BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
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.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 021167
(316 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1G55|A Chain A, Structure Of Human Dnmt2, An Enigmatic Dna
Methyltransferase Homologue
Length = 343
Score = 179 bits (453), Expect = 2e-45, Method: Compositional matrix adjust.
Identities = 116/320 (36%), Positives = 166/320 (51%), Gaps = 65/320 (20%)
Query: 8 LLSPPCQPYTRQGLQKQSSDARAFSFLKILELIPHTVKPPHMLFVENVVGFETSDTHAKM 67
L+SPPCQP+TR G Q +D+R SFL IL+++P K P + +ENV GFE S T +
Sbjct: 73 LMSPPCQPFTRIGRQGDMTDSRTNSFLHILDILPRLQKLPKYILLENVKGFEVSSTRDLL 132
Query: 68 IEILANSDYLTQEFILSPLQFGVPYSRPRYFCLAK--RKPLSFRCQLLNNQLLRSPSPLL 125
I+ + N + QEF+LSP G+P SR RYF +AK +PL F+ +P +L
Sbjct: 133 IQTIENXGFQYQEFLLSPTSLGIPNSRLRYFLIAKLQSEPLPFQ----------APGQVL 182
Query: 126 GNDDMTVITKHDQPDDSWDKLLESCDPVERFLEFSNSGDQVNTETGFLSTGTAAVDDFGA 185
I + +Q D S ++ FLE DD
Sbjct: 183 MEFPKIEIHRKNQQDSDL-----SVKMLKDFLE----------------------DD--- 212
Query: 186 AEETVEVDRCVSIDHFLVPLSLIERWGSAMDIVYPDSKRCCCFTKSYYRYVKGTGSLLAT 245
++ +L+P + R+ +DIV P +R CFTK Y Y++GTGS+L T
Sbjct: 213 ----------TDVNQYLLPPKSLLRYALLLDIVQPTXRRSVCFTKGYGSYIEGTGSVLQT 262
Query: 246 ---VQPKNKGKAS---SLKEQ-------HLRYFTPREVANLHSFPGDFQFPHHLSLRQRY 292
VQ +N K+ S +EQ LRYFTP+E+ANL FP +F FP ++++QRY
Sbjct: 263 AEDVQVENIYKSLTNLSQEEQITKLLILKLRYFTPKEIANLLGFPPEFGFPEKITVKQRY 322
Query: 293 ALLGNSLSIAVVAPLLQYLF 312
LLGNSL++ VVA L++ L+
Sbjct: 323 RLLGNSLNVHVVAKLIKILY 342
>pdb|4H0N|A Chain A, Crystal Structure Of Spodoptera Frugiperda Dnmt2
E260a/e261a/k263a Mutant
pdb|4H0N|B Chain B, Crystal Structure Of Spodoptera Frugiperda Dnmt2
E260a/e261a/k263a Mutant
pdb|4H0N|C Chain C, Crystal Structure Of Spodoptera Frugiperda Dnmt2
E260a/e261a/k263a Mutant
pdb|4H0N|D Chain D, Crystal Structure Of Spodoptera Frugiperda Dnmt2
E260a/e261a/k263a Mutant
Length = 333
Score = 132 bits (331), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 101/329 (30%), Positives = 142/329 (43%), Gaps = 82/329 (24%)
Query: 2 YGAHAWLLSPPCQPYTRQGLQKQSSDARAFSFLKILELIPHTVKPPHMLFVENVVGFETS 61
+ L+SPPCQP+TR G +D R SFL ++ ++ ++L +ENV GFE S
Sbjct: 68 WNVDTILMSPPCQPFTRNGKYLDDNDPRTNSFLYLIGILDQLDNVDYIL-MENVKGFENS 126
Query: 62 DTHAKMIEILANSDYLTQEFILSPLQFGVPYSRPRYFCLAKRKPLSFRCQLLNNQLLRSP 121
I+ L +++ QEF+L P GVP SR L + C N L
Sbjct: 127 TVRNLFIDKLKECNFIYQEFLLCPSTVGVPNSR-----------LRYYCTARRNNL---- 171
Query: 122 SPLLGNDDMTVITKHDQPDDSWDKLLESCDPVERFLEFSNSGDQVNTETGFLSTGTAAVD 181
+W P +R E T
Sbjct: 172 --------------------TW--------PFKRRDEII----------------TRLPK 187
Query: 182 DFG---AAEETVEVDRCVSIDHFLVPLSLIERWGSAMDIVYPDSKRCCCFTKSYYRYVKG 238
DFG + E +E D + FLVP ++ R DI Y SKR CCFTK+Y Y G
Sbjct: 188 DFGVPHSLESIIEED---VDEKFLVPEKML-RCAKVFDICYKTSKRSCCFTKAYTHYADG 243
Query: 239 TGSLL-------------ATVQPKNKGK--ASSLKEQHLRYFTPREVANLHSFPGDFQFP 283
TGS+ A Q + G+ KE LRYFTP+EV + FP + P
Sbjct: 244 TGSIFTDKPREVVQKCYAAAAQNEIGGEKFVELFKELKLRYFTPKEVLMIMCFPKSYNLP 303
Query: 284 HHLSLRQRYALLGNSLSIAVVAPLLQYLF 312
++S++Q Y LLGNS+++ V++ LL+ LF
Sbjct: 304 TNISMKQCYRLLGNSVNVKVISELLKILF 332
>pdb|3QV2|A Chain A, Structure Analysis Of Entamoeba Histolytica
Methyltransferase Ehmeth
Length = 327
Score = 95.1 bits (235), Expect = 4e-20, Method: Compositional matrix adjust.
