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= psy1263
         (115 letters)

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

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



>pdb|1W63|A Chain A, Ap1 Clathrin Adaptor Core
 pdb|1W63|C Chain C, Ap1 Clathrin Adaptor Core
 pdb|1W63|E Chain E, Ap1 Clathrin Adaptor Core
 pdb|1W63|G Chain G, Ap1 Clathrin Adaptor Core
 pdb|1W63|I Chain I, Ap1 Clathrin Adaptor Core
 pdb|1W63|K Chain K, Ap1 Clathrin Adaptor Core
          Length = 618

 Score =  186 bits (471), Expect = 4e-48,   Method: Compositional matrix adjust.
 Identities = 87/106 (82%), Positives = 98/106 (92%)

Query: 1   MCENSIDTLHHFKKIVPNLVRNLKNLILAGYSPEHDVSGVSDPFLQVKILKLLRILGKND 60
           MCE S D L HF+K+VP LVR LKNLI++GYSPEHDVSG+SDPFLQV+IL+LLRILG+ND
Sbjct: 206 MCERSPDMLAHFRKLVPQLVRILKNLIMSGYSPEHDVSGISDPFLQVRILRLLRILGRND 265

Query: 61  VEASEAMNDILAQVATNTETSKNVGNTILYETVLSIMDIKSESGLR 106
            ++SEAMNDILAQVATNTETSKNVGN ILYETVL+IMDIKSESGLR
Sbjct: 266 DDSSEAMNDILAQVATNTETSKNVGNAILYETVLTIMDIKSESGLR 311


>pdb|2VXX|A Chain A, X-Ray Structure Of Dpsa From Thermosynechococcus Elongatus
 pdb|2VXX|B Chain B, X-Ray Structure Of Dpsa From Thermosynechococcus Elongatus
 pdb|2VXX|C Chain C, X-Ray Structure Of Dpsa From Thermosynechococcus Elongatus
 pdb|2VXX|D Chain D, X-Ray Structure Of Dpsa From Thermosynechococcus Elongatus
          Length = 192

 Score = 28.5 bits (62), Expect = 1.0,   Method: Compositional matrix adjust.
 Identities = 13/41 (31%), Positives = 23/41 (56%)

Query: 54  RILGKNDVEASEAMNDILAQVATNTETSKNVGNTILYETVL 94
           R +  ND++A +A+  +L Q AT  E+  +     LY+ +L
Sbjct: 115 RQMLSNDLQAEQAIIGVLRQQATQAESLGDRATAYLYDQIL 155


>pdb|1W15|A Chain A, Rat Synaptotagmin 4 C2b Domain In The Presence Of
          Calcium
 pdb|1W16|A Chain A, Rat Synaptotagmin 4 C2b Domain In The Absence Of Calcium
          Length = 153

 Score = 27.3 bits (59), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 10/21 (47%), Positives = 17/21 (80%)

Query: 29 AGYSPEHDVSGVSDPFLQVKI 49
          A + P+ DVSG+SDP+++V +
Sbjct: 39 ARHLPKSDVSGLSDPYVKVNL 59


>pdb|3H4L|A Chain A, Crystal Structure Of N Terminal Domain Of A Dna Repair
           Prote
 pdb|3H4L|B Chain B, Crystal Structure Of N Terminal Domain Of A Dna Repair
           Prote
          Length = 367

 Score = 26.9 bits (58), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 16/65 (24%), Positives = 32/65 (49%)

Query: 49  ILKLLRILGKNDVEASEAMNDILAQVATNTETSKNVGNTILYETVLSIMDIKSESGLRSF 108
           I KL  I   +  +A +   D++  + + T TS+N G T+L   +   + ++ +   ++F
Sbjct: 108 IAKLSVITTTSPPKADKLEYDMVGHITSKTTTSRNKGTTVLVSQLFHNLPVRQKEFSKTF 167

Query: 109 FTTFT 113
              FT
Sbjct: 168 KRQFT 172


>pdb|3PFQ|A Chain A, Crystal Structure And Allosteric Activation Of Protein
           Kinase C Beta Ii
          Length = 674

 Score = 25.8 bits (55), Expect = 6.6,   Method: Composition-based stats.
 Identities = 12/41 (29%), Positives = 27/41 (65%), Gaps = 6/41 (14%)

Query: 10  HHFKKIVPNLVRNLKNLILAGYSPEHDVSGVSDPFLQVKIL 50
           H  ++++  +VR+ KNL+        D +G+SDP++++K++
Sbjct: 168 HIDREVLIVVVRDAKNLV------PMDPNGLSDPYVKLKLI 202


  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
   0.317    0.133    0.361 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,027,453
Number of Sequences: 62578
Number of extensions: 100147
Number of successful extensions: 274
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 268
Number of HSP's gapped (non-prelim): 13
length of query: 115
length of database: 14,973,337
effective HSP length: 78
effective length of query: 37
effective length of database: 10,092,253
effective search space: 373413361
effective search space used: 373413361
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 45 (21.9 bits)