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= 000407
(1558 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3SWR|A Chain A, Structure Of Human Dnmt1 (601-1600) In Complex With
Sinefungin
Length = 1002
Score = 528 bits (1360), Expect = e-150, Method: Compositional matrix adjust.
Identities = 320/911 (35%), Positives = 475/911 (52%), Gaps = 136/911 (14%)
Query: 739 ITWEGECVRKSGL-ALYKKAIVHGEVVSLGSAVLVEVDELDQLPVIYFVEYMFEATGGCK 797
I+W GE V+ G + YKK + E + +G V V D+ + + V ++E + +
Sbjct: 133 ISWVGEAVKTDGKKSYYKKVCIDAETLEVGDCVSVIPDDSSKPLYLARVTALWEDSSNGQ 192
Query: 798 LFHGIIMQRGSHTVLGNTANEREVFLANQCRDLELQDI--KQTVVVDIRSVPWGHQHRKD 855
+FH G+ TVLG T++ E+FL ++C D++L I K V+ S W + D
Sbjct: 193 MFHAHWFCAGTDTVLGATSDPLELFLVDECEDMQLSYIHSKVKVIYKAPSENWAMEGGMD 252
Query: 856 IANADKVDRARAEERKKKGLPTEYYCKSLYWPERGAFFILPVDSMGL---GVGSCHACGX 912
+ + D + Y L++ + A F P + C +C
Sbjct: 253 PESLLEGDDGKT------------YFYQLWYDQDYARFESPPKTQPTEDNKFKFCVSCAR 300
Query: 913 XXXXXXXXXXXVHSK-----TSFVYGTAE-----YFVHDYVYISPHHFTWDKAEGETFKA 962
V + + +Y +A Y V D VY+ P FT++ K
Sbjct: 301 LAEMRQKEIPRVLEQLEDLDSRVLYYSATKNGILYRVGDGVYLPPEAFTFNIKLSSPVKR 360
Query: 963 GRNVGL------------------------KPYVVCQLLEIIVPKEPK-RAEVKSTQVKV 997
R + +PY + ++ EI PK+ R +++V
Sbjct: 361 PRKEPVDEDLYPEHYRKYSDYIKGSNLDAPEPYRIGRIKEIFCPKKSNGRPNETDIKIRV 420
Query: 998 RRFFRPDDI--SAEKAYCSDIREVYYSEETHLIFVEAIAGKCEVRKKNDIPAC------N 1049
+F+RP++ S +Y +DI +Y+S+E ++ +A+ G+C V D+P C
Sbjct: 421 NKFYRPENTHKSTPASYHADINLLYWSDEEAVVDFKAVQGRCTVEYGEDLPECVQVYSMG 480
Query: 1050 APAIFQHIFFCEHLHDPSKGSLKQLPAHIKLRYSSGSLDSEAASRRKKGKCIEGEDELEV 1109
P F +F E + SK S + P H + + G + + K C E E+E+
Sbjct: 481 GPNRF---YFLEAYNAKSK-SFEDPPNHARSPGNKGKGKGKGKGKPKSQACEPSEPEIEI 536
Query: 1110 EKQGGASQENHLATLDIFAGCGGLSEGLQQSGISSTKWAIEYEEPAGEAFKLNHPESLML 1169
+ L TLD+F+GCGGLSEG Q+GIS T WAIE +PA +AF+LN+P S +
Sbjct: 537 KLP-------KLRTLDVFSGCGGLSEGFHQAGISDTLWAIEMWDPAAQAFRLNNPGSTVF 589
Query: 1170 INNCNVILRAVMEKCGDAEDCVSTXXXXXXXXXXDENVINNLPLPGQVDFINGGPPCQGF 1229
+CN++L+ VM G+ + LP G V+ + GGPPCQGF
Sbjct: 590 TEDCNILLKLVM--AGETTNSRG----------------QRLPQKGDVEMLCGGPPCQGF 631
Query: 1230 SGMNRFNQSTWSKVQCEMILAFLSFADYFQPRYFLLENVRNFVSFNKGQTFRLTLASLLE 1289
SGMNRFN T+SK + ++++FLS+ DY++PR+FLLENVRNFVSF + +LTL L+
Sbjct: 632 SGMNRFNSRTYSKFKNSLVVSFLSYCDYYRPRFFLLENVRNFVSFKRSMVLKLTLRCLVR 691
Query: 1290 MGYQVRFGILEAGAFGVSQSRKRAFIWAASPHDTLPEWPEPMHVFA--APELKIMLSDNY 1347
MGYQ FG+L+AG +GV+Q+R+RA I AA+P + LP +PEP+HVFA A +L +++ D
Sbjct: 692 MGYQCTFGVLQAGQYGVAQTRRRAIILAAAPGEKLPLFPEPLHVFAPRACQLSVVVDDKK 751
Query: 1348 QYSAVRSTANGAPFRAMTVRDTIGDLPAVGNGASKTIMEYQNDPVSWFQKRIRGN--MAV 1405
S + ++G PFR +TVRDT+ DLP V NGAS + Y +P SWFQ+++RG +
Sbjct: 752 FVSNITRLSSG-PFRTITVRDTMSDLPEVRNGASALEISYNGEPQSWFQRQLRGAQYQPI 810
Query: 1406 LTDHISKEMNELNLIRCQKIPKRPGADWHDLPDEKVKLSTG------------------- 1446
L DHI K+M+ L R + IP PG+DW DLP+ +V+LS G
Sbjct: 811 LRDHICKDMSALVAARMRHIPLAPGSDWRDLPNIEVRLSDGTMARKLRYTHHDRKNGRSS 870
Query: 1447 ----------------------QVVDLIPWCLPNTAKRHNQWKGLFGRLDWEGNFPTSIT 1484
Q LIPWCLP+T RHN W GL+GRL+W+G F T++T
Sbjct: 871 SGALRGVCSCVEAGKACDPAARQFNTLIPWCLPHTGNRHNHWAGLYGRLEWDGFFSTTVT 930
Query: 1485 DPQPMGKVGMCFHPDQDRILTVRECARSQGFPDSYQFHGSIQHKHRQIGNAVPPTLAFAL 1544
+P+PMGK G HP+Q R+++VRECARSQGFPD+Y+ G+I KHRQ+GNAVPP LA A+
Sbjct: 931 NPEPMGKQGRVLHPEQHRVVSVRECARSQGFPDTYRLFGNILDKHRQVGNAVPPPLAKAI 990
Query: 1545 GRKLKEAVESK 1555
G ++K + +K
Sbjct: 991 GLEIKLCMLAK 1001
>pdb|3PTA|A Chain A, Crystal Structure Of Human Dnmt1(646-1600) In Complex With
Dna
Length = 956
Score = 527 bits (1357), Expect = e-149, Method: Compositional matrix adjust.
Identities = 320/911 (35%), Positives = 475/911 (52%), Gaps = 136/911 (14%)
Query: 739 ITWEGECVRKSGL-ALYKKAIVHGEVVSLGSAVLVEVDELDQLPVIYFVEYMFEATGGCK 797
I+W GE V+ G + YKK + E + +G V V D+ + + V ++E + +
Sbjct: 87 ISWVGEAVKTDGKKSYYKKVCIDAETLEVGDCVSVIPDDSSKPLYLARVTALWEDSSNGQ 146
Query: 798 LFHGIIMQRGSHTVLGNTANEREVFLANQCRDLELQDI--KQTVVVDIRSVPWGHQHRKD 855
+FH G+ TVLG T++ E+FL ++C D++L I K V+ S W + D
Sbjct: 147 MFHAHWFCAGTDTVLGATSDPLELFLVDECEDMQLSYIHSKVKVIYKAPSENWAMEGGMD 206
Query: 856 IANADKVDRARAEERKKKGLPTEYYCKSLYWPERGAFFILPVDSMGL---GVGSCHACGX 912
+ + D + Y L++ + A F P + C +C
Sbjct: 207 PESLLEGDDGKT------------YFYQLWYDQDYARFESPPKTQPTEDNKFKFCVSCAR 254
Query: 913 XXXXXXXXXXXVHSK-----TSFVYGTAE-----YFVHDYVYISPHHFTWDKAEGETFKA 962
V + + +Y +A Y V D VY+ P FT++ K
Sbjct: 255 LAEMRQKEIPRVLEQLEDLDSRVLYYSATKNGILYRVGDGVYLPPEAFTFNIKLSSPVKR 314
Query: 963 GRNVGL------------------------KPYVVCQLLEIIVPKEPK-RAEVKSTQVKV 997
R + +PY + ++ EI PK+ R +++V
Sbjct: 315 PRKEPVDEDLYPEHYRKYSDYIKGSNLDAPEPYRIGRIKEIFCPKKSNGRPNETDIKIRV 374
Query: 998 RRFFRPDDI--SAEKAYCSDIREVYYSEETHLIFVEAIAGKCEVRKKNDIPAC------N 1049
+F+RP++ S +Y +DI +Y+S+E ++ +A+ G+C V D+P C
Sbjct: 375 NKFYRPENTHKSTPASYHADINLLYWSDEEAVVDFKAVQGRCTVEYGEDLPECVQVYSMG 434
Query: 1050 APAIFQHIFFCEHLHDPSKGSLKQLPAHIKLRYSSGSLDSEAASRRKKGKCIEGEDELEV 1109
P F +F E + SK S + P H + + G + + K C E E+E+
Sbjct: 435 GPNRF---YFLEAYNAKSK-SFEDPPNHARSPGNKGKGKGKGKGKPKSQACEPSEPEIEI 490
Query: 1110 EKQGGASQENHLATLDIFAGCGGLSEGLQQSGISSTKWAIEYEEPAGEAFKLNHPESLML 1169
+ L TLD+F+GCGGLSEG Q+GIS T WAIE +PA +AF+LN+P S +
Sbjct: 491 KLP-------KLRTLDVFSGCGGLSEGFHQAGISDTLWAIEMWDPAAQAFRLNNPGSTVF 543
Query: 1170 INNCNVILRAVMEKCGDAEDCVSTXXXXXXXXXXDENVINNLPLPGQVDFINGGPPCQGF 1229
+CN++L+ VM G+ + LP G V+ + GGPPCQGF
Sbjct: 544 TEDCNILLKLVMA--GETTNSRG----------------QRLPQKGDVEMLCGGPPCQGF 585
Query: 1230 SGMNRFNQSTWSKVQCEMILAFLSFADYFQPRYFLLENVRNFVSFNKGQTFRLTLASLLE 1289
SGMNRFN T+SK + ++++FLS+ DY++PR+FLLENVRNFVSF + +LTL L+
Sbjct: 586 SGMNRFNSRTYSKFKNSLVVSFLSYCDYYRPRFFLLENVRNFVSFKRSMVLKLTLRCLVR 645
Query: 1290 MGYQVRFGILEAGAFGVSQSRKRAFIWAASPHDTLPEWPEPMHVFA--APELKIMLSDNY 1347
MGYQ FG+L+AG +GV+Q+R+RA I AA+P + LP +PEP+HVFA A +L +++ D
Sbjct: 646 MGYQCTFGVLQAGQYGVAQTRRRAIILAAAPGEKLPLFPEPLHVFAPRACQLSVVVDDKK 705
Query: 1348 QYSAVRSTANGAPFRAMTVRDTIGDLPAVGNGASKTIMEYQNDPVSWFQKRIRGN--MAV 1405
S + ++G PFR +TVRDT+ DLP V NGAS + Y +P SWFQ+++RG +
Sbjct: 706 FVSNITRLSSG-PFRTITVRDTMSDLPEVRNGASALEISYNGEPQSWFQRQLRGAQYQPI 764
Query: 1406 LTDHISKEMNELNLIRCQKIPKRPGADWHDLPDEKVKLSTG------------------- 1446
L DHI K+M+ L R + IP PG+DW DLP+ +V+LS G
Sbjct: 765 LRDHICKDMSALVAARMRHIPLAPGSDWRDLPNIEVRLSDGTMARKLRYTHHDRKNGRSS 824
Query: 1447 ----------------------QVVDLIPWCLPNTAKRHNQWKGLFGRLDWEGNFPTSIT 1484
Q LIPWCLP+T RHN W GL+GRL+W+G F T++T
Sbjct: 825 SGALRGVCSCVEAGKACDPAARQFNTLIPWCLPHTGNRHNHWAGLYGRLEWDGFFSTTVT 884
Query: 1485 DPQPMGKVGMCFHPDQDRILTVRECARSQGFPDSYQFHGSIQHKHRQIGNAVPPTLAFAL 1544
+P+PMGK G HP+Q R+++VRECARSQGFPD+Y+ G+I KHRQ+GNAVPP LA A+
Sbjct: 885 NPEPMGKQGRVLHPEQHRVVSVRECARSQGFPDTYRLFGNILDKHRQVGNAVPPPLAKAI 944
Query: 1545 GRKLKEAVESK 1555
G ++K + +K
Sbjct: 945 GLEIKLCMLAK 955
>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 = 495 bits (1275), Expect = e-140, Method: Compositional matrix adjust.
