RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy6309
         (134 letters)



>gnl|CDD|221353 pfam11977, RNase_Zc3h12a, Zc3h12a-like Ribonuclease NYN domain.
           This domain is found in the Zc3h12a protein which has
           shown to be a ribonuclease that controls the stability
           of a set of inflammatory genes. It has been suggested
           that this domain belongs to the PIN domain superfamily.
           This domain has also been identified as part of the NYN
           domain family.
          Length = 155

 Score =  108 bits (271), Expect = 4e-31
 Identities = 45/85 (52%), Positives = 64/85 (75%)

Query: 46  GILHYTPSRRVDGKLQCAYDDRYIVQVATEYDGVIVSNDRYRDIMQENDKWKATIERRLL 105
           G++ +TPSR +DG+   +YDDR+I+++A E DGVIVSND +RD+  E+ +WK  IE RLL
Sbjct: 71  GLIVFTPSRTLDGRRIVSYDDRFILELAEETDGVIVSNDNFRDLADESPEWKDIIEERLL 130

Query: 106 MFNFVKELLIFPQDPLGRDGPSLDE 130
           M+ FV +  + P DPLGR GPSL++
Sbjct: 131 MYTFVGDKFMLPDDPLGRLGPSLND 155


>gnl|CDD|233568 TIGR01774, PFL2-3, glycyl radical enzyme, PFL2/glycerol dehydratase
           family.  This family previously was designated pyruvate
           formate-lyase, but it now appears that members include
           the B12-independent glycerol dehydratase. Therefore, the
           functional definition of the family is being broadened.
           This family includes the PflF and PflD proteins of E.
           coli, described as isoforms of pyruvate-formate lyase
           found in a limited number additional species. PFL
           catalyzes the reaction pyruvate + CoA -> acetyl-CoA +
           formate, which is a step in the fermentation of glucose.
          Length = 786

 Score = 27.9 bits (62), Expect = 1.8
 Identities = 13/43 (30%), Positives = 18/43 (41%), Gaps = 3/43 (6%)

Query: 11  TPSRRVDGKLQCAYDDRYIPFRSPQVF---IQLTYFVSGILHY 50
           T   R +  L+ A   R +    PQ F   +QL + V  IL  
Sbjct: 227 TGESRREELLKIAEICRKVAAEKPQTFWQAVQLVWLVQSILQQ 269


>gnl|CDD|225135 COG2225, AceB, Malate synthase [Energy production and conversion].
          Length = 545

 Score = 27.3 bits (61), Expect = 2.4
 Identities = 17/67 (25%), Positives = 27/67 (40%), Gaps = 10/67 (14%)

Query: 70  VQVATEYDGVIVSNDRYRDIM-QENDKWKATIERRLLMFN---FVKELLIFPQDPLGRDG 125
             V  E DGV V+ +R   ++ ++N    A   R +   +   F     +  Q   G   
Sbjct: 473 HGVVLE-DGVRVTPERMAQLVDEQNAGDPA--YRPMNFDDSGAFQAAADLILQ---GTTQ 526

Query: 126 PSLDEFL 132
           P+  EFL
Sbjct: 527 PNGTEFL 533


>gnl|CDD|183230 PRK11613, folP, dihydropteroate synthase; Provisional.
          Length = 282

 Score = 26.6 bits (59), Expect = 3.8
 Identities = 13/26 (50%), Positives = 15/26 (57%), Gaps = 3/26 (11%)

Query: 1   MSYKSGI---LHYTPSRRVDGKLQCA 23
           MS KS I   L+  PS R+ G L CA
Sbjct: 218 MSRKSMIGQLLNVGPSERLSGSLACA 243


>gnl|CDD|227828 COG5541, RET3, Vesicle coat complex COPI, zeta subunit
           [Posttranslational modification, protein turnover,
           chaperones].
          Length = 187

 Score = 25.3 bits (55), Expect = 9.4
 Identities = 11/50 (22%), Positives = 21/50 (42%), Gaps = 3/50 (6%)

Query: 35  QVFIQLTYFVSGILHYTPSRRVDGKLQCAYDDRYIVQVATEYDGVIVSND 84
           QVF ++   +  I+     +R    +   YD   ++   T  +GVI+   
Sbjct: 96  QVFDEIRAALILIVKTPTDKR---NVWENYDQIVLLVDETIDEGVILETK 142


  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
   0.326    0.144    0.442 

Gapped
Lambda     K      H
   0.267   0.0716    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,226,620
Number of extensions: 648495
Number of successful extensions: 659
Number of sequences better than 10.0: 1
Number of HSP's gapped: 659
Number of HSP's successfully gapped: 15
Length of query: 134
Length of database: 10,937,602
Length adjustment: 86
Effective length of query: 48
Effective length of database: 7,123,158
Effective search space: 341911584
Effective search space used: 341911584
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 54 (24.6 bits)