BLASTP 2.2.26 [Sep-21-2011]


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= 016003
         (397 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

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



>pdb|2YZI|A Chain A, Crystal Structure Of Uncharacterized Conserved Protein
           From Pyrococcus Horikoshii
 pdb|2YZI|B Chain B, Crystal Structure Of Uncharacterized Conserved Protein
           From Pyrococcus Horikoshii
          Length = 138

 Score = 35.8 bits (81), Expect = 0.044,   Method: Compositional matrix adjust.
 Identities = 18/52 (34%), Positives = 31/52 (59%), Gaps = 1/52 (1%)

Query: 344 IVCHPTSSLMAVMIQAIAHRVTYVWVIEDDCTLTGIVTFSDLLKVFRKHLET 395
           I  +  + L  V+ +   HR+ ++ +IE++  + GI T SDLL+  R+ LET
Sbjct: 83  ITANVNTPLGEVLRKXAEHRIKHI-LIEEEGKIVGIFTLSDLLEASRRRLET 133


>pdb|4GQV|A Chain A, Crystal Structure Of Cbs-pair Protein, Cbsx1 From
           Arabidopsis Thaliana
          Length = 166

 Score = 30.0 bits (66), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 15/50 (30%), Positives = 29/50 (58%)

Query: 337 MVRRAEAIVCHPTSSLMAVMIQAIAHRVTYVWVIEDDCTLTGIVTFSDLL 386
           M ++ +  V  PT+++   +   + +R+T   VI++D  L G+V+  DLL
Sbjct: 11  MTKKEDLHVVKPTTTVDEALELLVENRITGFPVIDEDWKLVGLVSDYDLL 60


>pdb|2NYC|A Chain A, Crystal Structure Of The Bateman2 Domain Of Yeast Snf4
          Length = 144

 Score = 30.0 bits (66), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 18/62 (29%), Positives = 30/62 (48%), Gaps = 4/62 (6%)

Query: 330 SMSYSARMVRRAE----AIVCHPTSSLMAVMIQAIAHRVTYVWVIEDDCTLTGIVTFSDL 385
           S+S    ++RR++       C     L  +M      RV   +V++D   L G++T SD+
Sbjct: 76  SLSVGEALMRRSDDFEGVYTCTKNDKLSTIMDNIRKARVHRFFVVDDVGRLVGVLTLSDI 135

Query: 386 LK 387
           LK
Sbjct: 136 LK 137


>pdb|4GQW|A Chain A, Crystal Structure Of Cbs-pair Protein, Cbsx1 (loop
           Deletion) From Arabidopsis Thaliana
          Length = 152

 Score = 30.0 bits (66), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 15/50 (30%), Positives = 29/50 (58%)

Query: 337 MVRRAEAIVCHPTSSLMAVMIQAIAHRVTYVWVIEDDCTLTGIVTFSDLL 386
           M ++ +  V  PT+++   +   + +R+T   VI++D  L G+V+  DLL
Sbjct: 11  MTKKEDLHVVKPTTTVDEALELLVENRITGFPVIDEDWKLVGLVSDYDLL 60


>pdb|3T4N|C Chain C, Structure Of The Regulatory Fragment Of Saccharomyces
           Cerevisiae Ampk In Complex With Adp
 pdb|3TDH|C Chain C, Structure Of The Regulatory Fragment Of Sccharomyces
           Cerevisiae Ampk In Complex With Amp
 pdb|3TE5|C Chain C, Structure Of The Regulatory Fragment Of Sacchromyces
           Cerevisiae Ampk In Complex With Nadh
          Length = 323

 Score = 29.6 bits (65), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 18/62 (29%), Positives = 30/62 (48%), Gaps = 4/62 (6%)

Query: 330 SMSYSARMVRRAE----AIVCHPTSSLMAVMIQAIAHRVTYVWVIEDDCTLTGIVTFSDL 385
           S+S    ++RR++       C     L  +M      RV   +V++D   L G++T SD+
Sbjct: 255 SLSVGEALMRRSDDFEGVYTCTKNDKLSTIMDNIRKARVHRFFVVDDVGRLVGVLTLSDI 314

Query: 386 LK 387
           LK
Sbjct: 315 LK 316


>pdb|2QLV|C Chain C, Crystal Structure Of The Heterotrimer Core Of The S.
           Cerevisiae Ampk Homolog Snf1
 pdb|2QLV|F Chain F, Crystal Structure Of The Heterotrimer Core Of The S.
           Cerevisiae Ampk Homolog Snf1
          Length = 315

 Score = 29.6 bits (65), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 18/62 (29%), Positives = 30/62 (48%), Gaps = 4/62 (6%)

Query: 330 SMSYSARMVRRAE----AIVCHPTSSLMAVMIQAIAHRVTYVWVIEDDCTLTGIVTFSDL 385
           S+S    ++RR++       C     L  +M      RV   +V++D   L G++T SD+
Sbjct: 248 SLSVGEALMRRSDDFEGVYTCTKNDKLSTIMDNIRKARVHRFFVVDDVGRLVGVLTLSDI 307

Query: 386 LK 387
           LK
Sbjct: 308 LK 309


  Database: pdbaa
    Posted date:  Mar 3, 2013 10:34 PM
  Number of letters in database: 14,973,337
  Number of sequences in database:  62,578
  
Lambda     K      H
   0.321    0.134    0.407 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,228,334
Number of Sequences: 62578
Number of extensions: 245071
Number of successful extensions: 609
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 595
Number of HSP's gapped (non-prelim): 18
length of query: 397
length of database: 14,973,337
effective HSP length: 101
effective length of query: 296
effective length of database: 8,652,959
effective search space: 2561275864
effective search space used: 2561275864
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.6 bits)