RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy2117
         (81 letters)



>2qv7_A Diacylglycerol kinase DGKB; alpha-beta domain 1, beta sandwich
           domain 2, protein-ADP COM transferase; HET: ADP; 2.30A
           {Staphylococcus aureus} SCOP: e.52.1.2 PDB: 2qvl_A
          Length = 337

 Score = 25.0 bits (55), Expect = 2.8
 Identities = 7/51 (13%), Positives = 17/51 (33%), Gaps = 5/51 (9%)

Query: 6   LLTLTNIEVTSLPSFFQLILQKELALSPW-----SRSFKIWRSNPVPIYLD 51
           L+ +    +  L     L  + E    P      +++  I     + + +D
Sbjct: 243 LIIVEKSNLAELGHIMTLASRGEHTKHPKVIYEKAKAINISSFTDLQLNVD 293


>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 = 25.2 bits (54), Expect = 3.1
 Identities = 7/21 (33%), Positives = 13/21 (61%), Gaps = 2/21 (9%)

Query: 36  RSFKIWRSNPVPIYLDFYFFN 56
           ++F     + +P YLD YF++
Sbjct: 457 KTFDSD--DLIPPYLDQYFYS 475


>2hzm_A RNA polymerase II mediator complex subunit 20; beta barrel,
          channel, transcription; 2.40A {Saccharomyces
          cerevisiae} PDB: 3rj1_F 2hzs_A
          Length = 212

 Score = 24.1 bits (51), Expect = 5.6
 Identities = 7/40 (17%), Positives = 15/40 (37%), Gaps = 2/40 (5%)

Query: 21 FQLILQKELA--LSPWSRSFKIWRSNPVPIYLDFYFFNWT 58
           +  L   +     PWS  F+ +R +   +  D     ++
Sbjct: 22 LKDALSNSILSVRDPWSIDFRTYRCSIKNLPADVSKLMYS 61


>3oc9_A UDP-N-acetylglucosamine pyrophosphorylase; structural genomics,
           seattle structural genomics center for infectious
           disease, ssgcid; 1.80A {Entamoeba histolytica}
          Length = 405

 Score = 24.4 bits (52), Expect = 5.7
 Identities = 10/72 (13%), Positives = 26/72 (36%), Gaps = 3/72 (4%)

Query: 8   TLTNIEVTSLPSFFQLILQKELALSPWSRSFKIWRSNPVPIYLDFYFFNWTNPEDIRNNE 67
            +  +      S FQ+  ++ L L   +  +   ++  +  +L     N    E+I N  
Sbjct: 56  GMFVLPFEIPKSIFQMTSERLLRLQELASEYSHQKNVMIHWFL---MTNEETIEEINNYF 112

Query: 68  TKPNFVEMGPYR 79
            +  +  +   +
Sbjct: 113 KEHQYFGLSSEQ 124


>2hsa_B 12-oxophytodienoate reductase 3; alpha beta 8 barrel, flavoprotein,
           jasmonate biosynthesis, oxidoreductase; HET: FMN; 1.50A
           {Solanum lycopersicum} PDB: 2hs6_A* 3hgs_A* 2hs8_A*
           3hgo_A* 1q45_A* 2g5w_A* 2q3o_A*
          Length = 402

 Score = 24.1 bits (53), Expect = 6.0
 Identities = 6/20 (30%), Positives = 9/20 (45%)

Query: 31  LSPWSRSFKIWRSNPVPIYL 50
           +SP         SNP+ + L
Sbjct: 244 VSPAIDHLDAMDSNPLSLGL 263


>2ju5_A Thioredoxin disulfide isomerase; protein, oxidoreductase; NMR
          {Chlamydophila pneumoniae}
          Length = 154

 Score = 23.7 bits (51), Expect = 7.2
 Identities = 6/32 (18%), Positives = 13/32 (40%)

Query: 26 QKELALSPWSRSFKIWRSNPVPIYLDFYFFNW 57
             L    ++ + +  + +  PI L F   +W
Sbjct: 28 AANLQWESYAEALEHSKQDHKPIGLFFTGSDW 59


>1icp_A OPR1, 12-oxophytodienoate reductase 1; beta-alpha-barrel,
           protein-FMN-PEG complex, oxidoreductase; HET: FMN 2PE;
           1.90A {Solanum lycopersicum} SCOP: c.1.4.1 PDB: 1icq_A*
           1ics_A* 3hgr_A* 1vji_A* 2q3r_A*
          Length = 376

 Score = 23.7 bits (52), Expect = 9.1
 Identities = 5/20 (25%), Positives = 11/20 (55%)

Query: 31  LSPWSRSFKIWRSNPVPIYL 50
           +SP++   +   +NP  + L
Sbjct: 240 ISPFAHYNEAGDTNPTALGL 259


  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
   0.323    0.139    0.445 

Gapped
Lambda     K      H
   0.267   0.0735    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,283,909
Number of extensions: 61180
Number of successful extensions: 133
Number of sequences better than 10.0: 1
Number of HSP's gapped: 133
Number of HSP's successfully gapped: 15
Length of query: 81
Length of database: 6,701,793
Length adjustment: 50
Effective length of query: 31
Effective length of database: 5,305,743
Effective search space: 164478033
Effective search space used: 164478033
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 51 (23.4 bits)