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= 041781
         (418 letters)

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

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



>pdb|3UNB|K Chain K, Mouse Constitutive 20s Proteasome In Complex With Pr-957
 pdb|3UNB|Y Chain Y, Mouse Constitutive 20s Proteasome In Complex With Pr-957
 pdb|3UNB|MM Chain m, Mouse Constitutive 20s Proteasome In Complex With Pr-957
 pdb|3UNB|1 Chain 1, Mouse Constitutive 20s Proteasome In Complex With Pr-957
 pdb|3UNE|K Chain K, Mouse Constitutive 20s Proteasome
 pdb|3UNE|Y Chain Y, Mouse Constitutive 20s Proteasome
 pdb|3UNE|MM Chain m, Mouse Constitutive 20s Proteasome
 pdb|3UNE|1 Chain 1, Mouse Constitutive 20s Proteasome
          Length = 205

 Score = 32.7 bits (73), Expect = 0.44,   Method: Compositional matrix adjust.
 Identities = 14/35 (40%), Positives = 21/35 (60%), Gaps = 2/35 (5%)

Query: 195 MGISLMTFICKWFSAEPGLPKINAES--LTGVQFS 227
           MG+S+ T IC W    PGL  +++E   ++G  FS
Sbjct: 93  MGLSMGTMICGWDKRGPGLYYVDSEGNRISGTAFS 127


>pdb|1IRU|L Chain L, Crystal Structure Of The Mammalian 20s Proteasome At 2.75
           A Resolution
 pdb|1IRU|Z Chain Z, Crystal Structure Of The Mammalian 20s Proteasome At 2.75
           A Resolution
          Length = 204

 Score = 32.3 bits (72), Expect = 0.46,   Method: Compositional matrix adjust.
 Identities = 14/35 (40%), Positives = 21/35 (60%), Gaps = 2/35 (5%)

Query: 195 MGISLMTFICKWFSAEPGLPKINAES--LTGVQFS 227
           MG+S+ T IC W    PGL  +++E   ++G  FS
Sbjct: 93  MGLSMGTMICGWDKRGPGLYYVDSEGNRISGATFS 127


>pdb|1B04|A Chain A, Structure Of The Adenylation Domain Of An Nad+ Dependent
           Ligase
 pdb|1B04|B Chain B, Structure Of The Adenylation Domain Of An Nad+ Dependent
           Ligase
          Length = 318

 Score = 30.4 bits (67), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 17/41 (41%), Positives = 22/41 (53%), Gaps = 2/41 (4%)

Query: 347 IIGLGDSELLSTVFHSLVKDYLQA--FCKSPAHRWKAILDQ 385
           + GL D+E L    HS   DYLQA  F  +P  R  A +D+
Sbjct: 220 VYGLADAEALGIASHSEALDYLQALGFKVNPERRRCANIDE 260


  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
   0.324    0.138    0.418 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,640,444
Number of Sequences: 62578
Number of extensions: 467593
Number of successful extensions: 1313
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1313
Number of HSP's gapped (non-prelim): 3
length of query: 418
length of database: 14,973,337
effective HSP length: 101
effective length of query: 317
effective length of database: 8,652,959
effective search space: 2742988003
effective search space used: 2742988003
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (25.0 bits)