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= 006413
         (646 letters)

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

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



>pdb|1SS9|A Chain A, Crystal Structural Analysis Of Active Site Mutant Q189e Of
           Lgtc
          Length = 311

 Score = 42.7 bits (99), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 52/191 (27%), Positives = 79/191 (41%), Gaps = 30/191 (15%)

Query: 443 NPKYLSILNHLRFYLPEVFPRLNKVLFLDDDVVVQKDLSGLWSIDLKGKVNGAVETCGET 502
           N +++SI  + R  L E     +KVL+LD DV+V+  L+ LW  DL     GA   C + 
Sbjct: 75  NIRHISITTYARLKLGEYIADCDKVLYLDIDVLVRDSLTPLWDTDLGDNWLGA---CIDL 131

Query: 503 FHRFDRYLNFSNPLISKNFDPRACGWAY---GMNIFDLDEWRRQNITDVYHTWQKMNHDR 559
           F   +R   +   +        A G  Y   G+ + +L +WRR +I  +   W +   D 
Sbjct: 132 F--VERQEGYKQKI------GMADGEYYFNAGVLLINLKKWRRHDIFKMSCEWVEQYKDV 183

Query: 560 QLWKLGTLPPGLITFWKRTYPLDRFWHVLGLGYNPSVNQ----------RD----IERAA 605
             ++   +  GL       Y   RF + +   Y    N+          RD    +   A
Sbjct: 184 MQYQDEDILNGLFKG-GVCYANSRF-NFMPTNYAFMANRFASRHTDPLYRDRTNTVMPVA 241

Query: 606 VIHYNGNMKPW 616
           V HY G  KPW
Sbjct: 242 VSHYCGPAKPW 252


>pdb|1G9R|A Chain A, Crystal Structure Of Galactosyltransferase Lgtc In Complex
           With Mn And Udp-2f-Galactose
 pdb|1GA8|A Chain A, Crystal Structure Of Galacosyltransferase Lgtc In Complex
           With Donor And Acceptor Sugar Analogs
          Length = 311

 Score = 41.2 bits (95), Expect = 0.002,   Method: Compositional matrix adjust.
 Identities = 46/188 (24%), Positives = 73/188 (38%), Gaps = 24/188 (12%)

Query: 443 NPKYLSILNHLRFYLPEVFPRLNKVLFLDDDVVVQKDLSGLWSIDLKGKVNGA-VETCGE 501
           N +++SI  + R  L E     +KVL+LD DV+V+  L+ LW  DL     GA ++   E
Sbjct: 75  NIRHISITTYARLKLGEYIADCDKVLYLDIDVLVRDSLTPLWDTDLGDNWLGASIDLFVE 134

Query: 502 TFHRFDRYLNFSNPLISKNFDPRACGWAYGMNIFDLDEWRRQNITDVYHTWQKMNHDRQL 561
               + + +  ++     N          G+ + +L +WRR +I      W +   D   
Sbjct: 135 RQEGYKQKIGXADGEYYFN---------AGVLLINLKKWRRHDIFKXSSEWVEQYKDVXQ 185

Query: 562 WKLGTLPPGL-----------ITFWKRTYPLDRFWHVLGLGYNPSVNQR--DIERAAVIH 608
           ++   +  GL             F    Y     W       +P    R   +   AV H
Sbjct: 186 YQDQDILNGLFKGGVCYANSRFNFXPTNYAFXANWFA-SRHTDPLYRDRTNTVXPVAVSH 244

Query: 609 YNGNMKPW 616
           Y G  KPW
Sbjct: 245 YCGPAKPW 252


>pdb|3CVO|A Chain A, Crystal Structure Of A Methyltransferase-Like Protein
           (Spo2022) From Silicibacter Pomeroyi Dss-3 At 1.80 A
           Resolution
 pdb|3CVO|B Chain B, Crystal Structure Of A Methyltransferase-Like Protein
           (Spo2022) From Silicibacter Pomeroyi Dss-3 At 1.80 A
           Resolution
 pdb|3CVO|C Chain C, Crystal Structure Of A Methyltransferase-Like Protein
           (Spo2022) From Silicibacter Pomeroyi Dss-3 At 1.80 A
           Resolution
 pdb|3CVO|D Chain D, Crystal Structure Of A Methyltransferase-Like Protein
           (Spo2022) From Silicibacter Pomeroyi Dss-3 At 1.80 A
           Resolution
          Length = 202

 Score = 33.5 bits (75), Expect = 0.37,   Method: Composition-based stats.
 Identities = 15/39 (38%), Positives = 19/39 (48%)

Query: 357 STVTHAKHPSNHVFHIVTDRLNYAAMRMWFLANPPGRAT 395
           STV  A+ P  HV  + +DR      + W  ANPP   T
Sbjct: 42  STVVAAELPGKHVTSVESDRAWARXXKAWLAANPPAEGT 80


>pdb|1P99|A Chain A, 1.7a Crystal Structure Of Protein Pg110 From
           Staphylococcus Aureus
          Length = 295

 Score = 30.8 bits (68), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 16/34 (47%), Positives = 23/34 (67%), Gaps = 1/34 (2%)

Query: 226 KEVQRALGDATKDSDLP-RIANDRLKAMEQSLAK 258
           KE Q+AL +  KD + P  ++ D +KA+E SLAK
Sbjct: 262 KEAQKALQEDVKDGEKPVNLSKDEIKAIETSLAK 295


  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
   0.319    0.133    0.403 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,124,203
Number of Sequences: 62578
Number of extensions: 786358
Number of successful extensions: 2283
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 2276
Number of HSP's gapped (non-prelim): 8
length of query: 646
length of database: 14,973,337
effective HSP length: 105
effective length of query: 541
effective length of database: 8,402,647
effective search space: 4545832027
effective search space used: 4545832027
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: 55 (25.8 bits)