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= 025787
         (248 letters)

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

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



>pdb|1ZJR|A Chain A, Crystal Structure Of A. Aeolicus TrmhSPOU TRNA MODIFYING
           ENZYME
          Length = 211

 Score = 48.9 bits (115), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 26/105 (24%), Positives = 56/105 (53%), Gaps = 1/105 (0%)

Query: 142 LMEERKERFVNVVKNRSYSVCLVVEGLSDFGNVSATFRSADALGVQSVHVVSCDSSKRYR 201
           ++E+R +R   V++ R   + +  + + +  N SA  R+ DA+GV  ++    +  K+ +
Sbjct: 7   VLEKRLKRLREVLEKRQKDLIVFADNVKNEHNFSAIVRTCDAVGVLYLYYYHAEG-KKAK 65

Query: 202 ENRHVSMGAEKWLDIELWDAPRECFNVLRSRGYRIATTHVGMDAC 246
            N  ++ G+ KW+ IE  D P +     ++RG++I  T +  ++ 
Sbjct: 66  INEGITQGSHKWVFIEKVDNPVQKLLEFKNRGFQIVATWLSKESV 110


>pdb|1V2X|A Chain A, Trmh
          Length = 194

 Score = 42.0 bits (97), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 26/94 (27%), Positives = 46/94 (48%), Gaps = 4/94 (4%)

Query: 153 VVKNRSYSVCLVVEGLSDFGNVSATFRSADALGVQSVHVVS-CDSSKRYRENRHVSMGAE 211
           V++ R   + +++E +    N+SA  R+ DA+GV   H V+       + E    S G+ 
Sbjct: 15  VLRRRQPDLTVLLENVHKPHNLSAILRTCDAVGVLEAHAVNPTGGVPTFNET---SGGSH 71

Query: 212 KWLDIELWDAPRECFNVLRSRGYRIATTHVGMDA 245
           KW+ + +     E F  L+ RG+ +  T +  DA
Sbjct: 72  KWVYLRVHPDLHEAFRFLKERGFTVYATALREDA 105


>pdb|1IPA|A Chain A, Crystal Structure Of Rna 2'-O Ribose Methyltransferase
          Length = 274

 Score = 32.3 bits (72), Expect = 0.28,   Method: Compositional matrix adjust.
 Identities = 15/32 (46%), Positives = 20/32 (62%)

Query: 160 SVCLVVEGLSDFGNVSATFRSADALGVQSVHV 191
           ++ LV  GL   GN+ A  RSADA G ++V V
Sbjct: 116 ALILVAVGLEKPGNLGAVLRSADAAGAEAVLV 147


>pdb|3GYQ|A Chain A, Structure Of The Thiostrepton-Resistance Methyltransferase
           S-Adenosyl-L-Methionine Complex
 pdb|3GYQ|B Chain B, Structure Of The Thiostrepton-Resistance Methyltransferase
           S-Adenosyl-L-Methionine Complex
          Length = 272

 Score = 29.3 bits (64), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 16/50 (32%), Positives = 25/50 (50%), Gaps = 2/50 (4%)

Query: 146 RKERFVNVVKNRSYSVCLVVEGLSDFGNVSATFRSADALGVQSVHVVSCD 195
           R  RF ++   R   V L  +G+   GN+ A  R++ ALG   + +V  D
Sbjct: 107 RPARFGDIASRRGDVVVL--DGVKIVGNIGAIVRTSLALGASGIILVDSD 154


  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    0.132    0.394 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,505,978
Number of Sequences: 62578
Number of extensions: 241717
Number of successful extensions: 607
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 601
Number of HSP's gapped (non-prelim): 5
length of query: 248
length of database: 14,973,337
effective HSP length: 96
effective length of query: 152
effective length of database: 8,965,849
effective search space: 1362809048
effective search space used: 1362809048
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: 50 (23.9 bits)