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= 017173
         (376 letters)

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

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



>pdb|1NG9|A Chain A, E.Coli Muts R697a: An Atpase-Asymmetry Mutant
 pdb|1NG9|B Chain B, E.Coli Muts R697a: An Atpase-Asymmetry Mutant
          Length = 800

 Score = 30.4 bits (67), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 15/44 (34%), Positives = 26/44 (59%), Gaps = 3/44 (6%)

Query: 67  HAPAIS--VRVVNQSPWLMYFPKFGNLYE-FYDPAQRKTYSLEL 107
           H P +   +R+  Q P ++ F + G+ YE FYD A+R +  L++
Sbjct: 10  HTPMMQQYLRLKAQHPEILLFYRMGDFYELFYDDAKRASQLLDI 53


>pdb|1OH5|A Chain A, The Crystal Structure Of E. Coli Muts Binding To Dna With
           A C:a Mismatch
 pdb|1OH5|B Chain B, The Crystal Structure Of E. Coli Muts Binding To Dna With
           A C:a Mismatch
 pdb|1OH6|A Chain A, The Crystal Structure Of E. Coli Muts Binding To Dna With
           An A:a Mismatch
 pdb|1OH6|B Chain B, The Crystal Structure Of E. Coli Muts Binding To Dna With
           An A:a Mismatch
 pdb|1OH7|A Chain A, The Crystal Structure Of E. Coli Muts Binding To Dna With
           A G:g Mismatch
 pdb|1OH7|B Chain B, The Crystal Structure Of E. Coli Muts Binding To Dna With
           A G:g Mismatch
 pdb|1OH8|A Chain A, The Crystal Structure Of E. Coli Muts Binding To Dna With
           An Unpaired Thymidine
 pdb|1OH8|B Chain B, The Crystal Structure Of E. Coli Muts Binding To Dna With
           An Unpaired Thymidine
 pdb|1W7A|A Chain A, Atp Bound Muts
 pdb|1W7A|B Chain B, Atp Bound Muts
 pdb|2WTU|A Chain A, Crystal Structure Of Escherichia Coli Muts In Complex With
           A 16 Basepair Oligo Containing An A.A Mismatch.
 pdb|2WTU|B Chain B, Crystal Structure Of Escherichia Coli Muts In Complex With
           A 16 Basepair Oligo Containing An A.A Mismatch
          Length = 800

 Score = 30.4 bits (67), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 15/44 (34%), Positives = 26/44 (59%), Gaps = 3/44 (6%)

Query: 67  HAPAIS--VRVVNQSPWLMYFPKFGNLYE-FYDPAQRKTYSLEL 107
           H P +   +R+  Q P ++ F + G+ YE FYD A+R +  L++
Sbjct: 10  HTPMMQQYLRLKAQHPEILLFYRMGDFYELFYDDAKRASQLLDI 53


>pdb|3K0S|A Chain A, Crystal Structure Of E.Coli Dna Mismatch Repair Protein
           Muts, D693n Mutant, In Complex With Gt Mismatched Dna
 pdb|3K0S|B Chain B, Crystal Structure Of E.Coli Dna Mismatch Repair Protein
           Muts, D693n Mutant, In Complex With Gt Mismatched Dna
          Length = 799

 Score = 30.4 bits (67), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 15/44 (34%), Positives = 26/44 (59%), Gaps = 3/44 (6%)

Query: 67  HAPAIS--VRVVNQSPWLMYFPKFGNLYE-FYDPAQRKTYSLEL 107
           H P +   +R+  Q P ++ F + G+ YE FYD A+R +  L++
Sbjct: 9   HTPMMQQYLRLKAQHPEILLFYRMGDFYELFYDDAKRASQLLDI 52


>pdb|2I9U|A Chain A, Crystal Structure Of Guanine Deaminase From C.
           Acetobutylicum With Bound Guanine In The Active Site
 pdb|2I9U|B Chain B, Crystal Structure Of Guanine Deaminase From C.
           Acetobutylicum With Bound Guanine In The Active Site
          Length = 439

 Score = 29.3 bits (64), Expect = 4.3,   Method: Compositional matrix adjust.
 Identities = 28/93 (30%), Positives = 40/93 (43%), Gaps = 11/93 (11%)

Query: 268 DILVIYTCCSENPIIFKLDQSKMAWEEMKTLDGLTLFASFLSSQSRADLPGIMRNSVYFS 327
           DI   +TC     I + +  SK+ W+E    D       FLS+ S A      +   +F 
Sbjct: 320 DISAGHTCSLFKVIAYAIQNSKIKWQESGKKD------MFLST-SEAFYMATKKGGSFFG 372

Query: 328 KVRFF--GKRCISYSLNDSRYYPRKQCYDWGEQ 358
           KV  F  G    +  +NDS  YP  + YD  E+
Sbjct: 373 KVGSFEEGYDFDALVINDSNLYP--EDYDLTER 403


>pdb|1FS1|A Chain A, Insights Into Scf Ubiquitin Ligases From The Structure
          Of The Skp1-Skp2 Complex
 pdb|1FS1|C Chain C, Insights Into Scf Ubiquitin Ligases From The Structure
          Of The Skp1-Skp2 Complex
          Length = 53

 Score = 28.5 bits (62), Expect = 7.2,   Method: Compositional matrix adjust.
 Identities = 15/35 (42%), Positives = 19/35 (54%)

Query: 36 WSELPAELLELIMCHLTLEDNVHASVVCKKWHAPA 70
          W  LP ELL  I   L L + +  S VCK+W+  A
Sbjct: 9  WDSLPDELLLGIFSCLCLPELLKVSGVCKRWYRLA 43


  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
   0.324    0.138    0.461 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,064,599
Number of Sequences: 62578
Number of extensions: 508931
Number of successful extensions: 1276
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1272
Number of HSP's gapped (non-prelim): 12
length of query: 376
length of database: 14,973,337
effective HSP length: 100
effective length of query: 276
effective length of database: 8,715,537
effective search space: 2405488212
effective search space used: 2405488212
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 52 (24.6 bits)