RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy8635
         (177 letters)



>gnl|CDD|218682 pfam05669, Med31, SOH1.  The family consists of Saccharomyces
           cerevisiae SOH1 homologues. SOH1 is responsible for the
           repression of temperature sensitive growth of the HPR1
           mutant and has been found to be a component of the RNA
           polymerase II transcription complex. SOH1 not only
           interacts with factors involved in DNA repair, but
           transcription as well. Thus, the SOH1 protein may serve
           to couple these two processes.
          Length = 103

 Score =  170 bits (434), Expect = 8e-56
 Identities = 64/103 (62%), Positives = 80/103 (77%)

Query: 12  QQRLRFQIELEFIQCLANPNYLNFLAQRGYLKDEAFVNYLKYLLYWKEPQYAKYLKYPMC 71
           +   RF+IELEF+Q LANP YLNFLAQ+GY +D  F+NYLKYL YW+EP+YAKY+ YP C
Sbjct: 1   EDPTRFEIELEFVQSLANPQYLNFLAQQGYFEDPRFINYLKYLQYWREPEYAKYIVYPNC 60

Query: 72  LYFLDLLQYEHFRREIVNSQCAKFIDDQQVLLWQHYTRKRTKL 114
           L+ L+LLQ E+FRR I N   A FID+Q +L WQ+Y RKR +L
Sbjct: 61  LHMLELLQNENFRRAISNPNFANFIDEQGLLHWQYYLRKRAQL 103


>gnl|CDD|227420 COG5088, SOH1, Rad5p-binding protein [General function prediction
           only].
          Length = 114

 Score =   99 bits (249), Expect = 1e-27
 Identities = 37/89 (41%), Positives = 53/89 (59%)

Query: 16  RFQIELEFIQCLANPNYLNFLAQRGYLKDEAFVNYLKYLLYWKEPQYAKYLKYPMCLYFL 75
           RF++ELEF+Q LANP YL  L Q+   + E F NYLKYL YW+ P+Y++++ YP CL+ L
Sbjct: 16  RFEVELEFVQSLANPQYLTLLTQQQIFESENFKNYLKYLEYWRNPEYSQFIVYPNCLFIL 75

Query: 76  DLLQYEHFRREIVNSQCAKFIDDQQVLLW 104
            LL        +      + +D+ Q   W
Sbjct: 76  KLLNGFMESAIVSEDGLLEGLDELQYPQW 104


>gnl|CDD|237920 PRK15194, PRK15194, type-1 fimbrial protein subunit A; Provisional.
          Length = 185

 Score = 33.8 bits (77), Expect = 0.021
 Identities = 16/41 (39%), Positives = 21/41 (51%), Gaps = 2/41 (4%)

Query: 82  HFRREIVNSQCAKFID--DQQVLLWQHYTRKRTKLLNEAAQ 120
           HF  E+VN+ C+   D  DQ V L Q+ T   T + N  A 
Sbjct: 36  HFEGELVNAACSVNTDSADQTVTLGQYRTAIFTAVGNTTAL 76


>gnl|CDD|240098 cd04750, Commd2, COMM_Domain containing protein 2. The COMM Domain
           is found at the C-terminus of a variety of proteins;
           presumably all COMM_Domain containing proteins are
           located in the nucleus and the COMM domain plays a role
           in protein-protein interactions. Several family members
           have been shown to bind and inhibit NF-kappaB.
          Length = 166

 Score = 28.0 bits (63), Expect = 2.1
 Identities = 9/31 (29%), Positives = 13/31 (41%), Gaps = 3/31 (9%)

Query: 94  KFIDDQQVLLWQHYTRKRT---KLLNEAAQN 121
            F DD   +L Q Y   R     +L E + +
Sbjct: 65  GFSDDLNEILLQLYESNRKEIRNILKELSPD 95


>gnl|CDD|225982 COG3451, VirB4, Type IV secretory pathway, VirB4 components
           [Intracellular trafficking and secretion].
          Length = 796

 Score = 26.6 bits (59), Expect = 8.9
 Identities = 31/130 (23%), Positives = 48/130 (36%), Gaps = 13/130 (10%)

Query: 3   NKGGPET---EDQQRLRFQIELEFIQCLANPNYLNFLA-QRGYLKD--EAFVNYLKY--- 53
            K GPE     ++  L +   LEF+  L N  YL  +    G L D  E           
Sbjct: 175 RKYGPELLGNYEEDGLNYSEVLEFLAELINGGYLQPVPLVGGLLDDALETSRVVFGKDGI 234

Query: 54  -LLYWKEPQYAKYL---KYPMCLYFLDLLQYEHFRREIVNSQCAKFIDDQQVLLWQHYTR 109
            +   K  +YA  +   +YP    F+ L        E + +Q   FI  Q  +    + +
Sbjct: 235 EIRTPKGEKYALLISIKEYPWSTRFITLDALLALPFEFIITQSFLFISKQVAISKLEFQK 294

Query: 110 KRTKLLNEAA 119
           +R K   +A 
Sbjct: 295 RRAKSSGDAK 304


  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
   0.320    0.137    0.431 

Gapped
Lambda     K      H
   0.267   0.0723    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,098,591
Number of extensions: 817358
Number of successful extensions: 542
Number of sequences better than 10.0: 1
Number of HSP's gapped: 539
Number of HSP's successfully gapped: 10
Length of query: 177
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 86
Effective length of database: 6,901,388
Effective search space: 593519368
Effective search space used: 593519368
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 (21.8 bits)
S2: 56 (25.4 bits)