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= psy10370
         (280 letters)

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

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



>pdb|1J71|A Chain A, Structure Of The Extracellular Aspartic Proteinase From
           Candida Tropicalis Yeast
          Length = 334

 Score = 30.4 bits (67), Expect = 1.00,   Method: Compositional matrix adjust.
 Identities = 19/49 (38%), Positives = 27/49 (55%), Gaps = 1/49 (2%)

Query: 84  FDCGDLASDWFAKYLLNQSDRSI-RLGLSTNRRRSIGDNYLRKYTTVYD 131
           FD G   +   ++ +L  SD SI   G+S N    +GDN+LR+   VYD
Sbjct: 264 FDQGVKITVPLSELILKDSDSSICYFGISRNDANILGDNFLRRAYIVYD 312


>pdb|3P16|A Chain A, Crystal Structure Of Dna Polymerase Iii Sliding Clamp
 pdb|3P16|B Chain B, Crystal Structure Of Dna Polymerase Iii Sliding Clamp
 pdb|3P16|C Chain C, Crystal Structure Of Dna Polymerase Iii Sliding Clamp
 pdb|3P16|D Chain D, Crystal Structure Of Dna Polymerase Iii Sliding Clamp
 pdb|3P16|E Chain E, Crystal Structure Of Dna Polymerase Iii Sliding Clamp
 pdb|3P16|F Chain F, Crystal Structure Of Dna Polymerase Iii Sliding Clamp
          Length = 408

 Score = 30.4 bits (67), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 16/45 (35%), Positives = 25/45 (55%)

Query: 64  ILQTSHTKSFTLYVDEVLEAFDCGDLASDWFAKYLLNQSDRSIRL 108
           +L T HT   T+ V E++EA     L +D  A+  +  +D S+RL
Sbjct: 270 LLPTEHTAVATMDVAELIEAIKLVALVADRGAQVRMEFADGSVRL 314


>pdb|3RB9|A Chain A, Crystal Structure Of The M. Tuberculosis Beta Clamp
 pdb|3RB9|B Chain B, Crystal Structure Of The M. Tuberculosis Beta Clamp
          Length = 395

 Score = 30.4 bits (67), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 16/45 (35%), Positives = 25/45 (55%)

Query: 64  ILQTSHTKSFTLYVDEVLEAFDCGDLASDWFAKYLLNQSDRSIRL 108
           +L T HT   T+ V E++EA     L +D  A+  +  +D S+RL
Sbjct: 257 LLPTEHTAVATMDVAELIEAIKLVALVADRGAQVRMEFADGSVRL 301


>pdb|1N4C|A Chain A, Nmr Structure Of The J-Domain And Clathrin Substrate
           Binding Domain Of Bovine Auxilin
          Length = 182

 Score = 30.0 bits (66), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 18/49 (36%), Positives = 20/49 (40%)

Query: 188 AEDTWDWVRFNSDVITRQVKPCTRCILTTVHPDTGRKQPDSQPLKMLQM 236
            E  W  V     V   QVK   R  +  VHPD    QP  Q  KM+ M
Sbjct: 116 GETKWKPVGMADLVTPEQVKKVYRKAVLVVHPDKATGQPYEQYAKMIFM 164


>pdb|1XI5|J Chain J, Clathrin D6 Coat With Auxilin J-Domain
 pdb|1XI5|K Chain K, Clathrin D6 Coat With Auxilin J-Domain
 pdb|1XI5|L Chain L, Clathrin D6 Coat With Auxilin J-Domain
 pdb|1XI5|M Chain M, Clathrin D6 Coat With Auxilin J-Domain
 pdb|1XI5|N Chain N, Clathrin D6 Coat With Auxilin J-Domain
 pdb|1XI5|O Chain O, Clathrin D6 Coat With Auxilin J-Domain
 pdb|1XI5|P Chain P, Clathrin D6 Coat With Auxilin J-Domain
 pdb|1XI5|Q Chain Q, Clathrin D6 Coat With Auxilin J-Domain
 pdb|1XI5|R Chain R, Clathrin D6 Coat With Auxilin J-Domain
          Length = 114

 Score = 29.6 bits (65), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 18/49 (36%), Positives = 20/49 (40%)

Query: 188 AEDTWDWVRFNSDVITRQVKPCTRCILTTVHPDTGRKQPDSQPLKMLQM 236
            E  W  V     V   QVK   R  +  VHPD    QP  Q  KM+ M
Sbjct: 48  GETKWKPVGMADLVTPEQVKKVYRKAVLVVHPDKATGQPYEQYAKMIFM 96


  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
   0.320    0.136    0.403 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,040,771
Number of Sequences: 62578
Number of extensions: 335845
Number of successful extensions: 923
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 919
Number of HSP's gapped (non-prelim): 6
length of query: 280
length of database: 14,973,337
effective HSP length: 98
effective length of query: 182
effective length of database: 8,840,693
effective search space: 1609006126
effective search space used: 1609006126
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (24.3 bits)