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= 024210
         (271 letters)

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

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



>pdb|3K1T|A Chain A, Crystal Structure Of Putative Gamma-Glutamylcysteine
           Synthetase (Yp_546622.1) From Methylobacillus
           Flagellatus Kt At 1.90 A Resolution
          Length = 432

 Score = 29.6 bits (65), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 13/37 (35%), Positives = 18/37 (48%)

Query: 211 YKESPVQFTLVPGSVFSCNSDLIPLSFMGPEVGVSKL 247
           +K +PV   L PG   + N D +PL      V V K+
Sbjct: 55  FKLAPVDTNLFPGGFNNLNPDFLPLCIQAAXVAVEKI 91


>pdb|3S5P|A Chain A, Crystal Structure Of Ribose-5-Phosphate Isomerase B Rpib
           From Giardia Lamblia
 pdb|3S5P|B Chain B, Crystal Structure Of Ribose-5-Phosphate Isomerase B Rpib
           From Giardia Lamblia
          Length = 166

 Score = 27.7 bits (60), Expect = 6.2,   Method: Compositional matrix adjust.
 Identities = 13/25 (52%), Positives = 15/25 (60%)

Query: 239 GPEVGVSKLARILNVKRHGGAHHAR 263
           GPEV  S L+R L+    GG H AR
Sbjct: 133 GPEVAASILSRFLSTNFEGGRHAAR 157


>pdb|3DPL|C Chain C, Structural Insights Into Nedd8 Activation Of Cullin-Ring
           Ligases: Conformational Control Of Conjugation
          Length = 382

 Score = 27.7 bits (60), Expect = 7.1,   Method: Compositional matrix adjust.
 Identities = 13/59 (22%), Positives = 29/59 (49%), Gaps = 1/59 (1%)

Query: 150 GHSVKYLVIQLHGPPMIYKNDIHWVREVDFTPSSSVGKSSAICLELPTRAHIPKALKDL 208
            H  + L++ +     I +N + W+REV   P+  V K + +  ++     + +A K++
Sbjct: 58  AHLTRRLILDISADSEIEENMVEWLREVGM-PADYVNKLARMFQDIKVSEDLNQAFKEM 115


  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    0.391 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,211,435
Number of Sequences: 62578
Number of extensions: 333119
Number of successful extensions: 1063
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 1061
Number of HSP's gapped (non-prelim): 10
length of query: 271
length of database: 14,973,337
effective HSP length: 97
effective length of query: 174
effective length of database: 8,903,271
effective search space: 1549169154
effective search space used: 1549169154
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: 51 (24.3 bits)