RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy3393
         (433 letters)



>gnl|CDD|202226 pfam02376, CUT, CUT domain.  The CUT domain is a DNA-binding motif
           which can bind independently or in cooperation with the
           homeodomain, often found downstream of the CUT domain.
           Multiple copies of the CUT domain can exist in one
           protein .
          Length = 87

 Score =  130 bits (328), Expect = 4e-37
 Identities = 46/82 (56%), Positives = 57/82 (69%), Gaps = 1/82 (1%)

Query: 350 GELEEINTKELAQRISAELKRYSIPQAIFAQRVLCRSQGTLSDLLRNPKPWSKLK-SGRE 408
           G  EE++T E+A+RI  ELKR +I QA+FA+ VL RSQG+LSDLLR PKPW+KL   GRE
Sbjct: 4   GMSEELDTAEIARRIKEELKRANISQALFAEVVLGRSQGSLSDLLRRPKPWNKLLLKGRE 63

Query: 409 TFRRMWKWLQEPEFQRMSALRL 430
            FRRM  +L  PE  R    + 
Sbjct: 64  PFRRMQNFLSLPEAVRDLIYQQ 85


>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger.  [Transport and
           binding proteins, Cations and iron carrying compounds].
          Length = 1096

 Score = 33.0 bits (75), Expect = 0.35
 Identities = 34/153 (22%), Positives = 53/153 (34%), Gaps = 16/153 (10%)

Query: 191 SPNNGLSTIVITQENSPLSPQS--TYSQNGLNSPQKSLSPNSYDSPYNQRDLVD---RSV 245
           SP    + I  T   +  SP +  T           S + N Y    + R  V       
Sbjct: 113 SPPRRTAKITPTTPKNNYSPTAAGTERVKEDTPATPSRALNHY-ISTSGRQRVKSYTPKP 171

Query: 246 LGG-GSQSPTLSPNEGSLHS-SPTTLVTNFQGAATIPTMNGITTITPHTVVVSPQTSPQH 303
            G   S SPT +  +   ++ SP   + N    +T  TM     ITP T V   + +  +
Sbjct: 172 RGEVKSSSPTQTREKVRKYTPSPLGRMVNSYAPSTFMTMPRSHGITPRTTVKDSEITATY 231

Query: 304 SLISNQLQRSDSPGPPKIISQQTATLTLKTVTP 336
            ++           P K  + +T    LK +T 
Sbjct: 232 KML--------ETNPSKRTAGKTTPTPLKGMTD 256


>gnl|CDD|144426 pfam00827, Ribosomal_L15e, Ribosomal L15. 
          Length = 192

 Score = 29.8 bits (68), Expect = 1.7
 Identities = 10/30 (33%), Positives = 14/30 (46%), Gaps = 3/30 (10%)

Query: 400 WSKLKSG--RETFR-RMWKWLQEPEFQRMS 426
           W K +S   R   R R W++ Q P   R+ 
Sbjct: 10  WKKKQSDVMRFLLRVRCWEYRQLPAIVRVE 39


>gnl|CDD|227934 COG5647, COG5647, Cullin, a subunit of E3 ubiquitin ligase
           [Posttranslational modification, protein turnover,
           chaperones].
          Length = 773

 Score = 29.0 bits (65), Expect = 6.2
 Identities = 27/88 (30%), Positives = 34/88 (38%), Gaps = 15/88 (17%)

Query: 159 TGSFTVMQNNIGLGINSHYTYDKIQMSPPQHYSPNNGLSTIVITQENSPLSPQSTYSQNG 218
           T     M  +I L   S    +  Q SP Q Y+    L   V+TQ   PLSP+       
Sbjct: 501 TSKLEGMFRDISL---SSEFTEAFQHSP-QSYNKYLDLFVWVLTQAYWPLSPEEV----S 552

Query: 219 LNSPQKSLSP------NSYDSPYNQRDL 240
           +  P K L P        Y S +N R L
Sbjct: 553 IRLP-KELVPILEGFKKFYSSKHNGRKL 579


>gnl|CDD|183523 PRK12427, PRK12427, flagellar biosynthesis sigma factor;
           Provisional.
          Length = 231

 Score = 28.3 bits (63), Expect = 7.7
 Identities = 21/66 (31%), Positives = 30/66 (45%), Gaps = 6/66 (9%)

Query: 368 LKRYSIPQAIFAQRVLCRSQGTLSDLLR----NPKPW-SKLKSGRETFRRMWKWL-QEPE 421
           L+RY  P   FA   + R +G + D LR     P+    K     +  R + K L  EP 
Sbjct: 60  LRRYGHPDEQFAAYAVHRIRGAILDELRELDWRPRRLRQKTHKTNDAIREIAKRLGHEPN 119

Query: 422 FQRMSA 427
           F+ +SA
Sbjct: 120 FEEISA 125


  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
   0.309    0.126    0.355 

Gapped
Lambda     K      H
   0.267   0.0794    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 21,464,704
Number of extensions: 2018292
Number of successful extensions: 1359
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1351
Number of HSP's successfully gapped: 27
Length of query: 433
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 333
Effective length of database: 6,502,202
Effective search space: 2165233266
Effective search space used: 2165233266
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 60 (26.8 bits)