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= 016377
(390 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 = 233 bits (594), Expect = 1e-61, Method: Compositional matrix adjust.
Identities = 146/392 (37%), Positives = 208/392 (53%), Gaps = 66/392 (16%)
Query: 11 EAWRVLEFYSGIGGMRYSLMKADVSAQVVEAFDINDKANDVYELNFGH-RPYQGNIQNLT 69
E RVLE YSG+GGM ++L ++ + AQVV A D+N AN+VY+ NF H + I+ +T
Sbjct: 1 EPLRVLELYSGVGGMHHALRESCIPAQVVAAIDVNTVANEVYKYNFPHTQLLAKTIEGIT 60
Query: 70 AAELDMYGAHAWLLSPPCQPYTRQGLQKQSSDARAFSFLKILELIPHTVKPPHMLFVENV 129
E D L+SPPCQP+TR G Q +D+R SFL IL+++P K P + +ENV
Sbjct: 61 LEEFDRLSFDMILMSPPCQPFTRIGRQGDMTDSRTNSFLHILDILPRLQKLPKYILLENV 120
Query: 130 VGFETSDTHAKMIEILANSDYLTQEFILSPLQFGVPYSRPRYFCLAK--RKPLSFRCQLL 187
GFE S T +I+ + N + QEF+LSP G+P SR RYF +AK +PL F
Sbjct: 121 KGFEVSSTRDLLIQTIENXGFQYQEFLLSPTSLGIPNSRLRYFLIAKLQSEPLPF----- 175
Query: 188 NNQLLRSPSPLLGNDDMTVITKHDQPDDSWDKLLESCDPVERFLEFSNSGDQVNTETGFL 247
++P +L I + +Q D S ++ FLE
Sbjct: 176 -----QAPGQVLMEFPKIEIHRKNQQDSDL-----SVKMLKDFLE--------------- 210
Query: 248 STGTAAVDDFGAAEETVEVDRCVSIDHFLVPLSLIERWGSAMDIVYPDSKRCCCFTKSYY 307
DD ++ +L+P + R+ +DIV P +R CFTK Y
Sbjct: 211 -------DD-------------TDVNQYLLPPKSLLRYALLLDIVQPTXRRSVCFTKGYG 250
Query: 308 RYVKGTGSLLAT---VQPKNKGKA---SSLKEQ-------HLRYFTPREVANLHSFPGDF 354
Y++GTGS+L T VQ +N K+ S +EQ LRYFTP+E+ANL FP +F
Sbjct: 251 SYIEGTGSVLQTAEDVQVENIYKSLTNLSQEEQITKLLILKLRYFTPKEIANLLGFPPEF 310
Query: 355 QFPHHLSLRQRYALLGNSLSIAVVAPLLQYLF 386
FP ++++QRY LLGNSL++ VVA L++ L+
Sbjct: 311 GFPEKITVKQRYRLLGNSLNVHVVAKLIKILY 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 = 174 bits (442), Expect = 6e-44, Method: Compositional matrix adjust.
Identities = 127/396 (32%), Positives = 181/396 (45%), Gaps = 83/396 (20%)
Query: 10 GEAWRVLEFYSGIGGMRYSLMKADVSAQVVEAFDINDKANDVYELNFGHRPY-QGNIQNL 68
G + ++LE YSGIGGM + ++ + ++V A DIN AN VY+ NF NIQ L
Sbjct: 1 GMSHKILELYSGIGGMHCAWKESGLDGEIVAAVDINTVANSVYKHNFPETNLLNRNIQQL 60
Query: 69 TAAELDMYGAHAWLLSPPCQPYTRQGLQKQSSDARAFSFLKILELIPHTVKPPHMLFVEN 128
T + + L+SPPCQP+TR G +D R SFL ++ ++ ++L +EN
Sbjct: 61 TPQVIKKWNVDTILMSPPCQPFTRNGKYLDDNDPRTNSFLYLIGILDQLDNVDYIL-MEN 119
Query: 129 VVGFETSDTHAKMIEILANSDYLTQEFILSPLQFGVPYSRPRYFCLAKRKPLSFRCQLLN 188
V GFE S I+ L +++ QEF+L P GVP SR L + C
Sbjct: 120 VKGFENSTVRNLFIDKLKECNFIYQEFLLCPSTVGVPNSR-----------LRYYCTARR 168
Query: 189 NQLLRSPSPLLGNDDMTVITKHDQPDDSWDKLLESCDPVERFLEFSNSGDQVNTETGFLS 248
N L +W P +R D++ T
Sbjct: 169 NNL------------------------TW--------PFKR-------RDEIITRLP--- 186
Query: 249 TGTAAVDDFG---AAEETVEVDRCVSIDHFLVPLSLIERWGSAMDIVYPDSKRCCCFTKS 305
DFG + E +E D + FLVP ++ R DI Y SKR CCFTK+
Sbjct: 187 ------KDFGVPHSLESIIEED---VDEKFLVPEKML-RCAKVFDICYKTSKRSCCFTKA 236
Query: 306 YYRYVKGTGSLL-------------ATVQPKNKGK--ASSLKEQHLRYFTPREVANLHSF 350
Y Y GTGS+ A Q + G+ KE LRYFTP+EV + F
Sbjct: 237 YTHYADGTGSIFTDKPREVVQKCYAAAAQNEIGGEKFVELFKELKLRYFTPKEVLMIMCF 296
Query: 351 PGDFQFPHHLSLRQRYALLGNSLSIAVVAPLLQYLF 386
P + P ++S++Q Y LLGNS+++ V++ LL+ LF
Sbjct: 297 PKSYNLPTNISMKQCYRLLGNSVNVKVISELLKILF 332
>pdb|3QV2|A Chain A, Structure Analysis Of Entamoeba Histolytica
Methyltransferase Ehmeth
Length = 327
Score = 117 bits (292), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 58/176 (32%), Positives = 97/176 (55%), Gaps = 4/176 (2%)
Query: 15 VLEFYSGIGGMRYSLMKADVSAQVV-EAFDINDKANDVYELNFGHRPYQGNIQNLTAAEL 73
V+EF+SGIGG+R S ++ ++ FDIN+ AN +Y NF N+ +++ ++
Sbjct: 13 VIEFFSGIGGLRSSYERSSININATFIPFDINEIANKIYSKNFKEEVQVKNLDSISIKQI 72
Query: 74 DMYGAHAWLLSPPCQPYTRQGLQKQS--SDARAFSFLKIL-ELIPHTVKPPHMLFVENVV 130
+ + W +SPPCQPY + K +D RA S L + +++P+ + P +F+ENV
Sbjct: 73 ESLNCNTWFMSPPCQPYNNSIMSKHKDINDPRAKSVLHLYRDILPYLINKPKHIFIENVP 132
Query: 131 GFETSDTHAKMIEILANSDYLTQEFILSPLQFGVPYSRPRYFCLAKRKPLSFRCQL 186
F+ S ++ IL + Y ++ I SP+ G+P SR RY+ +A+ P QL
Sbjct: 133 LFKESLVFKEIYNILIKNQYYIKDIICSPIDIGIPNSRTRYYVMARLTPFKNEIQL 188
Score = 95.1 bits (235), Expect = 6e-20, Method: Compositional matrix adjust.
