RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy12862
         (98 letters)



>gnl|CDD|238012 cd00055, EGF_Lam, Laminin-type epidermal growth factor-like
          domain; laminins are the major noncollagenous
          components of basement membranes that mediate cell
          adhesion, growth migration, and differentiation; the
          laminin-type epidermal growth factor-like module occurs
          in tandem arrays; the domain contains 4 disulfide bonds
          (loops a-d) the first three resemble epidermal growth
          factor (EGF); the number of copies of this domain in
          the different forms of laminins is highly variable
          ranging from 3 up to 22 copies.
          Length = 50

 Score = 35.4 bits (82), Expect = 2e-04
 Identities = 17/54 (31%), Positives = 21/54 (38%), Gaps = 9/54 (16%)

Query: 35 CNCNNHARKCRFNMELYKLSGRSSGGVCLQCRHFTAGRHCHYCKEGYYRDPSRP 88
          C+CN H                   G C +C+  T GR C  C  GYY  PS+ 
Sbjct: 2  CDCNGHGS--------LSGQCDPGTGQC-ECKPNTTGRRCDRCAPGYYGLPSQG 46


>gnl|CDD|215680 pfam00053, Laminin_EGF, Laminin EGF-like (Domains III and V).
          This family is like pfam00008 but has 8 conserved
          cysteines instead of six.
          Length = 49

 Score = 34.6 bits (80), Expect = 5e-04
 Identities = 15/32 (46%), Positives = 16/32 (50%), Gaps = 1/32 (3%)

Query: 57 SSGGVCLQCRHFTAGRHCHYCKEGYYRDPSRP 88
             G C  C+    GRHC  CK GYY  PS P
Sbjct: 15 PETGQC-LCKPGVTGRHCDRCKPGYYGLPSDP 45


>gnl|CDD|214543 smart00180, EGF_Lam, Laminin-type epidermal growth factor-like
          domai. 
          Length = 46

 Score = 30.0 bits (68), Expect = 0.029
 Identities = 11/27 (40%), Positives = 13/27 (48%), Gaps = 1/27 (3%)

Query: 59 GGVCLQCRHFTAGRHCHYCKEGYYRDP 85
           G C +C+    GR C  C  GYY D 
Sbjct: 17 TGQC-ECKPNVTGRRCDRCAPGYYGDG 42


>gnl|CDD|223430 COG0353, RecR, Recombinational DNA repair protein (RecF pathway)
          [DNA replication, recombination, and repair].
          Length = 198

 Score = 28.3 bits (64), Expect = 0.53
 Identities = 8/28 (28%), Positives = 9/28 (32%), Gaps = 5/28 (17%)

Query: 60 GVCLQCRHFTAGRHCHYCKEGYYRDPSR 87
            C  C + T    C  C      D SR
Sbjct: 55 KHCSVCGNLTESDPCDIC-----SDESR 77


>gnl|CDD|234616 PRK00076, recR, recombination protein RecR; Reviewed.
          Length = 196

 Score = 26.2 bits (59), Expect = 2.7
 Identities = 8/26 (30%), Positives = 9/26 (34%), Gaps = 5/26 (19%)

Query: 62 CLQCRHFTAGRHCHYCKEGYYRDPSR 87
          C  C + T    C  C      DP R
Sbjct: 56 CSVCGNLTEQDPCEIC-----SDPRR 76


>gnl|CDD|220906 pfam10926, DUF2800, Protein of unknown function (DUF2800).  This is
           a family of uncharacterized proteins found in bacteria
           and viruses. Some members of this family are annotated
           as being Phi APSE P51-like proteins.
          Length = 363

 Score = 25.7 bits (57), Expect = 3.8
 Identities = 6/12 (50%), Positives = 7/12 (58%)

Query: 67  HFTAGRHCHYCK 78
            F  G HC +CK
Sbjct: 208 EFKPGEHCRFCK 219


>gnl|CDD|220246 pfam09445, Methyltransf_15, RNA cap guanine-N2 methyltransferase.
           RNA cap guanine-N2 methyltransferases such as
          Schizosaccharomyces pombe Tgs1 and Giardia lamblia Tgs2
          catalyze methylation of the exocyclic N2 amine of
          7-methylguanosine.
          Length = 165

 Score = 25.3 bits (56), Expect = 5.3
 Identities = 7/26 (26%), Positives = 10/26 (38%)

Query: 28 DRIFFQTCNCNNHARKCRFNMELYKL 53
          DRI+F   +      K +F    Y  
Sbjct: 49 DRIWFILGDWFELLAKLKFGKIPYDC 74


>gnl|CDD|216094 pfam00747, Viral_DNA_bp, ssDNA binding protein.  This protein is
           found in herpesviruses and is needed for replication.
          Length = 1111

 Score = 25.4 bits (56), Expect = 5.7
 Identities = 19/81 (23%), Positives = 29/81 (35%), Gaps = 14/81 (17%)

Query: 4   FEDIDGSDKESGGEHLKKFRCS------SRDRIFFQTCNCNNHARKCRFNMELYK-LSGR 56
           F    G D+E   EHL    C       +R   +   C+  N         +++  + G 
Sbjct: 410 FSGTVGKDEEFSPEHLALA-CGFSPQLLARLLWYLNRCSGYNTG--GTGESDVFNYVVGA 466

Query: 57  SSGGVCLQCRHFTAGRHCHYC 77
           +S  +C  C     G  CH C
Sbjct: 467 ASSVLCELC----EGTCCHSC 483


  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
   0.327    0.138    0.468 

Gapped
Lambda     K      H
   0.267   0.0729    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,751,415
Number of extensions: 350651
Number of successful extensions: 366
Number of sequences better than 10.0: 1
Number of HSP's gapped: 363
Number of HSP's successfully gapped: 17
Length of query: 98
Length of database: 10,937,602
Length adjustment: 64
Effective length of query: 34
Effective length of database: 8,098,946
Effective search space: 275364164
Effective search space used: 275364164
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 53 (24.2 bits)