RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy6182
         (323 letters)



>gnl|CDD|217473 pfam03281, Mab-21, Mab-21 protein.  This family contains Mab-21 and
           Mab-21 like proteins. In C. elegans these proteins are
           required for several aspects of embryonic development.
          Length = 288

 Score =  280 bits (717), Expect = 8e-94
 Identities = 116/262 (44%), Positives = 161/262 (61%), Gaps = 19/262 (7%)

Query: 67  GRFEGLDVITPTEFEVVLYLNQMGELN--FVDDGSLPGCAVLKLSDGRKRSMSLWVEFIT 124
             +EGL V++P EF+V++ LN  G       D G  PG A+LKLS    R  SL  E++T
Sbjct: 1   SYYEGLKVLSPNEFDVMIPLNGEGVFKKVLEDRGRPPGYALLKLSS---RDPSLLDEWLT 57

Query: 125 -ASGYLSARKMRSRFQTLVAQACDKCAYRD--SVKMIADTTEVKLRIRE---RYIVQITP 178
            A GYLS +K+ SRF  LV++A +K +Y D     +  +   V L + E   +Y V + P
Sbjct: 58  CADGYLSPKKVLSRFLKLVSRAVNKLSYSDVIVESLEPNGPAVTLAVEEDGLQYSVDLVP 117

Query: 179 SFKCGGIWPRSAGHWPLPQIPWPHPNLVVETKTEGCDLLSKECAAMQGKQSAMEGDAWVM 238
           +F+C G WP SA  WP     WP P L+ E K+EG  L+ K       K+++ +GD W +
Sbjct: 118 AFECPGGWPESAQEWPRRSRRWPSPELIEEIKSEGFHLVPKPS-----KKNSKDGDEWRL 172

Query: 239 SFTDVESKLL--IGGCRKKCLSILKTLRDRHLELPGNPVTNYHMKTLLLYECEKHPNELE 296
           SF+  E  LL  IGGCR+KCL ILK LR+  L  P + +++YH+KTLLL+ECEKHP + +
Sbjct: 173 SFSQAEKALLANIGGCRRKCLRILKYLREVELGPP-SVISSYHLKTLLLWECEKHPEDSD 231

Query: 297 WDESCLGDRINGILLQLISCLR 318
           WDES LGDR+ G+L +L+ CLR
Sbjct: 232 WDESNLGDRLLGLLDELVKCLR 253


>gnl|CDD|181646 PRK09098, PRK09098, type III secretion system protein HrpB;
           Validated.
          Length = 233

 Score = 32.1 bits (73), Expect = 0.29
 Identities = 10/42 (23%), Positives = 21/42 (50%), Gaps = 3/42 (7%)

Query: 110 DGRKRSMSLWVEFITASGYL---SARKMRSRFQTLVAQACDK 148
            G +++++ W        +    +AR+MR R   +VA A ++
Sbjct: 84  AGLRQALAEWHARGADHAFAERRAARRMRERLAEIVAAAVEQ 125


>gnl|CDD|224249 COG1330, RecC, Exonuclease V gamma subunit [DNA replication,
           recombination, and repair].
          Length = 1078

 Score = 32.0 bits (73), Expect = 0.50
 Identities = 12/39 (30%), Positives = 18/39 (46%)

Query: 278 YHMKTLLLYECEKHPNELEWDESCLGDRINGILLQLISC 316
             +   +LY  E+    +E D +  G R+ G LLQL   
Sbjct: 887 KPLANAVLYSIEQPGQSVEIDLTIHGVRLKGWLLQLYGD 925


  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
   0.322    0.137    0.420 

Gapped
Lambda     K      H
   0.267   0.0641    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 15,877,799
Number of extensions: 1463885
Number of successful extensions: 1019
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1012
Number of HSP's successfully gapped: 4
Length of query: 323
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 226
Effective length of database: 6,635,264
Effective search space: 1499569664
Effective search space used: 1499569664
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: 59 (26.7 bits)