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= 027626
         (221 letters)

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

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



>pdb|3LYH|A Chain A, Crystal Structure Of Putative Cobalamin (Vitamin B12)
           Biosynthesis Cbix Protein (Yp_958415.1) From
           Marinobacter Aquaeolei Vt8 At 1.60 A Resolution
 pdb|3LYH|B Chain B, Crystal Structure Of Putative Cobalamin (Vitamin B12)
           Biosynthesis Cbix Protein (Yp_958415.1) From
           Marinobacter Aquaeolei Vt8 At 1.60 A Resolution
          Length = 126

 Score = 34.3 bits (77), Expect = 0.061,   Method: Compositional matrix adjust.
 Identities = 16/37 (43%), Positives = 19/37 (51%)

Query: 164 AHMELAEPSIKDAFGSCVQQGANRVIVSPFFLFPGRH 200
           A+ ELAEPS+         QG  +  V P FL  GRH
Sbjct: 41  AYXELAEPSLDTIVNRAKGQGVEQFTVVPLFLAAGRH 77


>pdb|2IOU|G Chain G, Major Tropism Determinant P1 (Mtd-P1) Variant Complexed
           With Bordetella Brochiseptica Virulence Factor Pertactin
           Extracellular Domain (Prn-E).
 pdb|2IOU|H Chain H, Major Tropism Determinant P1 (Mtd-P1) Variant Complexed
           With Bordetella Brochiseptica Virulence Factor Pertactin
           Extracellular Domain (Prn-E)
          Length = 535

 Score = 27.7 bits (60), Expect = 5.7,   Method: Compositional matrix adjust.
 Identities = 18/75 (24%), Positives = 34/75 (45%), Gaps = 6/75 (8%)

Query: 126 KDGVIIVDHGSRRRESNLMLKQFVAMFREKTGYLIVEPAHMELAEPSIKDAFGSCVQQGA 185
           K G ++ DH +    S+      +A+      Y+  E A   +A+ +++ A G  V++GA
Sbjct: 82  KAGKLVADHATLANVSDTRDDDGIAL------YVAGEQAQASIADSTLQGAGGVRVERGA 135

Query: 186 NRVIVSPFFLFPGRH 200
           N  +     +  G H
Sbjct: 136 NVTVQRSTIVDGGLH 150


>pdb|3U1V|A Chain A, X-Ray Structure Of De Novo Design Cysteine Esterase Fr29,
           Northeast Structural Genomics Consortium Target Or52
 pdb|3U1V|B Chain B, X-Ray Structure Of De Novo Design Cysteine Esterase Fr29,
           Northeast Structural Genomics Consortium Target Or52
 pdb|3U1V|C Chain C, X-Ray Structure Of De Novo Design Cysteine Esterase Fr29,
           Northeast Structural Genomics Consortium Target Or52
 pdb|3U1V|D Chain D, X-Ray Structure Of De Novo Design Cysteine Esterase Fr29,
           Northeast Structural Genomics Consortium Target Or52
          Length = 338

 Score = 26.9 bits (58), Expect = 8.0,   Method: Compositional matrix adjust.
 Identities = 18/74 (24%), Positives = 32/74 (43%), Gaps = 7/74 (9%)

Query: 78  FTVKRCSIGEVGTKNPIWVHPNSLNFQRGPSRTKHL-------SIKSSSRDGVGDKDGVI 130
           FT+    I +VG +    V P    +Q  P+   ++       +I+   +  V D +G I
Sbjct: 169 FTIPEARIPKVGARIXSLVDPTKSXYQSDPNPKAYITLLDDAKTIEKKIKSAVTDSEGTI 228

Query: 131 IVDHGSRRRESNLM 144
             D  ++   SNL+
Sbjct: 229 RYDKEAKPGISNLL 242


  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    0.133    0.411 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,325,707
Number of Sequences: 62578
Number of extensions: 226539
Number of successful extensions: 363
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 362
Number of HSP's gapped (non-prelim): 3
length of query: 221
length of database: 14,973,337
effective HSP length: 95
effective length of query: 126
effective length of database: 9,028,427
effective search space: 1137581802
effective search space used: 1137581802
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 49 (23.5 bits)