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= psy11737
         (125 letters)

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

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



>pdb|1RO5|A Chain A, Crystal Structure Of The Ahl Synthase Lasi
          Length = 201

 Score = 28.9 bits (63), Expect = 0.72,   Method: Compositional matrix adjust.
 Identities = 13/47 (27%), Positives = 23/47 (48%)

Query: 60  KIRSEFLKHKHVTDIRIIDMLVIKGQMELRETASLFKHKGQIMSYWK 106
           K+R++  K +   D+ +ID + I G   L     L +  GQ+   W+
Sbjct: 24  KLRAQVFKERKGWDVSVIDEMEIDGYDALSPYYMLIQEDGQVFGCWR 70


>pdb|1SXJ|B Chain B, Crystal Structure Of The Eukaryotic Clamp Loader
           (Replication Factor C, Rfc) Bound To The Dna Sliding
           Clamp (Proliferating Cell Nuclear Antigen, Pcna)
          Length = 323

 Score = 26.9 bits (58), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 16/66 (24%), Positives = 35/66 (53%), Gaps = 2/66 (3%)

Query: 15  VRPLLSTTKADARVRVL--GLYKAWIRQATLIPIDYDVPKSEEQIKEKIRSEFLKHKHVT 72
           V+ +L  +  +  +++L   L+K       ++   + V K+  Q+KE +R E +K   +T
Sbjct: 236 VKKMLLASNLEDSIQILRTDLWKKGYSSIDIVTTSFRVTKNLAQVKESVRLEMIKEIGLT 295

Query: 73  DIRIID 78
            +RI++
Sbjct: 296 HMRILE 301


>pdb|1BTN|A Chain A, Structure Of The Binding Site For Inositol Phosphates In
          A Ph Domain
 pdb|1MPH|A Chain A, Pleckstrin Homology Domain From Mouse Beta-Spectrin,
          Nmr, 50 Structures
          Length = 106

 Score = 26.2 bits (56), Expect = 5.5,   Method: Compositional matrix adjust.
 Identities = 15/48 (31%), Positives = 26/48 (54%)

Query: 31 LGLYKAWIRQATLIPIDYDVPKSEEQIKEKIRSEFLKHKHVTDIRIID 78
          +G YK     A+ IP   +VP S ++   ++  ++ K KHV  +R+ D
Sbjct: 35 MGFYKDAKSAASGIPYHSEVPVSLKEAICEVALDYKKKKHVFKLRLSD 82


>pdb|1SXJ|A Chain A, Crystal Structure Of The Eukaryotic Clamp Loader
           (Replication Factor C, Rfc) Bound To The Dna Sliding
           Clamp (Proliferating Cell Nuclear Antigen, Pcna)
          Length = 516

 Score = 25.8 bits (55), Expect = 7.1,   Method: Composition-based stats.
 Identities = 16/79 (20%), Positives = 35/79 (44%), Gaps = 12/79 (15%)

Query: 57  IKEKIRSEFLKHKHVTDIRIIDMLVIKGQMELRETASLF------------KHKGQIMSY 104
           IK ++ +  ++ K   D  +ID L+   + ++R+  +L             ++  +I   
Sbjct: 214 IKSRLMTIAIREKFKLDPNVIDRLIQTTRGDIRQVINLLSTISTTTKTINHENINEISKA 273

Query: 105 WKETLEPKPTDFISKFMSG 123
           W++ +  KP D   K + G
Sbjct: 274 WEKNIALKPFDIAHKMLDG 292


  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    0.133    0.378 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,344,350
Number of Sequences: 62578
Number of extensions: 116370
Number of successful extensions: 247
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 242
Number of HSP's gapped (non-prelim): 8
length of query: 125
length of database: 14,973,337
effective HSP length: 86
effective length of query: 39
effective length of database: 9,591,629
effective search space: 374073531
effective search space used: 374073531
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: 45 (21.9 bits)