RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy9969
         (75 letters)



>gnl|CDD|216265 pfam01049, Cadherin_C, Cadherin cytoplasmic region.  Cadherins are
           vital in cell-cell adhesion during tissue
           differentiation. Cadherins are linked to the
           cytoskeleton by catenins. Catenins bind to the
           cytoplasmic tail of the cadherin. Cadherins cluster to
           form foci of homophilic binding units. A key determinant
           to the strength of the binding that it is mediated by
           cadherins is the juxtamembrane region of the cadherin.
           This region induces clustering and also binds to the
           protein p120ctn.
          Length = 145

 Score = 56.9 bits (138), Expect = 4e-12
 Identities = 17/33 (51%), Positives = 27/33 (81%)

Query: 25  SPSTVTDEGDLNFDYLSNFGPRFRKLADMYGED 57
           S ++ + +GD ++DYLS++GPRF+KLAD+YG  
Sbjct: 113 SLNSSSSDGDQDYDYLSDWGPRFKKLADLYGGG 145


>gnl|CDD|215595 PLN03130, PLN03130, ABC transporter C family member; Provisional.
          Length = 1622

 Score = 26.6 bits (59), Expect = 1.2
 Identities = 15/44 (34%), Positives = 24/44 (54%), Gaps = 8/44 (18%)

Query: 28  TVTDEGDLNFDYLSNFGPRFRKLADMYG------EDPSDEEDEN 65
            + +EG   ++ LSN GP F+KL +  G      E+  +EED+ 
Sbjct: 816 MIKEEG--TYEELSNNGPLFQKLMENAGKMEEYVEENGEEEDDQ 857


>gnl|CDD|223256 COG0178, UvrA, Excinuclease ATPase subunit [DNA replication,
           recombination, and repair].
          Length = 935

 Score = 26.0 bits (58), Expect = 1.6
 Identities = 12/28 (42%), Positives = 16/28 (57%), Gaps = 5/28 (17%)

Query: 14  ISRHTTNRKPRS-PSTVTDEGDLNFDYL 40
           I + TT+  PRS   TVT+     +DYL
Sbjct: 87  IDQKTTSHNPRSTVGTVTEI----YDYL 110


>gnl|CDD|179888 PRK04870, PRK04870, histidinol-phosphate aminotransferase;
           Provisional.
          Length = 356

 Score = 26.0 bits (58), Expect = 1.8
 Identities = 8/12 (66%), Positives = 9/12 (75%)

Query: 63  DENYQPAASESW 74
           DE YQP A +SW
Sbjct: 189 DEAYQPFAGDSW 200


>gnl|CDD|177398 PHA02569, 39, DNA topoisomerase II large subunit; Provisional.
          Length = 602

 Score = 25.9 bits (57), Expect = 2.4
 Identities = 7/21 (33%), Positives = 14/21 (66%)

Query: 45  PRFRKLADMYGEDPSDEEDEN 65
            +F+K A  +G+D   +E++N
Sbjct: 227 GKFKKYAKQFGDDTIVQENDN 247


>gnl|CDD|240392 PTZ00381, PTZ00381, aldehyde dehydrogenase family protein;
           Provisional.
          Length = 493

 Score = 25.4 bits (56), Expect = 3.5
 Identities = 6/18 (33%), Positives = 10/18 (55%)

Query: 48  RKLADMYGEDPSDEEDEN 65
             + + +GEDP   ED +
Sbjct: 271 EAIKEFFGEDPKKSEDYS 288


>gnl|CDD|221962 pfam13182, DUF4007, Protein of unknown function (DUF4007).  This
          family of proteins is functionally uncharacterized.
          This family of proteins is found in bacteria and
          archaea. Proteins in this family are typically between
          284 and 326 amino acids in length. This domain is found
          associated with pfam01507 in some proteins, suggesting
          a functional link.
          Length = 285

 Score = 24.2 bits (53), Expect = 7.5
 Identities = 8/30 (26%), Positives = 11/30 (36%)

Query: 29 VTDEGDLNFDYLSNFGPRFRKLADMYGEDP 58
          + +E       L+  G       D Y EDP
Sbjct: 57 LIEENRKTGLKLTPLGRLLLDGNDPYLEDP 86


>gnl|CDD|239316 cd03018, PRX_AhpE_like, Peroxiredoxin (PRX) family, AhpE-like
           subfamily; composed of proteins similar to Mycobacterium
           tuberculosis AhpE. AhpE is described as a 1-cys PRX
           because of the absence of a resolving cysteine. The
           structure and sequence of AhpE, however, show greater
           similarity to 2-cys PRXs than 1-cys PRXs. PRXs are
           thiol-specific antioxidant (TSA) proteins that confer a
           protective role in cells through their peroxidase
           activity in which hydrogen peroxide, peroxynitrate, and
           organic hydroperoxides are reduced and detoxified using
           reducing equivalents derived from either thioredoxin,
           glutathione, trypanothione and AhpF. The first step of
           catalysis is the nucleophilic attack by the peroxidatic
           cysteine on the peroxide leading to the formation of a
           cysteine sulfenic acid intermediate. The absence of a
           resolving cysteine suggests that functional AhpE is
           regenerated by an external reductant. The solution
           behavior and crystal structure of AhpE show that it
           forms dimers and octamers.
          Length = 149

 Score = 24.2 bits (53), Expect = 8.3
 Identities = 10/25 (40%), Positives = 14/25 (56%), Gaps = 1/25 (4%)

Query: 31  DEGDLNFDYLSNFGPRFRKLADMYG 55
           +E  L F  LS+F P   ++A  YG
Sbjct: 81  EENGLTFPLLSDFWPH-GEVAKAYG 104


  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
   0.315    0.133    0.409 

Gapped
Lambda     K      H
   0.267   0.0742    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,850,537
Number of extensions: 287321
Number of successful extensions: 215
Number of sequences better than 10.0: 1
Number of HSP's gapped: 215
Number of HSP's successfully gapped: 12
Length of query: 75
Length of database: 10,937,602
Length adjustment: 45
Effective length of query: 30
Effective length of database: 8,941,672
Effective search space: 268250160
Effective search space used: 268250160
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: 42 (22.0 bits)
S2: 53 (24.2 bits)