RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy9898
         (82 letters)



>gnl|CDD|206745 cd11385, RagC_like, Rag GTPase, subfamily of Ras-related GTPases,
           includes Ras-related GTP-binding proteins C and D.  RagC
           and RagD are closely related Rag GTPases (ras-related
           GTP-binding protein C and D) that constitute a unique
           subgroup of the Ras superfamily, and are functional
           homologs of Saccharomyces cerevisiae Gtr2. These domains
           form heterodimers with RagA or RagB, and similarly, Gtr2
           dimerizes with Gtr1 in order to function. They play an
           essential role in regulating amino acid-induced target
           of rapamycin complex 1 (TORC1) kinase signaling,
           exocytic cargo sorting at endosomes, and epigenetic
           control of gene expression. In response to amino acids,
           the Rag GTPases guide the TORC1 complex to activate the
           platform containing Rheb proto-oncogene by driving the
           relocalization of mTORC1 from discrete locations in the
           cytoplasm to a late endosomal and/or lysosomal
           compartment that is Rheb-enriched and contains Rab-7.
          Length = 175

 Score = 27.6 bits (62), Expect = 0.50
 Identities = 12/51 (23%), Positives = 23/51 (45%), Gaps = 10/51 (19%)

Query: 12  VEFLVHKS-GVTIEEKIDAL---------ELLGASFANDKENYCLTSAFKY 52
            E  +HK  G++ + KI+           EL  A   + + ++ LTS + +
Sbjct: 111 FEVFIHKVDGLSEDHKIETQRDIQQRVTDELADAGLEDVQISFYLTSIYDH 161


>gnl|CDD|227426 COG5095, TAF6, Transcription initiation factor TFIID, subunit TAF6
           (also component of histone acetyltransferase SAGA)
           [Transcription].
          Length = 450

 Score = 25.7 bits (56), Expect = 2.8
 Identities = 12/37 (32%), Positives = 15/37 (40%), Gaps = 4/37 (10%)

Query: 5   ERTQAEVVEFLVHKSGVTIEEKI----DALELLGASF 37
           +RT       L+ K G  + EKI    D   LLG   
Sbjct: 414 QRTLPPNASGLLEKVGSLMAEKIMKENDTSLLLGLLE 450


>gnl|CDD|225288 COG2433, COG2433, Uncharacterized conserved protein [Function
           unknown].
          Length = 652

 Score = 25.1 bits (55), Expect = 4.6
 Identities = 12/31 (38%), Positives = 20/31 (64%)

Query: 21  VTIEEKIDALELLGASFANDKENYCLTSAFK 51
           +++EEK +AL  L  S ++D E   L +A+K
Sbjct: 322 LSVEEKQEALRTLKISVSDDHERDALAAAYK 352


>gnl|CDD|215599 PLN03140, PLN03140, ABC transporter G family member; Provisional.
          Length = 1470

 Score = 24.8 bits (54), Expect = 6.2
 Identities = 17/56 (30%), Positives = 32/56 (57%), Gaps = 4/56 (7%)

Query: 17  HKSGVTIEE-KIDALELLGASFANDKENYCLT-SAFKYLYKTMQLRIGRIIMTPIY 70
           HK+ +   +  +  +ELL A +  DKE   +  +AF Y++KT+Q+ I   I + ++
Sbjct: 501 HKAALVFSKYSVPKMELLKACW--DKEWLLMKRNAFVYVFKTVQIIIVAAIASTVF 554


>gnl|CDD|222930 PHA02786, PHA02786, uncharacterized  protein; Provisional.
          Length = 192

 Score = 24.6 bits (53), Expect = 7.0
 Identities = 9/30 (30%), Positives = 22/30 (73%)

Query: 21 VTIEEKIDALELLGASFANDKENYCLTSAF 50
          +T ++  +++E+L + F +D+++Y +TS F
Sbjct: 29 ITEDKSFNSVEVLVSLFRDDQKDYTVTSQF 58


>gnl|CDD|233392 TIGR01391, dnaG, DNA primase, catalytic core.  Members of this
           family are DNA primase, a ubiquitous bacteria protein.
           Most members of this family contain nearly two hundred
           additional residues C-terminal to the region represented
           here, but conservation between species is poor and the
           C-terminal region was not included in the seed
           alignment. This protein contains a CHC2 zinc finger
           (pfam01807) and a Toprim domain (pfam01751) [DNA
           metabolism, DNA replication, recombination, and repair].
          Length = 415

 Score = 24.1 bits (53), Expect = 9.6
 Identities = 7/50 (14%), Positives = 17/50 (34%), Gaps = 3/50 (6%)

Query: 9   AEVVEFLVHKSGVTIEEKIDALELLGASFANDKENYC-LTSAFKYLYKTM 57
            E VE L  ++G+ +    +  +       + ++    L       +K  
Sbjct: 80  VEAVEELAKRAGIDLP--FEKDQQEKKEQKSKRKKLYELLELAAKFFKNQ 127


  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    0.135    0.370 

Gapped
Lambda     K      H
   0.267   0.0809    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,014,132
Number of extensions: 312566
Number of successful extensions: 253
Number of sequences better than 10.0: 1
Number of HSP's gapped: 253
Number of HSP's successfully gapped: 11
Length of query: 82
Length of database: 10,937,602
Length adjustment: 51
Effective length of query: 31
Effective length of database: 8,675,548
Effective search space: 268941988
Effective search space used: 268941988
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)