RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy12849
         (138 letters)



>2z2v_A Hypothetical protein PH1688; L-lysine dehydrogenase,
           oxidoreductase; HET: NAD; 2.44A {Pyrococcus horikoshii}
           PDB: 3a63_A* 3abi_A*
          Length = 365

 Score = 45.7 bits (108), Expect = 9e-07
 Identities = 17/104 (16%), Positives = 42/104 (40%), Gaps = 6/104 (5%)

Query: 33  RTTVVNTINESSILIMAKKCRVILNCVGPYTWYGEAVVKACIEAKTHHVDITGEPYFMEY 92
               V+  N   ++ + K+  +++  +  +   G   +KA I++K   VD++  P     
Sbjct: 59  TPLKVDASNFDKLVEVMKEFELVIGALPGF--LGFKSIKAAIKSKVDMVDVSFMPENPL- 115

Query: 93  MQYEYNTRAQESEVCVVSACGIETLPIDMGVLMLQDSFEGHSGK 136
              E    A++++V +V   G      ++ +  +    +   G 
Sbjct: 116 ---ELRDEAEKAQVTIVFDAGFAPGLSNILMGRIFQELDLKEGY 156


>3ic5_A Putative saccharopine dehydrogenase; structural genomics,
           APC63807.2, N-terminal domain, saccharo dehydrogenase,
           PSI-2; HET: MSE; 2.08A {Ruegeria pomeroyi}
          Length = 118

 Score = 43.6 bits (103), Expect = 1e-06
 Identities = 11/70 (15%), Positives = 27/70 (38%), Gaps = 3/70 (4%)

Query: 33  RTTVVNTINESSILIMAKKCRVILNCVGPYTWYGEAVVKACIEAKTHHVDITGEPYFMEY 92
            T  V+  +E+ +         +++   P+ +    + KA   A  H+ D+T +      
Sbjct: 51  ATKQVDAKDEAGLAKALGGFDAVISAA-PF-FLTPIIAKAAKAAGAHYFDLTEDVAATNA 108

Query: 93  MQYEYNTRAQ 102
           ++      +Q
Sbjct: 109 VR-ALVEDSQ 117


>3u9t_A MCC alpha, methylcrotonyl-COA carboxylase, alpha-subunit; biotin
           carboxylase, carboxyltransferase, BT domain, BCCP DOM
           ligase; 2.90A {Pseudomonas aeruginosa} PDB: 3u9s_A
          Length = 675

 Score = 28.8 bits (65), Expect = 0.66
 Identities = 10/22 (45%), Positives = 13/22 (59%), Gaps = 5/22 (22%)

Query: 81  VDITGEPYFMEYMQYEYNTRAQ 102
           +D  G+ +FME M    NTR Q
Sbjct: 304 LDERGQFFFME-M----NTRLQ 320


>3n6r_A Propionyl-COA carboxylase, alpha subunit; protein complex,
           biotin-dependent carboxylase, ligase; HET: BTI; 3.20A
           {Ruegeria pomeroyi}
          Length = 681

 Score = 26.9 bits (60), Expect = 2.3
 Identities = 10/22 (45%), Positives = 11/22 (50%), Gaps = 5/22 (22%)

Query: 81  VDITGEPYFMEYMQYEYNTRAQ 102
           VD     YF+E M    NTR Q
Sbjct: 278 VDGQKNFYFLE-M----NTRLQ 294


>1wcw_A Uroporphyrinogen III synthase; congenital erythropoietic porph
           structural genomics, riken structural
           genomics/proteomics initiative, RSGI; 1.30A {Thermus
           thermophilus} PDB: 1wd7_A 1wcx_A
          Length = 261

 Score = 26.7 bits (59), Expect = 2.8
 Identities = 10/66 (15%), Positives = 18/66 (27%), Gaps = 10/66 (15%)

Query: 31  TNRTTVVNTIN---ESSILIMAKKCRVILNCVGPYTWYGEAVVKACIEAKTHHVDITGEP 87
                V        +   L  A   RV    VG  T   +A+ +  ++          E 
Sbjct: 190 VAAIQVEFLFEGAKDPKALREALNTRVKALAVGRVT--ADALREWGVK-----PFYVDET 242

Query: 88  YFMEYM 93
             +  +
Sbjct: 243 ERLGSL 248


>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 = 26.2 bits (57), Expect = 4.4
 Identities = 17/101 (16%), Positives = 30/101 (29%), Gaps = 33/101 (32%)

Query: 9   KLTADILKIFLFLQKASWFGVRTNRTTVVNTINESSILI------------M-----AKK 51
                 + + LF     + GVR        ++   SIL             M       +
Sbjct: 294 VSVRKAITV-LF-----FIGVRCYEAYPNTSL-PPSILEDSLENNEGVPSPMLSISNLTQ 346

Query: 52  CRVI-----LNCVGPYTWYGEAVVKACIEAKTHHVDITGEP 87
            +V       N   P    G+ V  + +    + V ++G P
Sbjct: 347 EQVQDYVNKTNSHLP---AGKQVEISLVNGAKNLV-VSGPP 383


  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
   0.321    0.134    0.404 

Gapped
Lambda     K      H
   0.267   0.0741    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,000,175
Number of extensions: 105926
Number of successful extensions: 163
Number of sequences better than 10.0: 1
Number of HSP's gapped: 163
Number of HSP's successfully gapped: 9
Length of query: 138
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 54
Effective length of database: 4,356,429
Effective search space: 235247166
Effective search space used: 235247166
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (23.8 bits)