RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy7377
         (83 letters)



>gnl|CDD|218872 pfam06048, DUF927, Domain of unknown function (DUF927).  Family of
           bacterial proteins of unknown function. The C-terminal
           half of this family contains a P-loop motif.
          Length = 284

 Score = 30.7 bits (70), Expect = 0.054
 Identities = 13/63 (20%), Positives = 23/63 (36%), Gaps = 2/63 (3%)

Query: 6   HEVFAFPSEE--EADKVLSIPDVEQRIKDVLMVLGNFKQYRDPARSRCEYTSLLLKDLCT 63
             VF  P +      +   I   E +I+D L   G   ++R    + C    LL+  +  
Sbjct: 118 GGVFVLPDQVIGSDGEKQIIAQDEGKIEDGLSQKGTLDEWRRQVAALCVGNPLLILAVSA 177

Query: 64  YFS 66
             +
Sbjct: 178 ALA 180


>gnl|CDD|227140 COG4803, COG4803, Predicted membrane protein [Function unknown].
          Length = 170

 Score = 30.1 bits (68), Expect = 0.069
 Identities = 11/39 (28%), Positives = 23/39 (58%), Gaps = 2/39 (5%)

Query: 1  MNIADHEVFAFPSEEEADKVLSIPDVEQRIKDVLMVLGN 39
          +N++D  V AF  E++A++V     + +  K+ L+ L +
Sbjct: 1  LNMSDLIVIAFDDEDKAEEVRER--LNELQKEYLITLED 37


>gnl|CDD|173544 PTZ00351, PTZ00351, adenylosuccinate synthetase; Provisional.
          Length = 710

 Score = 26.2 bits (57), Expect = 2.6
 Identities = 19/62 (30%), Positives = 29/62 (46%), Gaps = 11/62 (17%)

Query: 2   NIADHEVFAFPSEEEADKVLSIPD---VEQRIKDVLMVLGNFKQYRDPAR------SRCE 52
           N++D +V     EE +D V+ +PD      + KD +  L     YRD  R      +RC+
Sbjct: 343 NLSDADVVRLCREENSDGVVRVPDYVIAFAQAKDKVEFLVKL--YRDRVRHNPDFPARCD 400

Query: 53  YT 54
            T
Sbjct: 401 VT 402


>gnl|CDD|234731 PRK00343, ipk, 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase;
           Provisional.
          Length = 271

 Score = 25.9 bits (58), Expect = 2.7
 Identities = 9/16 (56%), Positives = 13/16 (81%), Gaps = 1/16 (6%)

Query: 8   VFA-FPSEEEADKVLS 22
           VFA F +E EA++VL+
Sbjct: 242 VFAEFDTEAEAEQVLA 257


>gnl|CDD|217619 pfam03571, Peptidase_M49, Peptidase family M49. 
          Length = 550

 Score = 24.9 bits (55), Expect = 5.8
 Identities = 6/14 (42%), Positives = 8/14 (57%)

Query: 43  YRDPARSRCEYTSL 56
           YRDP+  R E+   
Sbjct: 168 YRDPSGVRGEFEGF 181


>gnl|CDD|240885 cd12439, RRM_TRMT2A, RNA recognition motif in tRNA
          (uracil-5-)-methyltransferase homolog A (TRMT2A) and
          similar proteins.  This subfamily corresponds to the
          RRM of TRMT2A, also known as HpaII tiny fragments locus
          9c protein (HTF9C), a novel cell cycle regulated
          protein. It is an independent biologic factor expressed
          in tumors associated with clinical outcome in HER2
          expressing breast cancer. The function of TRMT2A
          remains unclear although by sequence homology it has a
          RNA recognition motif (RRM), also known as RBD (RNA
          binding domain) or RNP (ribonucleoprotein domain),
          related to RNA methyltransferases. .
          Length = 79

 Score = 24.1 bits (53), Expect = 6.9
 Identities = 10/25 (40%), Positives = 11/25 (44%)

Query: 1  MNIADHEVFAFPSEEEADKVLSIPD 25
          +   D     F SEEE  K L I D
Sbjct: 39 LKRQDFAFVTFRSEEERQKALEILD 63


>gnl|CDD|223542 COG0466, Lon, ATP-dependent Lon protease, bacterial type
           [Posttranslational modification, protein turnover,
           chaperones].
          Length = 782

 Score = 24.4 bits (54), Expect = 7.8
 Identities = 8/25 (32%), Positives = 16/25 (64%)

Query: 13  SEEEADKVLSIPDVEQRIKDVLMVL 37
             EE  ++L   DV++R++ +L +L
Sbjct: 177 KLEEKQEILETLDVKERLEKLLDLL 201


>gnl|CDD|233119 TIGR00763, lon, ATP-dependent protease La.  This protein is induced
           by heat shock and other stresses in E. coli, B.
           subtilis, and other species. The yeast member,
           designated PIM1, is located in the mitochondrial matrix,
           required for mitochondrial function, and also induced by
           heat shock [Protein fate, Degradation of proteins,
           peptides, and glycopeptides].
          Length = 775

 Score = 24.2 bits (53), Expect = 9.8
 Identities = 8/30 (26%), Positives = 16/30 (53%)

Query: 8   VFAFPSEEEADKVLSIPDVEQRIKDVLMVL 37
                 ++E  +VL   ++E+R+K  L +L
Sbjct: 169 SLQLKEKDELQEVLETVNIEKRLKKALELL 198


>gnl|CDD|237676 PRK14329, PRK14329, (dimethylallyl)adenosine tRNA
          methylthiotransferase; Provisional.
          Length = 467

 Score = 24.2 bits (53), Expect = 9.9
 Identities = 19/59 (32%), Positives = 25/59 (42%), Gaps = 15/59 (25%)

Query: 1  MNIADHEVFA----------FPSEEEADKVL----SIPD-VEQRIKDVLMVLGNFKQYR 44
          MN AD E+ A            + EEAD VL    SI D  EQ+++  L      K+  
Sbjct: 35 MNFADSEIVASILQMAGYNTTENLEEADLVLVNTCSIRDNAEQKVRKRLEKFNALKKKN 93


  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
   0.324    0.140    0.406 

Gapped
Lambda     K      H
   0.267   0.0607    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,344,318
Number of extensions: 345236
Number of successful extensions: 434
Number of sequences better than 10.0: 1
Number of HSP's gapped: 434
Number of HSP's successfully gapped: 17
Length of query: 83
Length of database: 10,937,602
Length adjustment: 52
Effective length of query: 31
Effective length of database: 8,631,194
Effective search space: 267567014
Effective search space used: 267567014
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 53 (24.5 bits)