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= 044582
         (202 letters)

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

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



>pdb|2P1N|C Chain C, Mechanism Of Auxin Perception By The Tir1 Ubiqutin
          Ligase
 pdb|2P1N|F Chain F, Mechanism Of Auxin Perception By The Tir1 Ubiqutin
          Ligase
 pdb|2P1O|C Chain C, Mechanism Of Auxin Perception By The Tir1 Ubiquitin
          Ligase
 pdb|2P1Q|C Chain C, Mechanism Of Auxin Perception By The Tir1 Ubiquitin
          Ligase
          Length = 13

 Score = 31.6 bits (70), Expect = 0.30,   Method: Composition-based stats.
 Identities = 12/13 (92%), Positives = 12/13 (92%)

Query: 73 QVVGWPPVRAYRK 85
          QVVGWPPVR YRK
Sbjct: 1  QVVGWPPVRNYRK 13


>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 = 27.7 bits (60), Expect = 4.1,   Method: Compositional matrix adjust.
 Identities = 21/91 (23%), Positives = 42/91 (46%), Gaps = 11/91 (12%)

Query: 103  PYLRKVDLEIYHSYQELLSALEDMF----SFLTIRNHVNERKIIDNVNGVEYVPTYE--- 155
            PYLR V     H+ + +  +L ++F     +  +R  ++     DN++  + +  +E   
Sbjct: 1450 PYLRSVQ---NHNNKSVNESLNNLFITEEDYQALRTSIDAYDNFDNISLAQRLEKHELIE 1506

Query: 156  -DKDGDWMLVGDVPWKMFVESCKRVRLMKSS 185
              +   ++  G+  WK  VE CK+  L K +
Sbjct: 1507 FRRIAAYLFKGNNRWKQSVELCKKDSLYKDA 1537


>pdb|3LVG|A Chain A, Crystal Structure Of A Clathrin Heavy Chain And Clathrin
           Lig Complex
 pdb|3LVG|B Chain B, Crystal Structure Of A Clathrin Heavy Chain And Clathrin
           Lig Complex
 pdb|3LVG|C Chain C, Crystal Structure Of A Clathrin Heavy Chain And Clathrin
           Lig Complex
 pdb|3LVH|A Chain A, Crystal Structure Of A Clathrin Heavy Chain And Clathrin
           Light Chain Complex
 pdb|3LVH|B Chain B, Crystal Structure Of A Clathrin Heavy Chain And Clathrin
           Light Chain Complex
 pdb|3LVH|C Chain C, Crystal Structure Of A Clathrin Heavy Chain And Clathrin
           Light Chain Complex
          Length = 624

 Score = 27.7 bits (60), Expect = 4.3,   Method: Compositional matrix adjust.
 Identities = 21/91 (23%), Positives = 42/91 (46%), Gaps = 11/91 (12%)

Query: 103 PYLRKVDLEIYHSYQELLSALEDMF----SFLTIRNHVNERKIIDNVNGVEYVPTYE--- 155
           PYLR V     H+ + +  +L ++F     +  +R  ++     DN++  + +  +E   
Sbjct: 399 PYLRSVQ---NHNNKSVNESLNNLFITEEDYQALRTSIDAYDNFDNISLAQRLEKHELIE 455

Query: 156 -DKDGDWMLVGDVPWKMFVESCKRVRLMKSS 185
             +   ++  G+  WK  VE CK+  L K +
Sbjct: 456 FRRIAAYLFKGNNRWKQSVELCKKDSLYKDA 486


  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
   0.314    0.130    0.386 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,957,470
Number of Sequences: 62578
Number of extensions: 228886
Number of successful extensions: 329
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 327
Number of HSP's gapped (non-prelim): 8
length of query: 202
length of database: 14,973,337
effective HSP length: 94
effective length of query: 108
effective length of database: 9,091,005
effective search space: 981828540
effective search space used: 981828540
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 49 (23.5 bits)