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= psy6631
         (704 letters)

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

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



>pdb|3ORG|A Chain A, Crystal Structure Of A Eukaryotic Clc Transporter
 pdb|3ORG|B Chain B, Crystal Structure Of A Eukaryotic Clc Transporter
 pdb|3ORG|C Chain C, Crystal Structure Of A Eukaryotic Clc Transporter
 pdb|3ORG|D Chain D, Crystal Structure Of A Eukaryotic Clc Transporter
          Length = 632

 Score =  137 bits (346), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 98/302 (32%), Positives = 153/302 (50%), Gaps = 44/302 (14%)

Query: 98  GALYKGVLFSIEVTTVYFAIRNYWRGFFTAVCGATVFRLLAVWFYNEETMRAFFPTNFTM 157
           GA   GVL+SIE    ++ ++ +W+G  +A+ GA V+ LL    Y    + AF  TNF  
Sbjct: 172 GAPLGGVLYSIETIASFYLVQAFWKGVLSALSGAIVYELL----YTTPLVEAFEGTNFDA 227

Query: 158 DFPFDPQELTVFALIGVVCGFGGAGYVWSHRQ-YVLFMRRNKKMNAFLQKNRFLYPGIVV 216
                 Q L ++A++G + G  GA ++   R  Y L MR       +   NR+   G+V 
Sbjct: 228 SDVSRTQTL-LYAILGALMGVLGALFIRCVRSIYELRMRH------YPGTNRYFLVGVVA 280

Query: 217 LLATSVSFPLGLGKYMAGDLNTHDQLSSLFSNF-TWTKGHFTVEEQEVLKHWTTRNTDVF 275
           L A+++ +P  L       L+    ++ LF     +   HF          WT       
Sbjct: 281 LFASALQYPFRLFA-----LDPRATINDLFKAVPLYQTDHFG---------WT------- 319

Query: 276 VSLACFMLYTYIFSIIASTIPVPSGSFIPVFKIGAAFGRMIGEIIFLRFPDGITHGKFIA 335
             L    +  +I   ++  +P+P+G F+P F IGA FGR+ GE++ + F + I       
Sbjct: 320 -ELILMPIIKFILVALSIGLPLPAGVFVPSFLIGAGFGRLYGELMRVVFGNAI------- 371

Query: 336 PIIPGGYATVGAAAFSGAVTHTISVSVIMFEMTGQITHIIPVMIAVLISNAVAALLQPSL 395
             +PG YA VGAAAF+  VT  +S +VI+FE+TGQI H++PV+I+VL++  V      SL
Sbjct: 372 --VPGSYAVVGAAAFTAGVTRALSCAVIIFEVTGQIRHLVPVLISVLLAVIVGNAFNRSL 429

Query: 396 YD 397
           Y+
Sbjct: 430 YE 431


>pdb|2D4Z|A Chain A, Crystal Structure Of The Cytoplasmic Domain Of The
           Chloride Channel Clc-0
 pdb|2D4Z|B Chain B, Crystal Structure Of The Cytoplasmic Domain Of The
           Chloride Channel Clc-0
          Length = 250

 Score = 39.3 bits (90), Expect = 0.007,   Method: Compositional matrix adjust.
 Identities = 19/43 (44%), Positives = 29/43 (67%), Gaps = 1/43 (2%)

Query: 419 YNVYVEDFMVRDVKYIWNNMTYRDLKNLLKENRSLRVFPLVES 461
           YN+ V D MVRDV  I +  TY DL ++L++ + L+ FP V++
Sbjct: 11  YNIQVGDIMVRDVTSIASTSTYGDLLHVLRQTK-LKFFPFVDT 52



 Score = 39.3 bits (90), Expect = 0.007,   Method: Compositional matrix adjust.
 Identities = 19/43 (44%), Positives = 29/43 (67%), Gaps = 1/43 (2%)

Query: 495 YNVYVEDFMVRDVKYIWNNMTYRDLKNLLKENRSLRVFPLVES 537
           YN+ V D MVRDV  I +  TY DL ++L++ + L+ FP V++
Sbjct: 11  YNIQVGDIMVRDVTSIASTSTYGDLLHVLRQTK-LKFFPFVDT 52


>pdb|3UZU|A Chain A, The Structure Of The Ribosomal Rna Small Subunit
           Methyltransferase A From Burkholderia Pseudomallei
          Length = 279

 Score = 32.0 bits (71), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 19/62 (30%), Positives = 29/62 (46%), Gaps = 3/62 (4%)

Query: 255 HFTVEEQEVLKHWTTRNTDVFVSLACFMLYTYIFSIIASTIPVPSGSFIPVFKIGAAFGR 314
           HF ++ + V +      T  F  L+  + Y Y+   +   I VP  SF P  K+ +A  R
Sbjct: 145 HFMLQNEVVERMVAEPGTKAFSRLSVMLQYRYVMDKL---IDVPPESFQPPPKVDSAIVR 201

Query: 315 MI 316
           MI
Sbjct: 202 MI 203


  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
   0.324    0.138    0.427 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,306,684
Number of Sequences: 62578
Number of extensions: 751199
Number of successful extensions: 2137
Number of sequences better than 100.0: 25
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 23
Number of HSP's that attempted gapping in prelim test: 2129
Number of HSP's gapped (non-prelim): 27
length of query: 704
length of database: 14,973,337
effective HSP length: 106
effective length of query: 598
effective length of database: 8,340,069
effective search space: 4987361262
effective search space used: 4987361262
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 55 (25.8 bits)