Identities = 50/117 (42%), Positives = 71/117 (60%), Gaps = 3/117 (2%)
Query: 199 DHFLVPLSLIERWGSAMDIVYPDSKRCCCFTKSYYRYVKGTGSLLATVQPK--NKGKASS 256
+ + +P LI + G DIV D KR CCFTKSY + V+GTGS+ ++P KA
Sbjct: 206 ESYSIPSDLILKKGMLFDIVGKDDKRTCCFTKSYTKIVEGTGSIYCPIEPHFIPVKKAED 265
Query: 257 LKEQHLRYFTPREVANLHSFPGDFQFP-HHLSLRQRYALLGNSLSIAVVAPLLQYLF 312
L ++LRYFTP E+ +H F +F L+ +Q+Y LGNS+S V+A L++YLF
Sbjct: 266 LLNKNLRYFTPNEIKKIHGFSSNFTTQIDGLTDKQQYQCLGNSVSCFVIAQLMEYLF 322
Score = 79.3 bits (194), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 38/113 (33%), Positives = 61/113 (53%), Gaps = 3/113 (2%)
Query: 3 GAHAWLLSPPCQPYTRQGLQKQS--SDARAFSFLKIL-ELIPHTVKPPHMLFVENVVGFE 59
+ W +SPPCQPY + K +D RA S L + +++P+ + P +F+ENV F+
Sbjct: 76 NCNTWFMSPPCQPYNNSIMSKHKDINDPRAKSVLHLYRDILPYLINKPKHIFIENVPLFK 135
Query: 60 TSDTHAKMIEILANSDYLTQEFILSPLQFGVPYSRPRYFCLAKRKPLSFRCQL 112
S ++ IL + Y ++ I SP+ G+P SR RY+ +A+ P QL
Sbjct: 136 ESLVFKEIYNILIKNQYYIKDIICSPIDIGIPNSRTRYYVMARLTPFKNEIQL 188
>pdb|2UYH|A Chain A, Hhai Dna Methyltransferase S87q-Q237s Mutant Complex With
13mer Gcgc-Gmgc Oligonucleotide And Sah
Length = 327
Score = 58.9 bits (141), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 78/309 (25%), Positives = 113/309 (36%), Gaps = 73/309 (23%)
Query: 12 PCQPYTRQGLQKQSSDARAFSFLKILELIPHTVKPPHMLFVENVVGFETSDTHAKMIEIL 71
PCQ ++ QG QK D+R F I ++ K P ++F+ENV F + D + +E++
Sbjct: 80 PCQAFSIQGKQKGFEDSRGTLFFDIARIVRE--KKPKVVFMENVKNFASHD-NGNTLEVV 136
Query: 72 ANS----DYLTQEFILSPLQFGVPYSRPRYFCLAKRKPLSFRCQLLNNQLLRSPSPLLGN 127
N+ DY +L+ L +G+P R R + + R LN Q + P P N
Sbjct: 137 KNTMNELDYSFHAKVLNALDYGIPQKRERIYMICFRND-------LNIQNFQFPKPFELN 189
Query: 128 DDMTVITKHDQPDDSWDKLLESCDPVERFLEFSNSGDQVNTETGFLSTGTAAVDDFGAAE 187
T + PD + L+ ++R D V T T
Sbjct: 190 ---TFVKDLLLPDSEVEHLV-----IDR-------KDLVMTNQEIEQTTPKT-------- 226
Query: 188 ETVEVDRCVSIDHFLVPLSLIERWGSAMDIVYPDSKRCCCFTKSYYRYVKGTGSLLATVQ 247
V L ++ + GS I S R T S Y G G T
Sbjct: 227 ---------------VRLGIVGKGGSGERIY---STRGIAITLSAY----GGGIFAKT-- 262
Query: 248 PKNKGKASSLKEQHLRYFTPREVANLHSFPGDFQFPHHLSLRQRYALLGNSLSIAVVAPL 307
L R PRE A + +P ++ H S Q Y GNS VV +
Sbjct: 263 ------GGYLVNGKTRKLHPRECARVMGYPDSYKV--HPSTSQAYKQFGNS----VVINV 310
Query: 308 LQYLFAQAG 316
LQY+ G
Sbjct: 311 LQYIAYNIG 319
>pdb|1MHT|A Chain A, Covalent Ternary Structure Of Hhai Methyltransferase, Dna
And S-Adenosyl-L-Homocysteine
pdb|3MHT|A Chain A, Ternary Structure Of Hhai Methyltransferase With
Unmodified Dna And Adohcy
pdb|4MHT|A Chain A, Ternary Structure Of Hhai Methyltransferase With Native
Dna And Adohcy
pdb|5MHT|A Chain A, Ternary Structure Of Hhai Methyltransferase With
Hemimethylated Dna And Adohcy
pdb|6MHT|A Chain A, Ternary Structure Of Hhai Methyltransferase With Adohcy
And Dna Containing 4'-Thio-2'deoxycytidine At The Target
pdb|7MHT|A Chain A, Cytosine-Specific Methyltransferase HhaiDNA COMPLEX
pdb|8MHT|A Chain A, Cytosine-Specific Methyltransferase HhaiDNA COMPLEX
pdb|9MHT|A Chain A, Cytosine-specific Methyltransferase Hhai/dna Complex
