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= 036415
         (419 letters)

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

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



>pdb|1OG2|A Chain A, Structure Of Human Cytochrome P450 Cyp2c9
 pdb|1OG2|B Chain B, Structure Of Human Cytochrome P450 Cyp2c9
 pdb|1OG5|A Chain A, Structure Of Human Cytochrome P450 Cyp2c9
 pdb|1OG5|B Chain B, Structure Of Human Cytochrome P450 Cyp2c9
          Length = 475

 Score = 33.1 bits (74), Expect = 0.33,   Method: Compositional matrix adjust.
 Identities = 20/59 (33%), Positives = 35/59 (59%), Gaps = 6/59 (10%)

Query: 3   GKKYIVGEIYYGKAIYL-ITNVIKSFNLRTGEDRIKLDTT----GFSCHTDLHSELCLV 56
           GK+  VGE   G  ++L +T+++++FNL++  D   LDTT    GF+     + +LC +
Sbjct: 412 GKRICVGEALAGMELFLFLTSILQNFNLKSLVDPKNLDTTPVVNGFASVPPFY-QLCFI 469


>pdb|1R9O|A Chain A, Crystal Structure Of P4502c9 With Flurbiprofen Bound
          Length = 477

 Score = 32.7 bits (73), Expect = 0.35,   Method: Compositional matrix adjust.
 Identities = 20/59 (33%), Positives = 35/59 (59%), Gaps = 6/59 (10%)

Query: 3   GKKYIVGEIYYGKAIYL-ITNVIKSFNLRTGEDRIKLDTT----GFSCHTDLHSELCLV 56
           GK+  VGE   G  ++L +T+++++FNL++  D   LDTT    GF+     + +LC +
Sbjct: 414 GKRICVGEALAGMELFLFLTSILQNFNLKSLVDPKNLDTTPVVNGFASVPPFY-QLCFI 471


>pdb|3UOQ|W Chain W, Crystal Structure Of Release Factor Rf3 Trapped In The Gtp
           State On A Rotated Conformation Of The Ribosome (Without
           Viomycin)
          Length = 534

 Score = 31.2 bits (69), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 56/220 (25%), Positives = 92/220 (41%), Gaps = 24/220 (10%)

Query: 91  GTAMSRVSPVKIVNGDVN---APACRITHDAPAVVFSSGGFTGNVFHEINEVIIPLFITT 147
           GTA+       +++G V    AP  R T D   V  S   FTG VF       I   +  
Sbjct: 257 GTALGNFGVDHMLDGLVEWAPAPMPRQT-DTRTVEASEDKFTGFVFK------IQANMDP 309

Query: 148 RHFRSRLKFLIT---DYKPWWVSKYSKVLTHLSHYEAINPAANGSAVH---CFPGAVIGL 201
           +H R R+ F+      Y+     +  +    +   +A+   A G   H    +PG ++GL
Sbjct: 310 KH-RDRVAFMRVVSGKYEKGMKLRQVRTAKDVVISDALTFMA-GDRSHVEEAYPGDILGL 367

Query: 202 VYHGKLALNATDIPGGYSAFD-FKHFLRESY-NLKIKNVSEIKREKPILILISRKKS--- 256
             HG + +  T   G    F    +F  E +  +++K+  + K+    L+ +S + +   
Sbjct: 368 HNHGTIQIGDTFTQGEMMKFTGIPNFAPELFRRIRLKDPLKQKQLLKGLVQLSEEGAVQV 427

Query: 257 -RVVSNENEIVVMMEELGFEVVVTRPNRMSNLNKFAALVN 295
            R +SN + IV  +  L F+VVV R     N+      VN
Sbjct: 428 FRPISNNDLIVGAVGVLQFDVVVARLKSEYNVEAVYESVN 467


>pdb|2H5E|A Chain A, Crystal Structure Of E.Coli Polypeptide Release Factor Rf3
 pdb|2H5E|B Chain B, Crystal Structure Of E.Coli Polypeptide Release Factor Rf3
 pdb|2O0F|A Chain A, Docking Of The Modified Rf3 X-Ray Structure Into Cryo-Em
           Map Of E.Coli 70s Ribosome Bound With Rf3
 pdb|3ZVO|Y Chain Y, Crystal Structure Of The Hybrid State Of Ribosome In
           Complex With The Guanosine Triphosphatase Release Factor
           3
 pdb|3SFS|W Chain W, Crystal Structure Of Release Factor Rf3 Trapped In The Gtp
           State On A Rotated Conformation Of The Ribosome
          Length = 529

 Score = 30.8 bits (68), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 56/220 (25%), Positives = 92/220 (41%), Gaps = 24/220 (10%)

Query: 91  GTAMSRVSPVKIVNGDVN---APACRITHDAPAVVFSSGGFTGNVFHEINEVIIPLFITT 147
           GTA+       +++G V    AP  R T D   V  S   FTG VF       I   +  
Sbjct: 257 GTALGNFGVDHMLDGLVEWAPAPMPRQT-DTRTVEASEDKFTGFVFK------IQANMDP 309

