RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy5589
         (60 letters)



>gnl|CDD|188652 cd09820, dual_peroxidase_like, Dual oxidase and related animal
          heme peroxidases.  Animal heme peroxidases of the
          dual-oxidase like subfamily play vital roles in the
          innate mucosal immunity of gut epithelia. They provide
          reactive oxygen species which help control infection.
          Length = 558

 Score = 92.7 bits (231), Expect = 3e-24
 Identities = 33/52 (63%), Positives = 40/52 (76%)

Query: 1  MTRKTPPAYSDGVYMLAGMDRPSPRTLSTLFMKGEDGQPSMKNRTALLAFFG 52
          +TR+ P  YSDGVY  +G +RP+PR+LS L MKGE G PS +NRTALL FFG
Sbjct: 20 LTRRLPAHYSDGVYAPSGEERPNPRSLSNLLMKGESGLPSTRNRTALLVFFG 71


>gnl|CDD|217366 pfam03098, An_peroxidase, Animal haem peroxidase. 
          Length = 521

 Score = 52.3 bits (126), Expect = 6e-10
 Identities = 20/59 (33%), Positives = 27/59 (45%), Gaps = 5/59 (8%)

Query: 1  MTRKTPPAYSDGVYMLA----GMDRPSPRTLSTLFMKGEDGQPSMKNR-TALLAFFGKF 54
           TR  PP Y DGV        G   PSPR +S   +  ++G        T +LA +G+F
Sbjct: 23 FTRLLPPVYEDGVSTPRGSVNGSPLPSPRVVSNKLLARKNGFIPPDPGLTLMLAQWGQF 81


>gnl|CDD|188654 cd09822, peroxinectin_like_bacterial, Uncharacterized family of
          heme peroxidases, mostly bacterial.  Animal heme
          peroxidases are diverse family of enzymes which are not
          restricted to animals. Members are also found in
          metazoans, fungi, and plants, and also in bacteria -
          like most members of this family of uncharacterized
          proteins.
          Length = 420

 Score = 28.0 bits (63), Expect = 0.18
 Identities = 10/35 (28%), Positives = 17/35 (48%)

Query: 20 DRPSPRTLSTLFMKGEDGQPSMKNRTALLAFFGKF 54
          DRPSPR +S       +  P+ +  +     +G+F
Sbjct: 1  DRPSPREISNAVADQTESIPNSRGLSDWFWVWGQF 35


>gnl|CDD|220995 pfam11138, DUF2911, Protein of unknown function (DUF2911).  This
          bacterial family of proteins has no known function.
          Length = 145

 Score = 24.1 bits (53), Expect = 4.6
 Identities = 9/22 (40%), Positives = 12/22 (54%), Gaps = 2/22 (9%)

Query: 37 GQPSMKNRTAL--LAFFGKFWR 56
           +PS+K R     L  +GK WR
Sbjct: 20 SRPSVKGRKIFGGLVPYGKVWR 41


>gnl|CDD|175994 cd04028, C2B_RIM1alpha, C2 domain second repeat contained in
           Rab3-interacting molecule (RIM) proteins.  RIMs are
           believed to organize specialized sites of the plasma
           membrane called active zones.  They also play a role in
           controlling neurotransmitter release, plasticity
           processes, as well as memory and learning.  RIM contains
           an N-terminal zinc finger domain, a PDZ domain, and two
           C-terminal C2 domains (C2A, C2B).  C2 domains fold into
           an 8-standed beta-sandwich that can adopt 2 structural
           arrangements: Type I and Type II, distinguished by a
           circular permutation involving their N- and C-terminal
           beta strands. Many C2 domains are Ca2+-dependent
           membrane-targeting modules that bind a wide variety of
           substances including bind phospholipids, inositol
           polyphosphates, and intracellular proteins.  Most C2
           domain proteins are either signal transduction enzymes
           that contain a single C2 domain, such as protein kinase
           C, or membrane trafficking proteins which contain at
           least two C2 domains, such as synaptotagmin 1.  However,
           there are a few exceptions to this including RIM
           isoforms and some splice variants of piccolo/aczonin and
           intersectin which only have a single C2 domain.  C2
           domains with a calcium binding region have negatively
           charged residues, primarily aspartates, that serve as
           ligands for calcium ions. Members here have a type-I
           topology and do not bind Ca2+.
          Length = 146

