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= 015089
         (413 letters)

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

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



>pdb|3T5X|A Chain A, Pcid2:dss1 Structure
          Length = 203

 Score =  162 bits (410), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 79/201 (39%), Positives = 134/201 (66%), Gaps = 7/201 (3%)

Query: 208 EEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINCNPQSEANIRMILKYLIPVKLS 267
           +++    +VTY YY GR  +F+ +F  A++ LS+A  +C+  S+ N RMIL YL+PVK+ 
Sbjct: 6   DDYSTAQRVTYKYYVGRKAMFDSDFKQAEEYLSFAFEHCHRSSQKNKRMILIYLLPVKML 65

Query: 268 IGILPKDWLLEKYNLVEYSNIVQALRRGDXXXXXXXXXXXXDQFLRSGVYLVLEKLELQV 327
           +G +P   LL+KY+L++++ + +A+  G+              F+R G++L+LEKL++  
Sbjct: 66  LGHMPTVELLKKYHLMQFAEVTRAVSEGNLLLLHEALAKHEAFFIRCGIFLILEKLKIIT 125

Query: 328 YQRLFKKIYIIQKQKDPSKAHQMKLDVIVKALKWLEM-DMDVDEVECIVAILIHKNLVKG 386
           Y+ LFKK+Y++       K HQ+ LD  + ALK++++ D+D+DEV+CI+A LI+   VKG
Sbjct: 126 YRNLFKKVYLL------LKTHQLSLDAFLVALKFMQVEDVDIDEVQCILANLIYMGHVKG 179

Query: 387 YFAHKSKVVVLSKQDPFPKLN 407
           Y +H+ + +V+SKQ+PFP L+
Sbjct: 180 YISHQHQKLVVSKQNPFPPLS 200


>pdb|3T5V|B Chain B, Sac3:thp1:sem1 Complex
 pdb|3T5V|E Chain E, Sac3:thp1:sem1 Complex
          Length = 455

 Score = 44.3 bits (103), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 44/182 (24%), Positives = 81/182 (44%), Gaps = 13/182 (7%)

Query: 166 GSKRVGALYLTCQLFKIYFKLGTVHLCRSVIRSIETARIF-DFEEFPKRDKVTYMYYTGR 224
           G +R+  LYL  +L  IYF++ +  LC ++ ++ +   +   F E+    ++ Y Y  GR
Sbjct: 170 GKQRI-LLYLVNKLNNIYFRIESPQLCSNIFKNFQPKSMLAHFNEYQLDQQIEYRYLLGR 228

Query: 225 LEVFNENFPAADQKLSYA---LINCNPQSEA---NIRMILKYLIPVKLSIGIL----PKD 274
             + N     A  + + A   L+N    ++A   N   IL Y+IP  L +G +    P  
Sbjct: 229 YYLLNSQVHNAFVQFNEAFQSLLNLPLTNQAITRNGTRILNYMIPTGLILGKMVKWGPLR 288

Query: 275 WLLEKYNLVEYSNIVQALRRGDXXXXXXXXXXXXDQFL-RSGVYLVLEKLELQVYQRLFK 333
             L +  +  +S + + +R G+                 R  + ++LEKL +  Y+ L K
Sbjct: 289 PFLSQETIDNWSVLYKHVRYGNIQGVSLWLRQNERHLCARQLLIVLLEKLPMVTYRNLIK 348

Query: 334 KI 335
            +
Sbjct: 349 TV 350


  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
   0.323    0.137    0.397 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,771,417
Number of Sequences: 62578
Number of extensions: 398001
Number of successful extensions: 796
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 792
Number of HSP's gapped (non-prelim): 3
length of query: 413
length of database: 14,973,337
effective HSP length: 101
effective length of query: 312
effective length of database: 8,652,959
effective search space: 2699723208
effective search space used: 2699723208
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (25.0 bits)