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= 048394
         (485 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 = 29.6 bits (65), Expect = 4.4,   Method: Compositional matrix adjust.
 Identities = 39/155 (25%), Positives = 65/155 (41%), Gaps = 23/155 (14%)

Query: 42   NEDKLYKRLSALGATGGSVTGALNAYIMEGKTVRKDMLEYCVRSLRKFGRYRHALEVIEW 101
            NE  ++ +L+      G V  A+++YI   K          V++    G +   ++ ++ 
Sbjct: 1103 NEPAVWSQLAKAQLQKGMVKEAIDSYI---KADDPSSYMEVVQAANTSGNWEELVKYLQ- 1158

Query: 102  MESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTE 161
            M  +K   SY +  +   L AKTN +A  E++ NG      N +       CY       
Sbjct: 1159 MARKKARESYVETELIFAL-AKTNRLAELEEFING----PNNAHIQQVGDRCYD------ 1207

Query: 162  RALALFEKM-DELKFLGNTVA-FNNLSTMYLRLGQ 194
                  EKM D  K L N V+ F  L++  + LG+
Sbjct: 1208 ------EKMYDAAKLLYNNVSNFGRLASTLVHLGE 1236


>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 = 28.5 bits (62), Expect = 7.7,   Method: Compositional matrix adjust.
 Identities = 39/155 (25%), Positives = 65/155 (41%), Gaps = 23/155 (14%)

Query: 42  NEDKLYKRLSALGATGGSVTGALNAYIMEGKTVRKDMLEYCVRSLRKFGRYRHALEVIEW 101
           NE  ++ +L+      G V  A+++YI   K          V++    G +   ++ ++ 
Sbjct: 52  NEPAVWSQLAKAQLQKGMVKEAIDSYI---KADDPSSYMEVVQAANTSGNWEELVKYLQ- 107

Query: 102 MESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTE 161
           M  +K   SY +  +   L AKTN +A  E++ NG      N +       CY       
Sbjct: 108 MARKKARESYVETELIFAL-AKTNRLAELEEFING----PNNAHIQQVGDRCYD------ 156

Query: 162 RALALFEKM-DELKFLGNTVA-FNNLSTMYLRLGQ 194
                 EKM D  K L N V+ F  L++  + LG+
Sbjct: 157 ------EKMYDAAKLLYNNVSNFGRLASTLVHLGE 185


>pdb|3IEG|A Chain A, Crystal Structure Of P58(Ipk) Tpr Domain At 2.5 A
 pdb|3IEG|B Chain B, Crystal Structure Of P58(Ipk) Tpr Domain At 2.5 A
          Length = 359

 Score = 28.5 bits (62), Expect = 9.4,   Method: Compositional matrix adjust.
 Identities = 16/45 (35%), Positives = 25/45 (55%), Gaps = 1/45 (2%)

Query: 152 NCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPE 196
            C+ KE    +A++  +   +LK   NT AF  +ST+Y +LG  E
Sbjct: 162 ECFIKEGEPRKAISDLKAASKLKS-DNTEAFYKISTLYYQLGDHE 205


  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
   0.322    0.134    0.399 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,667,416
Number of Sequences: 62578
Number of extensions: 475754
Number of successful extensions: 1104
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 1103
Number of HSP's gapped (non-prelim): 9
length of query: 485
length of database: 14,973,337
effective HSP length: 103
effective length of query: 382
effective length of database: 8,527,803
effective search space: 3257620746
effective search space used: 3257620746
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 53 (25.0 bits)