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|15646107|ref|NP_208289.1| hypothetical protein
[Helicobacter pylori 26695]
(355 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|1MJF|A Chain A, Putative Spermidine Synthetase From Pyr... 28 2.1
pdb|1SEB|D Chain D, Complex Of The Human Mhc Class Ii Glyco... 28 2.1
pdb|1DCE|C Chain C, Crystal Structure Of Rab Geranylgeranyl... 27 3.5
pdb|1KOH|C Chain C, The Crystal Structure And Mutational An... 26 7.9
pdb|1FT8|C Chain C, Crystal Structure Of The Rna-Binding Do... 26 7.9
pdb|1FO1|A Chain A, Crystal Structure Of The Rna-Binding Do... 26 7.9
pdb|1KOO|C Chain C, The Crystal Structure And Mutational An... 26 7.9
>pdb|1MJF|A Chain A, Putative Spermidine Synthetase From Pyrococcus Furiosus
Pfu- 132382
pdb|1MJF|B Chain B, Putative Spermidine Synthetase From Pyrococcus Furiosus
Pfu- 132382
Length = 281
Score = 27.7 bits (60), Expect = 2.1
Identities = 23/94 (24%), Positives = 41/94 (43%), Gaps = 8/94 (8%)
Query: 149 YVYFDKINPLLQKAQNIKVFRLKDKTLESYAEAKEAFFEDKYWILHDTTIYEMPLSFELG 208
YVY NP + Q V+ D+ + +Y E K+ F+ Y+ Y P +F +G
Sbjct: 178 YVYDALNNPGIYVTQAGSVYLFTDELISAYKEMKKV-FDRVYYYSFPVIGYASPWAFLVG 236
Query: 209 ANA------LSTTRLKTFKTLKNFRPKVLDTIYQ 236
+ R K + L+ + P + +T++Q
Sbjct: 237 VKGDIDFTKIDRERAKKLQ-LEYYDPLMHETLFQ 269
>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 = 27.7 bits (60), Expect = 2.1
Identities = 22/81 (27%), Positives = 39/81 (47%), Gaps = 8/81 (9%)
Query: 124 KTQNLIYKDNSLSVSEHLLVKYNDDYVYFDKINPLLQKAQNIKV-FR---LKDKTLESYA 179
+ ++Y DN +S + VK D ++YFD I + N++V F+ L DK + Y
Sbjct: 21 ENMKVLYDDNHVSA---INVKSIDQFLYFDLIYSIKDTYDNVRVEFKNKDLADKYKDKYV 77
Query: 180 EAKEA-FFEDKYWILHDTTIY 199
+ A ++ Y+ T +Y
Sbjct: 78 DVFGANYYYQCYFSKKKTCMY 98
>pdb|1DCE|C Chain C, Crystal Structure Of Rab Geranylgeranyltransferase From
Rat Brain
pdb|1DCE|A Chain A, Crystal Structure Of Rab Geranylgeranyltransferase From
Rat Brain
Length = 567
Score = 26.9 bits (58), Expect = 3.5
Identities = 25/77 (32%), Positives = 33/77 (42%), Gaps = 7/77 (9%)
Query: 169 RLKDKTLESYAEAKEAFFEDKYWILHDTT--IYEMPLSFELGANALSTTRL-----KTFK 221
RLK KT E AEAK E K + T +++ + EL + L T F
Sbjct: 4 RLKVKTSEEQAEAKRLEREQKLKLYQSATQAVFQKRQAGELDESVLELTSQILGANPDFA 63
Query: 222 TLKNFRPKVLDTIYQNK 238
TL N R +VL + K
Sbjct: 64 TLWNCRREVLQHLETEK 80
>pdb|1KOH|C Chain C, The Crystal Structure And Mutational Analysis Of A Novel
Rna-Binding Domain Found In The Human Tap Nuclear Mrna
Export Factor
pdb|1KOH|A Chain A, The Crystal Structure And Mutational Analysis Of A Novel
Rna-Binding Domain Found In The Human Tap Nuclear Mrna
Export Factor
pdb|1KOH|D Chain D, The Crystal Structure And Mutational Analysis Of A Novel
Rna-Binding Domain Found In The Human Tap Nuclear Mrna
Export Factor
pdb|1KOH|B Chain B, The Crystal Structure And Mutational Analysis Of A Novel
Rna-Binding Domain Found In The Human Tap Nuclear Mrna
Export Factor
Length = 277
Score = 25.8 bits (55), Expect = 7.9
Identities = 13/46 (28%), Positives = 27/46 (58%), Gaps = 1/46 (2%)
