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= 023619
         (280 letters)

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

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



>pdb|1DML|A Chain A, Crystal Structure Of Herpes Simplex Ul42 Bound To The C-
           Terminus Of Hsv Pol
 pdb|1DML|C Chain C, Crystal Structure Of Herpes Simplex Ul42 Bound To The C-
           Terminus Of Hsv Pol
 pdb|1DML|E Chain E, Crystal Structure Of Herpes Simplex Ul42 Bound To The C-
           Terminus Of Hsv Pol
 pdb|1DML|G Chain G, Crystal Structure Of Herpes Simplex Ul42 Bound To The C-
           Terminus Of Hsv Pol
          Length = 319

 Score = 28.9 bits (63), Expect = 3.7,   Method: Compositional matrix adjust.
 Identities = 17/46 (36%), Positives = 23/46 (50%), Gaps = 3/46 (6%)

Query: 13  KAIGAPFATPLRFEISINAELLALVLPFEIAFSILNARKSGWSSST 58
            A GA  ATP  FE+ +N +         + F+   AR+ G SSST
Sbjct: 190 NATGADSATPTTFELGVNGKFSVFTTSTCVTFA---AREEGVSSST 232


>pdb|2CZG|A Chain A, Crystal Structure Of Probable Phosphoribosylglycinamide
           Formyl Transferase (Ph0318) From Pyrococcus Horikoshii
           Ot3
 pdb|2CZG|B Chain B, Crystal Structure Of Probable Phosphoribosylglycinamide
           Formyl Transferase (Ph0318) From Pyrococcus Horikoshii
           Ot3
 pdb|2DWC|A Chain A, Crystal Structure Of Probable Phosphoribosylglycinamide
           Formyl Transferase From Pyrococcus Horikoshii Ot3
           Complexed With Adp
 pdb|2DWC|B Chain B, Crystal Structure Of Probable Phosphoribosylglycinamide
           Formyl Transferase From Pyrococcus Horikoshii Ot3
           Complexed With Adp
          Length = 433

 Score = 28.5 bits (62), Expect = 4.2,   Method: Compositional matrix adjust.
 Identities = 13/33 (39%), Positives = 22/33 (66%)

Query: 168 IQNHQHSSLKLREQTERAKRDSVRHAKRVSDLL 200
           I    H+S +  E +E+A+R+  R AKR++D+L
Sbjct: 238 IDGDYHASWQPAEISEKAEREVYRIAKRITDVL 270


>pdb|3T34|A Chain A, Arabidopsis Thaliana Dynamin-Related Protein 1a (Atdrp1a)
           In Prefission State
 pdb|3T34|B Chain B, Arabidopsis Thaliana Dynamin-Related Protein 1a (Atdrp1a)
           In Prefission State
 pdb|3T35|A Chain A, Arabidopsis Thaliana Dynamin-Related Protein 1a In
           Postfission State
 pdb|3T35|B Chain B, Arabidopsis Thaliana Dynamin-Related Protein 1a In
           Postfission State
 pdb|3T35|C Chain C, Arabidopsis Thaliana Dynamin-Related Protein 1a In
           Postfission State
 pdb|3T35|D Chain D, Arabidopsis Thaliana Dynamin-Related Protein 1a In
           Postfission State
          Length = 360

 Score = 28.5 bits (62), Expect = 4.3,   Method: Compositional matrix adjust.
 Identities = 11/35 (31%), Positives = 22/35 (62%)

Query: 94  NYRGLKPKFQEEKGRKTGKSKGILKIPERKTMSSP 128
           ++  ++ + Q+E  R+TG+SK I  +P   ++ SP
Sbjct: 99  DFAAVRKEIQDETDRETGRSKAISSVPIHLSIYSP 133


  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
   0.317    0.132    0.375 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,785,693
Number of Sequences: 62578
Number of extensions: 228396
Number of successful extensions: 705
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 703
Number of HSP's gapped (non-prelim): 5
length of query: 280
length of database: 14,973,337
effective HSP length: 98
effective length of query: 182
effective length of database: 8,840,693
effective search space: 1609006126
effective search space used: 1609006126
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)