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= 021113
         (317 letters)

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

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



>pdb|1YQE|A Chain A, Crystal Structure Of Conserved Protein Of Unknown Function
           Af0625
          Length = 282

 Score = 96.7 bits (239), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 71/242 (29%), Positives = 110/242 (45%), Gaps = 29/242 (11%)

Query: 4   LIVATTIDPASINPANALLAMPGWKPGPFFQDDMKSFVNQEVRVLQHNKSIIEEDDLDKR 63
           L+V +  D A  N  + LL    ++       + K +++ E  + +  + +I  D +D++
Sbjct: 7   LVVCSESDTAGQNIKDNLLTFADFEEKDV--GEFKLYLSDEFYIAETKERLIYADHIDEK 64

Query: 64  WQEATGEVVGEVIFLSKHTAVSNRPALTVH---PIGVPHLREGEPLPQGGRPGWAAPPNP 120
             +       E++F S+H++   R   TVH    +G            GG+P   A P+P
Sbjct: 65  LAKYID--FEEILFASRHSSKDGRKIFTVHVSGNVGTADF--------GGKPYSLAKPSP 114

Query: 121 RIGPWLRLLKKIALSHNLVPEFEITLEGTHHGPV-TSKPTMFLEIGSTEEYWKRQDAAQV 179
           +      L  +  L     PEFE T+E THHGP   SKP+ F EIGSTEE WK ++AA+V
Sbjct: 115 QTMKNYVLALRERLDRK--PEFEFTMEVTHHGPSEISKPSAFYEIGSTEEEWKDREAAEV 172

Query: 180 XXXXXXXXXXXXXXXXXXXXXRESDKNKVLLGIGGGHYAPRHMDIVLKDDVWVAHLLSGY 239
                                 + D N V +G+GG HYAPR  +I+L       H  + Y
Sbjct: 173 ----------VAEAMLDAIRAEKMDWN-VAVGVGGTHYAPRQTEIMLTTTFTFGHNFAKY 221

Query: 240 SL 241
           + 
Sbjct: 222 TF 223


>pdb|2GFQ|A Chain A, Structure Of Protein Of Unknown Function Ph0006 From
           Pyrococcus Horikoshii
 pdb|2GFQ|B Chain B, Structure Of Protein Of Unknown Function Ph0006 From
           Pyrococcus Horikoshii
 pdb|2GFQ|C Chain C, Structure Of Protein Of Unknown Function Ph0006 From
           Pyrococcus Horikoshii
          Length = 298

 Score = 87.4 bits (215), Expect = 9e-18,   Method: Compositional matrix adjust.
 Identities = 71/241 (29%), Positives = 103/241 (42%), Gaps = 18/241 (7%)

Query: 4   LIVATTIDPASINPANALLAMPGWKPGPFFQDDMKSFVNQEVRVLQHNKSIIEEDDLDKR 63
           +I  T +D AS N  N L+   G+K   +  +    +   +V +L  N   I  D LD+ 
Sbjct: 25  VIXTTKVDKASXNIXNKLIENFGFKETEYVFEGNPVYKRGDVLILTTNDEXIYYDYLDRE 84

Query: 64  WQEATGEVVGEVIFLSKHTAVSNRPALTVHPIGVPHLREGEPLPQGGRPGWAAPPNPRIG 123
            +   G     + F S+H++    PALT H  G            GG+    A   P   
Sbjct: 85  IENQLGFKPEIIAFASRHSSKQKLPALTTHVTG-----NWGKAXYGGKDESFAVAIPSAX 139

Query: 124 PWLRLLKKIALSHNLVPEFEITLEGTHHGPVTSK-PTMFLEIGSTEEYWKRQDAAQVXXX 182
             L LLK   L+      + +  E THHGP   + P+ F+EIGS+EE W    A ++   
Sbjct: 140 K-LSLLKXSELND---LGWTVCYEATHHGPTELEVPSFFIEIGSSEEEWINDRAGEI--- 192

Query: 183 XXXXXXXXXXXXXXXXXXRESDKNKVLLGIGGGHYAPRHMDIVLKDDVWVAHLLSGYSLP 242
                             +   K KV LGIGGGHYAP+     L+ D+   H+L  Y+ P
Sbjct: 193 -----IAETIIYVLDNYEKGRSKFKVALGIGGGHYAPKQTKRALEGDLAFGHILPKYAQP 247

Query: 243 M 243
           +
Sbjct: 248 V 248


>pdb|4APL|A Chain A, Crystal Structure Of Ama1 From Neospora Caninum
 pdb|4APL|B Chain B, Crystal Structure Of Ama1 From Neospora Caninum
 pdb|4APL|D Chain D, Crystal Structure Of Ama1 From Neospora Caninum
 pdb|4APL|E Chain E, Crystal Structure Of Ama1 From Neospora Caninum
          Length = 431

 Score = 31.6 bits (70), Expect = 0.57,   Method: Compositional matrix adjust.
 Identities = 32/114 (28%), Positives = 53/114 (46%), Gaps = 17/114 (14%)

Query: 31  PFFQDDMKSFVNQEVRVLQH----NKSIIEEDDLD-KRWQEATG--EVVGEVIFLSKHTA 83
           PF   ++K+F+ +    L H    N  + ++ ++D K ++EA G   V G+ I L +   
Sbjct: 13  PFQTPELKAFLERYNVTLHHQSGVNVDLGQDKEVDGKLYREAAGLCPVWGKYIQLHQ--- 69

Query: 84  VSNRPALTVH-----PIGVPHLREGEPLPQGGRPGWAAPPNPRIGPW-LRLLKK 131
             NRP    +     P    + + G PLP G    +  P   RI P+ + LL+K
Sbjct: 70  -PNRPPYKNNFLEDIPTEAEYQKSGNPLPGGFNMNFVTPAGQRISPYPMELLEK 122


  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
   0.316    0.135    0.416 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,998,884
Number of Sequences: 62578
Number of extensions: 412031
Number of successful extensions: 1019
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1012
Number of HSP's gapped (non-prelim): 5
length of query: 317
length of database: 14,973,337
effective HSP length: 99
effective length of query: 218
effective length of database: 8,778,115
effective search space: 1913629070
effective search space used: 1913629070
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 51 (24.3 bits)