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|15644862|ref|NP_207032.1| conserved hypothetical
integral membrane protein [Helicobacter pylori 26695]
         (176 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|1I6H|B  Chain B, Rna Polymerase Ii Elongation Complex >g...    28  0.77
pdb|1AH5|    Reduced Form Selenomethionine-Labelled Hydroxym...    27  1.0
pdb|1YPN|    Reduced Form Hydroxymethylbilane Synthase (K59q...    27  1.0
pdb|2YPN|A  Chain A, Hydroxymethylbilane Synthase                  27  1.3
pdb|1G61|A  Chain A, Crystal Structure Of M.Jannaschii Eif6 ...    26  2.9
pdb|1EYS|M  Chain M, Crystal Structure Of Photosynthetic Rea...    25  5.0
pdb|1D4M|2  Chain 2, The Crystal Structure Of Coxsackievirus...    25  6.5

>pdb|1I6H|B Chain B, Rna Polymerase Ii Elongation Complex
 pdb|1I50|B Chain B, Rna Polymerase Ii Crystal Form Ii At 2.8 A Resolution
 pdb|1I3Q|B Chain B, Rna Polymerase Ii Crystal Form I At 3.1 A Resolution
 pdb|1K83|B Chain B, Crystal Structure Of Yeast Rna Polymerase Ii Complexed
           With The Inhibitor Alpha Amanitin
          Length = 1224

 Score = 27.7 bits (60), Expect = 0.77
 Identities = 15/44 (34%), Positives = 25/44 (56%), Gaps = 3/44 (6%)

Query: 51  LKKEERLDFLKDFLKENHIAMPKKIEPREHRGALVIGTPLYEIN 94
           +KKE+R+ + KD L++  +    ++E  E R A  +G   Y IN
Sbjct: 343 IKKEKRIQYAKDILQKEFLPHITQLEGFESRKAFFLG---YMIN 383



>pdb|1AH5|   Reduced Form Selenomethionine-Labelled Hydroxymethylbilane
           Synthase Determined By Mad
          Length = 313

 Score = 27.3 bits (59), Expect = 1.0
 Identities = 23/81 (28%), Positives = 39/81 (47%), Gaps = 7/81 (8%)

Query: 59  FLKDFLKENHIAMPKKIEPREHRGALVIGTPLYEINLETKGDQTKIKTIERGFL--GALI 116
           ++KD L  +H  +  ++ P   RG +++ TPL ++     G    +K +E   L   A I
Sbjct: 22  YVKDKLXASHPGLVVELVPXVTRGDVILDTPLAKVG----GKGLFVKELEVALLENRADI 77

Query: 117 MLHKAK-VGVVFKTLLGIFCV 136
            +H  K V V F   LG+  +
Sbjct: 78  AVHSXKDVPVEFPQGLGLVTI 98



>pdb|1YPN|   Reduced Form Hydroxymethylbilane Synthase (K59q Mutant) Crystal
           Structure After 2 Hours In A Flow Cell Determined By
           Time-Resolved Laue Diffraction
          Length = 313

 Score = 27.3 bits (59), Expect = 1.0
 Identities = 23/81 (28%), Positives = 39/81 (47%), Gaps = 7/81 (8%)

Query: 59  FLKDFLKENHIAMPKKIEPREHRGALVIGTPLYEINLETKGDQTKIKTIERGFL--GALI 116
           ++KD L  +H  +  ++ P   RG +++ TPL ++     G    +K +E   L   A I
Sbjct: 22  YVKDKLMASHPGLVVELVPMVTRGDVILDTPLAKVG----GQGLFVKELEVALLENRADI 77

Query: 117 MLHKAK-VGVVFKTLLGIFCV 136
            +H  K V V F   LG+  +
Sbjct: 78  AVHSMKDVPVEFPQGLGLVTI 98



>pdb|2YPN|A Chain A, Hydroxymethylbilane Synthase
          Length = 313

 Score = 26.9 bits (58), Expect = 1.3
 Identities = 23/81 (28%), Positives = 39/81 (47%), Gaps = 7/81 (8%)

Query: 59  FLKDFLKENHIAMPKKIEPREHRGALVIGTPLYEINLETKGDQTKIKTIERGFL--GALI 116
           ++KD L  +H  +  ++ P   RG +++ TPL ++     G    +K +E   L   A I
Sbjct: 22  YVKDKLMASHPGLVVELVPMVTRGDVILDTPLAKVG----GKGLFVKELEVALLENRADI 77

Query: 117 MLHKAK-VGVVFKTLLGIFCV 136
            +H  K V V F   LG+  +
Sbjct: 78  AVHSMKDVPVEFPQGLGLVTI 98



>pdb|1G61|A Chain A, Crystal Structure Of M.Jannaschii Eif6
 pdb|1G61|B Chain B, Crystal Structure Of M.Jannaschii Eif6
          Length = 228

 Score = 25.8 bits (55), Expect = 2.9
 Identities = 12/33 (36%), Positives = 22/33 (66%)

Query: 43 KEWVLEKSLKKEERLDFLKDFLKENHIAMPKKI 75
          K  +L   + ++E LD +K+FLKEN++ +  +I
Sbjct: 67 KYGLLLPKIVEDEELDRIKNFLKENNLDLNVEI 99



>pdb|1EYS|M Chain M, Crystal Structure Of Photosynthetic Reaction Center From A
           Thermophilic Bacterium, Thermochromatium Tepidum
          Length = 324

 Score = 25.0 bits (53), Expect = 5.0
 Identities = 10/24 (41%), Positives = 16/24 (66%)

Query: 8   FHIYATTFFFPLALLFAVSGLSLL 31
           FH+ +  F +  ALLFA+ G ++L
Sbjct: 200 FHMLSIAFLYGSALLFAMHGATIL 223



>pdb|1D4M|2 Chain 2, The Crystal Structure Of Coxsackievirus A9 To 2.9 A
           Resolution
          Length = 261

 Score = 24.6 bits (52), Expect = 6.5
 Identities = 14/43 (32%), Positives = 20/43 (45%), Gaps = 10/43 (23%)

Query: 83  ALVIGTPLYEINLETKGDQTKIKTIERGFLGALIMLHKAKVGV 125
           A+  G   YE    T+ DQTK++T           +H A +GV
Sbjct: 145 AMANGDKAYEFTSATQSDQTKVQT----------AIHNAGMGV 177



  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
   0.332    0.146    0.433 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 879,440
Number of Sequences: 13198
Number of extensions: 31815
Number of successful extensions: 123
Number of sequences better than 10.0: 7
Number of HSP's better than 10.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 116
Number of HSP's gapped (non-prelim): 7
length of query: 176
length of database: 2,899,336
effective HSP length: 82
effective length of query: 94
effective length of database: 1,817,100
effective search space: 170807400
effective search space used: 170807400
T: 11
A: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 51 (24.3 bits)