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= 039282
         (476 letters)

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

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



>pdb|2Q7F|A Chain A, Crystal Structure Of Yrrb: A Tpr Protein With An Unusual
           Peptide- Binding Site
 pdb|2Q7F|B Chain B, Crystal Structure Of Yrrb: A Tpr Protein With An Unusual
           Peptide- Binding Site
          Length = 243

 Score = 35.8 bits (81), Expect = 0.054,   Method: Compositional matrix adjust.
 Identities = 25/105 (23%), Positives = 46/105 (43%), Gaps = 1/105 (0%)

Query: 27  GEQKSVDPTELYDYRLHKRNDFEDSIRRVPGDTAVWINYAKWEGSQNEFDRARSMWELAL 86
           G Q+    +E  DY       F  +I     D   +IN+A    S NE +RA + ++ AL
Sbjct: 26  GGQQMGRGSEFGDYE-KAAEAFTKAIEENKEDAIPYINFANLLSSVNELERALAFYDKAL 84

Query: 87  EEDCRNHTLWCKYAEFEMINKFINHARNVWDRAVAVLPHVDQLWY 131
           E D    T +       ++ +    A++++++A+        L+Y
Sbjct: 85  ELDSSAATAYYGAGNVYVVKEMYKEAKDMFEKALRAGMENGDLFY 129


>pdb|2OOE|A Chain A, Crystal Structure Of Hat Domain Of Murine Cstf-77
          Length = 530

 Score = 32.3 bits (72), Expect = 0.53,   Method: Compositional matrix adjust.
 Identities = 25/89 (28%), Positives = 36/89 (40%), Gaps = 1/89 (1%)

Query: 81  MWELALEEDCRNHTLWCKYAEFEMINKFINHARNVWDRAVAVLPHVDQLWYKYIRMEEIA 140
           M E  LEE+  +   W      E  N+ I+ AR  ++R VA  P   + W  YI  E  A
Sbjct: 1   MAEKKLEENPYDLDAWSILIR-EAQNQPIDKARKTYERLVAQFPSSGRFWKLYIEAEIKA 59

Query: 141 GNVAAARLIFDRWMHWTPDQQAWLSYIKF 169
            N      +F R +        W  Y+ +
Sbjct: 60  KNYDKVEKLFQRCLMKVLHIDLWKCYLSY 88



 Score = 30.8 bits (68), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 38/175 (21%), Positives = 66/175 (37%), Gaps = 21/175 (12%)

Query: 49  EDSIRRVPGDTAVWINYAKWEGSQNEFDRARSMWELALEEDCRNHTLWCKYAEFEMINKF 108
           E  +   P D   W    + E      D+AR  +E  + +   +   W  Y E E+  K 
Sbjct: 3   EKKLEENPYDLDAWSILIR-EAQNQPIDKARKTYERLVAQFPSSGRFWKLYIEAEIKAKN 61

Query: 109 INHARNVWDRAVAVLPHVDQLWYKYIR-MEEIAGNVAAAR--------LIFDRWMHWTPD 159
            +    ++ R +  + H+D LW  Y+  + E  G + + +           D+       
Sbjct: 62  YDKVEKLFQRCLMKVLHID-LWKCYLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMS 120

Query: 160 QQAWLSYIKFELRYE---------QVELARQVFER-LVQCHPNVVSSWIKYAKFE 204
            Q W+ YI F    E         ++   R+V++R  V    N+   W  Y K+E
Sbjct: 121 YQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINIEQLWRDYNKYE 175



 Score = 28.9 bits (63), Expect = 6.9,   Method: Compositional matrix adjust.
 Identities = 20/81 (24%), Positives = 38/81 (46%), Gaps = 3/81 (3%)

Query: 108 FINHARNVWDRAVAVLPHVDQLWY-KYIRMEEIAGNVAAARLIFDRWMHW--TPDQQAWL 164
           F + A N+++RA++ L   + L Y  Y   EE          I++R +          ++
Sbjct: 301 FSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYI 360

Query: 165 SYIKFELRYEQVELARQVFER 185
            Y+KF  R E ++  R +F++
Sbjct: 361 QYMKFARRAEGIKSGRMIFKK 381


>pdb|2GW1|A Chain A, Crystal Structure Of The Yeast Tom70
 pdb|2GW1|B Chain B, Crystal Structure Of The Yeast Tom70
          Length = 514

 Score = 31.6 bits (70), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 34/166 (20%), Positives = 68/166 (40%), Gaps = 23/166 (13%)

Query: 26  FGEQKSVDPTELYDY--------RLHKRND----FEDSIRRVPGDTAVWINYAKWEGSQN 73
           F + K +DP  ++ Y        R +K +D    F ++ R+ P    V   +A+    +N
Sbjct: 327 FDKAKELDPENIFPYIQLACLAYRENKFDDCETLFSEAKRKFPEAPEVPNFFAEILTDKN 386

Query: 74  EFDRARSMWELALEEDCRNHTLWCKYAEF----------EMINKFINHARNVWDRAVAVL 123
           +FD+A   ++LA+E + +   ++   A              +  FI  A N+ ++A  + 
Sbjct: 387 DFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFI-EATNLLEKASKLD 445

Query: 124 PHVDQLWYKYIRMEEIAGNVAAARLIFDRWMHWTPDQQAWLSYIKF 169
           P  +Q      +M+    ++  A  +F+         +  L  I F
Sbjct: 446 PRSEQAKIGLAQMKLQQEDIDEAITLFEESADLARTMEEKLQAITF 491


>pdb|1NA0|A Chain A, Design Of Stable Alpha-Helical Arrays From An Idealized
           Tpr Motif
 pdb|1NA0|B Chain B, Design Of Stable Alpha-Helical Arrays From An Idealized
           Tpr Motif
          Length = 125

 Score = 28.5 bits (62), Expect = 9.0,   Method: Compositional matrix adjust.
 Identities = 19/77 (24%), Positives = 32/77 (41%), Gaps = 1/77 (1%)

Query: 56  PGDTA-VWINYAKWEGSQNEFDRARSMWELALEEDCRNHTLWCKYAEFEMINKFINHARN 114
           PG++A  W N       Q ++D A   ++ ALE D  N   W             + A  
Sbjct: 5   PGNSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIE 64

Query: 115 VWDRAVAVLPHVDQLWY 131
            + +A+ + P+  + WY
Sbjct: 65  YYQKALELDPNNAEAWY 81


  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    0.409 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,917,571
Number of Sequences: 62578
Number of extensions: 479771
Number of successful extensions: 1110
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 1083
Number of HSP's gapped (non-prelim): 38
length of query: 476
length of database: 14,973,337
effective HSP length: 102
effective length of query: 374
effective length of database: 8,590,381
effective search space: 3212802494
effective search space used: 3212802494
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)