RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy17177
         (105 letters)



>gnl|CDD|217309 pfam02990, EMP70, Endomembrane protein 70. 
          Length = 518

 Score =  111 bits (279), Expect = 3e-30
 Identities = 46/105 (43%), Positives = 63/105 (60%), Gaps = 20/105 (19%)

Query: 1   MVIFLVGLVSMILMRTLRKDYARYSKDEEVDDMIHWFSIFNSFMMVIFLERDLGDEYGWK 60
           +V+FL G+VSMILMRTLR+D ARY++ +E +D                      +E GWK
Sbjct: 206 IVLFLSGIVSMILMRTLRRDIARYNELDEDED--------------------AQEESGWK 245

Query: 61  QVHGDVFRPSPHPMLFSALIGTGYQITTVTLSVILFAIVGDLYTE 105
            VHGDVFRP  +PML SAL+G+G Q+  + +  I+FA +G L   
Sbjct: 246 LVHGDVFRPPRNPMLLSALVGSGVQLLLMVIGTIVFACLGFLSPS 290


>gnl|CDD|215027 PLN00010, PLN00010, cyclin-dependent kinases regulatory subunit;
          Provisional.
          Length = 86

 Score = 29.5 bits (66), Expect = 0.12
 Identities = 12/28 (42%), Positives = 14/28 (50%), Gaps = 2/28 (7%)

Query: 58 GWKQVHGDVFRPSPHPMLFSALIGTGYQ 85
          GW  VH  + RP PH MLF   +    Q
Sbjct: 51 GW--VHYAIHRPEPHIMLFRRPLNYQQQ 76


>gnl|CDD|235295 PRK04405, prsA, peptidylprolyl isomerase; Provisional.
          Length = 298

 Score = 27.8 bits (62), Expect = 0.92
 Identities = 9/25 (36%), Positives = 14/25 (56%)

Query: 8  LVSMILMRTLRKDYARYSKDEEVDD 32
          L +MI+ R L K Y +    ++VD 
Sbjct: 58 LANMIIYRALEKQYGKKVSTKKVDK 82


>gnl|CDD|187861 cd09730, Cas8a1_I-A, CRISPR/Cas system-associated protein Cas8a1.
           CRISPR (Clustered Regularly Interspaced Short
           Palindromic Repeats) and associated Cas proteins
           comprise a system for heritable host defense by
           prokaryotic cells against phage and other foreign DNA;
           Large proteins, some contain Zn-finger domain; signature
           gene for I-A subtype; also known as TM1802 family.
          Length = 579

 Score = 26.9 bits (60), Expect = 2.2
 Identities = 11/39 (28%), Positives = 21/39 (53%), Gaps = 6/39 (15%)

Query: 13  LMRTLRKDYARYSKDEEVDDMIHWFSIFNSFMMVIFLER 51
            M  +RKD+ +   +E        F++  +FM++ FLE+
Sbjct: 413 FMSKIRKDFFKKEGEEI------RFNVLQAFMLINFLEK 445


>gnl|CDD|220261 pfam09484, Cas_TM1802, CRISPR-associated protein TM1802
           (cas_TM1802).  Clusters of short DNA repeats with
           non-homologous spacers, which are found at regular
           intervals in the genomes of phylogenetically distinct
           prokaryotic species, comprise a family with recognisable
           features. This family is known as CRISPR (short for
           Clustered, Regularly Interspaced Short Palindromic
           Repeats). A number of protein families appear only in
           association with these repeats and are designated Cas
           (CRISPR-Associated) proteins. This minor cas protein is
           found in at least five prokaryotic genomes:
           Methanosarcina mazei, Sulfurihydrogenibium azorense,
           Thermotoga maritima, Carboxydothermus hydrogenoformans,
           and Dictyoglomus thermophilum, the first of which is
           archaeal while the rest are bacterial.
          Length = 584

 Score = 26.9 bits (60), Expect = 2.4
 Identities = 10/38 (26%), Positives = 22/38 (57%), Gaps = 6/38 (15%)

Query: 14  MRTLRKDYARYSKDEEVDDMIHWFSIFNSFMMVIFLER 51
           M+ +RKD+ +  +  E+      F++  + M++ FLE+
Sbjct: 418 MKKIRKDFFKQ-EGREI-----RFNVLQANMLINFLEK 449


