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= 016990
         (379 letters)

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

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



>pdb|4DDP|A Chain A, Crystal Structure Of Beclin 1 Evolutionarily Conserved
           Domain(Ecd)
          Length = 210

 Score =  106 bits (264), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 45/81 (55%), Positives = 58/81 (71%)

Query: 280 EERDAISSKIEVSQAHLELLKRTNVLNDAFPIWHDGEFGTINNFRLGRLPKIPVEWDEIN 339
           +E  ++ +++  +Q  L+ LK+TNV N  F IWH G+FGTINNFRLGRLP +PVEW+EIN
Sbjct: 5   DELKSVENQMRYAQTQLDKLKKTNVFNATFHIWHSGQFGTINNFRLGRLPSVPVEWNEIN 64

Query: 340 AAWGQACLLLHTMCQYFRPKF 360
           AAWGQ  LLLH +      KF
Sbjct: 65  AAWGQTVLLLHALANKMGLKF 85


>pdb|3VP7|A Chain A, Crystal Structure Of The Beta-Alpha Repeated,
           Autophagy-Specific (Bara) Domain Of Vps30ATG6
          Length = 220

 Score = 59.7 bits (143), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 27/55 (49%), Positives = 33/55 (60%)

Query: 303 NVLNDAFPIWHDGEFGTINNFRLGRLPKIPVEWDEINAAWGQACLLLHTMCQYFR 357
           N+ N  F I H G F TIN  RLG +P+  V W EINAA GQ  LLL T+ +  +
Sbjct: 2   NIFNATFKISHSGPFATINGLRLGSIPESVVPWKEINAALGQLILLLATINKNLK 56


>pdb|4DZO|A Chain A, Structure Of Human Mad1 C-Terminal Domain Reveals Its
           Involvement In Kinetochore Targeting
 pdb|4DZO|B Chain B, Structure Of Human Mad1 C-Terminal Domain Reveals Its
           Involvement In Kinetochore Targeting
          Length = 123

 Score = 29.3 bits (64), Expect = 4.0,   Method: Composition-based stats.
 Identities = 14/42 (33%), Positives = 25/42 (59%)

Query: 238 KQNAEVNAELKELELKSKRFKELEERYWQEFNNFQFQLIAHQ 279
           K+ AE+  +++  ELK++R KE+ +   QEF    + L  +Q
Sbjct: 4   KEVAELKKQVESAELKNQRLKEVFQTKIQEFRKACYTLTGYQ 45


  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    0.134    0.408 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,878,401
Number of Sequences: 62578
Number of extensions: 349545
Number of successful extensions: 767
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 764
Number of HSP's gapped (non-prelim): 3
length of query: 379
length of database: 14,973,337
effective HSP length: 100
effective length of query: 279
effective length of database: 8,715,537
effective search space: 2431634823
effective search space used: 2431634823
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: 52 (24.6 bits)