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|15645754|ref|NP_207931.1| biotin operon
repressor/biotin acetyl coenzyme A carboxylase synthetase (birA)
[Helicobacter pylori 26695]
(212 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|1HXD|A Chain A, Crystal Structure Of E. Coli Biotin Rep... 62 6e-11
pdb|1FIY| Three-Dimensional Structure Of Phosphoenolpyruv... 26 3.9
pdb|1QS0|B Chain B, Crystal Structure Of Pseudomonas Putida... 25 5.1
pdb|1SBB|D Chain D, T-Cell Receptor Beta Chain Complexed Wi... 25 8.8
pdb|1GOZ|A Chain A, Structural Basis For The Altered T-Cell... 25 8.8
pdb|1SEB|D Chain D, Complex Of The Human Mhc Class Ii Glyco... 25 8.8
pdb|3SEB| Staphylococcal Enterotoxin B 25 8.8
>pdb|1HXD|A Chain A, Crystal Structure Of E. Coli Biotin Repressor With Bound
Biotin
pdb|1HXD|B Chain B, Crystal Structure Of E. Coli Biotin Repressor With Bound
Biotin
pdb|1BIA| Bira Bifunctional Protein (Acts As Biotin Operon Repressor And
Biotin Holoenzyme Synthetase) (E.C.6.3.4.15)
pdb|1BIB| Bira Bifunctional Protein (Acts As Biotin Operon Repressor And
Biotin Holoenzyme Synthetase) (E.C.6.3.4.15) Complex
With Biotinylated Lysine
Length = 321
Score = 61.6 bits (148), Expect = 6e-11
Identities = 47/136 (34%), Positives = 71/136 (51%), Gaps = 13/136 (9%)
Query: 8 VFDSLPSTQTYLLEKLKSNELKAPILIVAKNQSAGIGSRGNIWEGAKSALTFSLALNASD 67
V + ST YLL+++ ELK+ +A+ Q AG G RG W A +L L+
Sbjct: 83 VLPVIDSTNQYLLDRI--GELKSGDACIAEYQQAGRGRRGRKWFSPFGA---NLYLSMFW 137
Query: 68 LPKDLPMQANALYL--GFLFKEVLKELGS-QTWLKWPNDLYLEDQKIGGVLVNVY----- 119
+ P A L L G + EVL++LG+ + +KWPNDLYL+D+K+ G+LV +
Sbjct: 138 RLEQGPAAAIGLSLVIGIVMAEVLRKLGADKVRVKWPNDLYLQDRKLAGILVELTGKTGD 197
Query: 120 KDMRVCGIGVNRVSKK 135
V G G+N ++
Sbjct: 198 AAQIVIGAGINMAMRR 213
>pdb|1FIY| Three-Dimensional Structure Of Phosphoenolpyruvate Carboxylase
From Escherichia Coli At 2.8 A Resolution
pdb|1QB4|A Chain A, Crystal Structure Of Mn(2+)-Bound Phosphoenolpyruvate
Carboxylase
Length = 883
Score = 25.8 bits (55), Expect = 3.9
Identities = 28/118 (23%), Positives = 47/118 (39%), Gaps = 21/118 (17%)
Query: 2 RQCEKRVFDSLPSTQTYLLEKLKSNELKAPILIVAKN--------------QSAGIG--S 45
R K + L +TQ +L +LK EL P ++ +N Q+ G+G +
Sbjct: 313 RYLMKNLRSRLMATQAWLEARLKGEELPKPEGLLTQNEELWEPLYACYQSLQACGMGIIA 372
Query: 46 RGNIWEGAKSALTFSLALNASDLPKDLPMQANAL-----YLGFLFKEVLKELGSQTWL 98
G++ + + F + L D+ ++ AL YLG E E Q +L
Sbjct: 373 NGDLLDTLRRVKCFGVPLVRIDIRQESTRHTEALGELTRYLGIGDYESWSEADKQAFL 430
>pdb|1QS0|B Chain B, Crystal Structure Of Pseudomonas Putida 2-Oxoisovalerate
Dehydrogenase (Branched-Chain Alpha-Keto Acid
Dehydrogenase E1b)
Length = 338
Score = 25.4 bits (54), Expect = 5.1
Identities = 15/36 (41%), Positives = 18/36 (49%), Gaps = 2/36 (5%)
Query: 100 WPNDL--YLEDQKIGGVLVNVYKDMRVCGIGVNRVS 133
WP DL +E K G V V++ R CG G VS
Sbjct: 254 WPLDLDTIVESVKKTGRCVVVHEATRTCGFGAELVS 289
>pdb|1SBB|D Chain D, T-Cell Receptor Beta Chain Complexed With Superantigen Seb
pdb|1SE4| Staphylococcal Enterotoxin B Complexed With Lactose
