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= 041246
         (637 letters)

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

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



>pdb|1FQV|A Chain A, Insights Into Scf Ubiquitin Ligases From The Structure Of
           The Skp1-Skp2 Complex
 pdb|1FQV|C Chain C, Insights Into Scf Ubiquitin Ligases From The Structure Of
           The Skp1-Skp2 Complex
 pdb|1FQV|E Chain E, Insights Into Scf Ubiquitin Ligases From The Structure Of
           The Skp1-Skp2 Complex
 pdb|1FQV|G Chain G, Insights Into Scf Ubiquitin Ligases From The Structure Of
           The Skp1-Skp2 Complex
 pdb|1FQV|I Chain I, Insights Into Scf Ubiquitin Ligases From The Structure Of
           The Skp1-Skp2 Complex
 pdb|1FQV|K Chain K, Insights Into Scf Ubiquitin Ligases From The Structure Of
           The Skp1-Skp2 Complex
 pdb|1FQV|M Chain M, Insights Into Scf Ubiquitin Ligases From The Structure Of
           The Skp1-Skp2 Complex
 pdb|1FQV|O Chain O, Insights Into Scf Ubiquitin Ligases From The Structure Of
           The Skp1-Skp2 Complex
 pdb|2ASS|B Chain B, Crystal Structure Of The Skp1-Skp2-Cks1 Complex
 pdb|2AST|B Chain B, Crystal Structure Of Skp1-Skp2-Cks1 In Complex With A P27
           Peptide
          Length = 336

 Score = 33.1 bits (74), Expect = 0.43,   Method: Compositional matrix adjust.
 Identities = 20/68 (29%), Positives = 34/68 (50%), Gaps = 4/68 (5%)

Query: 340 IINTIVTQNFSLPALTTISLTGAYQLTDFGLSKLARSASALQSVNLSQCSLLTNEGINLL 399
           I+NT+   +     L  ++L+G    ++F L  L  S S L  +NLS C   T + + + 
Sbjct: 134 IVNTLAKNS----NLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVA 189

Query: 400 VKHLKSTL 407
           V H+  T+
Sbjct: 190 VAHVSETI 197


>pdb|1FS2|A Chain A, Insights Into Scf Ubiquitin Ligases From The Structure Of
           The Skp1-Skp2 Complex
 pdb|1FS2|C Chain C, Insights Into Scf Ubiquitin Ligases From The Structure Of
           The Skp1-Skp2 Complex
          Length = 272

 Score = 33.1 bits (74), Expect = 0.50,   Method: Compositional matrix adjust.
 Identities = 20/68 (29%), Positives = 34/68 (50%), Gaps = 4/68 (5%)

Query: 340 IINTIVTQNFSLPALTTISLTGAYQLTDFGLSKLARSASALQSVNLSQCSLLTNEGINLL 399
           I+NT+   +     L  ++L+G    ++F L  L  S S L  +NLS C   T + + + 
Sbjct: 96  IVNTLAKNS----NLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVA 151

Query: 400 VKHLKSTL 407
           V H+  T+
Sbjct: 152 VAHVSETI 159


>pdb|2QO3|A Chain A, Crystal Structure Of [ks3][at3] Didomain From Module 3 Of
           6- Deoxyerthronolide B Synthase
 pdb|2QO3|B Chain B, Crystal Structure Of [ks3][at3] Didomain From Module 3 Of
           6- Deoxyerthronolide B Synthase
          Length = 915

 Score = 32.7 bits (73), Expect = 0.61,   Method: Compositional matrix adjust.
 Identities = 24/77 (31%), Positives = 34/77 (44%), Gaps = 7/77 (9%)

Query: 154 LQKEGTQMNEFQRAREWRERRLAHPQEDDSFNKG----NKKGVLKEAEDESQDFGGGPFY 209
           L++ G  ++ F   R W   RL HP  D   N G    +K G L +A     +F G    
Sbjct: 31  LREGGETLSGFPTDRGWDLARLHHPDPD---NPGTSYVDKGGFLDDAAGFDAEFFGVSPR 87

Query: 210 EAMVMIKKRNLVQELKW 226
           EA  M  ++ L+ E  W
Sbjct: 88  EAAAMDPQQRLLLETSW 104


>pdb|3DGT|A Chain A, The 1.5 A Crystal Structure Of Endo-1,3-Beta-Glucanase
           From Streptomyces Sioyaensis
          Length = 280

 Score = 29.3 bits (64), Expect = 7.1,   Method: Compositional matrix adjust.
 Identities = 13/46 (28%), Positives = 20/46 (43%)

Query: 544 NHVRGVGLNTALSLAKCSRNLLSLDLSWCRFIKDEALGFIVDNCSL 589
           N   G+G +TA     C     +  + W R +  EA+ F VD  + 
Sbjct: 170 NETSGIGNSTACPNTTCQSGFHTYTMEWDRSVSPEAIRFSVDGVTY 215


  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
   0.318    0.134    0.385 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,462,771
Number of Sequences: 62578
Number of extensions: 605218
Number of successful extensions: 1349
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 1342
Number of HSP's gapped (non-prelim): 14
length of query: 637
length of database: 14,973,337
effective HSP length: 105
effective length of query: 532
effective length of database: 8,402,647
effective search space: 4470208204
effective search space used: 4470208204
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (25.8 bits)