Identities = 50/117 (42%), Positives = 71/117 (60%), Gaps = 3/117 (2%)
Query: 273 DHFLVPLSLIERWGSAMDIVYPDSKRCCCFTKSYYRYVKGTGSLLATVQPK--NKGKASS 330
+ + +P LI + G DIV D KR CCFTKSY + V+GTGS+ ++P KA
Sbjct: 206 ESYSIPSDLILKKGMLFDIVGKDDKRTCCFTKSYTKIVEGTGSIYCPIEPHFIPVKKAED 265
Query: 331 LKEQHLRYFTPREVANLHSFPGDFQFP-HHLSLRQRYALLGNSLSIAVVAPLLQYLF 386
L ++LRYFTP E+ +H F +F L+ +Q+Y LGNS+S V+A L++YLF
Sbjct: 266 LLNKNLRYFTPNEIKKIHGFSSNFTTQIDGLTDKQQYQCLGNSVSCFVIAQLMEYLF 322
>pdb|2UYH|A Chain A, Hhai Dna Methyltransferase S87q-Q237s Mutant Complex With
13mer Gcgc-Gmgc Oligonucleotide And Sah
Length = 327
Score = 82.0 bits (201), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 98/384 (25%), Positives = 151/384 (39%), Gaps = 80/384 (20%)
Query: 12 AWRVLEFYSGIGGMRYSLMKADVSAQVVEAFDINDKANDVYELNFGHRPYQGNIQNLTAA 71
R ++ ++G+GG R +L A+ V + + + A +VYE+NFG +P +G+I +
Sbjct: 11 GLRFIDLFAGLGGFRLAL--ESCGAECVYSNEWDKYAQEVYEMNFGEKP-EGDITQVNEK 67
Query: 72 ELDMYGAHAWLLSP-PCQPYTRQGLQKQSSDARAFSFLKILELIPHTVKPPHMLFVENVV 130
+ H L + PCQ ++ QG QK D+R F I ++ K P ++F+ENV
Sbjct: 68 TIP---DHDILCAGFPCQAFSIQGKQKGFEDSRGTLFFDIARIVRE--KKPKVVFMENVK 122
Query: 131 GFETSDTHAKMIEILANS----DYLTQEFILSPLQFGVPYSRPRYFCLAKRKPLSFRCQL 186
F + D + +E++ N+ DY +L+ L +G+P R R + + R
Sbjct: 123 NFASHD-NGNTLEVVKNTMNELDYSFHAKVLNALDYGIPQKRERIYMICFRND------- 174
Query: 187 LNNQLLRSPSPLLGNDDMTVITKHDQPDDSWDKLLESCDPVERFLEFSNSGDQVNTETGF 246
LN Q + P P N T + PD + L+ ++R D V T
Sbjct: 175 LNIQNFQFPKPFELN---TFVKDLLLPDSEVEHLV-----IDR-------KDLVMTNQEI 219
Query: 247 LSTGTAAVDDFGAAEETVEVDRCVSIDHFLVPLSLIERWGSAMDIVYPDSKRCCCFTKSY 306
T V L ++ + GS I S R T S
Sbjct: 220 EQTTPKTVR-----------------------LGIVGKGGSGERIY---STRGIAITLSA 253
Query: 307 YRYVKGTGSLLATVQPKNKGKASSLKEQHLRYFTPREVANLHSFPGDFQFPHHLSLRQRY 366
Y G G T L R PRE A + +P ++ H S Q Y
Sbjct: 254 Y----GGGIFAKT--------GGYLVNGKTRKLHPRECARVMGYPDSYKV--HPSTSQAY 299
Query: 367 ALLGNSLSIAVVAPLLQYLFAQAG 390
GNS+ I V LQY+ G
Sbjct: 300 KQFGNSVVINV----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 = 78.2 bits (191), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 96/384 (25%), Positives = 149/384 (38%), Gaps = 80/384 (20%)
Query: 12 AWRVLEFYSGIGGMRYSLMKADVSAQVVEAFDINDKANDVYELNFGHRPYQGNIQNLTAA 71
R ++ ++G+GG R +L A+ V + + + A +VYE+NFG +P +G+I +
Sbjct: 11 GLRFIDLFAGLGGFRLAL--ESCGAECVYSNEWDKYAQEVYEMNFGEKP-EGDITQVNEK 67
Query: 72 ELDMYGAHAWLLSP-PCQPYTRQGLQKQSSDARAFSFLKILELIPHTVKPPHMLFVENVV 130
+ H L + PCQ ++ G QK D+R F I ++ K P ++F+ENV
Sbjct: 68 TIP---DHDILCAGFPCQAFSISGKQKGFEDSRGTLFFDIARIVRE--KKPKVVFMENVK 122
Query: 131 GFETSDTHAKMIEILANS----DYLTQEFILSPLQFGVPYSRPRYFCLAKRKPLSFRCQL 186
F + D + +E++ N+ DY +L+ L +G+P R R + + R
Sbjct: 123 NFASHD-NGNTLEVVKNTMNELDYSFHAKVLNALDYGIPQKRERIYMICFRND------- 174
Query: 187 LNNQLLRSPSPLLGNDDMTVITKHDQPDDSWDKLLESCDPVERFLEFSNSGDQVNTETGF 246
LN Q + P P N T + PD + L+ ++R D V T
Sbjct: 175 LNIQNFQFPKPFELN---TFVKDLLLPDSEVEHLV-----IDR-------KDLVMTNQEI 219
Query: 247 LSTGTAAVDDFGAAEETVEVDRCVSIDHFLVPLSLIERWGSAMDIVYPDSKRCCCFTKSY 306
T V L ++ + G I S R T S
Sbjct: 220 EQTTPKTVR-----------------------LGIVGKGGQGERIY---STRGIAITLSA 253
Query: 307 YRYVKGTGSLLATVQPKNKGKASSLKEQHLRYFTPREVANLHSFPGDFQFPHHLSLRQRY 366
Y G G T L R PRE A + +P ++ H S Q Y
Sbjct: 254 Y----GGGIFAKT--------GGYLVNGKTRKLHPRECARVMGYPDSYKV--HPSTSQAY 299
Query: 367 ALLGNSLSIAVVAPLLQYLFAQAG 390
GNS+ I V LQY+ G
Sbjct: 300 KQFGNSVVINV----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 = 77.0 bits (188), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 96/382 (25%), Positives = 149/382 (39%), Gaps = 80/382 (20%)
Query: 14 RVLEFYSGIGGMRYSLMKADVSAQVVEAFDINDKANDVYELNFGHRPYQGNIQNLTAAEL 73
R ++ ++G+GG R +L A+ V + + + A +VYE+NFG +P +G+I + +
Sbjct: 13 RFIDLFAGLGGFRLAL--ESCGAECVYSNEWDKYAQEVYEMNFGEKP-EGDITQVNEKTI 69
Query: 74 DMYGAHAWLLSP-PCQPYTRQGLQKQSSDARAFSFLKILELIPHTVKPPHMLFVENVVGF 132
H L + PCQ ++ G QK D+R F I ++ K P ++F+ENV F
Sbjct: 70 P---DHDILCAGFPCQAFSISGKQKGFEDSRGTLFFDIARIVRE--KKPKVVFMENVKNF 124
Query: 133 ETSDTHAKMIEILANS----DYLTQEFILSPLQFGVPYSRPRYFCLAKRKPLSFRCQLLN 188
+ D + +E++ N+ DY +L+ L +G+P R R + + R LN
Sbjct: 125 ASHD-NGNTLEVVKNTMNELDYSFHAKVLNALDYGIPQKRERIYMICFRND-------LN 176
