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= 026767
         (233 letters)

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

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



>pdb|2IFU|A Chain A, Crystal Structure Of A Gamma-Snap From Danio Rerio
 pdb|2IFU|B Chain B, Crystal Structure Of A Gamma-Snap From Danio Rerio
 pdb|2IFU|C Chain C, Crystal Structure Of A Gamma-Snap From Danio Rerio
 pdb|2IFU|D Chain D, Crystal Structure Of A Gamma-Snap From Danio Rerio
          Length = 307

 Score = 55.5 bits (132), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 52/204 (25%), Positives = 89/204 (43%)

Query: 4   SPWDAAKHMESAAALAKELHNWREVADFYRKASELYNECGRSQPXXXXXXXXXXXXXXXV 63
           S + AAK  E A    K+L    E   +  KAS  Y E G                    
Sbjct: 71  SLFHAAKAFEQAGXXLKDLQRXPEAVQYIEKASVXYVENGTPDTAAXALDRAGKLXEPLD 130

Query: 64  PEDAIQLYTDACIMLEEDDKEQMAFDLYRAATNVYIKLEKYADAATFLLRWGLAADKCNA 123
              A+ LY  A  + E +++ + A +L   A+ + ++ +K+ +AA  L +      +   
Sbjct: 131 LSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSXYKEXEN 190

Query: 124 TNSQCKAYLSAIIVYLYANDFKQAEKCYNDCSQVDAFLRSDQNRCATKLISAYTEGDVEE 183
             +  K  ++ ++V L+  D+  A+KC  +   +  F  S+       L+ AY E D E+
Sbjct: 191 YPTCYKKCIAQVLVQLHRADYVAAQKCVRESYSIPGFSGSEDCAALEDLLQAYDEQDEEQ 250

Query: 184 IKRVAQSSAISNLDHVIIKLARKL 207
           + RV +S  ++  D+   KLA  L
Sbjct: 251 LLRVCRSPLVTYXDNDYAKLAISL 274


>pdb|2NYA|A Chain A, Crystal Structure Of The Periplasmic Nitrate Reductase
           (Nap) From Escherichia Coli
 pdb|2NYA|F Chain F, Crystal Structure Of The Periplasmic Nitrate Reductase
           (Nap) From Escherichia Coli
          Length = 792

 Score = 30.0 bits (66), Expect = 1.2,   Method: Composition-based stats.
 Identities = 15/55 (27%), Positives = 27/55 (49%), Gaps = 2/55 (3%)

Query: 107 AATFLLRWGLAADKCNATNSQCKAYLSAIIVYLYANDFKQAEKCYNDCSQVDAFL 161
           AA+ L + G  ++  +     C A  SA++ ++      +   CY+D  Q DAF+
Sbjct: 122 AASKLFKAGFRSNNIDPNARHCMA--SAVVGFMRTFGMDEPMGCYDDIEQADAFV 174


>pdb|3MES|A Chain A, Crystal Structure Of Choline Kinase From Cryptosporidium
           Parvum Iowa Ii, Cgd3_2030
 pdb|3MES|B Chain B, Crystal Structure Of Choline Kinase From Cryptosporidium
           Parvum Iowa Ii, Cgd3_2030
          Length = 424

 Score = 27.7 bits (60), Expect = 5.9,   Method: Compositional matrix adjust.
 Identities = 20/86 (23%), Positives = 41/86 (47%), Gaps = 3/86 (3%)

Query: 145 KQAEKCYNDCSQVDAFLRSDQNRCATKLISAYTEGDVEE-IKRVAQSSAISNLDHVIIKL 203
           K   K Y+   ++D F        A  +I+ + EG +EE I     ++    L H+ +++
Sbjct: 112 KHVGKFYDSKVELDVFRYLSNINIAPNIIADFPEGRIEEFIDGEPLTTKQLQLTHICVEV 171

Query: 204 ARKLPTGDVSALKKANAVQ--DEEPL 227
           A+ + +  +   K+A+     D+EP+
Sbjct: 172 AKNMGSLHIINSKRADFPSRFDKEPI 197


>pdb|4APW|A Chain A, Alp12 Filament Structure
 pdb|4APW|B Chain B, Alp12 Filament Structure
 pdb|4APW|C Chain C, Alp12 Filament Structure
 pdb|4APW|D Chain D, Alp12 Filament Structure
 pdb|4APW|E Chain E, Alp12 Filament Structure
 pdb|4APW|F Chain F, Alp12 Filament Structure
 pdb|4APW|G Chain G, Alp12 Filament Structure
 pdb|4APW|H Chain H, Alp12 Filament Structure
 pdb|4APW|I Chain I, Alp12 Filament Structure
 pdb|4APW|J Chain J, Alp12 Filament Structure
 pdb|4APW|K Chain K, Alp12 Filament Structure
 pdb|4APW|L Chain L, Alp12 Filament Structure
 pdb|4APW|M Chain M, Alp12 Filament Structure
 pdb|4APW|N Chain N, Alp12 Filament Structure
 pdb|4APW|O Chain O, Alp12 Filament Structure
 pdb|4APW|P Chain P, Alp12 Filament Structure
          Length = 329

 Score = 27.3 bits (59), Expect = 7.1,   Method: Compositional matrix adjust.
 Identities = 14/34 (41%), Positives = 19/34 (55%)

Query: 164 DQNRCATKLISAYTEGDVEEIKRVAQSSAISNLD 197
           D  +  TKLI    +G  E+IKRV   + I NL+
Sbjct: 13  DAGKYETKLIGKNKKGTTEDIKRVIFKTKIYNLE 46


>pdb|2IZO|A Chain A, Structure Of An Archaeal Pcna1-Pcna2-Fen1 Complex
          Length = 346

 Score = 26.9 bits (58), Expect = 8.9,   Method: Compositional matrix adjust.
 Identities = 18/72 (25%), Positives = 38/72 (52%), Gaps = 6/72 (8%)

Query: 136 IVYLYANDFKQAEKCYNDCSQVDAFLRSDQNRCATKLISAYTEGDVEEIKRVAQSSAISN 195
           ++ +Y  D K  E+   +  +     R  +     KL  A +EG +EE+++ +Q  AI  
Sbjct: 70  VIPIYVFDGKPPEQKSEELER----RRKAKEEAERKLERAKSEGKIEELRKYSQ--AILR 123

Query: 196 LDHVIIKLARKL 207
           L +++++ ++KL
Sbjct: 124 LSNIMVEESKKL 135


  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
   0.316    0.129    0.374 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,861,442
Number of Sequences: 62578
Number of extensions: 194533
Number of successful extensions: 453
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 449
Number of HSP's gapped (non-prelim): 11
length of query: 233
length of database: 14,973,337
effective HSP length: 96
effective length of query: 137
effective length of database: 8,965,849
effective search space: 1228321313
effective search space used: 1228321313
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: 50 (23.9 bits)