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|15645743|ref|NP_207920.1| biopolymer transport
protein (exbD) [Helicobacter pylori 26695]
         (133 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|1JMC|A  Chain A, Single Stranded Dna-Binding Domain Of H...    25  3.9
pdb|1FGU|A  Chain A, Ssdna-Binding Domain Of The Large Subun...    25  3.9
pdb|1GKR|A  Chain A, L-Hydantoinase (Dihydropyrimidinase) Fr...    24  5.1
pdb|1H54|B  Chain B, Maltose Phosphorylase From Lactobacillu...    24  5.1
pdb|1IAI|L  Chain L, Idiotype-Anti-Idiotype Fab Complex            24  6.7
pdb|1BX4|A  Chain A, Structure Of Human Adenosine Kinase At ...    23  8.8
pdb|1EKE|B  Chain B, Crystal Structure Of Class Ii Ribonucle...    23  8.8

>pdb|1JMC|A Chain A, Single Stranded Dna-Binding Domain Of Human Replication
           Protein A Bound To Single Stranded Dna, Rpa70 Subunit,
           Residues 183 - 420
          Length = 246

 Score = 24.6 bits (52), Expect = 3.9
 Identities = 9/30 (30%), Positives = 19/30 (63%)

Query: 89  LSKKYDKDTRVSIRADKRLTYDKVIYLLKT 118
           + K Y+  T++++R++ R    + IYL+ T
Sbjct: 146 ICKSYEDATKITVRSNNREVAKRNIYLMDT 175



>pdb|1FGU|A Chain A, Ssdna-Binding Domain Of The Large Subunit Of Replication
           Protein A
 pdb|1FGU|B Chain B, Ssdna-Binding Domain Of The Large Subunit Of Replication
           Protein A
          Length = 252

 Score = 24.6 bits (52), Expect = 3.9
 Identities = 9/30 (30%), Positives = 19/30 (63%)

Query: 89  LSKKYDKDTRVSIRADKRLTYDKVIYLLKT 118
           + K Y+  T++++R++ R    + IYL+ T
Sbjct: 142 ICKSYEDATKITVRSNNREVAKRNIYLMDT 171



>pdb|1GKR|A Chain A, L-Hydantoinase (Dihydropyrimidinase) From Arthrobacter
           Aurescens
 pdb|1GKR|B Chain B, L-Hydantoinase (Dihydropyrimidinase) From Arthrobacter
           Aurescens
 pdb|1GKR|C Chain C, L-Hydantoinase (Dihydropyrimidinase) From Arthrobacter
           Aurescens
 pdb|1GKR|D Chain D, L-Hydantoinase (Dihydropyrimidinase) From Arthrobacter
           Aurescens
          Length = 458

 Score = 24.3 bits (51), Expect = 5.1
 Identities = 18/58 (31%), Positives = 28/58 (48%), Gaps = 6/58 (10%)

Query: 45  LPSGSKTARATQDKMIEIRMDKDAK---IYIDSQTYEYNSFPDTFNLLSKKYDKDTRV 99
           L +G    R + ++++E+  +K AK   IY    T +  S  D   LL    D DT+V
Sbjct: 346 LTNGVNKGRLSLERLVEVMCEKPAKLFGIYPQKGTLQVGSDAD---LLILDLDIDTKV 400



>pdb|1H54|B Chain B, Maltose Phosphorylase From Lactobacillus Brevis
 pdb|1H54|A Chain A, Maltose Phosphorylase From Lactobacillus Brevis
          Length = 754

 Score = 24.3 bits (51), Expect = 5.1
 Identities = 12/48 (25%), Positives = 22/48 (45%)

Query: 63  RMDKDAKIYIDSQTYEYNSFPDTFNLLSKKYDKDTRVSIRADKRLTYD 110
           ++D+D    +D    E   + D  + +   YDKD  + ++ D  L  D
Sbjct: 515 KVDQDTAKQLDVSDEEKTKWQDIVDRMYLPYDKDLNIFVQHDGFLDKD 562



>pdb|1IAI|L Chain L, Idiotype-Anti-Idiotype Fab Complex
          Length = 214

 Score = 23.9 bits (50), Expect = 6.7
 Identities = 17/67 (25%), Positives = 30/67 (44%), Gaps = 6/67 (8%)

Query: 49  SKTARATQDKMIEI-----RMDKDAKIYIDSQTYEYNSFPDTFNLLSKKYDKDTRV-SIR 102
           S T +A+QD    +     +  +  K+ I S +Y+Y   PD F     + D    + S++
Sbjct: 20  SITCKASQDVSTAVAWYQQKPGQSPKLLIYSASYQYTGVPDRFTGSGSRTDFTFTINSVQ 79

Query: 103 ADKRLTY 109
           A+    Y
Sbjct: 80  AEDLAVY 86



>pdb|1BX4|A Chain A, Structure Of Human Adenosine Kinase At 1.50 Angstroms
          Length = 345

 Score = 23.5 bits (49), Expect = 8.8
 Identities = 11/27 (40%), Positives = 15/27 (54%)

Query: 57  DKMIEIRMDKDAKIYIDSQTYEYNSFP 83
           DK  EI   K A+ ++D+  YE N  P
Sbjct: 93  DKFGEILKRKAAEAHVDAHYYEQNEQP 119



>pdb|1EKE|B Chain B, Crystal Structure Of Class Ii Ribonuclease H (Rnase Hii)
           With Mes Ligand
 pdb|1EKE|A Chain A, Crystal Structure Of Class Ii Ribonuclease H (Rnase Hii)
           With Mes Ligand
          Length = 230

 Score = 23.5 bits (49), Expect = 8.8
 Identities = 17/61 (27%), Positives = 33/61 (53%), Gaps = 2/61 (3%)

Query: 42  EIALPSGSKTARATQDKMIEIRMDKDAKIYIDSQTYEYNSFPDTFNLLSKKYDKDTRVSI 101
           +I + + SK A+   +K+  IR D + +IYID+ +     F D+F    +   K+  ++I
Sbjct: 83  DIEINAFSKVAKNLIEKL-NIR-DDEIEIYIDACSTNTKKFEDSFKDKIEDIIKERNLNI 140

Query: 102 R 102
           +
Sbjct: 141 K 141



  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
   0.317    0.134    0.372 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 735,549
Number of Sequences: 13198
Number of extensions: 25292
Number of successful extensions: 88
Number of sequences better than 10.0: 7
Number of HSP's better than 10.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 84
Number of HSP's gapped (non-prelim): 7
length of query: 133
length of database: 2,899,336
effective HSP length: 78
effective length of query: 55
effective length of database: 1,869,892
effective search space: 102844060
effective search space used: 102844060
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 49 (23.5 bits)