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= 019172
         (345 letters)

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

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



>pdb|3NWJ|A Chain A, Crystal Structure Of Shikimate Kinase From Arabidopsis
           Thaliana (Atsk2)
 pdb|3NWJ|B Chain B, Crystal Structure Of Shikimate Kinase From Arabidopsis
           Thaliana (Atsk2)
          Length = 250

 Score = 45.1 bits (105), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 41/141 (29%), Positives = 61/141 (43%), Gaps = 21/141 (14%)

Query: 148 IDEDQLVINLKKQDPELKWPDIVESWESLTAGSMQLLKGTSIFLVGDSTEVNEKVALELA 207
            DE+Q +  LKK+  E+K                  L G S++LVG        V   +A
Sbjct: 28  FDEEQQI--LKKKAEEVK----------------PYLNGRSMYLVGMMGSGKTTVGKIMA 69

Query: 208 VGLGYTPLSTKELLETFAKQTIDSWMLAEGSDSVVN-GECDVLESLSSHVRAVVATLGGQ 266
             LGYT      L+E   K T  + +     +SV    E + L+ LS     VV + GG 
Sbjct: 70  RSLGYTFFDCDTLIEQAMKGTSVAEIFEHFGESVFREKETEALKKLSLMYHQVVVSTGG- 128

Query: 267 QGAAARADKWQHLYAGFTVWL 287
            GA  R   W++++ G ++WL
Sbjct: 129 -GAVIRPINWKYMHKGISIWL 148


>pdb|1SHK|A Chain A, The Three-dimensional Structure Of Shikimate Kinase From
           Erwinia Chrysanthemi
 pdb|2SHK|A Chain A, The Three-Dimensional Structure Of Shikimate Kinase From
           Erwinia Chrysanthemi Complexed With Adp
 pdb|1SHK|B Chain B, The Three-dimensional Structure Of Shikimate Kinase From
           Erwinia Chrysanthemi
 pdb|2SHK|B Chain B, The Three-Dimensional Structure Of Shikimate Kinase From
           Erwinia Chrysanthemi Complexed With Adp
          Length = 173

 Score = 33.1 bits (74), Expect = 0.25,   Method: Compositional matrix adjust.
 Identities = 25/77 (32%), Positives = 38/77 (49%), Gaps = 1/77 (1%)

Query: 189 IFLVGDSTEVNEKVALELAVGLGYTPLSTKELLETFAKQTIDSWMLAEGSDSVVNGECDV 248
           IF+VG        V  ELA  LGY  + T   ++  +  T+   + AEG       E + 
Sbjct: 5   IFMVGARGCGKTTVGRELARALGYEFVDTDIFMQHTSGMTVADVVAAEGWPGFRRRESEA 64

Query: 249 LESLSSHVRAVVATLGG 265
           L+++++  R VVAT GG
Sbjct: 65  LQAVATPNR-VVATGGG 80


>pdb|1E6C|A Chain A, K15m Mutant Of Shikimate Kinase From Erwinia Chrysanthemi
 pdb|1E6C|B Chain B, K15m Mutant Of Shikimate Kinase From Erwinia Chrysanthemi
          Length = 173

 Score = 32.0 bits (71), Expect = 0.56,   Method: Compositional matrix adjust.
 Identities = 25/77 (32%), Positives = 38/77 (49%), Gaps = 1/77 (1%)

Query: 189 IFLVGDSTEVNEKVALELAVGLGYTPLSTKELLETFAKQTIDSWMLAEGSDSVVNGECDV 248
           IF+VG        V  ELA  LGY  + T   ++  +  T+   + AEG       E + 
Sbjct: 5   IFMVGARGCGMTTVGRELARALGYEFVDTDIFMQHTSGMTVADVVAAEGWPGFRRRESEA 64

Query: 249 LESLSSHVRAVVATLGG 265
           L+++++  R VVAT GG
Sbjct: 65  LQAVATPNR-VVATGGG 80


>pdb|1Q25|A Chain A, Crystal Structure Of N-terminal 3 Domains Of Ci-mpr
 pdb|1SYO|A Chain A, N-Terminal 3 Domains Of Ci-Mpr Bound To Mannose
           6-Phosphate
 pdb|1SYO|B Chain B, N-Terminal 3 Domains Of Ci-Mpr Bound To Mannose
           6-Phosphate
 pdb|1SZ0|A Chain A, N-Terminal 3 Domains Of Ci-Mpr Bound To Mannose
           6-Phosphate
 pdb|1SZ0|B Chain B, N-Terminal 3 Domains Of Ci-Mpr Bound To Mannose
           6-Phosphate
          Length = 432

 Score = 30.0 bits (66), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 32/140 (22%), Positives = 59/140 (42%), Gaps = 16/140 (11%)

Query: 21  ISKSETQHFSSPRHSVSIFKPIFISSSLHKSTNVVPIKTHDRRRFTCSNSLSSIPANTSQ 80
           ++ ++  H+   R + +  K IF      K+   VP    DR      + L+ +   +  
Sbjct: 106 VTATDCVHYFEWRTTAACKKNIF------KANKEVPCYAFDRELK--KHDLNPLIKTSGA 157

Query: 81  YEFSDGSAEIELRLQLGSLEIQSSKDIFVDADGTCLTVRVNRSGSFITLIETNQLFDKIK 140
           Y   D   +        SL I   +DI V    +   VRV  +G+   L+  ++ FD  +
Sbjct: 158 YLVDDSDPDT-------SLFINVCRDIEV-LRASSPQVRVCPTGAAACLVRGDRAFDVGR 209

Query: 141 PTETIWYIDEDQLVINLKKQ 160
           P E +  +  D+LV++  K+
Sbjct: 210 PQEGLKLVSNDRLVLSYVKE 229


  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
   0.316    0.129    0.368 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,249,248
Number of Sequences: 62578
Number of extensions: 348679
Number of successful extensions: 798
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 796
Number of HSP's gapped (non-prelim): 11
length of query: 345
length of database: 14,973,337
effective HSP length: 100
effective length of query: 245
effective length of database: 8,715,537
effective search space: 2135306565
effective search space used: 2135306565
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: 52 (24.6 bits)