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= 002268
         (944 letters)

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

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



>pdb|4HPQ|C Chain C, Crystal Structure Of The Atg17-Atg31-Atg29 Complex
 pdb|4HPQ|F Chain F, Crystal Structure Of The Atg17-Atg31-Atg29 Complex
          Length = 413

 Score = 35.4 bits (80), Expect = 0.16,   Method: Compositional matrix adjust.
 Identities = 31/116 (26%), Positives = 58/116 (50%), Gaps = 15/116 (12%)

Query: 31  LKEAGLDEVSIKRR----------DKAALIAYIAKLETEIFEHQHHM----GLLILEKKE 76
           L++A +D  S  R+          DKA + A ++KL TE+ +H+ ++    G+  L +K 
Sbjct: 254 LQDAAIDVASFVRKVNMLLDERDADKAKMQATLSKLLTELRKHEEYISVFEGISALIQKF 313

Query: 77  LASKYEQIKASAEAAELLQKHDRASHLSAIAEARKREESLKKTLGVEKECIASLEK 132
            AS  E I+ +    +     +R+ H + + E ++R+E+  K   + K C   LE+
Sbjct: 314 KASCLEDIRQTRNLLDFYANFERSYH-NLLKEVKRRKETAAKLSQILKSCETQLEQ 368


>pdb|1RJ5|A Chain A, Crystal Structure Of The Extracellular Domain Of Murine
           Carbonic Anhydrase Xiv
 pdb|1RJ5|B Chain B, Crystal Structure Of The Extracellular Domain Of Murine
           Carbonic Anhydrase Xiv
 pdb|1RJ6|A Chain A, Crystal Structure Of The Extracellular Domain Of Murine
           Carbonic Anhydrase Xiv In Complex With Acetazolamide
 pdb|1RJ6|B Chain B, Crystal Structure Of The Extracellular Domain Of Murine
           Carbonic Anhydrase Xiv In Complex With Acetazolamide
          Length = 261

 Score = 30.0 bits (66), Expect = 5.7,   Method: Composition-based stats.
 Identities = 28/103 (27%), Positives = 48/103 (46%), Gaps = 5/103 (4%)

Query: 243 LLDAQTLLNEREDHILSKLQELSRKEKELEASRANVEEKFKALNEE--KSNLDLTLVSLL 300
           L++     N   DHILS+L E+  K+++      +V E F    E+  + N  LT     
Sbjct: 146 LIEVGETENPAYDHILSRLHEIRYKDQKTSVPPFSVRELFPQQLEQFFRYNGSLTTPPCY 205

Query: 301 KRE-EAVIEREASLQKKEQKLLVSQETLASKESNEIQKIIANH 342
           +     V  R A +   + + L  QETL+S E +  + ++ N+
Sbjct: 206 QSVLWTVFNRRAQISMGQLEKL--QETLSSTEEDPSEPLVQNY 246


>pdb|2JES|A Chain A, Portal Protein From Bacteriophage Spp1
 pdb|2JES|C Chain C, Portal Protein From Bacteriophage Spp1
 pdb|2JES|E Chain E, Portal Protein From Bacteriophage Spp1
 pdb|2JES|G Chain G, Portal Protein From Bacteriophage Spp1
 pdb|2JES|I Chain I, Portal Protein From Bacteriophage Spp1
 pdb|2JES|K Chain K, Portal Protein From Bacteriophage Spp1
 pdb|2JES|M Chain M, Portal Protein From Bacteriophage Spp1
 pdb|2JES|O Chain O, Portal Protein From Bacteriophage Spp1
 pdb|2JES|Q Chain Q, Portal Protein From Bacteriophage Spp1
 pdb|2JES|S Chain S, Portal Protein From Bacteriophage Spp1
 pdb|2JES|U Chain U, Portal Protein From Bacteriophage Spp1
 pdb|2JES|W Chain W, Portal Protein From Bacteriophage Spp1
 pdb|2JES|Y Chain Y, Portal Protein From Bacteriophage Spp1
          Length = 503

 Score = 29.6 bits (65), Expect = 7.2,   Method: Compositional matrix adjust.
 Identities = 15/49 (30%), Positives = 26/49 (53%), Gaps = 8/49 (16%)

Query: 327 LASKESNEIQKIIANHESALRVKQSEFEAELAIKYKLAEDEIEKKRRAW 375
           +A  ++  IQK+I  H     +K         ++Y + E++IEKKRR +
Sbjct: 26  IAEPDTTMIQKLIDEHNPEPLLK--------GVRYYMCENDIEKKRRTY 66


  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
   0.310    0.125    0.329 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,444,882
Number of Sequences: 62578
Number of extensions: 697207
Number of successful extensions: 2299
Number of sequences better than 100.0: 76
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 62
Number of HSP's that attempted gapping in prelim test: 2202
Number of HSP's gapped (non-prelim): 134
length of query: 944
length of database: 14,973,337
effective HSP length: 108
effective length of query: 836
effective length of database: 8,214,913
effective search space: 6867667268
effective search space used: 6867667268
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 56 (26.2 bits)