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|15645075|ref|NP_207245.1| conserved hypothetical
protein [Helicobacter pylori 26695]
(360 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|1JFL|A Chain A, Crystal Structure Determination Of Aspa... 28 1.6
pdb|1LD7|A Chain A, Co-Crystal Structure Of Human Farnesylt... 28 2.1
pdb|1FT2|A Chain A, Co-Crystal Structure Of Protein Farnesy... 28 2.1
pdb|1QBQ|A Chain A, Structure Of Rat Farnesyl Protein Trans... 28 2.1
pdb|1KZO|A Chain A, Protein Farnesyltransferase Complexed W... 28 2.1
pdb|1FJ7|A Chain A, Solution Structure Of Nucleolin Rbd1 27 2.8
pdb|1FJE|B Chain B, Solution Structure Of Nucleolin Rbd12 I... 26 6.2
pdb|1G4B|E Chain E, Crystal Structures Of The Hslvu Peptida... 26 8.0
pdb|1DO2|A Chain A, Trigonal Crystal Form Of Heat Shock Loc... 26 8.0
pdb|1DNV| Parvovirus (Densovirus) From Galleria Mellonella 26 8.0
pdb|1HT1|E Chain E, Nucleotide-Dependent Conformational Cha... 26 8.0
>pdb|1JFL|A Chain A, Crystal Structure Determination Of Aspartate Racemase From
An Archaea
pdb|1JFL|B Chain B, Crystal Structure Determination Of Aspartate Racemase From
An Archaea
Length = 228
Score = 28.1 bits (61), Expect = 1.6
Identities = 17/54 (31%), Positives = 29/54 (53%), Gaps = 8/54 (14%)
Query: 125 DEIEKALKDSMFKKLKERAQKLKELDGKECFITLNMQYGMHPLLGELVSDVFYK 178
++I KA+K + ++E A+K+KEL K+ G+ G +VS V+ K
Sbjct: 90 EDIRKAIKIPIISMIEETAKKVKELGFKKA--------GLLATTGTIVSGVYEK 135
>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 = 27.7 bits (60), Expect = 2.1
Identities = 29/120 (24%), Positives = 55/120 (45%), Gaps = 12/120 (10%)
Query: 25 LEYISVLERTPWDLESLLRDYNFVFSNTTGQHNQALERKETPYFDSVIV----DEAAKAN 80
L+Y+ L + S+ FV SNTTG +++A+ +E Y +I +E+A
Sbjct: 220 LQYVDQLLKEDVRNNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLVPHNESAWNY 279
Query: 81 PLELLMVMALAK-----ERIILVGDDRQLPH---YLDDEIGKKLEDESQDAQDEIEKALK 132
+L L+K +++ + P+ +L D LE++ + +D + KAL+
Sbjct: 280 LKGILQDRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKEDILNKALE 339
>pdb|1FT2|A Chain A, Co-Crystal Structure Of Protein Farnesyltransferase
Complexed With A Farnesyl Diphosphate Substrate
Length = 315
Score = 27.7 bits (60), Expect = 2.1
Identities = 14/43 (32%), Positives = 23/43 (52%)
Query: 25 LEYISVLERTPWDLESLLRDYNFVFSNTTGQHNQALERKETPY 67
L+Y+ L + S+ +FV SNTTG ++A+ +E Y
Sbjct: 166 LQYVDQLLKEDVRNNSVWNQRHFVISNTTGYSDRAVLEREVQY 208
>pdb|1QBQ|A Chain A, Structure Of Rat Farnesyl Protein Transferase Complexed
With A Cvim Peptide And Alpha-Hydroxyfarnesylphosphonic
Acid
Length = 333
Score = 27.7 bits (60), Expect = 2.1
Identities = 14/43 (32%), Positives = 23/43 (52%)
Query: 25 LEYISVLERTPWDLESLLRDYNFVFSNTTGQHNQALERKETPY 67
L+Y+ L + S+ +FV SNTTG ++A+ +E Y
Sbjct: 176 LQYVDQLLKEDVRNNSVWNQRHFVISNTTGYSDRAVLEREVQY 218
>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 = 27.7 bits (60), Expect = 2.1
Identities = 14/43 (32%), Positives = 23/43 (52%)
Query: 25 LEYISVLERTPWDLESLLRDYNFVFSNTTGQHNQALERKETPY 67
