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= psy15594
         (200 letters)

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

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



>pdb|3L6X|A Chain A, Crystal Structure Of P120 Catenin In Complex With
           E-Cadherin
 pdb|3L6Y|A Chain A, Crystal Structure Of P120 Catenin In Complex With
           E-cadherin
 pdb|3L6Y|C Chain C, Crystal Structure Of P120 Catenin In Complex With
           E-cadherin
 pdb|3L6Y|E Chain E, Crystal Structure Of P120 Catenin In Complex With
           E-cadherin
          Length = 584

 Score = 60.8 bits (146), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 49/182 (26%), Positives = 80/182 (43%), Gaps = 52/182 (28%)

Query: 1   MRDLVQKLPSGNAQHDQGTSDDTIAAVLATLNEVIKKNAEFSRNASSAGEYARKKLRECE 60
           + +LV+ LP G        S+DT+ ++L T+NEVI +N E           A KKLRE +
Sbjct: 397 IPNLVKNLPGGQQNSSWNFSEDTVISILNTINEVIAENLE-----------AAKKLRETQ 445

Query: 61  GLIDSLLYVVKSAIEKSLLESGGVERLMNITKQRQKYTPRVLKFAGQVLFTMWQHQELRE 120
                                 G+E+L+ I K   + + + ++ A  VL T+W ++ELR+
Sbjct: 446 ----------------------GIEKLVLINKSGNR-SEKEVRAAALVLQTIWGYKELRK 482

Query: 121 VYKKHGWKEQDFVTKTVXXXXXXXXXXXXXXXTLNRPMASQGGTRYEDRTIQRPNQNMEA 180
             +K GWK+ DF                     LN    SQ    Y+D T+   ++N ++
Sbjct: 483 PLEKEGWKKSDF------------------QVNLNNASRSQSSHSYDDSTLPLIDRNQKS 524

Query: 181 SR 182
            +
Sbjct: 525 DK 526



 Score = 46.2 bits (108), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 26/75 (34%), Positives = 44/75 (58%), Gaps = 4/75 (5%)

Query: 34  VIKKNAEFSRNASSAGEYARKKLRECEGLIDSLLYVVKSAIEKSLLESGGVER----LMN 89
           V+   A   RN SS    AR+KLREC+GL+D+L+++V++ I +   +S  VE     L N
Sbjct: 208 VLTNTAGCLRNVSSERSEARRKLRECDGLVDALIFIVQAEIGQKDSDSKLVENCVCLLRN 267

Query: 90  ITKQRQKYTPRVLKF 104
           ++ Q  +  P+  ++
Sbjct: 268 LSYQVHREIPQAERY 282


>pdb|3TT9|A Chain A, Crystal Structure Of The Stable Degradation Fragment Of
           Human Plakophilin 2 Isoform A (Pkp2a) C752r Variant
          Length = 233

 Score = 41.6 bits (96), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 18/32 (56%), Positives = 23/32 (71%)

Query: 43  RNASSAGEYARKKLRECEGLIDSLLYVVKSAI 74
           RN SSAG   RK +R C+GLIDSL++ V+  I
Sbjct: 176 RNMSSAGADGRKAMRRCDGLIDSLVHYVRGTI 207


>pdb|1XM9|A Chain A, Structure Of The Armadillo Repeat Domain Of Plakophilin 1
          Length = 457

 Score = 32.3 bits (72), Expect = 0.19,   Method: Compositional matrix adjust.
 Identities = 18/48 (37%), Positives = 27/48 (56%), Gaps = 1/48 (2%)

Query: 43  RNASSAGEYARKKLRECEGLIDSLLYVVKSAIEKSLLESGGVERLMNI 90
           RN SSA +  R+ +R   GLIDSL+  V++ +  S  +   VE  M +
Sbjct: 168 RNLSSA-DAGRQTMRNYSGLIDSLMAYVQNCVAASRCDDKSVENCMCV 214


  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
   0.315    0.129    0.359 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,914,539
Number of Sequences: 62578
Number of extensions: 158585
Number of successful extensions: 464
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 457
Number of HSP's gapped (non-prelim): 17
length of query: 200
length of database: 14,973,337
effective HSP length: 94
effective length of query: 106
effective length of database: 9,091,005
effective search space: 963646530
effective search space used: 963646530
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 49 (23.5 bits)