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= 011167
         (492 letters)

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

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



>pdb|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s
           Proteasome
          Length = 437

 Score = 33.1 bits (74), Expect = 0.32,   Method: Compositional matrix adjust.
 Identities = 20/83 (24%), Positives = 39/83 (46%), Gaps = 9/83 (10%)

Query: 174 IGRPCTTIRVMNSSLAD----VIFVPFFSSLSYNRYSKLRGKEKISVNKMLQRKLVQFLM 229
           IG     IR M +   +    +IF+    ++   R+S     E  S ++ +QR L++ L 
Sbjct: 256 IGESARIIREMFAYAKEHEPCIIFMDEVDAIGGRRFS-----EGTSADREIQRTLMELLT 310

Query: 230 NQDGWKRLGGKDHLIVAHHPNSM 252
             DG+  LG    ++  + P+++
Sbjct: 311 QMDGFDNLGQTKIIMATNRPDTL 333


>pdb|1IM5|A Chain A, Crystal Structure Of Pyrazinamidase Of Pyrococcus
           Horikoshii In Complex With Zinc
 pdb|1ILW|A Chain A, Crystal Structure Of PyrazinamidaseNICOTINAMIDASE OF
           Pyrococcus Horikoshii
          Length = 180

 Score = 32.3 bits (72), Expect = 0.66,   Method: Compositional matrix adjust.
 Identities = 16/42 (38%), Positives = 24/42 (57%), Gaps = 4/42 (9%)

Query: 403 SEFCITVHSTDAIKKGFLLNLLR----GIKQEQWTKMWERLK 440
           +E+C+   + DA+K GF + LLR    GIK E   +  E +K
Sbjct: 130 TEYCVRATALDALKHGFEVYLLRDAVKGIKPEDEERALEEMK 171


>pdb|2F3I|A Chain A, Solution Structure Of A Subunit Of Rna Polymerase Ii
          Length = 150

 Score = 30.4 bits (67), Expect = 2.1,   Method: Composition-based stats.
 Identities = 17/54 (31%), Positives = 28/54 (51%), Gaps = 5/54 (9%)

Query: 272 YPVEIANVEKDIIAPYMHLVRTIPGGESPPFDQRPTLA-----YFQGAIYRKDG 320
           YPV++ +  + +IA  ++   T+  GE  P D RP+ A        G +YR +G
Sbjct: 48  YPVDLGDKFRLVIASTLYEDGTLDDGEYNPTDDRPSRADQFEYVMYGKVYRIEG 101


>pdb|3SWG|A Chain A, Aquifex Aeolicus Mura In Complex With Udp-N-Acetylmuramic
           Acid And Covalent Adduct Of Pep With Cys124
          Length = 425

 Score = 28.5 bits (62), Expect = 9.1,   Method: Compositional matrix adjust.
 Identities = 25/79 (31%), Positives = 38/79 (48%), Gaps = 7/79 (8%)

Query: 283 IIAPYMHLVRTIPGGES---PPFDQRPTLAYFQGAIYRKDGGVIRQELYYLLKDEKDVHF 339
           ++  +   V  +PGG S    P DQ   L +F+ A    D  V    +Y  LK+++ VHF
Sbjct: 109 LLGRFGRAVVGLPGGXSIGARPIDQH--LKFFKEA--GADVEVREGYVYVNLKEKRRVHF 164

Query: 340 TFGSIQGDGVKNAGQGMAS 358
            F  +   G +NA   +AS
Sbjct: 165 KFDLVTVTGTENALLYLAS 183


  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
   0.321    0.138    0.424 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,240,723
Number of Sequences: 62578
Number of extensions: 594549
Number of successful extensions: 1154
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1154
Number of HSP's gapped (non-prelim): 4
length of query: 492
length of database: 14,973,337
effective HSP length: 103
effective length of query: 389
effective length of database: 8,527,803
effective search space: 3317315367
effective search space used: 3317315367
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: 53 (25.0 bits)