 Score = 24.3 bits (53), Expect = 4.8
 Identities = 14/62 (22%), Positives = 24/62 (38%), Gaps = 7/62 (11%)

Query: 2   TRKTPPAYSDGVYMLAGMD-------RPSPRTLSTLFMKGEDGQPSMKNRTALLAFFGKF 54
             K  PA    VY+L G         + + +TL  L+ +      S   +T  +  +G +
Sbjct: 46  GSKVLPAPYVKVYLLEGKKCIAKKKTKIARKTLDPLYQQQLVFDVSPTGKTLQVIVWGDY 105

Query: 55  WR 56
            R
Sbjct: 106 GR 107


>gnl|CDD|235628 PRK05855, PRK05855, short chain dehydrogenase; Validated.
          Length = 582

 Score = 24.2 bits (53), Expect = 5.0
 Identities = 7/20 (35%), Positives = 13/20 (65%)

Query: 12  GVYMLAGMDRPSPRTLSTLF 31
           G ++ +G+ RP+PR L+   
Sbjct: 136 GFWLRSGLRRPTPRRLARAL 155


>gnl|CDD|214350 CHL00062, psbB, photosystem II 47 kDa protein.
          Length = 504

 Score = 23.9 bits (52), Expect = 6.1
 Identities = 18/46 (39%), Positives = 19/46 (41%), Gaps = 16/46 (34%)

Query: 10  SDGVYMLAGMDRPSPRTLSTLFMKGEDGQPSMKNRTALLAFFGKFW 55
           SDGV+      R SPR   T       G  S     ALL FFG  W
Sbjct: 439 SDGVF------RSSPRGWFTF------GHASF----ALLFFFGHIW 468


>gnl|CDD|188648 cd09816, prostaglandin_endoperoxide_synthase, Animal prostaglandin
           endoperoxide synthase and related bacterial proteins.
           Animal prostaglandin endoperoxide synthases, including
           prostaglandin H2 synthase and a set of similar bacterial
           proteins which may function as cyclooxygenases.
           Prostaglandin H2 synthase catalyzes the synthesis of
           prostaglandin H2 from arachidonic acid. In two reaction
           steps, arachidonic acid is converted to Prostaglandin
           G2, a peroxide (cyclooxygenase activity) and
           subsequently converted to the end product via the
           enzyme's peroxidase activity. Prostaglandin H2 synthase
           is the target of aspirin and other non-steroid
           anti-inflammatory drugs such as ibuprofen, which block
           the substrate's access to the active site and may
           acetylate a conserved serine residue. In humans and
           other mammals, prostaglandin H2 synthase (PGHS), also
           called cyclooxygenase (COX) is present as at least two
           isozymes, PGHS-1 (or COX-1) and PGHS-2 (or COX-2),
           respectively. PGHS-1 is expressed constitutively in most
           mammalian cells, while the expression of PGHS-2 is
           induced via inflammation response in endothelial cells,
           activated macrophages, and others. COX-3 is a splice
           variant of COX-1.
          Length = 490

 Score = 23.8 bits (52), Expect = 6.5
 Identities = 13/50 (26%), Positives = 19/50 (38%), Gaps = 5/50 (10%)

Query: 2   TRKTPPAYSDGVYMLAGMDRPSPRTLSTLFMKGEDGQPSMKNRTALLAFF 51
            R  PP   D        + P    L+ LF++  +  P  +  T L  FF
Sbjct: 62  GRHLPPVPRD-----CPTELPDVEELAELFLRRREFIPDPQKTTLLFPFF 106


  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
   0.322    0.136    0.419 

Gapped
Lambda     K      H
   0.267   0.0798    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,096,821
Number of extensions: 207618
Number of successful extensions: 134
Number of sequences better than 10.0: 1
Number of HSP's gapped: 132
Number of HSP's successfully gapped: 8
Length of query: 60
Length of database: 10,937,602
Length adjustment: 31
Effective length of query: 29
Effective length of database: 9,562,628
Effective search space: 277316212
Effective search space used: 277316212
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: 53 (24.1 bits)