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|15644669|ref|NP_206838.1| hypothetical protein
[Helicobacter pylori 26695]
(334 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|1KY9|B Chain B, Crystal Structure Of Degp (Htra) >gi|20... 30 0.29
pdb|1HH4|E Chain E, Rac1-Rhogdi Complex Involved In Nadph O... 28 1.9
pdb|1FT0|B Chain B, Crystal Structure Of Truncated Human Rh... 28 1.9
pdb|1RHO|A Chain A, Structure Of Rho Guanine Nucleotide Dis... 27 2.5
pdb|1AJW| Structure Of Rhogdi: A C-Terminal Binding Domai... 27 3.3
pdb|1DOA|B Chain B, Structure Of The Rho Family Gtp-Binding... 27 3.3
pdb|1II7|A Chain A, Crystal Structure Of P. Furiosus Mre11 ... 27 4.3
pdb|1JID|A Chain A, Human Srp19 In Complex With Helix 6 Of ... 26 7.3
pdb|1MFQ|B Chain B, Crystal Structure Analysis Of A Ternary... 26 7.3
pdb|2AZO|B Chain B, Dna Mismatch Repair Protein Muth From E... 25 9.5
pdb|1FT3|B Chain B, Crystal Structure Of Truncated Rhogdi K... 25 9.5
pdb|1AZO| Dna Mismatch Repair Protein Muth From E. Coli 25 9.5
>pdb|1KY9|B Chain B, Crystal Structure Of Degp (Htra)
pdb|1KY9|A Chain A, Crystal Structure Of Degp (Htra)
Length = 448
Score = 30.4 bits (67), Expect = 0.29
Identities = 68/316 (21%), Positives = 118/316 (36%), Gaps = 52/316 (16%)
Query: 62 AKVIKSDPFVGLYLLQSAPSEYVYTLRDLDKDAL--------IRPMASIGDKEALETRLL 113
AK + DP + L+Q + + ++ D DAL I +G+
Sbjct: 125 AKXVGKDPRSDIALIQIQNPKNLTAIKXADSDALRVGDYTVAIGNPFGLGETVTSGIVSA 184
Query: 114 VGQRG-----YERYAQIS---QKTQKNGVISNICYQMLGLGV------GGN---GF-IET 155
+G+ G YE + Q + G + N+ +++G+ GGN GF I +
Sbjct: 185 LGRSGLNAENYENFIQTDAAINRGNAGGALVNLNGELIGINTAILAPDGGNIGIGFAIPS 244
Query: 156 KFIKRFLNQQEPY----YGDIGVRLEEHHKRL-----VVVQFDPF----FPKNPFLK--- 199
+K +Q Y G++G+ E + L V Q F P + K
Sbjct: 245 NXVKNLTSQXVEYGQVKRGELGIXGTELNSELAKAXKVDAQRGAFVSQVLPNSSAAKAGI 304
Query: 200 --NDEILAINHQKIHSLAEFEWVVSNLKYQSLAKVEIKRNHKVKEVTLKVNKRYGGFLLK 257
D I ++N + I S A V S + + R+ K V L++ + +
Sbjct: 305 KAGDVITSLNGKPISSFAALRAQVGTXPVGSKLTLGLLRDGKQVNVNLELQQSSQNQVDS 364
Query: 258 DTFL------ERYGIALDERFIITKIGAHLPKGLDFLKLGDRILWVNYKSVASNPKALRE 311
+ E D+ ++ + P LK GD I+ N ++V N LR+
Sbjct: 365 SSIFNGIEGAEXSNKGKDQGVVVNNVKTGTPAAQIGLKKGDVIIGANQQAV-KNIAELRK 423
Query: 312 AL-SAPKIELLVLRKG 326
L S P + L +++G
Sbjct: 424 VLDSKPSVLALNIQRG 439
>pdb|1HH4|E Chain E, Rac1-Rhogdi Complex Involved In Nadph Oxidase Activation
pdb|1HH4|D Chain D, Rac1-Rhogdi Complex Involved In Nadph Oxidase Activation
pdb|1CC0|E Chain E, Crystal Structure Of The Rhoa.Gdp-Rhogdi Complex
pdb|1CC0|F Chain F, Crystal Structure Of The Rhoa.Gdp-Rhogdi Complex
Length = 204
Score = 27.7 bits (60), Expect = 1.9
Identities = 23/84 (27%), Positives = 39/84 (46%), Gaps = 10/84 (11%)
Query: 28 QAFFKKASLQKGGVALK---------ELPKGVYLYYSKTYPKHAKVIKSDPFVGLYLLQS 78
++F K++ + K GV + E+ G+ Y TY K K+ K+D VG Y ++