Query: 189 NQLLRSPSPLLGNDDMTVITKHDQPDDSWDKLLESCDPVERFLEFSNSGDQVNTETGFLS 248
Q + P P N T + PD + L+ ++R D V T
Sbjct: 177 IQNFQFPKPFELN---TFVKDLLLPDSEVEHLV-----IDR-------KDLVMTNQEIEQ 221
Query: 249 TGTAAVDDFGAAEETVEVDRCVSIDHFLVPLSLIERWGSAMDIVYPDSKRCCCFTKSYYR 308
T V L ++ + G I S R T S Y
Sbjct: 222 TTPKTVR-----------------------LGIVGKGGWGERIY---STRGIAITLSAY- 254
Query: 309 YVKGTGSLLATVQPKNKGKASSLKEQHLRYFTPREVANLHSFPGDFQFPHHLSLRQRYAL 368
G G T L R PRE A + +P ++ H S Q Y
Sbjct: 255 ---GGGIFAKT--------GGYLVNGKTRKLHPRECARVMGYPDSYKV--HPSTSQAYKQ 301
Query: 369 LGNSLSIAVVAPLLQYLFAQAG 390
GNS+ I V LQY+ G
Sbjct: 302 FGNSVVINV----LQYIAYNIG 319
>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 = 77.0 bits (188), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 50/177 (28%), Positives = 90/177 (50%), Gaps = 14/177 (7%)
Query: 12 AWRVLEFYSGIGGMRYSLMKADVSAQVVEAFDINDKANDVYELNFGHRPYQGNIQNLTAA 71
R ++ ++G+GG R +L A+ V + + + A +VYE+NFG +P +G+I +
Sbjct: 11 GLRFIDLFAGLGGFRLAL--ESCGAECVYSNEWDKYAQEVYEMNFGEKP-EGDITQVNEK 67
Query: 72 ELDMYGAHAWLLSP-PCQPYTRQGLQKQSSDARAFSFLKILELIPHTVKPPHMLFVENVV 130
+ H L + PCQ ++ G QK D+R F I ++ K P ++F+ENV
Sbjct: 68 TIP---DHDILCAGFPCQAFSISGKQKGFEDSRGTLFFDIARIVRE--KKPKVVFMENVK 122
Query: 131 GFETSDTHAKMIEILANS----DYLTQEFILSPLQFGVPYSRPRYFCLAKRKPLSFR 183
F + D + +E++ N+ DY +L+ L +G+P R R + + R L+ +
Sbjct: 123 NFASHD-NGNTLEVVKNTMNELDYSFHAKVLNALDYGIPQKRERIYMICFRNDLNIQ 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 = 77.0 bits (188), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 95/384 (24%), Positives = 149/384 (38%), Gaps = 80/384 (20%)
Query: 12 AWRVLEFYSGIGGMRYSLMKADVSAQVVEAFDINDKANDVYELNFGHRPYQGNIQNLTAA 71
R ++ ++G+GG R +L A+ V + + + A +VYE+NFG +P +G+I +
Sbjct: 11 GLRFIDLFAGLGGFRLAL--ESCGAECVYSNEWDKYAQEVYEMNFGEKP-EGDITQVNEK 67
Query: 72 ELDMYGAHAWLLSP-PCQPYTRQGLQKQSSDARAFSFLKILELIPHTVKPPHMLFVENVV 130
+ H L + PCQ ++ G QK D+R F I ++ K P ++F++NV
Sbjct: 68 TIP---DHDILCAGFPCQAFSISGKQKGFEDSRGTLFFDIARIVRE--KKPKVVFMQNVK 122
Query: 131 GFETSDTHAKMIEILANS----DYLTQEFILSPLQFGVPYSRPRYFCLAKRKPLSFRCQL 186
F + D + +E++ N+ DY +L+ L +G+P R R + + R
Sbjct: 123 NFASHD-NGNTLEVVKNTMNELDYSFHAKVLNALDYGIPQKRERIYMICFRND------- 174
Query: 187 LNNQLLRSPSPLLGNDDMTVITKHDQPDDSWDKLLESCDPVERFLEFSNSGDQVNTETGF 246
LN Q + P P N T + PD + L+ ++R D V T
Sbjct: 175 LNIQNFQFPKPFELN---TFVKDLLLPDSEVEHLV-----IDR-------KDLVMTNQEI 219
Query: 247 LSTGTAAVDDFGAAEETVEVDRCVSIDHFLVPLSLIERWGSAMDIVYPDSKRCCCFTKSY 306
T V L ++ + G I S R T S
Sbjct: 220 EQTTPKTVR-----------------------LGIVGKGGQGERIY---STRGIAITLSA 253
Query: 307 YRYVKGTGSLLATVQPKNKGKASSLKEQHLRYFTPREVANLHSFPGDFQFPHHLSLRQRY 366
Y G G T L R PRE A + +P ++ H S Q Y
Sbjct: 254 Y----GGGIFAKT--------GGYLVNGKTRKLHPRECARVMGYPDSYKV--HPSTSQAY 299
Query: 367 ALLGNSLSIAVVAPLLQYLFAQAG 390
GNS+ I V LQY+ G
Sbjct: 300 KQFGNSVVINV----LQYIAYNIG 319
>pdb|2UZ4|A Chain A, Hhai Dna Methyltransferase R165n Mutant Complex With 13mer
Gcgc-Gmgc Oligonucleotide And Sah
Length = 327
Score = 75.9 bits (185), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 95/384 (24%), Positives = 148/384 (38%), Gaps = 80/384 (20%)
Query: 12 AWRVLEFYSGIGGMRYSLMKADVSAQVVEAFDINDKANDVYELNFGHRPYQGNIQNLTAA 71
R ++ ++G+GG R +L A+ V + + + A +VYE+NFG +P +G+I +
Sbjct: 11 GLRFIDLFAGLGGFRLAL--ESCGAECVYSNEWDKYAQEVYEMNFGEKP-EGDITQVNEK 67
Query: 72 ELDMYGAHAWLLSP-PCQPYTRQGLQKQSSDARAFSFLKILELIPHTVKPPHMLFVENVV 130
+ H L + PCQ ++ G QK D+R F I ++ K P ++F+ENV
Sbjct: 68 TIP---DHDILCAGFPCQAFSISGKQKGFEDSRGTLFFDIARIVRE--KKPKVVFMENVK 122
Query: 131 GFETSDTHAKMIEILANS----DYLTQEFILSPLQFGVPYSRPRYFCLAKRKPLSFRCQL 186
F + D + +E++ N+ DY +L+ L +G+P R + + R
Sbjct: 123 NFASHD-NGNTLEVVKNTMNELDYSFHAKVLNALDYGIPQKRENIYMICFRND------- 174
Query: 187 LNNQLLRSPSPLLGNDDMTVITKHDQPDDSWDKLLESCDPVERFLEFSNSGDQVNTETGF 246
LN Q + P P N T + PD + L+ ++R D V T
Sbjct: 175 LNIQNFQFPKPFELN---TFVKDLLLPDSEVEHLV-----IDR-------KDLVMTNQEI 219
Query: 247 LSTGTAAVDDFGAAEETVEVDRCVSIDHFLVPLSLIERWGSAMDIVYPDSKRCCCFTKSY 306
T V L ++ + G I S R T S
Sbjct: 220 EQTTPKTVR-----------------------LGIVGKGGQGERIY---STRGIAITLSA 253
Query: 307 YRYVKGTGSLLATVQPKNKGKASSLKEQHLRYFTPREVANLHSFPGDFQFPHHLSLRQRY 366
Y G G T L R PRE A + +P ++ H S Q Y
Sbjct: 254 Y----GGGIFAKT--------GGYLVNGKTRKLHPRECARVMGYPDSYKV--HPSTSQAY 299