Identities = 309/911 (33%), Positives = 471/911 (51%), Gaps = 141/911 (15%)
Query: 735 TKKEITWEGECVR-KSGLALYKKAIVHGEVVSLGSAVLVEVDELDQLPVIYFVEYMFEAT 793
K I+W G+ ++ + Y+K + E++ +G V V D+ + + V ++E
Sbjct: 440 NKDRISWLGQPMKIEENRTYYQKVSIDEEMLEVGDCVSVIPDDSSKPLYLARVTALWEDK 499
Query: 794 GGCKLFHGIIMQRGSHTVLGNTANEREVFLANQCRDLELQDI--KQTVVVDIRSVPWGHQ 851
G +FH G+ TVLG T++ E+FL +C +++L I K V+ S W +
Sbjct: 500 NGQMMFHAHWFCAGTDTVLGATSDPLELFLVGECENMQLSYIHSKVKVIYKAPSENWAME 559
Query: 852 HRKDIANADKVDRARAEERKKKGLPTEYYCKSLYWPERGAFFILPVDSMGLGVGS---CH 908
D + AE+ K Y L++ + A F P + C
Sbjct: 560 GGTD----PETTLPGAEDGKT-------YFFQLWYNQEYARFESPPKTQPTEDNKHKFCL 608
Query: 909 ACGXXXXXXXXXXXXVHSK----------TSFVYGTAEYFVHDYVYISPHHFTWDKAEGE 958
+C V + +S Y + D VY+ P FT++
Sbjct: 609 SCIRLAELRQKEMPKVLEQIEEVDGRVYCSSITKNGVVYRLGDSVYLPPEAFTFNIKVAS 668
Query: 959 TFK-----------------------AGRNV-GLKPYVVCQLLEIIVPKEPKRAEVKSTQ 994
K G N+ +PY + ++ EI K K+ +V
Sbjct: 669 PVKRPKKDPVNETLYPEHYRKYSDYIKGSNLDAPEPYRIGRIKEIHCGK--KKGKVNEAD 726
Query: 995 VKVR--RFFRPDDI--SAEKAYCSDIREVYYSEETHLIFVEAIAGKCEVRKKNDIP---- 1046
+K+R +F+RP++ S +Y +DI +Y+S+E ++ + G+C V D+
Sbjct: 727 IKLRLYKFYRPENTHRSYNGSYHTDINMLYWSDEEAVVNFSDVQGRCTVEYGEDLLESIQ 786
Query: 1047 --ACNAPAIFQHIFFCEHLHDPSKGSLKQLPAHIK--LRYSSGSLDSEAASRRKKGKCIE 1102
+ P F +F E + +K + + P H + G + + + + E
Sbjct: 787 DYSQGGPDRF---YFLEAYNSKTK-NFEDPPNHARSPGNKGKGKGKGKGKGKHQVSEPKE 842
Query: 1103 GEDELEVEKQGGASQENHLATLDIFAGCGGLSEGLQQSGISSTKWAIEYEEPAGEAFKLN 1162
E +++ K L TLD+F+GCGGLSEG Q+GIS T WAIE +PA +AF+LN
Sbjct: 843 PEAAIKLPK---------LRTLDVFSGCGGLSEGFHQAGISETLWAIEMWDPAAQAFRLN 893
Query: 1163 HPESLMLINNCNVILRAVMEKCGDAEDCVSTXXXXXXXXXXDENVINNLPLPGQVDFING 1222
+P + + +CNV+L+ VM G+ + + LP G V+ + G
Sbjct: 894 NPGTTVFTEDCNVLLKLVM--AGEVTNSLG----------------QRLPQKGDVEMLCG 935
Query: 1223 GPPCQGFSGMNRFNQSTWSKVQCEMILAFLSFADYFQPRYFLLENVRNFVSFNKGQTFRL 1282
GPPCQGFSGMNRFN T+SK + ++++FLS+ DY++PR+FLLENVRNFVS+ + +L
Sbjct: 936 GPPCQGFSGMNRFNSRTYSKFKNSLVVSFLSYCDYYRPRFFLLENVRNFVSYRRSMVLKL 995
Query: 1283 TLASLLEMGYQVRFGILEAGAFGVSQSRKRAFIWAASPHDTLPEWPEPMHVFA--APELK 1340
TL L+ MGYQ FG+L+AG +GV+Q+R+RA I AA+P + LP +PEP+HVFA A +L
Sbjct: 996 TLRCLVRMGYQCTFGVLQAGQYGVAQTRRRAIILAAAPGEKLPLFPEPLHVFAPRACQLS 1055
Query: 1341 IMLSDNYQYSAVRSTANGAPFRAMTVRDTIGDLPAVGNGASKTIMEYQNDPVSWFQKRIR 1400
+++ D S + ++G PFR +TVRDT+ DLP + NGAS + + Y +P+SWFQ+++R
Sbjct: 1056 VVVDDKKFVSNITRLSSG-PFRTITVRDTMSDLPEIQNGASNSEIPYNGEPLSWFQRQLR 1114
Query: 1401 GN--MAVLTDHISKEMNELNLIRCQKIPKRPGADWHDLPDEKVKLSTG------------ 1446
G+ +L DHI K+M+ L R + IP PG+DW DLP+ +V+L G
Sbjct: 1115 GSHYQPILRDHICKDMSPLVAARMRHIPLFPGSDWRDLPNIQVRLGDGVIAHKLQYTFHD 1174
Query: 1447 ----------------------------QVVDLIPWCLPNTAKRHNQWKGLFGRLDWEGN 1478
Q LIPWCLP+T RHN W GL+GRL+W+G
Sbjct: 1175 VKNGYSSTGALRGVCSCAEGKACDPESRQFSTLIPWCLPHTGNRHNHWAGLYGRLEWDGF 1234
Query: 1479 FPTSITDPQPMGKVGMCFHPDQDRILTVRECARSQGFPDSYQFHGSIQHKHRQIGNAVPP 1538
F T++T+P+PMGK G HP+Q R+++VRECARSQGFPDSY+F G+I +HRQ+GNAVPP
Sbjct: 1235 FSTTVTNPEPMGKQGRVLHPEQHRVVSVRECARSQGFPDSYRFFGNILDRHRQVGNAVPP 1294
Query: 1539 TLAFALGRKLK 1549
LA A+G ++K
Sbjct: 1295 PLAKAIGLEIK 1305
Score = 48.5 bits (114), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 43/190 (22%), Positives = 84/190 (44%), Gaps = 10/190 (5%)
Query: 109 DRPNRRLNDFILHDENGLPQPLEMLEID---DLFISGLILPLQESSDREKEKGVRCEGFG 165
D P R F ++ G P++ I+ +L+ SG + + + E G+ + G
Sbjct: 117 DSPMHRFTSFSVYCSRGHLCPVDTGLIEKNVELYFSGCAKAIHDENP-SMEGGINGKNLG 175
Query: 166 RIESWSISGYEDGSPV-IWLSTDIADYDCLKPASSYKKYYELFFEKARACIEVYKKLSKT 224
I W +SG++ G V I ST A+Y ++P+ Y+ + L EK I + K + +
Sbjct: 176 PINQWWLSGFDGGEKVLIGFSTAFAEYILMEPSKEYEPIFGLMQEK----IYISKIVVEF 231
Query: 225 SGGNSDCSIDELLAGVVRSMSGSKCFRGGVSIKDFVISQGEFIFNQLIGLDETSKKNDQK 284
N D ++L+ + ++ S + +D ++ +F+ +Q+ DE ++
Sbjct: 232 LQNNPDAVYEDLINKIETTVPPSTINVNRFT-EDSLLRHAQFVVSQVESYDEAKDDDETP 290
Query: 285 FAELPVLVAL 294
P + AL
Sbjct: 291 IFLSPCMRAL 300
>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 = 493 bits (1269), Expect = e-139, Method: Compositional matrix adjust.