Query: 136 SVSEHLLVKYNDDYVY-FDKINPLLQKAQNIKVFRLKDKTLESYAE 180
++ E L + +++ +Y D ++ ++QKA N+K+ L L+S E
Sbjct: 168 NIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERE 213
>pdb|1FT8|C Chain C, Crystal Structure Of The Rna-Binding Domain Of The Mrna
Export Factor Tap
pdb|1FT8|A Chain A, Crystal Structure Of The Rna-Binding Domain Of The Mrna
Export Factor Tap
pdb|1FT8|B Chain B, Crystal Structure Of The Rna-Binding Domain Of The Mrna
Export Factor Tap
pdb|1FT8|D Chain D, Crystal Structure Of The Rna-Binding Domain Of The Mrna
Export Factor Tap
pdb|1FT8|E Chain E, Crystal Structure Of The Rna-Binding Domain Of The Mrna
Export Factor Tap
Length = 271
Score = 25.8 bits (55), Expect = 7.9
Identities = 13/46 (28%), Positives = 27/46 (58%), Gaps = 1/46 (2%)
Query: 136 SVSEHLLVKYNDDYVY-FDKINPLLQKAQNIKVFRLKDKTLESYAE 180
++ E L + +++ +Y D ++ ++QKA N+K+ L L+S E
Sbjct: 162 NIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERE 207
>pdb|1FO1|A Chain A, Crystal Structure Of The Rna-Binding Domain Of The Mrna
Export Factor Tap
pdb|1FO1|B Chain B, Crystal Structure Of The Rna-Binding Domain Of The Mrna
Export Factor Tap
Length = 271
Score = 25.8 bits (55), Expect = 7.9
Identities = 13/46 (28%), Positives = 27/46 (58%), Gaps = 1/46 (2%)
Query: 136 SVSEHLLVKYNDDYVY-FDKINPLLQKAQNIKVFRLKDKTLESYAE 180
++ E L + +++ +Y D ++ ++QKA N+K+ L L+S E
Sbjct: 162 NIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERE 207
>pdb|1KOO|C Chain C, The Crystal Structure And Mutational Analysis Of A Novel
Rna-Binding Domain Found In The Human Tap Nuclear Mrna
Export Factor
pdb|1KOO|A Chain A, The Crystal Structure And Mutational Analysis Of A Novel
Rna-Binding Domain Found In The Human Tap Nuclear Mrna
Export Factor
pdb|1KOO|D Chain D, The Crystal Structure And Mutational Analysis Of A Novel
Rna-Binding Domain Found In The Human Tap Nuclear Mrna
Export Factor
pdb|1KOO|B Chain B, The Crystal Structure And Mutational Analysis Of A Novel
Rna-Binding Domain Found In The Human Tap Nuclear Mrna
Export Factor
Length = 277
Score = 25.8 bits (55), Expect = 7.9
Identities = 13/46 (28%), Positives = 27/46 (58%), Gaps = 1/46 (2%)
Query: 136 SVSEHLLVKYNDDYVY-FDKINPLLQKAQNIKVFRLKDKTLESYAE 180
++ E L + +++ +Y D ++ ++QKA N+K+ L L+S E
Sbjct: 168 NIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERE 213
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
0.330 0.145 0.427
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,800,282
Number of Sequences: 13198
Number of extensions: 68017
Number of successful extensions: 203
Number of sequences better than 10.0: 7
Number of HSP's better than 10.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 203
Number of HSP's gapped (non-prelim): 7
length of query: 355
length of database: 2,899,336
effective HSP length: 89
effective length of query: 266
effective length of database: 1,724,714
effective search space: 458773924
effective search space used: 458773924
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 55 (25.8 bits)