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= 039458
         (179 letters)

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

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



>pdb|1JM1|A Chain A, Crystal Structure Of The Soluble Domain Of The Rieske
           Protein Ii (Soxf) From Sulfolobus Acidocaldarius
          Length = 204

 Score = 27.3 bits (59), Expect = 4.6,   Method: Compositional matrix adjust.
 Identities = 23/74 (31%), Positives = 33/74 (44%), Gaps = 14/74 (18%)

Query: 101 QEPKNTTILHYVYNEPLT------LTTQASNNQRTIEIMNDLI-KYKGSMWDKRSHRMRA 153
           Q+ K++    Y +  PLT      +  QA   Q+  EI N    KY G +   ++ +   
Sbjct: 23  QQIKSSGCAVYFFAYPLTDEPCFLVDLQALTGQQITEIPNPYYGKYAGPLGQIQTIK--- 79

Query: 154 TCNVGVGPNGVILA 167
               GVGPNG I A
Sbjct: 80  ----GVGPNGTIFA 89


>pdb|4FM9|A Chain A, Human Topoisomerase Ii Alpha Bound To Dna
          Length = 763

 Score = 27.3 bits (59), Expect = 5.1,   Method: Composition-based stats.
 Identities = 29/128 (22%), Positives = 52/128 (40%), Gaps = 23/128 (17%)

Query: 32  WLSLRPHHPKFHVKQFTLQGLGQTTGYLNVNVTVRNPSHRVRICY----DSMRGSVYYKD 87
           W S  P+H K+ VK +  +GLG +T             HR++  Y    D    S+ +  
Sbjct: 168 WKSSTPNHKKWKVKYY--KGLGTSTSKEAKEYFADMKRHRIQFKYSGPEDDAAISLAFSK 225

Query: 88  QRVGVVSVFESHYQEPKNTTIL-----HYVYNEPLTLTT------------QASNNQRTI 130
           +++     + +++ E +    L      Y+Y +  T  T              S+N+R+I
Sbjct: 226 KQIDDRKEWLTNFMEDRRQRKLLGLPEDYLYGQTTTYLTYNDFINKELILFSNSDNERSI 285

Query: 131 EIMNDLIK 138
             M D +K
Sbjct: 286 PSMVDGLK 293


>pdb|3C7K|A Chain A, Molecular Architecture Of Galphao And The Structural Basis
           For Rgs16-Mediated Deactivation
 pdb|3C7K|C Chain C, Molecular Architecture Of Galphao And The Structural Basis
           For Rgs16-Mediated Deactivation
          Length = 333

 Score = 26.9 bits (58), Expect = 6.6,   Method: Compositional matrix adjust.
 Identities = 17/64 (26%), Positives = 27/64 (42%), Gaps = 6/64 (9%)

Query: 74  ICYDSMRGSVYYKDQRVGVVSVFESHYQEPKNTTILHYVYNEPLTLTTQASNNQRTIEIM 133
           IC+    GS  Y+D    + + FES  + P      H      +T  T  +N Q   + +
Sbjct: 265 ICFPEYPGSNTYEDAAAYIQTQFESKNRSPNKEIYCH------MTCATDTNNIQVVFDAV 318

Query: 134 NDLI 137
            D+I
Sbjct: 319 TDII 322


  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
   0.326    0.138    0.433 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,390,343
Number of Sequences: 62578
Number of extensions: 204192
Number of successful extensions: 449
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 447
Number of HSP's gapped (non-prelim): 5
length of query: 179
length of database: 14,973,337
effective HSP length: 93
effective length of query: 86
effective length of database: 9,153,583
effective search space: 787208138
effective search space used: 787208138
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 48 (23.1 bits)