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|1M0E|A Chain A, Zebularine: A Novel Dna Methylation Inhibitor That Forms A
Covalent Complex With Dna Methyltransferase
pdb|1SKM|A Chain A, Hhai Methyltransferase In Complex With Dna Containing An
Abasic South Carbocyclic Sugar At Its Target Site
pdb|2C7O|A Chain A, Hhai Dna Methyltransferase Complex With 13mer
Oligonucleotide Containing 2-Aminopurine Adjacent To The
Target Base (Pcgc:gmgc) And Sah
pdb|2C7P|A Chain A, Hhai Dna Methyltransferase Complex With Oligonucleotide
Containing 2-Aminopurine Opposite To The Target Base (
Gcgc:gmpc) And Sah
pdb|2C7Q|A Chain A, Hhai Dna Methyltransferase Complex With Oligonucleotide
Containing 2-Aminopurine Outside The Recognition
Sequence (Paired With G) And Sah
pdb|2HR1|A Chain A, Ternary Structure Of Wt M.hhai C5-cytosine Dna
Methyltransferase With Unmodified Dna And Adohcy
pdb|1HMY|A Chain A, Crystal Structure Of The Hhai Dna Methyltransferase
Complexed With S- Adenosyl-L-Methionine
pdb|3EEO|A Chain A, M. Hhai Co-Crystallized With Synthetic Dsdna Containing A
Propane Diol In Place Of The Deoxycytidine Residue
Targeted For Methylation
Length = 327
Score = 55.1 bits (131), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 76/309 (24%), Positives = 111/309 (35%), Gaps = 73/309 (23%)
Query: 12 PCQPYTRQGLQKQSSDARAFSFLKILELIPHTVKPPHMLFVENVVGFETSDTHAKMIEIL 71
PCQ ++ G QK D+R F I ++ K P ++F+ENV F + D + +E++
Sbjct: 80 PCQAFSISGKQKGFEDSRGTLFFDIARIVRE--KKPKVVFMENVKNFASHD-NGNTLEVV 136
Query: 72 ANS----DYLTQEFILSPLQFGVPYSRPRYFCLAKRKPLSFRCQLLNNQLLRSPSPLLGN 127
N+ DY +L+ L +G+P R R + + R LN Q + P P N
Sbjct: 137 KNTMNELDYSFHAKVLNALDYGIPQKRERIYMICFRND-------LNIQNFQFPKPFELN 189
Query: 128 DDMTVITKHDQPDDSWDKLLESCDPVERFLEFSNSGDQVNTETGFLSTGTAAVDDFGAAE 187
T + PD + L+ ++R D V T T
Sbjct: 190 ---TFVKDLLLPDSEVEHLV-----IDR-------KDLVMTNQEIEQTTPKT-------- 226
Query: 188 ETVEVDRCVSIDHFLVPLSLIERWGSAMDIVYPDSKRCCCFTKSYYRYVKGTGSLLATVQ 247
V L ++ + G I S R T S Y G G T
Sbjct: 227 ---------------VRLGIVGKGGQGERIY---STRGIAITLSAY----GGGIFAKT-- 262
Query: 248 PKNKGKASSLKEQHLRYFTPREVANLHSFPGDFQFPHHLSLRQRYALLGNSLSIAVVAPL 307
L R PRE A + +P ++ H S Q Y GNS VV +
Sbjct: 263 ------GGYLVNGKTRKLHPRECARVMGYPDSYKV--HPSTSQAYKQFGNS----VVINV 310
Query: 308 LQYLFAQAG 316
LQY+ G
Sbjct: 311 LQYIAYNIG 319
>pdb|1SVU|A Chain A, Structure Of The Q237w Mutant Of Hhai Dna
Methyltransferase: An Insight Into Protein-Protein
Interactions
pdb|1SVU|B Chain B, Structure Of The Q237w Mutant Of Hhai Dna
Methyltransferase: An Insight Into Protein-Protein
Interactions
Length = 327
Score = 54.3 bits (129), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 30/102 (29%), Positives = 52/102 (50%), Gaps = 7/102 (6%)
Query: 12 PCQPYTRQGLQKQSSDARAFSFLKILELIPHTVKPPHMLFVENVVGFETSDTHAKMIEIL 71
PCQ ++ G QK D+R F I ++ K P ++F+ENV F + D + +E++
Sbjct: 80 PCQAFSISGKQKGFEDSRGTLFFDIARIVRE--KKPKVVFMENVKNFASHD-NGNTLEVV 136
Query: 72 ANS----DYLTQEFILSPLQFGVPYSRPRYFCLAKRKPLSFR 109
N+ DY +L+ L +G+P R R + + R L+ +
Sbjct: 137 KNTMNELDYSFHAKVLNALDYGIPQKRERIYMICFRNDLNIQ 178
