RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy5532
         (168 letters)



>d2q80a1 a.128.1.1 (A:6-296) Geranylgeranyl pyrophosphate synthetase
           {Human (Homo sapiens) [TaxId: 9606]}
          Length = 291

 Score = 58.6 bits (140), Expect = 2e-11
 Identities = 21/68 (30%), Positives = 32/68 (47%), Gaps = 1/68 (1%)

Query: 54  YYFDGQGKAVRPMVSVLMGRAINYHLNR-KQVAMFAEMIHTASLIHDDVIDQSDFRRGKP 112
           Y     GK VR  +S      +    ++ + +    EM+H ASL+ DD+ D S  RRG P
Sbjct: 13  YLLQLPGKQVRTKLSQAFNHWLKVPEDKLQIIIEVTEMLHNASLLIDDIEDNSKLRRGFP 72

Query: 113 SVNVVYNH 120
             + +Y  
Sbjct: 73  VAHSIYGI 80



 Score = 43.2 bits (100), Expect = 5e-06
 Identities = 15/32 (46%), Positives = 20/32 (62%)

Query: 4  EMIHTASLIHDDVIDQSDFRRGKPSVNVVYNH 35
          EM+H ASL+ DD+ D S  RRG P  + +Y  
Sbjct: 49 EMLHNASLLIDDIEDNSKLRRGFPVAHSIYGI 80


>d1rtra_ a.128.1.1 (A:) Farnesyl diphosphate synthase
           (geranyltranstransferase) {Staphylococcus aureus [TaxId:
           1280]}
          Length = 290

 Score = 45.8 bits (107), Expect = 5e-07
 Identities = 23/101 (22%), Positives = 42/101 (41%), Gaps = 3/101 (2%)

Query: 36  KKELISNTNQEELRTISTYYFDGQGKAVRPMVSVLMGRAINYHLN-RKQVAMFAEMIHTA 94
              +  +    +L     Y  +  GK +RP++ +L   ++N       + A+  EMIHT 
Sbjct: 17  SVAINKSVMDTQLEESMLYSLNAGGKRIRPVLLLLTLDSLNTEYELGMKSAIALEMIHTY 76

Query: 95  SLIHDDVIDQSDFRRG--KPSVNVVYNHKKELISNTNQEEL 133
           SLIHDD+    +      K + + VY     +++       
Sbjct: 77  SLIHDDLPAMDNDDYRRGKLTNHKVYGEWTAILAGDALLTK 117



 Score = 30.0 bits (66), Expect = 0.12
 Identities = 8/43 (18%), Positives = 18/43 (41%)

Query: 121 KKELISNTNQEELRTISTYYFDGQGKAVRPMVSVLMGRAINYH 163
              +  +    +L     Y  +  GK +RP++ +L   ++N  
Sbjct: 17  SVAINKSVMDTQLEESMLYSLNAGGKRIRPVLLLLTLDSLNTE 59


>d1fpsa_ a.128.1.1 (A:) Farnesyl diphosphate synthase
           (geranyltranstransferase) {Chicken (Gallus gallus)
           [TaxId: 9031]}
          Length = 348

 Score = 42.3 bits (98), Expect = 9e-06
 Identities = 17/76 (22%), Positives = 29/76 (38%), Gaps = 8/76 (10%)

Query: 60  GKAVRPMVSVLMGRAINYHLNRK--------QVAMFAEMIHTASLIHDDVIDQSDFRRGK 111
           GK  R +  V   R ++    +          V    E+     L+ DD++DQS  RRG+
Sbjct: 51  GKCNRGLTVVAAYRELSGPGQKDAESLRCALAVGWCIELFQAFFLVADDIMDQSLTRRGQ 110

Query: 112 PSVNVVYNHKKELISN 127
                      + I++
Sbjct: 111 LCWYKKEGVGLDAIND 126



 Score = 33.1 bits (74), Expect = 0.012
 Identities = 11/39 (28%), Positives = 19/39 (48%)

Query: 4   EMIHTASLIHDDVIDQSDFRRGKPSVNVVYNHKKELISN 42
           E+     L+ DD++DQS  RRG+           + I++
Sbjct: 88  ELFQAFFLVADDIMDQSLTRRGQLCWYKKEGVGLDAIND 126


>d1v4ea_ a.128.1.1 (A:) Octoprenyl-diphosphate synthase {Thermotoga
           maritima [TaxId: 2336]}
          Length = 280

 Score = 35.0 bits (79), Expect = 0.003
 Identities = 26/86 (30%), Positives = 39/86 (45%), Gaps = 2/86 (2%)

Query: 37  KELISNTNQEELRTISTYYFDGQGKAVRPMVSVLMGRAINYHLNRK--QVAMFAEMIHTA 94
           KE I     +             GK +R  +S+L  +     +           E++H A
Sbjct: 9   KERIEQILSQFFPEQIMKDLPLYGKMLRVRLSILSFKNRGVEIGEDAISSLAALELVHLA 68

Query: 95  SLIHDDVIDQSDFRRGKPSVNVVYNH 120
           SL+HDDVID + FRRGK ++N +Y  
Sbjct: 69  SLLHDDVIDGARFRRGKETINFMYGD 94



 Score = 24.2 bits (51), Expect = 9.6
 Identities = 8/46 (17%), Positives = 14/46 (30%)

Query: 122 KELISNTNQEELRTISTYYFDGQGKAVRPMVSVLMGRAINYHLNRK 167
           KE I     +             GK +R  +S+L  +     +   
Sbjct: 9   KERIEQILSQFFPEQIMKDLPLYGKMLRVRLSILSFKNRGVEIGED 54


>d1rqja_ a.128.1.1 (A:) Farnesyl diphosphate synthase
           (geranyltranstransferase) {Escherichia coli [TaxId:
           562]}
          Length = 299

 Score = 33.0 bits (74), Expect = 0.012
 Identities = 18/75 (24%), Positives = 23/75 (30%), Gaps = 1/75 (1%)

Query: 43  TNQEELRTISTYYFDGQGKAVRPMVSVLMGRAINYHLNRKQVAMFA-EMIHTASLIHDDV 101
                +     Y     GK +RP +    G       N       A E IH  SLIHDD+
Sbjct: 27  FQNTPVVETMQYGALLGGKRLRPFLVYATGHMFGVSTNTLDAPAAAVECIHAYSLIHDDL 86

Query: 102 IDQSDFRRGKPSVNV 116
               D    +     
Sbjct: 87  PAMDDDDLRRGLPTC 101


  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
   0.320    0.133    0.377 

Gapped
Lambda     K      H
   0.267   0.0630    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 616,941
Number of extensions: 26481
Number of successful extensions: 63
Number of sequences better than 10.0: 1
Number of HSP's gapped: 60
Number of HSP's successfully gapped: 16
Length of query: 168
Length of database: 2,407,596
Length adjustment: 79
Effective length of query: 89
Effective length of database: 1,322,926
Effective search space: 117740414
Effective search space used: 117740414
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 (21.8 bits)
S2: 50 (23.2 bits)