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= 026351
         (240 letters)

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

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



>pdb|3KEO|A Chain A, Crystal Structure Of A Rex-Family Transcriptional
           Regulatory Protein From Streptococcus Agalactiae
           Complexed With Nad+
 pdb|3KEO|B Chain B, Crystal Structure Of A Rex-Family Transcriptional
           Regulatory Protein From Streptococcus Agalactiae
           Complexed With Nad+
 pdb|3KEQ|A Chain A, Crystal Structure Of A Rex-Family Transcriptional
           Regulatory Protein From Streptococcus Agalactiae
           Complexed With Nad+
 pdb|3KEQ|B Chain B, Crystal Structure Of A Rex-Family Transcriptional
           Regulatory Protein From Streptococcus Agalactiae
           Complexed With Nad+
 pdb|3KET|A Chain A, Crystal Structure Of A Rex-Family Transcriptional
           Regulatory Protein From Streptococcus Agalactiae Bound
           To A Palindromic Operator
          Length = 212

 Score = 28.9 bits (63), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 14/22 (63%), Positives = 16/22 (72%)

Query: 98  IITVPDTEAAEVAGILADYGIE 119
           I+TVP TEA EVA IL   GI+
Sbjct: 153 ILTVPSTEAQEVADILVKAGIK 174


>pdb|3OGZ|A Chain A, Protein Structure Of Usp From L. Major In Apo-Form
          Length = 630

 Score = 28.5 bits (62), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 17/39 (43%), Positives = 23/39 (58%), Gaps = 2/39 (5%)

Query: 64  EVAAGAISMGLGGYLAAKSEADHYARELKREQEEIITVP 102
           E AAG ++ G G Y AA  EA  Y  EL+R + + I +P
Sbjct: 438 EEAAGLVAQGNGAYCAATGEAAFY--ELQRRRLKAIGLP 474


>pdb|3OH0|A Chain A, Protein Structure Of Usp From L. Major Bound To
           Uridine-5'- Triphosphate
 pdb|3OH1|A Chain A, Protein Structure Of Usp From L. Major Bound To
           Uridine-5'- Diphosphate-Galacturonic Acid
 pdb|3OH2|A Chain A, Protein Structure Of Usp From L. Major Bound To
           Uridine-5'- Diphosphate-Galactose
 pdb|3OH3|A Chain A, Protein Structure Of Usp From L. Major Bound To
           Uridine-5'-Diphosphate -Arabinose
 pdb|3OH4|A Chain A, Protein Structure Of Usp From L. Major Bound To
           Uridine-5'-Diphosphate Glucose
          Length = 641

 Score = 28.5 bits (62), Expect = 3.3,   Method: Compositional matrix adjust.
 Identities = 17/39 (43%), Positives = 23/39 (58%), Gaps = 2/39 (5%)

Query: 64  EVAAGAISMGLGGYLAAKSEADHYARELKREQEEIITVP 102
           E AAG ++ G G Y AA  EA  Y  EL+R + + I +P
Sbjct: 438 EEAAGLVAQGNGAYCAATGEAAFY--ELQRRRLKAIGLP 474


>pdb|3FF4|A Chain A, Crystal Structure Of Uncharacterized Protein Chu_1412
          Length = 122

 Score = 28.1 bits (61), Expect = 5.0,   Method: Compositional matrix adjust.
 Identities = 14/44 (31%), Positives = 24/44 (54%)

Query: 77  YLAAKSEADHYARELKREQEEIITVPDTEAAEVAGILADYGIEP 120
           Y+  +++   Y   L  + + +I  P TE  E+  IL++ GIEP
Sbjct: 65  YINPQNQLSEYNYILSLKPKRVIFNPGTENEELEEILSENGIEP 108


  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    0.135    0.387 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,016,317
Number of Sequences: 62578
Number of extensions: 219001
Number of successful extensions: 662
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 657
Number of HSP's gapped (non-prelim): 12
length of query: 240
length of database: 14,973,337
effective HSP length: 96
effective length of query: 144
effective length of database: 8,965,849
effective search space: 1291082256
effective search space used: 1291082256
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: 50 (23.9 bits)