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= 006506
         (643 letters)

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

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



>pdb|3DOD|A Chain A, Crystal Structure Of Plp Bound 7,8-diaminopelargonic Acid
           Synthase In Bacillus Subtilis
 pdb|3DOD|B Chain B, Crystal Structure Of Plp Bound 7,8-diaminopelargonic Acid
           Synthase In Bacillus Subtilis
 pdb|3DRD|A Chain A, Crystal Structure Of 7,8 Diaminopelargonic Acid Synthase
           Apoenzyme In Bacillus Subtilis
 pdb|3DRD|B Chain B, Crystal Structure Of 7,8 Diaminopelargonic Acid Synthase
           Apoenzyme In Bacillus Subtilis
          Length = 448

 Score = 32.3 bits (72), Expect = 0.91,   Method: Compositional matrix adjust.
 Identities = 14/41 (34%), Positives = 21/41 (51%), Gaps = 2/41 (4%)

Query: 59  NGYVPVHKTSIVSDL--KIYDKYENSETFNHAENYRSTRIN 97
            GY+P+  T    D+    YD YEN +TF H  +Y   ++ 
Sbjct: 284 GGYLPIAVTFATEDIYKAFYDDYENLKTFFHGHSYTGNQLG 324


>pdb|3DU4|A Chain A, Crystal Structure Of 7-Keto-8-Aminopelargonic Acid Bound
           7,8- Diaminopelargonic Acid Synthase In Bacillus
           Subtilis
 pdb|3DU4|B Chain B, Crystal Structure Of 7-Keto-8-Aminopelargonic Acid Bound
           7,8- Diaminopelargonic Acid Synthase In Bacillus
           Subtilis
          Length = 448

 Score = 32.3 bits (72), Expect = 0.94,   Method: Compositional matrix adjust.
 Identities = 14/41 (34%), Positives = 21/41 (51%), Gaps = 2/41 (4%)

Query: 59  NGYVPVHKTSIVSDL--KIYDKYENSETFNHAENYRSTRIN 97
            GY+P+  T    D+    YD YEN +TF H  +Y   ++ 
Sbjct: 284 GGYLPIAVTFATEDIYKAFYDDYENLKTFFHGHSYTGNQLG 324


>pdb|1G9R|A Chain A, Crystal Structure Of Galactosyltransferase Lgtc In Complex
           With Mn And Udp-2f-Galactose
 pdb|1GA8|A Chain A, Crystal Structure Of Galacosyltransferase Lgtc In Complex
           With Donor And Acceptor Sugar Analogs
          Length = 311

 Score = 31.2 bits (69), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 33/142 (23%), Positives = 54/142 (38%), Gaps = 13/142 (9%)

Query: 483 SALWDINMGGKVNGAVQSCSVSLGQLKSYLGENSYDKNSCAWMSGLNIVDLARWRELDLT 542
           + LWD ++G    GA  S  + + + + Y  +         + +G+ +++L +WR  D+ 
Sbjct: 113 TPLWDTDLGDNWLGA--SIDLFVERQEGYKQKIGXADGEYYFNAGVLLINLKKWRRHDIF 170

Query: 543 KTYQRLV---REVSMGEES-------KEAVALRGSLLTFQDLVYALDGVWALSGLGHD-Y 591
           K     V   ++V   ++        K  V    S   F    YA    W  S      Y
Sbjct: 171 KXSSEWVEQYKDVXQYQDQDILNGLFKGGVCYANSRFNFXPTNYAFXANWFASRHTDPLY 230

Query: 592 GLNIEAIKKAAVLHYNGNMKPW 613
                 +   AV HY G  KPW
Sbjct: 231 RDRTNTVXPVAVSHYCGPAKPW 252


>pdb|1VZO|A Chain A, The Structure Of The N-Terminal Kinase Domain Of Msk1
           Reveals A Novel Autoinhibitory Conformation For A Dual
           Kinase Protein
          Length = 355

 Score = 30.0 bits (66), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 22/71 (30%), Positives = 34/71 (47%), Gaps = 16/71 (22%)

Query: 281 RQILDMTNDEANFHMKQSAFLYQL--AVQTMPKSLHCLSMRLTVEYFKSPSVVMELSQAD 338
           RQ+L+        H++QS FL  L  A QT  K      + L ++Y     +   LSQ +
Sbjct: 109 RQVLE--------HIRQSPFLVTLHYAFQTETK------LHLILDYINGGELFTHLSQRE 154

Query: 339 RFSDPSLHHYV 349
           RF++  +  YV
Sbjct: 155 RFTEHEVQIYV 165


  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    0.132    0.389 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,148,041
Number of Sequences: 62578
Number of extensions: 728523
Number of successful extensions: 1714
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1709
Number of HSP's gapped (non-prelim): 11
length of query: 643
length of database: 14,973,337
effective HSP length: 105
effective length of query: 538
effective length of database: 8,402,647
effective search space: 4520624086
effective search space used: 4520624086
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: 55 (25.8 bits)