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= 003116
         (846 letters)

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

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



>pdb|1VFF|A Chain A, Beta-Glycosidase From Pyrococcus Horikoshii
          Length = 423

 Score = 32.3 bits (72), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 26/109 (23%), Positives = 52/109 (47%), Gaps = 2/109 (1%)

Query: 343 IEESKVEGEDARKFLEDVRVNFPQVLHVVKTRQVTYSV-LNHLIDYIQNLEKVGLLEEKE 401
           IE S++  E+  KF ED  + + +++ ++ TR +T  V L+H    +  ++K G L E+ 
Sbjct: 71  IEWSRLFPEE-NKFNEDAFMKYREIIDLLLTRGITPLVTLHHFTSPLWFMKKGGFLREEN 129

Query: 402 MLHLHDAVQSDLKRLLRNPPLVKFPKISDLISAHPLLRELPPSVREPLE 450
           + H    ++   + L +   +  F +    +    L    PP +R P +
Sbjct: 130 LKHWEKYIEKVAELLEKVKLVATFNEPMVYVMMGYLTAYWPPFIRSPFK 178


>pdb|3FX3|A Chain A, Structure Of A Putative Camp-Binding Regulatory Protein
           From Silicibacter Pomeroyi Dss-3
 pdb|3FX3|B Chain B, Structure Of A Putative Camp-Binding Regulatory Protein
           From Silicibacter Pomeroyi Dss-3
          Length = 237

 Score = 32.0 bits (71), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 24/88 (27%), Positives = 39/88 (44%), Gaps = 4/88 (4%)

Query: 461 GVTLYREGSKPSGIWLISNGVVKWTSKSIRNKHSLHPVFTHGSNLGLYEVLIGKPYMSDM 520
           G TL+ +  K   I ++ +G VK    +     ++  VFT G + G    L   PY   +
Sbjct: 42  GETLFLQEEKAQAIHVVIDGWVKLFRXTPTGSEAVVSVFTRGESFGEAVALRNTPY--PV 99

Query: 521 VTDSVVLC--FFIESDKILSILRSDPAV 546
             ++V  C    I S   +S+ R DP +
Sbjct: 100 SAEAVTPCEVXHIPSPVFVSLXRRDPEI 127


>pdb|3H3Z|A Chain A, Crystal Structure Of A Putative Cyclic Nucleotide Binding
           Protein (Spoa0323) From Ruegeria Pomeroyi Dss-3 At 2.35
           A Resolution
 pdb|3H3Z|B Chain B, Crystal Structure Of A Putative Cyclic Nucleotide Binding
           Protein (Spoa0323) From Ruegeria Pomeroyi Dss-3 At 2.35
           A Resolution
          Length = 235

 Score = 32.0 bits (71), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 24/88 (27%), Positives = 39/88 (44%), Gaps = 4/88 (4%)

Query: 461 GVTLYREGSKPSGIWLISNGVVKWTSKSIRNKHSLHPVFTHGSNLGLYEVLIGKPYMSDM 520
           G TL+ +  K   I ++ +G VK    +     ++  VFT G + G    L   PY   +
Sbjct: 40  GETLFLQEEKAQAIHVVIDGWVKLFRXTPTGSEAVVSVFTRGESFGEAVALRNTPY--PV 97

Query: 521 VTDSVVLC--FFIESDKILSILRSDPAV 546
             ++V  C    I S   +S+ R DP +
Sbjct: 98  SAEAVTPCEVXHIPSPVFVSLXRRDPEI 125


>pdb|3OF1|A Chain A, Crystal Structure Of Bcy1, The Yeast Regulatory Subunit Of
           Pka
          Length = 246

 Score = 30.8 bits (68), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 21/72 (29%), Positives = 32/72 (44%), Gaps = 2/72 (2%)

Query: 430 DLISAHPLLRELPPSVREPLELSTKEIMKLSGVTLYREGSKPSGIWLISNGVVKWTSK-- 487
           DL+ + P+L+ L    R  L  +    +   G T+ REG +    +LI  G V  + K  
Sbjct: 125 DLLKSMPVLKSLTTYDRAKLADALDTKIYQPGETIIREGDQGENFYLIEYGAVDVSKKGQ 184

