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|15645132|ref|NP_207302.1| hypothetical protein
[Helicobacter pylori 26695]
         (154 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|1JEY|B  Chain B, Crystal Structure Of The Ku Heterodimer...    25  4.0
pdb|1JID|A  Chain A, Human Srp19 In Complex With Helix 6 Of ...    25  5.2
pdb|1JEQ|A  Chain A, Crystal Structure Of The Ku Heterodimer...    24  8.9
pdb|1JJR|A  Chain A, The Three-Dimensional Structure Of The ...    24  8.9
pdb|1EZV|A  Chain A, Structure Of The Yeast Cytochrome Bc1 C...    24  8.9
pdb|1DNP|A  Chain A, Structure Of Deoxyribodipyrimidine Phot...    24  8.9
pdb|1KB9|A  Chain A, Yeast Cytochrome Bc1 Complex                  24  8.9

>pdb|1JEY|B Chain B, Crystal Structure Of The Ku Heterodimer Bound To Dna
 pdb|1JEQ|B Chain B, Crystal Structure Of The Ku Heterodimer
          Length = 565

 Score = 25.0 bits (53), Expect = 4.0
 Identities = 19/66 (28%), Positives = 29/66 (43%), Gaps = 8/66 (12%)

Query: 17  ENTLKYLKKQKQFIEDNF----MITRERFRSHQ----FGGMDFELSRISYPLLIHSFDDN 68
           E  +KY  + K F    F     + R  F  +Q    F   D E + ++   LIH+ DD 
Sbjct: 328 EEQMKYKSEGKCFSVLGFCKSSQVQRRFFMGNQVLKVFAARDDEAAAVALSSLIHALDDL 387

Query: 69  ELSEIV 74
           ++  IV
Sbjct: 388 DMVAIV 393



>pdb|1JID|A Chain A, Human Srp19 In Complex With Helix 6 Of Human Srp Rna
          Length = 128

 Score = 24.6 bits (52), Expect = 5.2
 Identities = 24/75 (32%), Positives = 33/75 (44%), Gaps = 14/75 (18%)

Query: 29  FIEDNFMITRERFRSHQFGGMDFELSRISYPLLIHSFDDNELSEIVIREQQYGSKTQAML 88
           F+E N M +RE  R  Q+ G      R+   L     +D  L  +     Q+ S+   ML
Sbjct: 61  FLEKNKMYSREWNRDVQYRG------RVRVQL---KQEDGSLCLV-----QFPSRKSVML 106

Query: 89  YFCFSILELKTATPL 103
           Y    I +LKT T L
Sbjct: 107 YAAEMIPKLKTRTQL 121



>pdb|1JEQ|A Chain A, Crystal Structure Of The Ku Heterodimer
 pdb|1JEY|A Chain A, Crystal Structure Of The Ku Heterodimer Bound To Dna
          Length = 609

 Score = 23.9 bits (50), Expect = 8.9
 Identities = 12/38 (31%), Positives = 19/38 (49%)

Query: 117 TIHKANAPMFLEMLKIFGLLSQAHHSDVLKILEKILQN 154
           T+ K   PM  E  + +GL S     ++L+ L K  Q+
Sbjct: 572 TLGKFTVPMLKEACRAYGLKSGLKKQELLEALTKHFQD 609



>pdb|1JJR|A Chain A, The Three-Dimensional Structure Of The C-Terminal Dna
           Binding Domain Of Human Ku70
          Length = 151

 Score = 23.9 bits (50), Expect = 8.9
 Identities = 12/38 (31%), Positives = 19/38 (49%)

Query: 117 TIHKANAPMFLEMLKIFGLLSQAHHSDVLKILEKILQN 154
           T+ K   PM  E  + +GL S     ++L+ L K  Q+
Sbjct: 60  TLGKFTVPMLKEACRAYGLKSGLKKQELLEALTKHFQD 97



 Score = 23.9 bits (50), Expect = 8.9
 Identities = 12/38 (31%), Positives = 19/38 (49%)

Query: 117 TIHKANAPMFLEMLKIFGLLSQAHHSDVLKILEKILQN 154
           T+ K   PM  E  + +GL S     ++L+ L K  Q+
Sbjct: 114 TLGKFTVPMLKEACRAYGLKSGLKKQELLEALTKHFQD 151



>pdb|1EZV|A Chain A, Structure Of The Yeast Cytochrome Bc1 Complex Co-
           Crystallized With An Antibody Fv-Fragment
 pdb|1KYO|A Chain A, Yeast Cytochrome Bc1 Complex With Bound Substrate
           Cytochrome C
 pdb|1KYO|L Chain L, Yeast Cytochrome Bc1 Complex With Bound Substrate
           Cytochrome C
          Length = 430

 Score = 23.9 bits (50), Expect = 8.9
 Identities = 12/28 (42%), Positives = 16/28 (56%)

Query: 6   KQLGLISLENLENTLKYLKKQKQFIEDN 33
           ++  L+S  N E T K + KQ Q  EDN
Sbjct: 100 QKANLLSSSNFEATKKSVLKQVQDFEDN 127



>pdb|1DNP|A Chain A, Structure Of Deoxyribodipyrimidine Photolyase
 pdb|1DNP|B Chain B, Structure Of Deoxyribodipyrimidine Photolyase
          Length = 471

 Score = 23.9 bits (50), Expect = 8.9
 Identities = 12/56 (21%), Positives = 23/56 (40%)

Query: 22 YLKKQKQFIEDNFMITRERFRSHQFGGMDFELSRISYPLLIHSFDDNELSEIVIRE 77
          Y+   +Q+   N    +    + Q  G+   L+    PLL    DD   S  ++++
Sbjct: 34 YIATPRQWATHNMSPRQAELINAQLNGLQIALAEKGIPLLFREVDDFVASVEIVKQ 89



>pdb|1KB9|A Chain A, Yeast Cytochrome Bc1 Complex
          Length = 431

 Score = 23.9 bits (50), Expect = 8.9
 Identities = 12/28 (42%), Positives = 16/28 (56%)

Query: 6   KQLGLISLENLENTLKYLKKQKQFIEDN 33
           ++  L+S  N E T K + KQ Q  EDN
Sbjct: 101 QKANLLSSSNFEATKKSVLKQVQDFEDN 128



  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
   0.324    0.139    0.385 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 738,231
Number of Sequences: 13198
Number of extensions: 25821
Number of successful extensions: 126
Number of sequences better than 10.0: 7
Number of HSP's better than 10.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 120
Number of HSP's gapped (non-prelim): 8
length of query: 154
length of database: 2,899,336
effective HSP length: 80
effective length of query: 74
effective length of database: 1,843,496
effective search space: 136418704
effective search space used: 136418704
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 50 (23.9 bits)