RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy12066
         (164 letters)



>gnl|CDD|216412 pfam01285, TEA, TEA/ATTS domain family. 
          Length = 424

 Score = 88.7 bits (220), Expect = 3e-21
 Identities = 21/38 (55%), Positives = 25/38 (65%), Gaps = 2/38 (5%)

Query: 57 DAEGVWSPDIEQSFQEALAIYPPCGRRKIILSDEGKMY 94
          D E VWS ++E +FQEAL   PP GRRK   S+ GK Y
Sbjct: 50 DGEPVWSDELEDAFQEALEANPPMGRRK--WSERGKSY 85


>gnl|CDD|128703 smart00426, TEA, TEA domain. 
          Length = 68

 Score = 77.7 bits (191), Expect = 1e-19
 Identities = 37/38 (97%), Positives = 38/38 (100%)

Query: 57 DAEGVWSPDIEQSFQEALAIYPPCGRRKIILSDEGKMY 94
          DAEGVWSPDIEQ+FQEALAIYPPCGRRKIILSDEGKMY
Sbjct: 1  DAEGVWSPDIEQAFQEALAIYPPCGRRKIILSDEGKMY 38


>gnl|CDD|198267 cd10404, SH2_STAP2, Src homology 2 domain found in
           Signal-transducing adaptor protein 2 (STAP2).  STAP2 is
           a signal-transducing adaptor protein. It is composed of
           a Pleckstrin homology (PH) and SH2 domains along with
           several tyrosine phosphorylation sites. The STAP2
           protein is the substrate of breast tumor kinase, an
           Src-type non-receptor tyrosine kinase that mediates the
           interactions linking proteins involved in signal
           transduction pathways. STAP2 has alternative splicing
           variants. STAP2 has been shown to interact with
           tyrosine-protein kinase 6 (PTK6). In general SH2 domains
           are involved in signal transduction. They typically bind
           pTyr-containing ligands via two surface pockets, a pTyr
           and hydrophobic binding pocket, allowing proteins with
           SH2 domains to localize to tyrosine phosphorylated
           sites.
          Length = 97

 Score = 29.1 bits (65), Expect = 0.45
 Identities = 14/29 (48%), Positives = 15/29 (51%), Gaps = 2/29 (6%)

Query: 122 FLKAQRYEGRELWEELPV-GRAELR-GGD 148
           FLK  R E + L E  P  G   LR GGD
Sbjct: 4   FLKVSRLEAQLLLERYPECGNLLLRPGGD 32


>gnl|CDD|184333 PRK13798, PRK13798, putative OHCU decarboxylase; Provisional.
          Length = 166

 Score = 28.8 bits (65), Expect = 1.0
 Identities = 13/32 (40%), Positives = 15/32 (46%), Gaps = 2/32 (6%)

Query: 53 LAAADAEGVWSPDIEQSFQEALAIYPPCGRRK 84
          LAAAD     +   E    EALA +P  G R 
Sbjct: 49 LAAADE--ALAGLSEADIDEALAGHPRIGERP 78


>gnl|CDD|227089 COG4746, COG4746, Uncharacterized protein conserved in archaea
          [Function unknown].
          Length = 80

 Score = 26.7 bits (59), Expect = 2.4
 Identities = 17/40 (42%), Positives = 19/40 (47%), Gaps = 1/40 (2%)

Query: 23 AAVPPGADTN-GSGGDSKHALDVGDLDDDKDLAAADAEGV 61
          AA+P G DT   SGG    A + G L  D D     AE V
Sbjct: 31 AALPSGPDTTCESGGVEVTAAEAGKLLTDADFPFKSAEQV 70


