RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy3211
         (84 letters)



>gnl|CDD|215881 pfam00372, Hemocyanin_M, Hemocyanin, copper containing domain.
           This family includes arthropod hemocyanins and insect
           larval storage proteins.
          Length = 278

 Score = 58.1 bits (141), Expect = 9e-12
 Identities = 28/64 (43%), Positives = 40/64 (62%), Gaps = 4/64 (6%)

Query: 12  DKSSSGLQEQEDYLEYYRHDLGINLFHYHWHEANPF--AGNLVGNH--RRGESFYYMHQQ 67
           + + + L  +E  L Y+  D+G+N +HY+WH   PF    +  G +  RRGE FYYMHQQ
Sbjct: 52  NYTGNILYNEEYRLAYFTEDIGLNTYHYYWHMVYPFWWDDDFYGKNKDRRGELFYYMHQQ 111

Query: 68  MLAR 71
           +LAR
Sbjct: 112 LLAR 115


>gnl|CDD|100083 cd06162, S2P-M50_PDZ_SREBP, Sterol regulatory element-binding
          protein (SREBP) Site-2 protease (S2P), a zinc
          metalloprotease (MEROPS family M50A), regulates
          intramembrane proteolysis (RIP) of SREBP and is part of
          a signal transduction mechanism involved in sterol and
          lipid metabolism. In sterol-depleted mammalian cells, a
          two-step proteolytic process releases the N-terminal
          domains of SREBPs from membranes of the endoplasmic
          reticulum (ER). These domains translocate into the
          nucleus, where they activate genes of cholesterol and
          fatty acid biosynthesis. The first cleavage occurs at
          Site-1 within the ER lumen to generate an intermediate
          that is subsequently released from the membrane by
          cleavage at Site-2, which lies within the first
          transmembrane domain. It is the second proteolytic step
          that is carried out by the SREBP Site-2 protease (S2P)
          which is present in this CD family.  This group appears
          to be limited to eumetazoan proteins and contains one
          PDZ domain.
          Length = 277

 Score = 25.8 bits (57), Expect = 2.9
 Identities = 15/41 (36%), Positives = 21/41 (51%), Gaps = 6/41 (14%)

Query: 8  LYFDD---KSSSGLQEQ-EDYLEYYRHDLGINLFHYHWHEA 44
          +YF D   KSSS ++   E +L+     L I+ FH  WH  
Sbjct: 12 VYFFDTFLKSSSCMKYPYEAFLK--NTGLSISPFHIRWHTT 50


>gnl|CDD|235366 PRK05218, PRK05218, heat shock protein 90; Provisional.
          Length = 613

 Score = 25.5 bits (57), Expect = 4.1
 Identities = 9/25 (36%), Positives = 13/25 (52%), Gaps = 3/25 (12%)

Query: 21  QEDYLEYYR---HDLGINLFHYHWH 42
            E+Y E+Y+   HD    LF  H +
Sbjct: 232 DEEYKEFYKHLAHDFDDPLFWIHNN 256


>gnl|CDD|221442 pfam12146, Hydrolase_4, Putative lysophospholipase.  This domain
          is found in bacteria and eukaryotes and is
          approximately 110 amino acids in length. It is found in
          association with pfam00561. Many members are annotated
          as being lysophospholipases, and others as alpha-beta
          hydrolase fold-containing proteins.
          Length = 80

 Score = 24.4 bits (54), Expect = 5.4
 Identities = 10/29 (34%), Positives = 13/29 (44%), Gaps = 1/29 (3%)

Query: 33 GINLFHYHWHEANPFA-GNLVGNHRRGES 60
          G+ LF+  W  A P     +V  H  GE 
Sbjct: 1  GLKLFYRRWLPAGPPPKAVVVLVHGGGEH 29


