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= 027012
         (229 letters)

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

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



>pdb|1U27|A Chain A, Triglycine Variant Of The Arno Pleckstrin Homology Domain
           In Complex With Ins(1,3,4,5)p4
 pdb|1U29|A Chain A, Triglycine Variant Of The Arno Pleckstrin Homology Domain
           In Complex With Ins(1,4,5)p3
          Length = 129

 Score = 30.8 bits (68), Expect = 0.73,   Method: Compositional matrix adjust.
 Identities = 24/84 (28%), Positives = 40/84 (47%), Gaps = 10/84 (11%)

Query: 106 GSGKMK---RRILLITDFAIYLVDPETDALKRRIALAAVEKMCLSELSD----NFFAIII 158
           G G++K   RR  ++TD  +Y  +  TD   R   +  +E + + E+ D    N F + I
Sbjct: 21  GGGRVKTWKRRWFILTDNCLYYFEYTTDKEPR--GIIPLENLSIREVDDPRKPNCFELYI 78

Query: 159 PSEYDLLMASTRKTEIVTVLVEAT 182
           P+    L+ +  KTE    +VE  
Sbjct: 79  PNNKGQLIKAC-KTEADGRVVEGN 101


>pdb|3GDE|A Chain A, The Closed Conformation Of Atp-Dependent Dna Ligase From
           Archaeoglobus Fulgidus
          Length = 558

 Score = 28.1 bits (61), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 11/22 (50%), Positives = 15/22 (68%)

Query: 99  DKILKFTGSGKMKRRILLITDF 120
           D+I   TG G MKR+I+L+T  
Sbjct: 125 DEIASLTGEGSMKRKIMLLTGL 146


>pdb|1P16|A Chain A, Structure Of An Mrna Capping Enzyme Bound To The
           Phosphorylated Carboxyl-Terminal Domain Of Rna
           Polymerase Ii
 pdb|1P16|B Chain B, Structure Of An Mrna Capping Enzyme Bound To The
           Phosphorylated Carboxyl-Terminal Domain Of Rna
           Polymerase Ii
          Length = 395

 Score = 27.3 bits (59), Expect = 8.2,   Method: Compositional matrix adjust.
 Identities = 16/52 (30%), Positives = 26/52 (50%)

Query: 40  RLRPSENNVTEDQEPFMGIKVRRKASLHRDYKGDYLDVASHPYLMKILQKQG 91
           + +P+E N  + Q  F+  +V+      RD    YLD  + P L+K+   QG
Sbjct: 241 KWKPAEENTVDFQLEFVFNEVQDPDLDERDPTSTYLDYDAKPNLIKLRVWQG 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
   0.318    0.134    0.368 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,276,993
Number of Sequences: 62578
Number of extensions: 180923
Number of successful extensions: 412
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 409
Number of HSP's gapped (non-prelim): 4
length of query: 229
length of database: 14,973,337
effective HSP length: 95
effective length of query: 134
effective length of database: 9,028,427
effective search space: 1209809218
effective search space used: 1209809218
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: 50 (23.9 bits)