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= 018294
         (358 letters)

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

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



>pdb|3TXM|A Chain A, Crystal Structure Of Rpn6 From Drosophila Melanogaster,
           Gd(3+) Complex
 pdb|3TXN|A Chain A, Crystal Structure Of Rpn6 From Drosophila Melanogaster,
           Native Data
          Length = 394

 Score = 89.7 bits (221), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 78/324 (24%), Positives = 158/324 (48%), Gaps = 29/324 (8%)

Query: 14  SAVTRNYSEKCINNIMD-FVSGSASQNFSLLREFYQTTLKALEEAKNE-RLWFKTNL--K 69
           S++++  + K + +++D F+   A     +     Q     +E AK E R + + +L  +
Sbjct: 50  SSISKAKAAKLVRSLVDMFLDMDAGTGIEV-----QLCKDCIEWAKQEKRTFLRQSLEAR 104

Query: 70  LCKIWFDMGEYGRM----SKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETXX 125
           L  ++FD   Y       +++L+EL K        DD+   + L+EV  +E + Y     
Sbjct: 105 LIALYFDTALYTEALALGAQLLRELKK-------LDDK---NLLVEVQLLESKTYHALSN 154

Query: 126 XXXXXXXXXXXXXXXSAI-PHPRIMGIIRECGGKMHMA-ERQWADAATDFFEAFKNYDEA 183
                          +AI   P++ G +    G +H A ER +  A + F+EAF+ +D  
Sbjct: 155 LPKARAALTSARTTANAIYCPPKVQGALDLQSGILHAADERDFKTAFSYFYEAFEGFDSV 214

Query: 184 GNQRRIQCLKYLVLANMLM--ESEVNPF-DGQEAKPYKNDPEILAMTNLIAAYQRNEIIE 240
            + + +  LKY++L  +++    +VN    G+ A  Y +  +I AM ++  A  +  + +
Sbjct: 215 DSVKALTSLKYMLLCKIMLGQSDDVNQLVSGKLAITY-SGRDIDAMKSVAEASHKRSLAD 273

Query: 241 FEKILKSNRKTIMDDPFIRNYIEDLLKNVRTQVLLKLIKPYTRIRIPFISKELNVPEKDV 300
           F+  LK  +K + +D  ++ ++  L   +  Q L ++I+PY+R+++  +++ + +P   V
Sbjct: 274 FQAALKEYKKELAEDVIVQAHLGTLYDTMLEQNLCRIIEPYSRVQVAHVAESIQLPMPQV 333

Query: 301 EQLLVSLILDNRIDGHIDQVNRLL 324
           E+ L  +ILD +  G +DQ   +L
Sbjct: 334 EKKLSQMILDKKFSGILDQGEGVL 357


>pdb|4B4T|Q Chain Q, Near-Atomic Resolution Structural Model Of The Yeast 26s
           Proteasome
          Length = 434

 Score = 70.9 bits (172), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 66/281 (23%), Positives = 127/281 (45%), Gaps = 17/281 (6%)

Query: 52  KALEEAKNE-RLWFKTNL--KLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQ 108
           K++E AK E R++ K +L  KL  + +   +Y     ++ +L +  ++ D          
Sbjct: 120 KSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDK------PS 173

Query: 109 LLEVYAIEIQMYTETXXXXXXXXXXXXXXXXXSAIPHP-RIMGIIRECGGKMHMAERQWA 167
           L++V+ +E ++Y +                  ++I  P + +  +    G +H  ++ + 
Sbjct: 174 LVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYK 233

Query: 168 DAATDFFEAFKNYDEAGN----QRRIQCLKYLVLANM---LMESEVNPFDGQEAKPYKND 220
            A + FFE+F++Y         ++  Q LKY++L+ +   L++   N  + +  K     
Sbjct: 234 TAFSYFFESFESYHNLTTHNSYEKACQVLKYMLLSKIMLNLIDDVKNILNAKYTKETYQS 293

Query: 221 PEILAMTNLIAAYQRNEIIEFEKILKSNRKTIMDDPFIRNYIEDLLKNVRTQVLLKLIKP 280
             I AM  +  AY    +++F   LK   K +M D   R++   L   +    L K+I+P
Sbjct: 294 RGIDAMKAVAEAYNNRSLLDFNTALKQYEKELMGDELTRSHFNALYDTLLESNLCKIIEP 353

Query: 281 YTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVN 321
           +  + I  ISK + +  + VE  L  +ILD    G +DQ N
Sbjct: 354 FECVEISHISKIIGLDTQQVEGKLSQMILDKIFYGVLDQGN 394


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

 Score = 32.0 bits (71), Expect = 0.48,   Method: Compositional matrix adjust.
 Identities = 24/77 (31%), Positives = 37/77 (48%), Gaps = 11/77 (14%)

Query: 289 ISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLE---------RGDRSKGMKKYTAI 339
           ISK  ++P+ +VE L++  I    + G IDQVN L+           GD+   MK     
Sbjct: 313 ISKATHLPKDNVEHLVMRAISLGLLKGSIDQVNELVTISWVQPRIISGDQITKMKDRLV- 371

Query: 340 DKWNSQLRSLYQTVSNR 356
            +WN Q+  L + +  R
Sbjct: 372 -EWNDQVEKLGKKMEAR 387


  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
   0.320    0.135    0.387 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,763,086
Number of Sequences: 62578
Number of extensions: 378424
Number of successful extensions: 854
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 850
Number of HSP's gapped (non-prelim): 11
length of query: 358
length of database: 14,973,337
effective HSP length: 100
effective length of query: 258
effective length of database: 8,715,537
effective search space: 2248608546
effective search space used: 2248608546
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: 52 (24.6 bits)