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= 007099
         (618 letters)

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

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



>pdb|1WJ2|A Chain A, Solution Structure Of The C-Terminal Wrky Domain Of
           Atwrky4
 pdb|2LEX|A Chain A, Complex Of The C-Terminal Wrky Domain Of Atwrky4 And A
           W-Box Dna
          Length = 78

 Score = 86.7 bits (213), Expect = 3e-17,   Method: Composition-based stats.
 Identities = 39/68 (57%), Positives = 49/68 (72%), Gaps = 1/68 (1%)

Query: 350 VRARSEAPMITDGCQWRKYGQKMAKGNPCPRAYYRCTMAVGCPVRKQVQRCAEDRTILIT 409
           V+  SE  ++ DG +WRKYGQK+ KGNP PR+YY+CT   GC VRK V+R A D   ++T
Sbjct: 8   VQTTSEVDLLDDGYRWRKYGQKVVKGNPYPRSYYKCTTP-GCGVRKHVERAATDPKAVVT 66

Query: 410 TYEGNHNH 417
           TYEG HNH
Sbjct: 67  TYEGKHNH 74


>pdb|2AYD|A Chain A, Crystal Structure Of The C-Terminal Wrky Domainof Atwrky1,
           An Sa-Induced And Partially Npr1-Dependent Transcription
           Factor
          Length = 76

 Score = 86.3 bits (212), Expect = 4e-17,   Method: Composition-based stats.
 Identities = 37/72 (51%), Positives = 53/72 (73%), Gaps = 1/72 (1%)

Query: 346 ARVSVRARSEAPMITDGCQWRKYGQKMAKGNPCPRAYYRCTMAVGCPVRKQVQRCAEDRT 405
           +R+ V  ++   ++ DG +WRKYGQK  KG+P PR+YYRC+ + GCPV+K V+R + D  
Sbjct: 1   SRIVVHTQTLFDIVNDGYRWRKYGQKSVKGSPYPRSYYRCS-SPGCPVKKHVERSSHDTK 59

Query: 406 ILITTYEGNHNH 417
           +LITTYEG H+H
Sbjct: 60  LLITTYEGKHDH 71


>pdb|2J5U|A Chain A, Mrec Lysteria Monocytogenes
 pdb|2J5U|B Chain B, Mrec Lysteria Monocytogenes
          Length = 255

 Score = 30.8 bits (68), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 23/83 (27%), Positives = 37/83 (44%), Gaps = 10/83 (12%)

Query: 160 ELTQLQVELQQMNTENQRLRDML--SQVTNNYNALQMHIIALMQQQQENRRAPESNQAHE 217
           EL QL+ E+  +  EN+ L++ L  +    +Y+ L   +I+        R     N   E
Sbjct: 37  ELAQLESEVADLKKENKDLKESLDITDSIRDYDPLNASVIS--------RNPTNWNDQVE 88

Query: 218 VVEGKDEGKKHDDQVMVPRQFIG 240
           + +G  +G K D  V  P   IG
Sbjct: 89  IDKGSSDGVKPDMAVTTPSGLIG 111


>pdb|2J01|L Chain L, Structure Of The Thermus Thermophilus 70s Ribosome
           Complexed With Mrna, Trna And Paromomycin (Part 2 Of 4).
           This File Contains The 50s Subunit From Molecule I.
 pdb|2J01|M Chain M, Structure Of The Thermus Thermophilus 70s Ribosome
           Complexed With Mrna, Trna And Paromomycin (Part 2 Of 4).
           This File Contains The 50s Subunit From Molecule I.
 pdb|2J03|L Chain L, Structure Of The Thermus Thermophilus 70s Ribosome
           Complexed With Mrna, Trna And Paromomycin (Part 4 Of 4).
           This File Contains The 50s Subunit From Molecule Ii.
 pdb|2J03|M Chain M, Structure Of The Thermus Thermophilus 70s Ribosome
           Complexed With Mrna, Trna And Paromomycin (Part 4 Of 4).
           This File Contains The 50s Subunit From Molecule Ii.
 pdb|3I8I|I Chain I, Elongation Complex Of The 70s Ribosome With Three Trnas
           And Entry 3i8i Contains 50s Ribosomal Subnit. The 30s
           Ribosomal Can Be Found In Pdb Entry 3i8h. Molecule A In
           The Same Asym Unit Is Deposited As 3i8f (50s) And 3i8g
           (30s).
 pdb|3I8I|J Chain J, Elongation Complex Of The 70s Ribosome With Three Trnas
           And Entry 3i8i Contains 50s Ribosomal Subnit. The 30s
           Ribosomal Can Be Found In Pdb Entry 3i8h. Molecule A In
           The Same Asym Unit Is Deposited As 3i8f (50s) And 3i8g
           (30s)
          Length = 125

 Score = 28.9 bits (63), Expect = 9.0,   Method: Composition-based stats.
 Identities = 21/63 (33%), Positives = 28/63 (44%)

Query: 107 IKKENSHDQLRHRTGLDVNTGLHLLTAANTGSDQSTVDDGVSSDHADEKRTKIELTQLQV 166
           I KE    +L     L   TGL L  A +       V +GVS   A+E + K+E     V
Sbjct: 63  ILKEAGAKKLEVIKELRAITGLGLKEAKDLAEKGGPVKEGVSKQEAEEIKKKLEAVGAVV 122

Query: 167 ELQ 169
           EL+
Sbjct: 123 ELK 125


  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
   0.313    0.127    0.369 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,800,634
Number of Sequences: 62578
Number of extensions: 456344
Number of successful extensions: 937
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: 932
Number of HSP's gapped (non-prelim): 8
length of query: 618
length of database: 14,973,337
effective HSP length: 105
effective length of query: 513
effective length of database: 8,402,647
effective search space: 4310557911
effective search space used: 4310557911
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 54 (25.4 bits)