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= 043572
         (997 letters)

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

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



>pdb|1XI4|A Chain A, Clathrin D6 Coat
 pdb|1XI4|B Chain B, Clathrin D6 Coat
 pdb|1XI4|C Chain C, Clathrin D6 Coat
 pdb|1XI4|D Chain D, Clathrin D6 Coat
 pdb|1XI4|E Chain E, Clathrin D6 Coat
 pdb|1XI4|F Chain F, Clathrin D6 Coat
 pdb|1XI4|G Chain G, Clathrin D6 Coat
 pdb|1XI4|H Chain H, Clathrin D6 Coat
 pdb|1XI4|I Chain I, Clathrin D6 Coat
 pdb|1XI5|A Chain A, Clathrin D6 Coat With Auxilin J-Domain
 pdb|1XI5|B Chain B, Clathrin D6 Coat With Auxilin J-Domain
 pdb|1XI5|C Chain C, Clathrin D6 Coat With Auxilin J-Domain
 pdb|1XI5|D Chain D, Clathrin D6 Coat With Auxilin J-Domain
 pdb|1XI5|E Chain E, Clathrin D6 Coat With Auxilin J-Domain
 pdb|1XI5|F Chain F, Clathrin D6 Coat With Auxilin J-Domain
 pdb|1XI5|G Chain G, Clathrin D6 Coat With Auxilin J-Domain
 pdb|1XI5|H Chain H, Clathrin D6 Coat With Auxilin J-Domain
 pdb|1XI5|I Chain I, Clathrin D6 Coat With Auxilin J-Domain
 pdb|3IYV|A Chain A, Clathrin D6 Coat As Full-Length Triskelions
 pdb|3IYV|B Chain B, Clathrin D6 Coat As Full-Length Triskelions
 pdb|3IYV|C Chain C, Clathrin D6 Coat As Full-Length Triskelions
 pdb|3IYV|D Chain D, Clathrin D6 Coat As Full-Length Triskelions
 pdb|3IYV|E Chain E, Clathrin D6 Coat As Full-Length Triskelions
 pdb|3IYV|F Chain F, Clathrin D6 Coat As Full-Length Triskelions
 pdb|3IYV|G Chain G, Clathrin D6 Coat As Full-Length Triskelions
 pdb|3IYV|H Chain H, Clathrin D6 Coat As Full-Length Triskelions
 pdb|3IYV|I Chain I, Clathrin D6 Coat As Full-Length Triskelions
          Length = 1630

 Score = 32.0 bits (71), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 17/73 (23%), Positives = 35/73 (47%)

Query: 772  RLQIFLQSSDLYDPEDVLDLIEGSELWLEKAILYRKLGQETLVLQILALKLEDSEAAEQY 831
            R+  ++   D YD  D+ ++   +EL+ E   ++RK    T  +Q+L   + + + A ++
Sbjct: 1039 RVMEYINRLDNYDAPDIANIAISNELFEEAFAIFRKFDVNTSAVQVLIEHIGNLDRAYEF 1098

Query: 832  CAEIGRPDAYMQL 844
                  P  + QL
Sbjct: 1099 AERCNEPAVWSQL 1111


>pdb|2WAM|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis Unknown
           Function Protein Rv2714
 pdb|2WAM|B Chain B, Crystal Structure Of Mycobacterium Tuberculosis Unknown
           Function Protein Rv2714
 pdb|2WAM|C Chain C, Crystal Structure Of Mycobacterium Tuberculosis Unknown
           Function Protein Rv2714
          Length = 351

 Score = 29.6 bits (65), Expect = 7.7,   Method: Compositional matrix adjust.
 Identities = 22/76 (28%), Positives = 37/76 (48%), Gaps = 5/76 (6%)

Query: 799 LEKAILYRKLGQETLVLQILALKLEDSEAAEQYCAEIGRPDAY-MQLLDMYLDSQDGKEP 857
           LE   LY+K G E L  Q    + + ++ A +Y  E G+P  Y ++     L S DG+ P
Sbjct: 11  LESTSLYKKAGSENLYFQ--GARDQGADEAREY--EPGQPGMYELEFPAPQLSSSDGRGP 66

Query: 858 MFKAAVRLLHNHGESL 873
           +   A+    + G ++
Sbjct: 67  VLVHALEGFSDAGHAI 82


>pdb|3SOK|A Chain A, Dichelobacter Nodosus Pilin Fima
 pdb|3SOK|B Chain B, Dichelobacter Nodosus Pilin Fima
          Length = 151

 Score = 29.6 bits (65), Expect = 8.3,   Method: Composition-based stats.
 Identities = 27/93 (29%), Positives = 41/93 (44%), Gaps = 20/93 (21%)

Query: 138 RIRTSDSESTNLLENNSVSSLAN-ASTSTGQRLLQKFG----SGIKANGVKVKEEEQHCR 192
           ++R SD      LE+      AN AS S G     K+      G      K  +E+  C+
Sbjct: 44  KVRISDH-----LESGECKGDANPASGSLGNDDKGKYALATIDGDYNKDAKTADEKNGCK 98

Query: 193 ----------GDNVFAVIIGKRLVLIELVNGSF 215
                     G+ +  +I+GK+LVL + VNGS+
Sbjct: 99  VVITYGQGTAGEKISKLIVGKKLVLDQFVNGSY 131


  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    0.135    0.389 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 26,670,854
Number of Sequences: 62578
Number of extensions: 1056035
Number of successful extensions: 2360
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 2358
Number of HSP's gapped (non-prelim): 6
length of query: 997
length of database: 14,973,337
effective HSP length: 108
effective length of query: 889
effective length of database: 8,214,913
effective search space: 7303057657
effective search space used: 7303057657
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: 56 (26.2 bits)