Identities = 309/911 (33%), Positives = 472/911 (51%), Gaps = 141/911 (15%)
Query: 735 TKKEITWEGECVR-KSGLALYKKAIVHGEVVSLGSAVLVEVDELDQLPVIYFVEYMFEAT 793
+K I+W G+ ++ + Y+K + E++ +G V V D+ + + V ++E
Sbjct: 1 SKDRISWLGQPMKIEENRTYYQKVSIDEEMLEVGDCVSVIPDDSSKPLYLARVTALWEDK 60
Query: 794 GGCKLFHGIIMQRGSHTVLGNTANEREVFLANQCRDLELQDI--KQTVVVDIRSVPWGHQ 851
G +FH G+ TVLG T++ E+FL +C +++L I K V+ S W +
Sbjct: 61 NGQMMFHAHWFCAGTDTVLGATSDPLELFLVGECENMQLSYIHSKVKVIYKAPSENWAME 120
Query: 852 HRKDIANADKVDRARAEERKKKGLPTEYYCKSLYWPERGAFFILPVDSMGLGVGS---CH 908
D + AE+ K Y L++ + A F P + C
Sbjct: 121 GGTD----PETTLPGAEDGKT-------YFFQLWYNQEYARFESPPKTQPTEDNKHKFCL 169
Query: 909 ACGXXXXXXXXXXXXVHSK----------TSFVYGTAEYFVHDYVYISPHHFTWDKAEGE 958
+C V + +S Y + D VY+ P FT++
Sbjct: 170 SCIRLAELRQKEMPKVLEQIEEVDGRVYCSSITKNGVVYRLGDSVYLPPEAFTFNIKVAS 229
Query: 959 TFK-----------------------AGRNV-GLKPYVVCQLLEIIVPKEPKRAEVKSTQ 994
K G N+ +PY + ++ EI K K+ +V
Sbjct: 230 PVKRPKKDPVNETLYPEHYRKYSDYIKGSNLDAPEPYRIGRIKEIHCGK--KKGKVNEAD 287
Query: 995 VKVR--RFFRPDDI--SAEKAYCSDIREVYYSEETHLIFVEAIAGKCEVRKKNDIP---- 1046
+K+R +F+RP++ S +Y +DI +Y+S+E ++ + G+C V D+
Sbjct: 288 IKLRLYKFYRPENTHRSYNGSYHTDINMLYWSDEEAVVNFSDVQGRCTVEYGEDLLESIQ 347
Query: 1047 --ACNAPAIFQHIFFCEHLHDPSKGSLKQLPAHIK--LRYSSGSLDSEAASRRKKGKCIE 1102
+ P F +F E + +K + + P H + G + + + + E
Sbjct: 348 DYSQGGPDRF---YFLEAYNSKTK-NFEDPPNHARSPGNKGKGKGKGKGKGKHQVSEPKE 403
Query: 1103 GEDELEVEKQGGASQENHLATLDIFAGCGGLSEGLQQSGISSTKWAIEYEEPAGEAFKLN 1162
E +++ K L TLD+F+GCGGLSEG Q+GIS T WAIE +PA +AF+LN
Sbjct: 404 PEAAIKLPK---------LRTLDVFSGCGGLSEGFHQAGISETLWAIEMWDPAAQAFRLN 454
Query: 1163 HPESLMLINNCNVILRAVMEKCGDAEDCVSTXXXXXXXXXXDENVINNLPLPGQVDFING 1222
+P + + +CNV+L+ VM G+ + + LP G V+ + G
Sbjct: 455 NPGTTVFTEDCNVLLKLVM--AGEVTNSLG----------------QRLPQKGDVEMLCG 496
Query: 1223 GPPCQGFSGMNRFNQSTWSKVQCEMILAFLSFADYFQPRYFLLENVRNFVSFNKGQTFRL 1282
GPPCQGFSGMNRFN T+SK + ++++FLS+ DY++PR+FLLENVRNFVS+ + +L
Sbjct: 497 GPPCQGFSGMNRFNSRTYSKFKNSLVVSFLSYCDYYRPRFFLLENVRNFVSYRRSMVLKL 556
Query: 1283 TLASLLEMGYQVRFGILEAGAFGVSQSRKRAFIWAASPHDTLPEWPEPMHVFA--APELK 1340
TL L+ MGYQ FG+L+AG +GV+Q+R+RA I AA+P + LP +PEP+HVFA A +L
Sbjct: 557 TLRCLVRMGYQCTFGVLQAGQYGVAQTRRRAIILAAAPGEKLPLFPEPLHVFAPRACQLS 616
Query: 1341 IMLSDNYQYSAVRSTANGAPFRAMTVRDTIGDLPAVGNGASKTIMEYQNDPVSWFQKRIR 1400
+++ D S + ++G PFR +TVRDT+ DLP + NGAS + + Y +P+SWFQ+++R
Sbjct: 617 VVVDDKKFVSNITRLSSG-PFRTITVRDTMSDLPEIQNGASNSEIPYNGEPLSWFQRQLR 675
Query: 1401 GN--MAVLTDHISKEMNELNLIRCQKIPKRPGADWHDLPDEKVKLSTG------------ 1446
G+ +L DHI K+M+ L R + IP PG+DW DLP+ +V+L G
Sbjct: 676 GSHYQPILRDHICKDMSPLVAARMRHIPLFPGSDWRDLPNIQVRLGDGVIAHKLQYTFHD 735
Query: 1447 ----------------------------QVVDLIPWCLPNTAKRHNQWKGLFGRLDWEGN 1478
Q LIPWCLP+T RHN W GL+GRL+W+G
Sbjct: 736 VKNGYSSTGALRGVCSCAEGKACDPESRQFSTLIPWCLPHTGNRHNHWAGLYGRLEWDGF 795
Query: 1479 FPTSITDPQPMGKVGMCFHPDQDRILTVRECARSQGFPDSYQFHGSIQHKHRQIGNAVPP 1538
F T++T+P+PMGK G HP+Q R+++VRECARSQGFPDSY+F G+I +HRQ+GNAVPP
Sbjct: 796 FSTTVTNPEPMGKQGRVLHPEQHRVVSVRECARSQGFPDSYRFFGNILDRHRQVGNAVPP 855
Query: 1539 TLAFALGRKLK 1549
LA A+G ++K
Sbjct: 856 PLAKAIGLEIK 866
>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 = 492 bits (1267), Expect = e-139, Method: Compositional matrix adjust.
Identities = 309/911 (33%), Positives = 471/911 (51%), Gaps = 141/911 (15%)
Query: 735 TKKEITWEGECVR-KSGLALYKKAIVHGEVVSLGSAVLVEVDELDQLPVIYFVEYMFEAT 793
K I+W G+ ++ + Y+K + E++ +G V V D+ + + V ++E
Sbjct: 82 NKDRISWLGQPMKIEENRTYYQKVSIDEEMLEVGDCVSVIPDDSSKPLYLARVTALWEDK 141
Query: 794 GGCKLFHGIIMQRGSHTVLGNTANEREVFLANQCRDLELQDI--KQTVVVDIRSVPWGHQ 851
G +FH G+ TVLG T++ E+FL +C +++L I K V+ S W +
Sbjct: 142 NGQMMFHAHWFCAGTDTVLGATSDPLELFLVGECENMQLSYIHSKVKVIYKAPSENWAME 201
Query: 852 HRKDIANADKVDRARAEERKKKGLPTEYYCKSLYWPERGAFFILPVDSMGLGVGS---CH 908
D + AE+ K Y L++ + A F P + C
Sbjct: 202 GGTD----PETTLPGAEDGKT-------YFFQLWYNQEYARFESPPKTQPTEDNKHKFCL 250
Query: 909 ACGXXXXXXXXXXXXVHSK----------TSFVYGTAEYFVHDYVYISPHHFTWDKAEGE 958
+C V + +S Y + D VY+ P FT++
Sbjct: 251 SCIRLAELRQKEMPKVLEQIEEVDGRVYCSSITKNGVVYRLGDSVYLPPEAFTFNIKVAS 310
Query: 959 TFK-----------------------AGRNV-GLKPYVVCQLLEIIVPKEPKRAEVKSTQ 994
K G N+ +PY + ++ EI K K+ +V
Sbjct: 311 PVKRPKKDPVNETLYPEHYRKYSDYIKGSNLDAPEPYRIGRIKEIHCGK--KKGKVNEAD 368
Query: 995 VKVR--RFFRPDDI--SAEKAYCSDIREVYYSEETHLIFVEAIAGKCEVRKKNDIP---- 1046
+K+R +F+RP++ S +Y +DI +Y+S+E ++ + G+C V D+
Sbjct: 369 IKLRLYKFYRPENTHRSYNGSYHTDINMLYWSDEEAVVNFSDVQGRCTVEYGEDLLESIQ 428
Query: 1047 --ACNAPAIFQHIFFCEHLHDPSKGSLKQLPAHIK--LRYSSGSLDSEAASRRKKGKCIE 1102
+ P F +F E + +K + + P H + G + + + + E
Sbjct: 429 DYSQGGPDRF---YFLEAYNSKTK-NFEDPPNHARSPGNKGKGKGKGKGKGKHQVSEPKE 484
Query: 1103 GEDELEVEKQGGASQENHLATLDIFAGCGGLSEGLQQSGISSTKWAIEYEEPAGEAFKLN 1162
E +++ K L TLD+F+GCGGLSEG Q+GIS T WAIE +PA +AF+LN
Sbjct: 485 PEAAIKLPK---------LRTLDVFSGCGGLSEGFHQAGISETLWAIEMWDPAAQAFRLN 535
Query: 1163 HPESLMLINNCNVILRAVMEKCGDAEDCVSTXXXXXXXXXXDENVINNLPLPGQVDFING 1222
+P + + +CNV+L+ VM G+ + + LP G V+ + G
Sbjct: 536 NPGTTVFTEDCNVLLKLVM--AGEVTNSLG----------------QRLPQKGDVEMLCG 577
Query: 1223 GPPCQGFSGMNRFNQSTWSKVQCEMILAFLSFADYFQPRYFLLENVRNFVSFNKGQTFRL 1282
GPPCQGFSGMNRFN T+SK + ++++FLS+ DY++PR+FLLENVRNFVS+ + +L
Sbjct: 578 GPPCQGFSGMNRFNSRTYSKFKNSLVVSFLSYCDYYRPRFFLLENVRNFVSYRRSMVLKL 637
Query: 1283 TLASLLEMGYQVRFGILEAGAFGVSQSRKRAFIWAASPHDTLPEWPEPMHVFA--APELK 1340
TL L+ MGYQ FG+L+AG +GV+Q+R+RA I AA+P + LP +PEP+HVFA A +L
Sbjct: 638 TLRCLVRMGYQCTFGVLQAGQYGVAQTRRRAIILAAAPGEKLPLFPEPLHVFAPRACQLS 697
Query: 1341 IMLSDNYQYSAVRSTANGAPFRAMTVRDTIGDLPAVGNGASKTIMEYQNDPVSWFQKRIR 1400
+++ D S + ++G PFR +TVRDT+ DLP + NGAS + + Y +P+SWFQ+++R
Sbjct: 698 VVVDDKKFVSNITRLSSG-PFRTITVRDTMSDLPEIQNGASNSEIPYNGEPLSWFQRQLR 756
Query: 1401 GN--MAVLTDHISKEMNELNLIRCQKIPKRPGADWHDLPDEKVKLSTG------------ 1446
G+ +L DHI K+M+ L R + IP PG+DW DLP+ +V+L G
Sbjct: 757 GSHYQPILRDHICKDMSPLVAARMRHIPLFPGSDWRDLPNIQVRLGDGVIAHKLQYTFHD 816
Query: 1447 ----------------------------QVVDLIPWCLPNTAKRHNQWKGLFGRLDWEGN 1478
Q LIPWCLP+T RHN W GL+GRL+W+G
Sbjct: 817 VKNGYSSTGALRGVCSCAEGKACDPESRQFSTLIPWCLPHTGNRHNHWAGLYGRLEWDGF 876
Query: 1479 FPTSITDPQPMGKVGMCFHPDQDRILTVRECARSQGFPDSYQFHGSIQHKHRQIGNAVPP 1538
F T++T+P+PMGK G HP+Q R+++VRECARSQGFPDSY+F G+I +HRQ+GNAVPP
Sbjct: 877 FSTTVTNPEPMGKQGRVLHPEQHRVVSVRECARSQGFPDSYRFFGNILDRHRQVGNAVPP 936
Query: 1539 TLAFALGRKLK 1549
LA A+G ++K
Sbjct: 937 PLAKAIGLEIK 947
>pdb|4FT2|A Chain A, Crystal Structure Of Zea Mays Zmet2 In Complex H3(1-15)k9me2
Peptide And Sah
pdb|4FT2|B Chain B, Crystal Structure Of Zea Mays Zmet2 In Complex H3(1-15)k9me2
Peptide And Sah
pdb|4FT4|B Chain B, Crystal Structure Of Zea Mays Zmet2 In Complex H3(1-32)k9me2
Peptide And Sah
pdb|4FT4|A Chain A, Crystal Structure Of Zea Mays Zmet2 In Complex H3(1-32)k9me2
Peptide And Sah
Length = 784
Score = 205 bits (522), Expect = 2e-52, Method: Compositional matrix adjust.
