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= 036467
         (369 letters)

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

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



>pdb|3EIF|A Chain A, 1.9 Angstrom Crystal Structure Of The Active Form Of The
           C5a Peptidase From Streptococcus Pyogenes (Scpa)
          Length = 936

 Score = 31.6 bits (70), Expect = 0.78,   Method: Compositional matrix adjust.
 Identities = 22/73 (30%), Positives = 36/73 (49%), Gaps = 9/73 (12%)

Query: 207 ECLIWKASRGLGRGMTVLVVAFDMNREEF----KEIHRPEYKDSHDKCQIEVGVFRGEF- 261
           + L  KAS+G G  + V+   FD N E +    K   R + K+  +K + E G+  GE+ 
Sbjct: 16  KTLQEKASKGAGTVVAVIDAGFDKNHEAWRLTDKTKARYQSKEDLEKAKKEHGITYGEWV 75

Query: 262 ----AMFHMWRED 270
               A +H + +D
Sbjct: 76  NDKVAYYHDYSKD 88


>pdb|1SZW|A Chain A, Crystal Structure Of E. Coli Trna Pseudouridine Synthase
           Trud
 pdb|1SZW|B Chain B, Crystal Structure Of E. Coli Trna Pseudouridine Synthase
           Trud
          Length = 379

 Score = 30.8 bits (68), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 18/51 (35%), Positives = 27/51 (52%), Gaps = 8/51 (15%)

Query: 293 GRRALINFDNYAFVHLKPVCEMMNLSNGNGKNFLLIE------KGDGELIL 337
           G R  I FDN  ++H KP  +   L   N ++F+++E       G+GE IL
Sbjct: 19  GDRTXIEFDNLTYLHGKP--QGTGLLKANPEDFVVVEDLGFEPDGEGEHIL 67


>pdb|1XF1|A Chain A, Structure Of C5a Peptidase- A Key Virulence Factor From
           Streptococcus
 pdb|1XF1|B Chain B, Structure Of C5a Peptidase- A Key Virulence Factor From
           Streptococcus
          Length = 926

 Score = 30.0 bits (66), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 21/73 (28%), Positives = 35/73 (47%), Gaps = 9/73 (12%)

Query: 207 ECLIWKASRGLGRGMTVLVVAFDMNREEF----KEIHRPEYKDSHDKCQIEVGVFRGEF- 261
           + L  KA +G G  + V+   FD N E +    K   R + K+  +K + E G+  GE+ 
Sbjct: 7   KTLQEKAGKGAGTVVAVIDAGFDKNHEAWRLTDKTKARYQSKEDLEKAKKEHGITYGEWV 66

Query: 262 ----AMFHMWRED 270
               A +H + +D
Sbjct: 67  NDKVAYYHDYSKD 79


>pdb|3P1I|A Chain A, Ligand Binding Domain Of Human Ephrin Type-B Receptor 3
 pdb|3P1I|B Chain B, Ligand Binding Domain Of Human Ephrin Type-B Receptor 3
 pdb|3P1I|C Chain C, Ligand Binding Domain Of Human Ephrin Type-B Receptor 3
          Length = 200

 Score = 29.6 bits (65), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 11/41 (26%), Positives = 21/41 (51%)

Query: 131 VPTIETTCFTSLGFGYHQADDDYKVIRSIYLYDKPFVDIDS 171
           +P I  +C  +    Y++AD D     S +  + P+V +D+
Sbjct: 108 IPNIPGSCKETFNLFYYEADSDVASASSPFWMENPYVKVDT 148


>pdb|1NOV|A Chain A, Nodamura Virus
 pdb|1NOV|B Chain B, Nodamura Virus
 pdb|1NOV|C Chain C, Nodamura Virus
          Length = 355

 Score = 29.3 bits (64), Expect = 3.8,   Method: Compositional matrix adjust.
 Identities = 16/44 (36%), Positives = 22/44 (50%), Gaps = 2/44 (4%)

Query: 101 CISDQSCNEDIFLFNPSTKKYKKLPVPEFDVPTIETTCFTSLGF 144
           C S   CNE  F F+P  + Y    VP  +V   + + FT+L F
Sbjct: 234 CYSQSVCNEPEFEFHPIMEGYAS--VPPANVTNAQASMFTNLTF 275


  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    0.140    0.434 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,286,165
Number of Sequences: 62578
Number of extensions: 481189
Number of successful extensions: 1125
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1123
Number of HSP's gapped (non-prelim): 6
length of query: 369
length of database: 14,973,337
effective HSP length: 100
effective length of query: 269
effective length of database: 8,715,537
effective search space: 2344479453
effective search space used: 2344479453
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 52 (24.6 bits)