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|15645636|ref|NP_207812.1| hypothetical protein
[Helicobacter pylori 26695]
(278 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|1TAQ| Structure Of Taq Dna Polymerase 43 5e-05
pdb|1TAU|A Chain A, Structure Of Dna Polymerase 43 5e-05
pdb|1BGX|T Chain T, Taq Polymerase In Complex With Tp7, An ... 43 5e-05
pdb|1EXN|B Chain B, T5 5'-Exonuclease >gi|2392326|pdb|1EXN|... 42 6e-05
pdb|1XO1|A Chain A, T5 5'-Exonuclease Mutant K83a >gi|14719... 42 1e-04
pdb|1LF1|A Chain A, Crystal Structure Of Cel5 From Alkaloph... 27 2.6
pdb|1LD7|A Chain A, Co-Crystal Structure Of Human Farnesylt... 27 3.4
pdb|1A3H| Endoglucanase Cel5a From Bacillus Agaradherans ... 26 5.7
pdb|1QI2|A Chain A, Endoglucanase Cel5a From Bacillus Agara... 26 5.7
pdb|1H5V|A Chain A, Thiopentasaccharide Complex Of The Endo... 26 5.7
pdb|1DLC| Delta-Endotoxin Cryiiia (Bt13) 26 5.7
pdb|1H11|A Chain A, 2-Deoxy-2-Fluro-B-D-CellotriosylENZYME ... 26 5.7
pdb|1GAN|A Chain A, Complex Of Toad Ovary Galectin With N-A... 26 5.7
pdb|1FT2|A Chain A, Co-Crystal Structure Of Protein Farnesy... 25 7.5
pdb|1QBQ|A Chain A, Structure Of Rat Farnesyl Protein Trans... 25 7.5
pdb|1KZO|A Chain A, Protein Farnesyltransferase Complexed W... 25 7.5
>pdb|1TAQ| Structure Of Taq Dna Polymerase
Length = 832
Score = 42.7 bits (99), Expect = 5e-05
Identities = 47/146 (32%), Positives = 70/146 (47%), Gaps = 17/146 (11%)
Query: 70 SFRYQLCDHYKQKRHQFDEDFKALLRTLKIAIVEKYPLKKGAKIQGEHCFEYEADDII-S 128
SFR++ YK R EDF L +K +V+ L + ++ G YEADD++ S
Sbjct: 72 SFRHEAYGGYKAGRAPTPEDFPRQLALIK-ELVDLLGLAR-LEVPG-----YEADDVLAS 124
Query: 129 FYKKKDPNNYV--IASMDKDI--LYSNRGSHFN----LKTNAF-FNVSQKEAHFFAYYQC 179
KK + Y I + DKD+ L S+R + L T A+ + +A Y+
Sbjct: 125 LAKKAEKEGYEVRILTADKDLYQLLSDRIHVLHPEGYLITPAWLWEKYGLRPDQWADYRA 184
Query: 180 VVGDKGDNIKGVKGIGGFNYKDFLNE 205
+ GD+ DN+ GVKGIG + L E
Sbjct: 185 LTGDESDNLPGVKGIGEKTARKLLEE 210
>pdb|1TAU|A Chain A, Structure Of Dna Polymerase
Length = 832
Score = 42.7 bits (99), Expect = 5e-05
Identities = 47/146 (32%), Positives = 70/146 (47%), Gaps = 17/146 (11%)
Query: 70 SFRYQLCDHYKQKRHQFDEDFKALLRTLKIAIVEKYPLKKGAKIQGEHCFEYEADDII-S 128
SFR++ YK R EDF L +K +V+ L + ++ G YEADD++ S
Sbjct: 72 SFRHEAYGGYKAGRAPTPEDFPRQLALIK-ELVDLLGLAR-LEVPG-----YEADDVLAS 124
Query: 129 FYKKKDPNNYV--IASMDKDI--LYSNRGSHFN----LKTNAF-FNVSQKEAHFFAYYQC 179
