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= 017762
         (366 letters)

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

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



>pdb|3MK4|A Chain A, X-Ray Structure Of Human Pex3 In Complex With A Pex19
           Derived Peptide
          Length = 334

 Score = 94.0 bits (232), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 94/350 (26%), Positives = 171/350 (48%), Gaps = 52/350 (14%)

Query: 42  DRQQCEHDELLKAQMQAHYEEVQRIADATTLPHAMHYLSIRIAEELDLSPLTDKLLRGKE 101
           +R+  E+  + +A+ Q H+E  QR  + T L   +  L   + ++L+   LT  L   K 
Sbjct: 3   EREAAEY--IAQARRQYHFESNQRTCNMTVL-SMLPTLREALMQQLNSESLTALL---KN 56

Query: 102 QPYTLSSSEKLELWDRLKILSFTKLVVALWAVTMVSLYIRVQVNILGRHLYIDTARGLGS 161
           +P     S KLE+W+ LKI+SFT+  VA+++  M+ + +RVQ+NI+G ++Y+D A  +G 
Sbjct: 57  RP-----SNKLEIWEDLKIISFTRSTVAVYSTCMLVVLLRVQLNIIGGYIYLDNA-AVGK 110

Query: 162 SXXXXXXXXXXXXQQKFLASVDYLANYGMQAMISNVQAAADEALKGKQLRDIFNTVVLHE 221
           +            QQ++L+S+ +L   G+  +I+ ++ A  + L    L+   + + L +
Sbjct: 111 N--GTTILAPPDVQQQYLSSIQHLLGDGLTELITVIKQAVQKVLGSVSLKHSLSLLDLEQ 168

Query: 222 TFMQILEVFMSMGSPHQWVD----------FLMPQDIRFYKLVTASG---HDETTLSGAT 268
              +I  +     S   W++          ++MP D      V A G    D TT+    
Sbjct: 169 KLKEIRNLVEQHKS-SSWINKDGSKPLLSHYMMP-DEETPLAVQACGLSPRDITTI---- 222

Query: 269 KFDELMVETRAVLSSAEYTSVVDMSFKAAVDALIDEMR---------VQSGGSLIS---- 315
              +L+ ETR +L S ++++V++         L+D M          +Q G S+ S    
Sbjct: 223 ---KLLNETRDMLESPDFSTVLNTCLNRGFSRLLDNMAEFFRPTEQDLQHGNSMNSLSSV 279

Query: 316 GMPLAKLVPRVVQMSPSLLAE-PSNNRIIQVIRTIPEVELFFTLLYANMS 364
            +PLAK++P V     S+ +E PS+   +Q + T+ +V+ F   +Y   S
Sbjct: 280 SLPLAKIIPIVNGQIHSVCSETPSH--FVQDLLTMEQVKDFAANVYEAFS 327


>pdb|3AJB|A Chain A, Crystal Structure Of Human Pex3p In Complex With
           N-Terminal Pex19p Peptide
          Length = 330

 Score = 94.0 bits (232), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 92/339 (27%), Positives = 165/339 (48%), Gaps = 50/339 (14%)

Query: 53  KAQMQAHYEEVQRIADATTLPHAMHYLSIRIAEELDLSPLTDKLLRGKEQPYTLSSSEKL 112
           +A+ Q H+E  QR  + T L   +  L   + ++L+   LT  L   K +P     S KL
Sbjct: 8   QARRQYHFESNQRTCNMTVL-SMLPTLREALMQQLNSESLTALL---KNRP-----SNKL 58

Query: 113 ELWDRLKILSFTKLVVALWAVTMVSLYIRVQVNILGRHLYIDTARGLGSSXXXXXXXXXX 172
           E+W+ LKI+SFT+  VA+++  M+ + +RVQ+NI+G ++Y+D A  +G +          
Sbjct: 59  EIWEDLKIISFTRSTVAVYSTCMLVVLLRVQLNIIGGYIYLDNA-AVGKN--GTTILAPP 115

Query: 173 XXQQKFLASVDYLANYGMQAMISNVQAAADEALKGKQLRDIFNTVVLHETFMQILEVFMS 232
             QQ++L+S+ +L   G+  +I+ ++ A  + L    L+   + + L +   +I  +   
Sbjct: 116 DVQQQYLSSIQHLLGDGLTELITVIKQAVQKVLGSVSLKHSLSLLDLEQKLKEIRNLVEQ 175

Query: 233 MGSPHQWVD----------FLMPQDIRFYKLVTASG---HDETTLSGATKFDELMVETRA 279
             S   W++          ++MP D      V A G    D TT+       +L+ ETR 
Sbjct: 176 HKS-SSWINKDGSKPLLCHYMMP-DEETPLAVQACGLSPRDITTI-------KLLNETRD 226

Query: 280 VLSSAEYTSVVDMSFKAAVDALIDEMR---------VQSGGSLIS----GMPLAKLVPRV 326
           +L S ++++V++         L+D M          +Q G S+ S     +PLAK++P V
Sbjct: 227 MLESPDFSTVLNTCLNRGFSRLLDNMAEFFRPTEQDLQHGNSMNSLSSVSLPLAKIIPIV 286

Query: 327 VQMSPSLLAE-PSNNRIIQVIRTIPEVELFFTLLYANMS 364
                S+ +E PS+   +Q + T+ +V+ F   +Y   S
Sbjct: 287 NGQIHSVCSETPSH--FVQDLLTMEQVKDFAANVYEAFS 323


  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
   0.322    0.133    0.375 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,462,542
Number of Sequences: 62578
Number of extensions: 289550
Number of successful extensions: 797
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: 792
Number of HSP's gapped (non-prelim): 3
length of query: 366
length of database: 14,973,337
effective HSP length: 100
effective length of query: 266
effective length of database: 8,715,537
effective search space: 2318332842
effective search space used: 2318332842
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: 52 (24.6 bits)