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= 025407
         (253 letters)

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

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



>pdb|1AM9|A Chain A, Human Srebp-1a Bound To Ldl Receptor Promoter
 pdb|1AM9|B Chain B, Human Srebp-1a Bound To Ldl Receptor Promoter
 pdb|1AM9|C Chain C, Human Srebp-1a Bound To Ldl Receptor Promoter
 pdb|1AM9|D Chain D, Human Srebp-1a Bound To Ldl Receptor Promoter
          Length = 82

 Score = 29.6 bits (65), Expect = 1.6,   Method: Composition-based stats.
 Identities = 12/38 (31%), Positives = 26/38 (68%)

Query: 205 KLQDLVPNMDKQTNTADMLEEAVEYVKFLQKQIEELTE 242
           +L+DLV   + + N + +L +A++Y++FLQ   ++L +
Sbjct: 27  ELKDLVVGTEAKLNKSAVLRKAIDYIRFLQHSNQKLKQ 64


>pdb|1UKL|C Chain C, Crystal Structure Of Importin-Beta And Srebp-2 Complex
 pdb|1UKL|D Chain D, Crystal Structure Of Importin-Beta And Srebp-2 Complex
 pdb|1UKL|E Chain E, Crystal Structure Of Importin-Beta And Srebp-2 Complex
 pdb|1UKL|F Chain F, Crystal Structure Of Importin-Beta And Srebp-2 Complex
          Length = 61

 Score = 29.3 bits (64), Expect = 2.2,   Method: Composition-based stats.
 Identities = 11/31 (35%), Positives = 23/31 (74%)

Query: 205 KLQDLVPNMDKQTNTADMLEEAVEYVKFLQK 235
           +L+DLV   D + + + +L +A++Y+K+LQ+
Sbjct: 10  ELKDLVXGTDAKXHKSGVLRKAIDYIKYLQQ 40


>pdb|3K9W|A Chain A, Crystal Structure Of Phosphopantetheine
           Adenylyltransferase From Burkholderia Pseudomallei With
           Hydrolyzed 3'-Dephospho Coenzyme A
          Length = 187

 Score = 29.3 bits (64), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 19/67 (28%), Positives = 29/67 (43%)

Query: 109 SSYDYVDVSPNSNKRAREDNNTQFPSPTAKLNFHSHLKVEQSGQVPGGVSNLVDMDMEKL 168
           S ++Y       N+    D  T F +P+ +  F S   V +  Q+ G VS  V   +EK 
Sbjct: 114 SDFEYEFQMAGMNRYLLPDVETMFMTPSDQYQFISGTIVREIAQLGGDVSKFVFPSVEKW 173

Query: 169 LEDSVPC 175
           L + V  
Sbjct: 174 LTEKVAA 180


>pdb|3PXU|A Chain A, Crystal Structure Of Phosphopantetheine
           Adenylyltransferase From Burkholderia Pseudomallei Bound
           To Dephospho-Coenzyme A
          Length = 170

 Score = 28.9 bits (63), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 19/67 (28%), Positives = 29/67 (43%)

Query: 109 SSYDYVDVSPNSNKRAREDNNTQFPSPTAKLNFHSHLKVEQSGQVPGGVSNLVDMDMEKL 168
           S ++Y       N+    D  T F +P+ +  F S   V +  Q+ G VS  V   +EK 
Sbjct: 97  SDFEYEFQMAGMNRYLLPDVETMFMTPSDQYQFISGTIVREIAQLGGDVSKFVFPSVEKW 156

Query: 169 LEDSVPC 175
           L + V  
Sbjct: 157 LTEKVAA 163


  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
   0.312    0.128    0.370 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,087,111
Number of Sequences: 62578
Number of extensions: 216995
Number of successful extensions: 364
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 359
Number of HSP's gapped (non-prelim): 5
length of query: 253
length of database: 14,973,337
effective HSP length: 97
effective length of query: 156
effective length of database: 8,903,271
effective search space: 1388910276
effective search space used: 1388910276
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 50 (23.9 bits)