KK + Y I + DKD+ L S+R + L T A+ + +A Y+
Sbjct: 125 LAKKAEKEGYEVRILTADKDLYQLLSDRIHVLHPEGYLITPAWLWEKYGLRPDQWADYRA 184
Query: 180 VVGDKGDNIKGVKGIGGFNYKDFLNE 205
+ GD+ DN+ GVKGIG + L E
Sbjct: 185 LTGDESDNLPGVKGIGEKTARKLLEE 210
>pdb|1BGX|T Chain T, Taq Polymerase In Complex With Tp7, An Inhibitory Fab
pdb|1CMW|A Chain A, Crystal Structure Of Taq Dna-Polymerase Shows A New
Orientation For The Structure-Specific Nuclease Domain
Length = 832
Score = 42.7 bits (99), Expect = 5e-05
Identities = 47/146 (32%), Positives = 70/146 (47%), Gaps = 17/146 (11%)
Query: 70 SFRYQLCDHYKQKRHQFDEDFKALLRTLKIAIVEKYPLKKGAKIQGEHCFEYEADDII-S 128
SFR++ YK R EDF L +K +V+ L + ++ G YEADD++ S
Sbjct: 72 SFRHEAYGGYKAGRAPTPEDFPRQLALIK-ELVDLLGLAR-LEVPG-----YEADDVLAS 124
Query: 129 FYKKKDPNNYV--IASMDKDI--LYSNRGSHFN----LKTNAF-FNVSQKEAHFFAYYQC 179
KK + Y I + DKD+ L S+R + L T A+ + +A Y+
Sbjct: 125 LAKKAEKEGYEVRILTADKDLYQLLSDRIHVLHPEGYLITPAWLWEKYGLRPDQWADYRA 184
Query: 180 VVGDKGDNIKGVKGIGGFNYKDFLNE 205
+ GD+ DN+ GVKGIG + L E
Sbjct: 185 LTGDESDNLPGVKGIGEKTARKLLEE 210
>pdb|1EXN|B Chain B, T5 5'-Exonuclease
pdb|1EXN|A Chain A, T5 5'-Exonuclease
Length = 290
Score = 42.4 bits (98), Expect = 6e-05
Identities = 51/217 (23%), Positives = 90/217 (40%), Gaps = 25/217 (11%)
Query: 48 ILSIMHKTRCSKTLFFITRGRESFRYQLCDHYK----QKRHQFDEDFKALLRTLKIAIVE 103
I S+ T+ +G+ FR + YK +K Q E+ KAL + +
Sbjct: 50 IQSLAKSYSARTTIVLGDKGKSVFRLEHLPEYKGNRDEKYAQRTEEEKALDEQFFEYLKD 109
Query: 104 KYPLKKGA----KIQGEHCFEYEADDIISFYKKKDPNNY-----VIASMDKDILYSNRGS 154
+ L K I+G EADD ++ K + Y + D D L +++ S
Sbjct: 110 AFELCKTTFPTFTIRG-----VEADDXAAYIVKLIGHLYDHVWLISTDGDWDTLLTDKVS 164
Query: 155 HFNLKTNAFFNVSQKEAHF-------FAYYQCVVGDKGDNIKGVKGIGGFNYKDFLNEDA 207
F+ T +++ H F + + GD GDNI+GV+GIG + + E
Sbjct: 165 RFSFTTRREYHLRDXYEHHNVDDVEQFISLKAIXGDLGDNIRGVEGIGAKRGYNIIREFG 224
Query: 208 KEHELWEQIIQAFKIKEDLSDSEAKEKALLNMRLVNM 244
++ +Q+ K K + + ++E N+ LV++
Sbjct: 225 NVLDIIDQLPLPGKQKYIQNLNASEELLFRNLILVDL 261
>pdb|1XO1|A Chain A, T5 5'-Exonuclease Mutant K83a
pdb|1XO1|B Chain B, T5 5'-Exonuclease Mutant K83a
Length = 291
Score = 41.6 bits (96), Expect = 1e-04
Identities = 50/217 (23%), Positives = 91/217 (41%), Gaps = 25/217 (11%)
Query: 48 ILSIMHKTRCSKTLFFITRGRESFRYQLCDHYK----QKRHQFDEDFKALLRTLKIAIVE 103
I S+ T+ +G+ FR + Y +K Q E+ KAL + +
Sbjct: 51 IQSLAKSYSARTTIVLGDKGKSVFRLEHLPEYAGNRDEKYAQRTEEEKALDEQFFEYLKD 110