L+Y+ L + S+ +FV SNTTG ++A+ +E Y
Sbjct: 220 LQYVDQLLKEDVRNNSVWNQRHFVISNTTGYSDRAVLEREVQY 262
>pdb|1FJ7|A Chain A, Solution Structure Of Nucleolin Rbd1
Length = 101
Score = 27.3 bits (59), Expect = 2.8
Identities = 19/75 (25%), Positives = 32/75 (42%), Gaps = 3/75 (4%)
Query: 271 KGYANLEIGTVDSFQGKEFDVVFLSSVRTRHTEGFGFLKISSCLCVALSRQKRALIVAGD 330
K A L++ + F + VV VRT FG++ S + + + L V G+
Sbjct: 29 KSVAELKVAISELFAKNDLAVV---DVRTGTNRKFGYVDFESAEDLEKALELTGLKVFGN 85
Query: 331 REKFDTPESKDKVSG 345
K + P+ +D G
Sbjct: 86 EIKLEKPKGRDGTRG 100
>pdb|1FJE|B Chain B, Solution Structure Of Nucleolin Rbd12 In Complex With Snre
Rna
Length = 175
Score = 26.2 bits (56), Expect = 6.2
Identities = 18/71 (25%), Positives = 31/71 (43%), Gaps = 3/71 (4%)
Query: 271 KGYANLEIGTVDSFQGKEFDVVFLSSVRTRHTEGFGFLKISSCLCVALSRQKRALIVAGD 330
K A L++ + F + VV VRT FG++ S + + + L V G+
Sbjct: 25 KSVAELKVAISELFAKNDLAVV---DVRTGTNRKFGYVDFESAEDLEKALELTGLKVFGN 81
Query: 331 REKFDTPESKD 341
K + P+ +D
Sbjct: 82 EIKLEKPKGRD 92
>pdb|1G4B|E Chain E, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4B|F Chain F, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4B|K Chain K, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4B|L Chain L, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4A|E Chain E, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4A|F Chain F, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
Length = 443
Score = 25.8 bits (55), Expect = 8.0
Identities = 30/115 (26%), Positives = 48/115 (41%), Gaps = 13/115 (11%)
Query: 17 NDKRIRVLLEY--ISVLERTPWDLESLLRDYNFVFSNTTGQHNQALERKETPYFDSVIVD 74
+DK I + L + V P +E + +F N GQ +A + K +I +
Sbjct: 169 DDKEIEIDLAAAPMGVEIMAPPGMEEMTSQLQSMFQNLGGQKQKARKLKIKDAMKLLIEE 228
Query: 75 EAAK-ANPLELLM--VMALAKERIILVGDDRQLPHYLDDEIGKKLEDESQDAQDE 126
EAAK NP EL + A+ + I+ + + D+I K+ E D E
Sbjct: 229 EAAKLVNPEELKQDAIDAVEQHGIVFIDE--------IDKICKRGESSGPDVSRE 275
>pdb|1DO2|A Chain A, Trigonal Crystal Form Of Heat Shock Locus U (Hslu) From
Escherichia Coli
pdb|1DO2|B Chain B, Trigonal Crystal Form Of Heat Shock Locus U (Hslu) From
Escherichia Coli
pdb|1DO2|C Chain C, Trigonal Crystal Form Of Heat Shock Locus U (Hslu) From
Escherichia Coli
pdb|1DO2|D Chain D, Trigonal Crystal Form Of Heat Shock Locus U (Hslu) From
Escherichia Coli
pdb|1DO0|A Chain A, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
pdb|1DO0|B Chain B, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
pdb|1DO0|C Chain C, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
pdb|1DO0|D Chain D, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
pdb|1DO0|E Chain E, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
pdb|1DO0|F Chain F, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
Length = 442
Score = 25.8 bits (55), Expect = 8.0
Identities = 30/115 (26%), Positives = 48/115 (41%), Gaps = 13/115 (11%)
Query: 17 NDKRIRVLLEY--ISVLERTPWDLESLLRDYNFVFSNTTGQHNQALERKETPYFDSVIVD 74
