RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy4825
         (122 letters)



>gnl|CDD|216101 pfam00755, Carn_acyltransf, Choline/Carnitine o-acyltransferase. 
          Length = 590

 Score =  133 bits (336), Expect = 1e-37
 Identities = 48/105 (45%), Positives = 64/105 (60%), Gaps = 1/105 (0%)

Query: 1   MTENIQGEGIDLHLLGLRQTALEHNIPC-ELFQDEAYKLSNYFKLSTSQVACKSDSFMGY 59
             E + G+GID HL GL+  A E  +   ELF D ++ LS +F LSTSQV  ++D   G+
Sbjct: 481 TKEAMTGKGIDRHLFGLKLLAKELGVESPELFLDPSWSLSTHFVLSTSQVPTETDIGGGF 540

Query: 60  GPVVPDGYGCSYNPREATIVFCVSAFKSCLTTSAAKFATSLDESL 104
           GPVV DGYG  YN     I F +S+F SC  T A +FA  L+++L
Sbjct: 541 GPVVDDGYGICYNINGDRIHFHISSFHSCPETDADRFAKYLEKAL 585


>gnl|CDD|99825 cd05782, DNA_polB_like1_exo, Uncharacterized bacterial subgroup of
           the DEDDy 3'-5' exonuclease domain of family-B DNA
           polymerases.  A subfamily of the 3'-5' exonuclease
           domain of family-B DNA polymerases. This subfamily is
           composed of uncharacterized bacterial family-B DNA
           polymerases. Family-B DNA polymerases contain an
           N-terminal DEDDy DnaQ-like exonuclease domain in the
           same polypeptide chain as the polymerase domain, similar
           to family-A DNA polymerases. This exonuclease domain
           contains three sequence motifs termed ExoI, ExoII and
           ExoIII, with a specific YX(3)D pattern at ExoIII. These
           motifs are involved in metal binding and catalysis. The
           exonuclease domain of family-B DNA polymerases has a
           fundamental role in proofreading activity. It contains a
           beta hairpin structure that plays an important role in
           active site switching in the event of a nucleotide
           misincorporation. Family-B DNA polymerases are
           predominantly involved in DNA replication and DNA
           repair.
          Length = 208

 Score = 28.4 bits (64), Expect = 0.76
 Identities = 14/37 (37%), Positives = 17/37 (45%), Gaps = 2/37 (5%)

Query: 7   GEGIDLHLLGLRQTALEHNIPCELFQDEAYKLSNYFK 43
           G G DL +L LR  AL H +    + D   K  NY  
Sbjct: 101 GRGFDLPVLHLR--ALIHGVSAPAYFDLGNKDWNYRN 135


>gnl|CDD|238712 cd01424, MGS_CPS_II, Methylglyoxal synthase-like domain from type
          II glutamine-dependent carbamoyl phosphate synthetase
          (CSP). CSP, a CarA and CarB heterodimer, catalyzes the
          production of carbamoyl phosphate which is subsequently
          employed in the metabolic pathways responsible for the
          synthesis of pyrimidine nucleotides or arginine. The
          MGS-like domain is the C-terminal domain of CarB and
          appears to play a regulatory role in CPS function by
          binding allosteric effector molecules, including UMP
          and ornithine.
          Length = 110

 Score = 26.7 bits (60), Expect = 1.9
 Identities = 5/12 (41%), Positives = 9/12 (75%)

Query: 17 LRQTALEHNIPC 28
          +R+ ALE+ +P 
Sbjct: 87 IRRAALEYKVPY 98


>gnl|CDD|197517 smart00104, ANATO, Anaphylatoxin homologous domain.  C3a, C4a and
          C5a anaphylatoxins are protein fragments generated
          enzymatically in serum during activation of complement
          molecules C3, C4, and C5. They induce smooth muscle
          contraction. These fragments are homologous to a
          three-fold repeat in fibulins.
          Length = 35

 Score = 25.0 bits (55), Expect = 2.9
 Identities = 7/25 (28%), Positives = 7/25 (28%)

Query: 64 PDGYGCSYNPREATIVFCVSAFKSC 88
          P G  C           C  AF  C
Sbjct: 10 PMGETCEERAARINSGDCRKAFLQC 34


>gnl|CDD|233618 TIGR01887, dipeptidaselike, dipeptidase, putative.  This model
          represents a clade of probable zinc dipeptidases,
          closely related to the characterized non-specific
          dipeptidase, PepV. Many enzymes in this clade have been
          given names including the terms "Xaa-His" and
          "carnosinase" due to the early mis-characterization of
          the Lactobacillus delbrueckii PepV enzyme. These names
          are likely too specific.
          Length = 447

 Score = 26.2 bits (58), Expect = 4.8
 Identities = 9/17 (52%), Positives = 10/17 (58%)

Query: 62 VVPDGYGCSYNPREATI 78
          VVP G G +  P E TI
Sbjct: 78 VVPAGDGWTSPPFEPTI 94


>gnl|CDD|233196 TIGR00933, 2a38, potassium uptake protein, TrkH family.  The
           proteins of the Trk family are derived from
           Gram-negative and Gram-positive bacteria, yeast and
           wheat. The proteins of E. coli K12 TrkH and TrkG as well
           as several yeast proteins have been functionally
           characterized.The E. coli TrkH and TrkG proteins are
           complexed to two peripheral membrane proteins, TrkA, an
           NAD-binding protein, and TrkE, an ATP-binding protein.
           This complex forms the potassium uptake system
           [Transport and binding proteins, Cations and iron
           carrying compounds].
          Length = 390

 Score = 26.1 bits (58), Expect = 5.2
 Identities = 12/34 (35%), Positives = 18/34 (52%), Gaps = 2/34 (5%)

Query: 77  TIVFCVSAFKSCLTTSAAKFATSLDESLSAIGNL 110
            ++F +S     L +S   F TSL E +SA G +
Sbjct: 332 ALIFLLSIL--ELISSGYDFLTSLFEVVSAFGTV 363


>gnl|CDD|177302 PHA00734, PHA00734, hypothetical protein.
          Length = 95

 Score = 25.1 bits (55), Expect = 6.7
 Identities = 15/34 (44%), Positives = 19/34 (55%), Gaps = 1/34 (2%)

Query: 14 LLGLRQTALEHNIPCELFQDEAYKLSNY-FKLST 46
          +LGLR  A E NI   LF    + L+ Y F L+T
Sbjct: 20 VLGLRVGAREANIIARLFMKNKWTLAIYKFDLAT 53


  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
   0.317    0.131    0.381 

Gapped
Lambda     K      H
   0.267   0.0718    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,639,655
Number of extensions: 441931
Number of successful extensions: 337
Number of sequences better than 10.0: 1
Number of HSP's gapped: 336
Number of HSP's successfully gapped: 11
Length of query: 122
Length of database: 10,937,602
Length adjustment: 84
Effective length of query: 38
Effective length of database: 7,211,866
Effective search space: 274050908
Effective search space used: 274050908
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 (24.2 bits)