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= 003974
(782 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 807 bits (2085), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 401/726 (55%), Positives = 501/726 (69%), Gaps = 32/726 (4%)
Query: 72 FVSPPVSADEALKRYPDRYKALN-----EEEEVLQARCHYTQASVDGCLYNLGDDAYVKA 126
F+ PV+ADEA +P RY +EEE L+ARCHY A VD +Y LGDD YVKA
Sbjct: 9 FIGSPVAADEARSNWPKRYGRSTAAKKPDEEEELKARCHYRSAKVDNVVYCLGDDVYVKA 68
Query: 127 EEGAVDYIARIVELFESVDGEPYFKARWFYRAEDTVIKDLACLV------DRKRVFLSDV 180
E DYI RI E FE D YF RWF+RAEDTVI L + D +RVFLS+
Sbjct: 69 GENEADYIGRITEFFEGTDQCHYFTCRWFFRAEDTVINSLVSISVDGHKHDPRRVFLSEE 128
Query: 181 EDDNPLNCIVSKAKIAEVATNMDLEAKQKNIPPCDLYYDMKYTLPHLTFLNI---NNESN 237
++DN L+CI+SK KI V NMD +AK + I CDLYYDM Y++ + TF NI N +S
Sbjct: 129 KNDNVLDCIISKVKIVHVDPNMDPKAKAQLIESCDLYYDMSYSVAYSTFANISSENGQSG 188
Query: 238 RRDXXXXXXXXXXXXXXXPIGQPEMSLLDLYSGCGAMSTGLCIGASLSGVKLVTRWAIDI 297
+ +LLDLYSGCG MSTGLC+GA+LSG+KL TRWA+D
Sbjct: 189 SDTASGISSDDVDLETSSSMPTRTATLLDLYSGCGGMSTGLCLGAALSGLKLETRWAVDF 248
Query: 298 NPHACKSLKFNHPETKVRNEAADDFLSLLKEWAKLCQYFSIYDTDKVPEQSLNFMSXXXX 357
N AC+SLK+NHP+T+VRNE AD+FL+LLKEWA LC+ + + D D N S
Sbjct: 249 NSFACQSLKYNHPQTEVRNEKADEFLALLKEWAVLCKKY-VQDVDS------NLASSEDQ 301
Query: 358 XXXXXXXXNDDDANVPNEEFEVERLIAVCYGDPNKTKKPGVYFKVRWKGYGPSEDTWEPI 417
D+D+ + +EF VE+L+ +CYG ++ G+YFKV+W+GYGP EDTWEPI
Sbjct: 302 A--------DEDSPLDKDEFVVEKLVGICYGGSDREN--GIYFKVQWEGYGPEEDTWEPI 351
Query: 418 KGLSKCKEKLKEFVTKGYRSNILPLPGDVDFICGGPPCQGVSGFNRFRNPQAALEDIKNR 477
LS C +K++EFV +G++ ILPLPGDVD ICGGPPCQG+SGFNR+RN L+D KN+
Sbjct: 352 DNLSDCPQKIREFVQEGHKRKILPLPGDVDVICGGPPCQGISGFNRYRNRDEPLKDEKNK 411
Query: 478 QLLVFMDVIEYLKPKYVLMENVVDILKFSGGFLARYAVGRLVSMDYQTRLGIMAAGSYGL 537
Q++ FMD++ YLKPKYVLMENVVDILKF+ G+L +YA+ LV+M YQ RLG+M AG YGL
Sbjct: 412 QMVTFMDIVAYLKPKYVLMENVVDILKFADGYLGKYALSCLVAMKYQARLGMMVAGCYGL 471
Query: 538 PQFRLRVFLWGARPFKKLPQYPLPTHEIVARGVIPNEFQEIIVAYANNQPCQLEKGVLLS 597
PQFR+RVFLWGA LP+YPLPT+++V RG PN F + +VAY Q L+K +LL
Sbjct: 472 PQFRMRVFLWGALSSMVLPKYPLPTYDVVVRGGAPNAFSQCMVAYDETQKPSLKKALLLG 531
Query: 598 DAISDLPLVTNNESEDERKYGTVARTEFQKYIRLRRHDVVNLSSAQMAS-RPSLLYDHRP 656
DAISDLP V N++ D +YG +TEFQ+YIRL R D+++ S + A L DH+P
