RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy16186
         (111 letters)



>gnl|CDD|238542 cd01122, GP4d_helicase, GP4d_helicase is a homohexameric 5'-3'
           helicases. Helicases couple NTP hydrolysis to the
           unwinding of nucleic acid duplexes into their component
           strands.
          Length = 271

 Score = 49.3 bits (118), Expect = 3e-08
 Identities = 11/43 (25%), Positives = 19/43 (44%)

Query: 60  AVEHAMYVYDTGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVL 102
            V +    +   H+IIDN+  M+    ++ D     D I+  L
Sbjct: 131 KVRYMAVSHGIQHIIIDNLSIMVSDERASGDERKALDEIMTKL 173


>gnl|CDD|118156 pfam09621, LcrR, Type III secretion system regulator (LcrR).  This
           family of proteins are encoded within type III secretion
           operons and have been characterized in Yersinia as a
           regulator of the Low-Calcium Response (LCR).
          Length = 139

 Score = 27.4 bits (61), Expect = 1.0
 Identities = 15/39 (38%), Positives = 18/39 (46%), Gaps = 2/39 (5%)

Query: 57  LDLAVEHAMYVYDTGHVIIDNVQFMLG--LSDSALDRFY 93
           L L  E A+ V     V+  NV  + G  LS   L RFY
Sbjct: 69  LYLLAEAALAVLGPDWVLYGNVDVLRGSPLSSQRLARFY 107


>gnl|CDD|223562 COG0488, Uup, ATPase components of ABC transporters with duplicated
           ATPase domains [General function prediction only].
          Length = 530

 Score = 27.2 bits (61), Expect = 2.0
 Identities = 6/24 (25%), Positives = 13/24 (54%)

Query: 59  LAVEHAMYVYDTGHVIIDNVQFML 82
           L  E+    YD G +++ ++ F +
Sbjct: 322 LEFENVSKGYDGGRLLLKDLSFRI 345


>gnl|CDD|181302 PRK08223, PRK08223, hypothetical protein; Validated.
          Length = 287

 Score = 27.0 bits (60), Expect = 2.5
 Identities = 9/19 (47%), Positives = 13/19 (68%)

Query: 78  VQFMLGLSDSALDRFYMQD 96
           V+F+ GL+ S L R Y+ D
Sbjct: 186 VRFLAGLAPSMLHRGYLAD 204


>gnl|CDD|236382 PRK09111, PRK09111, DNA polymerase III subunits gamma and tau;
           Validated.
          Length = 598

 Score = 26.4 bits (59), Expect = 3.7
 Identities = 15/40 (37%), Positives = 20/40 (50%), Gaps = 7/40 (17%)

Query: 57  LDLAVEHAMYVYDTGHVIIDNVQFMLGLSDSA--LDRFYM 94
           LD A+ H       G V  + V+ MLGL+D A  +D F  
Sbjct: 234 LDQAIAHG-----AGEVTAEAVRDMLGLADRARVIDLFEA 268


>gnl|CDD|184767 PRK14611, PRK14611, 4-diphosphocytidyl-2-C-methyl-D-erythritol
           kinase; Provisional.
          Length = 275

 Score = 26.3 bits (58), Expect = 3.8
 Identities = 15/60 (25%), Positives = 27/60 (45%), Gaps = 8/60 (13%)

Query: 2   SGPWDELESKLKKPCPTKSMLEFENTTHISSEWEMVLQSSQPLWLGLRCLSSMIHLDLAV 61
           S P    + K ++    K++  FE  T I   + + ++ + P+  GL   SS    + AV
Sbjct: 53  SSP----QIKEEENIVYKALRLFERYTGIDINYSIFIEKNIPVGAGLGGGSS----NAAV 104


>gnl|CDD|222165 pfam13481, AAA_25, AAA domain.  This AAA domain is found in a wide
           variety of presumed DNA repair proteins.
          Length = 154

 Score = 26.1 bits (58), Expect = 3.8
 Identities = 7/36 (19%), Positives = 14/36 (38%), Gaps = 3/36 (8%)

Query: 60  AVEHAMYVYDTGHVIIDNVQFMLGL---SDSALDRF 92
             E    +     V+ID +  +LG     ++A+   
Sbjct: 93  LGEALEEIEGPDLVVIDPLASLLGGDENDNAAVGAL 128


>gnl|CDD|218865 pfam06033, DUF918, Nucleopolyhedrovirus protein of unknown
          function (DUF918).  This family consists of several
          Nucleopolyhedrovirus proteins with no known function.
          Length = 153

 Score = 25.3 bits (56), Expect = 6.9
 Identities = 8/24 (33%), Positives = 16/24 (66%), Gaps = 1/24 (4%)

Query: 58 DLAVEH-AMYVYDTGHVIIDNVQF 80
          D+++E  A+Y+Y+   + +D VQ 
Sbjct: 46 DMSLETLALYLYENARLTVDGVQL 69


>gnl|CDD|151401 pfam10954, DUF2755, Protein of unknown function (DUF2755).  Some
          members in this family of proteins are annotated as
          YaiY however no function is known. The family appears
          to be restricted to Enterobacteriaceae.
          Length = 100

 Score = 24.7 bits (54), Expect = 8.0
 Identities = 11/32 (34%), Positives = 17/32 (53%)

Query: 45 WLGLRCLSSMIHLDLAVEHAMYVYDTGHVIID 76
          W G + L+ ++H     EH M V DTG   ++
Sbjct: 35 WAGAQLLNLLVHAPGVYEHLMQVQDTGRPRVE 66


  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    0.135    0.416 

Gapped
Lambda     K      H
   0.267   0.0743    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,393,211
Number of extensions: 432627
Number of successful extensions: 286
Number of sequences better than 10.0: 1
Number of HSP's gapped: 286
Number of HSP's successfully gapped: 12
Length of query: 111
Length of database: 10,937,602
Length adjustment: 75
Effective length of query: 36
Effective length of database: 7,611,052
Effective search space: 273997872
Effective search space used: 273997872
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: 53 (24.2 bits)