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|15645735|ref|NP_207912.1| cytosine specific DNA
methyltransferase (BSP6IM) [Helicobacter pylori 26695]
(312 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|1M0E|A Chain A, Zebularine: A Novel Dna Methylation Inh... 158 9e-40
pdb|1FJX|A Chain A, Structure Of Ternary Complex Of Hhai Me... 156 3e-39
pdb|1DCT|A Chain A, Dna (Cytosine-5) Methylase From Haeiii ... 119 4e-28
pdb|1G55|A Chain A, Structure Of Human Dnmt2, An Enigmatic ... 51 1e-07
pdb|1HUK|A Chain A, Refined Structure Of Yeast Inorganic Py... 27 3.9
pdb|1WGJ|B Chain B, Structure Of Inorganic Pyrophosphatase ... 27 3.9
pdb|117E|A Chain A, The R78k And D117e Active Site Variants... 27 3.9
pdb|1E9G|A Chain A, Structure Of Inorganic Pyrophosphatase 27 3.9
pdb|1HUJ|A Chain A, Refined Structure Of Yeast Inorganic Py... 26 5.1
pdb|1C72|A Chain A, Tyr115, Gln165 And Trp209 Contribute To... 26 5.1
pdb|1E9G|B Chain B, Structure Of Inorganic Pyrophosphatase 26 5.1
pdb|8PRK|B Chain B, The R78k And D117e Active Site Variants... 25 8.7
pdb|1GSU|A Chain A, An Avian Class-Mu Glutathione S-Transfe... 25 8.7
>pdb|1M0E|A Chain A, Zebularine: A Novel Dna Methylation Inhibitor That Forms A
Covalent Complex With Dna Methyltransferase
pdb|6MHT|A Chain A, Ternary Structure Of Hhai Methyltransferase With Adohcy
And Dna Containing 4'-Thio-2'deoxycytidine At The Target
pdb|9MHT|A Chain A, Cytosine-Specific Methyltransferase HhaiDNA COMPLEX
pdb|1HMY| Hhai Dna (Cytosine-C5-)-Methyltransferase (E.C.2.1.1.37) Complex
With S-Adenosyl-L-Methionine
pdb|10MH|A Chain A, Ternary Structure Of Hhai Methyltransferase With Adohcy
And Hemimethylated Dna Containing
5,6-Dihydro-5-Azacytosine At The Target
pdb|2HMY|B Chain B, Binary Complex Of Hhai Methyltransferase With Adomet
Formed In The Presence Of A Short Nonpsecific Dna
Oligonucleotide
pdb|4MHT|A Chain A, Ternary Structure Of Hhai Methyltransferase With Native
Dna And Adohcy
pdb|3MHT|A Chain A, Ternary Structure Of Hhai Methyltransferase With
Unmodified Dna And Adohcy
pdb|5MHT|A Chain A, Ternary Structure Of Hhai Methyltransferase With
Hemimethylated Dna And Adohcy
pdb|8MHT|A Chain A, Cytosine-Specific Methyltransferase HhaiDNA COMPLEX
pdb|1MHT|A Chain A, Covalent Ternary Structure Of Hhai Methyltransferase, Dna
And S-Adenosyl-L-Homocysteine
pdb|7MHT|A Chain A, Cytosine-Specific Methyltransferase HhaiDNA COMPLEX
Length = 327
Score = 158 bits (399), Expect = 9e-40
Identities = 103/325 (31%), Positives = 161/325 (48%), Gaps = 44/325 (13%)
Query: 1 MDFCSGIGGGRLGLEQCHLKCVGHAEINHEALRTYELFFKDTHNFGDLMRINPNDLPDFD 60
+D +G+GG RL LE C +CV E + A YE+ F + GD+ ++N +PD D
Sbjct: 15 IDLFAGLGGFRLALESCGAECVYSNEWDKYAQEVYEMNFGEKPE-GDITQVNEKTIPDHD 73
