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= 039644
         (192 letters)

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

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



>pdb|3MYU|A Chain A, Mycoplasma Genitalium Mg289
 pdb|3MYU|B Chain B, Mycoplasma Genitalium Mg289
          Length = 344

 Score = 27.3 bits (59), Expect = 5.6,   Method: Compositional matrix adjust.
 Identities = 24/86 (27%), Positives = 41/86 (47%), Gaps = 12/86 (13%)

Query: 70  VLIVFDDVTCFSQLESLMGS-LDWLTPV---SRIILTTRNKQVLRNWGV-----SKIYEM 120
           + IVFDD   FS  +++ GS   + TP+    R+ + T +  +L + G+     S+IY+ 
Sbjct: 239 IKIVFDDANSFSWTQNIKGSKRPFYTPIDPNDRLEILTYSDPLLYDIGIVSNNLSRIYQK 298

Query: 121 EALEYHHALELFSQHAFKRNHPDVGY 146
              E    L   S+  +    P +GY
Sbjct: 299 AIGEIFIELAQSSEDLY---GPSIGY 321


>pdb|3FTB|A Chain A, The Crystal Structure Of The Histidinol-Phosphate
           Aminotransferase From Clostridium Acetobutylicum
 pdb|3FTB|B Chain B, The Crystal Structure Of The Histidinol-Phosphate
           Aminotransferase From Clostridium Acetobutylicum
 pdb|3FTB|D Chain D, The Crystal Structure Of The Histidinol-Phosphate
           Aminotransferase From Clostridium Acetobutylicum
 pdb|3FTB|E Chain E, The Crystal Structure Of The Histidinol-Phosphate
           Aminotransferase From Clostridium Acetobutylicum
          Length = 361

 Score = 26.9 bits (58), Expect = 8.0,   Method: Compositional matrix adjust.
 Identities = 15/50 (30%), Positives = 25/50 (50%), Gaps = 5/50 (10%)

Query: 141 HPDVGYEKLSSNVTKYAQGIPLALKVLSCFLHKREKEVWESAIDKLQRIL 190
           +PDV Y +L+ ++  Y     L LK +   L     E+ E +I   ++IL
Sbjct: 58  YPDVNYRRLNKSIENY-----LKLKDIGIVLGNGASEIIELSISLFEKIL 102


>pdb|3DKT|A Chain A, Crystal Structure Of Thermotoga Maritima Encapsulin
 pdb|3DKT|B Chain B, Crystal Structure Of Thermotoga Maritima Encapsulin
 pdb|3DKT|C Chain C, Crystal Structure Of Thermotoga Maritima Encapsulin
 pdb|3DKT|D Chain D, Crystal Structure Of Thermotoga Maritima Encapsulin
 pdb|3DKT|E Chain E, Crystal Structure Of Thermotoga Maritima Encapsulin
 pdb|3DKT|F Chain F, Crystal Structure Of Thermotoga Maritima Encapsulin
 pdb|3DKT|G Chain G, Crystal Structure Of Thermotoga Maritima Encapsulin
 pdb|3DKT|H Chain H, Crystal Structure Of Thermotoga Maritima Encapsulin
 pdb|3DKT|I Chain I, Crystal Structure Of Thermotoga Maritima Encapsulin
 pdb|3DKT|J Chain J, Crystal Structure Of Thermotoga Maritima Encapsulin
          Length = 265

 Score = 26.6 bits (57), Expect = 9.4,   Method: Compositional matrix adjust.
 Identities = 15/64 (23%), Positives = 29/64 (45%), Gaps = 1/64 (1%)

Query: 95  PVSRIILTTRNKQVLRNWGVSKIYEMEALEYHHALELFSQHAFKRNHPDVGYEKLSSNVT 154
           P+  + + +   +V++ WG+ K   +  L     L+L+     +R  P+V    L   V 
Sbjct: 51  PLGEVEVLSDENEVVK-WGLRKSLPLIELRATFTLDLWELDNLERGKPNVDLSSLEETVR 109

Query: 155 KYAQ 158
           K A+
Sbjct: 110 KVAE 113


>pdb|1WP9|A Chain A, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
           Domain
 pdb|1WP9|B Chain B, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
           Domain
 pdb|1WP9|C Chain C, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
           Domain
 pdb|1WP9|D Chain D, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
           Domain
 pdb|1WP9|E Chain E, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
           Domain
 pdb|1WP9|F Chain F, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
           Domain
          Length = 494

 Score = 26.6 bits (57), Expect = 9.9,   Method: Compositional matrix adjust.
 Identities = 21/79 (26%), Positives = 36/79 (45%), Gaps = 5/79 (6%)

Query: 117 IYEMEALEYHHALELFSQHAFK--RNHPDVGYEKLSSNVTKYAQGI---PLALKVLSCFL 171
           +Y   AL+ HHA+EL         R +    YE+  +  TK ++ I       K +S  +
Sbjct: 274 LYHAMALKLHHAIELLETQGLSALRAYIKKLYEEAKAGSTKASKEIFSDKRMKKAISLLV 333

Query: 172 HKREKEVWESAIDKLQRIL 190
             +E  +    +DKL+ I+
Sbjct: 334 QAKEIGLDHPKMDKLKEII 352


  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
   0.323    0.138    0.413 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,393,117
Number of Sequences: 62578
Number of extensions: 196311
Number of successful extensions: 389
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 389
Number of HSP's gapped (non-prelim): 6
length of query: 192
length of database: 14,973,337
effective HSP length: 93
effective length of query: 99
effective length of database: 9,153,583
effective search space: 906204717
effective search space used: 906204717
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 49 (23.5 bits)