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= 030392
         (178 letters)

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

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



>pdb|1NMN|A Chain A, Structure Of Yqgf From Escherichia Coli, A Hypothetical
           Protein
 pdb|1NMN|B Chain B, Structure Of Yqgf From Escherichia Coli, A Hypothetical
           Protein
          Length = 138

 Score = 41.2 bits (95), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 28/83 (33%), Positives = 43/83 (51%), Gaps = 8/83 (9%)

Query: 62  GGFSLGVDLGLSRTGLALSKGFCVRPLTVLKLRGEKLELQLLEIAQRE-ETDEFIIGLPK 120
           G  S+GV +G   TG A       RPL  +K +    +  ++E   +E + DE I+GLP 
Sbjct: 11  GTKSIGVAVGQRITGTA-------RPLPAIKAQDGTPDWNIIERLLKEWQPDEIIVGLPL 63

Query: 121 SWDGSETPQSNKVRSVAGRLAVR 143
           + DG+E P + + R  A R+  R
Sbjct: 64  NMDGTEQPLTARARKFANRIHGR 86


>pdb|1OVQ|A Chain A, Solution Structure Of The Hypothetical Protein Yqgf From
           Escherichia Coli
          Length = 138

 Score = 41.2 bits (95), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 28/83 (33%), Positives = 43/83 (51%), Gaps = 8/83 (9%)

Query: 62  GGFSLGVDLGLSRTGLALSKGFCVRPLTVLKLRGEKLELQLLEIAQRE-ETDEFIIGLPK 120
           G  S+GV +G   TG A       RPL  +K +    +  ++E   +E + DE I+GLP 
Sbjct: 11  GTKSIGVAVGQRITGTA-------RPLPAIKAQDGTPDWNIIERLLKEWQPDEIIVGLPL 63

Query: 121 SWDGSETPQSNKVRSVAGRLAVR 143
           + DG+E P + + R  A R+  R
Sbjct: 64  NMDGTEQPLTARARKFANRIHGR 86


>pdb|1NU0|A Chain A, Structure Of The Double Mutant (L6m; F134m, Semet Form) Of
           Yqgf From Escherichia Coli, A Hypothetical Protein
 pdb|1NU0|B Chain B, Structure Of The Double Mutant (L6m; F134m, Semet Form) Of
           Yqgf From Escherichia Coli, A Hypothetical Protein
          Length = 138

 Score = 40.8 bits (94), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 28/83 (33%), Positives = 43/83 (51%), Gaps = 8/83 (9%)

Query: 62  GGFSLGVDLGLSRTGLALSKGFCVRPLTVLKLRGEKLELQLLEIAQRE-ETDEFIIGLPK 120
           G  S+GV +G   TG A       RPL  +K +    +  ++E   +E + DE I+GLP 
Sbjct: 11  GTKSIGVAVGQRITGTA-------RPLPAIKAQDGTPDWNIIERLLKEWQPDEIIVGLPL 63

Query: 121 SWDGSETPQSNKVRSVAGRLAVR 143
           + DG+E P + + R  A R+  R
Sbjct: 64  NXDGTEQPLTARARKFANRIHGR 86


>pdb|1IV0|A Chain A, Solution Structure Of The Yqgf-Family Protein (N-Terminal
           Fragment)
          Length = 98

 Score = 32.0 bits (71), Expect = 0.18,   Method: Compositional matrix adjust.
 Identities = 28/93 (30%), Positives = 43/93 (46%), Gaps = 15/93 (16%)

Query: 68  VDLGLSRTGLALS---------KGFCVRPLTVLKLRGEKLELQLLEIAQREETDEFIIGL 118
           +D+G +R GLA+          +G+ VR     K   E +E  LL+  +RE   + ++GL
Sbjct: 6   LDVGEARIGLAVGEEGVPLASGRGYLVR-----KTLEEDVE-ALLDFVRREGLGKLVVGL 59

Query: 119 PKSWDGSETPQSNKVRSVAGRLAVRAAERSFSD 151
           P   D  E+ Q+ KV  +   L  R  E    D
Sbjct: 60  PLRTDLKESAQAGKVLPLVEALRARGVEVELWD 92


>pdb|1VHX|A Chain A, Crystal Structure Of Putative Holliday Junction Resolvase
 pdb|1VHX|B Chain B, Crystal Structure Of Putative Holliday Junction Resolvase
          Length = 150

 Score = 31.2 bits (69), Expect = 0.35,   Method: Compositional matrix adjust.
 Identities = 21/77 (27%), Positives = 41/77 (53%), Gaps = 5/77 (6%)

Query: 66  LGVDLGLSRTGLALSK--GFCVRPLTVLKL---RGEKLELQLLEIAQREETDEFIIGLPK 120
           LG+DLG    G+ALS   G+  + +  +K+    G+    +L E+ +    D+ ++G PK
Sbjct: 6   LGLDLGTKTLGVALSDEXGWTAQGIETIKINEAEGDYGLSRLSELIKDYTIDKIVLGFPK 65

Query: 121 SWDGSETPQSNKVRSVA 137
           + +G+  P+    ++ A
Sbjct: 66  NXNGTVGPRGEASQTFA 82


  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
   0.323    0.138    0.405 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,707,950
Number of Sequences: 62578
Number of extensions: 175520
Number of successful extensions: 266
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 261
Number of HSP's gapped (non-prelim): 5
length of query: 178
length of database: 14,973,337
effective HSP length: 92
effective length of query: 86
effective length of database: 9,216,161
effective search space: 792589846
effective search space used: 792589846
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 48 (23.1 bits)