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|15645161|ref|NP_207331.1| cag pathogenicity island
protein (cag14) [Helicobacter pylori 26695]
         (126 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|1HNU|A  Chain A, Crystal Structure Of Peroxisomal Delta3...    27  0.69
pdb|1COL|A  Chain A, Colicin A (C-Terminal Domain) (Pore-For...    26  1.2
pdb|1KYI|G  Chain G, Hsluv (H. Influenzae)-Nlvs Vinyl Sulfon...    24  4.5
pdb|1GXO|A  Chain A, Mutant D189a Of Family 10 Polysaccharid...    24  5.9
pdb|1F1M|A  Chain A, Crystal Structure Of Outer Surface Prot...    24  5.9
pdb|1GXM|A  Chain A, Family 10 Polysaccharide Lyase From Cel...    23  7.7
pdb|1A87|    Colicin N                                             23  7.7

>pdb|1HNU|A Chain A, Crystal Structure Of Peroxisomal Delta3-Delta2-Enoyl-Coa
           Isomerase From Saccharomyces Cerevisiae
 pdb|1HNO|A Chain A, Crystal Structure Of Peroxisomal Delta3-Delta2-Enoyl-Coa
           Isomerase From Saccharomyces Cerevisiae
          Length = 280

 Score = 26.9 bits (58), Expect = 0.69
 Identities = 11/33 (33%), Positives = 19/33 (57%)

Query: 66  NEILGKKFNLPMDNIKNFMAEVLKNGFDSIKNM 98
           N  + K FN+P  N + F A+VL+   + +K +
Sbjct: 192 NGFISKNFNMPSSNAEAFNAKVLEELREKVKGL 224



>pdb|1COL|A Chain A, Colicin A (C-Terminal Domain) (Pore-Forming Domain)
 pdb|1COL|B Chain B, Colicin A (C-Terminal Domain) (Pore-Forming Domain)
          Length = 204

 Score = 26.2 bits (56), Expect = 1.2
 Identities = 14/54 (25%), Positives = 26/54 (47%), Gaps = 4/54 (7%)

Query: 65  LNEILGKKFNLPM----DNIKNFMAEVLKNGFDSIKNMGSALVGNGFGSNKSDK 114
           + E LG K+        DNIKNF  + +++  D++ ++           NK+D+
Sbjct: 26  IGEHLGDKYKAIAKDIADNIKNFQGKTIRSFDDAMASLNKITANPAMKINKADR 79



>pdb|1KYI|G Chain G, Hsluv (H. Influenzae)-Nlvs Vinyl Sulfone Inhibitor
          Complex
 pdb|1KYI|H Chain H, Hsluv (H. Influenzae)-Nlvs Vinyl Sulfone Inhibitor
          Complex
 pdb|1KYI|I Chain I, Hsluv (H. Influenzae)-Nlvs Vinyl Sulfone Inhibitor
          Complex
 pdb|1KYI|J Chain J, Hsluv (H. Influenzae)-Nlvs Vinyl Sulfone Inhibitor
          Complex
 pdb|1KYI|K Chain K, Hsluv (H. Influenzae)-Nlvs Vinyl Sulfone Inhibitor
          Complex
 pdb|1KYI|L Chain L, Hsluv (H. Influenzae)-Nlvs Vinyl Sulfone Inhibitor
          Complex
 pdb|1KYI|M Chain M, Hsluv (H. Influenzae)-Nlvs Vinyl Sulfone Inhibitor
          Complex
 pdb|1KYI|N Chain N, Hsluv (H. Influenzae)-Nlvs Vinyl Sulfone Inhibitor
          Complex
 pdb|1KYI|O Chain O, Hsluv (H. Influenzae)-Nlvs Vinyl Sulfone Inhibitor
          Complex
 pdb|1KYI|P Chain P, Hsluv (H. Influenzae)-Nlvs Vinyl Sulfone Inhibitor
          Complex
 pdb|1KYI|Q Chain Q, Hsluv (H. Influenzae)-Nlvs Vinyl Sulfone Inhibitor
          Complex
 pdb|1KYI|R Chain R, Hsluv (H. Influenzae)-Nlvs Vinyl Sulfone Inhibitor
          Complex
 pdb|1JJW|C Chain C, Structure Of Haemophilus Influenzae Hslv Protein At 1.9
          A Resolution
 pdb|1G3I|I Chain I, Crystal Structure Of The Hsluv Protease-Chaperone
          Complex
 pdb|1G3I|L Chain L, Crystal Structure Of The Hsluv Protease-Chaperone
          Complex
 pdb|1G3K|C Chain C, Crystal Structure Of The H. Influenzae Protease Hslv At
          1.9 A Resolution
 pdb|1JJW|B Chain B, Structure Of Haemophilus Influenzae Hslv Protein At 1.9
          A Resolution
 pdb|1G3I|G Chain G, Crystal Structure Of The Hsluv Protease-Chaperone
          Complex
 pdb|1G3I|H Chain H, Crystal Structure Of The Hsluv Protease-Chaperone
          Complex
 pdb|1G3I|J Chain J, Crystal Structure Of The Hsluv Protease-Chaperone
          Complex
 pdb|1G3I|K Chain K, Crystal Structure Of The Hsluv Protease-Chaperone
          Complex
 pdb|1G3K|A Chain A, Crystal Structure Of The H. Influenzae Protease Hslv At
          1.9 A Resolution
 pdb|1G3K|B Chain B, Crystal Structure Of The H. Influenzae Protease Hslv At
          1.9 A Resolution
 pdb|1JJW|A Chain A, Structure Of Haemophilus Influenzae Hslv Protein At 1.9
          A Resolution
 pdb|1G3I|M Chain M, Crystal Structure Of The Hsluv Protease-Chaperone
          Complex
 pdb|1G3I|N Chain N, Crystal Structure Of The Hsluv Protease-Chaperone
          Complex
 pdb|1G3I|Q Chain Q, Crystal Structure Of The Hsluv Protease-Chaperone
          Complex
 pdb|1G3I|O Chain O, Crystal Structure Of The Hsluv Protease-Chaperone
          Complex
 pdb|1G3I|P Chain P, Crystal Structure Of The Hsluv Protease-Chaperone
          Complex
 pdb|1G3I|R Chain R, Crystal Structure Of The Hsluv Protease-Chaperone
          Complex
          Length = 174

