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= 043580
         (665 letters)

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

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



>pdb|2RNM|A Chain A, Structure Of The Het-S(218-289) Prion In Its Amyloid Form
           Obtained By Solid-State Nmr
 pdb|2RNM|B Chain B, Structure Of The Het-S(218-289) Prion In Its Amyloid Form
           Obtained By Solid-State Nmr
 pdb|2RNM|C Chain C, Structure Of The Het-S(218-289) Prion In Its Amyloid Form
           Obtained By Solid-State Nmr
 pdb|2RNM|D Chain D, Structure Of The Het-S(218-289) Prion In Its Amyloid Form
           Obtained By Solid-State Nmr
 pdb|2RNM|E Chain E, Structure Of The Het-S(218-289) Prion In Its Amyloid Form
           Obtained By Solid-State Nmr
 pdb|2KJ3|A Chain A, High-Resolution Structure Of The Het-S(218-289) Prion In
           Its Amyloid Form Obtained By Solid-State Nmr
 pdb|2KJ3|B Chain B, High-Resolution Structure Of The Het-S(218-289) Prion In
           Its Amyloid Form Obtained By Solid-State Nmr
 pdb|2KJ3|C Chain C, High-Resolution Structure Of The Het-S(218-289) Prion In
           Its Amyloid Form Obtained By Solid-State Nmr
 pdb|2LBU|A Chain A, Haddock Calculated Model Of Congo Red Bound To The Het-S
           Amyloid
 pdb|2LBU|B Chain B, Haddock Calculated Model Of Congo Red Bound To The Het-S
           Amyloid
 pdb|2LBU|C Chain C, Haddock Calculated Model Of Congo Red Bound To The Het-S
           Amyloid
 pdb|2LBU|D Chain D, Haddock Calculated Model Of Congo Red Bound To The Het-S
           Amyloid
 pdb|2LBU|E Chain E, Haddock Calculated Model Of Congo Red Bound To The Het-S
           Amyloid
          Length = 79

 Score = 32.3 bits (72), Expect = 0.96,   Method: Composition-based stats.
 Identities = 14/49 (28%), Positives = 27/49 (55%), Gaps = 1/49 (2%)

Query: 594 GTLLAASRIHGNVEVGERAAKSLAGLQPSHGPSRVLLSNIYADAGRWED 642
           G ++ A+ +HG + + ++   S+  +    G SRVL+ N Y   G W++
Sbjct: 26  GNVVTAAALHGGIRISDQTTNSVETVV-GKGESRVLIGNEYGGKGFWDN 73


>pdb|2PTG|A Chain A, Crystal Structure Of Eimeria Tenella Enoyl Reductase
 pdb|2PTG|B Chain B, Crystal Structure Of Eimeria Tenella Enoyl Reductase
          Length = 319

 Score = 30.4 bits (67), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 23/74 (31%), Positives = 33/74 (44%), Gaps = 6/74 (8%)

Query: 22 YELALVSALRYCSAHIAVSQGQQIHSLIFKSGLESNTFIQNSLINLYAKCGLISQAKS-- 79
          Y  A+   LR   A + V     ++S IFK GLES+ F Q+S         + ++A    
Sbjct: 23 YGWAICKLLRAAGARVLVGTWPPVYS-IFKKGLESSRFEQDSFYAQEPSSKVAAEAAEKP 81

Query: 80 ---MFDSCSTLDPV 90
             +FD    LD V
Sbjct: 82 VDLVFDKIYPLDAV 95


>pdb|3VA7|A Chain A, Crystal Structure Of The Kluyveromyces Lactis Urea
           Carboxylase
          Length = 1236

 Score = 28.9 bits (63), Expect = 8.7,   Method: Compositional matrix adjust.
 Identities = 12/52 (23%), Positives = 25/52 (48%)

Query: 88  DPVACNIMISGYIRNDRLNDAREVFDKTPIKCCVSYTSMIMGFAQNDCWREA 139
           DP    I++ G  RND +    +  ++T +  C++    +   A +  ++EA
Sbjct: 410 DPTLAKIIVHGKDRNDAIMKLNQALNETAVYGCITNIDYLRSIASSKMFKEA 461


  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    0.137    0.414 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,461,146
Number of Sequences: 62578
Number of extensions: 717199
Number of successful extensions: 1898
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1896
Number of HSP's gapped (non-prelim): 5
length of query: 665
length of database: 14,973,337
effective HSP length: 105
effective length of query: 560
effective length of database: 8,402,647
effective search space: 4705482320
effective search space used: 4705482320
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: 55 (25.8 bits)