RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy3489
         (129 letters)



>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha
           solenoid, regulatory PART LID, hydrolase, protein
           binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A
          Length = 394

 Score = 70.3 bits (171), Expect = 2e-15
 Identities = 22/116 (18%), Positives = 43/116 (37%), Gaps = 8/116 (6%)

Query: 1   MELLQDFYETTLEALKDAKNDRLWFKTNTKLGKLYFDREDFNKLSRILKQLHQSCQTDDG 60
             +     +  +E  K  K   L      +L  LYFD   + +   +  QL +  +  D 
Sbjct: 75  TGIEVQLCKDCIEWAKQEKRTFLRQSLEARLIALYFDTALYTEALALGAQLLRELKKLDD 134

Query: 61  EDDLKKGTQLLEIYALEIQMYTAQKNNKKLKKLYELIQVKSSEQNIMDDPFIREHI 116
           ++       L+E+  LE + Y A  N  K +        +++   I   P ++  +
Sbjct: 135 KN------LLVEVQLLESKTYHALSNLPKARAALT--SARTTANAIYCPPKVQGAL 182



 Score = 28.3 bits (62), Expect = 0.73
 Identities = 4/26 (15%), Positives = 13/26 (50%)

Query: 103 EQNIMDDPFIREHIEDLLRNIRTQVM 128
           ++ + +D  ++ H+  L   +  Q +
Sbjct: 282 KKELAEDVIVQAHLGTLYDTMLEQNL 307


>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 = 29.8 bits (66), Expect = 0.22
 Identities = 15/110 (13%), Positives = 35/110 (31%), Gaps = 24/110 (21%)

Query: 35  YFDREDFNKLSRILKQLHQSCQTDDG----------EDDLKKGTQLLEIYALEIQMYTAQ 84
            +   + +KL+ I++      +  +                  T LL +   ++      
Sbjct: 346 NWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVM 405

Query: 85  KNNKKLKKLYELIQVKSSEQNIMDDPFIREHIEDLLRNIRTQV-----MH 129
               KL K Y L++ +  E  I         I  +   ++ ++     +H
Sbjct: 406 VVVNKLHK-YSLVEKQPKESTI--------SIPSIYLELKVKLENEYALH 446



 Score = 27.1 bits (59), Expect = 1.9
 Identities = 6/40 (15%), Positives = 20/40 (50%), Gaps = 7/40 (17%)

Query: 94  YELIQVKSSEQNIMD---DPFIRE----HIEDLLRNIRTQ 126
           +E  + +   ++I+    D F+       ++D+ ++I ++
Sbjct: 9   FETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSK 48


>1sq1_A Chorismate synthase; structural genomics, bifunctional alpha/beta
           tetrameric PROT protein structure initiative; 2.80A
           {Campylobacter jejuni} SCOP: d.258.1.1
          Length = 370

 Score = 27.4 bits (62), Expect = 1.5
 Identities = 8/58 (13%), Positives = 20/58 (34%), Gaps = 2/58 (3%)

Query: 69  QLLEIYALEIQMYTAQKNNKKLKKLYELIQVKSSEQNI--MDDPFIREHIEDLLRNIR 124
            LL  + + +Q               E    + ++++     DP +    ++ + N R
Sbjct: 140 MLLREFDICVQSGVFGVGTFVSNLKEEEFDFEFAKKSEIFCLDPKLESDFKNEILNAR 197


>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 = 26.1 bits (56), Expect = 3.3
 Identities = 8/25 (32%), Positives = 12/25 (48%), Gaps = 6/25 (24%)

Query: 61 EDDLKKGTQLLEIY------ALEIQ 79
          +  LKK    L++Y      AL I+
Sbjct: 19 KQALKKLQASLKLYADDSAPALAIK 43


>3sy8_A ROCR; TIM barrel phosphodiesterase-A, transcription regulator; HET:
           EPE; 2.50A {Pseudomonas aeruginosa}
          Length = 400

 Score = 25.7 bits (57), Expect = 4.8
 Identities = 5/17 (29%), Positives = 8/17 (47%)

Query: 108 DDPFIREHIEDLLRNIR 124
           D+PF R      L+ + 
Sbjct: 11  DEPFQRLVAVTALKKVV 27


>2dbh_A Tumor necrosis factor receptor superfamily member 21; apoptosis,
           TNF receptor superfamily, NF-kappab, structural
           genomics, NPPSFA; NMR {Homo sapiens}
          Length = 102

 Score = 24.7 bits (53), Expect = 6.4
 Identities = 15/34 (44%), Positives = 22/34 (64%), Gaps = 4/34 (11%)

Query: 89  KLKKLYELIQVKSSE--QNIMDDPFIREHIEDLL 120
           KL +L+E+I VKS E  Q ++D   +  H+ DLL
Sbjct: 65  KLDRLFEIIGVKSQEASQTLLDS--VYSHLPDLL 96


  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    0.135    0.375 

Gapped
Lambda     K      H
   0.267   0.0496    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,911,535
Number of extensions: 101746
Number of successful extensions: 421
Number of sequences better than 10.0: 1
Number of HSP's gapped: 419
Number of HSP's successfully gapped: 39
Length of query: 129
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 46
Effective length of database: 4,384,350
Effective search space: 201680100
Effective search space used: 201680100
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: 52 (24.4 bits)