RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy15892
         (80 letters)



>gnl|CDD|130860 TIGR01801, CM_A, chorismate mutase domain of gram positive AroA
          protein.  This model represents a small clade of
          chorismate mutase domains N-terminally fused to the
          first enzyme in the chorismate pathway,
          2-dehydro-3-deoxyphosphoheptanoate aldolase (DAHP
          synthetase, AroA) which are found in some gram positive
          species and Deinococcus. Only in Deinococcus, where
          this domain is the sole CM domain in the genome can a
          trusted assignment of function be made. In the other
          species there is at least one other trusted CM domain
          present. The similarity between the Deinococcus gene
          and the others in this clade is sufficiently strong
          (~44% identity), that the whole clade can be trusted to
          be functional. The possibility exists, however, that in
          the gram positive species the fusion to the first
          enzyme in the pathway has evolved a separate,
          regulatory role [Amino acid biosynthesis, Aromatic
          amino acid family].
          Length = 102

 Score = 25.6 bits (56), Expect = 2.1
 Identities = 11/34 (32%), Positives = 17/34 (50%), Gaps = 2/34 (5%)

Query: 49 MDGNASDLYRQEVTQLKCDKLDLL--RQNVVSRL 80
          M   + +  R EV QL    L L+  R  VV+++
Sbjct: 1  MSNQSLEDLRAEVDQLNRQILALISRRGEVVAQI 34


>gnl|CDD|179569 PRK03359, PRK03359, putative electron transfer flavoprotein FixA;
           Reviewed.
          Length = 256

 Score = 25.1 bits (55), Expect = 4.6
 Identities = 15/34 (44%), Positives = 22/34 (64%), Gaps = 1/34 (2%)

Query: 47  LCMDGNASDLYRQEVTQLKCDKLDLLRQNVVSRL 80
           LC DG +SDLY Q+V  L  + L++   N VS++
Sbjct: 117 LCGDG-SSDLYAQQVGLLVGEILNIPAINGVSKI 149


>gnl|CDD|236968 PRK11750, gltB, glutamate synthase subunit alpha; Provisional.
          Length = 1485

 Score = 24.5 bits (54), Expect = 7.5
 Identities = 12/23 (52%), Positives = 15/23 (65%), Gaps = 1/23 (4%)

Query: 2   GMSESDSSSLGSMELEGEGAGGV 24
             + SDSSSL +M LE   AGG+
Sbjct: 277 NETGSDSSSLDNM-LELLLAGGM 298


  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
   0.308    0.127    0.352 

Gapped
Lambda     K      H
   0.267   0.0773    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,529,318
Number of extensions: 243766
Number of successful extensions: 124
Number of sequences better than 10.0: 1
Number of HSP's gapped: 124
Number of HSP's successfully gapped: 6
Length of query: 80
Length of database: 10,937,602
Length adjustment: 49
Effective length of query: 31
Effective length of database: 8,764,256
Effective search space: 271691936
Effective search space used: 271691936
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 53 (24.1 bits)