RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy17891
         (163 letters)



>gnl|CDD|214704 smart00512, Skp1, Found in Skp1 protein family.  Family of Skp1
           (kinetochore protein required for cell cycle
           progression) and elongin C (subunit of RNA polymerase II
           transcription factor SIII) homologues.
          Length = 104

 Score =  118 bits (299), Expect = 1e-35
 Identities = 42/105 (40%), Positives = 52/105 (49%), Gaps = 9/105 (8%)

Query: 67  AMYVKLISSDGHEFIVKREHALMSGTIKAMLSGPGQFAENETNEINFREIPSHVLQKVCM 126
           + Y+KLISSDG  F V+RE A  S TIKAM+   G   EN  N I    + S +L KV  
Sbjct: 1   SKYIKLISSDGEVFEVEREVARQSKTIKAMIEDLGVDDENN-NPIPLPNVTSKILSKVIE 59

Query: 127 YFTYKVRYTNS-------STEIPEFP-IAPAIALELLMAANFLDC 163
           Y  + V    S        T   EF  I      EL++AAN+LD 
Sbjct: 60  YCEHHVDDPPSVADKDDIPTWDAEFLKIDQETLFELILAANYLDI 104


>gnl|CDD|217800 pfam03931, Skp1_POZ, Skp1 family, tetramerisation domain. 
          Length = 61

 Score = 86.2 bits (214), Expect = 3e-23
 Identities = 24/66 (36%), Positives = 31/66 (46%), Gaps = 8/66 (12%)

Query: 68  MYVKLISSDGHEFIVKREHALMSGTIKAMLSGPGQFAENETNEINFREIPSHVLQKV--- 124
             +KL SSDG  F V+RE A  S TIKAM+   G       + I    + S +L KV   
Sbjct: 1   KLIKLTSSDGEIFEVEREVARQSKTIKAMIEDLGV-----DDPIPLPNVTSKILAKVIEW 55

Query: 125 CMYFTY 130
           C +   
Sbjct: 56  CKHHKV 61


>gnl|CDD|227528 COG5201, SKP1, SCF ubiquitin ligase, SKP1 component
           [Posttranslational modification, protein turnover,
           chaperones].
          Length = 158

 Score = 29.1 bits (65), Expect = 0.68
 Identities = 21/75 (28%), Positives = 31/75 (41%), Gaps = 15/75 (20%)

Query: 70  VKLISSDGHEFIVKREHALMSGTIKAMLSGPGQFAENETNEINFREI----PSHVLQKVC 125
           ++L S DG  F V    A  S  IK ML         ++   N+        S VL KV 
Sbjct: 4   IELESIDGEIFRVDENIAERSILIKNML--------CDSTACNYPIPAPNVRSSVLMKVQ 55

Query: 126 MYFTYKVRYTNSSTE 140
            +  +   +T+S +E
Sbjct: 56  EWMEH---HTSSLSE 67


>gnl|CDD|221903 pfam13030, DUF3891, Protein of unknown function (DUF3891).  This
           family of proteins is functionally uncharacterized. This
           family of proteins is found in bacteria and archaea.
           Proteins in this family are approximately 250 amino
           acids in length.
          Length = 221

 Score = 26.9 bits (60), Expect = 4.5
 Identities = 12/32 (37%), Positives = 18/32 (56%), Gaps = 1/32 (3%)

Query: 76  DGHEFIVKREHALMSGTIKAMLSGPGQFAENE 107
           +G E I + +HAL++G + A   G   FA  E
Sbjct: 8   EGWEVITQPDHALLAGELAAQW-GNEAFARPE 38


>gnl|CDD|111090 pfam02158, Neuregulin, Neuregulin family. 
          Length = 406

 Score = 27.1 bits (59), Expect = 5.4
 Identities = 11/19 (57%), Positives = 15/19 (78%)

Query: 20  NSSEIEEEEDRIGESQPFL 38
           ++SE E E++RIGE  PFL
Sbjct: 347 SNSESETEDERIGEDTPFL 365


>gnl|CDD|237445 PRK13609, PRK13609, diacylglycerol glucosyltransferase;
          Provisional.
          Length = 380

 Score = 27.0 bits (60), Expect = 5.7
 Identities = 12/26 (46%), Positives = 16/26 (61%), Gaps = 1/26 (3%)

Query: 29 DRIGESQPFLEQTGRYFYLGTY-IGK 53
          D  GES P + +  +Y YL +Y IGK
Sbjct: 41 DLFGESHPVITEITKYLYLKSYTIGK 66


>gnl|CDD|236989 PRK11809, putA, trifunctional transcriptional regulator/proline
          dehydrogenase/pyrroline-5-carboxylate dehydrogenase;
          Reviewed.
          Length = 1318