Query: 367 ALLGNSLSIAVVAPLLQYLFAQAG 390
GNS+ I V LQY+ G
Sbjct: 300 KQFGNSVVINV----LQYIAYNIG 319
>pdb|2UYC|A Chain A, Hhai Dna Methyltransferase R163n Mutant Complex With 13mer
Gcgc-Gmgc Oligonucleotide And Sah
Length = 327
Score = 75.9 bits (185), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 95/384 (24%), Positives = 148/384 (38%), Gaps = 80/384 (20%)
Query: 12 AWRVLEFYSGIGGMRYSLMKADVSAQVVEAFDINDKANDVYELNFGHRPYQGNIQNLTAA 71
R ++ ++G+GG R +L A+ V + + + A +VYE+NFG +P +G+I +
Sbjct: 11 GLRFIDLFAGLGGFRLAL--ESCGAECVYSNEWDKYAQEVYEMNFGEKP-EGDITQVNEK 67
Query: 72 ELDMYGAHAWLLSP-PCQPYTRQGLQKQSSDARAFSFLKILELIPHTVKPPHMLFVENVV 130
+ H L + PCQ ++ G QK D+R F I ++ K P ++F+ENV
Sbjct: 68 TIP---DHDILCAGFPCQAFSISGKQKGFEDSRGTLFFDIARIVRE--KKPKVVFMENVK 122
Query: 131 GFETSDTHAKMIEILANS----DYLTQEFILSPLQFGVPYSRPRYFCLAKRKPLSFRCQL 186
F + D + +E++ N+ DY +L+ L +G+P R + + R
Sbjct: 123 NFASHD-NGNTLEVVKNTMNELDYSFHAKVLNALDYGIPQKNERIYMICFRND------- 174
Query: 187 LNNQLLRSPSPLLGNDDMTVITKHDQPDDSWDKLLESCDPVERFLEFSNSGDQVNTETGF 246
LN Q + P P N T + PD + L+ ++R D V T
Sbjct: 175 LNIQNFQFPKPFELN---TFVKDLLLPDSEVEHLV-----IDR-------KDLVMTNQEI 219
Query: 247 LSTGTAAVDDFGAAEETVEVDRCVSIDHFLVPLSLIERWGSAMDIVYPDSKRCCCFTKSY 306
T V L ++ + G I S R T S
Sbjct: 220 EQTTPKTVR-----------------------LGIVGKGGQGERIY---STRGIAITLSA 253
Query: 307 YRYVKGTGSLLATVQPKNKGKASSLKEQHLRYFTPREVANLHSFPGDFQFPHHLSLRQRY 366
Y G G T L R PRE A + +P ++ H S Q Y
Sbjct: 254 Y----GGGIFAKT--------GGYLVNGKTRKLHPRECARVMGYPDSYKV--HPSTSQAY 299
Query: 367 ALLGNSLSIAVVAPLLQYLFAQAG 390
GNS+ I V LQY+ G
Sbjct: 300 KQFGNSVVINV----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 = 75.9 bits (185), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 95/384 (24%), Positives = 148/384 (38%), Gaps = 80/384 (20%)
Query: 12 AWRVLEFYSGIGGMRYSLMKADVSAQVVEAFDINDKANDVYELNFGHRPYQGNIQNLTAA 71
R ++ ++G+GG R +L A+ V + + + A +VYE+NFG +P +G+I +
Sbjct: 11 GLRFIDLFAGLGGFRLAL--ESCGAECVYSNEWDKYAQEVYEMNFGEKP-EGDITQVNEK 67
Query: 72 ELDMYGAHAWLLSP-PCQPYTRQGLQKQSSDARAFSFLKILELIPHTVKPPHMLFVENVV 130
+ H L + PCQ ++ G QK D+R F I ++ K P ++F+ NV
Sbjct: 68 TIP---DHDILCAGFPCQAFSISGKQKGFEDSRGTLFFDIARIVRE--KKPKVVFMANVK 122
Query: 131 GFETSDTHAKMIEILANS----DYLTQEFILSPLQFGVPYSRPRYFCLAKRKPLSFRCQL 186
F + D + +E++ N+ DY +L+ L +G+P R R + + R
Sbjct: 123 NFASHD-NGNTLEVVKNTMNELDYSFHAKVLNALDYGIPQKRERIYMICFRND------- 174
Query: 187 LNNQLLRSPSPLLGNDDMTVITKHDQPDDSWDKLLESCDPVERFLEFSNSGDQVNTETGF 246
LN Q + P P N T + PD + L+ ++R D V T
Sbjct: 175 LNIQNFQFPKPFELN---TFVKDLLLPDSEVEHLV-----IDR-------KDLVMTNQEI 219
Query: 247 LSTGTAAVDDFGAAEETVEVDRCVSIDHFLVPLSLIERWGSAMDIVYPDSKRCCCFTKSY 306
T V L ++ + G I S R T S
Sbjct: 220 EQTTPKTVR-----------------------LGIVGKGGQGERIY---STRGIAITLSA 253
Query: 307 YRYVKGTGSLLATVQPKNKGKASSLKEQHLRYFTPREVANLHSFPGDFQFPHHLSLRQRY 366
Y G G T L R PRE A + +P ++ H S Q Y
Sbjct: 254 Y----GGGIFAKT--------GGYLVNGKTRKLHPRECARVMGYPDSYKV--HPSTSQAY 299
Query: 367 ALLGNSLSIAVVAPLLQYLFAQAG 390
GNS+ I V LQY+ G
Sbjct: 300 KQFGNSVVINV----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 = 75.5 bits (184), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 95/384 (24%), Positives = 148/384 (38%), Gaps = 80/384 (20%)
Query: 12 AWRVLEFYSGIGGMRYSLMKADVSAQVVEAFDINDKANDVYELNFGHRPYQGNIQNLTAA 71
R ++ ++G+GG R +L A+ V + + + A +VYE+NFG +P +G+I +
Sbjct: 11 GLRFIDLFAGLGGFRLAL--ESCGAECVYSNEWDKYAQEVYEMNFGEKP-EGDITQVNEK 67
Query: 72 ELDMYGAHAWLLSP-PCQPYTRQGLQKQSSDARAFSFLKILELIPHTVKPPHMLFVENVV 130
+ H L + PCQ ++ G QK D+R F I ++ K P ++F+ENV
Sbjct: 68 TIP---DHDILCAGFPCQAFSISGKQKGFEDSRGTLFFDIARIVRE--KKPKVVFMENVK 122
Query: 131 GFETSDTHAKMIEILANS----DYLTQEFILSPLQFGVPYSRPRYFCLAKRKPLSFRCQL 186
F + D + +E++ N+ DY +L+ L +G+P R + + R
Sbjct: 123 NFASHD-NGNTLEVVKNTMNELDYSFHAKVLNALDYGIPQKREAIYMICFRND------- 174
Query: 187 LNNQLLRSPSPLLGNDDMTVITKHDQPDDSWDKLLESCDPVERFLEFSNSGDQVNTETGF 246
LN Q + P P N T + PD + L+ ++R D V T
Sbjct: 175 LNIQNFQFPKPFELN---TFVKDLLLPDSEVEHLV-----IDR-------KDLVMTNQEI 219
Query: 247 LSTGTAAVDDFGAAEETVEVDRCVSIDHFLVPLSLIERWGSAMDIVYPDSKRCCCFTKSY 306
T V L ++ + G I S R T S
Sbjct: 220 EQTTPKTVR-----------------------LGIVGKGGQGERIY---STRGIAITLSA 253
