RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy8908
         (137 letters)



>gnl|CDD|163611 pfam10046, BLOC1_2, Biogenesis of lysosome-related organelles
           complex-1 subunit 2.  Members of this family of proteins
           play a role in cellular proliferation, as well as in the
           biogenesis of specialized organelles of the
           endosomal-lysosomal system.
          Length = 99

 Score = 77.7 bits (192), Expect = 8e-20
 Identities = 41/99 (41%), Positives = 55/99 (55%), Gaps = 1/99 (1%)

Query: 37  ATNMFKKTADYLIGELSSTQADYEVLEKMNNATITKYSDMKQITVNI-SFSSARVPAYKQ 95
           A  MF K + Y+  EL  +  D ++LEKMN  T  KY  M+Q    +     A    Y++
Sbjct: 1   AEKMFNKISKYVEAELEISVEDLKLLEKMNENTALKYKKMRQSAKGLRVEIEALNQKYEE 60

Query: 96  LIPQLEQIDQIYDSVLKLEQAAYKLDHYAKRLEAKFKQL 134
           L P L+QID I   V  LE+A Y+LD Y+K LE+K K L
Sbjct: 61  LKPYLQQIDAIEQQVTTLEEAVYELDEYSKELESKVKSL 99


>gnl|CDD|223571 COG0497, RecN, ATPase involved in DNA repair [DNA replication,
           recombination, and repair].
          Length = 557

 Score = 27.9 bits (63), Expect = 1.8
 Identities = 30/154 (19%), Positives = 59/154 (38%), Gaps = 30/154 (19%)

Query: 4   NVENSLSNKMTSLSTSTSSFEPMISHDPRLNELATNMFKKTADYLIGE--------LSST 55
           + E+   + ++ L  +  + E +  +D +L+ELA     + A Y + E        L   
Sbjct: 235 SGEDDTVSALSLLGRALEALEDLSEYDGKLSELAE--LLEEALYELEEASEELRAYLDEL 292

Query: 56  QADYEVLEKMNNATITKYSDMKQITVNISFSSARVPAY-KQLIPQLEQIDQIYDSVLKLE 114
           + D   LE++      +   +K +      +   +  Y  ++  +L Q+D   +S+  LE
Sbjct: 293 EFDPNRLEEVE----ERLFALKSLARKYGVTIEDLLEYLDKIKEELAQLDNSEESLEALE 348

Query: 115 -----------QAAYKLD----HYAKRLEAKFKQ 133
                      +AA  L       AK LE +   
Sbjct: 349 KEVKKLKAELLEAAEALSAIRKKAAKELEKEVTA 382


>gnl|CDD|220441 pfam09849, DUF2076, Uncharacterized protein conserved in bacteria
           (DUF2076).  This domain, found in various hypothetical
           prokaryotic proteins, has no known function. The domain,
           however, is found in various periplasmic ligand-binding
           sensor proteins.
          Length = 234

 Score = 27.7 bits (62), Expect = 2.0
 Identities = 8/30 (26%), Positives = 14/30 (46%)

Query: 108 DSVLKLEQAAYKLDHYAKRLEAKFKQLEKQ 137
           D+   L Q     +   K+  A+ ++LE Q
Sbjct: 41  DAPYYLVQTILVQEAALKQANARIEELEAQ 70


>gnl|CDD|215130 PLN02217, PLN02217, probable pectinesterase/pectinesterase
           inhibitor.
          Length = 670

 Score = 26.6 bits (58), Expect = 5.1
 Identities = 18/55 (32%), Positives = 28/55 (50%), Gaps = 3/55 (5%)

Query: 3   ENVENSLSNKMTSLSTSTSSFEPMI--SHDPRLNELATNMFKKTADYLIGELSST 55
           E V+ + +  M  +S      + MI    DPR  ++A +  K+  DY IGELS +
Sbjct: 85  ELVKTAFNATMKQISDVAKKSQTMIELQKDPR-TKMALDQCKELMDYAIGELSKS 138


>gnl|CDD|216531 pfam01496, V_ATPase_I, V-type ATPase 116kDa subunit family.  This
           family consists of the 116kDa V-type ATPase (vacuolar
           (H+)-ATPases) subunits, as well as V-type ATP synthase
           subunit i. The V-type ATPases family are proton pumps
           that acidify intracellular compartments in eukaryotic
           cells for example yeast central vacuoles,
           clathrin-coated and synaptic vesicles. They have
           important roles in membrane trafficking processes. The
           116kDa subunit (subunit a) in the V-type ATPase is part
           of the V0 functional domain responsible for proton
           transport. The a subunit is a transmembrane glycoprotein
           with multiple putative transmembrane helices it has a
           hydrophilic amino terminal and a hydrophobic carboxy
           terminal. It has roles in proton transport and assembly
           of the V-type ATPase complex. This subunit is encoded by
           two homologous gene in yeast VPH1 and STV1.
          Length = 707

 Score = 25.8 bits (57), Expect = 8.5
 Identities = 8/41 (19%), Positives = 21/41 (51%)

Query: 97  IPQLEQIDQIYDSVLKLEQAAYKLDHYAKRLEAKFKQLEKQ 137
           +P  ++   + + +L LE    +++   + LE +  +LE+ 
Sbjct: 63  VPPSKEFLDLEEEILDLEAEIKEVEENLESLEKEINELEEW 103


>gnl|CDD|215210 PLN02370, PLN02370, acyl-ACP thioesterase.
          Length = 419

 Score = 25.7 bits (56), Expect = 9.9
 Identities = 17/48 (35%), Positives = 28/48 (58%), Gaps = 4/48 (8%)

Query: 24  EP-MISHDPRLNELATNMFK---KTADYLIGELSSTQADYEVLEKMNN 67
           EP  ++ DP +NE +  + K   KTADY+   L+   +D +V + +NN
Sbjct: 274 EPYFLNSDPVVNEDSRKLPKLDDKTADYIRKGLTPRWSDLDVNQHVNN 321


  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
   0.310    0.123    0.319 

Gapped
Lambda     K      H
   0.267   0.0634    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,414,079
Number of extensions: 551253
Number of successful extensions: 564
Number of sequences better than 10.0: 1
Number of HSP's gapped: 559
Number of HSP's successfully gapped: 53
Length of query: 137
Length of database: 10,937,602
Length adjustment: 87
Effective length of query: 50
Effective length of database: 7,078,804
Effective search space: 353940200
Effective search space used: 353940200
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 (21.8 bits)
S2: 54 (24.8 bits)