RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy8506
         (131 letters)



>gnl|CDD|220003 pfam08752, Gamma-COP, Coatomer gamma subunit appendage domain.
           COPI-coated vesicles function in retrograde transport
           from the Golgi to the ER, and in intra-Golgi transport.
           This domain corresponds to the coatomer gamma subunit
           appendage domain. It contains a protein-protein
           interaction site and a second proposed binding site that
           interacts with the alpha, beta,epsilon COPI subcomplex.
          Length = 269

 Score =  155 bits (393), Expect = 3e-48
 Identities = 62/119 (52%), Positives = 88/119 (73%), Gaps = 2/119 (1%)

Query: 10  VMLTESETEYVVRCIKHSFQSHLILQLEVSNTLSDQLLENVTVQLEIPE-GYELIKETPI 68
           + LTESETEYVV  +KH F++H++LQ  ++NTL+DQ+LENV+V+LE  E  YE +   PI
Sbjct: 28  IPLTESETEYVVSVVKHIFKNHIVLQFNITNTLNDQVLENVSVELEPSEEEYEELFIIPI 87

Query: 69  PRLAYNETQSVYIILQYPPSLADSVT-SVGAVLKFSVKDCDPTTGQPDSDEGYDDEYMV 126
            +L YN+  SVY++L+ P    DS + +    LKF+VK+ DPTTG+P+SDEGY+DEY +
Sbjct: 88  DKLPYNQPGSVYVLLEKPEGEDDSGSETFSNTLKFTVKEIDPTTGEPESDEGYEDEYQI 146


>gnl|CDD|227565 COG5240, SEC21, Vesicle coat complex COPI, gamma subunit
           [Intracellular trafficking and secretion].
          Length = 898

 Score = 63.5 bits (154), Expect = 8e-13
 Identities = 38/118 (32%), Positives = 61/118 (51%), Gaps = 8/118 (6%)

Query: 10  VMLTESETEYVVRCIKHSFQSHLILQLEVSNTLSDQLLENVTVQLEIPEGYELIKETPIP 69
           ++LTE E E+VV+ +KH F+  L+LQ  + NTL    L N  V L  P G +  +E+   
Sbjct: 664 IILTEPEAEFVVKVVKHVFKDRLVLQFLLENTLEGIQLSNGIVVL-TPTGGDKKEESIKV 722

Query: 70  RLAYNETQSVYIILQYPPSLADSVTSVGAV---LKFSVKDCDPTTGQPDSDEGYDDEY 124
               + ++    I+++     D     G V   L F+ K+ +  T +P+ DEG+ DEY
Sbjct: 723 -DQIDSSEGTLSIVRF--KKLDWDIEEGYVVNGLFFTTKEIEGDTSEPE-DEGFQDEY 776


>gnl|CDD|233855 TIGR02410, carnitine_TMLD, trimethyllysine dioxygenase.  Members of
           this family with known function act as trimethyllysine
           dioxygenase, an enzyme in the pathway for carnitine
           biosynthesis from lysine. This enzyme is homologous to
           gamma-butyrobetaine,2-oxoglutarate dioxygenase, which
           catalyzes the last step in carnitine biosynthesis.
           Members of this family appear to be eukaryotic only.
          Length = 362

 Score = 27.0 bits (60), Expect = 2.9
 Identities = 14/35 (40%), Positives = 21/35 (60%)

Query: 52  VQLEIPEGYELIKETPIPRLAYNETQSVYIILQYP 86
           ++ E PE +EL+ + PIP     E+ SV+I   YP
Sbjct: 221 LRKEAPEDFELLTKVPIPHHYSGESDSVFIHPDYP 255


>gnl|CDD|215126 PLN02204, PLN02204, diacylglycerol kinase.
          Length = 601

 Score = 26.0 bits (57), Expect = 7.1
 Identities = 13/36 (36%), Positives = 21/36 (58%)

Query: 85  YPPSLADSVTSVGAVLKFSVKDCDPTTGQPDSDEGY 120
           YPPS +DSV SV +    SV + + T  + D+++  
Sbjct: 247 YPPSPSDSVHSVQSRGSSSVHEPNETVHECDNEDHS 282


>gnl|CDD|218165 pfam04597, Ribophorin_I, Ribophorin I.  Ribophorin I is an
           essential subunit of oligosaccharyltransferase (OST),
           which is also known as
           Dolichyl-diphosphooligosaccharide--protein
           glycosyltransferase, (EC:2.4.1.119). OST catalyzes the
           transfer of an oligosaccharide from dolichol
           pyrophosphate to selected asparagine residues of nascent
           polypeptides as they are translocated into the lumen of
           the rough endoplasmic reticulum. Ribophorin I and OST48
           are though to be responsible for OST catalytic activity.
           Both yeast and mammalian proteins are glycosylated but
           the sites are not conserved. Glycosylation may
           contribute towards general solubility but is unlikely to
           be involved in a specific biochemical function Most
           family members are predicted to have a transmembrane
           helix at the C terminus of this region.
          Length = 429

 Score = 25.7 bits (57), Expect = 9.2
 Identities = 16/38 (42%), Positives = 25/38 (65%), Gaps = 1/38 (2%)

Query: 33  ILQLEVSNTLSDQLLENVTVQLEIPEGYELIK-ETPIP 69
           +L++   N   D + +NVT+++ +PEG E IK ETP P
Sbjct: 321 VLKVPFLNGPKDVVYDNVTLKVILPEGAEDIKVETPFP 358


  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    0.132    0.375 

Gapped
Lambda     K      H
   0.267   0.0737    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,225,550
Number of extensions: 523578
Number of successful extensions: 285
Number of sequences better than 10.0: 1
Number of HSP's gapped: 283
Number of HSP's successfully gapped: 12
Length of query: 131
Length of database: 10,937,602
Length adjustment: 86
Effective length of query: 45
Effective length of database: 7,123,158
Effective search space: 320542110
Effective search space used: 320542110
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)