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= psy4652
         (291 letters)

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

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



>pdb|1H7S|A Chain A, N-Terminal 40kda Fragment Of Human Pms2
 pdb|1H7S|B Chain B, N-Terminal 40kda Fragment Of Human Pms2
          Length = 365

 Score = 29.6 bits (65), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 20/81 (24%), Positives = 34/81 (41%), Gaps = 2/81 (2%)

Query: 125 LLPFLIAANPINYGKPCKLSCVEALAATFIIAGFPKEAKFYLDKFKWGRTFLTLNEELLD 184
           L+PF+      +  +   LSC +AL   F I+GF  +    + +    R F  +N    D
Sbjct: 239 LIPFVQLPPSDSVCEEYGLSCSDALHNLFYISGFISQCTHGVGRSSTDRQFFFINRRPCD 298

Query: 185 LYKECDTI--FYEDLDGERFP 203
             K C  +   Y   +  ++P
Sbjct: 299 PAKVCRLVNEVYHXYNRHQYP 319


>pdb|1H7U|A Chain A, Hpms2-atpgs
 pdb|1H7U|B Chain B, Hpms2-atpgs
          Length = 365

 Score = 28.9 bits (63), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 20/81 (24%), Positives = 34/81 (41%), Gaps = 2/81 (2%)

Query: 125 LLPFLIAANPINYGKPCKLSCVEALAATFIIAGFPKEAKFYLDKFKWGRTFLTLNEELLD 184
           L+PF+      +  +   LSC +AL   F I+GF  +    + +    R F  +N    D
Sbjct: 239 LIPFVQLPPSDSVCEEYGLSCSDALHNLFYISGFISQCTHGVGRSSTDRQFFFINRRPCD 298

Query: 185 LYKECDTI--FYEDLDGERFP 203
             K C  +   Y   +  ++P
Sbjct: 299 PAKVCRLVNEVYHMYNRHQYP 319


>pdb|1EA6|A Chain A, N-Terminal 40kda Fragment Of Nhpms2 Complexed With Adp
 pdb|1EA6|B Chain B, N-Terminal 40kda Fragment Of Nhpms2 Complexed With Adp
          Length = 364

 Score = 28.9 bits (63), Expect = 3.6,   Method: Compositional matrix adjust.
 Identities = 20/81 (24%), Positives = 34/81 (41%), Gaps = 2/81 (2%)

Query: 125 LLPFLIAANPINYGKPCKLSCVEALAATFIIAGFPKEAKFYLDKFKWGRTFLTLNEELLD 184
           L+PF+      +  +   LSC +AL   F I+GF  +    + +    R F  +N    D
Sbjct: 239 LIPFVQLPPSDSVCEEYGLSCSDALHNLFYISGFISQCTHGVGRSSTDRQFFFINRRPCD 298

Query: 185 LYKECDTI--FYEDLDGERFP 203
             K C  +   Y   +  ++P
Sbjct: 299 PAKVCRLVNEVYHMYNRHQYP 319


>pdb|2AUA|A Chain A, Structure Of Bc2332: A Protein Of Unknown Function From
           Bacillus Cereus
 pdb|2AUA|B Chain B, Structure Of Bc2332: A Protein Of Unknown Function From
           Bacillus Cereus
          Length = 224

 Score = 27.7 bits (60), Expect = 7.3,   Method: Compositional matrix adjust.
 Identities = 21/66 (31%), Positives = 27/66 (40%), Gaps = 13/66 (19%)

Query: 140 PCKLSCVEALAATFIIAGFPKEAKFYLDKFKWGRTFLTLNEELLDLYKECDTIFYEDLDG 199
           P +LSC+ A             AK Y D  KW   F + N E+L + K        + DG
Sbjct: 125 PSRLSCLYA-------------AKSYEDALKWKALFDSYNREVLQIVKLRVIGSSFEGDG 171

Query: 200 ERFPKE 205
              PKE
Sbjct: 172 NLLPKE 177


  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
   0.323    0.142    0.447 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,601,573
Number of Sequences: 62578
Number of extensions: 353784
Number of successful extensions: 770
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 768
Number of HSP's gapped (non-prelim): 6
length of query: 291
length of database: 14,973,337
effective HSP length: 98
effective length of query: 193
effective length of database: 8,840,693
effective search space: 1706253749
effective search space used: 1706253749
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (24.3 bits)