BLASTP 2.2.2 [Dec-14-2001]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Query= TM0096b.3
         (223 letters)

Database: nr 
           2,540,612 sequences; 863,360,394 total letters

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

                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

ref|ZP_00288986.1| COG2006: Uncharacterized conserved protein [M...    36  0.70
emb|CAA98887.1| DOA4 [Saccharomyces cerevisiae] gi|798920|emb|CA...    34  3.5
emb|CAA58985.1| deubiquinating enzyme [Saccharomyces cerevisiae]       34  3.5
gb|AAA35105.1| putative gi|738773|prf||2001427A deubiquitinating...    33  5.9
ref|ZP_00162378.1| hypothetical protein Avar03000209 [Anabaena v...    33  5.9
ref|ZP_00528476.1| Alkylhydroperoxidase AhpD core [Chlorobium ph...    33  7.7

>ref|ZP_00288986.1| COG2006: Uncharacterized conserved protein [Magnetococcus sp. MC-1]
          Length = 332

 Score = 36.2 bits (82), Expect = 0.70
 Identities = 32/119 (26%), Positives = 53/119 (43%), Gaps = 15/119 (12%)

Query: 12  PILEVLVRMARVVSL-VVVDDVVYHLQLLSGNTNGLSIQTRGMLSPHIHHRMQDVGALVE 70
           P+LEV+ R+ RV++L +V    + H  L   N  G+    R  L  +IH  + D+ A   
Sbjct: 191 PVLEVMHRVQRVINLPIVKHHSLSHCTLSMKNHYGVIGGRRNRLHQNIHTSIVDLAA--- 247

Query: 71  LDPGTPVPEVLALDSSLILPDALKFVSVMTKAIRDLIIAKQVGVVFDGTDEEAIESYAI 129
                      A+  +L + DA + +        +L    Q   +   TDE A++SYA+
Sbjct: 248 -----------AVKPTLTVMDATRVLMRNGPTGGNLADVSQQNTLLAATDEVALDSYAL 295


>emb|CAA98887.1| DOA4 [Saccharomyces cerevisiae] gi|798920|emb|CAA89098.1| Ubp4p
           [Saccharomyces cerevisiae] gi|577796|emb|CAA86791.1|
           ubiquitin carboxy terminal hydrolase 4 [Saccharomyces
           cerevisiae] gi|6320274|ref|NP_010354.1| Ubiquitin
           hydrolase, required for recycling ubiquitin from
           proteasome-bound ubiquitinated intermediates, acts at
           the late endosome/prevacuolar compartment to recover
           ubiquitin from ubiquitinated membrane proteins en route
           to the vacuole; Doa4p [Saccharomyces cerevisiae]
           gi|464993|sp|P32571|UBP4_YEAST Ubiquitin
           carboxyl-terminal hydrolase 4 (Ubiquitin thiolesterase
           4) (Ubiquitin-specific processing protease 4)
           (Deubiquitinating enzyme 4) (Vacuole biogenesis protein
           SSV7) gi|408457|gb|AAC48915.1| deubiquitinating enzyme
          Length = 926

 Score = 33.9 bits (76), Expect = 3.5
 Identities = 17/37 (45%), Positives = 23/37 (61%), Gaps = 4/37 (10%)

Query: 28  VVDDVVYHLQLLSGNTNGLSIQTRGMLSPHIHHRMQD 64
           + DD VY    ++GNT+GLS+Q    +SP I H M D
Sbjct: 338 IKDDSVY----INGNTSGLSLQHLPKMSPSIRHSMDD 370


>emb|CAA58985.1| deubiquinating enzyme [Saccharomyces cerevisiae]
          Length = 891

 Score = 33.9 bits (76), Expect = 3.5
 Identities = 17/37 (45%), Positives = 23/37 (61%), Gaps = 4/37 (10%)

Query: 28  VVDDVVYHLQLLSGNTNGLSIQTRGMLSPHIHHRMQD 64
           + DD VY    ++GNT+GLS+Q    +SP I H M D
Sbjct: 303 IKDDSVY----INGNTSGLSLQHLPKMSPSIRHSMDD 335


>gb|AAA35105.1| putative gi|738773|prf||2001427A deubiquitinating enzyme
          Length = 927

 Score = 33.1 bits (74), Expect = 5.9
 Identities = 17/37 (45%), Positives = 22/37 (58%), Gaps = 4/37 (10%)

Query: 28  VVDDVVYHLQLLSGNTNGLSIQTRGMLSPHIHHRMQD 64
           + DD VY     +GNT+GLS+Q    +SP I H M D
Sbjct: 338 IKDDSVY----FNGNTSGLSLQHLPKMSPSIRHSMDD 370


>ref|ZP_00162378.1| hypothetical protein Avar03000209 [Anabaena variabilis ATCC 29413]
          Length = 358

 Score = 33.1 bits (74), Expect = 5.9
 Identities = 25/83 (30%), Positives = 38/83 (45%), Gaps = 9/83 (10%)

Query: 42  NTNGLSIQTRGMLSPHIHHRMQDVGALVELDPGTPVPEVLALDSSLILPDALKFVSVMTK 101
           N N L + +R      IH      G  +ELDP T  PE +  ++  +L  AL   S +T 
Sbjct: 48  NINNLDLTSRNRRLVVIH------GLSLELDPDTSTPEEIKREAERMLAIALDTESAITA 101

Query: 102 AIRD---LIIAKQVGVVFDGTDE 121
            + +   L  +  V  +F+ TDE
Sbjct: 102 GVYEKMRLFASSLVDQLFEQTDE 124


>ref|ZP_00528476.1| Alkylhydroperoxidase AhpD core [Chlorobium phaeobacteroides DSM
           266] gi|67775654|gb|EAM35319.1| Alkylhydroperoxidase
           AhpD core [Chlorobium phaeobacteroides DSM 266]
          Length = 336

 Score = 32.7 bits (73), Expect = 7.7
 Identities = 25/105 (23%), Positives = 44/105 (41%), Gaps = 8/105 (7%)

Query: 36  LQLLSGNTNGLSIQTRGMLSPHIHHRMQDVGALVELDPGTPVPEVL--ALDSSLILPDAL 93
           L    G    +S++          HR +  G  ++L P  P+P+ L  A  S  +     
Sbjct: 170 LPFTDGIMKNISMRLAAFFFSSAIHRTKQPGTSLDLLPNEPLPDDLAWAKPSPFVSGALA 229

Query: 94  KFVSVMTKAIRDLIIAKQVGVV------FDGTDEEAIESYAIHLV 132
           +F + + KA   ++  K  G+V      +DG+D     S+  HL+
Sbjct: 230 RFSAAIEKAAETVLTEKTAGMVIDQLDRWDGSDPGISSSWCEHLL 274


  Database: nr
    Posted date:  Jul 5, 2005 12:34 AM
  Number of letters in database: 863,360,394
  Number of sequences in database:  2,540,612
  
Lambda     K      H
   0.324    0.142    0.420 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 384,074,581
Number of Sequences: 2540612
Number of extensions: 15903247
Number of successful extensions: 34881
Number of sequences better than 10.0: 6
Number of HSP's better than 10.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 34880
Number of HSP's gapped (non-prelim): 6
length of query: 223
length of database: 863,360,394
effective HSP length: 123
effective length of query: 100
effective length of database: 550,865,118
effective search space: 55086511800
effective search space used: 55086511800
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 73 (32.7 bits)