RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy12813
         (98 letters)



>gnl|CDD|215639 PLN03226, PLN03226, serine hydroxymethyltransferase; Provisional.
          Length = 475

 Score = 27.3 bits (61), Expect = 1.3
 Identities = 16/37 (43%), Positives = 21/37 (56%), Gaps = 5/37 (13%)

Query: 7   IKKETGKEAEVVLKDFKEDNQSWIGRAEQIAALRDKV 43
           I+KE GK     LKDFK+  +S     + I ALR +V
Sbjct: 423 IQKEHGK----KLKDFKKGLESNDFSKD-IEALRAEV 454


>gnl|CDD|107361 cd06366, PBP1_GABAb_receptor, Ligand-binding domain of GABAb
          receptors, which are metabotropic transmembrane
          receptors for gamma-aminobutyric acid (GABA).
          Ligand-binding domain of GABAb receptors, which are
          metabotropic transmembrane receptors for
          gamma-aminobutyric acid (GABA). GABA is the major
          inhibitory neurotransmitter in the mammalian CNS and,
          like glutamate and other transmitters, acts via both
          ligand gated ion channels (GABAa receptors) and
          G-protein coupled receptors (GABAb). GABAa receptors
          are members of the ionotropic receptor superfamily
          which includes alpha-adrenergic and glycine receptors.
          The GABAb receptor is a member of a receptor
          superfamily which includes the mGlu receptors. The
          GABAb receptor is coupled to G alpha_i proteins, and
          activation causes a decrease in calcium, an increase in
          potassium membrane conductance, and inhibition of cAMP
          formation. The response is thus inhibitory and leads to
          hyperpolarization and decreased neurotransmitter
          release, for example.
          Length = 350

 Score = 27.2 bits (61), Expect = 1.3
 Identities = 20/74 (27%), Positives = 32/74 (43%), Gaps = 17/74 (22%)

Query: 26 NQSWIGRAEQIA---ALRD-----------KVKLKCVNS---GLGSFSVALYLLEPHTCR 68
          + SWIG+A   A   AL D           ++ L   +S    + + S AL LLE     
Sbjct: 9  SGSWIGKAALPAIEMALEDVNADNSILPGYRLVLHVRDSKCDPVQAASAALDLLENKPVV 68

Query: 69 YILGVESSMICKLL 82
           I+G + S + + +
Sbjct: 69 AIIGPQCSSVAEFV 82


>gnl|CDD|149040 pfam07756, DUF1612, Protein of unknown function (DUF1612).  This
          family includes sequences of largely unknown function
          but which share a number of features in common. They
          are expressed by bacterial species, and in many cases
          these bacteria are known to associate symbiotically
          with plants. Moreover, the majority are coded for by
          plasmids, which in many cases are known to confer on
          the organism the ability to interact symbiotically with
          leguminous plants. An example of such a plasmid is
          NGR234, which encodes Y4CF, a protein of unknown
          function that is a member of this family. Other members
          of this family are expressed by organisms with a
          documented genomic similarity to plant symbionts.
          Length = 129

 Score = 25.3 bits (56), Expect = 4.5
 Identities = 10/32 (31%), Positives = 14/32 (43%), Gaps = 4/32 (12%)

Query: 25 DNQSWIGRAEQIAALRDKVK----LKCVNSGL 52
              W+GR    + LR + K    L  +N GL
Sbjct: 47 QRSPWLGRLLAASYLRQRGKTASHLPALNLGL 78


>gnl|CDD|99738 cd00614, CGS_like, CGS_like: Cystathionine gamma-synthase is a
          PLP dependent enzyme and catalyzes the committed step
          of methionine biosynthesis. This pathway is unique to
          microorganisms and plants, rendering the enzyme an
          attractive target for the development of antimicrobials
          and herbicides. This subgroup also includes
          cystathionine gamma-lyases (CGL), O-acetylhomoserine
          sulfhydrylases and O-acetylhomoserine thiol lyases.
          CGL's are very similar to CGS's. Members of this group
          are widely distributed among all three forms of life.
          Length = 369

 Score = 24.9 bits (55), Expect = 8.4
 Identities = 9/33 (27%), Positives = 16/33 (48%), Gaps = 1/33 (3%)

Query: 34 EQIAALRDKVKLKCVNSGLGSFSVA-LYLLEPH 65
          +++AAL         +SG+ + S   L LL+  
Sbjct: 47 KKLAALEGGEAALAFSSGMAAISTVLLALLKAG 79


  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
   0.318    0.135    0.391 

Gapped
Lambda     K      H
   0.267   0.0688    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,846,738
Number of extensions: 394191
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 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (24.3 bits)