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= psy8691
         (211 letters)

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

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



>pdb|2YUD|A Chain A, Solution Structure Of The Yth Domain In Yth Domain-
           Containing Protein 1 (Putative Splicing Factor Yt521)
          Length = 180

 Score =  167 bits (422), Expect = 4e-42,   Method: Compositional matrix adjust.
 Identities = 83/166 (50%), Positives = 104/166 (62%), Gaps = 41/166 (24%)

Query: 37  DYITKINYLFRDARFFVIKSNNSENVDIAKSQGVWSTLPQNEQKLNQAYRESRDVLLIFS 96
           D  +K+ Y+ +DARFF+IKSNN ENV +AK++G                           
Sbjct: 14  DQTSKLKYVLQDARFFLIKSNNHENVSLAKAKG--------------------------- 46

Query: 97  NYYVSNELNFKVYGVWSTLPQNEQKLNQAYRESRNVLLIFSVRESGKFSGFARLASEADH 156
                         VWSTLP NE+KLN A+R +R+V+LIFSVRESGKF GFARL+SE+ H
Sbjct: 47  --------------VWSTLPVNEKKLNLAFRSARSVILIFSVRESGKFQGFARLSSESHH 92

Query: 157 GVSPVKWVLPPGLSGKVLNGVFKIDWVSRKELPFTSTLHLYNSWNE 202
           G SP+ WVLP G+S K+L GVFKIDW+ R+ELPFT + HL N WNE
Sbjct: 93  GGSPIHWVLPAGMSAKMLGGVFKIDWICRRELPFTKSAHLTNPWNE 138


>pdb|2YU6|A Chain A, Solution Structure Of The Yth Domain In Yth Domain-
           Containing Protein 2
          Length = 141

 Score = 81.6 bits (200), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 44/93 (47%), Positives = 60/93 (64%), Gaps = 7/93 (7%)

Query: 110 GVWSTLPQNEQKLNQAYRESRNVLLIFSVRESGKFSGFARLASEADHGVSPVKWVLPPGL 169
           G+WST P NE+KLN+A+ ES  V L+FSV+ SG F GF+R++SE     S   W    G 
Sbjct: 28  GIWSTTPSNERKLNRAFWESSIVYLVFSVQGSGHFQGFSRMSSEIGREKSQ-DW----GS 82

Query: 170 SGKVLNGVFKIDWVSRKELPFTSTLHLYNSWNE 202
           +G  L GVFK++W+ ++ LPF    HL N WN+
Sbjct: 83  AG--LGGVFKVEWIRKESLPFQFAHHLLNPWND 113


>pdb|1ZC2|A Chain A, Crystal Structure Of Plasmid-Encoded Class C
           Beta-Lactamase Cmy-2 Complexed With Citrate Molecule
 pdb|1ZC2|B Chain B, Crystal Structure Of Plasmid-Encoded Class C
           Beta-Lactamase Cmy-2 Complexed With Citrate Molecule
          Length = 361

 Score = 27.7 bits (60), Expect = 4.2,   Method: Compositional matrix adjust.
 Identities = 17/46 (36%), Positives = 25/46 (54%), Gaps = 7/46 (15%)

Query: 71  WSTLPQNEQK-LNQAYRESRDVLLIFSNYYVSNELNFKVYGVWSTL 115
           W T+PQNEQK     YRE + V      +    +L+ + YGV S++
Sbjct: 188 WITVPQNEQKDYAWGYREGKPV------HVSPGQLDAEAYGVKSSV 227


  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
   0.317    0.132    0.399 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,648,000
Number of Sequences: 62578
Number of extensions: 264155
Number of successful extensions: 648
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 643
Number of HSP's gapped (non-prelim): 7
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 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 49 (23.5 bits)