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= 020681
         (322 letters)

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

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



>pdb|2ZKR|FF Chain f, Structure Of A Mammalian Ribosomal 60s Subunit Within An
           80s Complex Obtained By Docking Homology Models Of The
           Rna And Proteins Into An 8.7 A Cryo-Em Map
          Length = 266

 Score = 32.0 bits (71), Expect = 0.48,   Method: Compositional matrix adjust.
 Identities = 23/113 (20%), Positives = 45/113 (39%), Gaps = 1/113 (0%)

Query: 96  LGFGLLMSCRIAQAFQLYYIFVRKHLPPIRSYVFLPLVLMPWLIAATFIQVMRPLNDRCH 155
           L  G+     + +  +   + +   + PI   VFLP +     +    I+    L    H
Sbjct: 136 LRAGVNTVTTLVENKKAQLVVIAHDVDPIELVVFLPALCRKMGVPYCIIKGKARLGHLVH 195

Query: 156 MRVHWIIPFLFLHVVYVASLVGFMAAIR-HIEFRFDELRDLWQGIIVSASSIG 207
            +    + F  ++     +L   + AIR +   R+DE+R  W G ++   S+ 
Sbjct: 196 RKTCTTVAFTQVNSEDKGALAKLVEAIRTNYNDRYDEIRRHWGGNVLGPKSVA 248


>pdb|4G37|A Chain A, Structure Of Cross-Linked Firefly Luciferase In Second
           Catalytic Conformation
 pdb|4G37|B Chain B, Structure Of Cross-Linked Firefly Luciferase In Second
           Catalytic Conformation
          Length = 555

 Score = 28.9 bits (63), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 13/25 (52%), Positives = 14/25 (56%), Gaps = 1/25 (4%)

Query: 108 QAFQLYYIFVRKHLPP-IRSYVFLP 131
           Q FQ  Y FV  HLPP    Y F+P
Sbjct: 164 QGFQSMYTFVTSHLPPGFNEYDFVP 188


>pdb|1BA3|A Chain A, Firefly Luciferase In Complex With Bromoform
 pdb|1LCI|A Chain A, Firefly Luciferase
 pdb|3RIX|A Chain A, 1.7a Resolution Structure Of A Firefly
           Luciferase-Aspulvinone J Inhibitor Complex
 pdb|4E5D|A Chain A, 2.2a Resolution Structure Of A Firefly
           Luciferase-Benzothiazole Inhibitor Complex
          Length = 550

 Score = 28.9 bits (63), Expect = 3.9,   Method: Compositional matrix adjust.
 Identities = 13/25 (52%), Positives = 14/25 (56%), Gaps = 1/25 (4%)

Query: 108 QAFQLYYIFVRKHLPP-IRSYVFLP 131
           Q FQ  Y FV  HLPP    Y F+P
Sbjct: 159 QGFQSMYTFVTSHLPPGFNEYDFVP 183


>pdb|4G36|A Chain A, Photinus Pyralis Luciferase In The Adenylate-Forming
           Conformation Bound To Dlsa
 pdb|4G36|B Chain B, Photinus Pyralis Luciferase In The Adenylate-Forming
           Conformation Bound To Dlsa
          Length = 555

 Score = 28.9 bits (63), Expect = 3.9,   Method: Compositional matrix adjust.
 Identities = 13/25 (52%), Positives = 14/25 (56%), Gaps = 1/25 (4%)

Query: 108 QAFQLYYIFVRKHLPP-IRSYVFLP 131
           Q FQ  Y FV  HLPP    Y F+P
Sbjct: 164 QGFQSMYTFVTSHLPPGFNEYDFVP 188


>pdb|3IEP|A Chain A, Firefly Luciferase Apo Structure (P41 Form)
 pdb|3IER|A Chain A, Firefly Luciferase Apo Structure (P41 Form) With Peg 400
           Bound
 pdb|3IES|A Chain A, Firefly Luciferase Inhibitor Complex
          Length = 551

 Score = 28.9 bits (63), Expect = 3.9,   Method: Compositional matrix adjust.
 Identities = 13/25 (52%), Positives = 14/25 (56%), Gaps = 1/25 (4%)

Query: 108 QAFQLYYIFVRKHLPP-IRSYVFLP 131
           Q FQ  Y FV  HLPP    Y F+P
Sbjct: 159 QGFQSMYTFVTSHLPPGFNEYDFVP 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
   0.330    0.144    0.482 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,721,612
Number of Sequences: 62578
Number of extensions: 248921
Number of successful extensions: 630
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 630
Number of HSP's gapped (non-prelim): 5
length of query: 322
length of database: 14,973,337
effective HSP length: 99
effective length of query: 223
effective length of database: 8,778,115
effective search space: 1957519645
effective search space used: 1957519645
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 51 (24.3 bits)