RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy12574
         (244 letters)



>gnl|CDD|215724 pfam00110, wnt, wnt family.  Wnt genes have been identified in
           vertebrates and invertebrates but not in plants,
           unicellular eukaryotes or prokaryotes. In humans, 19 WNT
           proteins are known. Because of their insolubility little
           is known about Wnt protein structure, but all have 23 or
           24 Cys residues whose spacing is highly conserved.
           Signal transduction by Wnt proteins (including the
           Wnt/beta-catenin, the Wnt/Ca++, and the Wnt/polarity
           pathway) is mediated by receptors of the Frizzled and
           LDL-receptor-related protein (LRP) families.
          Length = 308

 Score =  207 bits (528), Expect = 3e-66
 Identities = 76/144 (52%), Positives = 92/144 (63%), Gaps = 24/144 (16%)

Query: 101 CRETAFIYAITSAAVTHTVARSCAEGSIESCTCDYSHQSKGQRPTKTTLNNVAGVRDWEW 160
            RETAF+YAI+SA V H V R+C+EG++ESC CD S + +                 WEW
Sbjct: 65  TRETAFVYAISSAGVVHAVTRACSEGNLESCGCDRSRRGRSGP------------GGWEW 112

Query: 161 GGCSDNIGFGFKFSREFVDTGERGRSLREKMNLHNNEAGRAHFNMVLNVSLLQHVMAEMR 220
           GGCSDNI FG +FSREF+D  ERGR  R  MNLHNNEAGR            + V   M+
Sbjct: 113 GGCSDNIKFGIRFSREFLDARERGRDARALMNLHNNEAGR------------KAVKRNMK 160

Query: 221 QECKCHGMSGSCTVKTCWMRLPNF 244
            ECKCHG+SGSCT+KTCW +LP+F
Sbjct: 161 TECKCHGVSGSCTLKTCWKQLPDF 184



 Score =  149 bits (378), Expect = 8e-44
 Identities = 56/100 (56%), Positives = 66/100 (66%), Gaps = 12/100 (12%)

Query: 1   CRETAFIYAITSAAVTHTVARSCAEGSIESCTCDYSHQSKGQRPTKTTLNNVAGVRDWEW 60
            RETAF+YAI+SA V H V R+C+EG++ESC CD S + +                 WEW
Sbjct: 65  TRETAFVYAISSAGVVHAVTRACSEGNLESCGCDRSRRGRSGP------------GGWEW 112

Query: 61  GGCSDNIGFGFKFSREFVDTGERGRSLREKMNLHNNEAGR 100
           GGCSDNI FG +FSREF+D  ERGR  R  MNLHNNEAGR
Sbjct: 113 GGCSDNIKFGIRFSREFLDARERGRDARALMNLHNNEAGR 152


>gnl|CDD|128408 smart00097, WNT1, found in Wnt-1. 
          Length = 305

 Score =  204 bits (520), Expect = 5e-65
 Identities = 77/144 (53%), Positives = 94/144 (65%), Gaps = 24/144 (16%)

Query: 101 CRETAFIYAITSAAVTHTVARSCAEGSIESCTCDYSHQSKGQRPTKTTLNNVAGVRDWEW 160
            RETAF+YAI+SA V H V R+C+EG ++SC CDY  + +             G R W+W
Sbjct: 62  TRETAFVYAISSAGVAHAVTRACSEGELDSCGCDYRKRGRA------------GGRGWKW 109

Query: 161 GGCSDNIGFGFKFSREFVDTGERGRSLREKMNLHNNEAGRAHFNMVLNVSLLQHVMAEMR 220
           GGCSDNI FG +FSREFVD  ERG+  R  MNLHNNEAGR              V   M+
Sbjct: 110 GGCSDNIDFGIRFSREFVDARERGKDARALMNLHNNEAGR------------LAVKKTMK 157

Query: 221 QECKCHGMSGSCTVKTCWMRLPNF 244
           +ECKCHG+SGSCTVKTCW++LP+F
Sbjct: 158 RECKCHGVSGSCTVKTCWLQLPDF 181



 Score =  148 bits (376), Expect = 1e-43
 Identities = 56/100 (56%), Positives = 67/100 (67%), Gaps = 12/100 (12%)

