RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy7982
         (72 letters)



>gnl|CDD|235600 PRK05771, PRK05771, V-type ATP synthase subunit I; Validated.
          Length = 646

 Score = 28.4 bits (64), Expect = 0.28
 Identities = 9/31 (29%), Positives = 16/31 (51%)

Query: 36  YLEEYAELTSKLHELEAREAKLIEERECVKK 66
             +E  EL  ++ ELE    +L +E E ++ 
Sbjct: 98  IEKEIKELEEEISELENEIKELEQEIERLEP 128


>gnl|CDD|165828 PLN02183, PLN02183, ferulate 5-hydroxylase.
          Length = 516

 Score = 26.0 bits (57), Expect = 1.8
 Identities = 10/20 (50%), Positives = 17/20 (85%)

Query: 3   DELDNIQSVICLTRENIEAL 22
           +E D++Q+ I LTR+NI+A+
Sbjct: 289 NESDDLQNSIKLTRDNIKAI 308


>gnl|CDD|219890 pfam08537, NBP1, Fungal Nap binding protein NBP1.  NBP1 is a
           nuclear protein which has been shown in Saccharomyces
           cerevisiae to be essential for the G2/M transition of
           the cell cycle.
          Length = 313

 Score = 25.6 bits (56), Expect = 2.6
 Identities = 13/57 (22%), Positives = 27/57 (47%)

Query: 5   LDNIQSVICLTRENIEALNSKFAAYQEPPSIYLEEYAELTSKLHELEAREAKLIEER 61
            +NI+SV      ++  + +    Y+ P S   EE  +   ++   EA + K++E +
Sbjct: 81  WNNIKSVFSNDNRDLSKMQNASINYRLPNSPADEEQEDAKDRILRSEAFKKKVLELK 137



 Score = 24.1 bits (52), Expect = 7.3
 Identities = 11/35 (31%), Positives = 20/35 (57%)

Query: 33  PSIYLEEYAELTSKLHELEAREAKLIEERECVKKS 67
           PS+ L+    L  K+ +LE + A+L +E +  +K 
Sbjct: 161 PSLNLDRVILLQKKIDKLEEKLAELEQELQSTQKK 195


>gnl|CDD|179589 PRK03525, PRK03525, crotonobetainyl-CoA:carnitine CoA-transferase;
           Provisional.
          Length = 405

 Score = 25.5 bits (56), Expect = 2.8
 Identities = 8/24 (33%), Positives = 12/24 (50%)

Query: 38  EEYAELTSKLHELEAREAKLIEER 61
            E  E T  +H +E     L+EE+
Sbjct: 272 PEIPEGTQLIHRIECPYGPLVEEK 295


>gnl|CDD|218661 pfam05622, HOOK, HOOK protein.  This family consists of several
           HOOK1, 2 and 3 proteins from different eukaryotic
           organisms. The different members of the human gene
           family are HOOK1, HOOK2 and HOOK3. Different domains
           have been identified in the three human HOOK proteins,
           and it was demonstrated that the highly conserved
           NH2-domain mediates attachment to microtubules, whereas
           the central coiled-coil motif mediates homodimerisation
           and the more divergent C-terminal domains are involved
           in binding to specific organelles (organelle-binding
           domains). It has been demonstrated that endogenous HOOK3
           binds to Golgi membranes, whereas both HOOK1 and HOOK2
           are localised to discrete but unidentified cellular
           structures. In mice the Hook1 gene is predominantly
           expressed in the testis. Hook1 function is necessary for
           the correct positioning of microtubular structures
           within the haploid germ cell. Disruption of Hook1
           function in mice causes abnormal sperm head shape and
           fragile attachment of the flagellum to the sperm head.
          Length = 713

 Score = 24.8 bits (54), Expect = 4.7
 Identities = 17/66 (25%), Positives = 30/66 (45%)

Query: 4   ELDNIQSVICLTRENIEALNSKFAAYQEPPSIYLEEYAELTSKLHELEAREAKLIEEREC 63
           EL + +     +RE+   L+ +     E      EE  EL  + HEL+ +   L EE+  
Sbjct: 152 ELMSKEQGSSPSRESAGNLDQQLKKALEDLKEAQEEKDELAQRCHELDKQVLLLQEEKNS 211

