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= 046558
         (136 letters)

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

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



>pdb|3HST|B Chain B, N-Terminal Rnase H Domain Of Rv2228c From Mycobacterium
           Tuberculosis As A Fusion Protein With Maltose Binding
           Protein
 pdb|3HST|D Chain D, N-Terminal Rnase H Domain Of Rv2228c From Mycobacterium
           Tuberculosis As A Fusion Protein With Maltose Binding
           Protein
          Length = 141

 Score = 28.1 bits (61), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 21/67 (31%), Positives = 32/67 (47%)

Query: 38  AGLGAVVKNHKGETVAAAVSTFKSSGDVELSEAKAVLWGMQAAAKAGATSVILESDSKGV 97
           AG GAVV      TV A            ++E + ++ G+  A K GAT   +  DSK V
Sbjct: 19  AGYGAVVWTADHSTVLAESKQAIGRATNNVAEYRGLIAGLDDAVKLGATEAAVLMDSKLV 78

Query: 98  IELINNK 104
           +E ++ +
Sbjct: 79  VEQMSGR 85


>pdb|3ZF7|U Chain U, High-resolution Cryo-electron Microscopy Structure Of The
           Trypanosoma Brucei Ribosome
          Length = 159

 Score = 27.7 bits (60), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 20/89 (22%), Positives = 38/89 (42%), Gaps = 2/89 (2%)

Query: 45  KNHKGETVAAAVSTFKSSGDVELSEAKAVLWGMQAAAKAGATSVILESDSKGVIELINN- 103
           + H   +V+  ++ FK    V++    AV  GM      G T ++     +GV  +IN  
Sbjct: 20  RKHGVPSVSTILTNFKVGDYVDVVADAAVRAGMPHKYYHGRTGIVWNVTPRGVGVIINKP 79

Query: 104 -KRSTLTDTFWVIFDIIEAKKIFQNFKAQ 131
            +  T+     V F+ +   +  + FK +
Sbjct: 80  VRNRTVRKRICVRFEHVRKSRCQEAFKQK 108


>pdb|4DIM|A Chain A, Crystal Structure Of Phosphoribosylglycinamide Synthetase
           From Anaerococcus Prevotii
          Length = 403

 Score = 26.2 bits (56), Expect = 5.6,   Method: Compositional matrix adjust.
 Identities = 15/63 (23%), Positives = 28/63 (44%), Gaps = 1/63 (1%)

Query: 55  AVSTFKSSGDVELSEAKAVLWGMQAAA-KAGATSVILESDSKGVIELINNKRSTLTDTFW 113
            +  +K      +SE   V W  ++   KAG    I+E++  G+++ I N  +   D   
Sbjct: 294 GIEYYKXIASXAISENPLVFWSQKSKENKAGLARXIIETEKSGILKEILNSNAKDDDIVE 353

Query: 114 VIF 116
           + F
Sbjct: 354 ITF 356


>pdb|3RIZ|A Chain A, Crystal Structure Of The Plant Steroid Receptor Bri1
           Ectodomain
 pdb|3RJ0|A Chain A, Plant Steroid Receptor Bri1 Ectodomain In Complex With
           Brassinolide
          Length = 772

 Score = 25.8 bits (55), Expect = 7.6,   Method: Composition-based stats.
 Identities = 19/52 (36%), Positives = 30/52 (57%), Gaps = 4/52 (7%)

Query: 21  GWLKVNVDDAMD-RVNYLAG---LGAVVKNHKGETVAAAVSTFKSSGDVELS 68
           G LK+N  + +D   N ++G   +G V+ +  GE    A+S  K SGDV++S
Sbjct: 143 GGLKLNSLEVLDLSANSISGANVVGWVLSDGCGELKHLAISGNKISGDVDVS 194


>pdb|3RGX|A Chain A, Structural Insight Into Brassinosteroid Perception By Bri1
 pdb|3RGZ|A Chain A, Structural Insight Into Brassinosteroid Perception By Bri1
          Length = 768

 Score = 25.8 bits (55), Expect = 7.6,   Method: Composition-based stats.
 Identities = 19/52 (36%), Positives = 30/52 (57%), Gaps = 4/52 (7%)

Query: 21  GWLKVNVDDAMD-RVNYLAG---LGAVVKNHKGETVAAAVSTFKSSGDVELS 68
           G LK+N  + +D   N ++G   +G V+ +  GE    A+S  K SGDV++S
Sbjct: 146 GGLKLNSLEVLDLSANSISGANVVGWVLSDGCGELKHLAISGNKISGDVDVS 197


  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
   0.314    0.128    0.364 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,703,022
Number of Sequences: 62578
Number of extensions: 124529
Number of successful extensions: 316
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 312
Number of HSP's gapped (non-prelim): 8
length of query: 136
length of database: 14,973,337
effective HSP length: 88
effective length of query: 48
effective length of database: 9,466,473
effective search space: 454390704
effective search space used: 454390704
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 46 (22.3 bits)