>gnl|CDD|214818 smart00784, SPT2, SPT2 chromatin protein.  This entry includes
          the Saccharomyces cerevisiae protein SPT2 which is a
          chromatin protein involved in transcriptional
          regulation.
          Length = 106

 Score = 25.4 bits (56), Expect = 4.5
 Identities = 8/16 (50%), Positives = 10/16 (62%)

Query: 18 RKDYARYSKDEEVDDM 33
          RK YA    D++ DDM
Sbjct: 49 RKRYAYRDDDDDDDDM 64


>gnl|CDD|216652 pfam01698, FLO_LFY, Floricaula / Leafy protein.  This family
           consists of various plant development proteins which are
           homologues of floricaula (FLO) and Leafy (LFY) proteins
           which are floral meristem identity proteins. Mutations
           in the sequences of these proteins affect flower and
           leaf development.
          Length = 382

 Score = 25.7 bits (57), Expect = 4.8
 Identities = 13/35 (37%), Positives = 19/35 (54%), Gaps = 6/35 (17%)

Query: 26  KDEEVDDMIHWFSIFNSFMMVIFLERDLGDEYGWK 60
           KDEE+DDM+      NS   +   +  +G+ YG K
Sbjct: 80  KDEELDDMM------NSLSHIFRWDLLVGERYGIK 108


>gnl|CDD|117626 pfam09061, Stirrup, Stirrup.  The Stirrup domain, found in the
          prokaryotic protein ribonucleotide reductase, has a
          molecular mass of 9 kDa and is folded into an
          alpha/beta structure. It allows for binding of the
          reductase to DNA via electrostatic interactions, since
          it has a predominance of positive charges distributed
          on its surface.
          Length = 79

 Score = 24.9 bits (54), Expect = 4.9
 Identities = 12/24 (50%), Positives = 17/24 (70%), Gaps = 1/24 (4%)

Query: 12 ILMRTLRKDYARYSKDEEVDDMIH 35
          +L++ LRK Y   +KDEEV  M+H
Sbjct: 54 VLVKMLRKLY-EATKDEEVKRMLH 76


>gnl|CDD|237653 PRK14276, PRK14276, chaperone protein DnaJ; Provisional.
          Length = 380

 Score = 25.8 bits (57), Expect = 5.1
 Identities = 9/19 (47%), Positives = 11/19 (57%)

Query: 48  FLERDLGDEYGWKQVHGDV 66
           F++  LGD      VHGDV
Sbjct: 280 FVQAALGDTVEVPTVHGDV 298


>gnl|CDD|144631 pfam01111, CKS, Cyclin-dependent kinase regulatory subunit. 
          Length = 70

 Score = 24.1 bits (53), Expect = 8.1
 Identities = 10/19 (52%), Positives = 11/19 (57%), Gaps = 2/19 (10%)

Query: 58 GWKQVHGDVFRPSPHPMLF 76
          GW  VH  V  P PH +LF
Sbjct: 49 GW--VHYMVHEPEPHILLF 65


>gnl|CDD|118672 pfam10144, SMP_2, Bacterial virulence factor haemolysin.  Members
           of this family of bacterial proteins are membrane
           proteins that effect the expression of haemolysin under
           anaerobic conditions.
          Length = 210

 Score = 24.8 bits (54), Expect = 9.8
 Identities = 6/23 (26%), Positives = 13/23 (56%), Gaps = 1/23 (4%)

Query: 1   MVIFLVGLVSMILMRTLRKDYAR 23
           +++ +   + M+L RTL +   R
Sbjct: 167 LMLLIALAIGMLLARTLLQ-KRR 188


  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    0.144    0.442 

Gapped
Lambda     K      H
   0.267   0.0696    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,696,485
Number of extensions: 509015
Number of successful extensions: 699
Number of sequences better than 10.0: 1
Number of HSP's gapped: 697
Number of HSP's successfully gapped: 40
Length of query: 105
Length of database: 10,937,602
Length adjustment: 70
Effective length of query: 35
Effective length of database: 7,832,822
Effective search space: 274148770
Effective search space used: 274148770
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 (21.8 bits)
S2: 53 (24.3 bits)