RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy4372
         (50 letters)



>gnl|CDD|238033 cd00078, HECTc, HECT domain; C-terminal catalytic domain of a
           subclass of Ubiquitin-protein ligase (E3). It binds
           specific ubiquitin-conjugating enzymes (E2), accepts
           ubiquitin from E2, transfers ubiquitin to substrate
           lysine side chains, and transfers additional ubiquitin
           molecules to the end of growing ubiquitin chains.
          Length = 352

 Score = 45.2 bits (108), Expect = 9e-08
 Identities = 18/33 (54%), Positives = 24/33 (72%)

Query: 1   MESFREGFECVFPLAQLSMFYPEELEYVFCGSD 33
           +E+FR+GF  V P   LS+F PEELE + CGS+
Sbjct: 208 VEAFRDGFSEVIPEELLSLFTPEELELLICGSE 240


>gnl|CDD|216035 pfam00632, HECT, HECT-domain (ubiquitin-transferase).  The name
           HECT comes from Homologous to the E6-AP Carboxyl
           Terminus.
          Length = 298

 Score = 42.3 bits (100), Expect = 1e-06
 Identities = 19/33 (57%), Positives = 23/33 (69%)

Query: 1   MESFREGFECVFPLAQLSMFYPEELEYVFCGSD 33
           +E+FREGF  V P   LS+F PEELE + CGS 
Sbjct: 154 LEAFREGFYSVIPKELLSLFTPEELELLICGSP 186


>gnl|CDD|214523 smart00119, HECTc, Domain Homologous to E6-AP Carboxyl Terminus
           with.  E3 ubiquitin-protein ligases. Can bind to E2
           enzymes.
          Length = 328

 Score = 40.7 bits (96), Expect = 5e-06
 Identities = 18/32 (56%), Positives = 22/32 (68%)

Query: 1   MESFREGFECVFPLAQLSMFYPEELEYVFCGS 32
           +E+FREGF  V P   L +F PEELE + CGS
Sbjct: 185 LEAFREGFSEVIPENLLKLFDPEELELLICGS 216


>gnl|CDD|227354 COG5021, HUL4, Ubiquitin-protein ligase [Posttranslational
           modification, protein turnover, chaperones].
          Length = 872

 Score = 33.6 bits (77), Expect = 0.001
 Identities = 10/33 (30%), Positives = 15/33 (45%)

Query: 1   MESFREGFECVFPLAQLSMFYPEELEYVFCGSD 33
             +F+ GF  + P   L +F   ELE +  G  
Sbjct: 721 FSAFKSGFSEIIPPDLLQIFDESELELLIGGIP 753


>gnl|CDD|217011 pfam02388, FemAB, FemAB family.  The femAB operon codes for two
           nearly identical approximately 50-kDa proteins involved
           in the formation of the Staphylococcal pentaglycine
           interpeptide bridge in peptidoglycan. These proteins are
           also considered as a factor influencing the level of
           methicillin resistance.
          Length = 408

 Score = 24.9 bits (55), Expect = 1.7
 Identities = 6/19 (31%), Positives = 12/19 (63%)

Query: 15  AQLSMFYPEELEYVFCGSD 33
             L ++  +E+ Y++ GSD
Sbjct: 309 GALFIYNGQEVVYLYGGSD 327


>gnl|CDD|214919 smart00932, Nfu_N, Scaffold protein Nfu/NifU N terminal.  This
          domain is found at the N terminus of NifU and NifU
          related proteins, and in the human Nfu protein. Both of
          these proteins are thought to be involved in the the
          assembly of iron-sulphur clusters.
          Length = 88

 Score = 23.6 bits (52), Expect = 3.6
 Identities = 10/24 (41%), Positives = 14/24 (58%), Gaps = 1/24 (4%)

Query: 13 PLAQLSMFYPEELEYVFCGSDFTS 36
          PLAQ  +F    ++ VF G DF +
Sbjct: 39 PLAQ-KLFEIPGVKSVFFGPDFIT 61


  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
   0.331    0.142    0.486 

Gapped
Lambda     K      H
   0.267   0.0821    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 2,439,329
Number of extensions: 138129
Number of successful extensions: 126
Number of sequences better than 10.0: 1
Number of HSP's gapped: 126
Number of HSP's successfully gapped: 7
Length of query: 50
Length of database: 10,937,602
Length adjustment: 23
Effective length of query: 27
Effective length of database: 9,917,460
Effective search space: 267771420
Effective search space used: 267771420
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 53 (24.0 bits)