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= 033414
         (119 letters)

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

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



>pdb|1YOE|A Chain A, Crystal Structure Of A The E. Coli Pyrimidine Nucleoside
           Hydrolase Ybek With Bound Ribose
          Length = 322

 Score = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 32/114 (28%), Positives = 53/114 (46%), Gaps = 9/114 (7%)

Query: 5   DRDKLVCSNGKHAQYLCKILEVYFSYHHDA-YNTKGVYLHDPTALLVAVNPSLFTYMEAV 63
           D ++        +  + ++L+ +  YH D  +   G  LHDP  +   + P LFT +E  
Sbjct: 212 DTERFRAIGNPVSTIVAELLDFFLEYHKDEKWGFVGAPLHDPCTIAWLLKPELFTSVERW 271

Query: 64  IRVQTSG-ITRGLTLLYNKQKRFAEITEWSDKPWVKVAVTVDAPAVYKLFMDRL 116
           + V+T G  T+G+T++      +  +T   +KP   V V VD      L  DRL
Sbjct: 272 VGVETQGKYTQGMTVV-----DYYYLT--GNKPNATVMVDVDRQGFVDLLADRL 318


>pdb|3G5I|A Chain A, Crystal Structure Of The E.Coli Riha Pyrimidine
           Nucleosidase Bound To A Iminoribitol-Based Inhibitor
 pdb|3G5I|B Chain B, Crystal Structure Of The E.Coli Riha Pyrimidine
           Nucleosidase Bound To A Iminoribitol-Based Inhibitor
 pdb|3G5I|C Chain C, Crystal Structure Of The E.Coli Riha Pyrimidine
           Nucleosidase Bound To A Iminoribitol-Based Inhibitor
 pdb|3G5I|D Chain D, Crystal Structure Of The E.Coli Riha Pyrimidine
           Nucleosidase Bound To A Iminoribitol-Based Inhibitor
          Length = 312

 Score = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 32/114 (28%), Positives = 53/114 (46%), Gaps = 9/114 (7%)

Query: 5   DRDKLVCSNGKHAQYLCKILEVYFSYHHDA-YNTKGVYLHDPTALLVAVNPSLFTYMEAV 63
           D ++        +  + ++L+ +  YH D  +   G  LHDP  +   + P LFT +E  
Sbjct: 202 DTERFRAIGNPVSTIVAELLDFFLEYHKDEKWGFVGAPLHDPCTIAWLLKPELFTSVERW 261

Query: 64  IRVQTSG-ITRGLTLLYNKQKRFAEITEWSDKPWVKVAVTVDAPAVYKLFMDRL 116
           + V+T G  T+G+T++      +  +T   +KP   V V VD      L  DRL
Sbjct: 262 VGVETQGKYTQGMTVV-----DYYYLT--GNKPNATVMVDVDRQGFVDLLADRL 308


>pdb|3T8J|A Chain A, Structural Analysis Of Thermostable S. Solfataricus
           Pyrimidine- Specific Nucleoside Hydrolase
          Length = 311

 Score = 35.8 bits (81), Expect = 0.006,   Method: Compositional matrix adjust.
 Identities = 28/100 (28%), Positives = 47/100 (47%), Gaps = 13/100 (13%)

Query: 24  LEVYFSYHHDAYNTKGVYLH---DPTALLVAVNPSLFTYMEA--VIRVQTSGITRGLTLL 78
           + +Y  Y   +   + +  H   D     +A++ S+ T  E   V+   T  ITRG+TL+
Sbjct: 215 VSMYLHYRQYSSTVQKINGHPHPDAITTAIAIDGSIATRREKRFVVIDNTDNITRGMTLV 274

Query: 79  YNKQKRFAEITEWSDKPWVKVAVTVDAPAVYKLFMDRLMD 118
                RF   T WSDKP  ++   ++     K FM+++ D
Sbjct: 275 ----DRFDADTSWSDKPNAEIVYEINK----KSFMEKIYD 306