Query: 61 ALISGFPCQAFSINGKRKGLEDERGTIIYGLIRILKVKQPECFLLENVKGLINHNKKATF 120
L +GFPCQAFSI+GK+KG ED RGT+ + + RI++ K+P+ +ENVK +H+ T
Sbjct: 74 ILCAGFPCQAFSISGKQKGFEDSRGTLFFDIARIVREKKPKVVFMENVKNFASHDNGNTL 133
Query: 121 NIIIKALQEVGYTTYYKILNSADFQLAQNRERLYIVGFRKDLK-HPFNFPLGLANDYYFK 179
++ + E+ Y+ + K+LN+ D+ + Q RER+Y++ FR DL F FP + + K
Sbjct: 134 EVVKNTMNELDYSFHAKVLNALDYGIPQKRERIYMICFRNDLNIQNFQFPKPFELNTFVK 193
Query: 180 DFLDADNECYLDVSNAAFQRYLHNRYNHNRVSLEDLLTLENAVLDTRQSDLRL------- 232
D L D+E H + +DL+ + T +RL
Sbjct: 194 DLLLPDSE-----------------VEHLVIDRKDLVMTNQEIEQTTPKTVRLGIVGKGG 236
Query: 233 -----YS--NVFPTLRTSRHGLF-----YTQKGKIKRLNAIESLLLQGFPRDLIAKIKDN 280
YS + TL G+F Y GK ++L+ E + G+P K +
Sbjct: 237 QGERIYSTRGIAITLSAYGGGIFAKTGGYLVNGKTRKLHPRECARVMGYP----DSYKVH 292
Query: 281 PNFKASHLLSQAGNAMSVNVIAAIA 305
P+ S Q GN++ +NV+ IA
Sbjct: 293 PS--TSQAYKQFGNSVVINVLQYIA 315
>pdb|1FJX|A Chain A, Structure Of Ternary Complex Of Hhai Methyltransferase
Mutant (T250g) In Complex With Dna And Adohcy
Length = 327
Score = 156 bits (394), Expect = 3e-39
Identities = 102/325 (31%), Positives = 161/325 (49%), Gaps = 44/325 (13%)
Query: 1 MDFCSGIGGGRLGLEQCHLKCVGHAEINHEALRTYELFFKDTHNFGDLMRINPNDLPDFD 60
+D +G+GG RL LE C +CV E + A YE+ F + GD+ ++N +PD D
Sbjct: 15 IDLFAGLGGFRLALESCGAECVYSNEWDKYAQEVYEMNFGEKPE-GDITQVNEKTIPDHD 73
Query: 61 ALISGFPCQAFSINGKRKGLEDERGTIIYGLIRILKVKQPECFLLENVKGLINHNKKATF 120
L +GFPCQAFSI+GK+KG ED RGT+ + + RI++ K+P+ +ENVK +H+ T
Sbjct: 74 ILCAGFPCQAFSISGKQKGFEDSRGTLFFDIARIVREKKPKVVFMENVKNFASHDNGNTL 133
Query: 121 NIIIKALQEVGYTTYYKILNSADFQLAQNRERLYIVGFRKDLK-HPFNFPLGLANDYYFK 179
++ + E+ Y+ + K+LN+ D+ + Q RER+Y++ FR DL F FP + + K
Sbjct: 134 EVVKNTMNELDYSFHAKVLNALDYGIPQKRERIYMICFRNDLNIQNFQFPKPFELNTFVK 193
Query: 180 DFLDADNECYLDVSNAAFQRYLHNRYNHNRVSLEDLLTLENAVLDTRQSDLRL------- 232
D L D+E H + +DL+ + T +RL
Sbjct: 194 DLLLPDSE-----------------VEHLVIDRKDLVMTNQEIEQTTPKTVRLGIVGKGG 236
Query: 233 -----YSNVFPTLRTSRH--GLF-----YTQKGKIKRLNAIESLLLQGFPRDLIAKIKDN 280
YS + S + G+F Y GK ++L+ E + G+P K +
Sbjct: 237 QGERIYSTRGIAIGLSAYGGGIFAKTGGYLVNGKTRKLHPRECARVMGYP----DSYKVH 292
Query: 281 PNFKASHLLSQAGNAMSVNVIAAIA 305
P+ S Q GN++ +NV+ IA
Sbjct: 293 PS--TSQAYKQFGNSVVINVLQYIA 315
>pdb|1DCT|A Chain A, Dna (Cytosine-5) Methylase From Haeiii Covalently Bound To
Dna
pdb|1DCT|B Chain B, Dna (Cytosine-5) Methylase From Haeiii Covalently Bound To
Dna
Length = 324
Score = 119 bits (298), Expect = 4e-28
Identities = 91/323 (28%), Positives = 148/323 (45%), Gaps = 21/323 (6%)
Query: 5 SGIGGGRLGLEQCHLKCVGHAEINHEALRTYELFFKDTHNFGDLMRINPNDLPDFDALIS 64
SG GG LG ++ + + E + +TYE GD+ +I+ ++ P D +I
Sbjct: 8 SGAGGLDLGFQKAGFRIICANEYDKSIWKTYESNHSAKLIKGDISKISSDEFPKCDGIIG 67
Query: 65 GFPCQAFSINGKRKGLEDERGTIIYGLIRILKVKQPECFLLENVKGLINHNKKATFNIII 124
G PCQ++S G +G++D RG + Y IRILK K+P FL ENVKG++ I
