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= 030360
         (179 letters)

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

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



>pdb|2GHP|A Chain A, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
           Of The Yeast Splicing Factor Prp24
 pdb|2GHP|B Chain B, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
           Of The Yeast Splicing Factor Prp24
 pdb|2GHP|C Chain C, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
           Of The Yeast Splicing Factor Prp24
 pdb|2GHP|D Chain D, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
           Of The Yeast Splicing Factor Prp24
 pdb|2GHP|E Chain E, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
           Of The Yeast Splicing Factor Prp24
 pdb|2GHP|F Chain F, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
           Of The Yeast Splicing Factor Prp24
 pdb|2GHP|G Chain G, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
           Of The Yeast Splicing Factor Prp24
 pdb|2GHP|H Chain H, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
           Of The Yeast Splicing Factor Prp24
          Length = 292

 Score = 29.3 bits (64), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 16/56 (28%), Positives = 29/56 (51%)

Query: 24  TTAENVKRPAPKAGGCRIEGYVRVKKVPGNLIISARSGAHSFDTSEMNMSHVISHL 79
           T+ E+ +    K  G +IEGY  V KV   L  S R+ + + +  E+ + ++ + L
Sbjct: 167 TSKEDARYCVEKLNGLKIEGYTLVTKVSNPLEKSKRTDSATLEGREIXIRNLSTEL 222


>pdb|3H32|B Chain B, Crystal Structure Of D-Dimer From Human Fibrin Complexed
          With Gly-His- Arg-Pro-Tyr-Amide
 pdb|3H32|E Chain E, Crystal Structure Of D-Dimer From Human Fibrin Complexed
          With Gly-His- Arg-Pro-Tyr-Amide
          Length = 458

 Score = 28.5 bits (62), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 14/34 (41%), Positives = 17/34 (50%)

Query: 6  APIPLEESHKLALDGKHKTTAENVKRPAPKAGGC 39
          AP P+      A   K   T + V+R AP AGGC
Sbjct: 32 APPPISGGGYRARPAKAAATQKKVERKAPDAGGC 65


>pdb|3GHG|B Chain B, Crystal Structure Of Human Fibrinogen
 pdb|3GHG|E Chain E, Crystal Structure Of Human Fibrinogen
 pdb|3GHG|H Chain H, Crystal Structure Of Human Fibrinogen
 pdb|3GHG|K Chain K, Crystal Structure Of Human Fibrinogen
          Length = 461

 Score = 28.5 bits (62), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 14/34 (41%), Positives = 17/34 (50%)

Query: 6  APIPLEESHKLALDGKHKTTAENVKRPAPKAGGC 39
          AP P+      A   K   T + V+R AP AGGC
Sbjct: 32 APPPISGGGYRARPAKAAATQKKVERKAPDAGGC 65


>pdb|3VUO|A Chain A, Crystal Structure Of Nontoxic Nonhemagglutinin Subcomponent
            (Ntnha) From Clostridium Botulinum Serotype D Strain 4947
          Length = 1196

 Score = 28.5 bits (62), Expect = 1.9,   Method: Composition-based stats.
 Identities = 19/41 (46%), Positives = 24/41 (58%), Gaps = 3/41 (7%)

Query: 99   YLGGSHDRLNGR--SFINHREVGANVTIEHYLQIVKTEVIT 137
            Y+  S DRL  +   FIN + V ANV+IE  L I  T VI+
Sbjct: 964  YISISVDRLKDQLLIFINDKNV-ANVSIEQILNIYSTNVIS 1003


  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    0.133    0.378 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,176,259
Number of Sequences: 62578
Number of extensions: 198564
Number of successful extensions: 382
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 378
Number of HSP's gapped (non-prelim): 5
length of query: 179
length of database: 14,973,337
effective HSP length: 93
effective length of query: 86
effective length of database: 9,153,583
effective search space: 787208138
effective search space used: 787208138
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: 48 (23.1 bits)