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= 009029
         (546 letters)

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

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



>pdb|2J0A|A Chain A, Structure Of The Catalytic Domain Of Mouse Manic Fringe
 pdb|2J0B|A Chain A, Structure Of The Catalytic Domain Of Mouse Manic Fringe In
           Complex With Udp And Manganese
          Length = 280

 Score = 36.6 bits (83), Expect = 0.038,   Method: Compositional matrix adjust.
 Identities = 28/104 (26%), Positives = 36/104 (34%), Gaps = 25/104 (24%)

Query: 219 NVRWFVLADDDTIFNSDNLVAVLSKYDPTEMVYIGTPS----------ESHSANTYFSHS 268
            +RWF   DDD   N   L+ +L  +     VY+G PS          +S          
Sbjct: 93  GLRWFCHVDDDNYVNPKALLQLLKTFPQDRDVYVGKPSLNRPIHASELQSKQRTKLVRFW 152

Query: 269 MAFGGGGIAISYPLA---------------EALSNIHDDCIDRY 297
            A GG G  I+  LA                AL  + DDC   Y
Sbjct: 153 FATGGAGFCINRQLALKMVPWASGSHFVDTSALIRLPDDCTVGY 196


>pdb|3DHP|A Chain A, Probing The Role Of Aromatic Residues At The Secondary
           Saccharide Binding Sites Of Human Salivary Alpha-Amylase
           In Substrate Hydrolysis And Bacterial Binding
          Length = 496

 Score = 29.3 bits (64), Expect = 5.4,   Method: Compositional matrix adjust.
 Identities = 14/41 (34%), Positives = 24/41 (58%), Gaps = 5/41 (12%)

Query: 472 ATGKDYLKRKVLCFPRSPPLNHVKNIQVLGFPLRKNWHLVP 512
           A GKDY++ K+  +     +NH+ +I V GF +  + H+ P
Sbjct: 169 ALGKDYVRSKIAEY-----MNHLIDIGVAGFRIDASKHMAP 204


>pdb|1KB3|A Chain A, Three Dimensional Structure Analysis Of The R195a Variant
           Of Human Pancreatic Alpha Amylase
          Length = 496

 Score = 28.5 bits (62), Expect = 9.0,   Method: Compositional matrix adjust.
 Identities = 19/63 (30%), Positives = 32/63 (50%), Gaps = 12/63 (19%)

Query: 457 DVKRHGNATVGSYARATG-------KDYLKRKVLCFPRSPPLNHVKNIQVLGFPLRKNWH 509
           D++ + +AT     R TG       KDY++ K+  +     +NH+ +I V GF L  + H
Sbjct: 147 DIENYNDATQVRDCRLTGLLDLALEKDYVRSKIAEY-----MNHLIDIGVAGFALDASKH 201

Query: 510 LVP 512
           + P
Sbjct: 202 MWP 204


>pdb|2GO1|A Chain A, Nad-Dependent Formate Dehydrogenase From Pseudomonas
           Sp.101
          Length = 401

 Score = 28.5 bits (62), Expect = 9.9,   Method: Compositional matrix adjust.
 Identities = 11/24 (45%), Positives = 16/24 (66%)

Query: 282 LAEALSNIHDDCIDRYPKLYGSDD 305
           +A+ L  ++DD +D YPK Y  DD
Sbjct: 1   MAKVLCVLYDDPVDGYPKTYARDD 24


  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
   0.324    0.139    0.447 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,524,024
Number of Sequences: 62578
Number of extensions: 616244
Number of successful extensions: 1770
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 1755
Number of HSP's gapped (non-prelim): 27
length of query: 546
length of database: 14,973,337
effective HSP length: 104
effective length of query: 442
effective length of database: 8,465,225
effective search space: 3741629450
effective search space used: 3741629450
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 54 (25.4 bits)