RPS-BLAST 2.2.26 [Sep-21-2011]

Database: CDD.v3.10 
           44,354 sequences; 10,937,602 total letters

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

Query= 025238
         (255 letters)



>gnl|CDD|223099 COG0020, UppS, Undecaprenyl pyrophosphate synthase [Lipid
           metabolism].
          Length = 245

 Score = 35.7 bits (83), Expect = 0.013
 Identities = 39/179 (21%), Positives = 68/179 (37%), Gaps = 42/179 (23%)

Query: 82  IPAVIQLLQWLVDIGVKHVCLYDAEGIL-KKSKE--SILGKLNNATLFEEA--------- 129
             A+ ++L+W +++G+K++ LY       K+ KE  S L +L    L EE          
Sbjct: 46  AKALREILEWCLELGIKYLTLYAFSTENWKRPKEEVSFLMELFEKALREELKKLHKNGVR 105

Query: 130 ----GESNLL---------------LDHKHITLEFASFPDGKEAVAKAANLLFMKYVKLG 170
               G+ + L                ++  +TL  A    G++ +  A   +    V  G
Sbjct: 106 IRIIGDLSRLPEEVREAIEKAEEKTKNNTGLTLNIAVNYGGRDEIVDAVRKIAED-VAAG 164

Query: 171 G--SGKIQEEKIFTEAHMSEALRAVGCKGPEPDLLLVYGPVRCHLGFPAWRIRYTEIVH 227
                 I EE I +  + S          P+PDLL+     +    F  W+  Y+E+  
Sbjct: 165 KLSPEDIDEELISSHLYTSGL--------PDPDLLIRTSGEQRLSNFLLWQSAYSELYF 215


>gnl|CDD|181976 PRK09592, celD, cellobiose phosphotransferase system IIC component;
           Reviewed.
          Length = 449

 Score = 28.9 bits (65), Expect = 3.0
 Identities = 12/31 (38%), Positives = 18/31 (58%), Gaps = 3/31 (9%)

Query: 20  LGLWIIWLLIHFAVDLWYFALHIACAIESYL 50
           +GL II+ LIH    LW   +H A  + S++
Sbjct: 254 IGLMIIYFLIHA---LWIVGIHGANIVSSFV 281


>gnl|CDD|225546 COG3000, ERG3, Sterol desaturase [Lipid metabolism].
          Length = 271

 Score = 28.2 bits (63), Expect = 4.1
 Identities = 6/20 (30%), Positives = 9/20 (45%)

Query: 22  LWIIWLLIHFAVDLWYFALH 41
             +  LL    +DL Y+  H
Sbjct: 95  FALQLLLAFLFLDLGYYWAH 114


>gnl|CDD|131948 TIGR02902, spore_lonB, ATP-dependent protease LonB.  Members of
           this protein are LonB, a paralog of the ATP-dependent
           protease La (LonA, TIGR00763). LonB proteins are found
           strictly, and almost universally, in endospore-forming
           bacteria. This protease was shown, in Bacillus subtilis,
           to be expressed specifically in the forespore, during
           sporulation, under control of sigma(F). The lonB gene,
           despite location immediately upstream of lonA, was shown
           to be monocistronic. LonB appears able to act on
           sigma(H) for post-translation control, but lonB mutation
           did not produce an obvious sporulation defect under the
           conditions tested. Note that additional paralogs of LonA
           and LonB occur in the Clostridium lineage and this model
           selects only one per species as the protein that
           corresponds to LonB in B. subtilis [Protein fate,
           Degradation of proteins, peptides, and glycopeptides,
           Cellular processes, Sporulation and germination].
          Length = 531

 Score = 27.4 bits (61), Expect = 9.7
 Identities = 14/33 (42%), Positives = 19/33 (57%), Gaps = 8/33 (24%)

Query: 176 QEEKIFTEAHMSEALRAVGCKGPEPDLLLVYGP 208
           QEE I       +AL+A  C GP P  +++YGP
Sbjct: 70  QEEGI-------KALKAALC-GPNPQHVIIYGP 94


  Database: CDD.v3.10
    Posted date:  Mar 20, 2013  7:55 AM
  Number of letters in database: 10,937,602
  Number of sequences in database:  44,354
  
Lambda     K      H
   0.325    0.141    0.434 

Gapped
Lambda     K      H
   0.267   0.0690    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,308,587
Number of extensions: 1284412
Number of successful extensions: 1482
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1482
Number of HSP's successfully gapped: 17
Length of query: 255
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 160
Effective length of database: 6,723,972
Effective search space: 1075835520
Effective search space used: 1075835520
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 58 (26.2 bits)