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= 009998
         (520 letters)

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

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



>pdb|3VKH|A Chain A, X-Ray Structure Of A Functional Full-Length Dynein Motor
            Domain
 pdb|3VKH|B Chain B, X-Ray Structure Of A Functional Full-Length Dynein Motor
            Domain
          Length = 3367

 Score = 30.8 bits (68), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 27/89 (30%), Positives = 44/89 (49%), Gaps = 14/89 (15%)

Query: 223  MRAKIQESMGKKEDIQDQVKLMGSDLDGVKKESQAV-----WAK----ISHLEGKVKALD 273
            M  KI+E++ K   ++D     G D + V + S+A      WA      S +  ++K L 
Sbjct: 2081 MTPKIREAITKGY-LEDP----GFDYETVNRASKACGPLVKWATAQTYYSEILDRIKPLR 2135

Query: 274  EEIEALQQEVNDVAEKRDKAFANIKELRK 302
            EE+E L+   N++  K+D+  A I  L K
Sbjct: 2136 EEVEQLENAANELKLKQDEIVATITALEK 2164


>pdb|2EWV|A Chain A, Crystal Structure Of The Pilus Retraction Motor Pilt And
           Bound Adp
          Length = 372

 Score = 30.0 bits (66), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 21/69 (30%), Positives = 35/69 (50%), Gaps = 3/69 (4%)

Query: 123 RGDLAAQLRSLKTEGRQYKSV-MDDKRKEMEPLHQALGKLRTTNNARSGGICSSEEELDD 181
           RG +AA LRSL  E  ++K + + DK  E+   H+ +G +  T    SG   +    +D 
Sbjct: 102 RGSVAAALRSLPAEIPEFKKLGLPDKVLEL--CHRKMGLILVTGPTGSGKSTTIASMIDY 159

Query: 182 LIRSLQYRI 190
           + ++  Y I
Sbjct: 160 INQTKSYHI 168


>pdb|2EWW|A Chain A, Crystal Structure Of The Pilus Retraction Motor Pilt And
           Bound Atp
          Length = 372

 Score = 29.3 bits (64), Expect = 5.9,   Method: Compositional matrix adjust.
 Identities = 21/69 (30%), Positives = 34/69 (49%), Gaps = 3/69 (4%)

Query: 123 RGDLAAQLRSLKTEGRQYKSV-MDDKRKEMEPLHQALGKLRTTNNARSGGICSSEEELDD 181
           RG +AA LRSL  E  ++K + + DK  E+   H+  G +  T    SG   +    +D 
Sbjct: 102 RGSVAAALRSLPAEIPEFKKLGLPDKVLEL--CHRKXGLILVTGPTGSGKSTTIASXIDY 159

Query: 182 LIRSLQYRI 190
           + ++  Y I
Sbjct: 160 INQTKSYHI 168


>pdb|2GSZ|A Chain A, Structure Of A. Aeolicus Pilt With 6 Monomers Per
           Asymmetric Unit
 pdb|2GSZ|B Chain B, Structure Of A. Aeolicus Pilt With 6 Monomers Per
           Asymmetric Unit
 pdb|2GSZ|C Chain C, Structure Of A. Aeolicus Pilt With 6 Monomers Per
           Asymmetric Unit
 pdb|2GSZ|D Chain D, Structure Of A. Aeolicus Pilt With 6 Monomers Per
           Asymmetric Unit
 pdb|2GSZ|E Chain E, Structure Of A. Aeolicus Pilt With 6 Monomers Per
           Asymmetric Unit
 pdb|2GSZ|F Chain F, Structure Of A. Aeolicus Pilt With 6 Monomers Per
           Asymmetric Unit
          Length = 363

 Score = 28.9 bits (63), Expect = 6.5,   Method: Compositional matrix adjust.
 Identities = 21/69 (30%), Positives = 34/69 (49%), Gaps = 3/69 (4%)

Query: 123 RGDLAAQLRSLKTEGRQYKSV-MDDKRKEMEPLHQALGKLRTTNNARSGGICSSEEELDD 181
           RG +AA LRSL  E  ++K + + DK  E+   H+  G +  T    SG   +    +D 
Sbjct: 91  RGSVAAALRSLPAEIPEFKKLGLPDKVLEL--CHRKXGLILVTGPTGSGKSTTIASXIDY 148

Query: 182 LIRSLQYRI 190
           + ++  Y I
Sbjct: 149 INQTKSYHI 157


  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
   0.311    0.129    0.346 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,483,496
Number of Sequences: 62578
Number of extensions: 538641
Number of successful extensions: 1486
Number of sequences better than 100.0: 66
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 52
Number of HSP's that attempted gapping in prelim test: 1436
Number of HSP's gapped (non-prelim): 94
length of query: 520
length of database: 14,973,337
effective HSP length: 103
effective length of query: 417
effective length of database: 8,527,803
effective search space: 3556093851
effective search space used: 3556093851
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 54 (25.4 bits)