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= 029440
         (193 letters)

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

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



>pdb|1ZPU|A Chain A, Crystal Structure Of Fet3p, A Multicopper Oxidase That
           Functions In Iron Import
 pdb|1ZPU|B Chain B, Crystal Structure Of Fet3p, A Multicopper Oxidase That
           Functions In Iron Import
 pdb|1ZPU|C Chain C, Crystal Structure Of Fet3p, A Multicopper Oxidase That
           Functions In Iron Import
 pdb|1ZPU|D Chain D, Crystal Structure Of Fet3p, A Multicopper Oxidase That
           Functions In Iron Import
 pdb|1ZPU|E Chain E, Crystal Structure Of Fet3p, A Multicopper Oxidase That
           Functions In Iron Import
 pdb|1ZPU|F Chain F, Crystal Structure Of Fet3p, A Multicopper Oxidase That
           Functions In Iron Import
          Length = 534

 Score = 28.1 bits (61), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 15/46 (32%), Positives = 22/46 (47%), Gaps = 1/46 (2%)

Query: 16  SYPAYEDFAVLPLFALYFPSVRFFLEKFVFEKVAKRWIFGKGHHML 61
           SY  Y   A LP    Y  S+  FL+ F  +   K  I+G+  H++
Sbjct: 274 SYMVYNKTAALPT-QNYVDSIDNFLDDFYLQPYEKEAIYGEPDHVI 318


>pdb|1TX4|A Chain A, RhoRHOGAPGDP(DOT)ALF4 COMPLEX
          Length = 198

 Score = 28.1 bits (61), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 29/105 (27%), Positives = 47/105 (44%), Gaps = 12/105 (11%)

Query: 30  ALYFPSVRFFLEKFVFEKVAKRWIFGKGHHMLDFKTSERKKKI-------RKFNESAWKC 82
           AL+ P+V   L+ F+ E       F    H++ F   +  +++       +   E  ++ 
Sbjct: 77  ALHLPAV--ILKTFLRELPEPLLTFDLYPHVVGFLNIDESQRVPATLQVLQTLPEENYQV 134

Query: 83  VYFLTAELLALSVTYDEPWFKNTRCFWV-GPGNQVWP-DQKIKLK 125
           + FLTA L+ +S   D+    NT    V GP N +W  D  I LK
Sbjct: 135 LRFLTAFLVQISAHSDQNKMTNTNLAVVFGP-NLLWAKDAAITLK 178


>pdb|2VKD|A Chain A, Crystal Structure Of The Catalytic Domain Of Lethal Toxin
           From Clostridium Sordellii In Complex With Udp-glc And
           Manganese Ion
 pdb|2VKD|B Chain B, Crystal Structure Of The Catalytic Domain Of Lethal Toxin
           From Clostridium Sordellii In Complex With Udp-glc And
           Manganese Ion
 pdb|2VKD|C Chain C, Crystal Structure Of The Catalytic Domain Of Lethal Toxin
           From Clostridium Sordellii In Complex With Udp-glc And
           Manganese Ion
 pdb|2VKH|A Chain A, Crystal Structure Of The Catalytic Domain Of Lethal Toxin
           From Clostridium Sordellii In Complex With Udp-glc And
           Calcium Ion
 pdb|2VKH|B Chain B, Crystal Structure Of The Catalytic Domain Of Lethal Toxin
           From Clostridium Sordellii In Complex With Udp-glc And
           Calcium Ion
 pdb|2VKH|C Chain C, Crystal Structure Of The Catalytic Domain Of Lethal Toxin
           From Clostridium Sordellii In Complex With Udp-glc And
           Calcium Ion
 pdb|2VL8|A Chain A, Crystal Structure Of The Catalytic Domain Of Lethal Toxin
           From Clostridium Sordellii In Complex With Udp,
           Castanospermine And Calcium Ion
 pdb|2VL8|B Chain B, Crystal Structure Of The Catalytic Domain Of Lethal Toxin
           From Clostridium Sordellii In Complex With Udp,
           Castanospermine And Calcium Ion
 pdb|2VL8|C Chain C, Crystal Structure Of The Catalytic Domain Of Lethal Toxin
           From Clostridium Sordellii In Complex With Udp,
           Castanospermine And Calcium Ion
          Length = 546

 Score = 26.9 bits (58), Expect = 6.7,   Method: Compositional matrix adjust.
 Identities = 17/55 (30%), Positives = 26/55 (47%), Gaps = 7/55 (12%)

Query: 57  GHHMLDFKTSERKKKIRKFNESAWKCVYFLTAELLALSVTYDEPWFKNTRCFWVG 111
            +++  +K S R K ++KF E       +LT E+L L      P  KN    W+G
Sbjct: 57  DNYLNTYKKSGRNKALKKFKE-------YLTMEVLELKNNSLTPVEKNLHFIWIG 104


>pdb|3P8C|A Chain A, Structure And Control Of The Actin Regulatory Wave Complex
          Length = 1253

 Score = 26.9 bits (58), Expect = 7.7,   Method: Composition-based stats.
 Identities = 11/27 (40%), Positives = 17/27 (62%)

Query: 160  HHVATVILIVLSYIFRFALIQFCYCLL 186
            H    +I+++L    RFA++ FCY LL
Sbjct: 1158 HWAGCMIIVLLGQQRRFAVLDFCYHLL 1184


  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
   0.332    0.143    0.485 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,009,980
Number of Sequences: 62578
Number of extensions: 230183
Number of successful extensions: 479
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 474
Number of HSP's gapped (non-prelim): 9
length of query: 193
length of database: 14,973,337
effective HSP length: 93
effective length of query: 100
effective length of database: 9,153,583
effective search space: 915358300
effective search space used: 915358300
T: 11
A: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 49 (23.5 bits)