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= 002537
         (911 letters)

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

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



>pdb|3EF1|A Chain A, The Structure Of Fcp1, An Essential Rna Polymerase Ii Ctd
           Phosphatase
          Length = 442

 Score = 43.9 bits (102), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 28/76 (36%), Positives = 42/76 (55%), Gaps = 11/76 (14%)

Query: 281 FEVYVCTMAERDYALEMWRLLDPESNLINTKELLDRIVCVK-SGS--RKSLFNVFQDGTC 337
           +E+++ TM  + YA E+ +++DP   L       DR++    SGS  +KSL  +F    C
Sbjct: 99  YELHIYTMGTKAYAKEVAKIIDPTGKLFQ-----DRVLSRDDSGSLAQKSLRRLF---PC 150

Query: 338 HPKMALVIDDRLKVWD 353
              M +VIDDR  VWD
Sbjct: 151 DTSMVVVIDDRGDVWD 166


>pdb|3EF0|A Chain A, The Structure Of Fcp1, An Essential Rna Polymerase Ii Ctd
           Phosphatase
          Length = 372

 Score = 43.1 bits (100), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 28/76 (36%), Positives = 42/76 (55%), Gaps = 11/76 (14%)

Query: 281 FEVYVCTMAERDYALEMWRLLDPESNLINTKELLDRIVCVK-SGS--RKSLFNVFQDGTC 337
           +E+++ TM  + YA E+ +++DP   L       DR++    SGS  +KSL  +F    C
Sbjct: 91  YELHIYTMGTKAYAKEVAKIIDPTGKLFQ-----DRVLSRDDSGSLAQKSLRRLF---PC 142

Query: 338 HPKMALVIDDRLKVWD 353
              M +VIDDR  VWD
Sbjct: 143 DTSMVVVIDDRGDVWD 158


>pdb|3V7I|A Chain A, Germicidin Synthase (Gcs) From Streptomyces Coelicolor, A
           Type Iii Polyketide Synthase
          Length = 413

 Score = 30.0 bits (66), Expect = 6.3,   Method: Compositional matrix adjust.
 Identities = 21/94 (22%), Positives = 41/94 (43%), Gaps = 4/94 (4%)

Query: 203 AENDQVNENGKVIKVQSEVVPA----LSDSHQALVRPLIRLQEKNIILTRINPQIRDTSV 258
           A +  +   G ++ +++ V P     L  + +ALVR     Q+ N  +  +       +V
Sbjct: 67  AASTGIESRGWMLPLEAAVAPGGGGDLGAAREALVRDGFTEQDANRAIAALKAVPASQTV 126

Query: 259 LVRLRPAWEDLRSYLTARGRKRFEVYVCTMAERD 292
             R  PAWE +++Y     R   ++    +A+ D
Sbjct: 127 QERTAPAWEAVQAYGERAARGALQIAGLDVADVD 160


  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
   0.317    0.134    0.391 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 24,572,026
Number of Sequences: 62578
Number of extensions: 976407
Number of successful extensions: 1957
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: 1957
Number of HSP's gapped (non-prelim): 4
length of query: 911
length of database: 14,973,337
effective HSP length: 108
effective length of query: 803
effective length of database: 8,214,913
effective search space: 6596575139
effective search space used: 6596575139
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 56 (26.2 bits)