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= psy4183
         (898 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 = 32.3 bits (72), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 12/34 (35%), Positives = 22/34 (64%)

Query: 379 PIGGVLFSLEEVSYYFPLKTLWRSFFCALIAAFV 412
           P+GGVL+S+E ++ ++ ++  W+    AL  A V
Sbjct: 174 PLGGVLYSIETIASFYLVQAFWKGVLSALSGAIV 207



 Score = 32.3 bits (72), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 12/34 (35%), Positives = 22/34 (64%)

Query: 638 PIGGVLFSLEEVSYYFPLKTLWRSFFCALIAAFV 671
           P+GGVL+S+E ++ ++ ++  W+    AL  A V
Sbjct: 174 PLGGVLYSIETIASFYLVQAFWKGVLSALSGAIV 207


>pdb|1KPL|A Chain A, Crystal Structure Of The Clc Chloride Channel From S.
           Typhimurium
 pdb|1KPL|B Chain B, Crystal Structure Of The Clc Chloride Channel From S.
           Typhimurium
 pdb|1KPL|C Chain C, Crystal Structure Of The Clc Chloride Channel From S.
           Typhimurium
 pdb|1KPL|D Chain D, Crystal Structure Of The Clc Chloride Channel From S.
           Typhimurium
          Length = 473

 Score = 32.0 bits (71), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 46/194 (23%), Positives = 79/194 (40%), Gaps = 18/194 (9%)

Query: 274 LVRMFAPYACGSGIPEQNYSDVEGSSLVVYVXXXXXXXXXXCGRIMLAVSAGLSLRKGRT 333
           LVR FAP A GSGIPE     +EG+   +                M  + AG+ L +   
Sbjct: 96  LVRKFAPEAGGSGIPE-----IEGALEELRPVRWWRVLPVKFIGGMGTLGAGMVLGR-EG 149

Query: 334 PWFTLRPCIGNILSYLFPKYGRNEAKKREILXXXXXXXXXXXXXXPIGGVLFSLEEV--S 391
           P   +   +G ++  +F    R+   +  +L              P+ G+LF +EE+   
Sbjct: 150 PTVQIGGNLGRMVLDVFRM--RSAEARHTLLATGAAAGLSAAFNAPLAGILFIIEEMRPQ 207

Query: 392 YYFPLKTLWRSFFCALIAAFVLRSINPFGN--EHSVLFYVEYNKPWIFFELIPFVGLGVI 449
           + + L ++   F   ++++ V R  N      E   L     N  W++        LG+I
Sbjct: 208 FRYNLISIKAVFTGVIMSSIVFRIFNGEAPIIEVGKLSDAPVNTLWLYLI------LGII 261

Query: 450 GGIIAYIFIRLNLK 463
            G++  +F  L L+
Sbjct: 262 FGVVGPVFNSLVLR 275


>pdb|3ND0|A Chain A, X-Ray Crystal Structure Of A Slow Cyanobacterial Cl-H+
           ANTIPORTER
 pdb|3ND0|B Chain B, X-Ray Crystal Structure Of A Slow Cyanobacterial Cl-H+
           ANTIPORTER
 pdb|3Q17|A Chain A, Structure Of A Slow Clc Cl-H+ ANTIPORTER FROM A
           CYANOBACTERIUM IN Bromide
 pdb|3Q17|B Chain B, Structure Of A Slow Clc Cl-H+ ANTIPORTER FROM A
           CYANOBACTERIUM IN Bromide
          Length = 466

 Score = 30.8 bits (68), Expect = 3.7,   Method: Compositional matrix adjust.
 Identities = 46/189 (24%), Positives = 76/189 (40%), Gaps = 17/189 (8%)

Query: 274 LVRMFAPYACGSGIPEQNYSDVEGSSLVVYVXXXXXXXXXXCGRIMLAVSAGLSLRKGRT 333
           L++ FAP   GSGIP Q    +EG   +V+                L++ AG+ L     
Sbjct: 92  LMKRFAPDTSGSGIP-QIEGHLEGKLPLVWQRVLPIKLVGG----FLSLGAGM-LAGFEG 145

Query: 334 PWFTLRPCIGNILSYLFPKYGRNEAKKREILXXXXXXXXXXXXXXPIGGVLFSLEEVSYY 393
           P   +   IG +    F     N+   R ++              P+ GV    EE+   
Sbjct: 146 PTIQMGGSIGQMTGGWFKATQENQ---RILIAVGAGAGLATAFNAPLAGVALIGEEMHPR 202

Query: 394 FPLKTLW--RSFFCALIAAFVLRSINPFGNEHSVLFYVEYNK-PWIFFELIPFVGLGVIG 450
           F  +TL      F  ++A  +LR I     + +++   E+ + P     L  F+ LG++ 
Sbjct: 203 FRSQTLAYHSLLFGCVMATIILRMIR---GQSAIISLTEFKRVP--LDSLWMFIILGILF 257

Query: 451 GIIAYIFIR 459
           G++ Y F R
Sbjct: 258 GVMGYTFNR 266


  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
   0.328    0.143    0.465 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 23,890,105
Number of Sequences: 62578
Number of extensions: 915727
Number of successful extensions: 1709
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1699
Number of HSP's gapped (non-prelim): 11
length of query: 898
length of database: 14,973,337
effective HSP length: 108
effective length of query: 790
effective length of database: 8,214,913
effective search space: 6489781270
effective search space used: 6489781270
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: 56 (26.2 bits)