Sbjct: 532 DAISDLPKVQNHQPNDVMEYGGSPKTEFQRYIRLSRKDMLDWSFGEGAGPDEGKLLDHQP 591
Query: 657 FQVNNDDYERVCCIPKRKGANFRDLPGVLVGPDNKVRWDPSMERVMLKSGKPLVPDYAMK 716
++NNDDYERV IP +KGANFRDL GV VG +N V WDP +ERV L SGKPLVPDYAM
Sbjct: 592 LRLNNDDYERVQQIPVKKGANFRDLKGVRVGANNIVEWDPEIERVKLSSGKPLVPDYAMS 651
Query: 717 FEHQSSTKPFGRLWWDEIVNTVVTRAQPHNRILLHPSQDRVLTIRENARLQGFPDCYQLF 776
F S KPFGRLWWDE V TVVTRA+PHN++++HP+Q RVLTIRENARLQGFPD Y+LF
Sbjct: 652 FIKGKSLKPFGRLWWDETVPTVVTRAEPHNQVIIHPTQARVLTIRENARLQGFPDYYRLF 711
Query: 777 GPVKER 782
GP+KE+
Sbjct: 712 GPIKEK 717
>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 = 780 bits (2014), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 392/726 (53%), Positives = 489/726 (67%), Gaps = 32/726 (4%)
Query: 72 FVSPPVSADEALKRYPDRYKALN-----EEEEVLQARCHYTQASVDGCLYNLGDDAYVKA 126
F+ PV+ADEA +P RY +EEE L+ARCHY A VD +Y LGDD YVKA
Sbjct: 9 FIGSPVAADEARSNWPKRYGRSTAAKKPDEEEELKARCHYRSAKVDNVVYCLGDDVYVKA 68
Query: 127 EEGAVDYIARIVELFESVDGEPYFKARWFYRAEDTVIKDLACLV------DRKRVFLSDV 180
E DYI RI E FE D YF RWF+RAEDTVI L + D +RVFLS+
Sbjct: 69 GENEADYIGRITEFFEGTDQCHYFTCRWFFRAEDTVINSLVSISVDGHKHDPRRVFLSEE 128
Query: 181 EDDNPLNCIVSKAKIAEVATNMDLEAKQKNIPPCDLYYDMKYTLPHLTFLNINNESNRRD 240
++DN L+CI+SK KI V N D +AK + I CDLYYD Y++ + TF NI++E+ +
Sbjct: 129 KNDNVLDCIISKVKIVHVDPNXDPKAKAQLIESCDLYYDXSYSVAYSTFANISSENGQSG 188
Query: 241 XXXXXXXXXXXXXXXPIGQP---EMSLLDLYSGCGAMSTGLCIGASLSGVKLVTRWAIDI 297
+LLDLYSGCG STGLC+GA+LSG+KL TRWA+D
Sbjct: 189 SDTASGISSDDVDLETSSSXPTRTATLLDLYSGCGGXSTGLCLGAALSGLKLETRWAVDF 248
Query: 298 NPHACKSLKFNHPETKVRNEAADDFLSLLKEWAKLCQYFSIYDTDKVPEQSLNFMSXXXX 357
N AC+SLK+NHP+T+VRNE AD+FL+LLKEWA LC+ + + D D N S
Sbjct: 249 NSFACQSLKYNHPQTEVRNEKADEFLALLKEWAVLCKKY-VQDVDS------NLASSEDQ 301
Query: 358 XXXXXXXXNDDDANVPNEEFEVERLIAVCYGDPNKTKKPGVYFKVRWKGYGPSEDTWEPI 417
D+D+ + +EF VE+L+ +CYG ++ G+YFKV+W+GYGP EDTWEPI
Sbjct: 302 A--------DEDSPLDKDEFVVEKLVGICYGGSDREN--GIYFKVQWEGYGPEEDTWEPI 351
Query: 418 KGLSKCKEKLKEFVTKGYRSNILPLPGDVDFICGGPPCQGVSGFNRFRNPQAALEDIKNR 477
LS C +K++EFV +G++ ILPLPGDVD ICGGPPCQG+SGFNR+RN L+D KN+
Sbjct: 352 DNLSDCPQKIREFVQEGHKRKILPLPGDVDVICGGPPCQGISGFNRYRNRDEPLKDEKNK 411
Query: 478 QLLVFMDVIEYLKPKYVLMENVVDILKFSGGFLARYAVGRLVSMDYQTRLGIMAAGSYGL 537
Q + F D++ YLKPKYVL ENVVDILKF+ G+L +YA+ LV+ YQ RLG AG YGL
