RPS-BLAST 2.2.26 [Sep-21-2011]

Database: scop70_1_75 
           13,730 sequences; 2,407,596 total letters

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

Query= psy3941
         (83 letters)



>d1f0ya1 a.100.1.3 (A:204-302) Short chain L-3-hydroxyacyl CoA
          dehydrogenase {Human (Homo sapiens) [TaxId: 9606]}
          Length = 99

 Score = 71.5 bits (174), Expect = 8e-19
 Identities = 61/82 (74%), Positives = 67/82 (81%)

Query: 1  MYERGDASPRDIDTAMKLGAGYPMGPFELADYVGHDTTKFIIDGWHKKFPENPLFKPVDA 60
          +YERGDAS  DIDTAMKLGAGYPMGPFEL DYVG DTTKFI+DGWH+   ENPL +P  +
Sbjct: 18 LYERGDASKEDIDTAMKLGAGYPMGPFELLDYVGLDTTKFIVDGWHEMDAENPLHQPSPS 77

Query: 61 LNKLVDEGKLGVKSGEGFYNYK 82
          LNKLV E K G K+GEGFY YK
Sbjct: 78 LNKLVAENKFGKKTGEGFYKYK 99


>d1wdka1 a.100.1.3 (A:497-620) Fatty oxidation complex alpha
          subunit, C-terminal domain {Pseudomonas fragi [TaxId:
          296]}
          Length = 124

 Score = 52.9 bits (126), Expect = 3e-11
 Identities = 28/83 (33%), Positives = 40/83 (48%), Gaps = 2/83 (2%)

Query: 1  MYERGDASPRDIDTAMKLGAGYPMGPFELADYVGHDTTKFIIDGWHKKFPENPLFKPVDA 60
          +   G      ID  M+   G+PMGP  L D VG DT     D   + FP+        A
Sbjct: 18 LVSAG-VDFVRIDKVME-KFGWPMGPAYLMDVVGIDTGHHGRDVMAEGFPDRMKDDRRSA 75

Query: 61 LNKLVDEGKLGVKSGEGFYNYKK 83
          ++ L +  +LG K+G+GFY Y+ 
Sbjct: 76 IDALYEAKRLGQKNGKGFYAYEA 98


>d1wdka2 a.100.1.3 (A:621-715) Fatty oxidation complex alpha
          subunit, C-terminal domain {Pseudomonas fragi [TaxId:
          296]}
          Length = 95

 Score = 44.8 bits (106), Expect = 2e-08
 Identities = 16/83 (19%), Positives = 31/83 (37%), Gaps = 14/83 (16%)

Query: 1  MYERGDA-SPRDIDTAMKLGAGYPM---GPFELADYVGHDTTKFIIDGWHKKFPENPLFK 56
            E G   +  + D  +  G G+P+   G     D +G      + D + +      L+ 
Sbjct: 22 CLEDGIVETAAEADMGLVYGIGFPLFRGGALRYIDSIGVAEFVALADQYAE---LGALYH 78

Query: 57 PVDALNKLVDEGKLGVKSGEGFY 79
          P   L ++        K+G+ F+
Sbjct: 79 PTAKLREMA-------KNGQSFF 94


>d2dk8a1 a.4.5.85 (A:8-75) DNA-directed RNA polymerase III subunit
          RPC6, RPO3F {Mouse (Mus musculus) [TaxId: 10090]}
          Length = 68

 Score = 24.7 bits (54), Expect = 0.67
 Identities = 10/38 (26%), Positives = 18/38 (47%), Gaps = 2/38 (5%)

Query: 47 KKFPENPLFKPVDALNKLVDEGKLGV-KSGEGF-YNYK 82
           + P     +   A+N+L+  G+L + +S  G  Y  K
Sbjct: 30 NEMPHIEAQQRAVAINRLLSMGQLDLLRSNTGLLYRIK 67


>d1gc0a_ c.67.1.3 (A:) Methionine gamma-lyase, MGL {Pseudomonas
           putida [TaxId: 303]}
          Length = 392

 Score = 25.1 bits (54), Expect = 1.1
 Identities = 9/29 (31%), Positives = 11/29 (37%), Gaps = 1/29 (3%)

Query: 26  PFEL-ADYVGHDTTKFIIDGWHKKFPENP 53
           P EL AD V H  TK++            
Sbjct: 191 PLELGADLVVHSATKYLSGHGDITAGIVV 219