>gnl|CDD|193500 cd03879, M28_AAP, M28 Zn-Peptidase Aeromonas (Vibrio) proteolytica
           aminopeptidase.  Peptidase family M28; Aeromonas
           (Vibrio) proteolytica aminopeptidase (AAP; leucine
           aminopeptidase from Vibrio proteolyticus; Bacterial
           leucyl aminopeptidase; E.C. 3.4.11.10) subfamily. AAP is
           a small (32kDa), heat stable leucine aminopeptidase and
           is active as a monomer. Similar forms of the enzyme have
           been isolated from Escherichia coli and Staphylococcus
           thermophilus. Leucine aminopeptidases, in general, play
           important roles in many biological processes such as
           protein catabolism, hormone degradation, regulation of
           migration and cell proliferation, as well as HIV
           infection and proliferation. AAP is a broad-specificity
           enzyme, utilizing two zinc(II) ions in its active site
           to remove N-terminal amino acids, with preference for
           large hydrophobic amino acids in the P1 position of the
           substrate, Leu being the most efficiently cleaved. It
           can accommodate all residues, except Pro, Asp and Glu in
           the P1' position.
          Length = 285

 Score = 27.2 bits (61), Expect = 3.7
 Identities = 9/23 (39%), Positives = 12/23 (52%), Gaps = 2/23 (8%)

Query: 13  TISSPWTPGSAAVPPGADTNGSG 35
           +I+        A  PGAD +GSG
Sbjct: 99  SINGSNPSNGRA--PGADDDGSG 119


>gnl|CDD|235981 PRK07239, PRK07239, bifunctional uroporphyrinogen-III
           synthetase/response regulator domain protein; Validated.
          Length = 381

 Score = 27.3 bits (61), Expect = 3.7
 Identities = 14/37 (37%), Positives = 19/37 (51%), Gaps = 10/37 (27%)

Query: 131 RELWEELPVGRA----------ELRGGDVLWEGEVVM 157
           R + EELP+ RA          E+RG  V+ +GEV  
Sbjct: 270 RHITEELPLRRARTLRAAGHVLEIRGHAVVVDGEVKP 306


>gnl|CDD|236709 PRK10531, PRK10531, acyl-CoA thioesterase; Provisional.
          Length = 422

 Score = 27.4 bits (61), Expect = 3.8
 Identities = 7/19 (36%), Positives = 10/19 (52%)

Query: 12 GTISSPWTPGSAAVPPGAD 30
          G I++PW P    +P   D
Sbjct: 63 GPIAAPWNPSPITLPAQPD 81


>gnl|CDD|218957 pfam06251, Caps_synth_GfcC, Capsule biosynthesis GfcC.  Many
           bacteria are covered in a layer of surface-associated
           polysaccharide called the capsule. These capsules can be
           divided into four groups depending upon the organisation
           of genes responsible for capsule assembly, the assembly
           pathway and regulation. This family plays a role in
           group 4 capsule biosynthesis. These proteins have a
           beta-grasp fold. Two beta-grasp domains, D2 and D3, are
           arranged in tandem. There is a C-terminal amphipathic
           helix which packs against D3. A helical hairpin insert
           in D2 binds to D3 and constrains its position, a
           conserved arginine residue at the end of this hairpin is
           essential for structural integrity.
          Length = 227

 Score = 26.6 bits (59), Expect = 6.5
 Identities = 19/83 (22%), Positives = 22/83 (26%), Gaps = 28/83 (33%)

Query: 7   FGLVTGTISSPWTPGSAAVPPGADTNGSGGDSKHALDVGDLDDDKDLAA-ADAEGVW--S 63
            G V+   + PW PG                      V D      L + AD   VW   
Sbjct: 133 LGAVSQPGNVPWQPG--------------------ASVKDYLKSAGLLSGADKSYVWVIQ 172

Query: 64  PD-IEQSFQEAL----AIYPPCG 81
           PD   Q    A        P  G
Sbjct: 173 PDGRAQKAPVAYWNRQHQEPAPG 195


  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    0.139    0.437 

Gapped
Lambda     K      H
   0.267   0.0577    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,983,833
Number of extensions: 853387
Number of successful extensions: 529
Number of sequences better than 10.0: 1
Number of HSP's gapped: 528
Number of HSP's successfully gapped: 22
Length of query: 164
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 74
Effective length of database: 6,945,742
Effective search space: 513984908
Effective search space used: 513984908
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 (21.9 bits)
S2: 55 (25.3 bits)