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= 031131
         (165 letters)

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

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



>pdb|3AYH|A Chain A, Crystal Structure Of The C1725 SUBCOMPLEX FROM S. POMBE
           RNA Polymerase Iii
          Length = 136

 Score = 45.8 bits (107), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 36/113 (31%), Positives = 57/113 (50%), Gaps = 10/113 (8%)

Query: 1   MKILEANAGPLTNFEVFDFLR-------CKGASKDPTRVLVP--VTPSEFKVYDYLVESA 51
           MK+LEA    LTN EVF  L+        +   +   + LV   +   +F++  YL    
Sbjct: 8   MKVLEARDAYLTNAEVFFHLKEMENEQNARTQERGAAQALVCENLRTIQFEILKYLSSQG 67

Query: 52  AC-NQTRNIINEFLEKSKKFKLAKAEILNIINIRPSSLVEVDSIIEQCDTRFQ 103
            C   T+    + +    +F+L KAEIL I+N +PSS+ E+ + IE  + RF+
Sbjct: 68  NCEGLTKERFLDCIAIFNEFELTKAEILVILNNKPSSVPELYACIEGIEERFK 120


>pdb|2CKZ|A Chain A, X-Ray Structure Of Rna Polymerase Iii Subcomplex C17-C25.
 pdb|2CKZ|C Chain C, X-Ray Structure Of Rna Polymerase Iii Subcomplex C17-C25
          Length = 161

 Score = 43.9 bits (102), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 20/41 (48%), Positives = 28/41 (68%)

Query: 62  EFLEKSKKFKLAKAEILNIINIRPSSLVEVDSIIEQCDTRF 102
           E + K   FKL KAE L I+N  P+++V + SI+E+CD RF
Sbjct: 105 ELMTKLNSFKLFKAEKLQIVNQLPANMVHLYSIVEECDARF 145


>pdb|2YXY|A Chain A, Crystarl Structure Of Hypothetical Conserved Protein,
          Gk0453
          Length = 115

 Score = 30.0 bits (66), Expect = 0.63,   Method: Compositional matrix adjust.
 Identities = 13/47 (27%), Positives = 24/47 (51%)

Query: 47 LVESAACNQTRNIINEFLEKSKKFKLAKAEILNIINIRPSSLVEVDS 93
          L E A   +   ++NE+    +K  +AKA +LN  +  P  + E++ 
Sbjct: 26 LTEKARKAEQMGMVNEYAVYERKIAMAKAYMLNPADFHPGEIYEIEG 72


>pdb|1VJ0|A Chain A, Crystal Structure Of Alcohol Dehydrogenase (Tm0436) From
           Thermotoga Maritima At 2.00 A Resolution
 pdb|1VJ0|B Chain B, Crystal Structure Of Alcohol Dehydrogenase (Tm0436) From
           Thermotoga Maritima At 2.00 A Resolution
 pdb|1VJ0|C Chain C, Crystal Structure Of Alcohol Dehydrogenase (Tm0436) From
           Thermotoga Maritima At 2.00 A Resolution
 pdb|1VJ0|D Chain D, Crystal Structure Of Alcohol Dehydrogenase (Tm0436) From
           Thermotoga Maritima At 2.00 A Resolution
          Length = 380

 Score = 28.5 bits (62), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 18/46 (39%), Positives = 22/46 (47%), Gaps = 1/46 (2%)

Query: 3   ILEANAGPLTNFEVFDFLRCKGASKDPTRVLVPVTPSEFKVYDYLV 48
           ILEA        E  + LR +G       V VP  P  FKVY++LV
Sbjct: 271 ILEATGDSRALLEGSELLR-RGGFYSVAGVAVPQDPVPFKVYEWLV 315


>pdb|1ZKD|A Chain A, X-ray Structure Of The Putative Protein Q6n1p6 From
           Rhodopseudomonas Palustris At The Resolution 2.1 A ,
           Northeast Structural Genomics Consortium Target Rpr58
 pdb|1ZKD|B Chain B, X-ray Structure Of The Putative Protein Q6n1p6 From
           Rhodopseudomonas Palustris At The Resolution 2.1 A ,
           Northeast Structural Genomics Consortium Target Rpr58
          Length = 387

 Score = 26.9 bits (58), Expect = 6.1,   Method: Compositional matrix adjust.
 Identities = 14/38 (36%), Positives = 21/38 (55%), Gaps = 9/38 (23%)

Query: 126 NAAEEVNEDVQGATERMDGEG---------IKGVNDEK 154
            A  +V+ED+ GA +R+ GEG         + GV+D K
Sbjct: 319 KATPQVSEDIAGALQRLTGEGRGAXGSXFKVIGVSDPK 356


  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
   0.314    0.133    0.375 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,245,626
Number of Sequences: 62578
Number of extensions: 138719
Number of successful extensions: 189
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 178
Number of HSP's gapped (non-prelim): 12
length of query: 165
length of database: 14,973,337
effective HSP length: 91
effective length of query: 74
effective length of database: 9,278,739
effective search space: 686626686
effective search space used: 686626686
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 47 (22.7 bits)