Sbjct: 68 GPPCQSWSEGGSLRGIDDPRGKLFYEYIRILKQKKPIFFLAENVKGMMAQRHNKAVQEFI 127
Query: 125 KALQEVGYTTYYKILNSADFQLAQNRERLYIVGFRKDLKHPFNFPLGLANDYYFKDFL-- 182
+ GY + +LN+ D+ +AQ+R+R++ +GFRK+L + P+ FKD +
Sbjct: 128 QEFDNAGYDVHIILLNANDYGVAQDRKRVFYIGFRKELNINYLPPIPHLIKPTFKDVIWD 187
Query: 183 DADNEC-YLDVSNAAFQRYLHNRYNHNRVSLEDLLTLENAV-----------LDTRQSDL 230
DN LD + + ++ + + S + N V RQ L
Sbjct: 188 LKDNPIPALDKNKTNGNKCIYPNHEYFIGSYSTIFMSRNRVRQWNEPAFTVQASGRQCQL 247
Query: 231 RLYSNVFPTLRTSRHGLFYTQKGKIKRLNAIESLLLQGFPRDLIAKIKD-NPNFKASHLL 289
+ V + + + ++ +RL E +QGFP D I + N +K
Sbjct: 248 HPQAPVMLKVSKNLNKFVEGKEHLYRRLTVRECARVQGFPDDFIFHYESLNDGYK----- 302
Query: 290 SQAGNAMSVNVIAAIAKQMLKAI 312
GNA+ VN+ IAK + A+
Sbjct: 303 -MIGNAVPVNLAYEIAKTIKSAL 324
>pdb|1G55|A Chain A, Structure Of Human Dnmt2, An Enigmatic Dna
Methyltransferase Homologue
Length = 343
Score = 51.2 bits (121), Expect = 1e-07
Identities = 41/176 (23%), Positives = 77/176 (43%), Gaps = 10/176 (5%)
Query: 1 MDFCSGIGGGRLGLEQCHL--KCVGHAEINHEALRTYELFFKDTHNFGDLMR---INPND 55
++ SG+GG L + + + V ++N A Y+ F T + + D
Sbjct: 6 LELYSGVGGMHHALRESCIPAQVVAAIDVNTVANEVYKYNFPHTQLLAKTIEGITLEEFD 65
Query: 56 LPDFDALISGFPCQAFSINGKRKGLEDERGTIIYGLIRILK--VKQPECFLLENVKGLIN 113
FD ++ PCQ F+ G++ + D R ++ IL K P+ LLENVKG
Sbjct: 66 RLSFDMILMSPPCQPFTRIGRQGDMTDSRTNSFLHILDILPRLQKLPKYILLENVKGF-- 123
Query: 114 HNKKATFNIIIKALQEVGYTTYYKILNSADFQLAQNRERLYIVGFRKDLKHPFNFP 169
+T +++I+ ++ G+ +L+ + +R R +++ + PF P
Sbjct: 124 -EVSSTRDLLIQTIENXGFQYQEFLLSPTSLGIPNSRLRYFLIAKLQSEPLPFQAP 178
>pdb|1HUK|A Chain A, Refined Structure Of Yeast Inorganic Pyrophosphatase And
Its K61r Mutant
pdb|1HUK|B Chain B, Refined Structure Of Yeast Inorganic Pyrophosphatase And
Its K61r Mutant
Length = 281
Score = 26.6 bits (57), Expect = 3.9
Identities = 18/79 (22%), Positives = 33/79 (40%), Gaps = 10/79 (12%)
Query: 170 LGLANDYYFKDFLDADNE---------CYLDVSNAAFQRYLH-NRYNHNRVSLEDLLTLE 219
+G N +K +++ D + Y D N F + R+ + ++ + TL
Sbjct: 7 IGAKNTLEYKVYIEKDGKPVSAFHDIPLYADKENNIFNMVVEIPRWTNAKLEITKEETLN 66
Query: 220 NAVLDTRQSDLRLYSNVFP 238
+ DT++ LR N FP
Sbjct: 67 PIIQDTKKGKLRFVRNCFP 85
>pdb|1WGJ|B Chain B, Structure Of Inorganic Pyrophosphatase
pdb|1E6A|A Chain A, Fluoride-Inhibited Substrate Complex Of Saccharomyces
Cerevisiae Inorganic Pyrophosphatase
pdb|1WGJ|A Chain A, Structure Of Inorganic Pyrophosphatase
pdb|1E6A|B Chain B, Fluoride-Inhibited Substrate Complex Of Saccharomyces
Cerevisiae Inorganic Pyrophosphatase
pdb|1WGI|A Chain A, Structure Of Inorganic Pyrophosphatase
pdb|1WGI|B Chain B, Structure Of Inorganic Pyrophosphatase
Length = 286
Score = 26.6 bits (57), Expect = 3.9
Identities = 18/79 (22%), Positives = 33/79 (40%), Gaps = 10/79 (12%)
Query: 170 LGLANDYYFKDFLDADNE---------CYLDVSNAAFQRYLH-NRYNHNRVSLEDLLTLE 219