>pdb|1FJX|A Chain A, Structure Of Ternary Complex Of Hhai Methyltransferase
Mutant (T250g) In Complex With Dna And Adohcy
pdb|2C7R|A Chain A, Hhai Dna Methyltransferase (T250g Mutant) Complex With
Oligonucleotide Containing 2-Aminopurine As A Target
Base (Gpgc:gmgc) And Sah
Length = 327
Score = 54.3 bits (129), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 30/102 (29%), Positives = 52/102 (50%), Gaps = 7/102 (6%)
Query: 12 PCQPYTRQGLQKQSSDARAFSFLKILELIPHTVKPPHMLFVENVVGFETSDTHAKMIEIL 71
PCQ ++ G QK D+R F I ++ K P ++F+ENV F + D + +E++
Sbjct: 80 PCQAFSISGKQKGFEDSRGTLFFDIARIVRE--KKPKVVFMENVKNFASHD-NGNTLEVV 136
Query: 72 ANS----DYLTQEFILSPLQFGVPYSRPRYFCLAKRKPLSFR 109
N+ DY +L+ L +G+P R R + + R L+ +
Sbjct: 137 KNTMNELDYSFHAKVLNALDYGIPQKRERIYMICFRNDLNIQ 178
>pdb|2ZCJ|A Chain A, Ternary Structure Of The Glu119gln M.Hhai, C5-Cytosine Dna
Methyltransferase, With Unmodified Dna And Adohcy
Length = 327
Score = 53.5 bits (127), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 75/309 (24%), Positives = 111/309 (35%), Gaps = 73/309 (23%)
Query: 12 PCQPYTRQGLQKQSSDARAFSFLKILELIPHTVKPPHMLFVENVVGFETSDTHAKMIEIL 71
PCQ ++ G QK D+R F I ++ K P ++F++NV F + D + +E++
Sbjct: 80 PCQAFSISGKQKGFEDSRGTLFFDIARIVRE--KKPKVVFMQNVKNFASHD-NGNTLEVV 136
Query: 72 ANS----DYLTQEFILSPLQFGVPYSRPRYFCLAKRKPLSFRCQLLNNQLLRSPSPLLGN 127
N+ DY +L+ L +G+P R R + + R LN Q + P P N
Sbjct: 137 KNTMNELDYSFHAKVLNALDYGIPQKRERIYMICFRND-------LNIQNFQFPKPFELN 189
Query: 128 DDMTVITKHDQPDDSWDKLLESCDPVERFLEFSNSGDQVNTETGFLSTGTAAVDDFGAAE 187
T + PD + L+ ++R D V T T
Sbjct: 190 ---TFVKDLLLPDSEVEHLV-----IDR-------KDLVMTNQEIEQTTPKT-------- 226
Query: 188 ETVEVDRCVSIDHFLVPLSLIERWGSAMDIVYPDSKRCCCFTKSYYRYVKGTGSLLATVQ 247
V L ++ + G I S R T S Y G G T
Sbjct: 227 ---------------VRLGIVGKGGQGERIY---STRGIAITLSAY----GGGIFAKT-- 262
Query: 248 PKNKGKASSLKEQHLRYFTPREVANLHSFPGDFQFPHHLSLRQRYALLGNSLSIAVVAPL 307
L R PRE A + +P ++ H S Q Y GNS VV +
Sbjct: 263 ------GGYLVNGKTRKLHPRECARVMGYPDSYKV--HPSTSQAYKQFGNS----VVINV 310
Query: 308 LQYLFAQAG 316
LQY+ G
Sbjct: 311 LQYIAYNIG 319
>pdb|2UZ4|A Chain A, Hhai Dna Methyltransferase R165n Mutant Complex With 13mer
Gcgc-Gmgc Oligonucleotide And Sah
Length = 327
Score = 52.8 bits (125), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 75/309 (24%), Positives = 110/309 (35%), Gaps = 73/309 (23%)
Query: 12 PCQPYTRQGLQKQSSDARAFSFLKILELIPHTVKPPHMLFVENVVGFETSDTHAKMIEIL 71
PCQ ++ G QK D+R F I ++ K P ++F+ENV F + D + +E++
Sbjct: 80 PCQAFSISGKQKGFEDSRGTLFFDIARIVRE--KKPKVVFMENVKNFASHD-NGNTLEVV 136
Query: 72 ANS----DYLTQEFILSPLQFGVPYSRPRYFCLAKRKPLSFRCQLLNNQLLRSPSPLLGN 127
N+ DY +L+ L +G+P R + + R LN Q + P P N
Sbjct: 137 KNTMNELDYSFHAKVLNALDYGIPQKRENIYMICFRND-------LNIQNFQFPKPFELN 189
Query: 128 DDMTVITKHDQPDDSWDKLLESCDPVERFLEFSNSGDQVNTETGFLSTGTAAVDDFGAAE 187
T + PD + L+ ++R D V T T
Sbjct: 190 ---TFVKDLLLPDSEVEHLV-----IDR-------KDLVMTNQEIEQTTPKT-------- 226
Query: 188 ETVEVDRCVSIDHFLVPLSLIERWGSAMDIVYPDSKRCCCFTKSYYRYVKGTGSLLATVQ 247
V L ++ + G I S R T S Y G G T
Sbjct: 227 ---------------VRLGIVGKGGQGERIY---STRGIAITLSAY----GGGIFAKT-- 262
