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= 005481
         (694 letters)

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

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



>pdb|1NA0|A Chain A, Design Of Stable Alpha-Helical Arrays From An Idealized
           Tpr Motif
 pdb|1NA0|B Chain B, Design Of Stable Alpha-Helical Arrays From An Idealized
           Tpr Motif
          Length = 125

 Score = 31.6 bits (70), Expect = 1.5,   Method: Composition-based stats.
 Identities = 24/88 (27%), Positives = 42/88 (47%), Gaps = 6/88 (6%)

Query: 360 DMYLKCGLIDEATELFN---EMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEP 416
           + Y K G  DEA E +    E+   N   W  +   Y K G   EA+  ++K L  +++P
Sbjct: 17  NAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKAL--ELDP 74

Query: 417 DGV-AYLAVLSACSHSGLVEESQEYFSR 443
           +   A+  + +A    G  +E+ EY+ +
Sbjct: 75  NNAEAWYNLGNAYYKQGDYDEAIEYYQK 102


>pdb|2CW7|A Chain A, Crystal Structure Of Intein Homing Endonuclease Ii
          Length = 537

 Score = 31.2 bits (69), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 24/67 (35%), Positives = 36/67 (53%), Gaps = 5/67 (7%)

Query: 241 ITSGFPYSVKTVIAGSLVDFY---VKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEEN 297
           ITSG  +S+ +V  G LV+     +K G LV   R  +L E+  V++   L+LG  +EE 
Sbjct: 92  ITSG--HSLFSVRNGELVEVTGDELKPGDLVAVPRRLELPERNHVLNLVELLLGTPEEET 149

Query: 298 LAEAMEL 304
           L   M +
Sbjct: 150 LDIVMTI 156


>pdb|1SQI|A Chain A, Structural Basis For Inhibitor Selectivity Revealed By
           Crystal Structures Of Plant And Mammalian 4-
           Hydroxyphenylpyruvate Dioxygenases
 pdb|1SQI|B Chain B, Structural Basis For Inhibitor Selectivity Revealed By
           Crystal Structures Of Plant And Mammalian 4-
           Hydroxyphenylpyruvate Dioxygenases
          Length = 393

 Score = 30.8 bits (68), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 27/77 (35%), Positives = 37/77 (48%), Gaps = 13/77 (16%)

Query: 519 NPVNYVMMSNI--HAD-----AGSWNECERLRKLARSKGLKKVAGRSWVEVDK--EIHFF 569
           NP N  M  ++  H D     A    +CE + + AR +G  K+    WVE DK  ++ F 
Sbjct: 76  NPWNKEMGDHLVKHGDGVKDIAFEVEDCEHIVQKARERG-AKIVREPWVEEDKFGKVKFA 134

Query: 570 Y---GGDDTHPLTEKIH 583
                GD TH L EKI+
Sbjct: 135 VLQTYGDTTHTLVEKIN 151


>pdb|1W3B|A Chain A, The Superhelical Tpr Domain Of O-Linked Glcnac Transferase
           Reveals Structural Similarities To Importin Alpha.
 pdb|1W3B|B Chain B, The Superhelical Tpr Domain Of O-Linked Glcnac Transferase
           Reveals Structural Similarities To Importin Alpha
          Length = 388

 Score = 29.6 bits (65), Expect = 5.4,   Method: Compositional matrix adjust.
 Identities = 50/216 (23%), Positives = 79/216 (36%), Gaps = 43/216 (19%)

Query: 43  FSFDLMLNNDLIDMY-------AKCGEMNGACAVFDKMLERNVVSWTALMCGFLQNGNAK 95
           +   L L  D ID Y          G+M GA   +   L+ N      L C     GN  
Sbjct: 90  YRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN----PDLYCVRSDLGNLL 145

Query: 96  ACLSLF-----CQMGSSSVKPNEFTLSTNI----KASGVLSSVENGMQIHGMCMKSGFEW 146
             L        C + +   +PN     +N+     A G     E  + IH       FE 
Sbjct: 146 KALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQG-----EIWLAIHH------FEK 194

Query: 147 NPVVGNSIIDMYSKCGRINEAARMFD-----VMPAKSLITWNAMIAGYVLAGYSDKGLLL 201
              +  + +D Y   G + + AR+FD      + A SL   +A++ G +   Y ++GL+ 
Sbjct: 195 AVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLID 254

Query: 202 F------RKMQEHGEIPDEF-TFTSTLKACGSLGSV 230
                  R ++     PD +    + LK  GS+   
Sbjct: 255 LAIDTYRRAIELQPHFPDAYCNLANALKEKGSVAEA 290


>pdb|3CMG|A Chain A, Crystal Structure Of Putative Beta-Galactosidase From
           Bacteroides Fragilis
          Length = 667

 Score = 29.6 bits (65), Expect = 5.6,   Method: Compositional matrix adjust.
 Identities = 15/45 (33%), Positives = 25/45 (55%), Gaps = 1/45 (2%)

Query: 166 EAARMFDVMPAKSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGE 210
           +A  M+D+M    ++TW A I      GY+DKG +     +E+G+
Sbjct: 328 QATYMYDLMDKHGIVTW-AEIPFVGPGGYADKGFVDQASFRENGK 371


  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    0.137    0.415 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,077,956
Number of Sequences: 62578
Number of extensions: 814927
Number of successful extensions: 1759
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 1754
Number of HSP's gapped (non-prelim): 15
length of query: 694
length of database: 14,973,337
effective HSP length: 106
effective length of query: 588
effective length of database: 8,340,069
effective search space: 4903960572
effective search space used: 4903960572
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: 55 (25.8 bits)