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= 038921
         (197 letters)

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

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



>pdb|3GG4|A Chain A, The Crystal Structure Of Glycerol Kinase From Yersinia
           Pseudotuberculosis
 pdb|3GG4|B Chain B, The Crystal Structure Of Glycerol Kinase From Yersinia
           Pseudotuberculosis
 pdb|3L0Q|A Chain A, The Crystal Structure Of Xlylulose Kinase From Yersinia
           Pseudotuberculosis
 pdb|3L0Q|B Chain B, The Crystal Structure Of Xlylulose Kinase From Yersinia
           Pseudotuberculosis
          Length = 554

 Score = 32.7 bits (73), Expect = 0.12,   Method: Compositional matrix adjust.
 Identities = 20/54 (37%), Positives = 23/54 (42%), Gaps = 13/54 (24%)

Query: 86  STVIKAKIASHPCYPRLLEA-------------YIDCQKVGAPPEIAYLLDAIR 126
             +I   I SHPCYP LLE              YI  Q  G P  IA+L + I 
Sbjct: 328 GALIDHIIQSHPCYPALLEQAKNKGETIYEALNYILRQXAGEPENIAFLTNDIH 381


>pdb|3A2K|A Chain A, Crystal Structure Of Tils Complexed With Trna
 pdb|3A2K|B Chain B, Crystal Structure Of Tils Complexed With Trna
          Length = 464

 Score = 27.7 bits (60), Expect = 4.2,   Method: Compositional matrix adjust.
 Identities = 25/90 (27%), Positives = 42/90 (46%), Gaps = 6/90 (6%)

Query: 103 LEAYIDCQKVGAPPEIAYLLDAIRSEKDLYRRDSVPTCFGADPELDEFMETYSDMLAKYK 162
           +EAY  C+++G  P      +     ++ +R   VP     +P L E  + YS+M+A+ +
Sbjct: 175 IEAY--CRQMGLSPRCDPSNEKDDYTRNRFRHHIVPLLRQENPRLHERFQQYSEMMAEDE 232

Query: 163 SDLARPFDEATTFLNKV-ELQLRNLCTTTA 191
             L    + A   LNKV E Q R+   +  
Sbjct: 233 QFLE---ELAADALNKVMEKQHRDAALSIG 259


>pdb|2VQD|A Chain A, Crystal Structure Of Biotin Carboxylase From Pseudomonas
           Aeruginosa Complexed With Ampcp
 pdb|2C00|A Chain A, Crystal Structure Of Biotin Carboxylase From Pseudomonas
           Aeruginosa In Apo Form
 pdb|2C00|B Chain B, Crystal Structure Of Biotin Carboxylase From Pseudomonas
           Aeruginosa In Apo Form
          Length = 464

 Score = 27.3 bits (59), Expect = 6.3,   Method: Compositional matrix adjust.
 Identities = 23/73 (31%), Positives = 30/73 (41%), Gaps = 8/73 (10%)

Query: 89  IKAKIASHPCYPRLLEAYIDCQK--------VGAPPEIAYLLDAIRSEKDLYRRDSVPTC 140
           +    A HP Y  L E     ++        VG   E+  L+    S KD  +R  VPT 
Sbjct: 72  VTGATAIHPGYGFLAENADFAEQIERSGFTFVGPTAEVIRLMGDKVSAKDAMKRAGVPTV 131

Query: 141 FGADPELDEFMET 153
            G+D  L E  ET
Sbjct: 132 PGSDGPLPEDEET 144


  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    0.134    0.406 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,109,371
Number of Sequences: 62578
Number of extensions: 181635
Number of successful extensions: 442
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 440
Number of HSP's gapped (non-prelim): 3
length of query: 197
length of database: 14,973,337
effective HSP length: 94
effective length of query: 103
effective length of database: 9,091,005
effective search space: 936373515
effective search space used: 936373515
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: 49 (23.5 bits)