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= 033679
         (113 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 = 33.9 bits (76), Expect = 0.023,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 31/68 (45%)

Query: 17  QREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVS 76
           +++VLKGC+L+FS   P         + K     GA   ++     TH+++ K   EKV 
Sbjct: 349 KQKVLKGCRLLFSGVIPLGVDVLSSDIAKWAMSFGAEVVLDFSVPPTHLIAAKIRTEKVK 408

Query: 77  LGSKGGQV 84
                G +
Sbjct: 409 KAVSMGNI 416


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

 Score = 33.9 bits (76), Expect = 0.023,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 31/68 (45%)

Query: 17  QREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVS 76
           +++VLKGC+L+FS   P         + K     GA   ++     TH+++ K   EKV 
Sbjct: 279 KQKVLKGCRLLFSGVIPLGVDVLSSDIAKWAMSFGAEVVLDFSVPPTHLIAAKIRTEKVK 338

Query: 77  LGSKGGQV 84
                G +
Sbjct: 339 KAVSMGNI 346


>pdb|2DT4|A Chain A, Crystal Structure Of Pyrococcus Horikoshii A Plant- And
           Prokaryote- Conserved (Ppc) Protein At 1.60 Resolution
          Length = 143

 Score = 27.7 bits (60), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 21/66 (31%), Positives = 34/66 (51%), Gaps = 2/66 (3%)

Query: 44  WKVVEQLGATCSIELDPSVTHVVSNKCSNEKVSLGSKGGQVFGGSTVDRGSQLFVARATR 103
           +KV+   G+   I L  +V+        +  VSLG++ G VFGG  V+   ++FVA    
Sbjct: 61  YKVIPLKGSYELISLIGNVSLKDGEPFVHAHVSLGNEEGIVFGGHLVE--GEVFVAEIFL 118

Query: 104 REVSCE 109
           +E+  E
Sbjct: 119 QELKGE 124


>pdb|3CNF|T Chain T, 3.88 Angstrom Structure Of Cytoplasmic Polyhedrosis Virus By
            Cryo-Electron Microscopy
          Length = 1057

 Score = 26.6 bits (57), Expect = 4.1,   Method: Composition-based stats.
 Identities = 15/40 (37%), Positives = 22/40 (55%), Gaps = 2/40 (5%)

Query: 46   VVEQLGATCSIELDPSVTHVVSNKCSNEKVSLGSKGGQVF 85
            ++  +G T  I + PS   ++ N CSN  + LGS GG V 
Sbjct: 1005 MLRDIGITHEI-IRPSTPELI-NACSNYGIRLGSTGGAVL 1042


  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    0.133    0.413 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,338,461
Number of Sequences: 62578
Number of extensions: 117286
Number of successful extensions: 278
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: 278
Number of HSP's gapped (non-prelim): 4
length of query: 113
length of database: 14,973,337
effective HSP length: 77
effective length of query: 36
effective length of database: 10,154,831
effective search space: 365573916
effective search space used: 365573916
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: 45 (21.9 bits)