BLASTP 2.2.18 [Mar-02-2008]


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.

Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= 0078.0012.p
         (440 letters)

Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF 
           2,715,099 sequences; 757,237,578 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

ref|ZP_00060195.1| hypothetical protein [Clostridium thermocellu...    85   4e-15
ref|NP_349975.1| Hypothetical protein [Clostridium acetobutylicu...    64   5e-09

>ref|ZP_00060195.1| hypothetical protein [Clostridium thermocellum ATCC 27405]
          Length = 480

 Score = 84.7 bits (208), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 70/288 (24%), Positives = 136/288 (47%), Gaps = 19/288 (6%)

Query: 160 YRLNNDLVRQLSREELLDLFDFVDIMANTQLPSVQGYLLRDSLKKEL-VRQDEEKQAIEP 218
           Y +  D+++ L   EL +LF  V +  N   P V GY    +LK  +   ++  +     
Sbjct: 198 YSITPDILKTLDDNELRELFVAVGLFKNIIFPVVAGYFCEQTLKDYMYFERNISENNNHC 257

Query: 219 FLYKYHYYSRILDEAHLSVLLSAIRGRRKVQFLYFSPKASTSYASQN----TNPLFERES 274
           F Y+  ++  +++E  L  +L A+    K++ +Y  P  +   +S+      N   +R+ 
Sbjct: 258 FSYRNVHFHPVIEEQVLWEILKAMHEEHKIKIIYHLPHKNQEKSSKTQGYAANGDCKRQC 317

Query: 275 SGRTETALPLKIVYDHQYGRWYLLTHSKHQGIRKYRLEGMMQIEAGETVAEELFLAEKSA 334
           S   +T  P KI YD +YGR+YL++    +     RL+   +IE+ E + +     +   
Sbjct: 318 S---KTLAPYKIRYDVRYGRFYLVSFDGSKNCIVSRLD---RIESVEILEDTFRRKDYDE 371

Query: 335 L-EQKISTSW----LIDTGRPVTVRAKFLNPQRRDSARNFVKERVLLQGQWGTITEEALH 389
           L ++++  SW    L     P  V+ + +  +       ++ E++L +   GT+ +    
Sbjct: 372 LYDKQMRYSWSSMPLKQRKEPEKVKLEVIIDE---ETEGYIIEKILNESPNGTVEKIEDG 428

Query: 390 FFIYEITVNGTTEIKPWLRSFGSSCEVLAPRQLREELVAEWKEILDYY 437
            +   I VN + E+ PW+R +     VL  ++L E++ ++WKE+L  Y
Sbjct: 429 RYHVTIEVNDSGELIPWIRGYAGYVRVLESKELAEKIFSDWKEMLSSY 476


>ref|NP_349975.1| Hypothetical protein [Clostridium acetobutylicum]
 pir||H97315 hypothetical protein CAC3385 [imported] - Clostridium
           acetobutylicum
 gb|AAK81315.1| Hypothetical protein [Clostridium acetobutylicum]
          Length = 413

 Score = 64.3 bits (155), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 77/341 (22%), Positives = 148/341 (43%), Gaps = 44/341 (12%)

Query: 76  SADPLLLFLFQAKSLKETESLRISRILAALNDSQELSMRDLLDICCSGLDLDSAFPDEKT 135
           S +PL   +++AKS  + + +    +L  LN+  +LS++ L D     ++  + F + +T
Sbjct: 76  SHNPLYS-VWKAKSFTDNDIMLHFYLLDLLNNRDKLSIKQLTDEI--SINYGTIF-ELQT 131

Query: 136 IRGDLKYLEEVGAIVKGAGPRPYRYRLNNDLVRQL--SREELLDLFDFVDIMANTQLPSV 193
           +R       + G ++     +   Y LNN     L  S   LLD   +    A      +
Sbjct: 132 VRNKANEYVKEGILISTKLGKTLYYSLNNSYFNDLTSSNNSLLDCLKYYQETA--PFGVI 189

Query: 194 QGYLLRDSLKKELVRQDEEKQAIEPFLYKYHYYSRILDEAHLSVLLSAIRGRRKVQFLYF 253
             Y+L++  KK            + F +K+H+ +  L++  L  +LSAI+ +R++ F+  
Sbjct: 190 GSYILQNENKKN-----------DIFRFKHHFIAHTLEDKILFEILSAIKEKREISFIVE 238

Query: 254 SPKASTSYASQNTNPLFERESSGRTETALPLKIVYDHQYGRWYL-LTHSKHQGIRKYRLE 312
           SPK          NP      +      +PLKI    Q GR YL + ++K      +RL+
Sbjct: 239 SPK----------NP------NKAVILGIPLKIFVSTQTGRRYLNIYNAKRNRFVNHRLD 282

Query: 313 GMMQIEAGETVAEELFLAEKSALEQKISTSWLIDTG---RPVTVRAKFLNPQRRDSARNF 369
            +  ++  +      FL E   L+  +   W +  G   R    +A     ++ ++   +
Sbjct: 283 YIKSVKLLDKCNNYDFLKEN--LKNNLDKCWGVSFGNNSRKKVFKATLYINEKTET---Y 337

Query: 370 VKERVLLQGQWGTITEEALHFFIYEITVNGTTEIKPWLRSF 410
           +  R+  +G+ GT+     + ++Y   V    E+  W++SF
Sbjct: 338 IINRINKEGRDGTLKRLKKNTYLYSKEVFDPNELMSWIKSF 378


  Database: All non-redundant GenBank CDS
  translations+PDB+SwissProt+PIR+PRF
    Posted date:  Mar 24, 2004  1:53 AM
  Number of letters in database: 757,237,578
  Number of sequences in database:  2,715,099
  
Lambda     K      H
   0.319    0.135    0.386 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 2715099
Number of Hits to DB: 616,246,982
Number of extensions: 24384969
Number of successful extensions: 61076
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 61072
Number of HSP's successfully gapped: 2
Length of query: 440
Length of database: 757,237,578
Length adjustment: 129
Effective length of query: 311
Effective length of database: 406,989,807
Effective search space: 126573829977
Effective search space used: 126573829977
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 127 (53.5 bits)