Query: 104 KYPLKKGA----KIQGEHCFEYEADDIISFYKKKDPNNY-----VIASMDKDILYSNRGS 154
+ L K I+G EADD+ ++ K + Y + D D L +++ S
Sbjct: 111 AFELCKTTFPTFTIRG-----VEADDMAAYIVKLIGHLYDHVWLISTDGDWDTLLTDKVS 165
Query: 155 HFNLKTNAFFNVSQKEAHF-------FAYYQCVVGDKGDNIKGVKGIGGFNYKDFLNEDA 207
F+ T +++ H F + ++GD GDNI+GV+GIG + + E
Sbjct: 166 RFSFTTRREYHLRDMYEHHNVDDVEQFISLKAIMGDLGDNIRGVEGIGAKRGYNIIREFG 225
Query: 208 KEHELWEQIIQAFKIKEDLSDSEAKEKALLNMRLVNM 244
++ +Q+ K K + + ++E N+ LV++
Sbjct: 226 NVLDIIDQLPLPGKQKYIQNLNASEELLFRNLILVDL 262
>pdb|1LF1|A Chain A, Crystal Structure Of Cel5 From Alkalophilic Bacillus Sp
Length = 308
Score = 26.9 bits (58), Expect = 2.6
Identities = 15/62 (24%), Positives = 28/62 (44%)
Query: 79 YKQKRHQFDEDFKALLRTLKIAIVEKYPLKKGAKIQGEHCFEYEADDIISFYKKKDPNNY 138
YK++ F ++ L I E G+ + ++ + A+++I + DPNN
Sbjct: 111 YKEEAKDFFDEMSELYGDYPNVIYEIANEPNGSDVTWDNQIKPYAEEVIPVIRDNDPNNI 170
Query: 139 VI 140
VI
Sbjct: 171 VI 172
>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 = 26.6 bits (57), Expect = 3.4
Identities = 11/25 (44%), Positives = 16/25 (64%), Gaps = 3/25 (12%)
Query: 201 DFLNEDAKEHELWEQ---IIQAFKI 222
D LN+DAK + W+ +IQ FK+
Sbjct: 191 DILNQDAKNYHAWQHRQWVIQEFKL 215
>pdb|1A3H| Endoglucanase Cel5a From Bacillus Agaradherans At 1.6a Resolution
pdb|3A3H| Cellotriose Complex Of The Endoglucanase Cel5a From Bacillus
Agaradherans At 1.6 A Resolution
pdb|2A3H| Cellobiose Complex Of The Endoglucanase Cel5a From Bacillus
Agaradherans At 2.0 A Resolution
Length = 300
Score = 25.8 bits (55), Expect = 5.7
Identities = 14/62 (22%), Positives = 27/62 (42%)
Query: 79 YKQKRHQFDEDFKALLRTLKIAIVEKYPLKKGAKIQGEHCFEYEADDIISFYKKKDPNNY 138
YK++ F ++ L I E G+ + + + A+++I + DPNN
Sbjct: 108 YKEEAKDFFDEMSELYGDYPNVIYEIANEPNGSDVTWGNQIKPYAEEVIPIIRNNDPNNI 167
Query: 139 VI 140
+I
Sbjct: 168 II 169
>pdb|1QI2|A Chain A, Endoglucanase Cel5a From Bacillus Agaradhaerens In The
Tetragonal Crystal Form In Complex With
2',4'-Dinitrophenyl 2-Deoxy-2-Fluoro-B-D-Cellotrioside
pdb|1E5J|A Chain A, Endoglucanase Cel5a From Bacillus Agaradhaerens In The
Tetragonal Crystal Form In Complex With
Methyl-4ii-S-Alpha-Cellobiosyl-4ii-Thio
Beta-Cellobioside
pdb|1QHZ|A Chain A, Native Tetragonal Structure Of The Endoglucanase Cel5a
From Bacillus Agaradhaerens
pdb|1QI0|A Chain A, Endoglucanase Cel5a From Bacillus Agaradhaerens In The