Sbjct: 412 QXVTFXDIVAYLKPKYVLXENVVDILKFADGYLGKYALSCLVAXKYQARLGXXVAGCYGL 471
Query: 538 PQFRLRVFLWGARPFKKLPQYPLPTHEIVARGVIPNEFQEIIVAYANNQPCQLEKGVLLS 597
PQFR RVFLWGA LP+YPLPT+++V RG PN F + VAY Q L+K +LL
Sbjct: 472 PQFRXRVFLWGALSSXVLPKYPLPTYDVVVRGGAPNAFSQCXVAYDETQKPSLKKALLLG 531
Query: 598 DAISDLPLVTNNESEDERKYGTVARTEFQKYIRLRRHDVVNLSSAQMAS-RPSLLYDHRP 656
DAISDLP V N++ D +YG +TEFQ+YIRL R D ++ S + A L DH+P
Sbjct: 532 DAISDLPKVQNHQPNDVXEYGGSPKTEFQRYIRLSRKDXLDWSFGEGAGPDEGKLLDHQP 591
Query: 657 FQVNNDDYERVCCIPKRKGANFRDLPGVLVGPDNKVRWDPSMERVMLKSGKPLVPDYAMK 716
++NNDDYERV IP +KGANFRDL GV VG +N V WDP +ERV L SGKPLVPDYA
Sbjct: 592 LRLNNDDYERVQQIPVKKGANFRDLKGVRVGANNIVEWDPEIERVKLSSGKPLVPDYAXS 651
Query: 717 FEHQSSTKPFGRLWWDEIVNTVVTRAQPHNRILLHPSQDRVLTIRENARLQGFPDCYQLF 776
F S KPFGRLWWDE V TVVTRA+PHN++++HP+Q RVLTIRENARLQGFPD Y+LF
Sbjct: 652 FIKGKSLKPFGRLWWDETVPTVVTRAEPHNQVIIHPTQARVLTIRENARLQGFPDYYRLF 711
Query: 777 GPVKER 782
GP+KE+
Sbjct: 712 GPIKEK 717
>pdb|3SWR|A Chain A, Structure Of Human Dnmt1 (601-1600) In Complex With
Sinefungin
Length = 1002
Score = 162 bits (409), Expect = 8e-40, Method: Compositional matrix adjust.
Identities = 117/390 (30%), Positives = 178/390 (45%), Gaps = 59/390 (15%)
Query: 432 TKGYRSNILPLPGDVDFICGGPPCQGVSGFNRFRNPQAALEDIKNRQLLVFMDVIEYLKP 491
T R LP GDV+ +CGGPPCQG SG NRF + KN ++ F+ +Y +P
Sbjct: 605 TTNSRGQRLPQKGDVEMLCGGPPCQGFSGMNRFNS--RTYSKFKNSLVVSFLSYCDYYRP 662
Query: 492 KYVLMENVVDILKFSGGFLARYAVGRLVSMDYQTRLGIMAAGSYGLPQFRLRVFLWGARP 551
++ L+ENV + + F + + + LV M YQ G++ AG YG+ Q R R + A P
Sbjct: 663 RFFLLENVRNFVSFKRSMVLKLTLRCLVRMGYQCTFGVLQAGQYGVAQTRRRAIILAAAP 722
Query: 552 FKKLPQYPLPTHEIVARG------VIPNEFQEIIVAYANNQPCQLEKGVLLSDAISDLPL 605
+KLP +P P H R V +F I ++ + + + D +SDLP
Sbjct: 723 GEKLPLFPEPLHVFAPRACQLSVVVDDKKFVSNITRLSSGP----FRTITVRDTMSDLPE 778
Query: 606 VTNNESEDERKYGTVARTEFQKYIRLRRHDVVNLSSAQMASRPSLLYDHRPFQVNNDDYE 665
V N S E Y ++ FQ+ +R A +L DH ++
Sbjct: 779 VRNGASALEISYNGEPQSWFQRQLR-------------GAQYQPILRDHICKDMSALVAA 825
Query: 666 RVCCIPKRKGANFRDLPGVLVGPDN-----KVRWDPSMER-------------VMLKSGK 707
R+ IP G+++RDLP + V + K+R+ + +++GK
Sbjct: 826 RMRHIPLAPGSDWRDLPNIEVRLSDGTMARKLRYTHHDRKNGRSSSGALRGVCSCVEAGK 885
Query: 708 PLVPDYAMKF-------------EHQSSTKPFGRLWWDEIVNTVVTRAQPHNRI--LLHP 752
