RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy6853
         (154 letters)



>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
           photosynthetic reaction center, peripheral antenna; HET:
           CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
          Length = 154

 Score = 31.1 bits (69), Expect = 0.075
 Identities = 10/39 (25%), Positives = 16/39 (41%), Gaps = 11/39 (28%)

Query: 102 EKKQLMLHYYRK-QEEMKLLESDTDEAFRNSDWADNTSL 139
           EK+ L     +K Q  +KL   D+  A      A   ++
Sbjct: 18  EKQAL-----KKLQASLKLYADDSAPAL-----AIKATM 46


>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 = 31.6 bits (71), Expect = 0.11
 Identities = 19/157 (12%), Positives = 41/157 (26%), Gaps = 55/157 (35%)

Query: 19  PMNLPTHDPIRLEF-----------ENREDLTGT--QASKEVI---EPSMGA-LW--FAG 59
           P+ L +H  +               + +E       + ++      EP+  A L   F G
Sbjct: 8   PLTL-SHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLG 66

Query: 60  KAMHR-----------------DKFVRDFLGKNEKCKAIVKISKIGSGAPSREPVMNEEE 102
                                  +F   +L  N+       I  + +            +
Sbjct: 67  YVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGND-------IHALAAKLLQENDT-TLVK 118

Query: 103 KKQLMLHYYR----------KQEEMKLLESDTDEAFR 129
            K+L+ +Y            K+    L  +  +   +
Sbjct: 119 TKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQ 155


>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 = 28.3 bits (62), Expect = 1.2
 Identities = 19/127 (14%), Positives = 39/127 (30%), Gaps = 39/127 (30%)

Query: 64  RDKFVRDF-----------LGKNEKCKAIVKISKIGSGA--------PSREPVMNEEEKK 104
            D FV +F           +   E+   I+      SG           +E ++ +  ++
Sbjct: 26  EDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEE 85

Query: 105 QLMLHY------YRKQEEMKLLESDTDEAFRNSDWADN--------------TSLRKNLL 144
            L ++Y       + ++    + +      R+  + DN                LR+ LL
Sbjct: 86  VLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALL 145

Query: 145 GLNRISW 151
            L     
Sbjct: 146 ELRPAKN 152



 Score = 25.6 bits (55), Expect = 9.0
 Identities = 11/47 (23%), Positives = 15/47 (31%), Gaps = 9/47 (19%)

Query: 64  RDKFVRDFLGKNEKCKAIVKISKIGSGAPSREPVMNEEEKKQLMLHY 110
           R K V DFL         +               +  +E K L+L Y
Sbjct: 273 RFKQVTDFLSAATTTHISLD---------HHSMTLTPDEVKSLLLKY 310


>2xzm_9 RPS31E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB:
           2xzn_9
          Length = 189

 Score = 26.6 bits (58), Expect = 2.8
 Identities = 14/77 (18%), Positives = 22/77 (28%), Gaps = 2/77 (2%)

Query: 45  KEVIEPSMGALWFAGKAMHRDKFVRDF--LGKNEKCKAIVKISKIGSGAPSREPVMNEEE 102
               E  M  L   G      + V D      + K     K  K  S    ++       
Sbjct: 33  DMGFEIDMMTLVNNGFIAPNTELVTDDVTYYLSLKLLGGKKKKKKKSYTTKKKTKHRHVH 92

Query: 103 KKQLMLHYYRKQEEMKL 119
            K   L +Y+ +   K+
Sbjct: 93  TKLGALAFYKLENNGKV 109


>2hnh_A DNA polymerase III alpha subunit; DNA replication,
           nucleotidyltransferase, beta, PHP, transferase; HET:
           DNA; 2.30A {Escherichia coli} PDB: 2hqa_A*
          Length = 910

 Score = 26.7 bits (60), Expect = 4.5
 Identities = 10/23 (43%), Positives = 13/23 (56%)

Query: 109 HYYRKQEEMKLLESDTDEAFRNS 131
            Y R +EEM  L +D  EA  N+
Sbjct: 238 QYMRSEEEMCELFADIPEALANT 260


>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
           vesicle, membrane, Ca structural protein; 7.94A {Bos
           taurus}
          Length = 190

 Score = 25.9 bits (56), Expect = 6.3
 Identities = 12/57 (21%), Positives = 26/57 (45%), Gaps = 8/57 (14%)

Query: 83  KISKIGSGAPSREPVMNEEEKKQLMLHYYRKQEEM--KLLES--DTDEAF---RNSD 132
           ++ ++ + +   E    E+ KK L   + ++Q E   K   +    D+AF    ++D
Sbjct: 97  RLQELDAASKVMEQEWREKAKKDLE-EWNQRQSEQVEKNKINNRIADKAFYQQPDAD 152


  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    0.409 

Gapped
Lambda     K      H
   0.267   0.0820    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,352,967
Number of extensions: 125718
Number of successful extensions: 238
Number of sequences better than 10.0: 1
Number of HSP's gapped: 235
Number of HSP's successfully gapped: 15
Length of query: 154
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 69
Effective length of database: 4,328,508
Effective search space: 298667052
Effective search space used: 298667052
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: 53 (24.0 bits)