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= 048163
         (350 letters)

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

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



>pdb|3ZYV|A Chain A, Crystal Structure Of The Mouse Liver Aldehyde Oxydase 3
            (Maox3)
 pdb|3ZYV|B Chain B, Crystal Structure Of The Mouse Liver Aldehyde Oxydase 3
            (Maox3)
 pdb|3ZYV|C Chain C, Crystal Structure Of The Mouse Liver Aldehyde Oxydase 3
            (Maox3)
 pdb|3ZYV|D Chain D, Crystal Structure Of The Mouse Liver Aldehyde Oxydase 3
            (Maox3)
          Length = 1335

 Score = 32.7 bits (73), Expect = 0.30,   Method: Compositional matrix adjust.
 Identities = 22/74 (29%), Positives = 36/74 (48%), Gaps = 13/74 (17%)

Query: 205  LRDDLSNDGEFSVIPIIGMG--------GLGKTTLAQLVYNDKQV-----QDHFDLKAWT 251
            +R D+  DG FS+ P + +G        GLG  TL +L Y+ + V        + + + T
Sbjct: 1179 IRTDIVMDGSFSINPAVDIGQIEGAFVQGLGLYTLEELKYSPEGVLYTRGPHQYKIASVT 1238

Query: 252  CVSDDFDVFRLTKT 265
             + ++F V  LT T
Sbjct: 1239 DIPEEFHVSLLTPT 1252


>pdb|2OPV|A Chain A, Solution Nmr Structure Of The Second Domain Of Ksrp
          Length = 85

 Score = 29.3 bits (64), Expect = 3.2,   Method: Compositional matrix adjust.
 Identities = 14/37 (37%), Positives = 18/37 (48%)

Query: 149 NGRFQEIVTQKDSLGLNVSSGGRTIKDRQRRETTSLV 185
           NG  QEI+      GL +  GG TIK  Q R    ++
Sbjct: 12  NGTVQEIMIPAGKAGLVIGKGGETIKQLQERAGVKMI 48


>pdb|3QFL|A Chain A, Coiled-Coil Domain-Dependent Homodimerization Of
          Intracellular Mla Immune Receptors Defines A Minimal
          Functional Module For Triggering Cell Death
          Length = 115

 Score = 28.9 bits (63), Expect = 4.4,   Method: Compositional matrix adjust.
 Identities = 12/29 (41%), Positives = 20/29 (68%)

Query: 62 DQSVKLWLGELQNLAYDVEDLLDEFQTEV 90
          D   KLW  E++ L+Y +ED++D+F  +V
Sbjct: 54 DSQDKLWADEVRELSYVIEDVVDKFLVQV 82


>pdb|1QVR|A Chain A, Crystal Structure Analysis Of Clpb
 pdb|1QVR|B Chain B, Crystal Structure Analysis Of Clpb
 pdb|1QVR|C Chain C, Crystal Structure Analysis Of Clpb
          Length = 854

 Score = 28.5 bits (62), Expect = 6.2,   Method: Compositional matrix adjust.
 Identities = 25/80 (31%), Positives = 37/80 (46%), Gaps = 22/80 (27%)

Query: 169 GGRTIKDRQRRET-----------TSLVKEAK---VYGRETEKKDVVELLLRDDLSNDGE 214
           GGRT++      T           T L  E K   V GR+ E + V+++LLR   +N   
Sbjct: 137 GGRTVQTEHAESTYNALEQYGIDLTRLAAEGKLDPVIGRDEEIRRVIQILLRRTKNN--- 193

Query: 215 FSVIPI-IGMGGLGKTTLAQ 233
               P+ IG  G+GKT + +
Sbjct: 194 ----PVLIGEPGVGKTAIVE 209


>pdb|1F48|A Chain A, Crystal Structure Of The Escherichia Coli
           Arsenite-Translocating Atpase
 pdb|1IHU|A Chain A, Crystal Structure Of The Escherichia Coli
           Arsenite-Translocating Atpase In Complex With
           Mg-Adp-Alf3
 pdb|1II0|A Chain A, Crystal Structure Of The Escherichia Coli
           Arsenite-Translocating Atpase
 pdb|1II0|B Chain B, Crystal Structure Of The Escherichia Coli
           Arsenite-Translocating Atpase
 pdb|1II9|A Chain A, Crystal Structure Of The Escherichia Coli Arsenite-
           Translocating Atpase In Complex With Amp-Pnp
 pdb|1II9|B Chain B, Crystal Structure Of The Escherichia Coli Arsenite-
           Translocating Atpase In Complex With Amp-Pnp
          Length = 589

 Score = 28.1 bits (61), Expect = 8.5,   Method: Compositional matrix adjust.
 Identities = 15/41 (36%), Positives = 27/41 (65%), Gaps = 2/41 (4%)

Query: 196 EKKDVVEL-LLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLV 235
           ++ D+  L  L DD++ + E  +I ++G GG+GKTT+A  +
Sbjct: 308 QRPDIPSLSALVDDIARN-EHGLIMLMGKGGVGKTTMAAAI 347


  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
   0.319    0.136    0.387 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,181,307
Number of Sequences: 62578
Number of extensions: 346656
Number of successful extensions: 1202
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 1196
Number of HSP's gapped (non-prelim): 19
length of query: 350
length of database: 14,973,337
effective HSP length: 100
effective length of query: 250
effective length of database: 8,715,537
effective search space: 2178884250
effective search space used: 2178884250
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.6 bits)