>d2b4aa1 c.23.1.1 (A:2-119) Hypothetical protein BH3024 {Bacillus
           halodurans [TaxId: 86665]}
          Length = 118

 Score = 24.5 bits (53), Expect = 1.3
 Identities = 3/25 (12%), Positives = 10/25 (40%)

Query: 7   ASPRDIDTAMKLGAGYPMGPFELAD 31
               ++  + +    Y   PF +++
Sbjct: 83  TGRHELIESSEHNLSYLQKPFAISE 107


>d2qy9a1 a.24.13.1 (A:201-284) Signal recognition particle
          receptor, FtsY {Escherichia coli [TaxId: 562]}
          Length = 84

 Score = 23.5 bits (51), Expect = 2.6
 Identities = 9/35 (25%), Positives = 13/35 (37%)

Query: 33 VGHDTTKFIIDGWHKKFPENPLFKPVDALNKLVDE 67
          VG +TT+ II    +      L         L +E
Sbjct: 40 VGVETTRKIITNLTEGASRKQLRDAEALYGLLKEE 74


>d1wiia_ g.41.3.4 (A:) Hypothetical UPF0222 protein MGC4549 {Mouse
          (Mus musculus) [TaxId: 10090]}
          Length = 85

 Score = 23.6 bits (51), Expect = 2.6
 Identities = 6/19 (31%), Positives = 9/19 (47%)

Query: 49 FPENPLFKPVDALNKLVDE 67
           P   L +PVD  +  +D 
Sbjct: 59 TPITYLSEPVDVYSDWIDA 77


>d1n8ia_ c.1.13.1 (A:) Malate synthase G {Mycobacterium
          tuberculosis [TaxId: 1773]}
          Length = 726

 Score = 23.4 bits (50), Expect = 4.7
 Identities = 9/37 (24%), Positives = 14/37 (37%), Gaps = 2/37 (5%)

Query: 42 IDGWHKKFPENPLFKPVDALNKLVDEGKLGVKSGEGF 78
          ID WH++    P          L + G L +   + F
Sbjct: 63 IDKWHRRRVIEP-IDMDAYRQFLTEIGYL-LPEPDDF 97


>d1tuba2 d.79.2.1 (A:246-440) Tubulin alpha-subunit {Pig (Sus
          scrofa) [TaxId: 9823]}
          Length = 195

 Score = 22.6 bits (48), Expect = 7.7
 Identities = 6/13 (46%), Positives = 10/13 (76%)

Query: 4  RGDASPRDIDTAM 16
          RGD  P+D++ A+
Sbjct: 75 RGDVVPKDVNAAI 87


>d1ldda_ a.4.5.34 (A:) Anaphase promoting complex (APC) {Baker's
          yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
          Length = 74

 Score = 22.0 bits (47), Expect = 8.4
 Identities = 9/19 (47%), Positives = 11/19 (57%), Gaps = 1/19 (5%)

Query: 61 LNKLVDEGKLGVKSGEGFY 79
          LN L DEG+L   +  G Y
Sbjct: 54 LNTLADEGRLKYIAN-GSY 71


>d1d8ca_ c.1.13.1 (A:) Malate synthase G {Escherichia coli [TaxId:
          562]}
          Length = 720

 Score = 22.6 bits (48), Expect = 8.8
 Identities = 9/37 (24%), Positives = 13/37 (35%), Gaps = 2/37 (5%)

Query: 42 IDGWHKKFPENPLFKPVDALNKLVDEGKLGVKSGEGF 78
          +D WH+  P           + L + G L V   E  
Sbjct: 62 LDEWHRSNPGPV-KDKAAYKSFLRELGYL-VPQPERV 96


  Database: scop70_1_75
    Posted date:  Mar 27, 2010  6:21 PM
  Number of letters in database: 2,407,596
  Number of sequences in database:  13,730
  
Lambda     K      H
   0.317    0.142    0.441 

Gapped
Lambda     K      H
   0.267   0.0466    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 342,270
Number of extensions: 14414
Number of successful extensions: 44
Number of sequences better than 10.0: 1
Number of HSP's gapped: 43
Number of HSP's successfully gapped: 16
Length of query: 83
Length of database: 2,407,596
Length adjustment: 49
Effective length of query: 34
Effective length of database: 1,734,826
Effective search space: 58984084
Effective search space used: 58984084
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 (21.6 bits)
S2: 47 (22.5 bits)