>pdb|1EZR|A Chain A, Crystal Structure Of Nucleoside Hydrolase From Leishmania
           Major
 pdb|1EZR|B Chain B, Crystal Structure Of Nucleoside Hydrolase From Leishmania
           Major
 pdb|1EZR|C Chain C, Crystal Structure Of Nucleoside Hydrolase From Leishmania
           Major
 pdb|1EZR|D Chain D, Crystal Structure Of Nucleoside Hydrolase From Leishmania
           Major
          Length = 314

 Score = 33.1 bits (74), Expect = 0.037,   Method: Compositional matrix adjust.
 Identities = 17/64 (26%), Positives = 37/64 (57%), Gaps = 2/64 (3%)

Query: 15  KHAQYLCKILEVYFSYHHDAYNTKGVYLHDPTALLVAVNPSLFTYMEAVIRVQTSG-ITR 73
           K A ++ +IL+ Y   +   ++T G  +HDP A+   ++P++ T     + ++ +G +T 
Sbjct: 213 KPAAFMLQILDFYTKVYEKEHDTYG-KVHDPCAVAYVIDPTVMTTERVPVDIELNGALTT 271

Query: 74  GLTL 77
           G+T+
Sbjct: 272 GMTV 275


>pdb|1MAS|A Chain A, Purine Nucleoside Hydrolase
 pdb|1MAS|B Chain B, Purine Nucleoside Hydrolase
 pdb|2MAS|A Chain A, Purine Nucleoside Hydrolase With A Transition State
           Inhibitor
 pdb|2MAS|B Chain B, Purine Nucleoside Hydrolase With A Transition State
           Inhibitor
 pdb|2MAS|C Chain C, Purine Nucleoside Hydrolase With A Transition State
           Inhibitor
 pdb|2MAS|D Chain D, Purine Nucleoside Hydrolase With A Transition State
           Inhibitor
          Length = 314

 Score = 31.2 bits (69), Expect = 0.14,   Method: Compositional matrix adjust.
 Identities = 22/101 (21%), Positives = 47/101 (46%), Gaps = 8/101 (7%)

Query: 17  AQYLCKILEVYFSYHHDAYNTKGVYLHDPTALLVAVNPSLFTYMEAVIRVQTSG-ITRGL 75
           A+++ +I++ Y   +          +HDP A+   ++PS+ T     + ++ +G +T G+
Sbjct: 214 ARFMLEIMDYYTKIYQSNRYMAAAAVHDPCAVAYVIDPSVMTTERVPVDIELTGKLTLGM 273

Query: 76  TLLYNKQKRFAEITEWSDKPWVKVAVTVDAPAVYKLFMDRL 116
           T+   +  R        +    +VAV +D    + L +D L
Sbjct: 274 TVADFRNPR-------PEHCHTQVAVKLDFEKFWGLVLDAL 307


>pdb|3N58|A Chain A, Crystal Structure Of S-Adenosyl-L-Homocysteine Hydrolase
           From Brucella Melitensis In Ternary Complex With Nad And
           Adenosine, Orthorhombic Form
 pdb|3N58|B Chain B, Crystal Structure Of S-Adenosyl-L-Homocysteine Hydrolase
           From Brucella Melitensis In Ternary Complex With Nad And
           Adenosine, Orthorhombic Form
 pdb|3N58|C Chain C, Crystal Structure Of S-Adenosyl-L-Homocysteine Hydrolase
           From Brucella Melitensis In Ternary Complex With Nad And
           Adenosine, Orthorhombic Form
 pdb|3N58|D Chain D, Crystal Structure Of S-Adenosyl-L-Homocysteine Hydrolase
           From Brucella Melitensis In Ternary Complex With Nad And
           Adenosine, Orthorhombic Form
          Length = 464

 Score = 27.3 bits (59), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 13/35 (37%), Positives = 17/35 (48%)

Query: 50  VAVNPSLFTYMEAVIRVQTSGITRGLTLLYNKQKR 84
           +A  P  FT   A I+  T   T G+  LY  QK+
Sbjct: 170 MAATPGFFTKQRAAIKGVTEETTTGVNRLYQLQKK 204