Query: 307 YRYVKGTGSLLATVQPKNKGKASSLKEQHLRYFTPREVANLHSFPGDFQFPHHLSLRQRY 366
Y G G T L R PRE A + +P ++ H S Q Y
Sbjct: 254 Y----GGGIFAKT--------GGYLVNGKTRKLHPRECARVMGYPDSYKV--HPSTSQAY 299
Query: 367 ALLGNSLSIAVVAPLLQYLFAQAG 390
GNS+ I V LQY+ G
Sbjct: 300 KQFGNSVVINV----LQYIAYNIG 319
>pdb|2I9K|A Chain A, Engineered Extrahelical Base Destabilization Enhances
Sequence Discrimination Of Dna Methyltransferase M.Hhai
Length = 327
Score = 74.7 bits (182), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 95/384 (24%), Positives = 148/384 (38%), Gaps = 80/384 (20%)
Query: 12 AWRVLEFYSGIGGMRYSLMKADVSAQVVEAFDINDKANDVYELNFGHRPYQGNIQNLTAA 71
R ++ ++G+GG R +L A+ V + + + A +VYE+NFG +P +G+I +
Sbjct: 11 GLRFIDLFAGLGGFRLAL--ESCGAECVYSNEWDKYAQEVYEMNFGEKP-EGDITQVNEK 67
Query: 72 ELDMYGAHAWLLSP-PCQPYTRQGLQKQSSDARAFSFLKILELIPHTVKPPHMLFVENVV 130
+ H L + PCQ ++ G QK D+R F I ++ K P ++F+ENV
Sbjct: 68 TIP---DHDILCAGFPCQAFSISGKQKGFEDSRGTLFFDIARIVRE--KKPKVVFMENVK 122
Query: 131 GFETSDTHAKMIEILANS----DYLTQEFILSPLQFGVPYSRPRYFCLAKRKPLSFRCQL 186
+ D + +E++ N+ DY +L+ L +G+P R R + + R
Sbjct: 123 NAASHD-NGNTLEVVKNTMNELDYSFHAKVLNALDYGIPQKRERIYMICFRND------- 174
Query: 187 LNNQLLRSPSPLLGNDDMTVITKHDQPDDSWDKLLESCDPVERFLEFSNSGDQVNTETGF 246
LN Q + P P N T + PD + L+ ++R D V T
Sbjct: 175 LNIQNFQFPKPFELN---TFVKDLLLPDSEVEHLV-----IDR-------KDLVMTNQEI 219
Query: 247 LSTGTAAVDDFGAAEETVEVDRCVSIDHFLVPLSLIERWGSAMDIVYPDSKRCCCFTKSY 306
T V L ++ + G I S R T S
Sbjct: 220 EQTTPKTVR-----------------------LGIVGKGGQGERIY---STRGIAITLSA 253
Query: 307 YRYVKGTGSLLATVQPKNKGKASSLKEQHLRYFTPREVANLHSFPGDFQFPHHLSLRQRY 366
Y G G T L R PRE A + +P ++ H S Q Y
Sbjct: 254 Y----GGGIFAKT--------GGYLVNGKTRKLHPRECARVMGYPDSYKV--HPSTSQAY 299
Query: 367 ALLGNSLSIAVVAPLLQYLFAQAG 390
GNS+ I V LQY+ G
Sbjct: 300 KQFGNSVVINV----LQYIAYNIG 319
>pdb|2Z6A|A Chain A, S-Adenosyl-L-Methionine-Dependent Methyl Transfer:
Observable Precatalytic Intermediates During Dna
Cytosine Methylation
Length = 327
Score = 74.3 bits (181), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 95/384 (24%), Positives = 148/384 (38%), Gaps = 80/384 (20%)
Query: 12 AWRVLEFYSGIGGMRYSLMKADVSAQVVEAFDINDKANDVYELNFGHRPYQGNIQNLTAA 71
R ++ ++G+GG R +L A+ V + + + A +VYE+NFG +P +G+I +
Sbjct: 11 GLRFIDLFAGLGGFRLAL--ESCGAECVYSNEWDKYAQEVYEMNFGEKP-EGDITQVNEK 67
Query: 72 ELDMYGAHAWLLSP-PCQPYTRQGLQKQSSDARAFSFLKILELIPHTVKPPHMLFVENVV 130
+ H L + P Q ++ G QK D+R F I ++ K P ++F+ENV
Sbjct: 68 TIP---DHDILCAGFPAQAFSISGKQKGFEDSRGTLFFDIARIVRE--KKPKVVFMENVK 122
Query: 131 GFETSDTHAKMIEILANS----DYLTQEFILSPLQFGVPYSRPRYFCLAKRKPLSFRCQL 186
F + D + +E++ N+ DY +L+ L +G+P R R + + R
Sbjct: 123 NFASHD-NGNTLEVVKNTMNELDYSFHAKVLNALDYGIPQKRERIYMICFRND------- 174
Query: 187 LNNQLLRSPSPLLGNDDMTVITKHDQPDDSWDKLLESCDPVERFLEFSNSGDQVNTETGF 246
LN Q + P P N T + PD + L+ ++R D V T
Sbjct: 175 LNIQNFQFPKPFELN---TFVKDLLLPDSEVEHLV-----IDR-------KDLVMTNQEI 219
Query: 247 LSTGTAAVDDFGAAEETVEVDRCVSIDHFLVPLSLIERWGSAMDIVYPDSKRCCCFTKSY 306
T V L ++ + G I S R T S
Sbjct: 220 EQTTPKTVR-----------------------LGIVGKGGQGERIY---STRGIAITLSA 253
Query: 307 YRYVKGTGSLLATVQPKNKGKASSLKEQHLRYFTPREVANLHSFPGDFQFPHHLSLRQRY 366
Y G G T L R PRE A + +P ++ H S Q Y
Sbjct: 254 Y----GGGIFAKT--------GGYLVNGKTRKLHPRECARVMGYPDSYKV--HPSTSQAY 299
Query: 367 ALLGNSLSIAVVAPLLQYLFAQAG 390
GNS+ I V LQY+ G
Sbjct: 300 KQFGNSVVINV----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 = 56.2 bits (134), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 81/365 (22%), Positives = 134/365 (36%), Gaps = 61/365 (16%)
Query: 15 VLEFYSGIGGMRYSLMKADVSAQVVEAFDINDKANDVYELNFGHRPYQGNIQNLTAAELD 74
++ +SG GG+ KA +++ A + + YE N + +G+I +++ E
Sbjct: 3 LISLFSGAGGLDLGFQKAGF--RIICANEYDKSIWKTYESNHSAKLIKGDISKISSDEFP 60
Query: 75 MYGAHAWLLSPPCQPYTRQGLQKQSSDARAFSFLKILELIPHTVKPPHMLFVENVVGFET 134
+ PPCQ ++ G + D R F + + ++ K P ENV G
Sbjct: 61 K--CDGIIGGPPCQSWSEGGSLRGIDDPRGKLFYEYIRILKQ--KKPIFFLAENVKGM-M 115
Query: 135 SDTHAK----MIEILANSDYLTQEFILSPLQFGVPYSRPRYFCLAKRKPLSFRCQLLNNQ 190
+ H K I+ N+ Y +L+ +GV R R F + FR +L N
Sbjct: 116 AQRHNKAVQEFIQEFDNAGYDVHIILLNANDYGVAQDRKRVFYIG------FRKELNINY 169
Query: 191 LLRSPSPLLGNDDMTVITKHDQPDDSWDKLLESCDPVERFLEFSNSGDQVNTETGFLSTG 250
L P P L K D WD +++ N N E
