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= 018005
         (362 letters)

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

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



>pdb|3GPU|A Chain A, Mutm Encountering An Intrahelical 8-Oxoguanine (Oxog)
           Lesion In Ec4- Loop Deletion Complex
          Length = 256

 Score = 32.3 bits (72), Expect = 0.40,   Method: Compositional matrix adjust.
 Identities = 19/59 (32%), Positives = 24/59 (40%), Gaps = 2/59 (3%)

Query: 290 EVERVPEMMCRKFMSVCYHNYDHVYCFWHQGMICVCCYTWPEILYYNVARRTWHWLPSC 348
           E+ER+ E M             H+Y +  QG  C  C T   I    VA R  H+ P C
Sbjct: 198 EIERLHEEMVATIGEAVMKGQHHLYVYGRQGNPCKRCGT--PIEKTVVAGRGTHYCPRC 254


>pdb|2OVP|B Chain B, Structure Of The Skp1-Fbw7 Complex
 pdb|2OVQ|B Chain B, Structure Of The Skp1-Fbw7-Cyclinedegc Complex
 pdb|2OVR|B Chain B, Structure Of The Skp1-Fbw7-Cyclinedegn Complex
          Length = 445

 Score = 31.6 bits (70), Expect = 0.82,   Method: Compositional matrix adjust.
 Identities = 15/29 (51%), Positives = 21/29 (72%)

Query: 14 SRLPEDLLDHVLSFLPPKMLLKLRSTCKH 42
          S LP++L  +VLSFL PK LL+   TC++
Sbjct: 20 SLLPKELALYVLSFLEPKDLLQAAQTCRY 48


>pdb|1Z3Y|A Chain A, Structure Of Gun4-1 From Thermosynechococcus Elongatus
          Length = 238

 Score = 31.2 bits (69), Expect = 0.98,   Method: Compositional matrix adjust.
 Identities = 15/36 (41%), Positives = 22/36 (61%), Gaps = 1/36 (2%)

Query: 253 VNDGEESNKLYLIGGVGRNGISTTMKLWELGCGGNW 288
           + D +  ++L+L   +GR G S   +LW LGCG NW
Sbjct: 148 IPDLQTIDQLWLAFSLGRFGYSVQRQLW-LGCGQNW 182


>pdb|1Z3X|A Chain A, Structure Of Gun4 From Thermosynechococcus Elongatus
          Length = 238

 Score = 31.2 bits (69), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 15/36 (41%), Positives = 22/36 (61%), Gaps = 1/36 (2%)

Query: 253 VNDGEESNKLYLIGGVGRNGISTTMKLWELGCGGNW 288
           + D +  ++L+L   +GR G S   +LW LGCG NW
Sbjct: 148 IPDLQTIDQLWLAFSLGRFGYSVQRQLW-LGCGQNW 182


>pdb|3S6P|A Chain A, Crystal Structure Of Helicoverpa Armigera Stunt Virus
 pdb|3S6P|B Chain B, Crystal Structure Of Helicoverpa Armigera Stunt Virus
 pdb|3S6P|C Chain C, Crystal Structure Of Helicoverpa Armigera Stunt Virus
 pdb|3S6P|D Chain D, Crystal Structure Of Helicoverpa Armigera Stunt Virus
          Length = 575

 Score = 30.0 bits (66), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 14/42 (33%), Positives = 21/42 (50%)

Query: 199 HQEGVFYKGSLYFTTPEPFSIVRFDLENGIWETPNDANDHMT 240
           H    F  GS+ +  PE F++ R+D  +G W     A D +T
Sbjct: 333 HNGTTFPAGSVSYVLPEGFALERYDPNDGSWTDFASAGDTVT 374


  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
   0.326    0.140    0.487 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,817,268
Number of Sequences: 62578
Number of extensions: 414202
Number of successful extensions: 1212
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1208
Number of HSP's gapped (non-prelim): 7
length of query: 362
length of database: 14,973,337
effective HSP length: 100
effective length of query: 262
effective length of database: 8,715,537
effective search space: 2283470694
effective search space used: 2283470694
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: 52 (24.6 bits)