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= 009169
         (541 letters)

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

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



>pdb|3AX1|A Chain A, Molecular Insights Into Mirna Processing By Arabidopsis
           Serrate
          Length = 358

 Score =  535 bits (1379), Expect = e-152,   Method: Compositional matrix adjust.
 Identities = 262/353 (74%), Positives = 294/353 (83%), Gaps = 5/353 (1%)

Query: 1   MSYKQFIQELEDDILPAEAERRYQEYKSEYISTQKRVFFDAHKDEEWLKDKYHPTNLVAV 60
           MSYKQFIQELEDDILP+EAERRYQEYKSEYI+TQKR FF+ HK+E+WLK+KYHPTNL++V
Sbjct: 3   MSYKQFIQELEDDILPSEAERRYQEYKSEYITTQKRAFFNTHKEEDWLKNKYHPTNLLSV 62

Query: 61  IERRNDLARKVAKDFLLDLQSGTLDLGPSVNASSSNKLGQTSEPNSDDDVDNGGKRRRHG 120
           IERRNDLA+KVAKDFLLDLQSGTLDLGP+V A   NK G+TSEPNS+D+    GKR+RHG
Sbjct: 63  IERRNDLAQKVAKDFLLDLQSGTLDLGPAVTA--LNKSGRTSEPNSEDEAAGVGKRKRHG 120

Query: 121 RGPAKETDLLSAAPKAHPISSEPRRIQVDIEQAQALVRKLDSEKGITENILCGSDNDKMN 180
            G AKE +LLSAAPKA   +S+P+RI  D+EQ QALVRKLDSEK I EN+L GS+ +K  
Sbjct: 121 MGGAKENELLSAAPKAPSFTSDPKRILTDVEQTQALVRKLDSEKKIEENVLQGSETEKSG 180

Query: 181 REKSH-GSTGPVIIIRGLTSVKGLEGVELLDTLITYLWRIHGVDYYGMVETSEAKGLRHV 239
           REK H GSTGPV+IIRGLTSVKGLEGVELLDTL+TYLWR+HG+DYYG VET+EAKGLRHV
Sbjct: 181 REKLHSGSTGPVVIIRGLTSVKGLEGVELLDTLVTYLWRVHGLDYYGKVETNEAKGLRHV 240

Query: 240 RAEGKSSDITNNGAEWEKKLDFRWQERLRSQDPLEIMTXXXXXXXXXXXXXXPFVRKIRD 299
           RAEGK SD    G E E K D  WQERL+ QDPLE+M               P VRKIRD
Sbjct: 241 RAEGKVSDA--KGDENESKFDSHWQERLKGQDPLEVMAAKEKIDAAATEALDPHVRKIRD 298

Query: 300 EKYGWKYGCGAKGCTKLFHAAEFVHKHLKLKHPELVIELTSKVREELYFQNYM 352
           EKYGWKYGCGAKGCTKLFHAAEFV+KHLKLKH ELV ELT+KVREELYFQNY+
Sbjct: 299 EKYGWKYGCGAKGCTKLFHAAEFVYKHLKLKHTELVTELTTKVREELYFQNYL 351


>pdb|4GRS|A Chain A, Crystal Structure Of A Chimeric Dah7ps
 pdb|4GRS|B Chain B, Crystal Structure Of A Chimeric Dah7ps
 pdb|4GRS|C Chain C, Crystal Structure Of A Chimeric Dah7ps
 pdb|4GRS|D Chain D, Crystal Structure Of A Chimeric Dah7ps
          Length = 333

 Score = 32.0 bits (71), Expect = 1.0,   Method: Compositional matrix adjust.
 Identities = 15/37 (40%), Positives = 17/37 (45%)

Query: 217 WRIHGVDYYGMVETSEAKGLRHVRAEGKSSDITNNGA 253
           W     D YG+V  +E    RHV    K SDI   GA
Sbjct: 149 WMREAADEYGLVTVTEVMDTRHVELVAKYSDILQIGA 185


>pdb|1ZCO|A Chain A, Crystal Structure Of Pyrococcus Furiosus
           3-Deoxy-D-Arabino- Heptulosonate 7-Phosphate Synthase
 pdb|1ZCO|B Chain B, Crystal Structure Of Pyrococcus Furiosus
           3-Deoxy-D-Arabino- Heptulosonate 7-Phosphate Synthase
          Length = 262

 Score = 31.6 bits (70), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 15/37 (40%), Positives = 17/37 (45%)

Query: 217 WRIHGVDYYGMVETSEAKGLRHVRAEGKSSDITNNGA 253
           W     D YG+V  +E    RHV    K SDI   GA
Sbjct: 78  WMREAADEYGLVTVTEVMDTRHVELVAKYSDILQIGA 114


  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
   0.315    0.135    0.396 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,754,806
Number of Sequences: 62578
Number of extensions: 650984
Number of successful extensions: 1036
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1030
Number of HSP's gapped (non-prelim): 8
length of query: 541
length of database: 14,973,337
effective HSP length: 104
effective length of query: 437
effective length of database: 8,465,225
effective search space: 3699303325
effective search space used: 3699303325
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 54 (25.4 bits)