P A +F H +GRL WD +T VT +P + +LHP
Sbjct: 886 ACDPA-ARQFNTLIPWCLPHTGNRHNHWAGLYGRLEWDGFFSTTVTNPEPMGKQGRVLHP 944
Query: 753 SQDRVLTIRENARLQGFPDCYQLFGPVKER 782
Q RV+++RE AR QGFPD Y+LFG + ++
Sbjct: 945 EQHRVVSVRECARSQGFPDTYRLFGNILDK 974
Score = 40.4 bits (93), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 28/94 (29%), Positives = 43/94 (45%), Gaps = 4/94 (4%)
Query: 103 RCHYTQASVDGCLYNLGDDAYVKAEEGAVD-YIARIVELFESVDGEPYFKARWFYRAEDT 161
+ +Y + +D +GD V ++ + Y+AR+ L+E F A WF DT
Sbjct: 146 KSYYKKVCIDAETLEVGDCVSVIPDDSSKPLYLARVTALWEDSSNGQMFHAHWFCAGTDT 205
Query: 162 VIKDLACLVDRKRVFLSDVEDDNPLNCIVSKAKI 195
V L D +FL D +D L+ I SK K+
Sbjct: 206 V---LGATSDPLELFLVDECEDMQLSYIHSKVKV 236
Score = 39.7 bits (91), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 38/70 (54%), Gaps = 5/70 (7%)
Query: 257 IGQPEMSLLDLYSGCGAMSTGLCIGASLSGVKLVTRWAIDINPHACKSLKFNHPETKVRN 316
I P++ LD++SGCG +S G +G+ T WAI++ A ++ + N+P + V
Sbjct: 536 IKLPKLRTLDVFSGCGGLSEGF----HQAGIS-DTLWAIEMWDPAAQAFRLNNPGSTVFT 590
Query: 317 EAADDFLSLL 326
E + L L+
Sbjct: 591 EDCNILLKLV 600
>pdb|3PTA|A Chain A, Crystal Structure Of Human Dnmt1(646-1600) In Complex With
Dna
Length = 956
Score = 162 bits (409), Expect = 8e-40, Method: Compositional matrix adjust.
Identities = 116/390 (29%), Positives = 179/390 (45%), Gaps = 59/390 (15%)
Query: 432 TKGYRSNILPLPGDVDFICGGPPCQGVSGFNRFRNPQAALEDIKNRQLLVFMDVIEYLKP 491
T R LP GDV+ +CGGPPCQG SG NRF + KN ++ F+ +Y +P
Sbjct: 559 TTNSRGQRLPQKGDVEMLCGGPPCQGFSGMNRFNS--RTYSKFKNSLVVSFLSYCDYYRP 616
Query: 492 KYVLMENVVDILKFSGGFLARYAVGRLVSMDYQTRLGIMAAGSYGLPQFRLRVFLWGARP 551
++ L+ENV + + F + + + LV M YQ G++ AG YG+ Q R R + A P
Sbjct: 617 RFFLLENVRNFVSFKRSMVLKLTLRCLVRMGYQCTFGVLQAGQYGVAQTRRRAIILAAAP 676
Query: 552 FKKLPQYPLPTHEIVARG------VIPNEFQEIIVAYANNQPCQLEKGVLLSDAISDLPL 605
+KLP +P P H R V +F I ++ + + + D +SDLP
Sbjct: 677 GEKLPLFPEPLHVFAPRACQLSVVVDDKKFVSNITRLSSGP----FRTITVRDTMSDLPE 732
Query: 606 VTNNESEDERKYGTVARTEFQKYIRLRRHDVVNLSSAQMASRPSLLYDHRPFQVNNDDYE 665
V N S E Y ++ FQ+ +R ++ +L DH ++
Sbjct: 733 VRNGASALEISYNGEPQSWFQRQLRGAQYQ-------------PILRDHICKDMSALVAA 779
Query: 666 RVCCIPKRKGANFRDLPGVLVGPDN-----KVRWDPSMER-------------VMLKSGK 707
R+ IP G+++RDLP + V + K+R+ + +++GK
