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|15645999|ref|NP_208180.1| hypothetical protein
[Helicobacter pylori 26695]
(60 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|1IXI| Phosphate-Binding Protein Mutant With Asp 56 Re... 24 2.9
pdb|1A40| Phosphate-Binding Protein With Ala 197 Replaced... 24 2.9
pdb|1A55|A Chain A, Phosphate-Binding Protein Mutant A197c ... 24 2.9
pdb|1IXH| Phosphate-Binding Protein (Pbp) Complexed With ... 24 2.9
pdb|1IXG| Phosphate-Binding Protein Mutant With Thr 141 R... 24 3.8
pdb|1LD7|A Chain A, Co-Crystal Structure Of Human Farnesylt... 23 5.0
pdb|1FT2|A Chain A, Co-Crystal Structure Of Protein Farnesy... 23 5.0
pdb|1QBQ|A Chain A, Structure Of Rat Farnesyl Protein Trans... 23 5.0
pdb|1KZO|A Chain A, Protein Farnesyltransferase Complexed W... 23 5.0
pdb|2DOR|A Chain A, Dihydroorotate Dehydrogenase A From Lac... 23 6.5
pdb|1IQ0|A Chain A, Thermus Thermophilus Arginyl-Trna Synth... 23 6.5
pdb|1J7N|B Chain B, Anthrax Toxin Lethal Factor >gi|1697482... 23 8.5
>pdb|1IXI| Phosphate-Binding Protein Mutant With Asp 56 Replaced By Asn
Complex With Monobasic Phosphate Ion
Length = 321
Score = 24.3 bits (51), Expect = 2.9
Identities = 13/36 (36%), Positives = 20/36 (55%)
Query: 15 IKQLEEVRNQKLNKALELCKQSGLFLRKFDGKNFSF 50
IK+ ++ KLN L+L Q+ +R+ DG SF
Sbjct: 108 IKKWDDEAIAKLNPGLKLPSQNIAVVRRADGSGTSF 143
>pdb|1A40| Phosphate-Binding Protein With Ala 197 Replaced With Trp
Length = 321
Score = 24.3 bits (51), Expect = 2.9
Identities = 13/36 (36%), Positives = 20/36 (55%)
Query: 15 IKQLEEVRNQKLNKALELCKQSGLFLRKFDGKNFSF 50
IK+ ++ KLN L+L Q+ +R+ DG SF
Sbjct: 108 IKKWDDEAIAKLNPGLKLPSQNIAVVRRADGSGTSF 143
>pdb|1A55|A Chain A, Phosphate-Binding Protein Mutant A197c
pdb|1A54|A Chain A, Phosphate-Binding Protein Mutant A197c Labelled With A
Coumarin Fluorophore And Bound To Dihydrogenphosphate
Ion
Length = 321
Score = 24.3 bits (51), Expect = 2.9
Identities = 13/36 (36%), Positives = 20/36 (55%)
Query: 15 IKQLEEVRNQKLNKALELCKQSGLFLRKFDGKNFSF 50
IK+ ++ KLN L+L Q+ +R+ DG SF
Sbjct: 108 IKKWDDEAIAKLNPGLKLPSQNIAVVRRADGSGTSF 143
>pdb|1IXH| Phosphate-Binding Protein (Pbp) Complexed With Phosphate
pdb|2ABH| Phosphate-Binding Protein (Re-Refined)
Length = 321
Score = 24.3 bits (51), Expect = 2.9
Identities = 13/36 (36%), Positives = 20/36 (55%)
Query: 15 IKQLEEVRNQKLNKALELCKQSGLFLRKFDGKNFSF 50
IK+ ++ KLN L+L Q+ +R+ DG SF
Sbjct: 108 IKKWDDEAIAKLNPGLKLPSQNIAVVRRADGSGTSF 143
>pdb|1IXG| Phosphate-Binding Protein Mutant With Thr 141 Replaced By Asp
(T141d), Complexed With Phospate
pdb|1PBP| Title: Phosphate-Binding Protein (Mutant With Thr 141 Replaced By
Asp) Complexed With Monobasic Phosphate Ion. Molecule:
Phosphate-Binding Protein Substitution_mutations: (
Native_residue: Thr () 141() Mutant_residue: Asp ()
141() ) Heterogen: Monobasic Phosphate
pdb|1OIB|A Chain A, Phosphate-Binding Protein Mutant T141d
pdb|1OIB|B Chain B, Phosphate-Binding Protein Mutant T141d
Length = 321
Score = 23.9 bits (50), Expect = 3.8
Identities = 13/36 (36%), Positives = 20/36 (55%)
Query: 15 IKQLEEVRNQKLNKALELCKQSGLFLRKFDGKNFSF 50
IK+ ++ KLN L+L Q+ +R+ DG SF
Sbjct: 108 IKKWDDEAIAKLNPGLKLPSQNIAVVRRADGSGDSF 143
>pdb|1LD7|A Chain A, Co-Crystal Structure Of Human Farnesyltransferase With
Farnesyldiphosphate And Inhibitor Compound 66
pdb|1LD8|A Chain A, Co-Crystal Structure Of Human Farnesyltransferase With
Farnesyldiphosphate And Inhibitor Compound 49
pdb|1JCQ|A Chain A, Crystal Structure Of Human Protein Farnesyltransferase
Complexed With Farnesyl Diphosphate And The
Peptidomimetic Inhibitor L-739,750
Length = 382
Score = 23.5 bits (49), Expect = 5.0
Identities = 12/30 (40%), Positives = 17/30 (56%), Gaps = 4/30 (13%)
Query: 5 ETYEAYLDTNIKQLEEVRNQKLNKALELCK 34
+ YE L+ E++ LNKALELC+
Sbjct: 317 DIYEDMLENQCDNKEDI----LNKALELCE 342
>pdb|1FT2|A Chain A, Co-Crystal Structure Of Protein Farnesyltransferase
