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= psy8853
         (242 letters)

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

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



>pdb|4F3Q|A Chain A, Structure Of A Yebc Family Protein (Cbu_1566) From
           Coxiella Burnetii
          Length = 247

 Score =  166 bits (419), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 92/238 (38%), Positives = 131/238 (55%), Gaps = 3/238 (1%)

Query: 2   AGHSKWANIKRKKLIVDAKRGKICTRIMRELRVAINFGNNP-DTNIKLRLAIEKALDANI 60
           AGHSKWANIK  K   DAKRGK+ T+++RE+ VA   G    D+N +LR  ++KA  AN 
Sbjct: 5   AGHSKWANIKHAKARQDAKRGKVFTKLIREITVAARLGGEDIDSNPRLRAVVDKAFAANX 64

Query: 61  PKNNIFRAXXXXXXXXXXXXXXXXXVRYEGYSVNGAAIIVDCITNNRMRTVSNIRNIFNK 120
           PK+ I RA                 VRYEGY  +G A+ VDC+T+N+ RTV+ +R+ F+K
Sbjct: 65  PKDTITRAIKRGAGSGAGDNLVE--VRYEGYGPSGVAVXVDCLTDNKNRTVAEVRHAFSK 122

Query: 121 NGGNLSKEGSVLFMFKHCGQLLFLPNTKKNTLLDLALEKGAEDFLIDKDNKITIITSPSK 180
             GNL  EGSV ++FK  G + F PN+ +  + ++ALE GAED   + D  I + T P  
Sbjct: 123 CDGNLGTEGSVAYLFKQRGLITFPPNSDEEKIXEIALEVGAEDVTTNDDGSIDVTTLPED 182

Query: 181 FIEIKNSLEMTGFKAESSGIVMRPYTNIVFKDGEAIXXXXXXXXXXXXHDVKKVYTNA 238
           F +I+N+ +        + + +   T +      A              DV+ VY+NA
Sbjct: 183 FEKIRNAXKAADLNPSHAEVTVLASTEVGLDKDSAEQXLRLTEXLEDLDDVQNVYSNA 240


>pdb|1KON|A Chain A, Crystal Structure Of E.Coli Yebc
          Length = 249

 Score =  162 bits (410), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 90/243 (37%), Positives = 136/243 (55%), Gaps = 4/243 (1%)

Query: 1   MAGHSKWANIKRKKLIVDAKRGKICTRIMRELRVAINFGN-NPDTNIKLRLAIEKALDAN 59
           MAGHSKWAN + +K   DAKRGKI T+I+REL  A   G  +PD N +LR A++KAL  N
Sbjct: 4   MAGHSKWANTRHRKAAQDAKRGKIFTKIIRELVTAAKLGGGDPDANPRLRAAVDKALSNN 63

Query: 60  IPKNNIFRAXXXXXXXXXXXXXXXXXVRYEGYSVNGAAIIVDCITNNRMRTVSNIRNIFN 119
           + ++ + RA                 + YEGY   G AI+++C+++NR RTV+ +R+ F+
Sbjct: 64  MTRDTLNRAIARGVGGDDDANMET--IIYEGYGPGGTAIMIECLSDNRNRTVAEVRHAFS 121

Query: 120 KNGGNLSKEGSVLFMFKHCGQLLFLPNTKKNTLLDLALEKGAEDFLIDKDNKITIITSPS 179
           K GGNL  +GSV ++F   G + F     ++T+++ ALE GAED +   D  I + T+  
Sbjct: 122 KCGGNLGTDGSVAYLFSKKGVISF-EKGDEDTIMEAALEAGAEDVVTYDDGAIDVYTAWE 180

Query: 180 KFIEIKNSLEMTGFKAESSGIVMRPYTNIVFKDGEAIXXXXXXXXXXXXHDVKKVYTNAL 239
           +  +++++LE  G KA+S+ + M P T        A              DV++VY N  
Sbjct: 181 EMGKVRDALEAAGLKADSAEVSMIPSTKADMDAETAPKLMRLIDMLEDCDDVQEVYHNGE 240

