RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy15443
         (73 letters)



>gnl|CDD|218299 pfam04869, Uso1_p115_head, Uso1 / p115 like vesicle tethering
           protein, head region.  Also known as General vesicular
           transport factor, Transcytosis associated protein (TAP)
           and Vesicle docking protein, this myosin-shaped molecule
           consists of an N-terminal globular head region, a
           coiled-coil tail which mediates dimerisation, and a
           short C-terminal acidic region. p115 tethers COP1
           vesicles to the Golgi by binding the coiled coil
           proteins giantin (on the vesicles) and GM130 (on the
           Golgi), via its C-terminal acidic region. It is required
           for intercisternal transport in the golgi stack. This
           family consists of part of the head region. The head
           region is highly conserved, but its function is unknown.
           It does not seem to be essential for vesicle tethering.
           The N-terminal part of the head region, not within this
           family, contains context-detected
           Armadillo/beta-catenin-like repeats (pfam00514).
          Length = 308

 Score = 50.0 bits (120), Expect = 5e-09
 Identities = 13/52 (25%), Positives = 25/52 (48%), Gaps = 3/52 (5%)

Query: 1   MEMFLDKLSEVSRHEVYSRAAKKPQLDP---ERAHEPLLDYEFCKLYKALEA 49
            + ++ KL ++  HE++       QL+P   E   +   D+EF +L+K    
Sbjct: 251 RDNYISKLKQLREHELFRDFELPQQLNPTSDETGPDVYFDFEFVELFKDNFY 302


>gnl|CDD|226620 COG4136, COG4136, ABC-type uncharacterized transport system, ATPase
           component [General function prediction only].
          Length = 213

 Score = 29.4 bits (66), Expect = 0.095
 Identities = 11/37 (29%), Positives = 19/37 (51%), Gaps = 3/37 (8%)

Query: 35  LLDYEFCKLYKALEAQSADWIYAKAK---LPKSAIEH 68
           LLD  F +L  AL  Q   W++++ +   +P   + H
Sbjct: 157 LLDEPFSRLDVALRDQFRQWVFSEVRAAGIPTVQVTH 193


>gnl|CDD|152108 pfam11672, DUF3268, Protein of unknown function (DUF3268).  This
           family of proteins has no known function.
          Length = 102

 Score = 26.1 bits (58), Expect = 0.95
 Identities = 9/24 (37%), Positives = 11/24 (45%)

Query: 9   SEVSRHEVYSRAAKKPQLDPERAH 32
             +SR E Y+  A K  L  E  H
Sbjct: 77  KHMSRSEAYAWLAAKLGLPEEECH 100


>gnl|CDD|221441 pfam12145, Med12-LCEWAV, Eukaryotic Mediator 12 subunit domain.
           This domain is found in eukaryotes, and is typically
           between 325 and 354 amino acids in length. The function
           of this particular region of the Mediator subunit Med12
           is not known, but there is a conserved sequence motif:
           LCEWAV, from which the name derives.
          Length = 471

 Score = 25.2 bits (55), Expect = 3.8
 Identities = 10/34 (29%), Positives = 15/34 (44%)

Query: 1   MEMFLDKLSEVSRHEVYSRAAKKPQLDPERAHEP 34
           +E  L     +SRH  Y+     PQ +   +HE 
Sbjct: 431 LEGTLGSEYSLSRHLQYTTHFPIPQDESISSHEC 464


>gnl|CDD|117046 pfam08469, NPHI_C, Nucleoside triphosphatase I C-terminal.  This
          viral domain is found to the C-terminus of Poxvirus
          nucleoside triphosphatase phosphohydrolase I (NPH I)
          together with the helicase conserved C-terminal domain
          (pfam00271).
          Length = 148

 Score = 24.6 bits (54), Expect = 4.2
 Identities = 9/22 (40%), Positives = 15/22 (68%)

Query: 39 EFCKLYKALEAQSADWIYAKAK 60
          EF +L+K L+  S +WI++  K
Sbjct: 41 EFNQLFKVLKHSSIEWIHSHYK 62


>gnl|CDD|235388 PRK05286, PRK05286, dihydroorotate dehydrogenase 2; Reviewed.
          Length = 344

 Score = 24.7 bits (55), Expect = 4.5
 Identities = 7/9 (77%), Positives = 8/9 (88%)

Query: 25 QLDPERAHE 33
          +LDPE AHE
Sbjct: 12 KLDPETAHE 20


>gnl|CDD|237257 PRK12902, secA, preprotein translocase subunit SecA; Reviewed.
          Length = 939

 Score = 24.6 bits (54), Expect = 5.3
 Identities = 11/28 (39%), Positives = 18/28 (64%)

Query: 2   EMFLDKLSEVSRHEVYSRAAKKPQLDPE 29
           EMFL+ ++ + R+ VYS    +PQ  P+
Sbjct: 907 EMFLEMMTNIRRNVVYSLFMFQPQPQPQ 934


>gnl|CDD|236321 PRK08645, PRK08645, bifunctional homocysteine
           S-methyltransferase/5,10-methylenetetrahydrofolate
           reductase protein; Reviewed.
          Length = 612

 Score = 24.0 bits (53), Expect = 9.7
 Identities = 11/33 (33%), Positives = 14/33 (42%)

Query: 5   LDKLSEVSRHEVYSRAAKKPQLDPERAHEPLLD 37
           L  L  V+  EV  R       +P +A   LLD
Sbjct: 285 LKGLKPVTEKEVKPRPKVVVTEEPLKAKSSLLD 317


  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
   0.314    0.129    0.372 

Gapped
Lambda     K      H
   0.267   0.0632    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,590,413
Number of extensions: 259263
Number of successful extensions: 150
Number of sequences better than 10.0: 1
Number of HSP's gapped: 149
Number of HSP's successfully gapped: 11
Length of query: 73
Length of database: 10,937,602
Length adjustment: 43
Effective length of query: 30
Effective length of database: 9,030,380
Effective search space: 270911400
Effective search space used: 270911400
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 53 (24.4 bits)