Query: 488 SIRNKHSLHPVF 499
            + NK   H  F
Sbjct: 185 GVINKLKDHDYF 196


>pdb|2EEN|A Chain A, Structure Of Ph1819 Protein From Pyrococcus Horikoshii Ot3
 pdb|2EEN|B Chain B, Structure Of Ph1819 Protein From Pyrococcus Horikoshii Ot3
          Length = 183

 Score = 30.4 bits (67), Expect = 3.8,   Method: Composition-based stats.
 Identities = 29/86 (33%), Positives = 47/86 (54%), Gaps = 6/86 (6%)

Query: 351 EDARKFLEDV-RVNFPQVLHVVKTRQVTY--SVLNHLIDYIQNLEKVGLLEE--KEMLHL 405
           ED  K+ E + R+ F +VL VVKTR+  Y    +   +D ++ L K   +E   KE   +
Sbjct: 87  EDVDKYFELLDRLGFKEVLKVVKTREKYYVEKGVTITLDEVEGLGKFIEIETLVKEKDEI 146

Query: 406 HDAVQSDLKRLLRNPPLVKFPKISDL 431
            +AV+  L+++LR   + KF + S L
Sbjct: 147 PEAVEK-LEKILRELGVEKFERRSYL 171


>pdb|3SHR|A Chain A, Crystal Structure Of Cgmp-Dependent Protein Kinase Reveals
           Novel Site Of Interchain Communication
 pdb|3SHR|B Chain B, Crystal Structure Of Cgmp-Dependent Protein Kinase Reveals
           Novel Site Of Interchain Communication
          Length = 299

 Score = 30.4 bits (67), Expect = 4.8,   Method: Compositional matrix adjust.
 Identities = 26/126 (20%), Positives = 54/126 (42%), Gaps = 7/126 (5%)

Query: 413 LKRLLRNPPLVKFPKISDLISAHPLLRELPPSVREPLELSTKEIMKLSGVTLYREGSKPS 472
            + ++    L+K  +  + + + P  + LP  +   L    +E    +G  + R+G++  
Sbjct: 140 FQTIMMRTGLIKHTEYMEFLKSVPTFQSLPEEILSKLADVLEETHYENGEYIIRQGARGD 199

Query: 473 GIWLISNGVVKWTSKSIRNKHSLHPVFTHGSNLGLY---EVLIGKPY-MSDMVTDSVVLC 528
             ++IS G V  T +   N+    PVF      G +   + L G+    ++++    V C
Sbjct: 200 TFFIISKGKVNVTREDSPNE---DPVFLRTLGKGDWFGEKALQGEDVRTANVIAAEAVTC 256

Query: 529 FFIESD 534
             I+ D
Sbjct: 257 LVIDRD 262


>pdb|2ZPA|A Chain A, Crystal Structure Of Trna(Met) Cytidine Acetyltransferase
 pdb|2ZPA|B Chain B, Crystal Structure Of Trna(Met) Cytidine Acetyltransferase
          Length = 671

 Score = 30.0 bits (66), Expect = 5.9,   Method: Compositional matrix adjust.
 Identities = 22/68 (32%), Positives = 30/68 (44%), Gaps = 6/68 (8%)

Query: 266 LASNELCDWRGLKDNVSFPNYYKFLQTSMFPQKLITYFTVERLE-----FACSICAAFLR 320
           LAS+E  DW  + +  + P        S FP+ L+T  TV+  E     F    CA F  
Sbjct: 250 LASDEQADWLVVDEAAAIPAPLLHQLVSRFPRTLLTT-TVQGYEGTGRGFLLKFCARFPH 308

Query: 321 AHKIARQQ 328
            H+   QQ
Sbjct: 309 LHRFELQQ 316


  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
   0.322    0.136    0.403 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 23,051,974
Number of Sequences: 62578
Number of extensions: 910782
Number of successful extensions: 2086
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 2082
Number of HSP's gapped (non-prelim): 17
length of query: 846
length of database: 14,973,337
effective HSP length: 107
effective length of query: 739
effective length of database: 8,277,491
effective search space: 6117065849
effective search space used: 6117065849
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 56 (26.2 bits)