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|15645209|ref|NP_207379.1| flagellar switch protein
(fliN) [Helicobacter pylori 26695]
         (123 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|1E5W|A  Chain A, Structure Of Isolated Ferm Domain And F...    29  0.13
pdb|1I84|S  Chain S, Cryo-Em Structure Of The Heavy Meromyos...    25  2.5
pdb|1GV9|A  Chain A, P58ERGIC-53                                   25  2.5
pdb|1GPM|A  Chain A, Escherichia Coli Gmp Synthetase Complex...    24  4.3

>pdb|1E5W|A Chain A, Structure Of Isolated Ferm Domain And First Long Helix Of
           Moesin
          Length = 346

 Score = 29.3 bits (64), Expect = 0.13
 Identities = 13/24 (54%), Positives = 17/24 (70%)

Query: 1   MSETEANKLKVAEKEKEKANKERE 24
           M E E  K ++AEKEKEK  +E+E
Sbjct: 322 MLENEKKKREMAEKEKEKIEREKE 345



>pdb|1I84|S Chain S, Cryo-Em Structure Of The Heavy Meromyosin Subfragment Of
           Chicken Gizzard Smooth Muscle Myosin With Regulatory
           Light Chain In The Dephosphorylated State. Only C Alphas
           Provided For Regulatory Light Chain. Only Backbone Atoms
           Provided For S2 Fragment.
 pdb|1I84|V Chain V, Cryo-Em Structure Of The Heavy Meromyosin Subfragment Of
           Chicken Gizzard Smooth Muscle Myosin With Regulatory
           Light Chain In The Dephosphorylated State. Only C Alphas
           Provided For Regulatory Light Chain. Only Backbone Atoms
           Provided For S2 Fragment
          Length = 1184

 Score = 25.0 bits (53), Expect = 2.5
 Identities = 15/47 (31%), Positives = 25/47 (52%), Gaps = 6/47 (12%)

Query: 12  AEKEKEKANKERELELSTYLEEL------ICDYKNLLDMEIVFSAEL 52
           A+ E+ +  KER+ +    L+EL      +C+ KNLL  ++    EL
Sbjct: 861 AKDEELQRTKERQQKAEAELKELEQKHTQLCEEKNLLQEKLQAETEL 907



>pdb|1GV9|A Chain A, P58ERGIC-53
          Length = 260

 Score = 25.0 bits (53), Expect = 2.5
 Identities = 14/40 (35%), Positives = 22/40 (55%)

Query: 56  QIPLLQILRFEKGSVIDLQKPAGESVDTFVNGRVIGKGEV 95
           QI +   L+ ++GSV    K A E+ +  V  RV G+G +
Sbjct: 63  QIRIAPSLKSQRGSVWTKTKAAFENWEVEVTFRVTGRGRI 102



>pdb|1GPM|A Chain A, Escherichia Coli Gmp Synthetase Complexed With Amp And
           Pyrophosphate
 pdb|1GPM|C Chain C, Escherichia Coli Gmp Synthetase Complexed With Amp And
           Pyrophosphate
 pdb|1GPM|B Chain B, Escherichia Coli Gmp Synthetase Complexed With Amp And
           Pyrophosphate
 pdb|1GPM|D Chain D, Escherichia Coli Gmp Synthetase Complexed With Amp And
           Pyrophosphate
          Length = 525

 Score = 24.3 bits (51), Expect = 4.3
 Identities = 14/39 (35%), Positives = 18/39 (45%)

Query: 70  VIDLQKPAGESVDTFVNGRVIGKGEVMVFERNLAIRLNE 108
           ++ L      SV   +  R IGK    VF  N  +RLNE
Sbjct: 231 ILGLSGGVDSSVTAMLLHRAIGKNLTCVFVDNGLLRLNE 269



  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
   0.313    0.134    0.347 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 606,441
Number of Sequences: 13198
Number of extensions: 22629
Number of successful extensions: 27
Number of sequences better than 10.0: 4
Number of HSP's better than 10.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 24
Number of HSP's gapped (non-prelim): 4
length of query: 123
length of database: 2,899,336
effective HSP length: 77
effective length of query: 46
effective length of database: 1,883,090
effective search space: 86622140
effective search space used: 86622140
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 48 (23.1 bits)