Tetragonal Crystal Form In Complex With Cellobiose
Length = 305
Score = 25.8 bits (55), Expect = 5.7
Identities = 14/62 (22%), Positives = 27/62 (42%)
Query: 79 YKQKRHQFDEDFKALLRTLKIAIVEKYPLKKGAKIQGEHCFEYEADDIISFYKKKDPNNY 138
YK++ F ++ L I E G+ + + + A+++I + DPNN
Sbjct: 111 YKEEAKDFFDEMSELYGDYPNVIYEIANEPNGSDVTWGNQIKPYAEEVIPIIRNNDPNNI 170
Query: 139 VI 140
+I
Sbjct: 171 II 172
>pdb|1H5V|A Chain A, Thiopentasaccharide Complex Of The Endoglucanase Cel5a
From Bacillus Agaradharens At 1.1 A Resolution In The
Tetragonal Crystal Form
Length = 304
Score = 25.8 bits (55), Expect = 5.7
Identities = 14/62 (22%), Positives = 27/62 (42%)
Query: 79 YKQKRHQFDEDFKALLRTLKIAIVEKYPLKKGAKIQGEHCFEYEADDIISFYKKKDPNNY 138
YK++ F ++ L I E G+ + + + A+++I + DPNN
Sbjct: 111 YKEEAKDFFDEMSELYGDYPNVIYEIANEPNGSDVTWGNQIKPYAEEVIPIIRNNDPNNI 170
Query: 139 VI 140
+I
Sbjct: 171 II 172
>pdb|1DLC| Delta-Endotoxin Cryiiia (Bt13)
Length = 584
Score = 25.8 bits (55), Expect = 5.7
Identities = 13/27 (48%), Positives = 18/27 (66%), Gaps = 1/27 (3%)
Query: 107 LKKGAKIQGEHCFEYEADDIISFYKKK 133
L K A+I GE + YE +DI FYK++
Sbjct: 147 LLKDAQIYGEE-WGYEKEDIAEFYKRQ 172
>pdb|1H11|A Chain A, 2-Deoxy-2-Fluro-B-D-CellotriosylENZYME INTERMEDIATE
Complex Of The Endoglucanase Cel5a From Bacillus
Agaradhearans At 1.08 Angstrom Resolution
pdb|1H2J|A Chain A, Endoglucanase Cel5a In Complex With Unhydrolysed And
Covalently Linked 2,4-Dinitrophenyl-2-Deoxy-2-
Fluoro-Cellobioside At 1.15 A Resolution
pdb|7A3H|A Chain A, Native Endoglucanase Cel5a Catalytic Core Domain At 0.95
Angstroms Resolution
pdb|8A3H|A Chain A, Cellobiose-Derived Imidazole Complex Of The Endoglucanase
Cel5a From Bacillus Agaradhaerens At 0.97 A Resolution
pdb|1HF6|A Chain A, Endoglucanase Cel5a From Bacillus Agaradhaerens In The
Orthorhombic Crystal Form In Complex With Cellotriose
pdb|4A3H|A Chain A, 2',4' Dinitrophenyl-2-Deoxy-2-Fluro-B-D-Cellobioside
Complex Of The Endoglucanase Cel5a From Bacillus
Agaradhaerens At 1.6 A Resolution
pdb|6A3H|A Chain A, 2-Deoxy-2-Fluro-B-D-CellotriosylENZYME INTERMEDIATE
Complex Of The Endoglucanase Cel5a From Bacillus
Agaradhearans At 1.6 Angstrom Resolution
pdb|5A3H|A Chain A, 2-Deoxy-2-Fluro-B-D-CellobiosylENZYME INTERMEDIATE COMPLEX
Of The Endoglucanase Cel5a From Bacillus Agaradhearans
At 1.8 Angstroms Resolution
Length = 303
Score = 25.8 bits (55), Expect = 5.7