Sbjct: 170 L--PPIPHL--------IKPTFKDVIWDLKDNPIPALDKNKTNGNKCIYPNHEY------ 213
Query: 251 TAAVDDFGAAEETVEVDRCVSIDHFLVPLSLIERWGSAMDIVYPDSKRCCCFTKSYYRYV 310
F + T+ + R + + +W V ++C ++
Sbjct: 214 ------FIGSYSTIFMSR-----------NRVRQWNEPAFTVQASGRQCQLHPQA----- 251
Query: 311 KGTGSLLATVQPKNKGKASSLKEQHLRYFTPREVANLHSFPGDFQFPHHLSLRQRYALLG 370
++ V KN K KE R T RE A + FP DF F H+ SL Y ++G
Sbjct: 252 ----PVMLKVS-KNLNKFVEGKEHLYRRLTVRECARVQGFPDDFIF-HYESLNDGYKMIG 305
Query: 371 NSLSI 375
N++ +
Sbjct: 306 NAVPV 310
>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 = 52.0 bits (123), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 80/365 (21%), Positives = 133/365 (36%), Gaps = 61/365 (16%)
Query: 15 VLEFYSGIGGMRYSLMKADVSAQVVEAFDINDKANDVYELNFGHRPYQGNIQNLTAAELD 74
++ +SG GG+ KA +++ A + + YE N + +G+I +++ E
Sbjct: 3 LISLFSGAGGLDLGFQKAGF--RIICANEYDKSIWKTYESNHSAKLIKGDISKISSDEFP 60
Query: 75 MYGAHAWLLSPPCQPYTRQGLQKQSSDARAFSFLKILELIPHTVKPPHMLFVENVVGFET 134
+ PP Q ++ G + D R F + + ++ K P ENV G
Sbjct: 61 K--CDGIIGGPPSQSWSEGGSLRGIDDPRGKLFYEYIRILKQ--KKPIFFLAENVKGM-M 115
Query: 135 SDTHAK----MIEILANSDYLTQEFILSPLQFGVPYSRPRYFCLAKRKPLSFRCQLLNNQ 190
+ H K I+ N+ Y +L+ +GV R R F + FR +L N
Sbjct: 116 AQRHNKAVQEFIQEFDNAGYDVHIILLNANDYGVAQDRKRVFYIG------FRKELNINY 169
Query: 191 LLRSPSPLLGNDDMTVITKHDQPDDSWDKLLESCDPVERFLEFSNSGDQVNTETGFLSTG 250
L P P L K D WD +++ N N E
Sbjct: 170 L--PPIPHL--------IKPTFKDVIWDLKDNPIPALDKNKTNGNKCIYPNHEY------ 213
Query: 251 TAAVDDFGAAEETVEVDRCVSIDHFLVPLSLIERWGSAMDIVYPDSKRCCCFTKSYYRYV 310
F + T+ + R + + +W V ++C ++
Sbjct: 214 ------FIGSYSTIFMSR-----------NRVRQWNEPAFTVQASGRQCQLHPQA----- 251
Query: 311 KGTGSLLATVQPKNKGKASSLKEQHLRYFTPREVANLHSFPGDFQFPHHLSLRQRYALLG 370
++ V KN K KE R T RE A + FP DF F H+ SL Y ++G
Sbjct: 252 ----PVMLKVS-KNLNKFVEGKEHLYRRLTVRECARVQGFPDDFIF-HYESLNDGYKMIG 305
Query: 371 NSLSI 375
N++ +
Sbjct: 306 NAVPV 310
>pdb|3G7U|A Chain A, Crystal Structure Of Putative Dna Modification
Methyltransferase Encoded Within Prophage Cp-933r
(E.Coli)
Length = 376
Score = 50.8 bits (120), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 82/386 (21%), Positives = 152/386 (39%), Gaps = 40/386 (10%)
Query: 15 VLEFYSGIGGMRYSLMKADVSAQVVEAFDINDKANDVYELNFGHRPYQGNIQNLTAAEL- 73
V++ +SG+GG+ SL A V A +I+ A + + +NF + +L AE+
Sbjct: 5 VIDLFSGVGGL--SLGAARAGFDVKMAVEIDQHAINTHAINFPRSLHVQEDVSLLNAEII 62
Query: 74 ------DMYGAHAWLLSPPCQPYTRQGLQKQSSDARAFSFLKILELIPHTVKPPHMLFVE 127
DM + PPCQ ++ G + D+R ++ L+ P E
Sbjct: 63 KGFFKNDM-PIDGIIGGPPCQGFSSIG-KGNPDDSRNQLYMHFYRLVSEL--QPLFFLAE 118
Query: 128 NVVGF---ETSDTHAKMIEILANSDYLTQEFILSPLQFGVPYSRPRYFCLAKRKPLSFRC 184
NV G + S K +++ + + +G P R RYF + +K S +
Sbjct: 119 NVPGIMQEKYSGIRNKAFNLVSGDYDILDPIKVKASDYGAPTIRTRYFFIGVKK--SLKL 176
Query: 185 QLLNNQLL-RSPSPLLGNDDMTVITKHDQPDDSWDKLLESCDPVERFLEFSNSGDQVNTE 243
+ + + + P+ D + + D D +W ES R ++ G
Sbjct: 177 DISDEVFMPKMIDPVTVKDALYGLP--DIIDANWQSDSESW----RTIKKDRKGGFYEKL 230
Query: 244 TGFLSTGTAAVDDFGAAEETVEVDRCVSIDHFLVPLSLIERWGSAMDIVYPDSKRCCCFT 303
G + + + + + C H + + ER+ S + + ++ + +
Sbjct: 231 WGQIPRNVGDTESIAKLKNNI-ISGCTGTLHSKI---VQERYAS---LSFGETDKI---S 280
Query: 304 KSYYRYVKGTGSLLATVQPKNKGKASSLK---EQHLRYFTPREVANLHSFPGDFQFPHHL 360
+S G L ++KG +++ H R TPRE A L FP F+F H+
Sbjct: 281 RSTRLDPNGFCPTLRAGTARDKGSFQAVRPIHPYHPRVITPREAARLQGFPDWFRF--HV 338
Query: 361 SLRQRYALLGNSLSIAVVAPLLQYLF 386
+ + +GNS+S V +L+ L+
Sbjct: 339 TKWHSFRQIGNSVSPIVAEYILKGLY 364
>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 = 38.1 bits (87), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 39/164 (23%), Positives = 66/164 (40%), Gaps = 32/164 (19%)
Query: 12 AWRVLEFYSGIGGMRYSLMKADVSAQVVEAFDINDKANDVYELNFGHRP----------- 60
A+R ++ ++GIGG+R + Q V + N A Y+ N P
Sbjct: 26 AFRFIDLFAGIGGIRRGF--ESIGGQCVFTSEWNKHAVRTYKANHYCDPATHHFNEDIRD 83
Query: 61 ----YQGNIQNLTAAE--LDMYGAHAWLLSP-PCQPYTRQGLQKQSSDARAFS------- 106
+Q + + AAE H LL+ PCQP++ G+ K++S RA
Sbjct: 84 ITLSHQEGVSDEAAAEHIRQHIPEHDVLLAGFPCQPFSLAGVSKKNSLGRAHGFACDTQG 143
Query: 107 --FLKILELIPHTVKPPHMLFVENVVGFETSDTHAKMIEILANS 148
F ++ +I + P +ENV ++ D K I+ +
Sbjct: 144 TLFFDVVRII--DARRPAXFVLENVKNLKSHDK-GKTFRIIXQT 184
Score = 32.7 bits (73), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 30/93 (32%), Positives = 39/93 (41%), Gaps = 6/93 (6%)
