIKNGIHQFVDLCSVANVSVFILTTENYGYYIHGRSA 73
           +G+       G+ Q V+  + A V VF+         +H RSA
Sbjct: 135 LGLEGKETYRGLAQSVEAMAEAGVKVFV---------VHARSA 168


  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
   0.324    0.140    0.411 

Gapped
Lambda     K      H
   0.267   0.0519    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,723,858
Number of extensions: 153701
Number of successful extensions: 328
Number of sequences better than 10.0: 1
Number of HSP's gapped: 327
Number of HSP's successfully gapped: 8
Length of query: 173
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 86
Effective length of database: 4,272,666
Effective search space: 367449276
Effective search space used: 367449276
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 54 (25.1 bits)