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= 001844
         (1006 letters)

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

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



>pdb|3RIP|A Chain A, Crystal Structure Of Human Gamma-Tubulin Complex Protein 4
           (Gcp4)
          Length = 677

 Score = 82.0 bits (201), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 87/368 (23%), Positives = 146/368 (39%), Gaps = 28/368 (7%)

Query: 639 VYIKKQVDHIGKLILSNLMNDWRLMDE-------LAVLRAIYLLGSGDLLQHFLTVIFNK 691
           V  ++ VD I   +  +L   W+LM E       L +++  YLLG G+L Q F+    + 
Sbjct: 323 VDFEQVVDRIRSTVAEHL---WKLMVEESDLLGQLKIIKDFYLLGRGELFQAFIDTAQHM 379

Query: 692 LDKGENWDDDFELNTLLQESIRNSADGKLLSAPDALEVLITESHGSNSDEQPSMANLAST 751
           L        + ++N   Q+S            P     +  E HG    +        S 
Sbjct: 380 LKTPPTAVTEHDVNVAFQQSAHKVLLDDDNLLPLLHLTI--EYHGKEHKDATQAREGPS- 436

Query: 752 PRKSHPHSFGIDGLDLLKFTYKVSWPLELIANMEAIKKYNQVMGFLLKVKRAKFALDKAR 811
            R++ P      G   L  +YKV WPL ++     ++KYN V  +LL V+R +  L    
Sbjct: 437 -RETSPREAPASGWAALGLSYKVQWPLHILFTPAVLEKYNVVFKYLLSVRRVQAELQHCW 495

Query: 812 RWMWKGRSLATNSHSHKRHWLVEQKLLHFVDAFHQYVMDRVYHSAWRELCEGMAAAGSLD 871
               + + L +N     + W +   +   VD    Y+   V  S + +L   + +    +
Sbjct: 496 ALQMQRKHLKSNQTDAIK-WRLRNHMAFLVDNLQYYLQVDVLESQFSQLLHQINSTRDFE 554

Query: 872 EVIEVHEAYLLSIQRQCFVAPDKLWALIASRINSILGLALEFYSIQQTLSSSGAVSAIKA 931
            +   H+ +L ++  Q F+    L   +   +N IL L   F S+      S  +  +  
Sbjct: 555 SIRLAHDHFLSNLLAQSFI----LLKPVFHCLNEILDLCHSFCSL-----VSQNLGPLDE 605

Query: 932 RCEMEVDRIEKQFDDCIVFLLRVLSFKLNVGHFPHLADLVTRINYNYFYMSDSGNLMTAP 991
           R   ++  + K F      L ++LS   N      LA L+ R++YN +Y    G L    
Sbjct: 606 RGAAQLSILVKGFSRQSSLLFKILSSVRNHQINSDLAQLLLRLDYNKYYTQAGGTL---- 661

Query: 992 GSEAGLGR 999
           GS    GR
Sbjct: 662 GSFGMCGR 669


>pdb|3CUX|A Chain A, Atomic Resolution Structures Of Escherichia Coli And
           Bacillis Anthracis Malate Synthase A: Comparison With
           Isoform G And Implications For Structure Based Drug
           Design
          Length = 528

 Score = 32.3 bits (72), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 21/59 (35%), Positives = 32/59 (54%), Gaps = 7/59 (11%)

Query: 307 QNGLRESIS-----LSSSVKGLQACPLF--IKDIAKSIISAGKSLQLIRHVSSKSNDDR 358
           + GLR +IS     ++S + G  A P++  ++D A + IS  +  Q IRH   K ND R
Sbjct: 410 EEGLRMNISVGIQYIASWLSGRGAAPIYNLMEDAATAEISRAQVWQWIRHEGGKLNDGR 468


>pdb|1FZT|A Chain A, Solution Structure And Dynamics Of An Open B-Sheet,
           Glycolytic Enzyme-Monomeric 23.7 Kda Phosphoglycerate
           Mutase From Schizosaccharomyces Pombe
          Length = 211

 Score = 30.8 bits (68), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 26/91 (28%), Positives = 39/91 (42%), Gaps = 7/91 (7%)

Query: 519 WNALNLSRNYYLPPLNDEVLRKAVLGAESGNISELKGTNYAFGFQFGES-EHLRSQCDTK 577
           WN LNL   +  P L++  +++A LG E      LK   Y F   F  + +  +  C   
Sbjct: 20  WNKLNLFTGWKDPALSETGIKEAKLGGE-----RLKSRGYKFDIAFTSALQRAQKTCQII 74

Query: 578 LLEVLFP-FPTILPSFRDELHISELLPFQKN 607
           L EV  P   TI     +E +  +L    K+
Sbjct: 75  LEEVGEPNLETIKSEKLNERYYGDLQGLNKD 105


>pdb|4FWI|B Chain B, Crystal Structure Of The Nucleotide-binding Domain Of A
           Dipeptide Abc Transporter
          Length = 334

 Score = 29.6 bits (65), Expect = 8.6,   Method: Compositional matrix adjust.
 Identities = 13/32 (40%), Positives = 17/32 (53%)

Query: 208 DEVCLVQGGEVEEYQMLLHIFVGSLLPYIEGL 239
           D+V ++ GG + EY     IF   L PY  GL
Sbjct: 223 DKVAVIYGGNLVEYNSTFQIFKNPLHPYTRGL 254


  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
   0.321    0.135    0.404 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 28,157,479
Number of Sequences: 62578
Number of extensions: 1124678
Number of successful extensions: 2319
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 2314
Number of HSP's gapped (non-prelim): 8
length of query: 1006
length of database: 14,973,337
effective HSP length: 108
effective length of query: 898
effective length of database: 8,214,913
effective search space: 7376991874
effective search space used: 7376991874
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 56 (26.2 bits)