Query: 248 PKNKGKASSLKEQHLRYFTPREVANLHSFPGDFQFPHHLSLRQRYALLGNSLSIAVVAPL 307
L R PRE A + +P ++ H S Q Y GNS VV +
Sbjct: 263 ------GGYLVNGKTRKLHPRECARVMGYPDSYKV--HPSTSQAYKQFGNS----VVINV 310
Query: 308 LQYLFAQAG 316
LQY+ G
Sbjct: 311 LQYIAYNIG 319
>pdb|2UYC|A Chain A, Hhai Dna Methyltransferase R163n Mutant Complex With 13mer
Gcgc-Gmgc Oligonucleotide And Sah
Length = 327
Score = 52.8 bits (125), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 75/309 (24%), Positives = 110/309 (35%), Gaps = 73/309 (23%)
Query: 12 PCQPYTRQGLQKQSSDARAFSFLKILELIPHTVKPPHMLFVENVVGFETSDTHAKMIEIL 71
PCQ ++ G QK D+R F I ++ K P ++F+ENV F + D + +E++
Sbjct: 80 PCQAFSISGKQKGFEDSRGTLFFDIARIVRE--KKPKVVFMENVKNFASHD-NGNTLEVV 136
Query: 72 ANS----DYLTQEFILSPLQFGVPYSRPRYFCLAKRKPLSFRCQLLNNQLLRSPSPLLGN 127
N+ DY +L+ L +G+P R + + R LN Q + P P N
Sbjct: 137 KNTMNELDYSFHAKVLNALDYGIPQKNERIYMICFRND-------LNIQNFQFPKPFELN 189
Query: 128 DDMTVITKHDQPDDSWDKLLESCDPVERFLEFSNSGDQVNTETGFLSTGTAAVDDFGAAE 187
T + PD + L+ ++R D V T T
Sbjct: 190 ---TFVKDLLLPDSEVEHLV-----IDR-------KDLVMTNQEIEQTTPKT-------- 226
Query: 188 ETVEVDRCVSIDHFLVPLSLIERWGSAMDIVYPDSKRCCCFTKSYYRYVKGTGSLLATVQ 247
V L ++ + G I S R T S Y G G T
Sbjct: 227 ---------------VRLGIVGKGGQGERIY---STRGIAITLSAY----GGGIFAKT-- 262
Query: 248 PKNKGKASSLKEQHLRYFTPREVANLHSFPGDFQFPHHLSLRQRYALLGNSLSIAVVAPL 307
L R PRE A + +P ++ H S Q Y GNS VV +
Sbjct: 263 ------GGYLVNGKTRKLHPRECARVMGYPDSYKV--HPSTSQAYKQFGNS----VVINV 310
Query: 308 LQYLFAQAG 316
LQY+ G
Sbjct: 311 LQYIAYNIG 319
>pdb|2Z6U|A Chain A, Ternary Structure Of The Glu119ala M.Hhai, C5-Cytosine Dna
Methyltransferase, With Unmodified Dna And Adohcy
Length = 327
Score = 52.8 bits (125), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 75/309 (24%), Positives = 110/309 (35%), Gaps = 73/309 (23%)
Query: 12 PCQPYTRQGLQKQSSDARAFSFLKILELIPHTVKPPHMLFVENVVGFETSDTHAKMIEIL 71
PCQ ++ G QK D+R F I ++ K P ++F+ NV F + D + +E++
Sbjct: 80 PCQAFSISGKQKGFEDSRGTLFFDIARIVRE--KKPKVVFMANVKNFASHD-NGNTLEVV 136
Query: 72 ANS----DYLTQEFILSPLQFGVPYSRPRYFCLAKRKPLSFRCQLLNNQLLRSPSPLLGN 127
N+ DY +L+ L +G+P R R + + R LN Q + P P N
Sbjct: 137 KNTMNELDYSFHAKVLNALDYGIPQKRERIYMICFRND-------LNIQNFQFPKPFELN 189
Query: 128 DDMTVITKHDQPDDSWDKLLESCDPVERFLEFSNSGDQVNTETGFLSTGTAAVDDFGAAE 187
T + PD + L+ ++R D V T T
Sbjct: 190 ---TFVKDLLLPDSEVEHLV-----IDR-------KDLVMTNQEIEQTTPKT-------- 226
Query: 188 ETVEVDRCVSIDHFLVPLSLIERWGSAMDIVYPDSKRCCCFTKSYYRYVKGTGSLLATVQ 247
V L ++ + G I S R T S Y G G T
Sbjct: 227 ---------------VRLGIVGKGGQGERIY---STRGIAITLSAY----GGGIFAKT-- 262
Query: 248 PKNKGKASSLKEQHLRYFTPREVANLHSFPGDFQFPHHLSLRQRYALLGNSLSIAVVAPL 307
L R PRE A + +P ++ H S Q Y GNS VV +
Sbjct: 263 ------GGYLVNGKTRKLHPRECARVMGYPDSYKV--HPSTSQAYKQFGNS----VVINV 310
Query: 308 LQYLFAQAG 316
LQY+ G
Sbjct: 311 LQYIAYNIG 319
>pdb|2Z6Q|A Chain A, Ternary Structure Of Arg165ala M.Hhai C5-Cytosine Dna
Methyltransferase With Unmodified Dna And Adohcy
Length = 327
Score = 52.4 bits (124), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 75/309 (24%), Positives = 110/309 (35%), Gaps = 73/309 (23%)
