BLAST Search Results

BLASTP 2.2.1 [Apr-13-2001] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer, 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. Query= gi|15645178|ref|NP_207348.1| conserved hypothetical protein [Helicobacter pylori 26695] (227 letters) Database: /var/www/html/HP/blast_new/blast/db/pdbaa 13,198 sequences; 2,899,336 total letters Searching...........................done



                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

pdb|1GZ0|A  Chain A, 23s Ribosomal Rna G2251 2'o-Methyltrans...    67  2e-12
pdb|1IPA|A  Chain A, Crystal Structure Of Rna 2'-O Ribose Me...    61  1e-10
pdb|1KYQ|A  Chain A, Met8p: A Bifunctional Nad-Dependent Deh...    25  7.4

>pdb|1GZ0|A Chain A, 23s Ribosomal Rna G2251 2'o-Methyltransferase Rlmb
 pdb|1GZ0|B Chain B, 23s Ribosomal Rna G2251 2'o-Methyltransferase Rlmb
 pdb|1GZ0|C Chain C, 23s Ribosomal Rna G2251 2'o-Methyltransferase Rlmb
 pdb|1GZ0|D Chain D, 23s Ribosomal Rna G2251 2'o-Methyltransferase Rlmb
 pdb|1GZ0|E Chain E, 23s Ribosomal Rna G2251 2'o-Methyltransferase Rlmb
 pdb|1GZ0|F Chain F, 23s Ribosomal Rna G2251 2'o-Methyltransferase Rlmb
 pdb|1GZ0|G Chain G, 23s Ribosomal Rna G2251 2'o-Methyltransferase Rlmb
 pdb|1GZ0|H Chain H, 23s Ribosomal Rna G2251 2'o-Methyltransferase Rlmb
          Length = 253

 Score = 66.6 bits (161), Expect = 2e-12
 Identities = 61/235 (25%), Positives = 103/235 (42%), Gaps = 20/235 (8%)

Query: 5   IYGKQVIMHLLNSHQEKLQEIYLSKEIDKKLFFALKKACPN---IIKVDNKK-AQSLAKG 60
           IYG   +  LL    E+ QE+++ K  + K    L  A  +   +I++ N++     + G
Sbjct: 15  IYGIHAVQALLERAPERFQEVFILKGREDKRLLPLIHALESQGVVIQLANRQYLDEKSDG 74

Query: 61  GNHQGVLAKV---------ELP-LAVSLKEVKKAQKLLVLCGITDVGNIGGIFRSAYCLG 110
             HQG++A+V         +LP L  SL +      LL+L G+TD  N+G   RSA   G
Sbjct: 75  AVHQGIIARVKPGRQYQENDLPDLIASLDQ----PFLLILDGVTDPHNLGACLRSADAAG 130

Query: 111 MGGVILDFAKELAYEGIVRS-SLGLMYDLPFSVMPNTLDLINELKTSGFLCLGASMQGSS 169
           +  VI+   +        +  + G    +P   + N       L+      +G + +   
Sbjct: 131 VHAVIVPKDRSAQLNATAKKVACGAAESVPLIRVTNLARTXRXLQEENIWIVGTAGEADH 190

Query: 170 QI-ENLSLKKCALFLGSEHEGLSKKILAKMDTILSVKMRRDFDSLNVSVAAGILM 223
            + ++    + AL  G+E EG  +      D ++S+       SLNVSVA GI +
Sbjct: 191 TLYQSKXTGRLALVXGAEGEGXRRLTREHCDELISIPXAGSVSSLNVSVATGICL 245

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

 Score = 60.8 bits (146), Expect = 1e-10
 Identities = 45/181 (24%), Positives = 91/181 (49%), Gaps = 5/181 (2%)

Query: 46  IIKVDNKKAQSLAKGGNHQGVLAKVELPLAVSLKEVKKAQKLLVLC--GITDVGNIGGIF 103
           +++V     + L+   N  G++A   +P   +L+E + +   L+L   G+   GN+G + 
Sbjct: 76  LLEVSEAVLKKLSVRDNPAGLIALARMPER-TLEEYRPSPDALILVAVGLEKPGNLGAVL 134

Query: 104 RSAYCLGMGGVILDFAKELAYEGIVRSSLGLMYDLPFSVMPNTLDLINELKTSGFLCLGA 163
           RSA   G   V++    +L    ++R+S G+++ L  ++  +  ++++ +K      +  
Sbjct: 135 RSADAAGAEAVLVAGGVDLYSPQVIRNSTGVVFSLR-TLAASESEVLDWIKQHNLPLVAT 193

Query: 164 SMQGSSQIENLSLKK-CALFLGSEHEGLSKKILAKMDTILSVKMRRDFDSLNVSVAAGIL 222
           +    +     +L+   A+ +G EHEGL    L    T + + M+   DSLNVSV+A +L
Sbjct: 194 TPHAEALYWEANLRPPVAIAVGPEHEGLRAAWLEAAQTQVRIPMQGQADSLNVSVSAALL 253

Query: 223 M 223
           +
Sbjct: 254 L 254

>pdb|1KYQ|A Chain A, Met8p: A Bifunctional Nad-Dependent Dehydrogenase And
           Ferrochelatase Involved In Siroheme Synthesis.
 pdb|1KYQ|B Chain B, Met8p: A Bifunctional Nad-Dependent Dehydrogenase And
           Ferrochelatase Involved In Siroheme Synthesis.
 pdb|1KYQ|C Chain C, Met8p: A Bifunctional Nad-Dependent Dehydrogenase And
           Ferrochelatase Involved In Siroheme Synthesis
          Length = 274

 Score = 25.0 bits (53), Expect = 7.4
 Identities = 18/65 (27%), Positives = 29/65 (43%), Gaps = 2/65 (3%)

Query: 146 TLDLINELKTSGFLCLGASMQGSSQIENLSLKKCALFLGSEHEGLSKKILAKMDTILSVK 205
           +L L ++LK    L +G    G +++  L    C L L S    L K I+ K    +  K
Sbjct: 4   SLQLAHQLKDKRILLIGGGEVGLTRLYKLXPTGCKLTLVS--PDLHKSIIPKFGKFIQNK 61

Query: 206 MRRDF 210
            + D+
Sbjct: 62  DQPDY 66

  Database: /var/www/html/HP/blast_new/blast/db/pdbaa
    Posted date:  Dec 20, 2002 11:08 AM
  Number of letters in database: 2,899,336
  Number of sequences in database:  13,198
  
Lambda     K      H
   0.320    0.138    0.381 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,108,504
Number of Sequences: 13198
Number of extensions: 40321
Number of successful extensions: 97
Number of sequences better than 10.0: 3
Number of HSP's better than 10.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 92
Number of HSP's gapped (non-prelim): 3
length of query: 227
length of database: 2,899,336
effective HSP length: 85
effective length of query: 142
effective length of database: 1,777,506
effective search space: 252405852
effective search space used: 252405852
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: 52 (24.6 bits)