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= 005075
         (715 letters)

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

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



>pdb|1WID|A Chain A, Solution Structure Of The B3 Dna-Binding Domain Of Rav1
          Length = 130

 Score = 63.5 bits (153), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 36/98 (36%), Positives = 55/98 (56%), Gaps = 4/98 (4%)

Query: 120 ASFAKTLTQSDANNGGGFSVPRYCAETIFPRLDYSADPPVQTILA--KDVHGETWKFRHI 177
           A F K +T SD        +P++ AE  FP    S++  V+ +L   +DV+G+ W+FR+ 
Sbjct: 12  ALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLP--SSNVSVKGVLLNFEDVNGKVWRFRYS 69

Query: 178 YRGTPRRHLLTTGWSTFVNHKKLVAGDSIVFLRAENGD 215
           Y  + + ++LT GWS FV  K L AGD + F R+   D
Sbjct: 70  YWNSSQSYVLTKGWSRFVKEKNLRAGDVVSFSRSNGQD 107


>pdb|4A63|B Chain B, Crystal Structure Of The P73-Aspp2 Complex At 2.6a
           Resolution
 pdb|4A63|D Chain D, Crystal Structure Of The P73-Aspp2 Complex At 2.6a
           Resolution
 pdb|4A63|F Chain F, Crystal Structure Of The P73-Aspp2 Complex At 2.6a
           Resolution
 pdb|4A63|H Chain H, Crystal Structure Of The P73-Aspp2 Complex At 2.6a
           Resolution
 pdb|4A63|J Chain J, Crystal Structure Of The P73-Aspp2 Complex At 2.6a
           Resolution
 pdb|4A63|L Chain L, Crystal Structure Of The P73-Aspp2 Complex At 2.6a
           Resolution
          Length = 239

 Score = 30.0 bits (66), Expect = 5.1,   Method: Compositional matrix adjust.
 Identities = 20/87 (22%), Positives = 34/87 (39%), Gaps = 4/87 (4%)

Query: 61  RRIPPYILCRVSPIKFMADPETDEVYAKIKLVPVSTNDPDFDNDDGIAGIHSNETQDKPA 120
            RI   +  + +P+  + D   +  +  ++ +    +DP   ND+GI  +H N       
Sbjct: 25  ERIAHGMRVKFNPLALLLDSSLEGEFDLVQRIIYEVDDPSLPNDEGITALH-NAVCAGHT 83

Query: 121 SFAKTLTQSDANNGGGFS---VPRYCA 144
              K L Q   N     S    P +CA
Sbjct: 84  EIVKFLVQFGVNVNAADSDGWTPLHCA 110


>pdb|1YEL|A Chain A, Structure Of The Hypothetical Arabidopsis Thaliana Protein
           At1g16640.1
          Length = 104

 Score = 29.6 bits (65), Expect = 5.7,   Method: Compositional matrix adjust.
 Identities = 18/58 (31%), Positives = 24/58 (41%), Gaps = 2/58 (3%)

Query: 152 DYSADPPVQTILAKDVHGETWKFRHIYRGTPRRHLLTTGWSTFVNHKKLVAGDSIVFL 209
           +Y   P   T+   D  G +W  R   RG   +  LT GW  FV    L  G  + F+
Sbjct: 32  EYFPAPFPITVDLLDYSGRSWTVRMKKRG--EKVFLTVGWENFVKDNNLEDGKYLQFI 87


>pdb|3B49|A Chain A, Crystal Structure Of An Uncharacterized Conserved Protein
           From Listeria Innocua
          Length = 211

 Score = 29.6 bits (65), Expect = 6.5,   Method: Composition-based stats.
 Identities = 32/117 (27%), Positives = 49/117 (41%), Gaps = 10/117 (8%)

Query: 557 DTVSPVRTGNSSSEGNLDKLTNFSDGSGSALQQQGLPDRSFCEVFQWYKDNRQETEPSLE 616
           D V P   G   SEG  D     +    S L+Q   PD    EV +W K+  ++ +P ++
Sbjct: 78  DFVVPPLEGFWWSEGKFDLKDRDAWLWTSILRQ---PDFVTEEVLEWAKEVARKKKPDVD 134

Query: 617 TGHCKVFMESEDVGRTLDLSLLGSYDELYKKLAEMFGIENAETLSHLLYRDVTGAVK 673
           T   K+    E  G  +    +G + E    +AE       E L     R+ TGA++
Sbjct: 135 TSRVKLVRFEE--GECVQXXHVGPFSEEVHTVAEXHQFXETEGL-----RNDTGAIR 184


  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    0.135    0.419 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,810,947
Number of Sequences: 62578
Number of extensions: 929600
Number of successful extensions: 1586
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1584
Number of HSP's gapped (non-prelim): 6
length of query: 715
length of database: 14,973,337
effective HSP length: 106
effective length of query: 609
effective length of database: 8,340,069
effective search space: 5079102021
effective search space used: 5079102021
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 55 (25.8 bits)