Query: 12 PCQPYTRQGLQKQSSDARAFSFLKILELIPHTVKPPHMLFVENVVGFETSDTHAKMIEIL 71
PCQ ++ G QK D+R F I ++ K P ++F+ENV F + D + +E++
Sbjct: 80 PCQAFSISGKQKGFEDSRGTLFFDIARIVRE--KKPKVVFMENVKNFASHD-NGNTLEVV 136
Query: 72 ANS----DYLTQEFILSPLQFGVPYSRPRYFCLAKRKPLSFRCQLLNNQLLRSPSPLLGN 127
N+ DY +L+ L +G+P R + + R LN Q + P P N
Sbjct: 137 KNTMNELDYSFHAKVLNALDYGIPQKREAIYMICFRND-------LNIQNFQFPKPFELN 189
Query: 128 DDMTVITKHDQPDDSWDKLLESCDPVERFLEFSNSGDQVNTETGFLSTGTAAVDDFGAAE 187
T + PD + L+ ++R D V T T
Sbjct: 190 ---TFVKDLLLPDSEVEHLV-----IDR-------KDLVMTNQEIEQTTPKT-------- 226
Query: 188 ETVEVDRCVSIDHFLVPLSLIERWGSAMDIVYPDSKRCCCFTKSYYRYVKGTGSLLATVQ 247
V L ++ + G I S R T S Y G G T
Sbjct: 227 ---------------VRLGIVGKGGQGERIY---STRGIAITLSAY----GGGIFAKT-- 262
Query: 248 PKNKGKASSLKEQHLRYFTPREVANLHSFPGDFQFPHHLSLRQRYALLGNSLSIAVVAPL 307
L R PRE A + +P ++ H S Q Y GNS VV +
Sbjct: 263 ------GGYLVNGKTRKLHPRECARVMGYPDSYKV--HPSTSQAYKQFGNS----VVINV 310
Query: 308 LQYLFAQAG 316
LQY+ G
Sbjct: 311 LQYIAYNIG 319
>pdb|2I9K|A Chain A, Engineered Extrahelical Base Destabilization Enhances
Sequence Discrimination Of Dna Methyltransferase M.Hhai
Length = 327
Score = 52.0 bits (123), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 75/309 (24%), Positives = 110/309 (35%), Gaps = 73/309 (23%)
Query: 12 PCQPYTRQGLQKQSSDARAFSFLKILELIPHTVKPPHMLFVENVVGFETSDTHAKMIEIL 71
PCQ ++ G QK D+R F I ++ K P ++F+ENV + D + +E++
Sbjct: 80 PCQAFSISGKQKGFEDSRGTLFFDIARIVRE--KKPKVVFMENVKNAASHD-NGNTLEVV 136
Query: 72 ANS----DYLTQEFILSPLQFGVPYSRPRYFCLAKRKPLSFRCQLLNNQLLRSPSPLLGN 127
N+ DY +L+ L +G+P R R + + R LN Q + P P N
Sbjct: 137 KNTMNELDYSFHAKVLNALDYGIPQKRERIYMICFRND-------LNIQNFQFPKPFELN 189
Query: 128 DDMTVITKHDQPDDSWDKLLESCDPVERFLEFSNSGDQVNTETGFLSTGTAAVDDFGAAE 187
T + PD + L+ ++R D V T T
Sbjct: 190 ---TFVKDLLLPDSEVEHLV-----IDR-------KDLVMTNQEIEQTTPKT-------- 226
Query: 188 ETVEVDRCVSIDHFLVPLSLIERWGSAMDIVYPDSKRCCCFTKSYYRYVKGTGSLLATVQ 247
V L ++ + G I S R T S Y G G T
Sbjct: 227 ---------------VRLGIVGKGGQGERIY---STRGIAITLSAY----GGGIFAKT-- 262
Query: 248 PKNKGKASSLKEQHLRYFTPREVANLHSFPGDFQFPHHLSLRQRYALLGNSLSIAVVAPL 307
L R PRE A + +P ++ H S Q Y GNS VV +
Sbjct: 263 ------GGYLVNGKTRKLHPRECARVMGYPDSYKV--HPSTSQAYKQFGNS----VVINV 310
Query: 308 LQYLFAQAG 316
LQY+ G
Sbjct: 311 LQYIAYNIG 319
>pdb|2Z6A|A Chain A, S-Adenosyl-L-Methionine-Dependent Methyl Transfer:
Observable Precatalytic Intermediates During Dna
Cytosine Methylation
Length = 327
Score = 51.6 bits (122), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 75/309 (24%), Positives = 110/309 (35%), Gaps = 73/309 (23%)
Query: 12 PCQPYTRQGLQKQSSDARAFSFLKILELIPHTVKPPHMLFVENVVGFETSDTHAKMIEIL 71
P Q ++ G QK D+R F I ++ K P ++F+ENV F + D + +E++
Sbjct: 80 PAQAFSISGKQKGFEDSRGTLFFDIARIVRE--KKPKVVFMENVKNFASHD-NGNTLEVV 136
Query: 72 ANS----DYLTQEFILSPLQFGVPYSRPRYFCLAKRKPLSFRCQLLNNQLLRSPSPLLGN 127
N+ DY +L+ L +G+P R R + + R LN Q + P P N
Sbjct: 137 KNTMNELDYSFHAKVLNALDYGIPQKRERIYMICFRND-------LNIQNFQFPKPFELN 189
Query: 128 DDMTVITKHDQPDDSWDKLLESCDPVERFLEFSNSGDQVNTETGFLSTGTAAVDDFGAAE 187
