RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy7458
         (139 letters)



>gnl|CDD|191913 pfam07978, NIPSNAP, NIPSNAP.  Members of this family include many
           hypothetical proteins. It also includes members of the
           NIPSNAP family which have putative roles in vesicular
           transport. This domain is often found in duplicate.
          Length = 102

 Score =  107 bits (269), Expect = 2e-31
 Identities = 41/102 (40%), Positives = 57/102 (55%), Gaps = 4/102 (3%)

Query: 40  YEVRSYSLKPGTMIEWGNNWARAITHR--RNNDEAFAGFFSQVGRLYNVHHFWCYKDLAS 97
           YE+R+Y+LKPG + E+   +ARA   R  ++  E    F S++G L  V+H W +  LA+
Sbjct: 1   YELRTYTLKPGKLAEFLERFARAWIPRQEKHGGELIGYFTSEIGPLNQVYHLWAFDSLAA 60

Query: 98  RKETRESAWRSPGWDECVAYTVPL--IREMQSRILLPTSFSP 137
           R+  R +    P W   V   V L  I  M+SRIL PT FSP
Sbjct: 61  REAYRAALAADPDWVAAVREAVDLDIIDSMESRILRPTPFSP 102


>gnl|CDD|216324 pfam01139, UPF0027, Uncharacterized protein family UPF0027. 
          Length = 419

 Score = 26.4 bits (59), Expect = 5.6
 Identities = 12/40 (30%), Positives = 18/40 (45%), Gaps = 6/40 (15%)

Query: 55  WGNNWARA----ITH--RRNNDEAFAGFFSQVGRLYNVHH 88
              N+A A    I H  R   +E F G   ++  +Y+V H
Sbjct: 247 AAANYAWANRQLIAHRVREAFEEVFGGPDLELRLVYDVAH 286


>gnl|CDD|223370 COG0293, FtsJ, 23S rRNA methylase [Translation, ribosomal structure
           and biogenesis].
          Length = 205

 Score = 25.6 bits (57), Expect = 9.7
 Identities = 13/34 (38%), Positives = 16/34 (47%), Gaps = 4/34 (11%)

Query: 71  EAFAGFFSQVGRLY-NVHHFWCYKDLASRKETRE 103
           E F      + RL+  V  F   K  ASRK +RE
Sbjct: 163 EDFEDLLKALRRLFRKVKIF---KPKASRKRSRE 193


  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
   0.321    0.133    0.438 

Gapped
Lambda     K      H
   0.267   0.0718    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,119,742
Number of extensions: 607070
Number of successful extensions: 400
Number of sequences better than 10.0: 1
Number of HSP's gapped: 398
Number of HSP's successfully gapped: 7
Length of query: 139
Length of database: 10,937,602
Length adjustment: 87
Effective length of query: 52
Effective length of database: 7,078,804
Effective search space: 368097808
Effective search space used: 368097808
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 (21.9 bits)
S2: 54 (24.6 bits)