+G N +K +++ D + Y D N F + R+ + ++ + TL
Sbjct: 7 IGAKNTLEYKVYIEKDGKPVSAFHDIPLYADKENNIFNMVVEIPRWTNAKLEITKEETLN 66
Query: 220 NAVLDTRQSDLRLYSNVFP 238
+ DT++ LR N FP
Sbjct: 67 PIIQDTKKGKLRFVRNCFP 85
>pdb|117E|A Chain A, The R78k And D117e Active Site Variants Of Saccharomyces
Cerevisiae Soluble Inorganic Pyrophosphatase: Structural
Studies And Mechanistic Implications
pdb|117E|B Chain B, The R78k And D117e Active Site Variants Of Saccharomyces
Cerevisiae Soluble Inorganic Pyrophosphatase: Structural
Studies And Mechanistic Implications
Length = 286
Score = 26.6 bits (57), Expect = 3.9
Identities = 18/79 (22%), Positives = 33/79 (40%), Gaps = 10/79 (12%)
Query: 170 LGLANDYYFKDFLDADNE---------CYLDVSNAAFQRYLH-NRYNHNRVSLEDLLTLE 219
+G N +K +++ D + Y D N F + R+ + ++ + TL
Sbjct: 7 IGAKNTLEYKVYIEKDGKPVSAFHDIPLYADKENNIFNMVVEIPRWTNAKLEITKEETLN 66
Query: 220 NAVLDTRQSDLRLYSNVFP 238
+ DT++ LR N FP
Sbjct: 67 PIIQDTKKGKLRFVRNCFP 85
>pdb|1E9G|A Chain A, Structure Of Inorganic Pyrophosphatase
Length = 286
Score = 26.6 bits (57), Expect = 3.9
Identities = 18/79 (22%), Positives = 33/79 (40%), Gaps = 10/79 (12%)
Query: 170 LGLANDYYFKDFLDADNE---------CYLDVSNAAFQRYLH-NRYNHNRVSLEDLLTLE 219
+G N +K +++ D + Y D N F + R+ + ++ + TL
Sbjct: 7 IGAKNTLEYKVYIEKDGKPVSAFHDIPLYADKENNIFNMVVEIPRWTNAKLEITKEETLN 66
Query: 220 NAVLDTRQSDLRLYSNVFP 238
+ DT++ LR N FP
Sbjct: 67 PIIQDTKKGKLRFVRNCFP 85
>pdb|1HUJ|A Chain A, Refined Structure Of Yeast Inorganic Pyrophosphatase And
Its K61r Mutant
pdb|1HUJ|B Chain B, Refined Structure Of Yeast Inorganic Pyrophosphatase And
Its K61r Mutant
Length = 281
Score = 26.2 bits (56), Expect = 5.1
Identities = 18/79 (22%), Positives = 33/79 (40%), Gaps = 10/79 (12%)
Query: 170 LGLANDYYFKDFLDADNE---------CYLDVSNAAFQRYLH-NRYNHNRVSLEDLLTLE 219
+G N +K +++ D + Y D N F + R+ + ++ + TL
Sbjct: 7 IGAKNTLEYKVYIEKDGKPVSAFHDIPLYADKENNIFNMVVEIPRWTNAKLEITREETLN 66
Query: 220 NAVLDTRQSDLRLYSNVFP 238
+ DT++ LR N FP
Sbjct: 67 PIIQDTKKGKLRFVRNCFP 85
>pdb|1C72|A Chain A, Tyr115, Gln165 And Trp209 Contribute To The
1,2-Epoxy-3-(P- Nitrophenoxy)propane Conjugating
Activities Of Glutathione S-Transferase Cgstm1-1
pdb|1C72|B Chain B, Tyr115, Gln165 And Trp209 Contribute To The
1,2-Epoxy-3-(P- Nitrophenoxy)propane Conjugating
Activities Of Glutathione S-Transferase Cgstm1-1
pdb|1C72|C Chain C, Tyr115, Gln165 And Trp209 Contribute To The
1,2-Epoxy-3-(P- Nitrophenoxy)propane Conjugating
Activities Of Glutathione S-Transferase Cgstm1-1
pdb|1C72|D Chain D, Tyr115, Gln165 And Trp209 Contribute To The
1,2-Epoxy-3-(P- Nitrophenoxy)propane Conjugating
Activities Of Glutathione S-Transferase Cgstm1-1
Length = 219
Score = 26.2 bits (56), Expect = 5.1
Identities = 25/79 (31%), Positives = 38/79 (47%), Gaps = 8/79 (10%)
