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= 011833
         (476 letters)

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

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



>pdb|1K6D|A Chain A, Crystal Structure Of Acetate Coa-Transferase Alpha Subunit
 pdb|1K6D|B Chain B, Crystal Structure Of Acetate Coa-Transferase Alpha Subunit
          Length = 220

 Score = 33.5 bits (75), Expect = 0.29,   Method: Compositional matrix adjust.
 Identities = 21/49 (42%), Positives = 29/49 (59%), Gaps = 2/49 (4%)

Query: 387 CDRSGTFFYKDHIGKTNVPVLALAADQDLICPTEAVYETVKLIPEHLVS 435
           CD  G   Y+      N P++ALAAD  L+ P E V ET +L P+H+V+
Sbjct: 159 CDTLGNLTYQLSARNFN-PLIALAADITLVEPDELV-ETGELQPDHIVT 205


>pdb|1J1I|A Chain A, Crystal Structure Of A His-Tagged Serine Hydrolase
           Involved In The Carbazole Degradation (Carc Enzyme)
          Length = 296

 Score = 30.4 bits (67), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 13/46 (28%), Positives = 23/46 (50%)

Query: 386 LCDRSGTFFYKDHIGKTNVPVLALAADQDLICPTEAVYETVKLIPE 431
           + ++ G F+  + I K  VP L +    D + P E  Y+ + LI +
Sbjct: 205 IREQGGLFYDPEFIRKVQVPTLVVQGKDDKVVPVETAYKFLDLIDD 250


>pdb|2JQQ|A Chain A, Solution Structure Of Saccharomyces Cerevisiae Conserved
           Oligomeric Golgi Subunit 2 Protein (Cog2p)
          Length = 204

 Score = 28.9 bits (63), Expect = 5.8,   Method: Compositional matrix adjust.
 Identities = 22/87 (25%), Positives = 41/87 (47%), Gaps = 8/87 (9%)

Query: 195 DPDAPQFFDLQERLSTSLEDFQKQLDLIVKNDWDFDHYLEEDVPAVMEYIRTLSKP---- 250
           D +     +L E+  + L+ F  QLD ++K+D       +E +  V+EY++ L +     
Sbjct: 40  DEENETLINL-EKTQSDLQKFMTQLDHLIKDDIS---NTQEIIKDVLEYLKKLDEIYGSL 95

Query: 251 KDGKLLAVGHSMGGILLYAMLSHCGFE 277
           ++   L    S+G  L  ++   CG E
Sbjct: 96  RNHSQLTEALSLGKRLSKSLHEMCGIE 122


>pdb|1RH9|A Chain A, Family Gh5 Endo-Beta-Mannanase From Lycopersicon
           Esculentum (Tomato)
          Length = 373

 Score = 28.9 bits (63), Expect = 6.4,   Method: Compositional matrix adjust.
 Identities = 24/92 (26%), Positives = 38/92 (41%), Gaps = 9/92 (9%)

Query: 122 MSGQGFDTWILEVRG---AGLSAHRVE------FGEDSMITSANAKSTGGTTLSRESQSK 172
           +SG+ F  W+LE+ G   +  S H +E      +G D    + N+   G   +S      
Sbjct: 185 LSGKTFQNWVLEMAGYLKSIDSNHLLEIGLEGFYGNDMRQYNPNSYIFGTNFISNNQVQG 244

Query: 173 SQLMETVMQSSQRLSGLLNEGEDPDAPQFFDL 204
                  M  +Q L GL  E +D  A Q+  +
Sbjct: 245 IDFTTIHMYPNQWLPGLTQEAQDKWASQWIQV 276


>pdb|3AAD|A Chain A, Structure Of The Histone Chaperone Cia/asf1-double
           Bromodomain Complex Linking Histone Modifications And
           Site-specific Histone Eviction
          Length = 292

 Score = 28.9 bits (63), Expect = 7.1,   Method: Compositional matrix adjust.
 Identities = 18/67 (26%), Positives = 38/67 (56%), Gaps = 3/67 (4%)

Query: 203 DLQERLSTSLEDFQKQLDLIVKNDWDFD---HYLEEDVPAVMEYIRTLSKPKDGKLLAVG 259
           ++++RL  S E+F++ L+LIVKN   ++   H L +   ++++      K K+ KL  + 
Sbjct: 96  NVRKRLYPSREEFREHLELIVKNSATYNGPKHSLTQISQSMLDLCDEKLKEKEDKLARLE 155

Query: 260 HSMGGIL 266
            ++  +L
Sbjct: 156 KAINPLL 162


>pdb|1EQF|A Chain A, Crystal Structure Of The Double Bromodomain Module From
           Human Tafii250
          Length = 280

 Score = 28.5 bits (62), Expect = 8.8,   Method: Compositional matrix adjust.
 Identities = 18/67 (26%), Positives = 38/67 (56%), Gaps = 3/67 (4%)

Query: 203 DLQERLSTSLEDFQKQLDLIVKNDWDFD---HYLEEDVPAVMEYIRTLSKPKDGKLLAVG 259
           ++++RL  S E+F++ L+LIVKN   ++   H L +   ++++      K K+ KL  + 
Sbjct: 75  NVRKRLYPSREEFREHLELIVKNSATYNGPKHSLTQISQSMLDLCDEKLKEKEDKLARLE 134

Query: 260 HSMGGIL 266
            ++  +L
Sbjct: 135 KAINPLL 141


  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
   0.319    0.136    0.411 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,269,928
Number of Sequences: 62578
Number of extensions: 592761
Number of successful extensions: 1182
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1179
Number of HSP's gapped (non-prelim): 9
length of query: 476
length of database: 14,973,337
effective HSP length: 102
effective length of query: 374
effective length of database: 8,590,381
effective search space: 3212802494
effective search space used: 3212802494
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (25.0 bits)