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|15645137|ref|NP_207307.1| dihydrodipicolinate
reductase (dapB) [Helicobacter pylori 26695]
         (254 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|1ARZ|D  Chain D, Escherichia Coli Dihydrodipicolinate Re...   124  1e-29
pdb|1QNF|    Structure Of Photolyase                               27  3.0
pdb|1M7V|A  Chain A, Structure Of A Nitric Oxide Synthase He...    27  3.0
pdb|1M7Z|A  Chain A, Structure Of Nitric Oxide Synthase Heme...    27  3.0

>pdb|1ARZ|D Chain D, Escherichia Coli Dihydrodipicolinate Reductase In Complex
           With Nadh And 2,6 Pyridine Dicarboxylate
 pdb|1ARZ|B Chain B, Escherichia Coli Dihydrodipicolinate Reductase In Complex
           With Nadh And 2,6 Pyridine Dicarboxylate
 pdb|1ARZ|C Chain C, Escherichia Coli Dihydrodipicolinate Reductase In Complex
           With Nadh And 2,6 Pyridine Dicarboxylate
 pdb|1DIH|   Mol_id: 1; Molecule: Dihydrodipicolinate Reductase; Chain: Null;
           Ec: 1.3.1.26; Engineered: Yes
 pdb|1DRW|   Escherichia Coli DhprNHDH COMPLEX
 pdb|1DRU|   Escherichia Coli DhprNADH COMPLEX
 pdb|1DRV|   Escherichia Coli DhprACNADH COMPLEX
 pdb|1ARZ|A Chain A, Escherichia Coli Dihydrodipicolinate Reductase In Complex
           With Nadh And 2,6 Pyridine Dicarboxylate
          Length = 273

 Score =  124 bits (310), Expect = 1e-29
 Identities = 85/268 (31%), Positives = 137/268 (50%), Gaps = 22/268 (8%)

Query: 1   MKIGVYGASGRIGKLLLEELKGGYKGLALSSVFVRQKCETDFSSFSHAPL---------- 50
           +++ + GA GR+G+ L++        LAL  V +    E + SS   +            
Sbjct: 6   IRVAIAGAGGRMGRQLIQA------ALALEGVQLGAALEREGSSLLGSDAGELAGAGKTG 59

Query: 51  --VTNDLKAFVRACECVIDFSLPKGVDNLLEALLECPKILVSGTTGLEKETLEKMQQLAL 108
             V + L A     +  IDF+ P+G  N L    +  K +V GTTG ++   + ++  A 
Sbjct: 60  VTVQSSLDAVKDDFDVFIDFTRPEGTLNHLAFCRQHGKGMVIGTTGFDEAGKQAIRDAAA 119

Query: 109 KAPLLHAHNMSIGIMMLNQLAFLTSLKLKD-ADIEIIETHHNLKKDIPSGTALSLYETCA 167
              ++ A N S+G+ ++ +L    +  + D  DIEIIE HH  K D PSGTAL++ E  A
Sbjct: 120 DIAIVFAANFSVGVNVMLKLLEKAAKVMGDYTDIEIIEAHHRHKVDAPSGTALAMGEAIA 179

Query: 168 KARGYDEKNALITHREGLRSKE---SIGIAALRGGDVAGKHTIGFYLEGEYIELSHTATN 224
            A   D K+  +  REG   +    +IG A +R GD+ G+HT  F   GE +E++H A++
Sbjct: 180 HALDKDLKDCAVYSREGHTGERVPGTIGFATVRAGDIVGEHTAMFADIGERLEITHKASS 239

Query: 225 RSIFAKGALEVALWLKDKAAKKYEINEM 252
           R  FA GA+  ALWL  K +  +++ ++
Sbjct: 240 RMTFANGAVRSALWLSGKESGLFDMRDV 267



>pdb|1QNF|   Structure Of Photolyase
          Length = 484

 Score = 26.6 bits (57), Expect = 3.0
 Identities = 18/58 (31%), Positives = 29/58 (49%), Gaps = 4/58 (6%)

Query: 178 LITHREGLRSKESIGIAALRGGDVAGKHTIG-FYLEGEYIELSHTATNRSIFAKGALE 234
           L  HR  LR  ++IG+AA R         IG F L+ + ++ +  A  R  + +G L+
Sbjct: 6   LFWHRRDLRLSDNIGLAAAR---AQSAQLIGLFCLDPQILQSADMAPARVAYLQGCLQ 60



>pdb|1M7V|A Chain A, Structure Of A Nitric Oxide Synthase Heme Protein From
           Bacillus Subtilis With Tetrahydrofolate And Arginine
           Bound
          Length = 363

 Score = 26.6 bits (57), Expect = 3.0
 Identities = 33/119 (27%), Positives = 53/119 (43%), Gaps = 15/119 (12%)

Query: 46  SHAPLVTNDLKAFVRACECVIDFSLPKGVDNLLEALLECPKILVSGTTGLEKETLEKMQQ 105
           SH  ++ N+ KAF+   EC  +    + V + L+++    +I  +G+    KE LE   +
Sbjct: 2   SHMEILWNEAKAFI--AECYQELGKEEEVKDRLDSIKS--EIDRTGSYVHTKEELEHGAK 57

Query: 106 LALKAPLLHAHNMSIGIMMLNQLAFL------TSLKLKDADIEIIETHHNLKKDIPSGT 158
           +A +       N  IG +  N L  +      T   ++DA    IET  N  K  PS T
Sbjct: 58  MAWR-----NSNRCIGRLFWNSLNVIDRRDVRTKEDVRDALFHHIETATNNGKIRPSIT 111



>pdb|1M7Z|A Chain A, Structure Of Nitric Oxide Synthase Heme Protein From
           Bacillus Subtilis With N-Hydroxy-Arginine And
           Tetrahydrofolate Bound
          Length = 361

 Score = 26.6 bits (57), Expect = 3.0
 Identities = 33/119 (27%), Positives = 53/119 (43%), Gaps = 15/119 (12%)

Query: 46  SHAPLVTNDLKAFVRACECVIDFSLPKGVDNLLEALLECPKILVSGTTGLEKETLEKMQQ 105
           SH  ++ N+ KAF+   EC  +    + V + L+++    +I  +G+    KE LE   +
Sbjct: 2   SHMEILWNEAKAFI--AECYQELGKEEEVKDRLDSIKS--EIDRTGSYVHTKEELEHGAK 57

Query: 106 LALKAPLLHAHNMSIGIMMLNQLAFL------TSLKLKDADIEIIETHHNLKKDIPSGT 158
           +A +       N  IG +  N L  +      T   ++DA    IET  N  K  PS T
Sbjct: 58  MAWR-----NSNRCIGRLFWNSLNVIDRRDVRTKEDVRDALFHHIETATNNGKIRPSIT 111



  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    0.136    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: 1,395,070
Number of Sequences: 13198
Number of extensions: 54025
Number of successful extensions: 148
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: 145
Number of HSP's gapped (non-prelim): 4
length of query: 254
length of database: 2,899,336
effective HSP length: 86
effective length of query: 168
effective length of database: 1,764,308
effective search space: 296403744
effective search space used: 296403744
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: 53 (25.0 bits)