Identities = 133/383 (34%), Positives = 194/383 (50%), Gaps = 58/383 (15%)
Query: 1211 LPLPGQVDFINGGPPCQGFSGMNRFNQ--STWSKVQCEMILAFLSFADYFQPRYFLLENV 1268
LPLPG VD I GGPPCQG SG NR+ + + ++ F+ Y +P+Y L+ENV
Sbjct: 374 LPLPGDVDVICGGPPCQGISGFNRYRNRDEPLKDEKNKQMVTFMDIVAYLKPKYVLMENV 433
Query: 1269 RNFVSFNKGQTFRLTLASLLEMGYQVRFGILEAGAFGVSQSRKRAFIWAASPHDTLPEWP 1328
+ + F G + L+ L+ M YQ R G++ AG +G+ Q R R F+W A LP++P
Sbjct: 434 VDILKFADGYLGKYALSCLVAMKYQARLGMMVAGCYGLPQFRMRVFLWGALSSMVLPKYP 493
Query: 1329 EPMHVF----AAPEL--KIMLS-DNYQYSAVRSTANGAPFRAMTVRDTIGDLPAVGNGAS 1381
P + AP + M++ D Q +++ +A+ + D I DLP V N
Sbjct: 494 LPTYDVVVRGGAPNAFSQCMVAYDETQKPSLK--------KALLLGDAISDLPKVQNHQP 545
Query: 1382 KTIMEYQNDPVSWFQKRIR----------------GNMAVLTDHISKEMNELNLIRCQKI 1425
+MEY P + FQ+ IR + L DH +N + R Q+I
Sbjct: 546 NDVMEYGGSPKTEFQRYIRLSRKDMLDWSFGEGAGPDEGKLLDHQPLRLNNDDYERVQQI 605
Query: 1426 PKRPGADWHDL--------------PD-EKVKLSTGQVVDLIPWCLPNTAKRHNQWKGL- 1469
P + GA++ DL P+ E+VKLS+G+ + +P+ A + K L
Sbjct: 606 PVKKGANFRDLKGVRVGANNIVEWDPEIERVKLSSGKPL------VPDYAMSFIKGKSLK 659
Query: 1470 -FGRLDWEGNFPTSITDPQPMGKVGMCFHPDQDRILTVRECARSQGFPDSYQFHGSIQHK 1528
FGRL W+ PT +T +P +V HP Q R+LT+RE AR QGFPD Y+ G I+ K
Sbjct: 660 PFGRLWWDETVPTVVTRAEPHNQV--IIHPTQARVLTIRENARLQGFPDYYRLFGPIKEK 717
Query: 1529 HRQIGNAVPPTLAFALGRKLKEA 1551
+ Q+GNAV +A ALG L +A
Sbjct: 718 YIQVGNAVAVPVARALGYCLGQA 740
Score = 50.8 bits (120), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 52/183 (28%), Positives = 85/183 (46%), Gaps = 28/183 (15%)
Query: 998 RRFFRPDD--------ISAEKAYCSDIREVYYSEETHLIFVEAIAGKCEVRKKNDIPACN 1049
R FFR +D IS + + D R V+ SEE + ++ I K ++ + P +
Sbjct: 95 RWFFRAEDTVINSLVSISVD-GHKHDPRRVFLSEEKNDNVLDCIISKVKIVHVD--PNMD 151
Query: 1050 APAIFQHIFFCEHLHDPSKGSLKQLPAHIKLRYSSGSLDSEAASRRKKGKCIEGEDELEV 1109
A Q I C+ +D S A+I +G S+ AS G +V
Sbjct: 152 PKAKAQLIESCDLYYDMSYSVAYSTFANIS--SENGQSGSDTAS---------GISSDDV 200
Query: 1110 EKQGGASQENHLATL-DIFAGCGGLSEGL----QQSGIS-STKWAIEYEEPAGEAFKLNH 1163
+ + +S ATL D+++GCGG+S GL SG+ T+WA+++ A ++ K NH
Sbjct: 201 DLETSSSMPTRTATLLDLYSGCGGMSTGLCLGAALSGLKLETRWAVDFNSFACQSLKYNH 260
Query: 1164 PES 1166
P++
Sbjct: 261 PQT 263
>pdb|4FSX|A Chain A, Crystal Structure Of Se-Substituted Zea Mays Zmet2 In
Complex With Sah
pdb|4FSX|B Chain B, Crystal Structure Of Se-Substituted Zea Mays Zmet2 In
Complex With Sah
Length = 784
Score = 194 bits (494), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 130/380 (34%), Positives = 181/380 (47%), Gaps = 52/380 (13%)
Query: 1211 LPLPGQVDFINGGPPCQGFSGMNRFNQ--STWSKVQCEMILAFLSFADYFQPRYFLLENV 1268
LPLPG VD I GGPPCQG SG NR+ + + + F Y +P+Y L ENV
Sbjct: 374 LPLPGDVDVICGGPPCQGISGFNRYRNRDEPLKDEKNKQXVTFXDIVAYLKPKYVLXENV 433
Query: 1269 RNFVSFNKGQTFRLTLASLLEMGYQVRFGILEAGAFGVSQSRKRAFIWAASPHDTLPEWP 1328
+ + F G + L+ L+ YQ R G AG +G+ Q R R F+W A LP++P
Sbjct: 434 VDILKFADGYLGKYALSCLVAXKYQARLGXXVAGCYGLPQFRXRVFLWGALSSXVLPKYP 493
Query: 1329 EPMHVF----AAPELKIMLSDNYQYSAVRSTANGAPFRAMTVRDTIGDLPAVGNGASKTI 1384
P + AP Y + S +A+ + D I DLP V N +
Sbjct: 494 LPTYDVVVRGGAPNAFSQCXVAYDETQKPSLK-----KALLLGDAISDLPKVQNHQPNDV 548
Query: 1385 MEYQNDPVSWFQKRIR----------------GNMAVLTDHISKEMNELNLIRCQKIPKR 1428
EY P + FQ+ IR + L DH +N + R Q+IP +
Sbjct: 549 XEYGGSPKTEFQRYIRLSRKDXLDWSFGEGAGPDEGKLLDHQPLRLNNDDYERVQQIPVK 608
Query: 1429 PGADWHDL--------------PD-EKVKLSTGQVVDLIPWCLPNTAKRHNQWKGL--FG 1471
GA++ DL P+ E+VKLS+G+ + +P+ A + K L FG
Sbjct: 609 KGANFRDLKGVRVGANNIVEWDPEIERVKLSSGKPL------VPDYAXSFIKGKSLKPFG 662
Query: 1472 RLDWEGNFPTSITDPQPMGKVGMCFHPDQDRILTVRECARSQGFPDSYQFHGSIQHKHRQ 1531
RL W+ PT +T +P +V HP Q R+LT+RE AR QGFPD Y+ G I+ K+ Q
Sbjct: 663 RLWWDETVPTVVTRAEPHNQV--IIHPTQARVLTIRENARLQGFPDYYRLFGPIKEKYIQ 720
Query: 1532 IGNAVPPTLAFALGRKLKEA 1551
+GNAV +A ALG L +A
Sbjct: 721 VGNAVAVPVARALGYCLGQA 740
Score = 48.5 bits (114), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 52/183 (28%), Positives = 84/183 (45%), Gaps = 28/183 (15%)
Query: 998 RRFFRPDD--------ISAEKAYCSDIREVYYSEETHLIFVEAIAGKCEVRKKNDIPACN 1049
R FFR +D IS + + D R V+ SEE + ++ I K ++ + P +
Sbjct: 95 RWFFRAEDTVINSLVSISVD-GHKHDPRRVFLSEEKNDNVLDCIISKVKIVHVD--PNXD 151
Query: 1050 APAIFQHIFFCEHLHDPSKGSLKQLPAHIKLRYSSGSLDSEAASRRKKGKCIEGEDELEV 1109
A Q I C+ +D S A+I +G S+ AS G +V
Sbjct: 152 PKAKAQLIESCDLYYDXSYSVAYSTFANIS--SENGQSGSDTAS---------GISSDDV 200
Query: 1110 EKQGGASQENHLATL-DIFAGCGGLSEGL----QQSGIS-STKWAIEYEEPAGEAFKLNH 1163
+ + +S ATL D+++GCGG S GL SG+ T+WA+++ A ++ K NH
Sbjct: 201 DLETSSSXPTRTATLLDLYSGCGGXSTGLCLGAALSGLKLETRWAVDFNSFACQSLKYNH 260
Query: 1164 PES 1166
P++
Sbjct: 261 PQT 263
>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 = 61.6 bits (148), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 48/178 (26%), Positives = 77/178 (43%), Gaps = 22/178 (12%)
Query: 1124 LDIFAGCGGLSEGLQQSGISSTKWAIEYEEPAGEAFKLNHPESLMLINNCNVILRAVMEK 1183
+D+FAG GG+ G + G + E+ + A +K NH C+ E
Sbjct: 30 IDLFAGIGGIRRGFESIG-GQCVFTSEWNKHAVRTYKANH--------YCDPATHHFNE- 79
Query: 1184 CGDAEDCVSTXXXXXXXXXXDENVINNLPLPGQVDFINGGPPCQGFS--GMNRFN----- 1236
D D + E++ ++P + D + G PCQ FS G+++ N
Sbjct: 80 --DIRDITLSHQEGVSDEAAAEHIRQHIP---EHDVLLAGFPCQPFSLAGVSKKNSLGRA 134
Query: 1237 QSTWSKVQCEMILAFLSFADYFQPRYFLLENVRNFVSFNKGQTFRLTLASLLEMGYQV 1294
Q + + D +P F+LENV+N S +KG+TFR+ +L E+GY V
Sbjct: 135 HGFACDTQGTLFFDVVRIIDARRPAXFVLENVKNLKSHDKGKTFRIIXQTLDELGYDV 192
>pdb|3ME5|A Chain A, Crystal Structure Of Putative Dna Cytosine Methylase From
Shigella Flexneri 2a Str. 2457t
Length = 482
Score = 61.6 bits (148), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 48/178 (26%), Positives = 77/178 (43%), Gaps = 22/178 (12%)
Query: 1124 LDIFAGCGGLSEGLQQSGISSTKWAIEYEEPAGEAFKLNHPESLMLINNCNVILRAVMEK 1183
+D+FAG GG+ G + G + E+ + A +K NH C+ E
Sbjct: 92 IDLFAGIGGIRRGFESIG-GQCVFTSEWNKHAVRTYKANH--------YCDPATHHFNE- 141
Query: 1184 CGDAEDCVSTXXXXXXXXXXDENVINNLPLPGQVDFINGGPPCQGFS--GMNRFN----- 1236
D D + E++ ++P + D + G PCQ FS G+++ N
Sbjct: 142 --DIRDITLSHQEGVSDEAAAEHIRQHIP---EHDVLLAGFPCQPFSLAGVSKKNSLGRA 196
Query: 1237 QSTWSKVQCEMILAFLSFADYFQPRYFLLENVRNFVSFNKGQTFRLTLASLLEMGYQV 1294
Q + + D +P F+LENV+N S +KG+TFR+ +L E+GY V
Sbjct: 197 HGFACDTQGTLFFDVVRIIDARRPAXFVLENVKNLKSHDKGKTFRIIXQTLDELGYDV 254
