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= 004023
         (778 letters)

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

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



>pdb|3L8Q|A Chain A, Structure Analysis Of The Type Ii Cohesin Dyad From The
           Adap Scaffoldin Of Acetivibrio Cellulolyticus
 pdb|3L8Q|B Chain B, Structure Analysis Of The Type Ii Cohesin Dyad From The
           Adap Scaffoldin Of Acetivibrio Cellulolyticus
 pdb|3L8Q|C Chain C, Structure Analysis Of The Type Ii Cohesin Dyad From The
           Adap Scaffoldin Of Acetivibrio Cellulolyticus
 pdb|3L8Q|D Chain D, Structure Analysis Of The Type Ii Cohesin Dyad From The
           Adap Scaffoldin Of Acetivibrio Cellulolyticus
          Length = 350

 Score = 30.8 bits (68), Expect = 3.2,   Method: Compositional matrix adjust.
 Identities = 12/19 (63%), Positives = 16/19 (84%)

Query: 277 IKYDPSVIKAINPKYIVDY 295
           IKYDP+V++A+NPK  V Y
Sbjct: 209 IKYDPTVLQAVNPKTGVAY 227


>pdb|3GHP|A Chain A, Structure Of The Second Type Ii Cohesin Module From The
           Adaptor Scaa Scaffoldin Of Acetivibrio Cellulolyticus
           (Including Long C-Terminal Linker)
 pdb|3GHP|B Chain B, Structure Of The Second Type Ii Cohesin Module From The
           Adaptor Scaa Scaffoldin Of Acetivibrio Cellulolyticus
           (Including Long C-Terminal Linker)
          Length = 227

 Score = 30.8 bits (68), Expect = 3.3,   Method: Compositional matrix adjust.
 Identities = 12/19 (63%), Positives = 16/19 (84%)

Query: 277 IKYDPSVIKAINPKYIVDY 295
           IKYDP+V++A+NPK  V Y
Sbjct: 46  IKYDPTVLQAVNPKTGVAY 64


>pdb|3FNK|A Chain A, Crystal Structure Of The Second Type Ii Cohesin Module
           From The Cellulosomal Adaptor Scaa Scaffoldin Of
           Acetivibrio Cellulolyticus
 pdb|3FNK|B Chain B, Crystal Structure Of The Second Type Ii Cohesin Module
           From The Cellulosomal Adaptor Scaa Scaffoldin Of
           Acetivibrio Cellulolyticus
 pdb|3FNK|C Chain C, Crystal Structure Of The Second Type Ii Cohesin Module
           From The Cellulosomal Adaptor Scaa Scaffoldin Of
           Acetivibrio Cellulolyticus
          Length = 187

 Score = 30.8 bits (68), Expect = 3.4,   Method: Compositional matrix adjust.
 Identities = 12/19 (63%), Positives = 16/19 (84%)

Query: 277 IKYDPSVIKAINPKYIVDY 295
           IKYDP+V++A+NPK  V Y
Sbjct: 46  IKYDPTVLQAVNPKTGVAY 64


  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
   0.323    0.139    0.409 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,871,953
Number of Sequences: 62578
Number of extensions: 901069
Number of successful extensions: 1764
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 1761
Number of HSP's gapped (non-prelim): 4
length of query: 778
length of database: 14,973,337
effective HSP length: 106
effective length of query: 672
effective length of database: 8,340,069
effective search space: 5604526368
effective search space used: 5604526368
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 55 (25.8 bits)