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= 023845
         (276 letters)

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

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



>pdb|2AXO|A Chain A, X-Ray Crystal Structure Of Protein Agr_c_4864 From
           Agrobacterium Tumefaciens. Northeast Structural Genomics
           Consortium Target Atr35
          Length = 270

 Score = 86.7 bits (213), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 69/226 (30%), Positives = 106/226 (46%), Gaps = 24/226 (10%)

Query: 35  AEEMRRGGAVLVELFSSQGCKTSPEA-EILVSRLGRGDFELGVPVIVLAYHVDYWDYMGW 93
           A+E  +G   +VELF+SQGC + P A E L   + +GD      V+ L+YHVDYW+Y+GW
Sbjct: 38  AQEAVKG---VVELFTSQGCASCPPADEALRKXIQKGD------VVGLSYHVDYWNYLGW 88

Query: 94  KDPYGSSQWTVRQKAYVEALNLDTMFTPQLVFQGRVQCQGNDQDGMLSAIANAPKFPAPS 153
            D   S + T RQ  Y  AL  + ++TPQ +  GR   +G D  G+   + +A K     
Sbjct: 89  TDSLASKENTERQYGYXRALGRNGVYTPQAILNGRDHVKGADVRGIYDRL-DAFKREGQG 147

Query: 154 FQATFERLTSGSESLQVSLTGSLRSKVDNQGANIMVALYESGLVTNCPAGENKGRVLSND 213
                    +G E +++ +         N  A+++VA +      +   GEN+G+  S  
Sbjct: 148 LNVPVSSKFAGDE-VEIDIGAG------NGKADVVVAYFTREQTVDVQKGENQGKKXSYW 200

Query: 214 YVVRKLEKLCTVKDISPKKHVSGTVTFPLWEGFNSGKCGVAVFVQN 259
           + V  ++ +    D SP      TV  P        K G AV +Q 
Sbjct: 201 HSVYDVQTVGXW-DGSPX-----TVKLPASVVAKVKKGGCAVLLQT 240


>pdb|2J2C|A Chain A, Crystal Structure Of Human Cytosolic 5'-Nucleotidase Ii
           (Nt5c2, Cn-Ii)
 pdb|2JC9|A Chain A, Crystal Structure Of Human Cytosolic 5'-Nucleotidase Ii In
           Complex With Adenosine
 pdb|4H4B|A Chain A, Human Cytosolic 5'-nucleotidase Ii In Complex With
           Anthraquinone-2,6- Disulfonic Acid
          Length = 555

 Score = 28.9 bits (63), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 13/36 (36%), Positives = 22/36 (61%), Gaps = 1/36 (2%)

Query: 128 RVQCQGNDQDGMLSAIANAPKFPAPSFQATFERLTS 163
           +++C G D D  L A+  +P++ +  F+ T ERL S
Sbjct: 64  KIKCFGFDMDYTL-AVYKSPEYESLGFELTVERLVS 98


>pdb|3O59|X Chain X, Dna Polymerase D Large Subunit Dp2(1-300) From Pyrococcus
           Horikoshii
          Length = 300

 Score = 27.3 bits (59), Expect = 9.4,   Method: Compositional matrix adjust.
 Identities = 22/84 (26%), Positives = 35/84 (41%), Gaps = 1/84 (1%)

Query: 137 DGMLSAIANAPKFPAPSFQATFERLTSGSESLQVSLTGSLRSKVDNQGANI-MVALYESG 195
           DG    + +  K+   + +     LT G  S  +    S++ K +    N   +ALY +G
Sbjct: 89  DGKFGDLGSKEKYAEQAVRTALAILTEGVVSAPIEGIASVKIKRNTWSDNSEYLALYYAG 148

Query: 196 LVTNCPAGENKGRVLSNDYVVRKL 219
            + +         VL  DYV RKL
Sbjct: 149 PIRSSGGTAQALSVLVGDYVRRKL 172


  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
   0.318    0.133    0.399 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,106,846
Number of Sequences: 62578
Number of extensions: 330302
Number of successful extensions: 704
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 702
Number of HSP's gapped (non-prelim): 7
length of query: 276
length of database: 14,973,337
effective HSP length: 97
effective length of query: 179
effective length of database: 8,903,271
effective search space: 1593685509
effective search space used: 1593685509
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)