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= psy2001
         (202 letters)

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

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



>pdb|1PK1|A Chain A, Hetero Sam Domain Structure Of Ph And Scm.
 pdb|1PK1|C Chain C, Hetero Sam Domain Structure Of Ph And Scm
          Length = 89

 Score = 90.9 bits (224), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 39/64 (60%), Positives = 52/64 (81%)

Query: 124 WTVTEVCDFIRNLPGCAEYVEDFAMQEIDGQALMLLQAKHLMEAMSMKLGPALKIVAKID 183
           W+V +V +FIR LPGC +YV+DF  QEIDGQAL+LL+ KHL+ A   KLGPA KIVAK++
Sbjct: 17  WSVDDVSNFIRELPGCQDYVDDFIQQEIDGQALLLLKEKHLVNAXGXKLGPARKIVAKVE 76

Query: 184 SMRQ 187
           S+++
Sbjct: 77  SIKE 80


>pdb|1KW4|A Chain A, Polyhomeotic Sam Domain Structure
          Length = 89

 Score = 90.9 bits (224), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 39/64 (60%), Positives = 52/64 (81%)

Query: 124 WTVTEVCDFIRNLPGCAEYVEDFAMQEIDGQALMLLQAKHLMEAMSMKLGPALKIVAKID 183
           W+V +V +FIR LPGC +YV+DF  QEIDGQAL+ L+ KHL+ A   KLGPALKIVAK++
Sbjct: 17  WSVDDVSNFIRELPGCQDYVDDFIQQEIDGQALLRLKEKHLVNAXGXKLGPALKIVAKVE 76

Query: 184 SMRQ 187
           S+++
Sbjct: 77  SIKE 80


>pdb|1PK1|B Chain B, Hetero Sam Domain Structure Of Ph And Scm.
 pdb|1PK1|D Chain D, Hetero Sam Domain Structure Of Ph And Scm
          Length = 89

 Score = 53.1 bits (126), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 26/59 (44%), Positives = 38/59 (64%), Gaps = 1/59 (1%)

Query: 121 PLKWTVTEVCDFIR-NLPGCAEYVEDFAMQEIDGQALMLLQAKHLMEAMSMKLGPALKI 178
           P+ WT+ EV  +I  N    A + + F   EIDG+AL+ L ++ +M+ M +KLGPALKI
Sbjct: 14  PIDWTIEEVIQYIESNDNSLAVHGDLFRKHEIDGKALLRLNSERMMKYMGLKLGPALKI 72


>pdb|1PK3|A Chain A, Scm Sam Domain
 pdb|1PK3|B Chain B, Scm Sam Domain
 pdb|1PK3|C Chain C, Scm Sam Domain
          Length = 89

 Score = 52.0 bits (123), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 26/59 (44%), Positives = 38/59 (64%), Gaps = 1/59 (1%)

Query: 121 PLKWTVTEVCDFIR-NLPGCAEYVEDFAMQEIDGQALMLLQAKHLMEAMSMKLGPALKI 178
           P+ WT+ EV  +I  N    A + + F   EIDG+AL+ L ++ +M+ M +KLGPALKI
Sbjct: 14  PIDWTIEEVIQYIESNDNSLAVHGDLFRKHEIDGKALLRLNSEMMMKYMGLKLGPALKI 72


>pdb|3BQ7|A Chain A, Sam Domain Of Diacylglycerol Kinase Delta1 (E35g)
 pdb|3BQ7|B Chain B, Sam Domain Of Diacylglycerol Kinase Delta1 (E35g)
 pdb|3BQ7|C Chain C, Sam Domain Of Diacylglycerol Kinase Delta1 (E35g)
 pdb|3BQ7|D Chain D, Sam Domain Of Diacylglycerol Kinase Delta1 (E35g)
 pdb|3BQ7|E Chain E, Sam Domain Of Diacylglycerol Kinase Delta1 (E35g)
 pdb|3BQ7|F Chain F, Sam Domain Of Diacylglycerol Kinase Delta1 (E35g)
          Length = 81

 Score = 30.4 bits (67), Expect = 0.73,   Method: Compositional matrix adjust.
 Identities = 17/62 (27%), Positives = 30/62 (48%), Gaps = 1/62 (1%)

Query: 124 WTVTEVCDFIRNLPGCAEYVEDFAMQEIDGQALMLLQAKHLMEAMSMKLGPALKIVAKID 183
           W   EV  ++ +L  C EY + F   +I G  L+ L+ + L +    K+G   +I+  I 
Sbjct: 10  WGTEEVAAWLEHLSLC-EYKDIFTRHDIRGSGLLHLERRDLKDLGVTKVGHMKRILCGIK 68

Query: 184 SM 185
            +
Sbjct: 69  EL 70


  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
   0.319    0.135    0.405 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,141,075
Number of Sequences: 62578
Number of extensions: 213326
Number of successful extensions: 436
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 432
Number of HSP's gapped (non-prelim): 8
length of query: 202
length of database: 14,973,337
effective HSP length: 94
effective length of query: 108
effective length of database: 9,091,005
effective search space: 981828540
effective search space used: 981828540
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)