RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy3385
         (99 letters)



>gnl|CDD|227943 COG5656, SXM1, Importin, protein involved in nuclear import
           [Posttranslational modification, protein turnover,
           chaperones].
          Length = 970

 Score = 49.9 bits (119), Expect = 2e-08
 Identities = 20/52 (38%), Positives = 34/52 (65%)

Query: 48  EVFAQWMEIFRQVAERPVPEHTLTLDEDERADTPWWKCKKWALHILSRIFER 99
           E F+ W ++  ++ ++P+P   L+LD + R+ + W KCKKWA + L R F+R
Sbjct: 221 ETFSSWFQLSLRILQKPLPNEVLSLDPEVRSLSKWVKCKKWAAYNLYRSFQR 272


>gnl|CDD|179668 PRK03893, PRK03893, putative sialic acid transporter;
          Provisional.
          Length = 496

 Score = 28.5 bits (64), Expect = 0.54
 Identities = 9/20 (45%), Positives = 10/20 (50%)

Query: 15 FVLIAFVLIRVQRAFDYDLI 34
          FVLI  VL  VQ  F    +
Sbjct: 36 FVLITLVLTEVQGEFGLTTV 55


>gnl|CDD|226630 COG4150, CysP, ABC-type sulfate transport system, periplasmic
          component [Inorganic ion transport and metabolism].
          Length = 341

 Score = 26.7 bits (59), Expect = 1.9
 Identities = 11/39 (28%), Positives = 18/39 (46%)

Query: 36 TEVYTVHWVISREVFAQWMEIFRQVAERPVPEHTLTLDE 74
          TE+    + +SRE+FA     F     +  P   LT+ +
Sbjct: 31 TELLNSSYDVSRELFAALNPAFEAQWAKDNPGDKLTIKQ 69


>gnl|CDD|224124 COG1203, COG1203, CRISPR-associated helicase Cas3 [Defense
           mechanisms].
          Length = 733

 Score = 26.3 bits (58), Expect = 3.4
 Identities = 10/44 (22%), Positives = 24/44 (54%)

Query: 4   KIVEQSSERVMFVLIAFVLIRVQRAFDYDLIITEVYTVHWVISR 47
           ++ +   +   F+++A  +I      D+D++ITE+  +  +I R
Sbjct: 485 ELKKLFKQNEGFIVVATQVIEAGVDIDFDVLITELAPIDSLIQR 528


>gnl|CDD|163656 cd07413, MPP_PA3087, Pseudomonas aeruginosa PA3087 and related
           proteins, metallophosphatase domain.  PA3087 is an
           uncharacterized protein from Pseudomonas aeruginosa with
           a metallophosphatase domain that belongs to the
           phosphoprotein phosphatase (PPP) family.  The PPP family
           also includes: PP1, PP2A, PP2B (calcineurin), PP4, PP5,
           PP6, PP7, Bsu1, RdgC, PrpE, PrpA/PrpB, and ApA4
           hydrolase. The PPP catalytic domain is defined by three
           conserved motifs (-GDXHG-, -GDXVDRG- and -GNHE-).  The
           PPP enzyme family is ancient with members found in all
           eukaryotes, and in most bacterial and archeal genomes.
           Dephosphorylation of phosphoserines and
           phosphothreonines on target proteins plays a central
           role in the regulation of many cellular processes.  PPPs
           belong to the metallophosphatase (MPP) superfamily.
           MPPs are functionally diverse, but all share a conserved
           domain with an active site consisting of two metal ions
           (usually manganese, iron, or zinc) coordinated with
           octahedral geometry by a cage of histidine, aspartate,
           and asparagine residues. The MPP superfamily includes:
           Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat
           debranching enzymes, YfcE-like phosphodiesterases,
           purple acid phosphatases (PAPs), YbbF-like
           UDP-2,3-diacylglucosamine hydrolases, and acid
           sphingomyelinases (ASMases).  The conserved domain is a
           double beta-sheet sandwich with a di-metal active site
           made up of residues located at the C-terminal side of
           the sheets.  This domain is thought to allow for
           productive metal coordination.
          Length = 222

 Score = 24.9 bits (55), Expect = 7.4
 Identities = 13/42 (30%), Positives = 18/42 (42%), Gaps = 4/42 (9%)

Query: 47  REVFAQWMEIFRQVAERPVPEHTLTLDED--ERAD--TPWWK 84
           R V A W E   +  E  +PE    +D+D   R +    WW 
Sbjct: 136 RVVHACWDETLLKGPEIALPEGHSFVDKDGIVRDNIRVKWWG 177


>gnl|CDD|218421 pfam05086, Dicty_REP, Dictyostelium (Slime Mold) REP protein.
          This family consists of REP proteins from Dictyostelium
          (Slime molds). REP protein is likely involved in
          transcription regulation and control of DNA
          replication, specifically amplification of plasmid at
          low copy numbers. The formation of homomultimers may be
          required for their regulatory activity.
          Length = 910

 Score = 25.2 bits (55), Expect = 7.5
 Identities = 10/27 (37%), Positives = 17/27 (62%), Gaps = 1/27 (3%)

Query: 24 RVQRAFDYDLIITEVYTVHWVISREVF 50
          RVQ + D + I+   Y+ H ++ +EVF
Sbjct: 25 RVQTSKDNE-IMPYSYSPHTLVLKEVF 50


  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
   0.330    0.139    0.448 

Gapped
Lambda     K      H
   0.267   0.0808    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,272,402
Number of extensions: 453815
Number of successful extensions: 559
Number of sequences better than 10.0: 1
Number of HSP's gapped: 559
Number of HSP's successfully gapped: 23
Length of query: 99
Length of database: 10,937,602
Length adjustment: 65
Effective length of query: 34
Effective length of database: 8,054,592
Effective search space: 273856128
Effective search space used: 273856128
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 53 (24.0 bits)