T + PD + L+ ++R D V T T
Sbjct: 190 ---TFVKDLLLPDSEVEHLV-----IDR-------KDLVMTNQEIEQTTPKT-------- 226
Query: 188 ETVEVDRCVSIDHFLVPLSLIERWGSAMDIVYPDSKRCCCFTKSYYRYVKGTGSLLATVQ 247
V L ++ + G I S R T S Y G G T
Sbjct: 227 ---------------VRLGIVGKGGQGERIY---STRGIAITLSAY----GGGIFAKT-- 262
Query: 248 PKNKGKASSLKEQHLRYFTPREVANLHSFPGDFQFPHHLSLRQRYALLGNSLSIAVVAPL 307
L R PRE A + +P ++ H S Q Y GNS VV +
Sbjct: 263 ------GGYLVNGKTRKLHPRECARVMGYPDSYKV--HPSTSQAYKQFGNS----VVINV 310
Query: 308 LQYLFAQAG 316
LQY+ G
Sbjct: 311 LQYIAYNIG 319
>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 = 44.7 bits (104), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 69/299 (23%), Positives = 109/299 (36%), Gaps = 63/299 (21%)
Query: 10 SPPCQPYTRQGLQKQSSDARAFSFLKILELIPHTVKPPHMLFVENVVGFETSDTHAK--- 66
PPCQ ++ G + D R F + + ++ K P ENV G + H K
Sbjct: 68 GPPCQSWSEGGSLRGIDDPRGKLFYEYIRILKQ--KKPIFFLAENVKGM-MAQRHNKAVQ 124
Query: 67 -MIEILANSDYLTQEFILSPLQFGVPYSRPRYFCLAKRKPLSFRCQLLNNQLLRSPSPLL 125
I+ N+ Y +L+ +GV R R F + FR +L N L P P L
Sbjct: 125 EFIQEFDNAGYDVHIILLNANDYGVAQDRKRVFYIG------FRKELNINYL--PPIPHL 176
Query: 126 GNDDMTVITKHDQPDDSWDKLLESCDPVERFLEFSNSGDQV---NTETGFLSTGTAAVDD 182
K D WD +P+ + +G++ N E
Sbjct: 177 --------IKPTFKDVIWDL---KDNPIPALDKNKTNGNKCIYPNHEY------------ 213
Query: 183 FGAAEETVEVDRCVSIDHFLVPLSLIERWGSAMDIVYPDSKRCCCFTKSYYRYVKGTGSL 242
F + T+ + R + + +W V ++C ++ +
Sbjct: 214 FIGSYSTIFMSR-----------NRVRQWNEPAFTVQASGRQCQLHPQA---------PV 253
Query: 243 LATVQPKNKGKASSLKEQHLRYFTPREVANLHSFPGDFQFPHHLSLRQRYALLGNSLSI 301
+ V KN K KE R T RE A + FP DF F H+ SL Y ++GN++ +
Sbjct: 254 MLKVS-KNLNKFVEGKEHLYRRLTVRECARVQGFPDDFIF-HYESLNDGYKMIGNAVPV 310
>pdb|3G7U|A Chain A, Crystal Structure Of Putative Dna Modification
Methyltransferase Encoded Within Prophage Cp-933r
(E.Coli)
Length = 376
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 63/310 (20%), Positives = 119/310 (38%), Gaps = 30/310 (9%)
Query: 10 SPPCQPYTRQGLQKQSSDARAFSFLKILELIPHTVKPPHMLFVENVVGF---ETSDTHAK 66
PPCQ ++ G + D+R ++ L+ P ENV G + S K
Sbjct: 78 GPPCQGFSSIG-KGNPDDSRNQLYMHFYRLVSEL--QPLFFLAENVPGIMQEKYSGIRNK 134
Query: 67 MIEILANSDYLTQEFILSPLQFGVPYSRPRYFCLAKRKPLSFRCQLLNNQLL-RSPSPLL 125
+++ + + +G P R RYF + +K S + + + + + P+
Sbjct: 135 AFNLVSGDYDILDPIKVKASDYGAPTIRTRYFFIGVKK--SLKLDISDEVFMPKMIDPVT 192
Query: 126 GNDDMTVITKHDQPDDSWDKLLESCDPVERFLEFSNSGDQVNTETGFLSTGTAAVDDFGA 185
D + + D D +W ES R ++ G G + +
Sbjct: 193 VKDALYGLP--DIIDANWQSDSESW----RTIKKDRKGGFYEKLWGQIPRNVGDTESIAK 246
Query: 186 AEETVEVDRCVSIDHFLVPLSLIERWGSAMDIVYPDSKRCCCFTKSYYRYVKGTGSLLAT 245
+ + + C H + + ER+ S + + ++ + ++S G L
Sbjct: 247 LKNNI-ISGCTGTLHSKI---VQERYAS---LSFGETDKI---SRSTRLDPNGFCPTLRA 296
Query: 246 VQPKNKGKASSLKE---QHLRYFTPREVANLHSFPGDFQFPHHLSLRQRYALLGNSLSIA 302
++KG +++ H R TPRE A L FP F+F H++ + +GNS+S
Sbjct: 297 GTARDKGSFQAVRPIHPYHPRVITPREAARLQGFPDWFRF--HVTKWHSFRQIGNSVSPI 354
Query: 303 VVAPLLQYLF 312
V +L+ L+
Sbjct: 355 VAEYILKGLY 364
>pdb|3UBT|Y Chain Y, Crystal Structure Of C71s Mutant Of Dna Cytosine-5