Sbjct: 780 RMRHIPLAPGSDWRDLPNIEVRLSDGTMARKLRYTHHDRKNGRSSSGALRGVCSCVEAGK 839
Query: 708 PLVPDYAMKF-------------EHQSSTKPFGRLWWDEIVNTVVTRAQPHNRI--LLHP 752
P A +F H +GRL WD +T VT +P + +LHP
Sbjct: 840 ACDPA-ARQFNTLIPWCLPHTGNRHNHWAGLYGRLEWDGFFSTTVTNPEPMGKQGRVLHP 898
Query: 753 SQDRVLTIRENARLQGFPDCYQLFGPVKER 782
Q RV+++RE AR QGFPD Y+LFG + ++
Sbjct: 899 EQHRVVSVRECARSQGFPDTYRLFGNILDK 928
Score = 40.8 bits (94), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 28/94 (29%), Positives = 43/94 (45%), Gaps = 4/94 (4%)
Query: 103 RCHYTQASVDGCLYNLGDDAYVKAEEGAVD-YIARIVELFESVDGEPYFKARWFYRAEDT 161
+ +Y + +D +GD V ++ + Y+AR+ L+E F A WF DT
Sbjct: 100 KSYYKKVCIDAETLEVGDCVSVIPDDSSKPLYLARVTALWEDSSNGQMFHAHWFCAGTDT 159
Query: 162 VIKDLACLVDRKRVFLSDVEDDNPLNCIVSKAKI 195
V L D +FL D +D L+ I SK K+
Sbjct: 160 V---LGATSDPLELFLVDECEDMQLSYIHSKVKV 190
Score = 39.7 bits (91), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 38/70 (54%), Gaps = 5/70 (7%)
Query: 257 IGQPEMSLLDLYSGCGAMSTGLCIGASLSGVKLVTRWAIDINPHACKSLKFNHPETKVRN 316
I P++ LD++SGCG +S G +G+ T WAI++ A ++ + N+P + V
Sbjct: 490 IKLPKLRTLDVFSGCGGLSEGF----HQAGIS-DTLWAIEMWDPAAQAFRLNNPGSTVFT 544
Query: 317 EAADDFLSLL 326
E + L L+
Sbjct: 545 EDCNILLKLV 554
>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 = 155 bits (391), Expect = 9e-38, Method: Compositional matrix adjust.
Identities = 113/381 (29%), Positives = 170/381 (44%), Gaps = 58/381 (15%)
Query: 440 LPLPGDVDFICGGPPCQGVSGFNRFRNPQAALEDIKNRQLLVFMDVIEYLKPKYVLMENV 499
LP GDV+ +CGGPPCQG SG NRF + KN ++ F+ +Y +P++ L+ENV
Sbjct: 924 LPQKGDVEMLCGGPPCQGFSGMNRFNS--RTYSKFKNSLVVSFLSYCDYYRPRFFLLENV 981
Query: 500 VDILKFSGGFLARYAVGRLVSMDYQTRLGIMAAGSYGLPQFRLRVFLWGARPFKKLPQYP 559
+ + + + + + LV M YQ G++ AG YG+ Q R R + A P +KLP +P
Sbjct: 982 RNFVSYRRSMVLKLTLRCLVRMGYQCTFGVLQAGQYGVAQTRRRAIILAAAPGEKLPLFP 1041
Query: 560 LPTHEIVARG------VIPNEFQEIIVAYANNQPCQLEKGVLLSDAISDLPLVTNNESED 613
P H R V +F I ++ + + + D +SDLP + N S
Sbjct: 1042 EPLHVFAPRACQLSVVVDDKKFVSNITRLSSGP----FRTITVRDTMSDLPEIQNGASNS 1097
Query: 614 ERKYGTVARTEFQKYIRLRRHDVVNLSSAQMASRPSLLYDHRPFQVNNDDYERVCCIPKR 673
E Y + FQ+ +R S Q R + D P R+ IP
Sbjct: 1098 EIPYNGEPLSWFQRQLR--------GSHYQPILRDHICKDMSPLVA-----ARMRHIPLF 1144
Query: 674 KGANFRDLPGVLVGPDNKV---RWDPSMERV--------------MLKSGKPLVPDYAMK 716
