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|15644807|ref|NP_206977.1| spore coat polysaccharide
biosynthesis protein E [Helicobacter pylori 26695]
         (340 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|1H05|A  Chain A, 3-Dehydroquinate Dehydratase From Mycob...    28  2.0
pdb|1EQB|B  Chain B, X-Ray Crystal Structure At 2.7 Angstrom...    27  3.3
pdb|1DFO|B  Chain B, Crystal Structure At 2.4 Angstrom Resol...    27  3.3
pdb|1F68|A  Chain A, Nmr Solution Structure Of The Bromodoma...    25  9.7

>pdb|1H05|A Chain A, 3-Dehydroquinate Dehydratase From Mycobacterium
           Tuberculosis In Complex With Sulphate
 pdb|2DHQ|A Chain A, 3-Dehydroquinate Dehydratase From Mycobacterium
           Tuberculosis
          Length = 146

 Score = 27.7 bits (60), Expect = 2.0
 Identities = 15/31 (48%), Positives = 21/31 (67%), Gaps = 2/31 (6%)

Query: 127 LDLIEKAARTQKPIILSSGIATHTE--LQDA 155
           LD I +AA   +P+IL++G  THT   L+DA
Sbjct: 59  LDWIHQAADAAEPVILNAGGLTHTSVALRDA 89



>pdb|1EQB|B Chain B, X-Ray Crystal Structure At 2.7 Angstroms Resolution Of
           Ternary Complex Between The Y65f Mutant Of E-Coli Serine
           Hydroxymethyltransferase, Glycine And 5-Formyl
           Tetrahydrofolate
 pdb|1EQB|A Chain A, X-Ray Crystal Structure At 2.7 Angstroms Resolution Of
           Ternary Complex Between The Y65f Mutant Of E-Coli Serine
           Hydroxymethyltransferase, Glycine And 5-Formyl
           Tetrahydrofolate
 pdb|1EQB|C Chain C, X-Ray Crystal Structure At 2.7 Angstroms Resolution Of
           Ternary Complex Between The Y65f Mutant Of E-Coli Serine
           Hydroxymethyltransferase, Glycine And 5-Formyl
           Tetrahydrofolate
 pdb|1EQB|D Chain D, X-Ray Crystal Structure At 2.7 Angstroms Resolution Of
           Ternary Complex Between The Y65f Mutant Of E-Coli Serine
           Hydroxymethyltransferase, Glycine And 5-Formyl
           Tetrahydrofolate
          Length = 417

 Score = 26.9 bits (58), Expect = 3.3
 Identities = 21/98 (21%), Positives = 42/98 (42%), Gaps = 9/98 (9%)

Query: 113 NCPMYKIASFEIVDLDLIEKAARTQKPIILSSGIATHT---------ELQDAISLCRRVN 163
           N   Y I +   +D   +EK A+  KP ++  G + ++         E+ D+I     V+
Sbjct: 141 NIVPYGIDATGHIDYADLEKQAKEHKPKMIIGGFSAYSGVVDWAKMREIADSIGAYLFVD 200

Query: 164 NFDITLLKCVSAYPSKIEDANLLSMVKLGEIFGVKFGL 201
              +  L     YP+ +  A++++      + G + GL
Sbjct: 201 MAHVAGLVAAGVYPNPVPHAHVVTTTTHKTLAGPRGGL 238



>pdb|1DFO|B Chain B, Crystal Structure At 2.4 Angstrom Resolution Of E. Coli
           Serine Hydroxymethyltransferase In Complex With Glycine
           And 5-Formyl Tetrahydrofolate
 pdb|1DFO|A Chain A, Crystal Structure At 2.4 Angstrom Resolution Of E. Coli
           Serine Hydroxymethyltransferase In Complex With Glycine
           And 5-Formyl Tetrahydrofolate
 pdb|1DFO|D Chain D, Crystal Structure At 2.4 Angstrom Resolution Of E. Coli
           Serine Hydroxymethyltransferase In Complex With Glycine
           And 5-Formyl Tetrahydrofolate
 pdb|1DFO|C Chain C, Crystal Structure At 2.4 Angstrom Resolution Of E. Coli
           Serine Hydroxymethyltransferase In Complex With Glycine
           And 5-Formyl Tetrahydrofolate
          Length = 417

 Score = 26.9 bits (58), Expect = 3.3
 Identities = 21/98 (21%), Positives = 42/98 (42%), Gaps = 9/98 (9%)

Query: 113 NCPMYKIASFEIVDLDLIEKAARTQKPIILSSGIATHT---------ELQDAISLCRRVN 163
           N   Y I +   +D   +EK A+  KP ++  G + ++         E+ D+I     V+
Sbjct: 141 NIVPYGIDATGHIDYADLEKQAKEHKPKMIIGGFSAYSGVVDWAKMREIADSIGAYLFVD 200

Query: 164 NFDITLLKCVSAYPSKIEDANLLSMVKLGEIFGVKFGL 201
              +  L     YP+ +  A++++      + G + GL
Sbjct: 201 MAHVAGLVAAGVYPNPVPHAHVVTTTTHKTLAGPRGGL 238



>pdb|1F68|A Chain A, Nmr Solution Structure Of The Bromodomain From Human Gcn5
          Length = 103

 Score = 25.4 bits (54), Expect = 9.7
 Identities = 24/93 (25%), Positives = 42/93 (44%), Gaps = 5/93 (5%)

Query: 84  ELFELARKLDLGIFSSPFSSQALELLESLNCP-MYKIASFEIVDLDLIEKAARTQKPIIL 142
           +L+   + L   I S P +   +E ++    P  Y++  F I DL  + +  R++  +  
Sbjct: 3   QLYTTLKNLLAQIKSHPSAWPFMEPVKKSEAPDYYEVIRFPI-DLKTMTERLRSRYYVTR 61

Query: 143 SSGIATHTELQDAISLCRRVNNFDITLLKCVSA 175
              +A   +LQ  I+ CR  N  D    +C SA
Sbjct: 62  KLFVA---DLQRVIANCREYNPPDSEYCRCASA 91



  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
   0.318    0.134    0.378 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,756,426
Number of Sequences: 13198
Number of extensions: 64861
Number of successful extensions: 142
Number of sequences better than 10.0: 4
Number of HSP's better than 10.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 141
Number of HSP's gapped (non-prelim): 4
length of query: 340
length of database: 2,899,336
effective HSP length: 89
effective length of query: 251
effective length of database: 1,724,714
effective search space: 432903214
effective search space used: 432903214
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (25.4 bits)