pdb|1SE3| Staphylococcal Enterotoxin B Complexed With Gm3 Trisaccharide
pdb|1SBB|B Chain B, T-Cell Receptor Beta Chain Complexed With Superantigen Seb
pdb|1D5Z|C Chain C, X-Ray Crystal Structure Of Hla-Dr4 Complexed With
Peptidomimetic And Seb
pdb|1D5M|C Chain C, X-Ray Crystal Structure Of Hla-Dr4 Complexed With Peptide
And Seb
pdb|1D5X|C Chain C, X-Ray Crystal Structure Of Hla-Dr4 Complexed With
Dipeptide Mimetic And Seb
pdb|1D6E|C Chain C, Crystal Structure Of Hla-Dr4 Complex With Peptidomimetic
And Seb
pdb|2SEB|D Chain D, X-Ray Crystal Structure Of Hla-Dr4 Complexed With A
Peptide From Human Collagen Ii
Length = 239
Score = 24.6 bits (52), Expect = 8.8
Identities = 14/47 (29%), Positives = 26/47 (54%), Gaps = 2/47 (4%)
Query: 151 GFLKKIE-ENLFWGEVLSKYALEFHRSNSFSFHNDWGEAMSLKDAEL 196
G++K IE EN FW +++ +F +S +ND + + KD ++
Sbjct: 185 GYIKFIENENSFWYDMMPAPGDKFDQSKYLMMYND-NKMVDSKDVKI 230
>pdb|1GOZ|A Chain A, Structural Basis For The Altered T-Cell Receptor Binding
Specificty In A Superantigenic Staphylococcus Aureus
Enterotoxin-B Mutant
pdb|1GOZ|B Chain B, Structural Basis For The Altered T-Cell Receptor Binding
Specificty In A Superantigenic Staphylococcus Aureus
Enterotoxin-B Mutant
Length = 239
Score = 24.6 bits (52), Expect = 8.8
Identities = 14/47 (29%), Positives = 26/47 (54%), Gaps = 2/47 (4%)
Query: 151 GFLKKIE-ENLFWGEVLSKYALEFHRSNSFSFHNDWGEAMSLKDAEL 196
G++K IE EN FW +++ +F +S +ND + + KD ++
Sbjct: 185 GYIKFIENENSFWYDMMPAPGDKFDQSKYLMMYND-NKMVDSKDVKI 230
>pdb|1SEB|D Chain D, Complex Of The Human Mhc Class Ii Glycoprotein Hla-Dr1 And
The Bacterial Superantigen Seb
pdb|1SEB|H Chain H, Complex Of The Human Mhc Class Ii Glycoprotein Hla-Dr1 And
The Bacterial Superantigen Seb
Length = 206
Score = 24.6 bits (52), Expect = 8.8
Identities = 14/47 (29%), Positives = 26/47 (54%), Gaps = 2/47 (4%)
Query: 151 GFLKKIE-ENLFWGEVLSKYALEFHRSNSFSFHNDWGEAMSLKDAEL 196
G++K IE EN FW +++ +F +S +ND + + KD ++
Sbjct: 156 GYIKFIENENSFWYDMMPAPGDKFDQSKYLMMYND-NKMVDSKDVKI 201
>pdb|3SEB| Staphylococcal Enterotoxin B
Length = 238
Score = 24.6 bits (52), Expect = 8.8
Identities = 14/47 (29%), Positives = 26/47 (54%), Gaps = 2/47 (4%)
Query: 151 GFLKKIE-ENLFWGEVLSKYALEFHRSNSFSFHNDWGEAMSLKDAEL 196
G++K IE EN FW +++ +F +S +ND + + KD ++
Sbjct: 185 GYIKFIENENSFWYDMMPAPGDKFDQSKYLMMYND-NKMVDSKDVKI 230
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
0.319 0.138 0.415
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,220,177
Number of Sequences: 13198
Number of extensions: 48050
Number of successful extensions: 185
Number of sequences better than 10.0: 7
Number of HSP's better than 10.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 183
Number of HSP's gapped (non-prelim): 7
length of query: 212
length of database: 2,899,336
effective HSP length: 84
effective length of query: 128
effective length of database: 1,790,704
effective search space: 229210112
effective search space used: 229210112
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.6 bits)