RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy4254
         (114 letters)



>gnl|CDD|215646 pfam00001, 7tm_1, 7 transmembrane receptor (rhodopsin family).
           This family contains, amongst other G-protein-coupled
           receptors (GCPRs), members of the opsin family, which
           have been considered to be typical members of the
           rhodopsin superfamily. They share several motifs, mainly
           the seven transmembrane helices, GCPRs of the rhodopsin
           superfamily. All opsins bind a chromophore, such as
           11-cis-retinal. The function of most opsins other than
           the photoisomerases is split into two steps: light
           absorption and G-protein activation. Photoisomerases, on
           the other hand, are not coupled to G-proteins - they are
           thought to generate and supply the chromophore that is
           used by visual opsins.
          Length = 251

 Score = 29.2 bits (66), Expect = 0.32
 Identities = 9/31 (29%), Positives = 19/31 (61%)

Query: 55  RTAQILLMLVICFLLAWTPYAVITFIGQFGD 85
           + A++LL++V+ F+L W PY ++  +     
Sbjct: 192 KAAKMLLVVVVVFVLCWLPYHIVLLLDSLCP 222


>gnl|CDD|222976 PHA03087, PHA03087, G protein-coupled chemokine receptor-like
           protein; Provisional.
          Length = 335

 Score = 28.2 bits (63), Expect = 0.84
 Identities = 9/43 (20%), Positives = 22/43 (51%)

Query: 38  YKLAMPIHRATPLNSAVRTAQILLMLVICFLLAWTPYAVITFI 80
            K+ + +          +  +++L++VI F++ W P+ V  F+
Sbjct: 224 SKILITLKGINKSKKNKKAIKLVLIIVILFVIFWLPFNVSVFV 266


>gnl|CDD|211379 cd09268, FCHo1_MHD, mu-homology domain (MHD) of F-BAR
           domain-containing Fer/Cip4 homology domain-only protein
           1 (FCH domain only 1 or FCHo1, also known as KIAA0290)
           and similar proteins.  This family corresponds to the
           MHD found in ubiquitously expressed mammalian
           membrane-sculpting FCHo1 and similar proteins. FCHo1
           represents a key initial protein that ultimately
           controls cellular nutrient uptake, receptor regulation,
           and synaptic vesicle retrieval. It is required for
           plasma membrane clathrin-coated vesicle (CCV) budding
           and marks sites of CCV formation. It binds specifically
           to the plasma membrane and recruits the scaffold
           proteins eps15 and intersectin, which subsequently
           engage the adaptor complex AP2 and clathrin, leading to
           coated vesicle formation. FCHo1 contains an N-terminal
           EFC/F-BAR domain, a proline-rich domain (PRD) in the
           middle region, and a C-terminal MHD. The crescent-shaped
           EFC/F-BAR domain can form an antiparallel dimer
           structure that binds PtdIns(4,5)P2-enriched membranes
           and can polymerize into rings to generate membrane
           tubules. The MHD is structurally related to the
           cargo-binding mu2 subunit of adaptor complex 2 (AP-2)
           and is responsible for the binding of eps15 and
           intersectin. Unlike other F-BAR domain containing
           proteins, FCHo1 has neither the Src homology 3 (SH3)
           domain nor any other known domain for interaction with
           dynamin and actin cytoskeleton. However,  it can
           periodically accumulate at the budding site of clathrin.
           FCHo1 may utilize a unique action mode for vesicle
           formation as compared with other F-BAR proteins.
          Length = 259

 Score = 27.6 bits (61), Expect = 1.2
 Identities = 17/58 (29%), Positives = 22/58 (37%), Gaps = 11/58 (18%)

Query: 13  RYQVRSPP-------LTKICDCGGVVTNYTLAYKLAMPIHRATPLNSAVRTAQILLML 63
           +YQV           L+    CG   T+ +L Y+       AT L       QILL L
Sbjct: 115 KYQVSKSGPSAAPLYLSATWQCGPTSTDVSLDYRQNPATAPATFLTD----VQILLPL 168