Sbjct: 95 ESFKKQSFVLKEGVEYRIKISFRVNREIVSGMK-YIQHTYRKGVKIDKTDYMVGSYGPRA 153
Query: 79 APSEYVYTLRDLDKDALIRPMASI 102
E++ + + K L R SI
Sbjct: 154 EEYEFLTPVEEAPKGMLARGSYSI 177
>pdb|1FT0|B Chain B, Crystal Structure Of Truncated Human Rhogdi K113a Mutant
pdb|1FT0|A Chain A, Crystal Structure Of Truncated Human Rhogdi K113a Mutant
Length = 139
Score = 27.7 bits (60), Expect = 1.9
Identities = 23/84 (27%), Positives = 39/84 (46%), Gaps = 10/84 (11%)
Query: 28 QAFFKKASLQKGGVALK---------ELPKGVYLYYSKTYPKHAKVIKSDPFVGLYLLQS 78
++F K++ + K GV + E+ G+ Y TY K K+ K+D VG Y ++
Sbjct: 30 ESFKKQSFVLKEGVEYRIAISFRVNREIVSGMK-YIQHTYRKGVKIDKTDYMVGSYGPRA 88
Query: 79 APSEYVYTLRDLDKDALIRPMASI 102
E++ + + K L R SI
Sbjct: 89 EEYEFLTPVEEAPKGMLARGSYSI 112
>pdb|1RHO|A Chain A, Structure Of Rho Guanine Nucleotide Dissociation Inhibitor
pdb|1RHO|B Chain B, Structure Of Rho Guanine Nucleotide Dissociation Inhibitor
pdb|1RHO|C Chain C, Structure Of Rho Guanine Nucleotide Dissociation Inhibitor
Length = 145
Score = 27.3 bits (59), Expect = 2.5
Identities = 16/50 (32%), Positives = 24/50 (48%)
Query: 53 YYSKTYPKHAKVIKSDPFVGLYLLQSAPSEYVYTLRDLDKDALIRPMASI 102
Y TY K K+ K+D VG Y ++ E++ + + K L R SI
Sbjct: 70 YIEHTYRKGVKIDKTDYXVGSYGPRAEEYEFLTPVEEAPKGXLARGSYSI 119
>pdb|1AJW| Structure Of Rhogdi: A C-Terminal Binding Domain Targets An
N-Terminal Inhibitory Peptide To Gtpases, Nmr, 20
Structures
pdb|1GDF| Structure Of Rhogdi: A C-Terminal Binding Domain Targets An
N-Terminal Inhibitory Peptide To Gtpases, Nmr, Minimized
Average Structure
Length = 145
Score = 26.9 bits (58), Expect = 3.3
Identities = 21/79 (26%), Positives = 37/79 (46%), Gaps = 10/79 (12%)
Query: 28 QAFFKKASLQKGGVALK---------ELPKGVYLYYSKTYPKHAKVIKSDPFVGLYLLQS 78
++F K++ + K GV + E+ G+ Y TY K K+ K+D VG Y ++
Sbjct: 36 ESFKKQSFVLKEGVEYRIKISFRVNREIVSGMK-YIQHTYRKGVKIDKTDYMVGSYGPRA 94
Query: 79 APSEYVYTLRDLDKDALIR 97
E++ + + K L R
Sbjct: 95 EEYEFLTPMEEAPKGMLAR 113
>pdb|1DOA|B Chain B, Structure Of The Rho Family Gtp-Binding Protein Cdc42 In
Complex With The Multifunctional Regulator Rhogdi
Length = 219
Score = 26.9 bits (58), Expect = 3.3
Identities = 21/79 (26%), Positives = 37/79 (46%), Gaps = 10/79 (12%)
Query: 28 QAFFKKASLQKGGVALK---------ELPKGVYLYYSKTYPKHAKVIKSDPFVGLYLLQS 78
++F K++ + K GV + E+ G+ Y TY K K+ K+D VG Y ++
Sbjct: 110 ESFKKQSFVLKEGVEYRIKISFRVNREIVSGMK-YIQHTYRKGVKIDKTDYMVGSYGPRA 168
Query: 79 APSEYVYTLRDLDKDALIR 97
E++ + + K L R
Sbjct: 169 EEYEFLTPMEEAPKGMLAR 187
>pdb|1II7|A Chain A, Crystal Structure Of P. Furiosus Mre11 With Manganese And
Damp
pdb|1II7|B Chain B, Crystal Structure Of P. Furiosus Mre11 With Manganese And
Damp
Length = 333
Score = 26.6 bits (57), Expect = 4.3
Identities = 20/81 (24%), Positives = 38/81 (46%), Gaps = 5/81 (6%)
Query: 146 GVGGNGFIETKFIKRFLNQQEPYYGDIGVRLEEHHKRLVVVQFDPFFPKNPFLKNDEILA 205
GV +I F RF+ + + D+ ++ E R + + P PKN +++ L