Query: 240 IFD 242
           I D
Sbjct: 241 ISD 243


>pdb|1LFP|A Chain A, Crystal Structure Of A Conserved Hypothetical Protein
           Aq1575 From Aquifex Aeolicus
          Length = 249

 Score =  142 bits (359), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 85/216 (39%), Positives = 119/216 (55%), Gaps = 7/216 (3%)

Query: 2   AGHSKWANIKRKKLIVDAKRGKICTRIMRELRVAINFGN-NPDTNIKLRLAIEKALDANI 60
           AGHS WA IK KK  VDA+RGK+ ++++RE+ VA   G  NP+ N +LR AIE+A  AN 
Sbjct: 2   AGHSHWAQIKHKKAKVDAQRGKLFSKLIREIIVATRLGGPNPEFNPRLRTAIEQAKKANX 61

Query: 61  PKNNIFRAXXXXXXXXXXXXXXXXXVRYEGYSVNGAAIIVDCITNNRMRTVSNIRNIFNK 120
           P  NI RA                 V YEGY+  G A+ V   T+NR RT S +R++F K
Sbjct: 62  PWENIERAIKKGAGELEGEQFEE--VIYEGYAPGGVAVXVLATTDNRNRTTSEVRHVFTK 119

Query: 121 NGGNLSKEGSVLFMFKHCGQLLFLP--NTKKNTLLDLALEKGAEDFLIDKDNKITIITSP 178
           +GGNL   G V ++F+  G  + +P     +  LL+ A+E GAED    ++  I I T P
Sbjct: 120 HGGNLGASGCVSYLFERKG-YIEVPAKEVSEEELLEKAIEVGAEDVQPGEEVHI-IYTVP 177

Query: 179 SKFIEIKNSLEMTGFKAESSGIVMRPYTNIVFKDGE 214
            +  E+K +LE  G   E + I  +P + +   D E
Sbjct: 178 EELYEVKENLEKLGVPIEKAQITWKPISTVQINDEE 213


>pdb|1MW7|A Chain A, X-Ray Structure Of Y162_helpy Northeast Structural
           Genomics Consortium Target Pr6
          Length = 240

 Score = 67.0 bits (162), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 50/145 (34%), Positives = 73/145 (50%), Gaps = 12/145 (8%)

Query: 20  KRGKICTRIMRELRVAINF-----GNNPDTNIKLRLAIEKALDANIPKNNIFRAXXXXXX 74
           KR    +++  +L  AI       G+ PDTN KLR AI  A   N+PK+NI  A      
Sbjct: 14  KRWDKMSKVFPKLAKAITLAAKDGGSEPDTNAKLRTAILNAKAQNMPKDNIDAAIKRASS 73

Query: 75  XXXXXXXXXXXVRYEGYSVNGAAIIVDCITNNRMRTVSNIRNIFNK-NGGNLSKEGSVLF 133
                      + YEG +  G  II++C+T+N  RT++N+++ FNK  G ++   GS+ F
Sbjct: 74  KEGNLSE----ITYEGKANFGVLIIMECMTDNPTRTIANLKSYFNKTQGASIVPNGSLEF 129

Query: 134 MFKHCGQLLFLPNTKKNTLLDLALE 158
           MF        L N  +N  L L+LE
Sbjct: 130 MFNRKSVFECLKNEVEN--LKLSLE 152


  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
   0.321    0.137    0.392 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,027,238
Number of Sequences: 62578
Number of extensions: 219656
Number of successful extensions: 517
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: 505
Number of HSP's gapped (non-prelim): 5
length of query: 242
length of database: 14,973,337
effective HSP length: 96
effective length of query: 146
effective length of database: 8,965,849
effective search space: 1309013954
effective search space used: 1309013954
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 50 (23.9 bits)