+DK I + L + V P +E + +F N GQ +A + K +I +
Sbjct: 168 DDKEIEIDLAAAPMGVEIMAPPGMEEMTSQLQSMFQNLGGQKQKARKLKIKDAMKLLIEE 227
Query: 75 EAAK-ANPLELLM--VMALAKERIILVGDDRQLPHYLDDEIGKKLEDESQDAQDE 126
EAAK NP EL + A+ + I+ + + D+I K+ E D E
Sbjct: 228 EAAKLVNPEELKQDAIDAVEQHGIVFIDE--------IDKICKRGESSGPDVSRE 274
>pdb|1DNV| Parvovirus (Densovirus) From Galleria Mellonella
Length = 437
Score = 25.8 bits (55), Expect = 8.0
Identities = 16/57 (28%), Positives = 24/57 (42%)
Query: 151 GKECFITLNMQYGMHPLLGELVSDVFYKPHNESFESPLKGKHLEEKPFKHNLRVLDN 207
G C Q+ + + + DV YKP +SPL K + + K + V DN
Sbjct: 229 GWPCLAEHLQQFDSKTVNNQCLIDVTYKPKMGLIKSPLNYKIIGQPTVKGTISVGDN 285
>pdb|1HT1|E Chain E, Nucleotide-Dependent Conformational Changes In A Protease-
Associated Atpase Hslu
pdb|1HT1|F Chain F, Nucleotide-Dependent Conformational Changes In A Protease-
Associated Atpase Hslu
pdb|1HT1|G Chain G, Nucleotide-Dependent Conformational Changes In A Protease-
Associated Atpase Hslu
pdb|1HT1|I Chain I, Nucleotide-Dependent Conformational Changes In A Protease-
Associated Atpase Hslu
pdb|1HT2|E Chain E, Nucleotide-Dependent Conformational Changes In A Protease-
Associated Atpase Hslu
pdb|1HT2|F Chain F, Nucleotide-Dependent Conformational Changes In A Protease-
Associated Atpase Hslu
pdb|1HT2|G Chain G, Nucleotide-Dependent Conformational Changes In A Protease-
Associated Atpase Hslu
pdb|1HT2|H Chain H, Nucleotide-Dependent Conformational Changes In A Protease-
Associated Atpase Hslu
pdb|1HQY|E Chain E, Nucleotide-Dependent Conformational Changes In A Protease-
Associated Atpase Hslu
pdb|1HQY|F Chain F, Nucleotide-Dependent Conformational Changes In A Protease-
Associated Atpase Hslu
pdb|1E94|E Chain E, Hslv-Hslu From E.Coli
pdb|1E94|F Chain F, Hslv-Hslu From E.Coli
Length = 449
Score = 25.8 bits (55), Expect = 8.0
Identities = 30/115 (26%), Positives = 48/115 (41%), Gaps = 13/115 (11%)
Query: 17 NDKRIRVLLEY--ISVLERTPWDLESLLRDYNFVFSNTTGQHNQALERKETPYFDSVIVD 74
+DK I + L + V P +E + +F N GQ +A + K +I +
Sbjct: 175 DDKEIEIDLAAAPMGVEIMAPPGMEEMTSQLQSMFQNLGGQKQKARKLKIKDAMKLLIEE 234
Query: 75 EAAK-ANPLELLM--VMALAKERIILVGDDRQLPHYLDDEIGKKLEDESQDAQDE 126
EAAK NP EL + A+ + I+ + + D+I K+ E D E
Sbjct: 235 EAAKLVNPEELKQDAIDAVEQHGIVFIDE--------IDKICKRGESSGPDVSRE 281
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
0.317 0.136 0.384
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,031,561
Number of Sequences: 13198
Number of extensions: 83536
Number of successful extensions: 241
Number of sequences better than 10.0: 11
Number of HSP's better than 10.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 233
Number of HSP's gapped (non-prelim): 14
length of query: 360
length of database: 2,899,336
effective HSP length: 89
effective length of query: 271
effective length of database: 1,724,714
effective search space: 467397494
effective search space used: 467397494
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 55 (25.8 bits)