Identities = 14/62 (22%), Positives = 27/62 (42%)
Query: 79 YKQKRHQFDEDFKALLRTLKIAIVEKYPLKKGAKIQGEHCFEYEADDIISFYKKKDPNNY 138
YK++ F ++ L I E G+ + + + A+++I + DPNN
Sbjct: 111 YKEEAKDFFDEMSELYGDYPNVIYEIANEPNGSDVTWGNQIKPYAEEVIPIIRNNDPNNI 170
Query: 139 VI 140
+I
Sbjct: 171 II 172
>pdb|1GAN|A Chain A, Complex Of Toad Ovary Galectin With N-Acetylgalactose
pdb|1GAN|B Chain B, Complex Of Toad Ovary Galectin With N-Acetylgalactose
Length = 134
Score = 25.8 bits (55), Expect = 5.7
Identities = 11/36 (30%), Positives = 21/36 (57%), Gaps = 2/36 (5%)
Query: 105 YPLKKGAKIQGEHCFEYEADDIISFYKKKDPNNYVI 140
+P ++GA++ CFEY+ D II + D ++ +
Sbjct: 78 FPFQQGAEVMV--CFEYQTDKIIIKFSSGDQFSFPV 111
>pdb|1FT2|A Chain A, Co-Crystal Structure Of Protein Farnesyltransferase
Complexed With A Farnesyl Diphosphate Substrate
Length = 315
Score = 25.4 bits (54), Expect = 7.5
Identities = 10/25 (40%), Positives = 16/25 (64%), Gaps = 3/25 (12%)
Query: 201 DFLNEDAKEHELWEQ---IIQAFKI 222
D LN+DAK + W+ +IQ F++
Sbjct: 137 DILNQDAKNYHAWQHRQWVIQEFRL 161
>pdb|1QBQ|A Chain A, Structure Of Rat Farnesyl Protein Transferase Complexed
With A Cvim Peptide And Alpha-Hydroxyfarnesylphosphonic
Acid
Length = 333
Score = 25.4 bits (54), Expect = 7.5
Identities = 10/25 (40%), Positives = 16/25 (64%), Gaps = 3/25 (12%)
Query: 201 DFLNEDAKEHELWEQ---IIQAFKI 222
D LN+DAK + W+ +IQ F++
Sbjct: 147 DILNQDAKNYHAWQHRQWVIQEFRL 171
>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 = 25.4 bits (54), Expect = 7.5
Identities = 10/25 (40%), Positives = 16/25 (64%), Gaps = 3/25 (12%)
Query: 201 DFLNEDAKEHELWEQ---IIQAFKI 222
D LN+DAK + W+ +IQ F++
Sbjct: 191 DILNQDAKNYHAWQHRQWVIQEFRL 215
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
0.323 0.139 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: 1,606,393
Number of Sequences: 13198
Number of extensions: 63984
Number of successful extensions: 140
Number of sequences better than 10.0: 16
Number of HSP's better than 10.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 127
Number of HSP's gapped (non-prelim): 16
length of query: 278
length of database: 2,899,336
effective HSP length: 87
effective length of query: 191
effective length of database: 1,751,110
effective search space: 334462010
effective search space used: 334462010
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 53 (25.0 bits)