>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 = 59.3 bits (142), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 28/53 (52%), Positives = 37/53 (69%), Gaps = 1/53 (1%)
Query: 1502 RILTVRECARSQGFPDSYQFH-GSIQHKHRQIGNAVPPTLAFALGRKLKEAVE 1553
R LTVRECAR QGFPD + FH S+ ++ IGNAVP LA+ + + +K A+E
Sbjct: 273 RRLTVRECARVQGFPDDFIFHYESLNDGYKMIGNAVPVNLAYEIAKTIKSALE 325
Score = 46.2 bits (108), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 46/194 (23%), Positives = 76/194 (39%), Gaps = 37/194 (19%)
Query: 1121 LATLDIFAGCGGLSEGLQQSGISSTKWAIEYEEPAGEAFKLNHPESLMLINNCNVILRAV 1180
+ + +F+G GGL G Q++G A EY++ + ++ NH L+
Sbjct: 1 MNLISLFSGAGGLDLGFQKAGFRII-CANEYDKSIWKTYESNHSAKLIK----------- 48
Query: 1181 MEKCGDAEDCVSTXXXXXXXXXXDENVINNLPLPGQVDFINGGPPCQGFSGMNRFNQSTW 1240
GD S DE P + D I GGPP Q +S
Sbjct: 49 ----GDISKISS-----------DE-------FP-KCDGIIGGPPSQSWSEGGSL--RGI 83
Query: 1241 SKVQCEMILAFLSFADYFQPRYFLLENVRNFVSFNKGQTFRLTLASLLEMGYQVRFGILE 1300
+ ++ ++ +P +FL ENV+ ++ + + + GY V +L
Sbjct: 84 DDPRGKLFYEYIRILKQKKPIFFLAENVKGMMAQRHNKAVQEFIQEFDNAGYDVHIILLN 143
Query: 1301 AGAFGVSQSRKRAF 1314
A +GV+Q RKR F
Sbjct: 144 ANDYGVAQDRKRVF 157
>pdb|3G7U|A Chain A, Crystal Structure Of Putative Dna Modification
Methyltransferase Encoded Within Prophage Cp-933r
(E.Coli)
Length = 376
Score = 59.3 bits (142), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 50/196 (25%), Positives = 84/196 (42%), Gaps = 32/196 (16%)
Query: 1121 LATLDIFAGCGGLSEGLQQSGISSTKWAIEYEEPAGEAFKLNHPESLMLINNCNVILRAV 1180
L +D+F+G GGLS G ++G K A+E ++ A +N P SL + + +++ +
Sbjct: 3 LNVIDLFSGVGGLSLGAARAGFD-VKMAVEIDQHAINTHAINFPRSLHVQEDVSLLNAEI 61
Query: 1181 MEKCGDAEDCVSTXXXXXXXXXXDENVINNLPLPGQVDFINGGPPCQGFSGMNRFNQSTW 1240
++ N++P+ G I GGPPCQGFS + + N
Sbjct: 62 IKGF----------------------FKNDMPIDG----IIGGPPCQGFSSIGKGNP--- 92
Query: 1241 SKVQCEMILAFLSFADYFQPRYFLLENVRNFVSFNKGQTFRLTLASLLEMGYQVRFGI-L 1299
+ ++ + F QP +FL ENV + K R +L+ Y + I +
Sbjct: 93 DDSRNQLYMHFYRLVSELQPLFFLAENVPGIMQ-EKYSGIRNKAFNLVSGDYDILDPIKV 151
Query: 1300 EAGAFGVSQSRKRAFI 1315
+A +G R R F
Sbjct: 152 KASDYGAPTIRTRYFF 167
Score = 56.2 bits (134), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 24/45 (53%), Positives = 31/45 (68%)
Query: 1497 HPDQDRILTVRECARSQGFPDSYQFHGSIQHKHRQIGNAVPPTLA 1541
HP R++T RE AR QGFPD ++FH + H RQIGN+V P +A
Sbjct: 312 HPYHPRVITPREAARLQGFPDWFRFHVTKWHSFRQIGNSVSPIVA 356
>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 = 57.8 bits (138), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 27/52 (51%), Positives = 36/52 (69%), Gaps = 1/52 (1%)
Query: 1502 RILTVRECARSQGFPDSYQFH-GSIQHKHRQIGNAVPPTLAFALGRKLKEAV 1552
R LTVRECAR QGFPD + FH S+ ++ IGNAVP LA+ + + +K A+
Sbjct: 273 RRLTVRECARVQGFPDDFIFHYESLNDGYKMIGNAVPVNLAYEIAKTIKSAL 324
Score = 50.1 bits (118), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 47/194 (24%), Positives = 77/194 (39%), Gaps = 37/194 (19%)
Query: 1121 LATLDIFAGCGGLSEGLQQSGISSTKWAIEYEEPAGEAFKLNHPESLMLINNCNVILRAV 1180
+ + +F+G GGL G Q++G A EY++ + ++ NH L+
Sbjct: 1 MNLISLFSGAGGLDLGFQKAGFRII-CANEYDKSIWKTYESNHSAKLIK----------- 48
Query: 1181 MEKCGDAEDCVSTXXXXXXXXXXDENVINNLPLPGQVDFINGGPPCQGFSGMNRFNQSTW 1240
GD S DE P + D I GGPPCQ +S
Sbjct: 49 ----GDISKISS-----------DE-------FP-KCDGIIGGPPCQSWSEGGSL--RGI 83
Query: 1241 SKVQCEMILAFLSFADYFQPRYFLLENVRNFVSFNKGQTFRLTLASLLEMGYQVRFGILE 1300
+ ++ ++ +P +FL ENV+ ++ + + + GY V +L
Sbjct: 84 DDPRGKLFYEYIRILKQKKPIFFLAENVKGMMAQRHNKAVQEFIQEFDNAGYDVHIILLN 143
Query: 1301 AGAFGVSQSRKRAF 1314
A +GV+Q RKR F
Sbjct: 144 ANDYGVAQDRKRVF 157
>pdb|1G55|A Chain A, Structure Of Human Dnmt2, An Enigmatic Dna Methyltransferase
Homologue
Length = 343
Score = 57.8 bits (138), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 51/211 (24%), Positives = 81/211 (38%), Gaps = 45/211 (21%)
Query: 1121 LATLDIFAGCGGLSEGLQQSGI-SSTKWAIEYEEPAGEAFKLNHPESLMLINNCNVILRA 1179
L L++++G GG+ L++S I + AI+ A E +K N P + +L I
Sbjct: 3 LRVLELYSGVGGMHHALRESCIPAQVVAAIDVNTVANEVYKYNFPHTQLLAKTIEGITLE 62
Query: 1180 VMEKCGDAEDCVSTXXXXXXXXXXDENVINNLPLPGQVDFINGGPPCQGFSGMNRFNQST 1239
++ D I PPCQ F+ + R T
Sbjct: 63 EFDRLS-------------------------------FDMILMSPPCQPFTRIGRQGDMT 91
Query: 1240 WSKVQCEMILAFLSFADYFQ-----PRYFLLENVRNFVSFNKGQTFRLTLASLLEMGYQV 1294
S+ +FL D P+Y LLENV+ F T L + ++ G+Q
Sbjct: 92 DSRTN-----SFLHILDILPRLQKLPKYILLENVK---GFEVSSTRDLLIQTIENXGFQY 143
Query: 1295 RFGILEAGAFGVSQSRKRAFIWAASPHDTLP 1325
+ +L + G+ SR R F+ A + LP
Sbjct: 144 QEFLLSPTSLGIPNSRLRYFLIAKLQSEPLP 174
>pdb|2UYH|A Chain A, Hhai Dna Methyltransferase S87q-Q237s Mutant Complex With
13mer Gcgc-Gmgc Oligonucleotide And Sah
Length = 327
Score = 51.6 bits (122), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 43/199 (21%), Positives = 77/199 (38%), Gaps = 38/199 (19%)
Query: 1117 QENHLATLDIFAGCGGLSEGLQQSGISSTKWAIEYEEPAGEAFKLNHPESLMLINNCNVI 1176
Q L +D+FAG GG L+ G + ++ E+++ A E +++N E
Sbjct: 8 QLTGLRFIDLFAGLGGFRLALESCG-AECVYSNEWDKYAQEVYEMNFGEK---------- 56
Query: 1177 LRAVMEKCGDAEDCVSTXXXXXXXXXXDENVINNLPLPGQVDFINGGPPCQGFSGMNRFN 1236
D +N +P D + G PCQ FS +
Sbjct: 57 ------------------------PEGDITQVNEKTIPDH-DILCAGFPCQAFSIQGK-- 89
Query: 1237 QSTWSKVQCEMILAFLSFADYFQPRYFLLENVRNFVSFNKGQTFRLTLASLLEMGYQVRF 1296
Q + + + +P+ +ENV+NF S + G T + ++ E+ Y
Sbjct: 90 QKGFEDSRGTLFFDIARIVREKKPKVVFMENVKNFASHDNGNTLEVVKNTMNELDYSFHA 149
Query: 1297 GILEAGAFGVSQSRKRAFI 1315
+L A +G+ Q R+R ++
Sbjct: 150 KVLNALDYGIPQKRERIYM 168
Score = 43.1 bits (100), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/48 (41%), Positives = 26/48 (54%)
Query: 1489 MGKVGMCFHPDQDRILTVRECARSQGFPDSYQFHGSIQHKHRQIGNAV 1536
K G + R L RECAR G+PDSY+ H S ++Q GN+V
Sbjct: 259 FAKTGGYLVNGKTRKLHPRECARVMGYPDSYKVHPSTSQAYKQFGNSV 306
>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 = 51.2 bits (121), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 43/199 (21%), Positives = 77/199 (38%), Gaps = 38/199 (19%)
Query: 1117 QENHLATLDIFAGCGGLSEGLQQSGISSTKWAIEYEEPAGEAFKLNHPESLMLINNCNVI 1176
Q L +D+FAG GG L+ G + ++ E+++ A E +++N E
Sbjct: 8 QLTGLRFIDLFAGLGGFRLALESCG-AECVYSNEWDKYAQEVYEMNFGEK---------- 56
Query: 1177 LRAVMEKCGDAEDCVSTXXXXXXXXXXDENVINNLPLPGQVDFINGGPPCQGFSGMNRFN 1236
D +N +P D + G PCQ FS +
Sbjct: 57 ------------------------PEGDITQVNEKTIPDH-DILCAGFPCQAFSISGK-- 89
Query: 1237 QSTWSKVQCEMILAFLSFADYFQPRYFLLENVRNFVSFNKGQTFRLTLASLLEMGYQVRF 1296