Query: 64  VKKSNR 69
           +++ N 
Sbjct: 212 LQQENE 217


>gnl|CDD|233685 TIGR02013, rpoB, DNA-directed RNA polymerase, beta subunit.  This
           model describes orthologs of the beta subunit of
           Bacterial RNA polymerase. The core enzyme consists of
           two alpha chains, one beta chain, and one beta' subunit
           [Transcription, DNA-dependent RNA polymerase].
          Length = 1065

 Score = 24.6 bits (54), Expect = 5.2
 Identities = 12/28 (42%), Positives = 16/28 (57%), Gaps = 8/28 (28%)

Query: 34  SIYLEEYAELTSKLHELEAREAKLIEER 61
           SI++EEY        E+EAR+ KL  E 
Sbjct: 707 SIHIEEY--------EVEARDTKLGPEE 726


>gnl|CDD|234749 PRK00405, rpoB, DNA-directed RNA polymerase subunit beta; Reviewed.
          Length = 1112

 Score = 24.7 bits (55), Expect = 5.5
 Identities = 12/27 (44%), Positives = 16/27 (59%), Gaps = 8/27 (29%)

Query: 34  SIYLEEYAELTSKLHELEAREAKLIEE 60
           SI++EEY        E+EAR+ KL  E
Sbjct: 749 SIHIEEY--------EIEARDTKLGPE 767


>gnl|CDD|227396 COG5064, SRP1, Karyopherin (importin) alpha [Intracellular
           trafficking and secretion].
          Length = 526

 Score = 24.5 bits (53), Expect = 5.5
 Identities = 15/46 (32%), Positives = 20/46 (43%), Gaps = 5/46 (10%)

Query: 6   DNIQSVICLTRENIEALNSKFAAY-----QEPPSIYLEEYAELTSK 46
           +NI+   C T  NI A N++           PP I+L   AE   K
Sbjct: 341 ENIRKEACWTISNITAGNTEQIQAVIDANLIPPLIHLLSSAEYKIK 386


>gnl|CDD|219342 pfam07227, DUF1423, Protein of unknown function (DUF1423).  This
           family represents a conserved region approximately 500
           residues long within a number of Arabidopsis thaliana
           proteins of unknown function.
          Length = 446

 Score = 24.3 bits (53), Expect = 6.0
 Identities = 13/35 (37%), Positives = 17/35 (48%), Gaps = 2/35 (5%)

Query: 38  EEYAELTSKLH--ELEAREAKLIEERECVKKSNRR 70
           EEYA    KL   E E     L EE +  ++S+R 
Sbjct: 396 EEYASKYLKLRLSEAEEERQYLFEELKLQEESHRD 430


>gnl|CDD|234354 TIGR03789, pdsO, proteobacterial sortase system OmpA family
           protein.  A newly defined histidine kinase (TIGR03785)
           and response regulator (TIGR03787) gene pair occurs
           exclusively in Proteobacteria, mostly of marine origin,
           nearly all of which contain a subfamily 6 sortase
           (TIGR03784) and its single dedicated target protein
           (TIGR03788) adjacent to to the sortase. This protein
           family shows up in only in those species with the
           histidine kinase/response regulator gene pair, and often
           adjacent to that pair. It belongs to the OmpA protein
           family (pfam00691). Its function is unknown. We assign
           the gene symbol pdsO, for Proteobacterial Dedicated
           Sortase system OmpA family protein.
          Length = 239

 Score = 24.4 bits (53), Expect = 7.2
 Identities = 15/55 (27%), Positives = 24/55 (43%), Gaps = 4/55 (7%)

Query: 6   DNIQSVICLTRENIEALNSKFAAYQEPPSIYLEEYAELTSKLHELEAREAKLIEE 60
           D  Q  I   R+ + AL  K  A ++       EY +    L  L+  + +L+EE
Sbjct: 80  DEQQQHIAQQRQQMVALTQKQQALEQ----LEAEYQQAQVHLETLQQDQQQLLEE 130


  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
   0.313    0.129    0.351 

Gapped
Lambda     K      H
   0.267   0.0760    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,559,277
Number of extensions: 268374
Number of successful extensions: 499
Number of sequences better than 10.0: 1
Number of HSP's gapped: 492
Number of HSP's successfully gapped: 72
Length of query: 72
Length of database: 10,937,602
Length adjustment: 42
Effective length of query: 30
Effective length of database: 9,074,734
Effective search space: 272242020
Effective search space used: 272242020
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (24.1 bits)