Query: 286 GSAMDIVYPDSKRCCCFTKSYYRYVKGTGSLLATVQPKNKGKAS---SLKEQHL-RYFTP 341
G VYP++ + T S Y G L+ G+ L +QH R TP
Sbjct: 285 GFGYGXVYPNNPQSVTRTLSARYYKDGAEILIDRGWDXATGEKDFDDPLNQQHRPRRLTP 344
Query: 342 REVANLHSF--PGDFQFPHHLSLRQRYALLGNS 372
RE A L F PG+ +F +S Q Y GNS
Sbjct: 345 RECARLXGFEAPGEAKFRIPVSDTQAYRQFGNS 377
>pdb|3ME5|A Chain A, Crystal Structure Of Putative Dna Cytosine Methylase From
Shigella Flexneri 2a Str. 2457t
Length = 482
Score = 37.7 bits (86), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 39/164 (23%), Positives = 66/164 (40%), Gaps = 32/164 (19%)
Query: 12 AWRVLEFYSGIGGMRYSLMKADVSAQVVEAFDINDKANDVYELNFGHRP----------- 60
A+R ++ ++GIGG+R + Q V + N A Y+ N P
Sbjct: 88 AFRFIDLFAGIGGIRRGF--ESIGGQCVFTSEWNKHAVRTYKANHYCDPATHHFNEDIRD 145
Query: 61 ----YQGNIQNLTAAE--LDMYGAHAWLLSP-PCQPYTRQGLQKQSSDARAFS------- 106
+Q + + AAE H LL+ PCQP++ G+ K++S RA
Sbjct: 146 ITLSHQEGVSDEAAAEHIRQHIPEHDVLLAGFPCQPFSLAGVSKKNSLGRAHGFACDTQG 205
Query: 107 --FLKILELIPHTVKPPHMLFVENVVGFETSDTHAKMIEILANS 148
F ++ +I + P +ENV ++ D K I+ +
Sbjct: 206 TLFFDVVRII--DARRPAXFVLENVKNLKSHDK-GKTFRIIXQT 246
Score = 32.7 bits (73), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 30/93 (32%), Positives = 39/93 (41%), Gaps = 6/93 (6%)
Query: 286 GSAMDIVYPDSKRCCCFTKSYYRYVKGTGSLLATVQPKNKGKAS---SLKEQHL-RYFTP 341
G VYP++ + T S Y G L+ G+ L +QH R TP
Sbjct: 347 GFGYGXVYPNNPQSVTRTLSARYYKDGAEILIDRGWDXATGEKDFDDPLNQQHRPRRLTP 406
Query: 342 REVANLHSF--PGDFQFPHHLSLRQRYALLGNS 372
RE A L F PG+ +F +S Q Y GNS
Sbjct: 407 RECARLXGFEAPGEAKFRIPVSDTQAYRQFGNS 439
>pdb|4DKJ|A Chain A, Cpg Specific Methyltransferase In Complex With Target Dna
Length = 403
Score = 36.2 bits (82), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 27/106 (25%), Positives = 49/106 (46%), Gaps = 12/106 (11%)
Query: 84 SPPCQPYTRQGLQK------QSSDARAFSFLKILELIPHTVK----PPHMLF--VENVVG 131
S PCQ + QGLQK + + +ILE I ++ P ++L V+N++
Sbjct: 132 SFPCQDLSVQGLQKGIDKELNTRSGLLWEIERILEEIKNSFSKEEMPKYLLMENVKNLLS 191
Query: 132 FETSDTHAKMIEILANSDYLTQEFILSPLQFGVPYSRPRYFCLAKR 177
+ + ++ L Y ++ ++L+ F +R R FCL+ R
Sbjct: 192 HKNKKNYNTWLKQLEKFGYKSKTYLLNSKNFDNCQNRERVFCLSIR 237
>pdb|3PTA|A Chain A, Crystal Structure Of Human Dnmt1(646-1600) In Complex With
Dna
Length = 956
Score = 33.5 bits (75), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 43/182 (23%), Positives = 71/182 (39%), Gaps = 24/182 (13%)
Query: 14 RVLEFYSGIGGMRYSLMKADVSAQV---------VEAFDINDKANDVYELNFG---HRPY 61
R L+ +SG GG+ +A +S + +AF +N+ + V+ +
Sbjct: 496 RTLDVFSGCGGLSEGFHQAGISDTLWAIEMWDPAAQAFRLNNPGSTVFTEDCNILLKLVM 555
Query: 62 QGNIQNLTAAELDMYGAHAWLL-SPPCQPYTRQGLQKQSSDARAFSFLK---ILELIPHT 117
G N L G L PPCQ ++ G+ + +S R +S K ++ + +
Sbjct: 556 AGETTNSRGQRLPQKGDVEMLCGGPPCQGFS--GMNRFNS--RTYSKFKNSLVVSFLSYC 611
Query: 118 -VKPPHMLFVENV---VGFETSDTHAKMIEILANSDYLTQEFILSPLQFGVPYSRPRYFC 173
P +ENV V F+ S + L Y +L Q+GV +R R
Sbjct: 612 DYYRPRFFLLENVRNFVSFKRSMVLKLTLRCLVRMGYQCTFGVLQAGQYGVAQTRRRAII 671
Query: 174 LA 175
LA
Sbjct: 672 LA 673
>pdb|3SWR|A Chain A, Structure Of Human Dnmt1 (601-1600) In Complex With
Sinefungin
Length = 1002
Score = 33.1 bits (74), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 43/182 (23%), Positives = 71/182 (39%), Gaps = 24/182 (13%)
Query: 14 RVLEFYSGIGGMRYSLMKADVSAQV---------VEAFDINDKANDVYELNFG---HRPY 61
R L+ +SG GG+ +A +S + +AF +N+ + V+ +
Sbjct: 542 RTLDVFSGCGGLSEGFHQAGISDTLWAIEMWDPAAQAFRLNNPGSTVFTEDCNILLKLVM 601
Query: 62 QGNIQNLTAAELDMYGAHAWLL-SPPCQPYTRQGLQKQSSDARAFSFLK---ILELIPHT 117
G N L G L PPCQ ++ G+ + +S R +S K ++ + +
Sbjct: 602 AGETTNSRGQRLPQKGDVEMLCGGPPCQGFS--GMNRFNS--RTYSKFKNSLVVSFLSYC 657
Query: 118 -VKPPHMLFVENV---VGFETSDTHAKMIEILANSDYLTQEFILSPLQFGVPYSRPRYFC 173
P +ENV V F+ S + L Y +L Q+GV +R R
Sbjct: 658 DYYRPRFFLLENVRNFVSFKRSMVLKLTLRCLVRMGYQCTFGVLQAGQYGVAQTRRRAII 717
Query: 174 LA 175
LA
Sbjct: 718 LA 719
>pdb|3PT6|A Chain A, Crystal Structure Of Mouse Dnmt1(650-1602) In Complex With
Dna
pdb|3PT6|B Chain B, Crystal Structure Of Mouse Dnmt1(650-1602) In Complex With
Dna
Length = 954
Score = 33.1 bits (74), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 42/182 (23%), Positives = 70/182 (38%), Gaps = 24/182 (13%)