Q + + + +P+ +ENV+NF S + G T + ++ E+ Y
Sbjct: 90 QKGFEDSRGTLFFDIARIVREKKPKVVFMENVKNFASHDNGNTLEVVKNTMNELDYSFHA 149
Query: 1297 GILEAGAFGVSQSRKRAFI 1315
+L A +G+ Q R+R ++
Sbjct: 150 KVLNALDYGIPQKRERIYM 168
Score = 43.1 bits (100), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/48 (41%), Positives = 26/48 (54%)
Query: 1489 MGKVGMCFHPDQDRILTVRECARSQGFPDSYQFHGSIQHKHRQIGNAV 1536
K G + R L RECAR G+PDSY+ H S ++Q GN+V
Sbjct: 259 FAKTGGYLVNGKTRKLHPRECARVMGYPDSYKVHPSTSQAYKQFGNSV 306
>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 = 50.8 bits (120), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 43/199 (21%), Positives = 77/199 (38%), Gaps = 38/199 (19%)
Query: 1117 QENHLATLDIFAGCGGLSEGLQQSGISSTKWAIEYEEPAGEAFKLNHPESLMLINNCNVI 1176
Q L +D+FAG GG L+ G + ++ E+++ A E +++N E
Sbjct: 8 QLTGLRFIDLFAGLGGFRLALESCG-AECVYSNEWDKYAQEVYEMNFGEK---------- 56
Query: 1177 LRAVMEKCGDAEDCVSTXXXXXXXXXXDENVINNLPLPGQVDFINGGPPCQGFSGMNRFN 1236
D +N +P D + G PCQ FS +
Sbjct: 57 ------------------------PEGDITQVNEKTIPDH-DILCAGFPCQAFSISGK-- 89
Query: 1237 QSTWSKVQCEMILAFLSFADYFQPRYFLLENVRNFVSFNKGQTFRLTLASLLEMGYQVRF 1296
Q + + + +P+ +ENV+NF S + G T + ++ E+ Y
Sbjct: 90 QKGFEDSRGTLFFDIARIVREKKPKVVFMENVKNFASHDNGNTLEVVKNTMNELDYSFHA 149
Query: 1297 GILEAGAFGVSQSRKRAFI 1315
+L A +G+ Q R+R ++
Sbjct: 150 KVLNALDYGIPQKRERIYM 168
Score = 43.1 bits (100), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/48 (41%), Positives = 26/48 (54%)
Query: 1489 MGKVGMCFHPDQDRILTVRECARSQGFPDSYQFHGSIQHKHRQIGNAV 1536
K G + R L RECAR G+PDSY+ H S ++Q GN+V
Sbjct: 259 FAKTGGYLVNGKTRKLHPRECARVMGYPDSYKVHPSTSQAYKQFGNSV 306
>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 = 50.8 bits (120), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 43/199 (21%), Positives = 77/199 (38%), Gaps = 38/199 (19%)
Query: 1117 QENHLATLDIFAGCGGLSEGLQQSGISSTKWAIEYEEPAGEAFKLNHPESLMLINNCNVI 1176
Q L +D+FAG GG L+ G + ++ E+++ A E +++N E
Sbjct: 8 QLTGLRFIDLFAGLGGFRLALESCG-AECVYSNEWDKYAQEVYEMNFGEK---------- 56
Query: 1177 LRAVMEKCGDAEDCVSTXXXXXXXXXXDENVINNLPLPGQVDFINGGPPCQGFSGMNRFN 1236
D +N +P D + G PCQ FS +
Sbjct: 57 ------------------------PEGDITQVNEKTIPDH-DILCAGFPCQAFSISGK-- 89
Query: 1237 QSTWSKVQCEMILAFLSFADYFQPRYFLLENVRNFVSFNKGQTFRLTLASLLEMGYQVRF 1296
Q + + + +P+ +ENV+NF S + G T + ++ E+ Y
Sbjct: 90 QKGFEDSRGTLFFDIARIVREKKPKVVFMENVKNFASHDNGNTLEVVKNTMNELDYSFHA 149
Query: 1297 GILEAGAFGVSQSRKRAFI 1315
+L A +G+ Q R+R ++
Sbjct: 150 KVLNALDYGIPQKRERIYM 168
Score = 43.1 bits (100), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/48 (41%), Positives = 26/48 (54%)
Query: 1489 MGKVGMCFHPDQDRILTVRECARSQGFPDSYQFHGSIQHKHRQIGNAV 1536
K G + R L RECAR G+PDSY+ H S ++Q GN+V
Sbjct: 259 FAKTGGYLVNGKTRKLHPRECARVMGYPDSYKVHPSTSQAYKQFGNSV 306
>pdb|2ZCJ|A Chain A, Ternary Structure Of The Glu119gln M.Hhai, C5-Cytosine Dna
Methyltransferase, With Unmodified Dna And Adohcy
Length = 327
Score = 49.7 bits (117), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 42/199 (21%), Positives = 77/199 (38%), Gaps = 38/199 (19%)
Query: 1117 QENHLATLDIFAGCGGLSEGLQQSGISSTKWAIEYEEPAGEAFKLNHPESLMLINNCNVI 1176
Q L +D+FAG GG L+ G + ++ E+++ A E +++N E
Sbjct: 8 QLTGLRFIDLFAGLGGFRLALESCG-AECVYSNEWDKYAQEVYEMNFGEK---------- 56
Query: 1177 LRAVMEKCGDAEDCVSTXXXXXXXXXXDENVINNLPLPGQVDFINGGPPCQGFSGMNRFN 1236
D +N +P D + G PCQ FS +
Sbjct: 57 ------------------------PEGDITQVNEKTIPDH-DILCAGFPCQAFSISGK-- 89
Query: 1237 QSTWSKVQCEMILAFLSFADYFQPRYFLLENVRNFVSFNKGQTFRLTLASLLEMGYQVRF 1296
Q + + + +P+ ++NV+NF S + G T + ++ E+ Y
Sbjct: 90 QKGFEDSRGTLFFDIARIVREKKPKVVFMQNVKNFASHDNGNTLEVVKNTMNELDYSFHA 149
Query: 1297 GILEAGAFGVSQSRKRAFI 1315
+L A +G+ Q R+R ++
Sbjct: 150 KVLNALDYGIPQKRERIYM 168
Score = 43.1 bits (100), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/48 (41%), Positives = 26/48 (54%)
Query: 1489 MGKVGMCFHPDQDRILTVRECARSQGFPDSYQFHGSIQHKHRQIGNAV 1536
K G + R L RECAR G+PDSY+ H S ++Q GN+V
Sbjct: 259 FAKTGGYLVNGKTRKLHPRECARVMGYPDSYKVHPSTSQAYKQFGNSV 306
>pdb|3EPZ|A Chain A, Structure Of The Replication Foci-Targeting Sequence Of
Human Dna Cytosine Methyltransferase Dnmt1
pdb|3EPZ|B Chain B, Structure Of The Replication Foci-Targeting Sequence Of
Human Dna Cytosine Methyltransferase Dnmt1
Length = 268
Score = 48.5 bits (114), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 46/187 (24%), Positives = 85/187 (45%), Gaps = 18/187 (9%)
Query: 111 PNRRLNDFILHDENGLPQPLEMLEID---DLFISGLILPLQESSDREKEKGVRCEGFGRI 167
P +L F ++ ++G P++ I+ +LF SG P+ + D E GV + G I
Sbjct: 71 PQHKLTCFSVYCKHGHLCPIDTGLIEKNIELFFSGSAKPIYDD-DPSLEGGVNGKNLGPI 129
Query: 168 ESWSISGYEDGS-PVIWLSTDIADYDCLKPASSYKKYYELFFEKARACIEVYKKLSKTSG 226
W I+G++ G +I ST A+Y P+ Y + L EK I + K + +
Sbjct: 130 NEWWITGFDGGEKALIGFSTSFAEYILXDPSPEYAPIFGLXQEK----IYISKIVVEFLQ 185
Query: 227 GNSDCSIDELLAGVVRSMSGSKCFRGGVSIKDF----VISQGEFIFNQLIGLDETSKKND 282
NSD + ++L+ + ++ S G+++ F ++ +F+ Q+ DE ++
Sbjct: 186 SNSDSTYEDLINKIETTVPPS-----GLNLNRFTEDSLLRHAQFVVEQVESYDEAGDSDE 240
Query: 283 QKFAELP 289
Q P
Sbjct: 241 QPIFLTP 247
>pdb|2Z6U|A Chain A, Ternary Structure Of The Glu119ala M.Hhai, C5-Cytosine Dna
Methyltransferase, With Unmodified Dna And Adohcy
Length = 327
Score = 48.5 bits (114), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 42/199 (21%), Positives = 76/199 (38%), Gaps = 38/199 (19%)
Query: 1117 QENHLATLDIFAGCGGLSEGLQQSGISSTKWAIEYEEPAGEAFKLNHPESLMLINNCNVI 1176
Q L +D+FAG GG L+ G + ++ E+++ A E +++N E
Sbjct: 8 QLTGLRFIDLFAGLGGFRLALESCG-AECVYSNEWDKYAQEVYEMNFGEK---------- 56
Query: 1177 LRAVMEKCGDAEDCVSTXXXXXXXXXXDENVINNLPLPGQVDFINGGPPCQGFSGMNRFN 1236
D +N +P D + G PCQ FS +
Sbjct: 57 ------------------------PEGDITQVNEKTIPDH-DILCAGFPCQAFSISGK-- 89
Query: 1237 QSTWSKVQCEMILAFLSFADYFQPRYFLLENVRNFVSFNKGQTFRLTLASLLEMGYQVRF 1296
Q + + + +P+ + NV+NF S + G T + ++ E+ Y
Sbjct: 90 QKGFEDSRGTLFFDIARIVREKKPKVVFMANVKNFASHDNGNTLEVVKNTMNELDYSFHA 149
Query: 1297 GILEAGAFGVSQSRKRAFI 1315
+L A +G+ Q R+R ++
Sbjct: 150 KVLNALDYGIPQKRERIYM 168
Score = 43.1 bits (100), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/48 (41%), Positives = 26/48 (54%)
Query: 1489 MGKVGMCFHPDQDRILTVRECARSQGFPDSYQFHGSIQHKHRQIGNAV 1536
K G + R L RECAR G+PDSY+ H S ++Q GN+V
Sbjct: 259 FAKTGGYLVNGKTRKLHPRECARVMGYPDSYKVHPSTSQAYKQFGNSV 306
