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= 023990
         (274 letters)

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

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



>pdb|1U02|A Chain A, Crystal Structure Of Trehalose-6-Phosphate Phosphatase
           Related Protein
          Length = 239

 Score = 65.9 bits (159), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 53/208 (25%), Positives = 91/208 (43%), Gaps = 24/208 (11%)

Query: 15  VMFLDYDGTLSPIVENPDRAFMSGKMRRAVRQLAKYFPTAIVTGRCRDKVYDFVKLAELY 74
           ++FLDYDGTL PI+ NP+ ++    +   +  L + F T IVTGR  +++  F+ L ++ 
Sbjct: 3   LIFLDYDGTLVPIIXNPEESYADAGLLSLISDLKERFDTYIVTGRSPEEISRFLPL-DIN 61

Query: 75  YAGSHGMDIKGPTKGLKYNQKSKVVNFQPASEFLPLIDKVYKVLVEKTKSTPGARVENNK 134
               HG   K            ++V    +  FL + D++Y+         PG R+    
Sbjct: 62  XICYHGACSK---------INGQIVYNNGSDRFLGVFDRIYEDTRSWVSDFPGLRIYRKN 112

Query: 135 FCISVHFRCVDEKKWNDLAQKVKEVVNEYPQLNWRQGRMVMEIR-PKIEWDKGKALEFLL 193
             +  H           L  +++E+   +    +  G+ ++E+R P +  +KG A+    
Sbjct: 113 LAVLYHLGLXGADXKPKLRSRIEEIARIFGVETY-YGKXIIELRVPGV--NKGSAIR--- 166

Query: 194 ECLGFADCSNVFPVYI-GDDTTDEDAFK 220
                       P  I GDD TDE AF+
Sbjct: 167 ------SVRGERPAIIAGDDATDEAAFE 188


>pdb|1WR8|A Chain A, Crystal Structure Of Hypothetical Protein Ph1421 From
           Pyrococcus Horikoshii.
 pdb|1WR8|B Chain B, Crystal Structure Of Hypothetical Protein Ph1421 From
           Pyrococcus Horikoshii
          Length = 231

 Score = 36.2 bits (82), Expect = 0.018,   Method: Compositional matrix adjust.
 Identities = 55/234 (23%), Positives = 94/234 (40%), Gaps = 41/234 (17%)

Query: 18  LDYDGTLSPIVENPDRAFMSGKMRRAVRQLAKYFPTAIVTGRCRDKVYDFVKLAELYYAG 77
           +D DGT++     P+R      +    R  +   P  +VTG         V+ AE   A 
Sbjct: 8   IDIDGTIT----YPNRMIHEKALEAIRRAESLGIPIMLVTGNT-------VQFAE---AA 53

Query: 78  SHGMDIKGPTKGLKYNQKSKVVNFQPASEFLPLIDKVYKVLVEKTKSTPGARVE----NN 133
           S  +   GP       +    ++++    FL  +D+ + +  E  K  P AR      + 
Sbjct: 54  SILIGTSGPVVA----EDGGAISYKKKRIFLASMDEEWILWNEIRKRFPNARTSYTMPDR 109

Query: 134 KFCISVHFRCVDEKKWNDLAQKVKEVVNEYPQLNWRQGRMVMEIRPKIEW-DKGKALEFL 192
           +  + +    ++        + V+E++NE   LN         I  K  W +KG  +E  
Sbjct: 110 RAGLVIMRETIN-------VETVREIINEL-NLNLVAVDSGFAIHVKKPWINKGSGIEKA 161

Query: 193 LECLGFADCSNVFPVYIGDDTTDEDAFKILRKREQGFGILVSKFPK--KTSASY 244
            E LG          ++GD   D DAFK++     G+ + V++ PK  K +A Y
Sbjct: 162 SEFLGIKPKE---VAHVGDGENDLDAFKVV-----GYKVAVAQAPKILKENADY 207


>pdb|3O5A|A Chain A, Crystal Structure Of Partially Reduced Periplasmic Nitrate
           Reductase From Cupriavidus Necator Using Ionic Liquids
          Length = 802

 Score = 28.5 bits (62), Expect = 3.8,   Method: Compositional matrix adjust.
 Identities = 18/59 (30%), Positives = 27/59 (45%), Gaps = 17/59 (28%)

Query: 11  GKQIVMFLDYDGTLSPIVENPDRAF-------------MSGKMRRAVRQLAKYFPTAIV 56
           GK ++  L Y+    P  E+PD+ +              SG M R V +L + FP A+V
Sbjct: 666 GKAVIFALPYE----PPAESPDKEYPYWLVTGRVLEHWHSGSMTRRVPELYRSFPNAVV 720


>pdb|3ML1|A Chain A, Crystal Structure Of The Periplasmic Nitrate Reductase
           From Cupriavidus Necator
          Length = 802

 Score = 28.5 bits (62), Expect = 3.8,   Method: Compositional matrix adjust.
 Identities = 18/59 (30%), Positives = 27/59 (45%), Gaps = 17/59 (28%)

Query: 11  GKQIVMFLDYDGTLSPIVENPDRAF-------------MSGKMRRAVRQLAKYFPTAIV 56
           GK ++  L Y+    P  E+PD+ +              SG M R V +L + FP A+V
Sbjct: 666 GKAVIFALPYE----PPAESPDKEYPYWLVTGRVLEHWHSGSMTRRVPELYRSFPNAVV 720


>pdb|1W8X|M Chain M, Structural Analysis Of Prd1
          Length = 83

 Score = 27.3 bits (59), Expect = 8.2,   Method: Composition-based stats.
 Identities = 14/60 (23%), Positives = 28/60 (46%), Gaps = 3/60 (5%)

Query: 75  YAGSHGMDIKGPTKG---LKYNQKSKVVNFQPASEFLPLIDKVYKVLVEKTKSTPGARVE 131
           YAG   +    PT+    L Y  + ++   Q A +F+P +   ++ + E+T    G  ++
Sbjct: 9   YAGPVPIPGPAPTETMPLLNYRVEGRIAGIQQARQFMPFLQGPHRAVAEQTYHAIGTGIQ 68


  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
   0.320    0.136    0.408 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,295,196
Number of Sequences: 62578
Number of extensions: 338628
Number of successful extensions: 806
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 803
Number of HSP's gapped (non-prelim): 6
length of query: 274
length of database: 14,973,337
effective HSP length: 97
effective length of query: 177
effective length of database: 8,903,271
effective search space: 1575878967
effective search space used: 1575878967
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (24.3 bits)