RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy4736
         (98 letters)



>gnl|CDD|236982 PRK11784, PRK11784, tRNA 2-selenouridine synthase; Provisional.
          Length = 345

 Score = 28.3 bits (64), Expect = 0.62
 Identities = 9/32 (28%), Positives = 14/32 (43%)

Query: 63  DPMYQYSLNWFINLYVQSIEGSEKTDQLDKRL 94
           DPMY+Y L    +      + +E  + L   L
Sbjct: 314 DPMYRYQLEKKADRIDFRGDLAEVAEWLRALL 345


>gnl|CDD|216240 pfam01008, IF-2B, Initiation factor 2 subunit family.  This family
           includes initiation factor 2B alpha, beta and delta
           subunits from eukaryotes, initiation factor 2B subunits
           1 and 2 from archaebacteria and some proteins of unknown
           function from prokaryotes. Initiation factor 2 binds to
           Met-tRNA, GTP and the small ribosomal subunit. Members
           of this family have also been characterized as
           5-methylthioribose- 1-phosphate isomerases, an enzyme of
           the methionine salvage pathway. The crystal structure of
           Ypr118w, a non-essential, low-copy number gene product
           from Saccharomyces cerevisiae, reveals a dimeric protein
           with two domains and a putative active site cleft.
          Length = 281

 Score = 27.6 bits (62), Expect = 0.82
 Identities = 7/23 (30%), Positives = 12/23 (52%)

Query: 45  VSKHSSVLFFCCAELSNIDPMYQ 67
           ++K  +V F+  AE    DP + 
Sbjct: 204 LAKAHNVPFYVVAETYKFDPRFP 226


>gnl|CDD|185159 PRK15247, PRK15247, putative fimbrial usher protein StbD;
           Provisional.
          Length = 441

 Score = 27.6 bits (61), Expect = 1.2
 Identities = 13/45 (28%), Positives = 21/45 (46%), Gaps = 6/45 (13%)

Query: 37  DARMMYIPVSKHSSVLFFCCAELSNIDP--MYQYSLNWFINLYVQ 79
           D + +YIP S  S+VL+    E+  ID    + Y      + + Q
Sbjct: 174 DDKYIYIPASAFSNVLY----EMFKIDSRKYFAYQNPMDRDTWTQ 214


>gnl|CDD|181973 PRK09589, celA, 6-phospho-beta-glucosidase; Reviewed.
          Length = 476

 Score = 26.7 bits (59), Expect = 2.4
 Identities = 10/17 (58%), Positives = 12/17 (70%), Gaps = 1/17 (5%)

Query: 62  IDPM-YQYSLNWFINLY 77
           IDP   +YSLNWF + Y
Sbjct: 350 IDPAGLRYSLNWFWDHY 366


>gnl|CDD|165325 PHA03027, PHA03027, hypothetical protein; Provisional.
          Length = 325

 Score = 25.4 bits (55), Expect = 5.1
 Identities = 11/51 (21%), Positives = 21/51 (41%), Gaps = 2/51 (3%)

Query: 33  KEIDDARMMYIPVSKHSSVLFFCCAELSNIDPMY--QYSLNWFINLYVQSI 81
           K++D+    +    K +  +   C     ID  +  ++  N FI L  + I
Sbjct: 230 KDLDEDIKKFFKEFKLNGCILPNCFLFPKIDAKFILKFKFNVFIKLKAEFI 280


>gnl|CDD|226135 COG3608, COG3608, Predicted deacylase [General function prediction
           only].
          Length = 331

 Score = 25.4 bits (56), Expect = 5.2
 Identities = 11/69 (15%), Positives = 19/69 (27%), Gaps = 6/69 (8%)

Query: 3   SRQCGRFSRHRSTAGRLCVDTHTGGPSRT------EKEIDDARMMYIPVSKHSSVLFFCC 56
            R   R  R       + +D H+GG            EI D   +   ++  ++      
Sbjct: 123 ERIADRLKRLLLPLADIVLDLHSGGEGLDYLPYILAHEIPDIASLAKALAIAAAFGSPYS 182

Query: 57  AELSNIDPM 65
                 D  
Sbjct: 183 VIFDEADAD 191


>gnl|CDD|215431 PLN02801, PLN02801, beta-amylase.
          Length = 517

 Score = 25.5 bits (56), Expect = 5.3
 Identities = 9/26 (34%), Positives = 15/26 (57%), Gaps = 4/26 (15%)

Query: 38  ARMMYIPVSKHSSVLFFCCAELSNID 63
           ARM+    S+H  +L F C E+ + +
Sbjct: 333 ARML----SRHYGILNFTCLEMRDTE 354


  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
   0.323    0.136    0.416 

Gapped
Lambda     K      H
   0.267   0.0694    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,656,324
Number of extensions: 359046
Number of successful extensions: 328
Number of sequences better than 10.0: 1
Number of HSP's gapped: 328
Number of HSP's successfully gapped: 11
Length of query: 98
Length of database: 10,937,602
Length adjustment: 64
Effective length of query: 34
Effective length of database: 8,098,946
Effective search space: 275364164
Effective search space used: 275364164
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: 40 (21.5 bits)
S2: 53 (24.3 bits)