Sbjct: 250 GVNKGFYIVEDFKPRFVEIKVRPFIDVKIKGSEEEIRKAIKRLIPLIPKNAYVR----LN 305
Query: 206 INHQKIHSLAEFEWVVSNLKY 226
I +K L E + ++ N++Y
Sbjct: 306 IGWRKPFDLTEIKELL-NVEY 325
>pdb|1JID|A Chain A, Human Srp19 In Complex With Helix 6 Of Human Srp Rna
Length = 128
Score = 25.8 bits (55), Expect = 7.3
Identities = 16/43 (37%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 147 VGGNGFIE-TKFIKRFLNQQEPYYGDIGVRLEEHHKRLVVVQF 188
VG N F+E K R N+ Y G + V+L++ L +VQF
Sbjct: 56 VGLNVFLEKNKMYSREWNRDVQYRGRVRVQLKQEDGSLCLVQF 98
>pdb|1MFQ|B Chain B, Crystal Structure Analysis Of A Ternary S-Domain Complex
Of Human Signal Recognition Particle
Length = 108
Score = 25.8 bits (55), Expect = 7.3
Identities = 16/43 (37%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 147 VGGNGFIE-TKFIKRFLNQQEPYYGDIGVRLEEHHKRLVVVQF 188
VG N F+E K R N+ Y G + V+L++ L +VQF
Sbjct: 44 VGLNVFLEKNKMYSREWNRDVQYRGRVRVQLKQEDGSLCLVQF 86
>pdb|2AZO|B Chain B, Dna Mismatch Repair Protein Muth From E. Coli
pdb|2AZO|A Chain A, Dna Mismatch Repair Protein Muth From E. Coli
Length = 232
Score = 25.4 bits (54), Expect = 9.5
Identities = 14/37 (37%), Positives = 22/37 (58%), Gaps = 2/37 (5%)
Query: 296 WVNYKSVASNPKALREALSAPKIELLVLRKGFEFYIK 332
++ + A+N KAL EA+ A +L L +G FY+K
Sbjct: 183 YLQIRPKAANAKALTEAIGARGERILTLPRG--FYLK 217
>pdb|1FT3|B Chain B, Crystal Structure Of Truncated Rhogdi K141a Mutant
pdb|1FT3|A Chain A, Crystal Structure Of Truncated Rhogdi K141a Mutant
Length = 139
Score = 25.4 bits (54), Expect = 9.5
Identities = 22/84 (26%), Positives = 38/84 (45%), Gaps = 10/84 (11%)
Query: 28 QAFFKKASLQKGGVALK---------ELPKGVYLYYSKTYPKHAKVIKSDPFVGLYLLQS 78
++F K++ + K GV + E+ G+ Y TY K K+ +D VG Y ++
Sbjct: 30 ESFKKQSFVLKEGVEYRIKISFRVNREIVSGMK-YIQHTYRKGVKIDATDYMVGSYGPRA 88
Query: 79 APSEYVYTLRDLDKDALIRPMASI 102
E++ + + K L R SI
Sbjct: 89 EEYEFLTPVEEAPKGMLARGSYSI 112
>pdb|1AZO| Dna Mismatch Repair Protein Muth From E. Coli
Length = 232
Score = 25.4 bits (54), Expect = 9.5
Identities = 14/37 (37%), Positives = 22/37 (58%), Gaps = 2/37 (5%)
Query: 296 WVNYKSVASNPKALREALSAPKIELLVLRKGFEFYIK 332
++ + A+N KAL EA+ A +L L +G FY+K
Sbjct: 183 YLQIRPKAANAKALTEAIGARGERILTLPRG--FYLK 217
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
0.324 0.143 0.421
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,948,151
Number of Sequences: 13198
Number of extensions: 82438
Number of successful extensions: 151
Number of sequences better than 10.0: 12
Number of HSP's better than 10.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 144
Number of HSP's gapped (non-prelim): 13
length of query: 334
length of database: 2,899,336
effective HSP length: 89
effective length of query: 245
effective length of database: 1,724,714
effective search space: 422554930
effective search space used: 422554930
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 54 (25.4 bits)