Methyltransferase M.Haeiii Bound To Dna
pdb|3UBT|A Chain A, Crystal Structure Of C71s Mutant Of Dna Cytosine-5
Methyltransferase M.Haeiii Bound To Dna
pdb|3UBT|B Chain B, Crystal Structure Of C71s Mutant Of Dna Cytosine-5
Methyltransferase M.Haeiii Bound To Dna
Length = 331
Score = 38.1 bits (87), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 21/53 (39%), Positives = 28/53 (52%), Gaps = 1/53 (1%)
Query: 249 KNKGKASSLKEQHLRYFTPREVANLHSFPGDFQFPHHLSLRQRYALLGNSLSI 301
KN K KE R T RE A + FP DF F H+ SL Y ++GN++ +
Sbjct: 259 KNLNKFVEGKEHLYRRLTVRECARVQGFPDDFIF-HYESLNDGYKMIGNAVPV 310
>pdb|4DKJ|A Chain A, Cpg Specific Methyltransferase In Complex With Target Dna
Length = 403
Score = 35.8 bits (81), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 28/106 (26%), Positives = 52/106 (49%), Gaps = 12/106 (11%)
Query: 10 SPPCQPYTRQGLQK---QSSDARA---FSFLKILELIPHTVK----PPHMLF--VENVVG 57
S PCQ + QGLQK + + R+ + +ILE I ++ P ++L V+N++
Sbjct: 132 SFPCQDLSVQGLQKGIDKELNTRSGLLWEIERILEEIKNSFSKEEMPKYLLMENVKNLLS 191
Query: 58 FETSDTHAKMIEILANSDYLTQEFILSPLQFGVPYSRPRYFCLAKR 103
+ + ++ L Y ++ ++L+ F +R R FCL+ R
Sbjct: 192 HKNKKNYNTWLKQLEKFGYKSKTYLLNSKNFDNCQNRERVFCLSIR 237
>pdb|3ME5|A Chain A, Crystal Structure Of Putative Dna Cytosine Methylase From
Shigella Flexneri 2a Str. 2457t
Length = 482
Score = 33.1 bits (74), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 30/93 (32%), Positives = 39/93 (41%), Gaps = 6/93 (6%)
Query: 212 GSAMDIVYPDSKRCCCFTKSYYRYVKGTGSLLATVQPKNKGKAS---SLKEQHL-RYFTP 267
G VYP++ + T S Y G L+ G+ L +QH R TP
Sbjct: 347 GFGYGXVYPNNPQSVTRTLSARYYKDGAEILIDRGWDXATGEKDFDDPLNQQHRPRRLTP 406
Query: 268 REVANLHSF--PGDFQFPHHLSLRQRYALLGNS 298
RE A L F PG+ +F +S Q Y GNS
Sbjct: 407 RECARLXGFEAPGEAKFRIPVSDTQAYRQFGNS 439
>pdb|3LX6|A Chain A, Crystal Structure Of Putative Dna Cytosine Methylase From
Shigella Flexneri 2a Str. 2457t
pdb|3LX6|B Chain B, Crystal Structure Of Putative Dna Cytosine Methylase From
Shigella Flexneri 2a Str. 2457t
Length = 410
Score = 33.1 bits (74), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 30/93 (32%), Positives = 39/93 (41%), Gaps = 6/93 (6%)
Query: 212 GSAMDIVYPDSKRCCCFTKSYYRYVKGTGSLLATVQPKNKGKAS---SLKEQHL-RYFTP 267
G VYP++ + T S Y G L+ G+ L +QH R TP
Sbjct: 285 GFGYGXVYPNNPQSVTRTLSARYYKDGAEILIDRGWDXATGEKDFDDPLNQQHRPRRLTP 344
Query: 268 REVANLHSF--PGDFQFPHHLSLRQRYALLGNS 298
RE A L F PG+ +F +S Q Y GNS
Sbjct: 345 RECARLXGFEAPGEAKFRIPVSDTQAYRQFGNS 377
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.322 0.137 0.419
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,616,305
Number of Sequences: 62578
Number of extensions: 389676
Number of successful extensions: 683
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 647
Number of HSP's gapped (non-prelim): 27
length of query: 316
length of database: 14,973,337
effective HSP length: 99
effective length of query: 217
effective length of database: 8,778,115
effective search space: 1904850955
effective search space used: 1904850955
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (24.3 bits)