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= 048602
         (176 letters)

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

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



>pdb|3TJ1|A Chain A, Crystal Structure Of Rna Polymerase I Transcription
           Initiation Factor Rrn3
 pdb|3TJ1|B Chain B, Crystal Structure Of Rna Polymerase I Transcription
           Initiation Factor Rrn3
          Length = 649

 Score = 30.4 bits (67), Expect = 0.57,   Method: Compositional matrix adjust.
 Identities = 19/57 (33%), Positives = 27/57 (47%), Gaps = 4/57 (7%)

Query: 98  KELKAKLCSVRLVSSTHADCSIATNFAGGKTGVKLMRSPTSMFRDIIKYRVGPFYYT 154
           KEL  KL S+  + STH +  +         GV +  + T++F    K  V P YYT
Sbjct: 348 KELSTKLDSILTLVSTHVEEQVTPESLESGEGVGVFNTLTTLF----KTHVLPTYYT 400


>pdb|1DXJ|A Chain A, Structure Of The Chitinase From Jack Bean
          Length = 242

 Score = 28.9 bits (63), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 14/43 (32%), Positives = 24/43 (55%), Gaps = 1/43 (2%)

Query: 124 AGGKTGVKLMRSPTSMFRD-IIKYRVGPFYYTTPMCEKPDTND 165
           AG   GV L+ +P  + RD +I ++   +++ TP   KP  +D
Sbjct: 126 AGRALGVDLINNPDLVARDAVISFKTAIWFWMTPQGNKPSCHD 168


>pdb|1PLS|A Chain A, Solution Structure Of A Pleckstrin Homology Domain
          Length = 113

 Score = 28.5 bits (62), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 13/37 (35%), Positives = 18/37 (48%)

Query: 52 NGSNPLKGVTVSLTCMDDRSRAMCYKSDETDEQGQFY 88
           G  PLKG T++  C D   R   +K   T +Q  F+
Sbjct: 45 KGMIPLKGSTLTSPCQDFGKRMFVFKITTTKQQDHFF 81


>pdb|2Z37|A Chain A, Crystal Structure Of Brassica Juncea Chitinase Catalytic
           Module (Bjchi3)
 pdb|2Z37|B Chain B, Crystal Structure Of Brassica Juncea Chitinase Catalytic
           Module (Bjchi3)
 pdb|2Z37|C Chain C, Crystal Structure Of Brassica Juncea Chitinase Catalytic
           Module (Bjchi3)
 pdb|2Z37|D Chain D, Crystal Structure Of Brassica Juncea Chitinase Catalytic
           Module (Bjchi3)
          Length = 244

 Score = 28.1 bits (61), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 13/51 (25%), Positives = 28/51 (54%), Gaps = 1/51 (1%)

Query: 125 GGKTGVKLMRSPTSMFRD-IIKYRVGPFYYTTPMCEKPDTNDSQSDEDQGS 174
           G   G++L+++P     D +I ++   +++ TP   KP  +D  +D+ + S
Sbjct: 130 GRDLGLELLKNPDVASSDPVIAFKTAIWFWMTPQAPKPSCHDVITDQWEPS 180


>pdb|2Z38|A Chain A, Crystal Structure Of Chloride Bound Brassica Juncea
           Chitinase Catalytic Module (Bjchi3)
          Length = 247

 Score = 28.1 bits (61), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 13/51 (25%), Positives = 28/51 (54%), Gaps = 1/51 (1%)

Query: 125 GGKTGVKLMRSPTSMFRD-IIKYRVGPFYYTTPMCEKPDTNDSQSDEDQGS 174
           G   G++L+++P     D +I ++   +++ TP   KP  +D  +D+ + S
Sbjct: 133 GRDLGLELLKNPDVASSDPVIAFKTAIWFWMTPQAPKPSCHDVITDQWEPS 183


>pdb|2Z39|A Chain A, Crystal Structure Of Brassica Juncea Chitinase Catalytic
           Module Glu234ala Mutant (bjchi3-e234a)
 pdb|2Z39|B Chain B, Crystal Structure Of Brassica Juncea Chitinase Catalytic
           Module Glu234ala Mutant (bjchi3-e234a)
          Length = 246

 Score = 28.1 bits (61), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 13/51 (25%), Positives = 28/51 (54%), Gaps = 1/51 (1%)

Query: 125 GGKTGVKLMRSPTSMFRD-IIKYRVGPFYYTTPMCEKPDTNDSQSDEDQGS 174
           G   G++L+++P     D +I ++   +++ TP   KP  +D  +D+ + S
Sbjct: 132 GRDLGLELLKNPDVASSDPVIAFKTAIWFWMTPQAPKPSCHDVITDQWEPS 182


  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
   0.319    0.132    0.401 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,343,175
Number of Sequences: 62578
Number of extensions: 208569
Number of successful extensions: 326
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 325
Number of HSP's gapped (non-prelim): 6
length of query: 176
length of database: 14,973,337
effective HSP length: 92
effective length of query: 84
effective length of database: 9,216,161
effective search space: 774157524
effective search space used: 774157524
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 48 (23.1 bits)