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|15645424|ref|NP_207598.1| lipooligosaccharide 5G8
epitope biosynthesis-associated protein (lex2B) [Helicobacter pylori
26695]
(284 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|1BF2| Structure Of Pseudomonas Isoamylase 29 0.54
pdb|1L9U|H Chain H, Thermus Aquaticus Rna Polymerase Holoen... 26 5.9
pdb|1KU2|A Chain A, Crystal Structure Of Thermus Aquaticus ... 26 5.9
pdb|1L9Z|H Chain H, Thermus Aquaticus Rna Polymerase Holoen... 26 5.9
>pdb|1BF2| Structure Of Pseudomonas Isoamylase
Length = 750
Score = 29.3 bits (64), Expect = 0.54
Identities = 13/39 (33%), Positives = 20/39 (50%), Gaps = 3/39 (7%)
Query: 204 WVMPIDCVMDRHYWHGVKNYVLEEFAIACDGMNAQNSNT 242
W P V D +YW+ NY + A A +G + +SN+
Sbjct: 645 WYQPSGAVADSNYWNNTSNYAI---AYAINGPSLGDSNS 680
>pdb|1L9U|H Chain H, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
Resolution
pdb|1L9U|Q Chain Q, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
Resolution
Length = 332
Score = 25.8 bits (55), Expect = 5.9
Identities = 12/55 (21%), Positives = 26/55 (46%)
Query: 143 RHHINELGYIRLMHLEENVAKQKTPVKGVSQILNFKDGIGTQGYVLAPKAAQKLL 197
R +++E+G + L+ LEE + + +G+ I + G ++ K+L
Sbjct: 6 RQYLHEIGQVPLLTLEEEIDLARKVEEGMEAIKKLSEATGLDQELIREVVRAKIL 60
>pdb|1KU2|A Chain A, Crystal Structure Of Thermus Aquaticus Rna Polymerase
Sigma Subunit Fragment Containing Regions 1.2 To 3.1
pdb|1KU2|B Chain B, Crystal Structure Of Thermus Aquaticus Rna Polymerase
Sigma Subunit Fragment Containing Regions 1.2 To 3.1
Length = 241
Score = 25.8 bits (55), Expect = 5.9
Identities = 12/55 (21%), Positives = 26/55 (46%)
Query: 143 RHHINELGYIRLMHLEENVAKQKTPVKGVSQILNFKDGIGTQGYVLAPKAAQKLL 197
R +++E+G + L+ LEE + + +G+ I + G ++ K+L
Sbjct: 6 RQYLHEIGQVPLLTLEEEIDLARKVEEGMEAIKKLSEATGLDQELIREVVRAKIL 60
>pdb|1L9Z|H Chain H, Thermus Aquaticus Rna Polymerase HoloenzymeFORK-Junction
Promoter Dna Complex At 6.5 A Resolution
Length = 438
Score = 25.8 bits (55), Expect = 5.9
Identities = 12/55 (21%), Positives = 26/55 (46%)
Query: 143 RHHINELGYIRLMHLEENVAKQKTPVKGVSQILNFKDGIGTQGYVLAPKAAQKLL 197
R +++E+G + L+ LEE + + +G+ I + G ++ K+L
Sbjct: 97 RQYLHEIGQVPLLTLEEEIDLARKVEEGMEAIKKLSEATGLDQELIREVVRAKIL 151
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 0.140 0.439
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,700,647
Number of Sequences: 13198
Number of extensions: 67855
Number of successful extensions: 157
Number of sequences better than 10.0: 4
Number of HSP's better than 10.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 153
Number of HSP's gapped (non-prelim): 4
length of query: 284
length of database: 2,899,336
effective HSP length: 87
effective length of query: 197
effective length of database: 1,751,110
effective search space: 344968670
effective search space used: 344968670
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 54 (25.4 bits)