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= 028800
         (203 letters)

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

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



>pdb|3EAB|G Chain G, Crystal Structure Of Spastin Mit In Complex With Escrt Iii
 pdb|3EAB|H Chain H, Crystal Structure Of Spastin Mit In Complex With Escrt Iii
 pdb|3EAB|I Chain I, Crystal Structure Of Spastin Mit In Complex With Escrt Iii
 pdb|3EAB|J Chain J, Crystal Structure Of Spastin Mit In Complex With Escrt Iii
 pdb|3EAB|K Chain K, Crystal Structure Of Spastin Mit In Complex With Escrt Iii
 pdb|3EAB|L Chain L, Crystal Structure Of Spastin Mit In Complex With Escrt Iii
          Length = 50

 Score = 34.7 bits (78), Expect = 0.037,   Method: Compositional matrix adjust.
 Identities = 19/50 (38%), Positives = 35/50 (70%), Gaps = 1/50 (2%)

Query: 151 EVNSLMQQVADDYGLEVSVGLPQPAAHAVPTKQQEKVDEDDLSRRLAELK 200
           +V+ L+Q++AD+ GL++++ LPQ    +V T      ++D+LS+RLA L+
Sbjct: 1   QVDMLLQEMADEAGLDLNMELPQGQTGSVGTS-VASAEQDELSQRLARLR 49


>pdb|3T7G|A Chain A, Atg8 Transfer From Atg7 To Atg3: A Distinctive E1-E2
           Architecture And Mechanism In The Autophagy Pathway
 pdb|3T7G|B Chain B, Atg8 Transfer From Atg7 To Atg3: A Distinctive E1-E2
           Architecture And Mechanism In The Autophagy Pathway
          Length = 291

 Score = 27.3 bits (59), Expect = 5.8,   Method: Compositional matrix adjust.
 Identities = 16/56 (28%), Positives = 27/56 (48%)

Query: 46  GNMDGARIYAENSIRKRTEQMNYLRLASRLDAVVARLDTQAKMTTINKSMANIVKS 101
           G+M   R+ +     K     ++ +  SRL   V +LD+  +  T+N  + NI KS
Sbjct: 1   GSMSSERVLSYAPAFKSFLDTSFFQELSRLKLDVLKLDSTCQPLTVNLDLHNIPKS 56


>pdb|3T7H|A Chain A, Atg8 Transfer From Atg7 To Atg3: A Distinctive E1-E2
           Architecture And Mechanism In The Autophagy Pathway
 pdb|3T7H|B Chain B, Atg8 Transfer From Atg7 To Atg3: A Distinctive E1-E2
           Architecture And Mechanism In The Autophagy Pathway
          Length = 291

 Score = 27.3 bits (59), Expect = 6.2,   Method: Compositional matrix adjust.
 Identities = 16/56 (28%), Positives = 27/56 (48%)

Query: 46  GNMDGARIYAENSIRKRTEQMNYLRLASRLDAVVARLDTQAKMTTINKSMANIVKS 101
           G+M   R+ +     K     ++ +  SRL   V +LD+  +  T+N  + NI KS
Sbjct: 1   GSMSSERVLSYAPAFKSFLDTSFFQELSRLKLDVLKLDSTCQPLTVNLDLHNIPKS 56


>pdb|4GSK|A Chain A, Crystal Structure Of An Atg7-Atg10 Crosslinked Complex
 pdb|4GSK|B Chain B, Crystal Structure Of An Atg7-Atg10 Crosslinked Complex
          Length = 615

 Score = 27.3 bits (59), Expect = 6.5,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 29/58 (50%)

Query: 46  GNMDGARIYAENSIRKRTEQMNYLRLASRLDAVVARLDTQAKMTTINKSMANIVKSLE 103
           G+M   R+ +     K     ++ +  SRL   V +LD+ ++  T+N  + NI KS +
Sbjct: 1   GSMSSERVLSYAPAFKSFLDTSFFQELSRLKLDVLKLDSTSQPLTVNLDLHNIPKSAD 58


>pdb|4GSL|A Chain A, Crystal Structure Of An Atg7-Atg3 Crosslinked Complex
 pdb|4GSL|B Chain B, Crystal Structure Of An Atg7-Atg3 Crosslinked Complex
          Length = 615

 Score = 26.9 bits (58), Expect = 8.2,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 28/58 (48%)

Query: 46  GNMDGARIYAENSIRKRTEQMNYLRLASRLDAVVARLDTQAKMTTINKSMANIVKSLE 103
           G+M   R+ +     K     ++ +  SRL   V +LD+  +  T+N  + NI KS +
Sbjct: 1   GSMSSERVLSYAPAFKSFLDTSFFQELSRLKLDVLKLDSTCQPLTVNLDLHNIPKSAD 58


  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    0.123    0.316 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,168,950
Number of Sequences: 62578
Number of extensions: 122900
Number of successful extensions: 420
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 415
Number of HSP's gapped (non-prelim): 11
length of query: 203
length of database: 14,973,337
effective HSP length: 94
effective length of query: 109
effective length of database: 9,091,005
effective search space: 990919545
effective search space used: 990919545
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: 49 (23.5 bits)