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= 015104
         (413 letters)

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

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



>pdb|4B4T|O Chain O, Near-Atomic Resolution Structural Model Of The Yeast 26s
           Proteasome
          Length = 393

 Score = 41.2 bits (95), Expect = 0.001,   Method: Compositional matrix adjust.
 Identities = 42/196 (21%), Positives = 85/196 (43%), Gaps = 10/196 (5%)

Query: 204 YLATFSGEDAHTMDEAKEEAVRTIIEFVKSPDMFQC-DLLDMPAIGQLENDAKYASVYQL 262
           YL+T     + T+ E ++ A    I  +    ++   +LL  P +  + ND+ Y  ++QL
Sbjct: 195 YLSTLEPSTSITLAERQQLAYDLSISALLGDKIYNFGELLHHPIMETIVNDSNYDWLFQL 254

Query: 263 LKIFLT---QRLDGYLEFQAGNSALLKSYGLVHEDCI-AKMRLMSLVD-LGSNESGQIPY 317
           L         + D  ++ Q     +L      HE  +  K+ LM+L++ +       + +
Sbjct: 255 LNALTVGDFDKFDSLIKVQISKIPILAQ----HESFLRQKICLMTLIETVFVKNIRMLSF 310

Query: 318 GLIKDTLQINNDEVEKWVVKARTAKLMDCKMDQMNQVVIVRRCTERVFGQHQWQTLRTKL 377
             I     +  D VE  V++A +  L+   +DQ+N++V +     R+    Q   ++ +L
Sbjct: 311 EDISKATHLPKDNVEHLVMRAISLGLLKGSIDQVNELVTISWVQPRIISGDQITKMKDRL 370

Query: 378 STWRANVANVISTIQA 393
             W   V  +   ++A
Sbjct: 371 VEWNDQVEKLGKKMEA 386


>pdb|1XSZ|A Chain A, The Structure Of Ralf
 pdb|1XSZ|B Chain B, The Structure Of Ralf
          Length = 356

 Score = 33.1 bits (74), Expect = 0.32,   Method: Compositional matrix adjust.
 Identities = 20/62 (32%), Positives = 31/62 (50%), Gaps = 3/62 (4%)

Query: 158 SFKKIDSFLKEWNIDIKDKRALFLGIANVLKESRSSSKDSFKFLTKYLATFSGEDAHTMD 217
           +FKK+DSFL   +++I     +F GI + +K +    K    F T Y  T +  D  T  
Sbjct: 217 TFKKLDSFLHSTDVNI---NTVFPGIGDNVKTTVDQPKSWLSFFTGYKGTITLTDNKTSA 273

Query: 218 EA 219
           +A
Sbjct: 274 QA 275


>pdb|2L5A|A Chain A, Structural Basis For Recognition Of Centromere Specific
           Histone H3 Variant By Nonhistone Scm3
          Length = 235

 Score = 31.6 bits (70), Expect = 0.87,   Method: Compositional matrix adjust.
 Identities = 19/80 (23%), Positives = 44/80 (55%), Gaps = 8/80 (10%)

Query: 35  EQVNRLCLEAQESMVMGRWMDLA-----SLMLTSADLMFSKVSDKDLECIFTVICNLVTK 89
           E  N L L A+   +M + M LA       ++    +   K++D+++  +++   N+++K
Sbjct: 58  EHTNLLALHAKRITIMKKDMQLARRIRGQFLVPRGSMERHKLADENMRKVWS---NIISK 114

Query: 90  PESLDEVHEMTKLISGKIIQ 109
            ES++E  ++  L +G+I++
Sbjct: 115 YESIEEQGDLVDLKTGEIVE 134


>pdb|3IZA|A Chain A, Structure Of An Apoptosome-Procaspase-9 Card Complex
 pdb|3IZA|B Chain B, Structure Of An Apoptosome-Procaspase-9 Card Complex
 pdb|3IZA|C Chain C, Structure Of An Apoptosome-Procaspase-9 Card Complex
 pdb|3IZA|D Chain D, Structure Of An Apoptosome-Procaspase-9 Card Complex
 pdb|3IZA|E Chain E, Structure Of An Apoptosome-Procaspase-9 Card Complex
 pdb|3IZA|F Chain F, Structure Of An Apoptosome-Procaspase-9 Card Complex
 pdb|3IZA|G Chain G, Structure Of An Apoptosome-Procaspase-9 Card Complex
          Length = 1263

 Score = 30.4 bits (67), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 20/83 (24%), Positives = 34/83 (40%)

Query: 152 TEHIIPSFKKIDSFLKEWNIDIKDKRALFLGIANVLKESRSSSKDSFKFLTKYLATFSGE 211
           + H++ +    D FLK W+++ K+ R    G  N +   R S  D          T    
Sbjct: 717 SHHLLLATGSSDCFLKLWDLNQKECRNTMFGHTNSVNHCRFSPDDKLLASCSADGTLKLW 776

Query: 212 DAHTMDEAKEEAVRTIIEFVKSP 234
           DA + +E K   V+     ++ P
Sbjct: 777 DATSANERKSINVKQFFLNLEDP 799


  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    0.380 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,206,720
Number of Sequences: 62578
Number of extensions: 430006
Number of successful extensions: 1054
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 1052
Number of HSP's gapped (non-prelim): 13
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 (21.8 bits)
S2: 53 (25.0 bits)