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= 009825
         (524 letters)

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

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



>pdb|2OLS|A Chain A, The Crystal Structure Of The Phosphoenolpyruvate Synthase
           From Neisseria Meningitidis
          Length = 794

 Score = 55.8 bits (133), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 65/230 (28%), Positives = 97/230 (42%), Gaps = 25/230 (10%)

Query: 307 ANAHLIVRSSANVEDLAGMSAAGLYESIPNVNPSNLRVFQNAVARVWASLYTRRAVLSRR 366
           A+  + VRSSA  EDL   S AG  E+  N+N   L   + A+  V+ASLY  RA+  R 
Sbjct: 118 ADISVAVRSSATAEDLPDASFAGQQETFLNIN--GLDNVKEAMHHVFASLYNDRAISYRV 175

Query: 367 AAGVSQKDATMAVLVQEMLSPD--LSFVLHTLSPTDRDHNSVEAEIAPGLGETLASGTRG 424
             G       ++  VQ M+  D   S V+ TL         V    + GLGE +  G   
Sbjct: 176 HKGFEHDIVALSAGVQRMVRSDSGASGVMFTLDTESGYDQVVFVTSSYGLGENVVQGAVN 235

Query: 425 -------TPWRLSSGKFDGLVRTQAFANFSEEMLVSGAGPADGVVIRLTV---DYSKKPL 474
                   P  L +GK   L +T    +   +M+ +    A   V  + V   D ++  +
Sbjct: 236 PDEFYVFKP-TLKAGKPAILRKTMGSKHI--KMIFTDKAEAGKSVTNVDVPEEDRNRFSI 292

Query: 475 TVDPIFRRQLGQRLCSVGFFLERKFGCPQDVEGCLVGKD--IYAVQTRPQ 522
           T + I        L      +E+ +G P D+E    G D  +Y +Q RP+
Sbjct: 293 TDEEI------TELAHYALTIEKHYGRPMDIEWGRDGLDGKLYILQARPE 336


>pdb|3BEO|A Chain A, A Structural Basis For The Allosteric Regulation Of Non-
           Hydrolyzing Udp-Glcnac 2-Epimerases
 pdb|3BEO|B Chain B, A Structural Basis For The Allosteric Regulation Of Non-
           Hydrolyzing Udp-Glcnac 2-Epimerases
          Length = 375

 Score = 30.4 bits (67), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 19/79 (24%), Positives = 37/79 (46%), Gaps = 7/79 (8%)

Query: 278 DNLCCQLQELISALQPSEDIIESIERIFPANAHLIVRSSANVEDLAGMSAAGLYESIPNV 337
           +NL   ++ +  A++   D  E ++ ++P + + +VR +AN          G Y  I  +
Sbjct: 216 ENLGEPMRNMFRAIKRLVDKHEDVQVVYPVHMNPVVRETAN-------DILGDYGRIHLI 268

Query: 338 NPSNLRVFQNAVARVWASL 356
            P ++  F N  AR +  L
Sbjct: 269 EPLDVIDFHNVAARSYLML 287


>pdb|2GZA|A Chain A, Crystal Structure Of The Virb11 Atpase From The Brucella
           Suis Type Iv Secretion System In Complex With Sulphate
 pdb|2GZA|B Chain B, Crystal Structure Of The Virb11 Atpase From The Brucella
           Suis Type Iv Secretion System In Complex With Sulphate
 pdb|2GZA|C Chain C, Crystal Structure Of The Virb11 Atpase From The Brucella
           Suis Type Iv Secretion System In Complex With Sulphate
          Length = 361

 Score = 29.6 bits (65), Expect = 4.8,   Method: Compositional matrix adjust.
 Identities = 35/137 (25%), Positives = 56/137 (40%), Gaps = 7/137 (5%)

Query: 213 RLASLSAVSEKVYSDQGVPASFLVPAGVVIPFGSMQLALEQSKCMDTFVSFLEQIE---- 268
           R  S +  + + Y+ QG        +  + PF    LAL+++    +F+    Q+E    
Sbjct: 120 RKPSFTRRTLEDYAQQGFFKHVRPMSKSLTPFEQELLALKEAGDYMSFLRRAVQLERVIV 179

Query: 269 TAGPEGGELDNLCCQLQELI---SALQPSEDIIESIERIFPANAHLIVRSSANVEDLAGM 325
            AG  G     L   L + I     L   ED+ E      P + HL   S A  E+ A +
Sbjct: 180 VAGETGSGKTTLMKALMQEIPFDQRLITIEDVPELFLPDHPNHVHLFYPSEAKEEENAPV 239

Query: 326 SAAGLYESIPNVNPSNL 342
           +AA L  S   + P+ +
Sbjct: 240 TAATLLRSCLRMKPTRI 256


>pdb|3S4W|A Chain A, Structure Of The Fanci-Fancd2 Complex
 pdb|3S4Z|A Chain A, Structure Of A Y Dna-Fanci Complex
 pdb|3S4Z|B Chain B, Structure Of A Y Dna-Fanci Complex
 pdb|3S4Z|C Chain C, Structure Of A Y Dna-Fanci Complex
 pdb|3S51|A Chain A, Structure Of Fanci
 pdb|3S51|B Chain B, Structure Of Fanci
 pdb|3S51|C Chain C, Structure Of Fanci
 pdb|3S51|D Chain D, Structure Of Fanci
          Length = 1308

 Score = 28.5 bits (62), Expect = 9.0,   Method: Compositional matrix adjust.
 Identities = 20/66 (30%), Positives = 31/66 (46%), Gaps = 12/66 (18%)

Query: 226  SDQGVPASFLVPAGVVIPFGSMQLALEQSKCMDTFVSFLEQIETAGPEGGELDNLCCQLQ 285
            S Q VP + L+   +V+  G++           TF  F E ++TA P G  +D L   L 
Sbjct: 1121 SSQAVPPTLLIEKAIVMQLGTLV----------TF--FHELVQTALPSGSCVDTLLKGLS 1168

Query: 286  ELISAL 291
            ++ S L
Sbjct: 1169 KIYSTL 1174


  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
   0.318    0.134    0.385 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,777,188
Number of Sequences: 62578
Number of extensions: 533088
Number of successful extensions: 1056
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 1054
Number of HSP's gapped (non-prelim): 16
length of query: 524
length of database: 14,973,337
effective HSP length: 103
effective length of query: 421
effective length of database: 8,527,803
effective search space: 3590205063
effective search space used: 3590205063
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: 54 (25.4 bits)