>gnl|CDD|182366 PRK10302, PRK10302, hypothetical protein; Provisional.
          Length = 272

 Score = 26.9 bits (60), Expect = 2.6
 Identities = 8/16 (50%), Positives = 11/16 (68%)

Query: 43  PIHRATPLNSAVRTAQ 58
           P+H A P + A+R AQ
Sbjct: 164 PVHAARPHSEAIRDAQ 179


>gnl|CDD|172707 PRK14219, PRK14219, camphor resistance protein CrcB; Provisional.
          Length = 132

 Score = 26.3 bits (58), Expect = 2.7
 Identities = 21/63 (33%), Positives = 26/63 (41%), Gaps = 16/63 (25%)

Query: 29 GVVTNYTLAYKLAMPIHRATPLNSAVRTAQILLMLVICFLLAWT----------PYAVIT 78
          G ++ Y L   +    H   PL      A +L+ L  CFLLAW           P  VIT
Sbjct: 13 GALSRYYLGLTIHEFWHHTFPL------ATLLINLAGCFLLAWLTTYIAKLNILPSDVIT 66

Query: 79 FIG 81
           IG
Sbjct: 67 GIG 69


>gnl|CDD|224736 COG1823, COG1823, Predicted Na+/dicarboxylate symporter [General
           function prediction only].
          Length = 458

 Score = 26.2 bits (58), Expect = 4.0
 Identities = 8/31 (25%), Positives = 17/31 (54%)

Query: 47  ATPLNSAVRTAQILLMLVICFLLAWTPYAVI 77
                +A+ T Q ++M ++  ++  TPY V+
Sbjct: 212 GERFKAAIDTLQSIVMKLVRLVIRLTPYGVL 242


>gnl|CDD|176963 CHL00020, psbN, photosystem II protein N.
          Length = 43

 Score = 24.3 bits (53), Expect = 4.5
 Identities = 9/27 (33%), Positives = 17/27 (62%)

Query: 56 TAQILLMLVICFLLAWTPYAVITFIGQ 82
          TA ++ + +   L+++T YA+ T  GQ
Sbjct: 3  TATLVAIFISGLLVSFTGYALYTAFGQ 29


>gnl|CDD|227858 COG5571, COG5571, Autotransporter protein or domain, integral
           membrane beta-barrel involved in protein secretion [Cell
           motility and secretion].
          Length = 239

 Score = 25.9 bits (57), Expect = 4.9
 Identities = 10/37 (27%), Positives = 14/37 (37%), Gaps = 1/37 (2%)

Query: 71  WTPYAVITFIGQFG-DASLITPWVSATPAIFAKFLVD 106
             PYA I ++ +FG D       +S   A       D
Sbjct: 157 LQPYAQIRYVREFGDDIWKAQAGLSRMTATNVLPSQD 193


>gnl|CDD|148764 pfam07343, DUF1475, Protein of unknown function (DUF1475).  This
           family consists of several hypothetical plant proteins
           of around 250 residues in length. Members of this family
           seem to be found exclusively in Arabidopsis thaliana.
           The function of this family is unknown.
          Length = 254

 Score = 26.1 bits (57), Expect = 5.4
 Identities = 13/46 (28%), Positives = 20/46 (43%), Gaps = 1/46 (2%)

Query: 51  NSAVRTAQILLMLVICFLLAWTPYAVITFIGQFGDASLITPWVSAT 96
           NS V  A+ +   +   + A   Y   T    F    L+TPW++A 
Sbjct: 130 NSFVIIARFIFGALGAMMAAALIYTCFTDGLPF-HKDLLTPWMAAL 174


  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
   0.330    0.143    0.450 

Gapped
Lambda     K      H
   0.267   0.0750    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,863,481
Number of extensions: 499455
Number of successful extensions: 743
Number of sequences better than 10.0: 1
Number of HSP's gapped: 741
Number of HSP's successfully gapped: 59
Length of query: 114
Length of database: 10,937,602
Length adjustment: 78
Effective length of query: 36
Effective length of database: 7,477,990
Effective search space: 269207640
Effective search space used: 269207640
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 53 (24.2 bits)