RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy12387
         (98 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 = 26.4 bits (57), Expect = 2.1
 Identities = 26/113 (23%), Positives = 34/113 (30%), Gaps = 40/113 (35%)

Query: 15  LIETDHTDPRTRDWFWTGSLWRPFLLM---CFYYYFV--------KFL-GPWFMKNRQP- 61
           +I +      T   FWT       LL         FV        KFL  P   + RQP 
Sbjct: 54  IIMSKDAVSGTLRLFWT-------LLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPS 106

Query: 62  -------------YNLDTVLKVYNV-----FQILYSAFGVYIVSPGIKLCPHG 96
                        YN + V   YNV     +  L  A  +  + P   +   G
Sbjct: 107 MMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQA--LLELRPAKNVLIDG 157


>3kp1_A D-ornithine aminomutase E component; 5 aminomutase (OAM), metal
          binding protein; HET: PLP B12 5AD; 2.01A {Clostridium
          sticklandii} PDB: 3kow_A* 3koy_A* 3koz_A* 3kp0_A*
          3kox_A*
          Length = 763

 Score = 24.9 bits (54), Expect = 5.4
 Identities = 7/22 (31%), Positives = 12/22 (54%)

Query: 9  VNITNYLIETDHTDPRTRDWFW 30
          +++ N L + D   P+ R W W
Sbjct: 13 LDVENILKDLDKYTPKRRGWTW 34


>3lat_A Bifunctional autolysin; amidase, ATLE, peptidoglycan hydrolase,
           cell WALL biogenesis/degradation, multifunctional
           enzyme, secreted; 1.70A {Staphylococcus epidermidis}
          Length = 213

 Score = 24.3 bits (52), Expect = 7.9
 Identities = 12/47 (25%), Positives = 21/47 (44%), Gaps = 5/47 (10%)

Query: 11  ITNYLIETDHTDPRTRDWFWT-GSLWRPFLLMCFYYYFVK--FLGPW 54
           I+N+L  TDH DP    +  +    +     + +  Y +K   + PW
Sbjct: 168 ISNFLGGTDHADP--HQYLRSHNYSYAELYDLIYEKYLIKTKQVAPW 212


>2f2h_A Putative family 31 glucosidase YICI; BETA8alpha8 barrel, hydrolase;
           HET: MPO XTG; 1.95A {Escherichia coli} SCOP: b.150.1.1
           b.30.5.11 b.71.1.4 c.1.8.13 PDB: 1xsj_A 1xsi_A 1xsk_A*
           1we5_A*
          Length = 773

 Score = 24.3 bits (53), Expect = 8.3
 Identities = 4/12 (33%), Positives = 6/12 (50%)

Query: 19  DHTDPRTRDWFW 30
           D T+P    W+ 
Sbjct: 388 DFTNPDACKWYA 399


>2z0t_A Putative uncharacterized protein PH0355; alpha/beta protein, RNA
          binding protein, structural genomics, NPPSFA; 1.80A
          {Pyrococcus horikoshii} PDB: 1s04_A
          Length = 109

 Score = 23.6 bits (51), Expect = 9.3
 Identities = 8/24 (33%), Positives = 15/24 (62%)

Query: 68 LKVYNVFQILYSAFGVYIVSPGIK 91
          ++VY+ F+ +    G+  V PG+K
Sbjct: 54 IRVYSSFKEMLEKEGIENVLPGVK 77


  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
   0.330    0.145    0.504 

Gapped
Lambda     K      H
   0.267   0.0457    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,598,813
Number of extensions: 78499
Number of successful extensions: 193
Number of sequences better than 10.0: 1
Number of HSP's gapped: 193
Number of HSP's successfully gapped: 21
Length of query: 98
Length of database: 6,701,793
Length adjustment: 64
Effective length of query: 34
Effective length of database: 4,914,849
Effective search space: 167104866
Effective search space used: 167104866
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 51 (24.1 bits)