>gnl|CDD|241478 cd13324, PH_Gab-like, Grb2-associated binding protein family
          Pleckstrin homology (PH) domain.  Gab proteins are
          scaffolding adaptor proteins, which possess N-terminal
          PH domains and a C-terminus with proline-rich regions
          and multiple phosphorylation sites. Following
          activation of growth factor receptors, Gab proteins are
          tyrosine phosphorylated and activate PI3K, which
          generates 3-phosphoinositide lipids. By binding to
          these lipids via the PH domain, Gab proteins remain in
          proximity to the receptor, leading to further
          signaling. While not all Gab proteins depend on the PH
          domain for recruitment, it is required for Gab
          activity. There are 3 families: Gab1, Gab2, and Gab3.
          PH domains have diverse functions, but in general are
          involved in targeting proteins to the appropriate
          cellular location or in the interaction with a binding
          partner. They share little sequence conservation, but
          all have a common fold, which is electrostatically
          polarized. Less than 10% of PH domains bind
          phosphoinositide phosphates (PIPs) with high affinity
          and specificity. PH domains are distinguished from
          other PIP-binding domains by their specific
          high-affinity binding to PIPs with two vicinal
          phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or
          PtdIns(3,4,5)P3 which results in targeting some PH
          domain proteins to the plasma membrane. A few display
          strong specificity in lipid binding. Any specificity is
          usually determined by loop regions or insertions in the
          N-terminus of the domain, which are not conserved
          across all PH domains. PH domains are found in cellular
          signaling proteins such as serine/threonine kinase,
          tyrosine kinases, regulators of G-proteins, endocytotic
          GTPases, adaptors, as well as cytoskeletal associated
          molecules and in lipid associated enzymes.
          Length = 103

 Score = 24.7 bits (54), Expect = 5.5
 Identities = 8/17 (47%), Positives = 9/17 (52%)

Query: 15 SSGLQEQEDYLEYYRHD 31
          S  L    D LEYY+ D
Sbjct: 28 SGRLSGDPDVLEYYKDD 44


>gnl|CDD|216611 pfam01621, Fusion_gly_K, Cell fusion glycoprotein K.  This protein
           is probably an integral membrane bound glycoprotein that
           is involved in viral fusion with the host cell.
          Length = 337

 Score = 25.0 bits (55), Expect = 6.2
 Identities = 8/25 (32%), Positives = 10/25 (40%), Gaps = 2/25 (8%)

Query: 60  SFYYMHQQMLARQSYGLECGVHLGS 84
            F Y H   L      LE G+ L +
Sbjct: 206 GFLYHHPAALVLI--ALEIGLRLAA 228


>gnl|CDD|226055 COG3524, KpsE, Capsule polysaccharide export protein [Cell envelope
           biogenesis, outer membrane].
          Length = 372

 Score = 24.8 bits (54), Expect = 6.8
 Identities = 9/33 (27%), Positives = 14/33 (42%), Gaps = 3/33 (9%)

Query: 6   FSLYFDDKSSSGLQEQEDYLEYYRHDLGINLFH 38
           F  +      S   E E +L+YYR  + +N   
Sbjct: 108 FDRFNGIGDRS---EIEAFLQYYRDKVKVNFDS 137


>gnl|CDD|176954 CHL00011, ndhD, NADH dehydrogenase subunit 4.
          Length = 498

 Score = 24.5 bits (54), Expect = 7.2
 Identities = 11/38 (28%), Positives = 16/38 (42%), Gaps = 8/38 (21%)

Query: 4  HMFSLYFDDKSSSGLQEQEDYLEYYRHDLGINLFHYHW 41
          + F  +F       +Q +EDY         IN F +HW
Sbjct: 49 YAFCYHFQLDDPL-IQLKEDYK-------WINFFDFHW 78


  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    0.138    0.443 

Gapped
Lambda     K      H
   0.267   0.0807    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,268,227
Number of extensions: 330890
Number of successful extensions: 278
Number of sequences better than 10.0: 1
Number of HSP's gapped: 277
Number of HSP's successfully gapped: 12
Length of query: 84
Length of database: 10,937,602
Length adjustment: 52
Effective length of query: 32
Effective length of database: 8,631,194
Effective search space: 276198208
Effective search space used: 276198208
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 (24.0 bits)