>pdb|1OPO|A Chain A, The Structure Of Carnation Mottle Virus
 pdb|1OPO|B Chain B, The Structure Of Carnation Mottle Virus
 pdb|1OPO|C Chain C, The Structure Of Carnation Mottle Virus
          Length = 348

 Score = 26.6 bits (57), Expect = 4.3,   Method: Compositional matrix adjust.
 Identities = 13/39 (33%), Positives = 22/39 (56%)

Query: 50 VAVNPSLFTYMEAVIRVQTSGITRGLTLLYNKQKRFAEI 88
          +A+NP++ T  +   ++    +TRG   L   QKR AE+
Sbjct: 8  IAMNPTVQTLAQKGDKLAVKLVTRGWASLSTNQKRRAEM 46


>pdb|2V8Q|E Chain E, Crystal Structure Of The Regulatory Fragment Of Mammalian
           Ampk In Complexes With Amp
 pdb|2V92|E Chain E, Crystal Structure Of The Regulatory Fragment Of Mammalian
           Ampk In Complexes With Atp-Amp
 pdb|2V9J|E Chain E, Crystal Structure Of The Regulatory Fragment Of Mammalian
           Ampk In Complexes With Mg.Atp-Amp
 pdb|2Y8L|E Chain E, Structure Of The Regulatory Fragment Of Mammalian Ampk In
           Complex With Two Adp
 pdb|2Y8Q|E Chain E, Structure Of The Regulatory Fragment Of Mammalian Ampk In
           Complex With One Adp
 pdb|2Y94|E Chain E, Structure Of An Active Form Of Mammalian Ampk
 pdb|2YA3|E Chain E, Structure Of The Regulatory Fragment Of Mammalian Ampk In
           Complex With Coumarin Adp
 pdb|4EAG|C Chain C, Co-Crystal Structure Of An Chimeric Ampk Core With Atp
 pdb|4EAI|C Chain C, Co-Crystal Structure Of An Ampk Core With Amp
 pdb|4EAJ|C Chain C, Co-Crystal Of Ampk Core With Amp Soaked With Atp
 pdb|4EAK|C Chain C, Co-Crystal Structure Of An Ampk Core With Atp
 pdb|4EAL|C Chain C, Co-Crystal Of Ampk Core With Atp Soaked With Amp
          Length = 330

 Score = 26.2 bits (56), Expect = 4.4,   Method: Compositional matrix adjust.
 Identities = 17/55 (30%), Positives = 27/55 (49%), Gaps = 2/55 (3%)

Query: 13  NGKHAQYLCKILEVYFSYHHDAYNTKGVYLHDPTALLVAVNP--SLFTYMEAVIR 65
           N  H  Y   ++++Y    H     + VYL D    LV ++P  SLF  + ++IR
Sbjct: 92  NILHRYYKSALVQIYELEEHKIETWREVYLQDSFKPLVCISPNASLFDAVSSLIR 146


>pdb|1LFW|A Chain A, Crystal Structure Of Pepv
          Length = 470

 Score = 26.2 bits (56), Expect = 5.4,   Method: Composition-based stats.
 Identities = 17/50 (34%), Positives = 25/50 (50%), Gaps = 4/50 (8%)

Query: 14  GKHAQYLCKILEVYFSYHHDAYNTK-GVYLHDPTALLVAVNPSLFTYMEA 62
           G+   +L  + EV    H D Y  K G++ HD     +A +PS+F Y  A
Sbjct: 294 GRDKNFLHFLAEVE---HEDFYGKKLGIFHHDDLMGDLASSPSMFDYEHA 340


  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    0.135    0.411 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,714,841
Number of Sequences: 62578
Number of extensions: 134576
Number of successful extensions: 232
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 226
Number of HSP's gapped (non-prelim): 10
length of query: 119
length of database: 14,973,337
effective HSP length: 81
effective length of query: 38
effective length of database: 9,904,519
effective search space: 376371722
effective search space used: 376371722
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 45 (21.9 bits)