Query: 148 RHFRSRLKFLIT---DYKPWWVSKYSKVLTHLSHYEAINPAANGSAVH---CFPGAVIGL 201
           +H R R+ F+      Y+     +  +    +   +A+   A G   H    +PG ++GL
Sbjct: 310 KH-RDRVAFMRVVSGKYEKGMKLRQVRTAKDVVISDALTFMA-GDRSHVEEAYPGDILGL 367

Query: 202 VYHGKLALNATDIPGGYSAFD-FKHFLRESY-NLKIKNVSEIKREKPILILISRKKS--- 256
             HG + +  T   G    F    +F  E +  +++K+  + K+    L+ +S + +   
Sbjct: 368 HNHGTIQIGDTFTQGEMMKFTGIPNFAPELFRRIRLKDPLKQKQLLKGLVQLSEEGAVQV 427

Query: 257 -RVVSNENEIVVMMEELGFEVVVTRPNRMSNLNKFAALVN 295
            R +SN + IV  +  L F+VVV R     N+      VN
Sbjct: 428 FRPISNNDLIVGAVGVLQFDVVVARLKSEYNVEAVYESVN 467


>pdb|3LVT|A Chain A, The Crystal Structure Of A Protein In The Glycosyl
           Hydrolase Family 38 From Enterococcus Faecalis To 2.55a
          Length = 899

 Score = 29.3 bits (64), Expect = 4.8,   Method: Compositional matrix adjust.
 Identities = 48/205 (23%), Positives = 75/205 (36%), Gaps = 23/205 (11%)

Query: 235 IKNVSEIKREKPILILISRKKSRVVSNENEIVVMMEELGFEVVVTRPNRMSNLNKFAALV 294
           IK  +++  E  I   I   + RV+     +    E      VVTRPN++S+  +     
Sbjct: 653 IKESNQLFFETTINNQIKDHRLRVLFPTGXVTETHEADSIYEVVTRPNQVSDTWENPTNP 712

Query: 295 NSCSVLVGAH---------GAGLTNQVFLPDGAVMVQVVPLGLEWASTNYYGAPTKEMGV 345
                 V  H           GL     L DG + V ++    E     Y+  P  +   
Sbjct: 713 QHQQAFVNVHDQNKGVTIFNEGLNEYEVLADGTIAVTLIRCVGELGDWGYFATPEAQCQG 772

Query: 346 QY-----LEYKIEPEE--SSLMQTYGRDHPVITDPASVFAKGYYAARAVYIDAQNLKIN- 397
           +Y     L    +PEE  ++  Q Y    P  T   +   +G  A   VY+      I  
Sbjct: 773 EYTFKYGLSLHGKPEERFATYQQAYSAQIP-FTAATTARHEGKLAPNHVYLTTAEGPIGW 831

Query: 398 --VKRFKET---VVQAKELIGRSSP 417
             VKR ++T   VV+   L  ++ P
Sbjct: 832 TAVKRQEQTNHLVVRGFNLTAQNIP 856


>pdb|1TG7|A Chain A, Native Structure Of Beta-Galactosidase From Penicillium
           Sp.
 pdb|1XC6|A Chain A, Native Structure Of Beta-Galactosidase From Penicillium
           Sp. In Complex With Galactose
          Length = 971

 Score = 28.9 bits (63), Expect = 5.5,   Method: Compositional matrix adjust.
 Identities = 11/28 (39%), Positives = 19/28 (67%)

Query: 215 PGGYSAFDFKHFLRESYNLKIKNVSEIK 242
           PGGY+++D+   + ES N+  +  SE+K
Sbjct: 317 PGGYTSYDYGSAISESRNITREKYSELK 344


>pdb|1E5D|A Chain A, Rubredoxin Oxygen:oxidoreductase (Roo) From Anaerobe
           Desulfovibrio Gigas
 pdb|1E5D|B Chain B, Rubredoxin Oxygen:oxidoreductase (Roo) From Anaerobe
           Desulfovibrio Gigas
          Length = 402

 Score = 28.1 bits (61), Expect = 8.5,   Method: Compositional matrix adjust.
 Identities = 11/36 (30%), Positives = 20/36 (55%)

Query: 327 GLEWASTNYYGAPTKEMGVQYLEYKIEPEESSLMQT 362
            ++W S +++G     MG  Y  Y +E E+++L  T
Sbjct: 15  AIDWNSRDFHGYTLSPMGTTYNAYLVEDEKTTLFDT 50


  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    0.401 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,758,881
Number of Sequences: 62578
Number of extensions: 545064
Number of successful extensions: 1267
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1263
Number of HSP's gapped (non-prelim): 7
length of query: 419
length of database: 14,973,337
effective HSP length: 101
effective length of query: 318
effective length of database: 8,652,959
effective search space: 2751640962
effective search space used: 2751640962
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: 53 (25.0 bits)