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= 025612
         (250 letters)

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

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



>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 = 30.0 bits (66), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 24/72 (33%), Positives = 35/72 (48%), Gaps = 6/72 (8%)

Query: 154 LKKEGLDPD-TRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAG 212
           L+   L P+   V+  +  VY + G+ID A++TY   +A    PH   F     NL NA 
Sbjct: 227 LRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYR--RAIELQPH---FPDAYCNLANAL 281

Query: 213 EEELVAAVRRDC 224
           +E+   A   DC
Sbjct: 282 KEKGSVAEAEDC 293


>pdb|3R4D|A Chain A, Crystal Structure Of Mouse Coronavirus Receptor-Binding
           Domain Complexed With Its Murine Receptor
 pdb|3R4D|C Chain C, Crystal Structure Of Mouse Coronavirus Receptor-Binding
           Domain Complexed With Its Murine Receptor
          Length = 208

 Score = 28.9 bits (63), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 16/69 (23%), Positives = 35/69 (50%), Gaps = 3/69 (4%)

Query: 11  GCLKFHFSQMGFHQRPQISLPSGKKIQALTVTCGLRDANKKPMWRSRVLSSEAIQAVHAM 70
             ++FH  Q       Q++  + K++ ++T+TC   D      W   + +S+++Q    M
Sbjct: 100 ATVRFHVHQPVTQPFLQVTNTTVKELDSVTLTCLSNDIGANIQW---LFNSQSLQLTERM 156

Query: 71  KLAKSSSKL 79
            L++++S L
Sbjct: 157 TLSQNNSIL 165


>pdb|1L6Z|A Chain A, Crystal Structure Of Murine Ceacam1a[1,4]: A Coronavirus
           Receptor And Cell Adhesion Molecule In The Cea Family
          Length = 216

 Score = 28.5 bits (62), Expect = 3.6,   Method: Compositional matrix adjust.
 Identities = 16/69 (23%), Positives = 35/69 (50%), Gaps = 3/69 (4%)

Query: 11  GCLKFHFSQMGFHQRPQISLPSGKKIQALTVTCGLRDANKKPMWRSRVLSSEAIQAVHAM 70
             ++FH  Q       Q++  + K++ ++T+TC   D      W   + +S+++Q    M
Sbjct: 100 ATVRFHVHQPVTQPFLQVTNTTVKELDSVTLTCLSNDIGANIQW---LFNSQSLQLTERM 156

Query: 71  KLAKSSSKL 79
            L++++S L
Sbjct: 157 TLSQNNSIL 165


>pdb|3LUP|A Chain A, Crystal Structure Of Fatty Acid Binding Degv Family
           Protein Sag1342 From Streptococcus Agalactiae
          Length = 285

 Score = 28.1 bits (61), Expect = 5.2,   Method: Compositional matrix adjust.
 Identities = 15/43 (34%), Positives = 26/43 (60%), Gaps = 9/43 (20%)

Query: 138 LGKNKQIAMAE--ELFCELKKEGLDPDTRVYTEMIGVYLQVGM 178
           L K  Q ++AE  +L C+L+KEG       YT ++G+++  G+
Sbjct: 61  LPKTSQPSLAELDDLLCQLEKEG-------YTHVLGLFIAAGI 96


>pdb|1T5O|A Chain A, Crystal Structure Of The Translation Initiation Factor
           Eif-2b, Subunit Delta, From A. Fulgidus
 pdb|1T5O|B Chain B, Crystal Structure Of The Translation Initiation Factor
           Eif-2b, Subunit Delta, From A. Fulgidus
 pdb|1T5O|C Chain C, Crystal Structure Of The Translation Initiation Factor
           Eif-2b, Subunit Delta, From A. Fulgidus
 pdb|1T5O|D Chain D, Crystal Structure Of The Translation Initiation Factor
           Eif-2b, Subunit Delta, From A. Fulgidus
          Length = 351

 Score = 27.3 bits (59), Expect = 8.2,   Method: Compositional matrix adjust.
 Identities = 14/35 (40%), Positives = 23/35 (65%), Gaps = 2/35 (5%)

Query: 150 LFC-ELKKEGLDPDTRVYTEMIGVYLQVGMIDKAM 183
           L C EL ++G+D  T +   M+G+ +Q GM+DK +
Sbjct: 197 LTCWELMEDGIDV-TLITDSMVGIVMQKGMVDKVI 230


  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    0.134    0.384 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,559,884
Number of Sequences: 62578
Number of extensions: 239644
Number of successful extensions: 654
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 654
Number of HSP's gapped (non-prelim): 7
length of query: 250
length of database: 14,973,337
effective HSP length: 96
effective length of query: 154
effective length of database: 8,965,849
effective search space: 1380740746
effective search space used: 1380740746
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: 50 (23.9 bits)