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= 033306
         (122 letters)

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

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



>pdb|3GFB|A Chain A, L-Threonine Dehydrogenase (Tktdh) From The
           Hyperthermophilic Archaeon Thermococcus Kodakaraensis
 pdb|3GFB|B Chain B, L-Threonine Dehydrogenase (Tktdh) From The
           Hyperthermophilic Archaeon Thermococcus Kodakaraensis
 pdb|3GFB|C Chain C, L-Threonine Dehydrogenase (Tktdh) From The
           Hyperthermophilic Archaeon Thermococcus Kodakaraensis
 pdb|3GFB|D Chain D, L-Threonine Dehydrogenase (Tktdh) From The
           Hyperthermophilic Archaeon Thermococcus Kodakaraensis
          Length = 350

 Score = 28.5 bits (62), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 16/43 (37%), Positives = 19/43 (44%), Gaps = 1/43 (2%)

Query: 77  KNLWKNRQDLKVEDAGIAALFGLECFAWFCAGEIVGRGFTFTG 119
           KN WKN +D+  E A +    G        AG I GR    TG
Sbjct: 134 KNAWKNPKDMPPEYAALQEPLG-NAVDTVLAGPIAGRSTLITG 175


>pdb|2DQ4|A Chain A, Crystal Structure Of Threonine 3-Dehydrogenase
 pdb|2DQ4|B Chain B, Crystal Structure Of Threonine 3-Dehydrogenase
 pdb|2EJV|A Chain A, Crystal Structure Of Threonine 3-Dehydrogenase Complexed
           With Nad+
 pdb|2EJV|B Chain B, Crystal Structure Of Threonine 3-Dehydrogenase Complexed
           With Nad+
          Length = 343

 Score = 26.6 bits (57), Expect = 4.2,   Method: Compositional matrix adjust.
 Identities = 13/43 (30%), Positives = 18/43 (41%)

Query: 77  KNLWKNRQDLKVEDAGIAALFGLECFAWFCAGEIVGRGFTFTG 119
           +N W N +DL  E A I   FG      +    + G+    TG
Sbjct: 130 ENAWVNPKDLPFEVAAILEPFGNAVHTVYAGSGVSGKSVLITG 172


>pdb|2AU1|A Chain A, Crystal Structure Of Group A Streptococcus Mac-1
           Orthorhombic Form
          Length = 292

 Score = 26.2 bits (56), Expect = 4.5,   Method: Compositional matrix adjust.
 Identities = 14/48 (29%), Positives = 26/48 (54%), Gaps = 1/48 (2%)

Query: 26  YYKQLLEQNKQYIQEPPTVEKCNLLSKQLFYTRLASIPTRREAFLKEL 73
           ++ Q  +Q K+Y++E P  +K N   +Q+F  + A I T+      +L
Sbjct: 59  WFDQNKDQIKRYLEEHPEKQKINFNGEQMFDVKEA-IDTKNHQLDSKL 105


>pdb|2AVW|A Chain A, Crystal Structure Of Monoclinic Form Of Streptococcus
           Mac-1
 pdb|2AVW|B Chain B, Crystal Structure Of Monoclinic Form Of Streptococcus
           Mac-1
 pdb|2AVW|C Chain C, Crystal Structure Of Monoclinic Form Of Streptococcus
           Mac-1
 pdb|2AVW|D Chain D, Crystal Structure Of Monoclinic Form Of Streptococcus
           Mac-1
 pdb|2AVW|E Chain E, Crystal Structure Of Monoclinic Form Of Streptococcus
           Mac-1
 pdb|2AVW|F Chain F, Crystal Structure Of Monoclinic Form Of Streptococcus
           Mac-1
          Length = 311

 Score = 26.2 bits (56), Expect = 5.2,   Method: Compositional matrix adjust.
 Identities = 14/48 (29%), Positives = 26/48 (54%), Gaps = 1/48 (2%)

Query: 26  YYKQLLEQNKQYIQEPPTVEKCNLLSKQLFYTRLASIPTRREAFLKEL 73
           ++ Q  +Q K+Y++E P  +K N   +Q+F  + A I T+      +L
Sbjct: 78  WFDQNKDQIKRYLEEHPEKQKINFNGEQMFDVKEA-IDTKNHQLDSKL 124


>pdb|1Y08|A Chain A, Structure Of The Streptococcal Endopeptidase Ides, A Novel
           Cysteine Proteinase With Strict Specificity For Igg
          Length = 323

 Score = 26.2 bits (56), Expect = 5.3,   Method: Compositional matrix adjust.
 Identities = 14/48 (29%), Positives = 26/48 (54%), Gaps = 1/48 (2%)

Query: 26  YYKQLLEQNKQYIQEPPTVEKCNLLSKQLFYTRLASIPTRREAFLKEL 73
           ++ Q  +Q K+Y++E P  +K N   +Q+F  + A I T+      +L
Sbjct: 90  WFDQNKDQIKRYLEEHPEKQKINFNGEQMFDVKEA-IDTKNHQLDSKL 136


  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
   0.322    0.135    0.410 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,473,072
Number of Sequences: 62578
Number of extensions: 120987
Number of successful extensions: 286
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 282
Number of HSP's gapped (non-prelim): 7
length of query: 122
length of database: 14,973,337
effective HSP length: 84
effective length of query: 38
effective length of database: 9,716,785
effective search space: 369237830
effective search space used: 369237830
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 45 (21.9 bits)