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= 013502
         (442 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 =  113 bits (283), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 55/137 (40%), Positives = 81/137 (59%), Gaps = 4/137 (2%)

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

Query: 340 AAWGQACLLLHTMCQYFRPKFPYRIKIIPMGSYPRIMDSNNNTYELTLQ---NLQILRIK 396
           AAWGQ  LLLH +      KF  R +++P G++  +    + + EL L     L+     
Sbjct: 65  AAWGQTVLLLHALANKMGLKFQ-RYRLVPYGNHSYLESLTDKSKELPLYCSGGLRFFWDN 123

Query: 397 RITFHQINALNCPIRLK 413
           +     +  L+C  + K
Sbjct: 124 KFDHAMVAFLDCVQQFK 140


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

 Score = 65.5 bits (158), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 33/74 (44%), Positives = 43/74 (58%), Gaps = 3/74 (4%)

Query: 303 NVLNDAFPIWHDGEFGTINNFRLGRLPKIPVEWDEINAAWGQACLLLHTMCQYFRPKF-P 361
           N+ N  F I H G F TIN  RLG +P+  V W EINAA GQ  LLL T+ +  +     
Sbjct: 2   NIFNATFKISHSGPFATINGLRLGSIPESVVPWKEINAALGQLILLLATINKNLKINLVD 61

Query: 362 YRIKIIPMGSYPRI 375
           Y ++  PMGS+ +I
Sbjct: 62  YELQ--PMGSFSKI 73


>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 = 4.9,   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
   0.319    0.133    0.399 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,400,407
Number of Sequences: 62578
Number of extensions: 413072
Number of successful extensions: 822
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: 819
Number of HSP's gapped (non-prelim): 3
length of query: 442
length of database: 14,973,337
effective HSP length: 102
effective length of query: 340
effective length of database: 8,590,381
effective search space: 2920729540
effective search space used: 2920729540
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: 53 (25.0 bits)