RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy4599
         (201 letters)



>gnl|CDD|218732 pfam05753, TRAP_beta, Translocon-associated protein beta (TRAPB).
           This family consists of several eukaryotic
           translocon-associated protein beta (TRAPB) or signal
           sequence receptor beta subunit (SSR-beta) proteins. The
           normal translocation of nascent polypeptides into the
           lumen of the endoplasmic reticulum (ER) is thought to be
           aided in part by a translocon-associated protein (TRAP)
           complex consisting of 4 protein subunits. The
           association of mature proteins with the ER and Golgi, or
           other intracellular locales, such as lysosomes, depends
           on the initial targeting of the nascent polypeptide to
           the ER membrane. A similar scenario must also exist for
           proteins destined for secretion.
          Length = 181

 Score =  125 bits (316), Expect = 1e-36
 Identities = 67/191 (35%), Positives = 91/191 (47%), Gaps = 49/191 (25%)

Query: 1   MDVVVKYTIYNIGNSVATNVVVSDSSFPPEAFEIQGGQFKFVIDRVPPQTNVTHVVIVQP 60
            D+ V YTIYN+G+S A +V + D+SFP +AFE+  G      +R+ P  NV+H  +V+P
Sbjct: 38  RDLTVTYTIYNVGSSPAYDVSLVDNSFPEDAFEVVSGSLSASWERLAPGENVSHTFVVRP 97

Query: 61  KSYGAFNFSFAEVSYKASENAEDYTIYNIGNSVATNVVVSDSSFPPEAFEIQGGQFKFVI 120
           K  G FNF+ AEV+Y+ASE+                + V+ SS P E             
Sbjct: 98  KKSGYFNFTPAEVTYRASED-------------GAELQVAYSSPPGE------------- 131

Query: 121 DRVPPQTNVTHVVIVQPKSYGAFNFSFAEVSYKASENAEDGDWAAFAFMTLPPLLIPFLL 180
                      +               AE  Y    +    DW AFA MTLP + IP LL
Sbjct: 132 ---------GGI--------------LAERDYDKKFSPHLLDWVAFAVMTLPSVGIPLLL 168

Query: 181 WFQSKTKYEKL 191
           W+ SK+KYEKL
Sbjct: 169 WWVSKSKYEKL 179


>gnl|CDD|213626 TIGR01451, B_ant_repeat, conserved repeat domain.  This model
          represents the conserved region of about 53 amino acids
          shared between regions, usually repeated, of proteins
          from a small number of phylogenetically distant
          prokaryotes. Examples include a 132-residue region
          found repeated in three of the five longest proteins of
          Bacillus anthracis, a 131-residue repeat in a cell
          wall-anchored protein of Enterococcus faecalis, and a
          120-residue repeat in Methanobacterium
          thermoautotrophicum. A similar region is found in some
          Chlamydial outer membrane proteins.
          Length = 53

 Score = 26.4 bits (59), Expect = 1.8
 Identities = 13/23 (56%), Positives = 15/23 (65%), Gaps = 2/23 (8%)

Query: 4  VVKYTI--YNIGNSVATNVVVSD 24
           + YTI   N GN  ATNVVV+D
Sbjct: 13 TITYTITVTNNGNVPATNVVVTD 35



 Score = 25.3 bits (56), Expect = 5.9
 Identities = 11/17 (64%), Positives = 13/17 (76%)

Query: 85  TIYNIGNSVATNVVVSD 101
           T+ N GN  ATNVVV+D
Sbjct: 19  TVTNNGNVPATNVVVTD 35


>gnl|CDD|216446 pfam01345, DUF11, Domain of unknown function DUF11.  A domain of
          unknown function found in multiple copies in several
          archaebacterial proteins.
          Length = 76

 Score = 26.6 bits (59), Expect = 3.1
 Identities = 12/36 (33%), Positives = 15/36 (41%), Gaps = 2/36 (5%)

Query: 3  VVVKYTIYNIGNSVATNVVVSDSSFPPEAFEIQGGQ 38
          V    T+ N G + A NVVV+D    P       G 
Sbjct: 43 VTYTITVTNTGPATARNVVVTD--TLPAGLTYVSGS 76


>gnl|CDD|221393 pfam12044, Metallopep, Putative peptidase family.  This family of
          proteins is functionally uncharacterized. However, it
          does contain an HEXXH motif characteristic of
          metallopeptidases. This protein is found in bacteria
          and eukaryotes. Proteins in this family are typically
          between 625 to 773 amino acids in length.
          Length = 419

 Score = 27.3 bits (61), Expect = 6.6
 Identities = 11/46 (23%), Positives = 17/46 (36%), Gaps = 1/46 (2%)

Query: 3  VVVKYTIYNIGNSVATNVVVSDS-SFPPEAFEIQGGQFKFVIDRVP 47
          V+V              V   D+ SFPP  + +    FK ++   P
Sbjct: 18 VLVHGRCGPPCCDGTVTVNHPDNSSFPPLTWPVHDSHFKALVHLSP 63



 Score = 26.9 bits (60), Expect = 7.9
 Identities = 8/24 (33%), Positives = 13/24 (54%)

Query: 101 DSSFPPEAFEIQGGQFKFVIDRVP 124
           +SSFPP  + +    FK ++   P
Sbjct: 40  NSSFPPLTWPVHDSHFKALVHLSP 63


  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
   0.317    0.133    0.388 

Gapped
Lambda     K      H
   0.267   0.0709    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,182,477
Number of extensions: 932480
Number of successful extensions: 766
Number of sequences better than 10.0: 1
Number of HSP's gapped: 764
Number of HSP's successfully gapped: 17
Length of query: 201
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 109
Effective length of database: 6,857,034
Effective search space: 747416706
Effective search space used: 747416706
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 56 (25.4 bits)