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= 045086
         (522 letters)

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

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



>pdb|2BKM|A Chain A, Crystal Structure Of The Truncated Hemoglobin From
          Geobacillus Stearothermophilus
 pdb|2BKM|B Chain B, Crystal Structure Of The Truncated Hemoglobin From
          Geobacillus Stearothermophilus
          Length = 128

 Score = 30.8 bits (68), Expect = 1.9,   Method: Composition-based stats.
 Identities = 23/68 (33%), Positives = 34/68 (50%), Gaps = 7/68 (10%)

Query: 30 EKSQSSVEALD-LRTVKKLVLSFERRLKENIEARLKYPDQPEKFADTEVDLHEELEKLKV 88
          E+ Q+  EA+    TV KLV +F RR+  + + R  +PD      D     H++ + L  
Sbjct: 1  EQWQTLYEAIGGEETVAKLVEAFYRRVAAHPDLRPIFPD------DLTETAHKQKQFLTQ 54

Query: 89 LAGGPELY 96
            GGP LY
Sbjct: 55 YLGGPPLY 62


>pdb|2QMC|B Chain B, Crystal Structure Of Helicobacter Pylori
           Gamma-Glutamyltranspeptidase T380a Mutant
 pdb|2QMC|D Chain D, Crystal Structure Of Helicobacter Pylori
           Gamma-Glutamyltranspeptidase T380a Mutant
          Length = 188

 Score = 30.4 bits (67), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 28/138 (20%), Positives = 57/138 (41%), Gaps = 15/138 (10%)

Query: 132 DEDVLEDNDEPARVLVDALI-ENNVLELLVQNIQRLSDADSDPDEMAAVYNTLATIENLI 190
           D + +E N  P   +   ++ +NN + L+V            P     +   L  I N+I
Sbjct: 60  DANAIEANKRPLSSMSPTIVLKNNKVFLVV----------GSPGGSRIITTVLQVISNVI 109

Query: 191 EVKPSVAELVCERTKLLRWLLGKIKVREFDSNKQYASEILAILLQNSTANQKRLGQMNGV 250
           +   +++E V      ++WL  ++++ +F         +  +  Q  T  +  +G +N +
Sbjct: 110 DYNMNISEAVSAPRFHMQWLPDELRIEKFGMPADVKDNLTKMGYQIVT--KPVMGDVNAI 167

Query: 251 DVL--LQAVAMYKSKDPK 266
            VL   +    Y S DP+
Sbjct: 168 QVLPKTKGSVFYGSTDPR 185


>pdb|2NQO|B Chain B, Crystal Structure Of Helicobacter Pylori
           Gamma-Glutamyltranspeptidase
 pdb|2NQO|D Chain D, Crystal Structure Of Helicobacter Pylori
           Gamma-Glutamyltranspeptidase
 pdb|2QM6|B Chain B, Crystal Structure Of Helicobacter Pylori
           Gamma-Glutamyltranspeptidase In Complex With Glutamate
 pdb|2QM6|D Chain D, Crystal Structure Of Helicobacter Pylori
           Gamma-Glutamyltranspeptidase In Complex With Glutamate
 pdb|3FNM|B Chain B, Crystal Structure Of Acivicin-Inhibited
           Gamma-Glutamyltranspeptidase Reveals Critical Roles For
           Its C-Terminus In Autoprocessing And Catalysis
 pdb|3FNM|D Chain D, Crystal Structure Of Acivicin-Inhibited
           Gamma-Glutamyltranspeptidase Reveals Critical Roles For
           Its C-Terminus In Autoprocessing And Catalysis
          Length = 188

 Score = 30.4 bits (67), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 28/138 (20%), Positives = 57/138 (41%), Gaps = 15/138 (10%)

Query: 132 DEDVLEDNDEPARVLVDALI-ENNVLELLVQNIQRLSDADSDPDEMAAVYNTLATIENLI 190
           D + +E N  P   +   ++ +NN + L+V            P     +   L  I N+I
Sbjct: 60  DANAIEANKRPLSSMSPTIVLKNNKVFLVV----------GSPGGSRIITTVLQVISNVI 109

Query: 191 EVKPSVAELVCERTKLLRWLLGKIKVREFDSNKQYASEILAILLQNSTANQKRLGQMNGV 250
           +   +++E V      ++WL  ++++ +F         +  +  Q  T  +  +G +N +
Sbjct: 110 DYNMNISEAVSAPRFHMQWLPDELRIEKFGMPADVKDNLTKMGYQIVT--KPVMGDVNAI 167

Query: 251 DVL--LQAVAMYKSKDPK 266
            VL   +    Y S DP+
Sbjct: 168 QVLPKTKGSVFYGSTDPR 185


>pdb|4DB6|A Chain A, Designed Armadillo Repeat Protein (Yiiim3aii)
          Length = 210

 Score = 28.9 bits (63), Expect = 8.3,   Method: Compositional matrix adjust.
 Identities = 23/89 (25%), Positives = 41/89 (46%), Gaps = 14/89 (15%)

Query: 62  RLKYPDQPEKFADTEVDLHEELEKL-KVLAGGPELYPDVVNLNVIPSILGLLSHDNTDIA 120
           +L  PDQ E        L   L KL ++ +GG E    V++   +P+++ LLS  N  I 
Sbjct: 20  QLNSPDQQE--------LQSALRKLSQIASGGNEQIQAVIDAGALPALVQLLSSPNEQIL 71

Query: 121 IDVVHLLQDLTDEDVLEDNDEPARVLVDA 149
            + +  L ++         +E  + ++DA
Sbjct: 72  QEALWALSNIAS-----GGNEQIQAVIDA 95


  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
   0.317    0.135    0.370 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,416,735
Number of Sequences: 62578
Number of extensions: 518036
Number of successful extensions: 1565
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 1555
Number of HSP's gapped (non-prelim): 25
length of query: 522
length of database: 14,973,337
effective HSP length: 103
effective length of query: 419
effective length of database: 8,527,803
effective search space: 3573149457
effective search space used: 3573149457
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 54 (25.4 bits)