RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy7121
         (79 letters)



>gnl|CDD|218335 pfam04934, Med6, MED6 mediator sub complex component.  Component of
           RNA polymerase II holoenzyme and mediator sub complex.
          Length = 134

 Score = 99.6 bits (249), Expect = 6e-29
 Identities = 37/58 (63%), Positives = 48/58 (82%)

Query: 17  NMTGLEYIVLHVQEPILYVIRKQHRHSMEQTTPIADYYIIAGVVYQAPDLASVISSRL 74
            MTG+EY++ HV+EP L+VIRKQ RH+ ++ TP+ADYYII G +YQAP L SV+SSRL
Sbjct: 55  KMTGIEYVLAHVREPDLWVIRKQRRHNPDEVTPLADYYIIGGNIYQAPTLYSVLSSRL 112


>gnl|CDD|227428 COG5097, MED6, RNA polymerase II transcriptional regulation
           mediator [Transcription].
          Length = 210

 Score = 62.7 bits (152), Expect = 8e-14
 Identities = 20/60 (33%), Positives = 32/60 (53%)

Query: 18  MTGLEYIVLHVQEPILYVIRKQHRHSMEQTTPIADYYIIAGVVYQAPDLASVISSRLVGT 77
           + G   +    +EP L+VIRKQ+RH+  + TP+  Y I    +Y AP   S+   R+  +
Sbjct: 67  LGGFYEVESSNREPTLWVIRKQYRHNDTEETPLMYYIIHGHNIYAAPTNYSIYRCRMGDS 126


>gnl|CDD|204539 pfam10674, Ycf54, Protein of unknown function (DUF2488).  This
          protein is conserved in the green lineage and located
          in the chloroplast.
          Length = 92

 Score = 25.3 bits (56), Expect = 2.2
 Identities = 13/44 (29%), Positives = 24/44 (54%)

Query: 26 LHVQEPILYVIRKQHRHSMEQTTPIADYYIIAGVVYQAPDLASV 69
          L  +EP+  V+R++ RH  E+   I  + +      +AP+LA +
Sbjct: 13 LTEEEPLEEVLRERRRHYKEKGKEIDFWLVPQPAFLEAPELAEL 56


>gnl|CDD|180409 PRK06115, PRK06115, dihydrolipoamide dehydrogenase; Reviewed.
          Length = 466

 Score = 26.0 bits (57), Expect = 2.2
 Identities = 8/18 (44%), Positives = 14/18 (77%)

Query: 52  DYYIIAGVVYQAPDLASV 69
           +Y +I GV+Y  P++A+V
Sbjct: 343 NYGLIPGVIYTRPEVATV 360


>gnl|CDD|222022 pfam13280, WYL, WYL domain.  This presumed domain is around 170
           amino acids in length. It is found to the C-terminus of
           a DNA-binding helix-turn-helix domain. This domain may
           be involved in binding to an as yet unknown ligand that
           allows a transcriptional regulation response to that
           molecule. There are a number of proteins that contain
           two tandem copies of this domain. This suggests that
           this domain may form a dimeric arrangement.
          Length = 172

 Score = 25.2 bits (56), Expect = 3.4
 Identities = 6/54 (11%), Positives = 18/54 (33%), Gaps = 2/54 (3%)

Query: 18  MTGLEYIVLHVQEPILYVIRKQHRHSMEQTTPIADYYIIAGVVYQAPDLASVIS 71
           +     + L         ++++  H  +      D  I+  + +   DL  ++ 
Sbjct: 92  VFEPIEVKLRFDPEAAEYLKERPLHDQQIIEEDDDGSIL--LTFPVSDLEELLR 143


>gnl|CDD|237745 PRK14527, PRK14527, adenylate kinase; Provisional.
          Length = 191

 Score = 24.8 bits (54), Expect = 4.9
 Identities = 10/35 (28%), Positives = 18/35 (51%)

Query: 35  VIRKQHRHSMEQTTPIADYYIIAGVVYQAPDLASV 69
            +R++ +   EQT P+ DYY   G + +   L + 
Sbjct: 145 TVRRRQQVYREQTQPLVDYYEARGHLKRVDGLGTP 179


>gnl|CDD|226628 COG4148, ModC, ABC-type molybdate transport system, ATPase
           component [Inorganic ion transport and metabolism].
          Length = 352

 Score = 24.6 bits (54), Expect = 5.8
 Identities = 16/57 (28%), Positives = 26/57 (45%), Gaps = 7/57 (12%)

Query: 18  MTGLEYIVLHVQEPILYVIRKQHRHSMEQTTPIADYYII--AGVVYQAPDLASVISS 72
           +  LE +   +  PILYV      HS+++   +AD  ++   G V  +  L  V  S
Sbjct: 168 LPYLERLRDEINIPILYV-----SHSLDEVLRLADRVVVLENGKVKASGPLEEVWGS 219


>gnl|CDD|219117 pfam06638, Strabismus, Strabismus protein.  This family consists of
           several strabismus (STB) or Van Gogh-like (VANGL)
           proteins 1 and 2. The exact function of this family is
           unknown. It is thought, however that STB1 gene and STB2
           may be potent tumour suppressor gene candidates.
          Length = 507

 Score = 24.7 bits (54), Expect = 6.9
 Identities = 8/13 (61%), Positives = 10/13 (76%)

Query: 33  LYVIRKQHRHSME 45
           L   R+QHRH+ME
Sbjct: 392 LRTTRQQHRHTME 404


  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    0.393 

Gapped
Lambda     K      H
   0.267   0.0788    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,035,929
Number of extensions: 314618
Number of successful extensions: 233
Number of sequences better than 10.0: 1
Number of HSP's gapped: 233
Number of HSP's successfully gapped: 11
Length of query: 79
Length of database: 10,937,602
Length adjustment: 48
Effective length of query: 31
Effective length of database: 8,808,610
Effective search space: 273066910
Effective search space used: 273066910
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 (24.1 bits)