>pdb|2UZ4|A Chain A, Hhai Dna Methyltransferase R165n Mutant Complex With 13mer
Gcgc-Gmgc Oligonucleotide And Sah
Length = 327
Score = 48.5 bits (114), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 42/199 (21%), Positives = 76/199 (38%), Gaps = 38/199 (19%)
Query: 1117 QENHLATLDIFAGCGGLSEGLQQSGISSTKWAIEYEEPAGEAFKLNHPESLMLINNCNVI 1176
Q L +D+FAG GG L+ G + ++ E+++ A E +++N E
Sbjct: 8 QLTGLRFIDLFAGLGGFRLALESCG-AECVYSNEWDKYAQEVYEMNFGEK---------- 56
Query: 1177 LRAVMEKCGDAEDCVSTXXXXXXXXXXDENVINNLPLPGQVDFINGGPPCQGFSGMNRFN 1236
D +N +P D + G PCQ FS +
Sbjct: 57 ------------------------PEGDITQVNEKTIPDH-DILCAGFPCQAFSISGK-- 89
Query: 1237 QSTWSKVQCEMILAFLSFADYFQPRYFLLENVRNFVSFNKGQTFRLTLASLLEMGYQVRF 1296
Q + + + +P+ +ENV+NF S + G T + ++ E+ Y
Sbjct: 90 QKGFEDSRGTLFFDIARIVREKKPKVVFMENVKNFASHDNGNTLEVVKNTMNELDYSFHA 149
Query: 1297 GILEAGAFGVSQSRKRAFI 1315
+L A +G+ Q R+ ++
Sbjct: 150 KVLNALDYGIPQKRENIYM 168
Score = 43.1 bits (100), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/48 (41%), Positives = 26/48 (54%)
Query: 1489 MGKVGMCFHPDQDRILTVRECARSQGFPDSYQFHGSIQHKHRQIGNAV 1536
K G + R L RECAR G+PDSY+ H S ++Q GN+V
Sbjct: 259 FAKTGGYLVNGKTRKLHPRECARVMGYPDSYKVHPSTSQAYKQFGNSV 306
>pdb|2UYC|A Chain A, Hhai Dna Methyltransferase R163n Mutant Complex With 13mer
Gcgc-Gmgc Oligonucleotide And Sah
Length = 327
Score = 48.5 bits (114), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 42/199 (21%), Positives = 76/199 (38%), Gaps = 38/199 (19%)
Query: 1117 QENHLATLDIFAGCGGLSEGLQQSGISSTKWAIEYEEPAGEAFKLNHPESLMLINNCNVI 1176
Q L +D+FAG GG L+ G + ++ E+++ A E +++N E
Sbjct: 8 QLTGLRFIDLFAGLGGFRLALESCG-AECVYSNEWDKYAQEVYEMNFGEK---------- 56
Query: 1177 LRAVMEKCGDAEDCVSTXXXXXXXXXXDENVINNLPLPGQVDFINGGPPCQGFSGMNRFN 1236
D +N +P D + G PCQ FS +
Sbjct: 57 ------------------------PEGDITQVNEKTIPDH-DILCAGFPCQAFSISGK-- 89
Query: 1237 QSTWSKVQCEMILAFLSFADYFQPRYFLLENVRNFVSFNKGQTFRLTLASLLEMGYQVRF 1296
Q + + + +P+ +ENV+NF S + G T + ++ E+ Y
Sbjct: 90 QKGFEDSRGTLFFDIARIVREKKPKVVFMENVKNFASHDNGNTLEVVKNTMNELDYSFHA 149
Query: 1297 GILEAGAFGVSQSRKRAFI 1315
+L A +G+ Q +R ++
Sbjct: 150 KVLNALDYGIPQKNERIYM 168
Score = 43.1 bits (100), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/48 (41%), Positives = 26/48 (54%)
Query: 1489 MGKVGMCFHPDQDRILTVRECARSQGFPDSYQFHGSIQHKHRQIGNAV 1536
K G + R L RECAR G+PDSY+ H S ++Q GN+V
Sbjct: 259 FAKTGGYLVNGKTRKLHPRECARVMGYPDSYKVHPSTSQAYKQFGNSV 306
>pdb|2Z6Q|A Chain A, Ternary Structure Of Arg165ala M.Hhai C5-Cytosine Dna
Methyltransferase With Unmodified Dna And Adohcy
Length = 327
Score = 48.1 bits (113), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 42/199 (21%), Positives = 76/199 (38%), Gaps = 38/199 (19%)
Query: 1117 QENHLATLDIFAGCGGLSEGLQQSGISSTKWAIEYEEPAGEAFKLNHPESLMLINNCNVI 1176
Q L +D+FAG GG L+ G + ++ E+++ A E +++N E
Sbjct: 8 QLTGLRFIDLFAGLGGFRLALESCG-AECVYSNEWDKYAQEVYEMNFGEK---------- 56
Query: 1177 LRAVMEKCGDAEDCVSTXXXXXXXXXXDENVINNLPLPGQVDFINGGPPCQGFSGMNRFN 1236
D +N +P D + G PCQ FS +
Sbjct: 57 ------------------------PEGDITQVNEKTIPDH-DILCAGFPCQAFSISGK-- 89
Query: 1237 QSTWSKVQCEMILAFLSFADYFQPRYFLLENVRNFVSFNKGQTFRLTLASLLEMGYQVRF 1296
Q + + + +P+ +ENV+NF S + G T + ++ E+ Y
Sbjct: 90 QKGFEDSRGTLFFDIARIVREKKPKVVFMENVKNFASHDNGNTLEVVKNTMNELDYSFHA 149
Query: 1297 GILEAGAFGVSQSRKRAFI 1315
+L A +G+ Q R+ ++
Sbjct: 150 KVLNALDYGIPQKREAIYM 168
Score = 43.1 bits (100), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/48 (41%), Positives = 26/48 (54%)
Query: 1489 MGKVGMCFHPDQDRILTVRECARSQGFPDSYQFHGSIQHKHRQIGNAV 1536
K G + R L RECAR G+PDSY+ H S ++Q GN+V
Sbjct: 259 FAKTGGYLVNGKTRKLHPRECARVMGYPDSYKVHPSTSQAYKQFGNSV 306
>pdb|2I9K|A Chain A, Engineered Extrahelical Base Destabilization Enhances
Sequence Discrimination Of Dna Methyltransferase M.Hhai
Length = 327
Score = 47.8 bits (112), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 42/199 (21%), Positives = 76/199 (38%), Gaps = 38/199 (19%)
Query: 1117 QENHLATLDIFAGCGGLSEGLQQSGISSTKWAIEYEEPAGEAFKLNHPESLMLINNCNVI 1176
Q L +D+FAG GG L+ G + ++ E+++ A E +++N E
Sbjct: 8 QLTGLRFIDLFAGLGGFRLALESCG-AECVYSNEWDKYAQEVYEMNFGEK---------- 56
Query: 1177 LRAVMEKCGDAEDCVSTXXXXXXXXXXDENVINNLPLPGQVDFINGGPPCQGFSGMNRFN 1236
D +N +P D + G PCQ FS +
Sbjct: 57 ------------------------PEGDITQVNEKTIPDH-DILCAGFPCQAFSISGK-- 89
Query: 1237 QSTWSKVQCEMILAFLSFADYFQPRYFLLENVRNFVSFNKGQTFRLTLASLLEMGYQVRF 1296
Q + + + +P+ +ENV+N S + G T + ++ E+ Y
Sbjct: 90 QKGFEDSRGTLFFDIARIVREKKPKVVFMENVKNAASHDNGNTLEVVKNTMNELDYSFHA 149
Query: 1297 GILEAGAFGVSQSRKRAFI 1315
+L A +G+ Q R+R ++
Sbjct: 150 KVLNALDYGIPQKRERIYM 168
Score = 43.1 bits (100), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/48 (41%), Positives = 26/48 (54%)
Query: 1489 MGKVGMCFHPDQDRILTVRECARSQGFPDSYQFHGSIQHKHRQIGNAV 1536
K G + R L RECAR G+PDSY+ H S ++Q GN+V
Sbjct: 259 FAKTGGYLVNGKTRKLHPRECARVMGYPDSYKVHPSTSQAYKQFGNSV 306
>pdb|2Z6A|A Chain A, S-Adenosyl-L-Methionine-Dependent Methyl Transfer:
Observable Precatalytic Intermediates During Dna Cytosine
Methylation
Length = 327
Score = 47.4 bits (111), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 42/199 (21%), Positives = 76/199 (38%), Gaps = 38/199 (19%)
Query: 1117 QENHLATLDIFAGCGGLSEGLQQSGISSTKWAIEYEEPAGEAFKLNHPESLMLINNCNVI 1176
Q L +D+FAG GG L+ G + ++ E+++ A E +++N E
Sbjct: 8 QLTGLRFIDLFAGLGGFRLALESCG-AECVYSNEWDKYAQEVYEMNFGEK---------- 56
Query: 1177 LRAVMEKCGDAEDCVSTXXXXXXXXXXDENVINNLPLPGQVDFINGGPPCQGFSGMNRFN 1236
D +N +P D + G P Q FS +
Sbjct: 57 ------------------------PEGDITQVNEKTIPDH-DILCAGFPAQAFSISGK-- 89
Query: 1237 QSTWSKVQCEMILAFLSFADYFQPRYFLLENVRNFVSFNKGQTFRLTLASLLEMGYQVRF 1296
Q + + + +P+ +ENV+NF S + G T + ++ E+ Y
Sbjct: 90 QKGFEDSRGTLFFDIARIVREKKPKVVFMENVKNFASHDNGNTLEVVKNTMNELDYSFHA 149
Query: 1297 GILEAGAFGVSQSRKRAFI 1315
+L A +G+ Q R+R ++
Sbjct: 150 KVLNALDYGIPQKRERIYM 168
Score = 43.1 bits (100), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/48 (41%), Positives = 26/48 (54%)
Query: 1489 MGKVGMCFHPDQDRILTVRECARSQGFPDSYQFHGSIQHKHRQIGNAV 1536
K G + R L RECAR G+PDSY+ H S ++Q GN+V
Sbjct: 259 FAKTGGYLVNGKTRKLHPRECARVMGYPDSYKVHPSTSQAYKQFGNSV 306
>pdb|4DKJ|A Chain A, Cpg Specific Methyltransferase In Complex With Target Dna
Length = 403
Score = 46.6 bits (109), Expect = 1e-04, Method: Composition-based stats.