 Score = 24.3 bits (51), Expect = 4.5
 Identities = 10/23 (43%), Positives = 14/23 (60%)

Query: 20 KIKGLIMGKILASLLGGGTNLFT 42
          K++ L  GK+LA   GG  + FT
Sbjct: 33 KVRRLYNGKVLAGFAGGTADAFT 55



>pdb|1GXO|A Chain A, Mutant D189a Of Family 10 Polysaccharide Lyase From
           Cellvibrio Cellulosa In Complex With Trigalaturonic Acid
          Length = 332

 Score = 23.9 bits (50), Expect = 5.9
 Identities = 10/29 (34%), Positives = 17/29 (58%)

Query: 96  KNMGSALVGNGFGSNKSDKTTNKMSVSQV 124
           KN+    VGNG G N+S    N  +++++
Sbjct: 52  KNLDYNSVGNGGGGNESGTIANGATITEM 80



>pdb|1F1M|A Chain A, Crystal Structure Of Outer Surface Protein C (Ospc)
 pdb|1F1M|B Chain B, Crystal Structure Of Outer Surface Protein C (Ospc)
 pdb|1F1M|C Chain C, Crystal Structure Of Outer Surface Protein C (Ospc)
 pdb|1F1M|D Chain D, Crystal Structure Of Outer Surface Protein C (Ospc)
          Length = 164

 Score = 23.9 bits (50), Expect = 5.9
 Identities = 13/38 (34%), Positives = 21/38 (55%)

Query: 64  GLNEILGKKFNLPMDNIKNFMAEVLKNGFDSIKNMGSA 101
           G+ +   KK  L  +N K   A+ L+  F+S+KN+  A
Sbjct: 112 GVTDDNAKKAILKTNNDKTKGADELEKLFESVKNLSKA 149



>pdb|1GXM|A Chain A, Family 10 Polysaccharide Lyase From Cellvibrio Cellulosa
 pdb|1GXM|B Chain B, Family 10 Polysaccharide Lyase From Cellvibrio Cellulosa
 pdb|1GXN|A Chain A, Family 10 Polysaccharide Lyase From Cellvibrio Cellulosa
          Length = 332

 Score = 23.5 bits (49), Expect = 7.7
 Identities = 10/29 (34%), Positives = 17/29 (58%)

Query: 96  KNMGSALVGNGFGSNKSDKTTNKMSVSQV 124
           KN+    VGNG G N+S    N  +++++
Sbjct: 52  KNLDYNSVGNGGGGNESGTIDNGATITEM 80



>pdb|1A87|   Colicin N
          Length = 321

 Score = 23.5 bits (49), Expect = 7.7
 Identities = 16/54 (29%), Positives = 28/54 (51%), Gaps = 4/54 (7%)

Query: 65  LNEILGKKF-NLPMD---NIKNFMAEVLKNGFDSIKNMGSALVGNGFGSNKSDK 114
           L E LG K+ N+  +   +IKNF    +++  +++ ++   L       NKSDK
Sbjct: 144 LGEYLGVKYKNVAKEVANDIKNFHGRNIRSYNEAMASLNKVLANPKMKVNKSDK 197



  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    0.139    0.383 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 654,188
Number of Sequences: 13198
Number of extensions: 24176
Number of successful extensions: 34
Number of sequences better than 10.0: 7
Number of HSP's better than 10.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 28
Number of HSP's gapped (non-prelim): 7
length of query: 126
length of database: 2,899,336
effective HSP length: 78
effective length of query: 48
effective length of database: 1,869,892
effective search space: 89754816
effective search space used: 89754816
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: 48 (23.1 bits)