RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy8034
         (73 letters)



>gnl|CDD|192929 pfam12062, HSNSD, heparan sulfate-N-deacetylase.  This family of
           proteins is are heparan sulfate N-deacetylase enzymes.
           This protein is found in eukaryotes. This proteinenzyme
           is often found associated with pfam00685.
          Length = 487

 Score =  108 bits (271), Expect = 9e-30
 Identities = 38/50 (76%), Positives = 43/50 (86%)

Query: 24  PVDSGYSIAPHHSGVYPVHEPLYTAWKHIWRVKVTSTEEYPHLRPARLRR 73
           P D GY++APHHSGVYPVHE LY AWK +W +KVTSTEEYPHL+PAR RR
Sbjct: 394 PTDYGYAVAPHHSGVYPVHEQLYEAWKKVWNIKVTSTEEYPHLKPARYRR 443


>gnl|CDD|131351 TIGR02298, HpaD_Fe, 3,4-dihydroxyphenylacetate 2,3-dioxygenase.
          This enzyme catalyzes the ring-opening step in the
          degradation of 4-hydroxyphenylacetate.
          Length = 282

 Score = 25.6 bits (56), Expect = 2.4
 Identities = 10/21 (47%), Positives = 11/21 (52%), Gaps = 2/21 (9%)

Query: 25 VDSGYSI--APHHSGVYPVHE 43
          V+SGY I      SG Y  HE
Sbjct: 60 VNSGYHINCNDQFSGSYTSHE 80


>gnl|CDD|149829 pfam08889, WbqC, WbqC-like protein family.  This family of proteins
           are functionally uncharacterized. However it is found in
           an O-antigen gene cluster in E. coli and other bacteria
           suggesting a role in O-antigen production. Feng et al.
           suggest that wbnG may code for a glycine transferase.
          Length = 219

 Score = 25.6 bits (57), Expect = 2.5
 Identities = 11/54 (20%), Positives = 21/54 (38%), Gaps = 9/54 (16%)

Query: 1   MEPVSGQPAREDLVAQQVLRSAAPVDSGYSIAPHHSGVYPVHEPLYTA-WKHIW 53
           +      P R+  +    L  A      Y+ AP     +P+ EP+Y   + ++ 
Sbjct: 64  VRIDDSFPWRKKHLRT--LEQA------YAKAPFFEEYFPLLEPIYEKEYTNLS 109


>gnl|CDD|236331 PRK08667, PRK08667, hydrogenase membrane subunit; Validated.
          Length = 644

 Score = 25.1 bits (55), Expect = 4.2
 Identities = 7/21 (33%), Positives = 13/21 (61%)

Query: 43  EPLYTAWKHIWRVKVTSTEEY 63
           EPL   ++ I+R ++ +  EY
Sbjct: 554 EPLVQIFRLIYRTRIYNEREY 574


>gnl|CDD|211958 TIGR04235, seadorna_VP4, seadornavirus VP4 protein.  This protein
           family occurs in the seadornavirus virus group, with
           designation VP4 in Banna virus, Kadipiro virus, and Liao
           ning virus. Although this family has been suggested to
           resemble methyltransferases, members show apparent
           N-terminal sequence similarity to the outer capsid
           protein VP5 of the orbivirus group, such as bluetongue
           virus, which also belong to the Reoviridae.
          Length = 618

 Score = 24.5 bits (53), Expect = 5.6
 Identities = 11/35 (31%), Positives = 17/35 (48%)

Query: 10  REDLVAQQVLRSAAPVDSGYSIAPHHSGVYPVHEP 44
           + DL+ + V+ +A  V +    A    GV PV  P
Sbjct: 135 KADLILEIVISTARAVAATGRAAADGVGVVPVFGP 169


>gnl|CDD|179793 PRK04220, PRK04220, 2-phosphoglycerate kinase; Provisional.
          Length = 301

 Score = 24.5 bits (54), Expect = 5.6
 Identities = 9/26 (34%), Positives = 13/26 (50%), Gaps = 3/26 (11%)

Query: 41  VHEPLYTAWKHIWRVKVTSTEEYPHL 66
           +HE  YTAWK    ++     E P +
Sbjct: 143 LHESSYTAWK---SLRRPPPPEPPVI 165


>gnl|CDD|188036 TIGR00236, wecB, UDP-N-acetylglucosamine 2-epimerase.  This
           cytosolic enzyme converts UDP-N-acetyl-D-glucosamine to
           UDP-N-acetyl-D-mannosamine. In E. coli, this is the
           first step in the pathway of enterobacterial common
           antigen biosynthesis.Members of this orthology group
           have many gene symbols, often reflecting the overall
           activity of the pathway and/or operon that includes it.
           Symbols include epsC (exopolysaccharide C) in
           Burkholderia solanacerum, cap8P (type 8 capsule P) in
           Staphylococcus aureus, and nfrC in an older designation
           based on the effects of deletion on phage N4 adsorption.
           Epimerase activity was also demonstrated in a
           bifunctional rat enzyme, for which the N-terminal domain
           appears to be orthologous. The set of proteins found
           above the suggested cutoff includes E. coli WecB in one
           of two deeply branched clusters and the rat
           UDP-N-acetylglucosamine 2-epimerase domain in the other
           [Cell envelope, Biosynthesis and degradation of surface
           polysaccharides and lipopolysaccharides].
          Length = 365

 Score = 24.0 bits (52), Expect = 8.6
 Identities = 12/32 (37%), Positives = 14/32 (43%), Gaps = 6/32 (18%)

Query: 38  VYPVH------EPLYTAWKHIWRVKVTSTEEY 63
           VYPVH      EPL+       RV +    EY
Sbjct: 234 VYPVHLNPVVREPLHKHLGDSKRVHLIEPLEY 265


  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    0.132    0.418 

Gapped
Lambda     K      H
   0.267   0.0660    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,775,260
Number of extensions: 273878
Number of successful extensions: 216
Number of sequences better than 10.0: 1
Number of HSP's gapped: 216
Number of HSP's successfully gapped: 7
Length of query: 73
Length of database: 10,937,602
Length adjustment: 43
Effective length of query: 30
Effective length of database: 9,030,380
Effective search space: 270911400
Effective search space used: 270911400
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)