 Score = 26.9 bits (60), Expect = 6.0
 Identities = 11/39 (28%), Positives = 15/39 (38%), Gaps = 3/39 (7%)

Query: 4  DRFNRGDKPTIYCEGLNSSEIEEEEDRIGE---SQPFLE 39
          ++   GD        L+ +  E EE         QPFLE
Sbjct: 42 EKLENGDTLPELPALLSGAANESEEADTPAEEPHQPFLE 80


>gnl|CDD|216500 pfam01432, Peptidase_M3, Peptidase family M3.  This is the Thimet
           oligopeptidase family, large family of mammalian and
           bacterial oligopeptidases that cleave medium sized
           peptides. The group also contains mitochondrial
           intermediate peptidase which is encoded by nuclear DNA
           but functions within the mitochondria to remove the
           leader sequence.
          Length = 450

 Score = 26.6 bits (59), Expect = 7.4
 Identities = 19/79 (24%), Positives = 30/79 (37%), Gaps = 10/79 (12%)

Query: 86  HALMSGTIKAMLSGPGQFAENETNEINFREIPSHVLQKVCMYFT---YKVRYTNSSTEIP 142
           H+L+S T  + +SG           I+F EIPS   +             R+  +   IP
Sbjct: 248 HSLLSRTEYSYVSGTNV-------PIDFAEIPSQFNENWLWEPLLLNLLSRHYETGEPIP 300

Query: 143 EFPIAPAIALELLMAANFL 161
              +   I  + + A  FL
Sbjct: 301 AELLEKLIKSKNVNAGLFL 319


>gnl|CDD|227575 COG5250, RPB4, RNA polymerase II, fourth largest subunit
           [Transcription].
          Length = 138

 Score = 25.7 bits (56), Expect = 8.5
 Identities = 18/74 (24%), Positives = 28/74 (37%), Gaps = 6/74 (8%)

Query: 66  NAMYVKLISSDGHEFIVKREHALMSGTIKAMLSGPGQFAENETNEINFREIPSHVLQKVC 125
           +A  +KL    G EF  + E  LM    + ++ G  +    ETN   FR     V +   
Sbjct: 9   DAAQLKL----GPEF--ENEDMLMLSEARYLIEGQLERRRRETNGAEFRSNDVKVFKSTL 62

Query: 126 MYFTYKVRYTNSST 139
            Y     R+ +   
Sbjct: 63  GYLDDFCRFKDKEV 76


>gnl|CDD|197984 smart00916, L51_S25_CI-B8, Mitochondrial ribosomal protein L51 /
          S25 / CI-B8 domain.  Proteins containing this domain
          are located in the mitochondrion and include ribosomal
          protein L51, and S25. This domain is also found in
          mitochondrial NADH-ubiquinone oxidoreductase B8 subunit
          (CI-B8) . It is not known whether all members of this
          family form part of the NADH-ubiquinone oxidoreductase
          and whether they are also all ribosomal proteins.
          Length = 70

 Score = 24.8 bits (55), Expect = 9.1
 Identities = 5/23 (21%), Positives = 11/23 (47%)

Query: 5  RFNRGDKPTIYCEGLNSSEIEEE 27
           +  G +  I    L++ EI ++
Sbjct: 41 EYENGREKEISLRNLSAEEILKK 63


>gnl|CDD|237899 PRK15070, PRK15070, propanediol utilization phosphotransacylase;
           Provisional.
          Length = 211

 Score = 25.9 bits (58), Expect = 9.6
 Identities = 10/17 (58%), Positives = 11/17 (64%)

Query: 92  TIKAMLSGPGQFAENET 108
           T K  LS PGQ+A  ET
Sbjct: 52  TPKKDLSQPGQYAAEET 68


>gnl|CDD|232784 TIGR00018, panC, pantoate--beta-alanine ligase.  This family is
           pantoate--beta-alanine ligase, the last enzyme of
           pantothenate biosynthesis [Biosynthesis of cofactors,
           prosthetic groups, and carriers, Pantothenate and
           coenzyme A].
          Length = 282

 Score = 25.9 bits (57), Expect = 9.8
 Identities = 10/32 (31%), Positives = 15/32 (46%)

Query: 76  DGHEFIVKREHALMSGTIKAMLSGPGQFAENE 107
           DGH  ++ R  A     + ++   P QF  NE
Sbjct: 35  DGHMSLIDRAVAENDVVVVSIFVNPMQFGPNE 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
   0.318    0.137    0.405 

Gapped
Lambda     K      H
   0.267   0.0824    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,283,119
Number of extensions: 733174
Number of successful extensions: 454
Number of sequences better than 10.0: 1
Number of HSP's gapped: 450
Number of HSP's successfully gapped: 18
Length of query: 163
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 74
Effective length of database: 6,990,096
Effective search space: 517267104
Effective search space used: 517267104
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (24.8 bits)