Identities = 33/120 (27%), Positives = 55/120 (45%), Gaps = 9/120 (7%)
Query: 1204 DENVINNLPLPGQVDFINGGPPCQGFS------GMNR-FNQSTWSKVQCEMILAFL--SF 1254
D +N P +D PCQ S G+++ N + + E IL + SF
Sbjct: 113 DIKKVNKDNFPKNIDIFTYSFPCQDLSVQGLQKGIDKELNTRSGLLWEIERILEEIKNSF 172
Query: 1255 ADYFQPRYFLLENVRNFVSFNKGQTFRLTLASLLEMGYQVRFGILEAGAFGVSQSRKRAF 1314
+ P+Y L+ENV+N +S + + L L + GY+ + +L + F Q+R+R F
Sbjct: 173 SKEEMPKYLLMENVKNLLSHKNKKNYNTWLKQLEKFGYKSKTYLLNSKNFDNCQNRERVF 232
>pdb|2ELF|A Chain A, Crystal Structure Of The Selb-Like Elongation Factor
Ef-Pyl From Methanosarcina Mazei
Length = 370
Score = 33.1 bits (74), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 27/93 (29%), Positives = 46/93 (49%), Gaps = 10/93 (10%)
Query: 776 ELDQLPVIYFVEYMFEATG-GCKLFHGIIMQRGSHTVLGNTANEREVFLANQCRDLELQD 834
EL+ LP F+++ F TG GC + G++ Q + ++ ++F + RD+E++
Sbjct: 187 ELNSLPARIFIDHAFNVTGKGCVVL-GVVKQG-----ISKDKDKTKIFPLD--RDIEIRS 238
Query: 835 IKQTVVVDIRSVPWGHQHRKDIANADKVDRARA 867
I Q+ VDI S P G + + N D R
Sbjct: 239 I-QSHDVDIDSAPAGTRVGXRLKNVQAKDIERG 270
>pdb|3ALP|A Chain A, Cell Adhesion Protein
pdb|3ALP|B Chain B, Cell Adhesion Protein
pdb|3U83|A Chain A, Crystal Structure Of Nectin-1
Length = 331
Score = 31.6 bits (70), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 27/112 (24%), Positives = 50/112 (44%), Gaps = 16/112 (14%)
Query: 479 SGVSGAQDAGGFPIYLSSIKEWMIEFGSSMIFI---------SIR-TDLAWYRLGKPSKQ 528
+ ++G Q G P + + + M F + + + S++ T + W + SKQ
Sbjct: 2 ASMTGGQQMGRDPSQVVQVNDSMYGFIGTDVVLHCSFANPLPSVKITQVTWQKSTNGSKQ 61
Query: 529 YAPWYEPVLKTARVAISIITMLKEQTRVSRLSFTDVIKRLSEIK-KDQHSYI 579
Y P + +S++ +E+ R SFTD RLS ++ +D+ YI
Sbjct: 62 NVAIYNPSM-----GVSVLAPYRERVEFLRPSFTDGTIRLSRLELEDEGVYI 108
>pdb|3U82|B Chain B, Binding Of Herpes Simplex Virus Glycoprotein D To Nectin-1
Exploits Host Cell Adhesion
Length = 317
Score = 30.8 bits (68), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 32/66 (48%), Gaps = 6/66 (9%)
Query: 515 TDLAWYRLGKPSKQYAPWYEPVLKTARVAISIITMLKEQTRVSRLSFTDVIKRLSEIK-K 573
T + W + SKQ Y P + +S++ +E+ R SFTD RLS ++ +
Sbjct: 34 TQVTWQKSTNGSKQNVAIYNPSM-----GVSVLAPYRERVEFLRPSFTDGTIRLSRLELE 88
Query: 574 DQHSYI 579
D+ YI
Sbjct: 89 DEGVYI 94
>pdb|2OG4|A Chain A, Structure Of An Expanded Jab1-mpn-like Domain Of Splicing
Factor Prp8p From Yeast
Length = 254
Score = 30.8 bits (68), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 36/71 (50%), Gaps = 6/71 (8%)
Query: 551 KEQTRVSRLSFTDVIKRLSEIKKDQHSYISSDPAAVERYVVVHGQIVLQLFAEYPDEQIK 610
K + R S ++ T + RL I Y+S+D E+ V V + +L+ F E D +I+
Sbjct: 6 KNEWRKSAIANTLLYLRLKNI------YVSADDFVEEQNVYVLPKNLLKKFIEISDVKIQ 59
Query: 611 KCAFIIGLMKK 621
AFI G+ K
Sbjct: 60 VAAFIYGMSAK 70
>pdb|4FMF|A Chain A, Crystal Structure Of Human Nectin-1 Full Ectodomain
(D1-D3)
pdb|4FMF|B Chain B, Crystal Structure Of Human Nectin-1 Full Ectodomain
(D1-D3)
pdb|4FMF|C Chain C, Crystal Structure Of Human Nectin-1 Full Ectodomain
(D1-D3)
pdb|4FMF|D Chain D, Crystal Structure Of Human Nectin-1 Full Ectodomain
(D1-D3)
Length = 313
Score = 30.4 bits (67), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 32/66 (48%), Gaps = 6/66 (9%)
Query: 515 TDLAWYRLGKPSKQYAPWYEPVLKTARVAISIITMLKEQTRVSRLSFTDVIKRLSEIK-K 573
T + W + SKQ Y P + +S++ +E+ R SFTD RLS ++ +
Sbjct: 33 TQVTWQKSTNGSKQNVAIYNPSM-----GVSVLAPYRERVEFLRPSFTDGTIRLSRLELE 87
Query: 574 DQHSYI 579
D+ YI
Sbjct: 88 DEGVYI 93
>pdb|4I43|B Chain B, Crystal Structure Of Prp8:aar2 Complex
Length = 1564
Score = 30.4 bits (67), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 36/71 (50%), Gaps = 6/71 (8%)
Query: 551 KEQTRVSRLSFTDVIKRLSEIKKDQHSYISSDPAAVERYVVVHGQIVLQLFAEYPDEQIK 610
K + R S ++ T + RL I Y+S+D E+ V V + +L+ F E D +I+
Sbjct: 1300 KNEWRKSAIANTLLYLRLKNI------YVSADDFVEEQNVYVLPKNLLKKFIEISDVKIQ 1353
Query: 611 KCAFIIGLMKK 621
AFI G+ K
Sbjct: 1354 VAAFIYGMSAK 1364
>pdb|3ZEF|B Chain B, Crystal Structure Of Prp8:aar2 Complex: Second Crystal Form
At 3.1 Angstrom Resolution
pdb|3ZEF|E Chain E, Crystal Structure Of Prp8:aar2 Complex: Second Crystal Form
At 3.1 Angstrom Resolution
Length = 1531
Score = 30.4 bits (67), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 36/71 (50%), Gaps = 6/71 (8%)
Query: 551 KEQTRVSRLSFTDVIKRLSEIKKDQHSYISSDPAAVERYVVVHGQIVLQLFAEYPDEQIK 610
K + R S ++ T + RL I Y+S+D E+ V V + +L+ F E D +I+
Sbjct: 1267 KNEWRKSAIANTLLYLRLKNI------YVSADDFVEEQNVYVLPKNLLKKFIEISDVKIQ 1320
Query: 611 KCAFIIGLMKK 621
AFI G+ K
Sbjct: 1321 VAAFIYGMSAK 1331
>pdb|3SKU|E Chain E, Herpes Simplex Virus Glycoprotein D Bound To The Human
Receptor Nectin-1
pdb|3SKU|D Chain D, Herpes Simplex Virus Glycoprotein D Bound To The Human
Receptor Nectin-1
pdb|3SKU|F Chain F, Herpes Simplex Virus Glycoprotein D Bound To The Human
Receptor Nectin-1
Length = 319
Score = 30.4 bits (67), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 32/66 (48%), Gaps = 6/66 (9%)
Query: 515 TDLAWYRLGKPSKQYAPWYEPVLKTARVAISIITMLKEQTRVSRLSFTDVIKRLSEIK-K 573
T + W + SKQ Y P + +S++ +E+ R SFTD RLS ++ +
Sbjct: 33 TQVTWQKSTNGSKQNVAIYNPSM-----GVSVLAPYRERVEFLRPSFTDGTIRLSRLELE 87
Query: 574 DQHSYI 579
D+ YI
Sbjct: 88 DEGVYI 93
>pdb|3SBG|A Chain A, Crystal Structure Of A Prp8 C-Terminal Fragment
Length = 565
Score = 30.4 bits (67), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 36/71 (50%), Gaps = 6/71 (8%)
Query: 551 KEQTRVSRLSFTDVIKRLSEIKKDQHSYISSDPAAVERYVVVHGQIVLQLFAEYPDEQIK 610
K + R S ++ T + RL I Y+S+D E+ V V + +L+ F E D +I+
Sbjct: 317 KNEWRKSAIANTLLYLRLKNI------YVSADDFVEEQNVYVLPKNLLKKFIEISDVKIQ 370
Query: 611 KCAFIIGLMKK 621
AFI G+ K
Sbjct: 371 VAAFIYGMSAK 381
>pdb|4HZO|A Chain A, The Structure Of The Bifunctional
Acetyltransferase/decarboxylase Lnmk From The Leinamycin
Biosynthetic Pathway Revealing Novel Activity For A
Double Hot Dog Fold
Length = 318
Score = 30.0 bits (66), Expect = 9.9, Method: Composition-based stats.
Identities = 18/59 (30%), Positives = 31/59 (52%), Gaps = 1/59 (1%)
Query: 438 SLELLP-MKPCEDIDVTIFGSGKMISDEGSGFCLDTDSSQCTSGVSGAQDAGGFPIYLS 495
SL++ P +K + + G G + + + +T S+QC + V A+DA G P YL+
Sbjct: 5 SLDVRPEIKQAVTVRPGMCGPGSLFVGQLGDWTWETVSAQCDTDVFAARDASGNPTYLA 63
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
0.318 0.134 0.403
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 45,421,561
Number of Sequences: 62578
Number of extensions: 1900260
Number of successful extensions: 3868
Number of sequences better than 100.0: 38
Number of HSP's better than 100.0 without gapping: 24
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 3734
Number of HSP's gapped (non-prelim): 102
length of query: 1558
length of database: 14,973,337
effective HSP length: 112
effective length of query: 1446
effective length of database: 7,964,601
effective search space: 11516813046
effective search space used: 11516813046
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 58 (26.9 bits)