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= 025901
         (246 letters)

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

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



>pdb|3CHM|A Chain A, Crystal Structure Of Pci Domain From A. Thaliana Cop9
           Signalosome Subunit 7 (Csn7)
          Length = 169

 Score =  255 bits (651), Expect = 2e-68,   Method: Compositional matrix adjust.
 Identities = 120/168 (71%), Positives = 134/168 (79%)

Query: 2   DIEQRQAELIDHFVKQASNQKGAALGSVIVEATSQPSLFAFSEILAVPNIAEFEGTENSK 61
           DIEQ+QAE+ID  VK+AS  K  ALG +I+EATS PSLFAFSEILA+PN+A+ EGT +S 
Sbjct: 2   DIEQKQAEIIDQLVKRASTCKSEALGPLIIEATSHPSLFAFSEILALPNVAQLEGTTDSV 61

Query: 62  YLDMLRLFAHGTWSDYKNNAGHLPQLVPDXXXXXXXXXXXXXAETNKVLPYDELMEELDV 121
           YLD+LRLFAHGTW DYK NA  LP L PD             AE+NKVLPYD LM ELDV
Sbjct: 62  YLDLLRLFAHGTWGDYKCNATRLPHLSPDQILKLKQLTVLTLAESNKVLPYDTLMVELDV 121

Query: 122 TNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGS 169
           +NVRELEDFLINECMY GIVRGKLDQL+RCFEV FAAGRDLRPGQLG+
Sbjct: 122 SNVRELEDFLINECMYAGIVRGKLDQLKRCFEVPFAAGRDLRPGQLGN 169


>pdb|3NRW|A Chain A, Crystal Structure Of The N-Terminal Domain Of Phage
           IntegraseSITE- Specific Recombinase (Tnp) From
           Haloarcula Marismortui, Northeast Structural Genomics
           Consortium Target Hmr208a
          Length = 117

 Score = 30.4 bits (67), Expect = 0.83,   Method: Compositional matrix adjust.
 Identities = 25/65 (38%), Positives = 29/65 (44%), Gaps = 18/65 (27%)

Query: 114 ELMEELDVTNVRELEDFLINECMYTGIVRGKLDQLRRCFEVQFAAGRDLRPGQLGSMIQT 173
           E  EE D+T  REL          TG    KLD+    +E  F  G D+ P  L    QT
Sbjct: 41  EWAEERDITAXREL----------TG---WKLDE----YET-FRRGSDVSPATLNGEXQT 82

Query: 174 LSNWL 178
           L NWL
Sbjct: 83  LKNWL 87


>pdb|3S44|A Chain A, Crystal Structure Of Pasteurella Multocida
           Sialyltransferase M144d Mutant With Cmp Bound
          Length = 399

 Score = 26.9 bits (58), Expect = 9.4,   Method: Compositional matrix adjust.
 Identities = 15/44 (34%), Positives = 28/44 (63%), Gaps = 3/44 (6%)

Query: 186 ISIQEKIKWADSMNE---MDKKHRKDLEEKVEEAKKSLSHKLHT 226
           +SIQ+   + D  +E   ++K+  KD+  ++++A+K LSH L T
Sbjct: 107 VSIQQLNLYDDGSDEYVDLEKEENKDISAEIKQAEKQLSHYLLT 150


  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
   0.315    0.131    0.370 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,493,375
Number of Sequences: 62578
Number of extensions: 238437
Number of successful extensions: 999
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 991
Number of HSP's gapped (non-prelim): 12
length of query: 246
length of database: 14,973,337
effective HSP length: 96
effective length of query: 150
effective length of database: 8,965,849
effective search space: 1344877350
effective search space used: 1344877350
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 50 (23.9 bits)