Complexed With A Farnesyl Diphosphate Substrate
Length = 315
Score = 23.5 bits (49), Expect = 5.0
Identities = 12/30 (40%), Positives = 17/30 (56%), Gaps = 4/30 (13%)
Query: 5 ETYEAYLDTNIKQLEEVRNQKLNKALELCK 34
+ YE L+ E++ LNKALELC+
Sbjct: 263 DIYEDMLENQCDNKEDI----LNKALELCE 288
>pdb|1QBQ|A Chain A, Structure Of Rat Farnesyl Protein Transferase Complexed
With A Cvim Peptide And Alpha-Hydroxyfarnesylphosphonic
Acid
Length = 333
Score = 23.5 bits (49), Expect = 5.0
Identities = 12/30 (40%), Positives = 17/30 (56%), Gaps = 4/30 (13%)
Query: 5 ETYEAYLDTNIKQLEEVRNQKLNKALELCK 34
+ YE L+ E++ LNKALELC+
Sbjct: 273 DIYEDMLENQCDNKEDI----LNKALELCE 298
>pdb|1KZO|A Chain A, Protein Farnesyltransferase Complexed With Farnesylated K-
Ras4b Peptide Product And Farnesyl Diphosphate Substrate
Bound Simultaneously
pdb|1KZP|A Chain A, Protein Farnesyltransferase Complexed With A Farnesylated
K- Ras4b Peptide Product
pdb|1D8D|A Chain A, Co-Crystal Structure Of Rat Protein Farnesyltransferase
Complexed With A K-Ras4b Peptide Substrate And Fpp
Analog At 2.0a Resolution
pdb|1JCR|A Chain A, Crystal Structure Of Rat Protein Farnesyltransferase
Complexed With The Non-Substrate Tetrapeptide Inhibitor
Cvfm And Farnesyl Diphosphate Substrate
pdb|1JCS|A Chain A, Crystal Structure Of Rat Protein Farnesyltransferase
Complexed With The Peptide Substrate Tkcvfm And An
Analog Of Farnesyl Diphosphate
pdb|1D8E|A Chain A, Zinc-Depleted Ftase Complexed With K-Ras4b Peptide
Substrate And Fpp Analog.
pdb|1FPP|A Chain A, Protein Farnesyltransferase Complex With Farnesyl
Diphosphate
pdb|1FT1|A Chain A, Crystal Structure Of Protein Farnesyltransferase At 2.25
Angstroms Resolution
Length = 377
Score = 23.5 bits (49), Expect = 5.0
Identities = 12/30 (40%), Positives = 17/30 (56%), Gaps = 4/30 (13%)
Query: 5 ETYEAYLDTNIKQLEEVRNQKLNKALELCK 34
+ YE L+ E++ LNKALELC+
Sbjct: 317 DIYEDMLENQCDNKEDI----LNKALELCE 342
>pdb|2DOR|A Chain A, Dihydroorotate Dehydrogenase A From Lactococcus Lactis
Complexed With Orotate
pdb|2DOR|B Chain B, Dihydroorotate Dehydrogenase A From Lactococcus Lactis
Complexed With Orotate
pdb|1DOR|A Chain A, Dihydroorotate Dehydrogenase A From Lactococcus Lactis
pdb|1DOR|B Chain B, Dihydroorotate Dehydrogenase A From Lactococcus Lactis
Length = 311
Score = 23.1 bits (48), Expect = 6.5
Identities = 10/17 (58%), Positives = 12/17 (69%)
Query: 9 AYLDTNIKQLEEVRNQK 25
A D IK+LEE+ NQK
Sbjct: 280 AIFDRIIKELEEIMNQK 296
>pdb|1IQ0|A Chain A, Thermus Thermophilus Arginyl-Trna Synthetase
Length = 592
Score = 23.1 bits (48), Expect = 6.5
Identities = 16/46 (34%), Positives = 21/46 (44%)
Query: 1 MMTEETYEAYLDTNIKQLEEVRNQKLNKALELCKQSGLFLRKFDGK 46
M T A D + + + VR L KAL L +QS R +GK
Sbjct: 224 MATMHALNARYDLLVWESDIVRAGLLQKALALLEQSPHVFRPREGK 269
>pdb|1J7N|B Chain B, Anthrax Toxin Lethal Factor
pdb|1J7N|A Chain A, Anthrax Toxin Lethal Factor
pdb|1JKY|A Chain A, Crystal Structure Of The Anthrax Lethal Factor (Lf): Wild-
Type Lf Complexed With The N-Terminal Sequence Of Mapkk2
Length = 776
Score = 22.7 bits (47), Expect = 8.5
Identities = 12/28 (42%), Positives = 18/28 (63%)
Query: 11 LDTNIKQLEEVRNQKLNKALELCKQSGL 38
+DT I++ + NQ+ NKAL L K + L
Sbjct: 555 IDTKIQEAQLNINQEWNKALGLPKYTKL 582
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
0.314 0.133 0.374
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 337,086
Number of Sequences: 13198
Number of extensions: 10199
Number of successful extensions: 14
Number of sequences better than 10.0: 12
Number of HSP's better than 10.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 6
Number of HSP's gapped (non-prelim): 12
length of query: 60
length of database: 2,899,336
effective HSP length: 36
effective length of query: 24
effective length of database: 2,424,208
effective search space: 58180992
effective search space used: 58180992
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 47 (22.7 bits)