Query: 1   CRETAFIYAITSAAVTHTVARSCAEGSIESCTCDYSHQSKGQRPTKTTLNNVAGVRDWEW 60
            RETAF+YAI+SA V H V R+C+EG ++SC CDY  + +             G R W+W
Sbjct: 62  TRETAFVYAISSAGVAHAVTRACSEGELDSCGCDYRKRGRA------------GGRGWKW 109

Query: 61  GGCSDNIGFGFKFSREFVDTGERGRSLREKMNLHNNEAGR 100
           GGCSDNI FG +FSREFVD  ERG+  R  MNLHNNEAGR
Sbjct: 110 GGCSDNIDFGIRFSREFVDARERGKDARALMNLHNNEAGR 149


>gnl|CDD|218829 pfam05963, Cytomega_US3, Cytomegalovirus US3 protein.  US3 of human
           cytomegalovirus is an endoplasmic reticulum resident
           transmembrane glycoprotein that binds to major
           histocompatibility complex class I molecules and
           prevents their departure. The endoplasmic reticulum
           retention signal of the US3 protein is contained in the
           luminal domain of the protein.
          Length = 187

 Score = 32.3 bits (73), Expect = 0.14
 Identities = 10/48 (20%), Positives = 18/48 (37%)

Query: 74  SREFVDTGERGRSLREKMNLHNNEAGRCRETAFIYAITSAAVTHTVAR 121
           +  FVD G   +S  + + +   +        F + +  A V   V R
Sbjct: 65  TFHFVDYGIVSQSYMDNLAVRAEQVEFIAGEYFEWNVQGANVLPLVDR 112


>gnl|CDD|153148 cd04876, ACT_RelA-SpoT, ACT  domain found C-terminal of the
           RelA/SpoT domains.  ACT_RelA-SpoT: the ACT  domain found
           C-terminal of the RelA/SpoT domains. Enzymes of the
           Rel/Spo family enable bacteria to survive prolonged
           periods of nutrient limitation by controlling
           guanosine-3'-diphosphate-5'-(tri)diphosphate ((p)ppGpp)
           production and subsequent rRNA repression (stringent
           response). Both the synthesis of (p)ppGpp from ATP and
           GDP(GTP), and its hydrolysis to GDP(GTP) and
           pyrophosphate, are catalyzed by Rel/Spo proteins. In
           Escherichia coli and its close relatives, the metabolism
           of (p)ppGpp is governed by two homologous proteins, RelA
           and SpoT. The RelA protein catalyzes (p)ppGpp synthesis
           in a reaction requiring its binding to ribosomes bearing
           codon-specified uncharged tRNA. The major role of the
           SpoT protein is the breakdown of (p)ppGpp by a
           manganese-dependent (p)ppGpp pyrophosphohydrolase
           activity. Although the stringent response appears to be
           tightly regulated by these two enzymes in E. coli, a
           bifunctional Rel/Spo protein has been discovered in most
           gram-positive organisms studied so far. These
           bifunctional Rel/Spo homologs (rsh) appear to modulate
           (p)ppGpp levels through two distinct active sites that
           are controlled by a reciprocal regulatory mechanism
           ensuring inverse coupling of opposing activities. In
           studies with the Streptococcus equisimilis Rel/Spo
           homolog, the C-terminal domain appears to be involved in
           this reciprocal regulation of the two opposing catalytic
           activities present in the N-terminal domain, ensuring
           that both synthesis and degradation activities are not
           coinduced. Members of this CD belong to the superfamily
           of ACT regulatory domains.
          Length = 71

 Score = 27.4 bits (62), Expect = 1.5
 Identities = 8/34 (23%), Positives = 17/34 (50%), Gaps = 3/34 (8%)

Query: 191 MNLHNNEAGRAHFNMVL---NVSLLQHVMAEMRQ 221
           +N   ++ G A   + L   ++  L  +M ++RQ
Sbjct: 29  VNTRTDDDGLATIRLTLEVRDLEHLARIMRKLRQ 62


  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
   0.320    0.131    0.421 

Gapped
Lambda     K      H
   0.267   0.0725    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,461,327
Number of extensions: 986321
Number of successful extensions: 609
Number of sequences better than 10.0: 1
Number of HSP's gapped: 603
Number of HSP's successfully gapped: 11
Length of query: 244
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 150
Effective length of database: 6,768,326
Effective search space: 1015248900
Effective search space used: 1015248900
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 58 (26.1 bits)