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= 014576
         (422 letters)

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

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



>pdb|4B4T|P Chain P, Near-Atomic Resolution Structural Model Of The Yeast 26s
           Proteasome
          Length = 445

 Score =  271 bits (692), Expect = 7e-73,   Method: Compositional matrix adjust.
 Identities = 160/417 (38%), Positives = 246/417 (58%), Gaps = 25/417 (5%)

Query: 2   RLSGDVAGTKKAVTEILQLCFEAKDWKTLNEQIVNLSKKRGQLKXXXXXXXXXXXXYIDQ 61
           R + D+A +K+ + +I+ L      W  LNEQ+  LSKK GQLK            Y+  
Sbjct: 47  RQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKLSIQYMIQKVMEYLKS 106

Query: 62  TP--DLDTRIELIKTLNSVSAGKIYVEIERARLIKKLAKIKEEQGLIAEAADLMQEVAVE 119
           +   DL+TRI +I+T+  V+  KI+VE+ERAR+ K L +IK+E+G I EAAD++ E+ VE
Sbjct: 107 SKSLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVE 166

Query: 120 TFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKKKPKEGDNVV 179
           T+G+M  +EKI FILEQ+ L + + DY +A +LSRKI  + F        K PK      
Sbjct: 167 TYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTF--------KNPKYES--- 215

Query: 180 EEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIPYIKEDPAQWMPVLRK 239
                       LK  YY L+++   H  +YLE+ +  + IY+   IK D A+W PVL  
Sbjct: 216 ------------LKLEYYNLLVKISLHKREYLEVAQYLQEIYQTDAIKSDEAKWKPVLSH 263

Query: 240 ICWYLVLAPHDPMQSSLLNSTLEDKNLSEIPNFRLLLKQLVTMEVIQWTSLWNTYKDEFE 299
           I ++LVL+P+  +Q+ L++    D NL ++ +   L+K   T E+++W  +  TY+    
Sbjct: 264 IVYFLVLSPYGNLQNDLIHKIQNDNNLKKLESQESLVKLFTTNELMRWPIVQKTYEPVLN 323

Query: 300 NETNMLGGSLGAKAAEDLRQRIIEHNILVVSKYYSRITLKRLAELLCLSIQEAEKHLSDM 359
            +    GG       EDL++R+IEHN+ V+S+YYSRITL RL ELL L+  + E ++SD+
Sbjct: 324 EDDLAFGGEANKHHWEDLQKRVIEHNLRVISEYYSRITLLRLNELLDLTESQTETYISDL 383

Query: 360 VVSKALVAKIDRPQGIVCFQVAKDSNDILNSWAMNLEKLLDLVEKSCHQIHKETMVH 416
           V    + AK++RP  IV F+  K+S+ +LN W+ N+++LL+ +E   H I KE ++H
Sbjct: 384 VNQGIIYAKVNRPAKIVNFEKPKNSSQLLNEWSHNVDELLEHIETIGHLITKEEIMH 440


>pdb|1UFM|A Chain A, Solution Structure Of The Pci Domain
          Length = 84

 Score = 46.2 bits (108), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 26/68 (38%), Positives = 38/68 (55%)

Query: 317 LRQRIIEHNILVVSKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGIV 376
           L + +IEHN+L  SK Y+ IT + L  LL +   +AEK  S M+    +   ID+  GIV
Sbjct: 12  LDRAVIEHNLLSASKLYNNITFEELGALLEIPAAKAEKIASQMITEGRMNGFIDQIDGIV 71

Query: 377 CFQVAKDS 384
            F+  + S
Sbjct: 72  HFETREAS 79


>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 = 35.8 bits (81), Expect = 0.049,   Method: Compositional matrix adjust.
 Identities = 16/56 (28%), Positives = 34/56 (60%)

Query: 321 IIEHNILVVSKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGIV 376
           ++E N+  + + YSR+ +  +AE + L + + EK LS M++ K     +D+ +G++
Sbjct: 302 MLEQNLCRIIEPYSRVQVAHVAESIQLPMPQVEKKLSQMILDKKFSGILDQGEGVL 357


  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    0.134    0.382 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,260,321
Number of Sequences: 62578
Number of extensions: 433596
Number of successful extensions: 1107
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 1102
Number of HSP's gapped (non-prelim): 18
length of query: 422
length of database: 14,973,337
effective HSP length: 101
effective length of query: 321
effective length of database: 8,652,959
effective search space: 2777599839
effective search space used: 2777599839
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)