Query: 185 DNECYLDVSNAAFQRYL---HNRYNHNRVSLEDLLTLENAVLDTRQSDLRL-YSNVFPTL 240
D + L SNA RY+ HN V + + LEN ++D R + RL YS F L
Sbjct: 64 DGDVKLTQSNAIL-RYIARKHNMCGETEVEKQRVDVLENHLMDLRMAFARLCYSPDFEKL 122
Query: 241 RTSRHGLFYTQKGKIKRLN 259
+ + L GK+++L+
Sbjct: 123 KPAYLELL---PGKLRQLS 138
>pdb|1E9G|B Chain B, Structure Of Inorganic Pyrophosphatase
Length = 286
Score = 26.2 bits (56), Expect = 5.1
Identities = 18/79 (22%), Positives = 33/79 (40%), Gaps = 10/79 (12%)
Query: 170 LGLANDYYFKDFLDADNE---------CYLDVSNAAFQRYLH-NRYNHNRVSLEDLLTLE 219
+G N +K +++ D + Y D N F + R+ + ++ + TL
Sbjct: 7 IGAKNTLEYKVYIEKDGKPVSAFHDIPLYADKENNIFNMVVEIPRWTNAKLEITKEETLN 66
Query: 220 NAVLDTRQSDLRLYSNVFP 238
+ DT++ LR N FP
Sbjct: 67 PIIQDTKKGALRFVRNCFP 85
>pdb|8PRK|B Chain B, The R78k And D117e Active Site Variants Of Saccharomyces
Cerevisiae Soluble Inorganic Pyrophosphatase: Structural
Studies And Mechanistic Implications
pdb|8PRK|A Chain A, The R78k And D117e Active Site Variants Of Saccharomyces
Cerevisiae Soluble Inorganic Pyrophosphatase: Structural
Studies And Mechanistic Implications
Length = 287
Score = 25.4 bits (54), Expect = 8.7
Identities = 17/79 (21%), Positives = 33/79 (41%), Gaps = 10/79 (12%)
Query: 170 LGLANDYYFKDFLDADNE---------CYLDVSNAAFQRYLH-NRYNHNRVSLEDLLTLE 219
+G N +K +++ D + Y D N F + R+ + ++ + TL
Sbjct: 8 IGAKNTLEYKVYIEKDGKPVSAFHDIPLYADKENNIFNMVVEIPRWTNAKLEITKEETLN 67
Query: 220 NAVLDTRQSDLRLYSNVFP 238
+ DT++ L+ N FP
Sbjct: 68 PIIQDTKKGKLKFVRNCFP 86
>pdb|1GSU|A Chain A, An Avian Class-Mu Glutathione S-Transferase, Cgstm1-1 At
1.94 Angstrom Resolution
pdb|1GSU|B Chain B, An Avian Class-Mu Glutathione S-Transferase, Cgstm1-1 At
1.94 Angstrom Resolution
Length = 219
Score = 25.4 bits (54), Expect = 8.7
Identities = 25/81 (30%), Positives = 40/81 (48%), Gaps = 12/81 (14%)
Query: 185 DNECYLDVSNAAFQRYL---HNRYNHNRVSLEDLLTLENAVLDTRQSDLRL-YSNVFPTL 240
D + L SNA RY+ HN V + + LEN ++D R + RL YS F L
Sbjct: 64 DGDVKLTQSNAIL-RYIARKHNMCGETEVEKQRVDVLENHLMDLRMAFARLCYSPDFEKL 122
Query: 241 RTSRHGLFYTQK--GKIKRLN 259
+ + Y ++ GK+++L+
Sbjct: 123 KPA-----YLEQLPGKLRQLS 138
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 0.142 0.418
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,818,376
Number of Sequences: 13198
Number of extensions: 76780
Number of successful extensions: 171
Number of sequences better than 10.0: 13
Number of HSP's better than 10.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 163
Number of HSP's gapped (non-prelim): 14
length of query: 312
length of database: 2,899,336
effective HSP length: 88
effective length of query: 224
effective length of database: 1,737,912
effective search space: 389292288
effective search space used: 389292288
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)