RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy11813
         (70 letters)



>gnl|CDD|220215 pfam09379, FERM_N, FERM N-terminal domain.  This domain is the
          N-terminal ubiquitin-like structural domain of the FERM
          domain.
          Length = 79

 Score = 57.2 bits (139), Expect = 5e-13
 Identities = 24/59 (40%), Positives = 38/59 (64%), Gaps = 1/59 (1%)

Query: 9  VTTMDA-ELEFAIQHTTTGKQLFDQTVKTIGLREVWFFGLQYADSRGDLTWIKLYKKVR 66
          V  +D  +LEF +  + TG++L DQ  + +GLRE  +FGLQ+ D + +  W+ L KK+R
Sbjct: 1  VRLLDGTQLEFTVDKSATGQELLDQVCQRLGLREKDYFGLQFNDKKNERIWLDLDKKLR 59


>gnl|CDD|214604 smart00295, B41, Band 4.1 homologues.  Also known as
          ezrin/radixin/moesin (ERM) protein domains. Present in
          myosins, ezrin, radixin, moesin, protein tyrosine
          phosphatases. Plasma membrane-binding domain. These
          proteins play structural and regulatory roles in the
          assembly and stabilization of specialized
          plasmamembrane domains. Some PDZ domain containing
          proteins bind one or more of this family. Now includes
          JAKs.
          Length = 201

 Score = 58.8 bits (143), Expect = 1e-12
 Identities = 20/62 (32%), Positives = 35/62 (56%), Gaps = 2/62 (3%)

Query: 7  VRVTTMDAE-LEFAIQHTTTGKQLFDQTVKTIGLREVWFFGLQYADSRGDL-TWIKLYKK 64
          ++V  +D   LEF +  +TT ++L +   + +G+RE  +FGLQ+ D   DL  W+   K 
Sbjct: 2  LKVYLLDGTTLEFEVDSSTTAEELLETVCRKLGIRESEYFGLQFEDPDEDLRHWLDPAKT 61

Query: 65 VR 66
          + 
Sbjct: 62 LL 63


>gnl|CDD|131155 TIGR02100, glgX_debranch, glycogen debranching enzyme GlgX.  This
           family consists of the GlgX protein from the E. coli
           glycogen operon and probable equivalogs from other
           prokaryotic species. GlgX is not required for glycogen
           biosynthesis, but instead acts as a debranching enzyme
           for glycogen catabolism. This model distinguishes GlgX
           from pullanases and other related proteins that also
           operate on alpha-1,6-glycosidic linkages. In the wide
           band between the trusted and noise cutoffs are
           functionally similar enzymes, mostly from plants, that
           act similarly but usually are termed isoamylase [Energy
           metabolism, Biosynthesis and degradation of
           polysaccharides].
          Length = 688

 Score = 26.2 bits (58), Expect = 1.5
 Identities = 14/45 (31%), Positives = 18/45 (40%), Gaps = 8/45 (17%)

Query: 24  TTGKQLFDQTVKTIGLR--------EVWFFGLQYADSRGDLTWIK 60
               +L   T K I LR        E +F G   AD   D+TW+ 
Sbjct: 550 EGDDELLAFTKKLIALRKAHPVLRRERFFDGRNEADGLKDVTWLN 594


>gnl|CDD|238931 cd01971, Nitrogenase_VnfN_like, Nitrogenase_vnfN_like: VnfN subunit
           of the VnfEN complex-like.  This group in addition to
           VnfN contains a subset of the beta subunit of the
           nitrogenase MoFe protein and NifN-like proteins. The
           nitrogenase enzyme system catalyzes the ATP-dependent
           reduction of dinitrogen to ammonia.  NifEN participates
           in the synthesis of the iron-molybdenum cofactor
           (FeMoco) of MoFe protein of the
           molybdenum(Mo)-nitrogenase.  NifB-co (an iron and sulfur
           containing precursor of the FeMoco) from NifB is
           transferred to NifEN where it is further processed to
           FeMoco. VnfEN  may similarly be a scaffolding protien
           for the iron-vanadium cofactor (FeVco) of  the
           vanadium-dependent (V)-nitrogenase.  NifE and NifN are
           essential for the Mo-nitrogenase, VnfE and VnfN are not
           essential for the V-nitrogenase. NifE and NifN can
           substitute when the vnfEN genes are inactivated.
          Length = 427

 Score = 25.8 bits (57), Expect = 2.0
 Identities = 16/47 (34%), Positives = 19/47 (40%), Gaps = 6/47 (12%)

Query: 20  IQHTTTGKQLFDQTVKTIGLRE---VWFFGLQ-YADS--RGDLTWIK 60
             H    K + DQ V     +E   V  +G   Y D   RGDL  IK
Sbjct: 133 AGHEIVLKAIIDQYVGQSEEKEPGLVNLWGPVPYQDPFWRGDLEEIK 179


>gnl|CDD|215055 PLN00101, PLN00101, Photosystem I light-harvesting complex type 4
           protein; Provisional.
          Length = 250

 Score = 25.3 bits (55), Expect = 3.1
 Identities = 13/34 (38%), Positives = 19/34 (55%), Gaps = 1/34 (2%)

Query: 4   LMNVRVTTMDAELEFAIQHTTTGKQLFDQTVKTI 37
           L N R+  M A L F +QH  TGK  F+  ++ +
Sbjct: 205 LANGRLA-MLAFLGFVVQHNVTGKGPFENLLQHL 237


>gnl|CDD|225188 COG2306, COG2306, Predicted RNA-binding protein, associated with
           RNAses E/G family [General function prediction only].
          Length = 183

 Score = 24.8 bits (54), Expect = 4.1
 Identities = 13/61 (21%), Positives = 25/61 (40%), Gaps = 6/61 (9%)

Query: 4   LMNVRVTTMDA-ELEFAIQHTTTGKQLFDQTVKT----IGLREVWFFGLQYADSRG-DLT 57
           L       +D  ELE A+++     + F++  +T            F  Q+  ++G +L 
Sbjct: 115 LPGGEAELLDEDELEDALRYGLITPEQFEKAYRTANAVEAELRNGKFPPQWLATKGMELV 174

Query: 58  W 58
           W
Sbjct: 175 W 175


  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
   0.323    0.137    0.424 

Gapped
Lambda     K      H
   0.267   0.0737    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,403,717
Number of extensions: 240942
Number of successful extensions: 158
Number of sequences better than 10.0: 1
Number of HSP's gapped: 158
Number of HSP's successfully gapped: 6
Length of query: 70
Length of database: 10,937,602
Length adjustment: 40
Effective length of query: 30
Effective length of database: 9,163,442
Effective search space: 274903260
Effective search space used: 274903260
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 53 (24.2 bits)