Query: 14 RVLEFYSGIGGMRYSLMKADVSAQV---------VEAFDINDKANDVYELNFG---HRPY 61
R L+ +SG GG+ +A +S + +AF +N+ V+ +
Sbjct: 495 RTLDVFSGCGGLSEGFHQAGISETLWAIEMWDPAAQAFRLNNPGTTVFTEDCNVLLKLVM 554
Query: 62 QGNIQNLTAAELDMYGAHAWLL-SPPCQPYTRQGLQKQSSDARAFSFLK---ILELIPHT 117
G + N L G L PPCQ ++ G+ + +S R +S K ++ + +
Sbjct: 555 AGEVTNSLGQRLPQKGDVEMLCGGPPCQGFS--GMNRFNS--RTYSKFKNSLVVSFLSYC 610
Query: 118 -VKPPHMLFVENV---VGFETSDTHAKMIEILANSDYLTQEFILSPLQFGVPYSRPRYFC 173
P +ENV V + S + L Y +L Q+GV +R R
Sbjct: 611 DYYRPRFFLLENVRNFVSYRRSMVLKLTLRCLVRMGYQCTFGVLQAGQYGVAQTRRRAII 670
Query: 174 LA 175
LA
Sbjct: 671 LA 672
>pdb|3AV4|A Chain A, Crystal Structure Of Mouse Dna Methyltransferase 1
pdb|3AV5|A Chain A, Crystal Structure Of Mouse Dna Methyltransferase 1 With
Adohcy
pdb|3AV6|A Chain A, Crystal Structure Of Mouse Dna Methyltransferase 1 With
Adomet
Length = 1330
Score = 32.3 bits (72), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 42/182 (23%), Positives = 70/182 (38%), Gaps = 24/182 (13%)
Query: 14 RVLEFYSGIGGMRYSLMKADVSAQV---------VEAFDINDKANDVYELNFG---HRPY 61
R L+ +SG GG+ +A +S + +AF +N+ V+ +
Sbjct: 853 RTLDVFSGCGGLSEGFHQAGISETLWAIEMWDPAAQAFRLNNPGTTVFTEDCNVLLKLVM 912
Query: 62 QGNIQNLTAAELDMYGAHAWLL-SPPCQPYTRQGLQKQSSDARAFSFLK---ILELIPHT 117
G + N L G L PPCQ ++ G+ + +S R +S K ++ + +
Sbjct: 913 AGEVTNSLGQRLPQKGDVEMLCGGPPCQGFS--GMNRFNS--RTYSKFKNSLVVSFLSYC 968
Query: 118 -VKPPHMLFVENV---VGFETSDTHAKMIEILANSDYLTQEFILSPLQFGVPYSRPRYFC 173
P +ENV V + S + L Y +L Q+GV +R R
Sbjct: 969 DYYRPRFFLLENVRNFVSYRRSMVLKLTLRCLVRMGYQCTFGVLQAGQYGVAQTRRRAII 1028
Query: 174 LA 175
LA
Sbjct: 1029 LA 1030
>pdb|3PT9|A Chain A, Crystal Structure Of Mouse Dnmt1(731-1602) In The Free
State
pdb|4DA4|A Chain A, Structure Of Mouse Dnmt1 (731-1602) Bound To
Hemimethylated Cpg Dna
pdb|4DA4|B Chain B, Structure Of Mouse Dnmt1 (731-1602) Bound To
Hemimethylated Cpg Dna
Length = 873
Score = 32.3 bits (72), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 42/182 (23%), Positives = 70/182 (38%), Gaps = 24/182 (13%)
Query: 14 RVLEFYSGIGGMRYSLMKADVSAQV---------VEAFDINDKANDVYELNFG---HRPY 61
R L+ +SG GG+ +A +S + +AF +N+ V+ +
Sbjct: 414 RTLDVFSGCGGLSEGFHQAGISETLWAIEMWDPAAQAFRLNNPGTTVFTEDCNVLLKLVM 473
Query: 62 QGNIQNLTAAELDMYGAHAWLL-SPPCQPYTRQGLQKQSSDARAFSFLK---ILELIPHT 117
G + N L G L PPCQ ++ G+ + +S R +S K ++ + +
Sbjct: 474 AGEVTNSLGQRLPQKGDVEMLCGGPPCQGFS--GMNRFNS--RTYSKFKNSLVVSFLSYC 529
Query: 118 -VKPPHMLFVENV---VGFETSDTHAKMIEILANSDYLTQEFILSPLQFGVPYSRPRYFC 173
P +ENV V + S + L Y +L Q+GV +R R
Sbjct: 530 DYYRPRFFLLENVRNFVSYRRSMVLKLTLRCLVRMGYQCTFGVLQAGQYGVAQTRRRAII 589
Query: 174 LA 175
LA
Sbjct: 590 LA 591
>pdb|2B25|A Chain A, Human Putative Trna(1-Methyladenosine)methyltransferase
pdb|2B25|B Chain B, Human Putative Trna(1-Methyladenosine)methyltransferase
Length = 336
Score = 29.6 bits (65), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 42/176 (23%), Positives = 70/176 (39%), Gaps = 36/176 (20%)
Query: 15 VLEFYSGIGGMRYSLMKADVSAQVVEAFDINDKANDVYELNFGHRPYQGNIQNLTAAELD 74
VLE SG GGM L KA S V +F++ +D+ + N+ H + ++
Sbjct: 109 VLEAGSGSGGMSLFLSKAVGSQGRVISFEVRKDHHDLAKKNYKHWRDSWKLSHV------ 162
Query: 75 MYGAHAWLLSPPCQPYTRQGLQKQSSDARAFSF--LKILELIPHTVKP---PHM------ 123
W P + + + + D ++ +F + + L PH P PH+
Sbjct: 163 ----EEW---PDNVDFIHKDISGATEDIKSLTFDAVALDMLNPHVTLPVFYPHLKHGGVC 215
Query: 124 -LFVENVVGFETSDTHAKMIEILANSDYLTQEFILSPLQFGVPYSRPRYFCLAKRK 178
++V N+ ++IE+L T E LS + R CLAK+K
Sbjct: 216 AVYVVNI---------TQVIELL--DGIRTCELALSCEKISEVIVRDWLVCLAKQK 260
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
0.321 0.136 0.415
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,904,688
Number of Sequences: 62578
Number of extensions: 491636
Number of successful extensions: 905
Number of sequences better than 100.0: 27
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 23
Number of HSP's that attempted gapping in prelim test: 841
Number of HSP's gapped (non-prelim): 34
length of query: 390
length of database: 14,973,337
effective HSP length: 101
effective length of query: 289
effective length of database: 8,652,959
effective search space: 2500705151
effective search space used: 2500705151
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 52 (24.6 bits)