RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy1916
         (195 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 = 34.1 bits (77), Expect = 0.028
 Identities = 24/160 (15%), Positives = 47/160 (29%), Gaps = 37/160 (23%)

Query: 7   DFEVHRNWLAITNSLPLSQWYTDTTSPWTLDYPPLFAFFEYLLSFVAYYFDPQMLDVKNL 66
           ++ +HR+   I +   + + +        L  P L    +Y  S + ++           
Sbjct: 442 EYALHRS---IVDHYNIPKTF----DSDDLIPPYLD---QYFYSHIGHHL---------- 481

Query: 67  NYKSSATLLFQRLSVIFTDFVLVYGVKECADFLTRSKIIKHKKWTQDLGSPVVIFQILII 126
                         ++F DF           FL   KI          GS +   Q L  
Sbjct: 482 -KNIEHPERMTLFRMVFLDF----------RFL-EQKIRHDSTAWNASGSILNTLQQLKF 529

Query: 127 FNAGLFFVDHIHFQYNGFLFGVLLLSIARILEGNCYEGAF 166
           +    +  D+   +Y   +    +L     +E N     +
Sbjct: 530 YKP--YICDN-DPKYERLV--NAILDFLPKIEENLICSKY 564



 Score = 27.1 bits (59), Expect = 5.1
 Identities = 15/76 (19%), Positives = 25/76 (32%), Gaps = 12/76 (15%)

Query: 79  LSVIFTDFVLVYGVKECADFLTRSKIIKHKKWTQDLGSPVVIFQILIIFN---------A 129
           LSV    FV  +  K+  D      I+  ++    + S   +   L +F           
Sbjct: 22  LSVFEDAFVDNFDCKDVQDMP--KSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMV 79

Query: 130 GLFFVDHIHFQYNGFL 145
             F  + +   Y  FL
Sbjct: 80  QKFVEEVLRINY-KFL 94


>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 = 32.3 bits (73), Expect = 0.11
 Identities = 18/111 (16%), Positives = 30/111 (27%), Gaps = 42/111 (37%)

Query: 15  LAITNSLPLSQWY--------------TDTTSPWTLDYP----PLFAFFEYLLSFVAYYF 56
           L     +P + ++                T      D P     L   F   L +V+   
Sbjct: 16  LEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKF---LGYVSSLV 72

Query: 57  DPQMLDVKNLNYKSSATLLFQRLSVIFTDFVLVYGVKECADFLTRSKIIKH 107
           +P           S      Q L++  T+F           +L  + I  H
Sbjct: 73  EP-----------SKVGQFDQVLNLCLTEFE--------NCYLEGNDI--H 102


>3dnu_A Protein HIPA; persistence, MDT, multidrug resistance, unknown
          function; 1.54A {Escherichia coli} PDB: 3dnt_A 3dnv_A*
          3dnw_A* 3hzi_A* 2wiu_A 3fbr_A*
          Length = 440

 Score = 28.1 bits (62), Expect = 2.0
 Identities = 13/42 (30%), Positives = 17/42 (40%), Gaps = 2/42 (4%)

Query: 8  FEVHRNWLAITNSLPLSQWYTDTTSPWTLDYPPLFAFFEYLL 49
          F+    WLA   + PLS          T     +F FF+ LL
Sbjct: 26 FKYAPEWLASRYARPLSLSLPLQRGNIT--SDAVFNFFDNLL 65


>1g0d_A Protein-glutamine gamma-glutamyltransferase; tissue
           transglutaminase,acyltransferase; 2.50A {Pagrus major}
           SCOP: b.1.18.9 b.1.5.1 b.1.5.1 d.3.1.4
          Length = 695

 Score = 27.7 bits (61), Expect = 3.1
 Identities = 10/80 (12%), Positives = 25/80 (31%), Gaps = 9/80 (11%)

Query: 111 TQDLGSPVVI------FQILIIFNAGLFFVDHIHFQYNGFLFGVLLLSIARILEGNCYEG 164
           T+++    +I      F I +  +  L    H+         G     + ++ + +    
Sbjct: 24  TREIDRERLIVRRGQPFSITLQCSDSLPPKHHLELV---LHLGKRDEVVIKVQKEHGARD 80

Query: 165 AFWFAVLLNLKHIFIYIAPA 184
            +WF        I + +   
Sbjct: 81  KWWFNQQGAQDEILLTLHSP 100


>1nu4_A U1A RNA binding domain; RNA recognition motif, U1 small nuclear
          ribonucleoprotein, R binding domain, RNA binding
          protein; HET: MLA; 1.80A {Homo sapiens} SCOP: d.58.7.1
          PDB: 1drz_A* 1urn_A 3hhn_B* 3egz_A* 1zzn_A* 1u6b_A*
          3cun_A* 3cul_A* 3g8s_A* 3g8t_A* 3g96_A* 3g9c_A* 3irw_P*
          3mum_P* 3mur_P* 3mut_P* 3muv_P* 3mxh_P* 3p49_B 3r1h_A*
          ...
          Length = 97

 Score = 25.3 bits (56), Expect = 6.0
 Identities = 9/26 (34%), Positives = 13/26 (50%)

Query: 61 LDVKNLNYKSSATLLFQRLSVIFTDF 86
          + + NLN K     L + L  IF+ F
Sbjct: 11 IYINNLNEKIKKDELKKSLHAIFSRF 36


>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed
          protein, RRM, U1A, RNA binding protein; NMR {Homo
          sapiens}
          Length = 127

 Score = 25.6 bits (56), Expect = 7.9
 Identities = 4/26 (15%), Positives = 10/26 (38%)

Query: 61 LDVKNLNYKSSATLLFQRLSVIFTDF 86
          + + N+N +     L   L  + +  
Sbjct: 32 VLITNINPEVPKEKLQALLYALASSQ 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
   0.332    0.145    0.469 

Gapped
Lambda     K      H
   0.267   0.0549    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,109,770
Number of extensions: 175685
Number of successful extensions: 306
Number of sequences better than 10.0: 1
Number of HSP's gapped: 306
Number of HSP's successfully gapped: 10
Length of query: 195
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 106
Effective length of database: 4,216,824
Effective search space: 446983344
Effective search space used: 446983344
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 55 (25.4 bits)