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= 045852
         (211 letters)

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

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



>pdb|3MKQ|A Chain A, Crystal Structure Of Yeast AlphaBETAPRIME-Cop Subcomplex
           Of The Copi Vesicular Coat
 pdb|3MKQ|C Chain C, Crystal Structure Of Yeast AlphaBETAPRIME-Cop Subcomplex
           Of The Copi Vesicular Coat
 pdb|3MKQ|E Chain E, Crystal Structure Of Yeast AlphaBETAPRIME-Cop Subcomplex
           Of The Copi Vesicular Coat
          Length = 814

 Score = 28.5 bits (62), Expect = 2.5,   Method: Composition-based stats.
 Identities = 17/51 (33%), Positives = 25/51 (49%), Gaps = 7/51 (13%)

Query: 35  LWLWEQNSKLNTVFQNLETLSAHF--CLNLTNLMPSSASFRCLTK-LRVWA 82
           LW WE N  L   F+  E    HF  C+      PS+ +  CL + ++VW+
Sbjct: 123 LWNWENNWALEQTFEGHE----HFVMCVAFNPKDPSTFASGCLDRTVKVWS 169


>pdb|1T3Q|B Chain B, Crystal Structure Of Quinoline 2-Oxidoreductase From
           Pseudomonas Putida 86
 pdb|1T3Q|E Chain E, Crystal Structure Of Quinoline 2-Oxidoreductase From
           Pseudomonas Putida 86
          Length = 788

 Score = 27.3 bits (59), Expect = 5.8,   Method: Composition-based stats.
 Identities = 26/83 (31%), Positives = 38/83 (45%), Gaps = 4/83 (4%)

Query: 89  LVASS--AAKNLVQLVHVSVSECSKITELVVASEGDA-ANDEIIFPKLGYLELHRLQSLT 145
           +VASS   A++  QL+ V   E   +T +  A EG+A AND +    +      R +   
Sbjct: 119 VVASSRAIAEDAAQLIQVEYEELPAVTGIEAALEGEARANDTLAGNVVSRTSRARDELAP 178

Query: 146 TFCSANYTFKFPSLCDLSVSACP 168
            F S+    +    C   VSACP
Sbjct: 179 IFASSAGVVRGQFSCG-RVSACP 200


>pdb|2YNP|A Chain A, Yeast Betaprime Cop 1-604 With Ktktn Motif
          Length = 604

 Score = 26.9 bits (58), Expect = 7.8,   Method: Compositional matrix adjust.
 Identities = 17/51 (33%), Positives = 25/51 (49%), Gaps = 7/51 (13%)

Query: 35  LWLWEQNSKLNTVFQNLETLSAHF--CLNLTNLMPSSASFRCLTK-LRVWA 82
           LW WE N  L   F+  E    HF  C+      PS+ +  CL + ++VW+
Sbjct: 123 LWNWENNWALEQTFEGHE----HFVMCVAFNPKDPSTFASGCLDRTVKVWS 169


>pdb|2YNO|A Chain A, Yeast Betaprime Cop 1-304h6
 pdb|2YNO|B Chain B, Yeast Betaprime Cop 1-304h6
          Length = 310

 Score = 26.6 bits (57), Expect = 9.7,   Method: Compositional matrix adjust.
 Identities = 17/51 (33%), Positives = 25/51 (49%), Gaps = 7/51 (13%)

Query: 35  LWLWEQNSKLNTVFQNLETLSAHF--CLNLTNLMPSSASFRCLTK-LRVWA 82
           LW WE N  L   F+  E    HF  C+      PS+ +  CL + ++VW+
Sbjct: 123 LWNWENNWALEQTFEGHE----HFVMCVAFNPKDPSTFASGCLDRTVKVWS 169


>pdb|2YNN|A Chain A, Yeast Betaprime Cop 1-304 With Ktktn Motif
          Length = 304

 Score = 26.6 bits (57), Expect = 9.7,   Method: Compositional matrix adjust.
 Identities = 17/51 (33%), Positives = 25/51 (49%), Gaps = 7/51 (13%)

Query: 35  LWLWEQNSKLNTVFQNLETLSAHF--CLNLTNLMPSSASFRCLTK-LRVWA 82
           LW WE N  L   F+  E    HF  C+      PS+ +  CL + ++VW+
Sbjct: 123 LWNWENNWALEQTFEGHE----HFVMCVAFNPKDPSTFASGCLDRTVKVWS 169


  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
   0.322    0.134    0.413 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,318,797
Number of Sequences: 62578
Number of extensions: 176858
Number of successful extensions: 349
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 349
Number of HSP's gapped (non-prelim): 9
length of query: 211
length of database: 14,973,337
effective HSP length: 95
effective length of query: 116
effective length of database: 9,028,427
effective search space: 1047297532
effective search space used: 1047297532
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: 49 (23.5 bits)