G+++RDLP + V + V + + V GK P+ + +
Sbjct: 1145 PGSDWRDLPNIQVRLGDGVIAHKLQYTFHDVKNGYSSTGALRGVCSCAEGKACDPE-SRQ 1203
Query: 717 FE-------------HQSSTKPFGRLWWDEIVNTVVTRAQPHNRI--LLHPSQDRVLTIR 761
F H +GRL WD +T VT +P + +LHP Q RV+++R
Sbjct: 1204 FSTLIPWCLPHTGNRHNHWAGLYGRLEWDGFFSTTVTNPEPMGKQGRVLHPEQHRVVSVR 1263
Query: 762 ENARLQGFPDCYQLFGPVKER 782
E AR QGFPD Y+ FG + +R
Sbjct: 1264 ECARSQGFPDSYRFFGNILDR 1284
Score = 48.1 bits (113), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 32/109 (29%), Positives = 54/109 (49%), Gaps = 4/109 (3%)
Query: 88 DRYKALNEEEEVLQARCHYTQASVDGCLYNLGDDAYVKAEEGAVD-YIARIVELFESVDG 146
DR L + ++ + R +Y + S+D + +GD V ++ + Y+AR+ L+E +G
Sbjct: 442 DRISWLGQPMKIEENRTYYQKVSIDEEMLEVGDCVSVIPDDSSKPLYLARVTALWEDKNG 501
Query: 147 EPYFKARWFYRAEDTVIKDLACLVDRKRVFLSDVEDDNPLNCIVSKAKI 195
+ F A WF DTV L D +FL ++ L+ I SK K+
Sbjct: 502 QMMFHAHWFCAGTDTV---LGATSDPLELFLVGECENMQLSYIHSKVKV 547
Score = 41.6 bits (96), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 38/70 (54%), Gaps = 5/70 (7%)
Query: 257 IGQPEMSLLDLYSGCGAMSTGLCIGASLSGVKLVTRWAIDINPHACKSLKFNHPETKVRN 316
I P++ LD++SGCG +S G +G+ T WAI++ A ++ + N+P T V
Sbjct: 847 IKLPKLRTLDVFSGCGGLSEGF----HQAGIS-ETLWAIEMWDPAAQAFRLNNPGTTVFT 901
Query: 317 EAADDFLSLL 326
E + L L+
Sbjct: 902 EDCNVLLKLV 911
>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 = 155 bits (391), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 113/381 (29%), Positives = 170/381 (44%), Gaps = 58/381 (15%)
Query: 440 LPLPGDVDFICGGPPCQGVSGFNRFRNPQAALEDIKNRQLLVFMDVIEYLKPKYVLMENV 499
LP GDV+ +CGGPPCQG SG NRF + KN ++ F+ +Y +P++ L+ENV
Sbjct: 566 LPQKGDVEMLCGGPPCQGFSGMNRFNS--RTYSKFKNSLVVSFLSYCDYYRPRFFLLENV 623
Query: 500 VDILKFSGGFLARYAVGRLVSMDYQTRLGIMAAGSYGLPQFRLRVFLWGARPFKKLPQYP 559
+ + + + + + LV M YQ G++ AG YG+ Q R R + A P +KLP +P
Sbjct: 624 RNFVSYRRSMVLKLTLRCLVRMGYQCTFGVLQAGQYGVAQTRRRAIILAAAPGEKLPLFP 683
Query: 560 LPTHEIVARG------VIPNEFQEIIVAYANNQPCQLEKGVLLSDAISDLPLVTNNESED 613
P H R V +F I ++ + + + D +SDLP + N S
Sbjct: 684 EPLHVFAPRACQLSVVVDDKKFVSNITRLSSGP----FRTITVRDTMSDLPEIQNGASNS 739
Query: 614 ERKYGTVARTEFQKYIRLRRHDVVNLSSAQMASRPSLLYDHRPFQVNNDDYERVCCIPKR 673
E Y + FQ+ +R S Q R + D P R+ IP
Sbjct: 740 EIPYNGEPLSWFQRQLR--------GSHYQPILRDHICKDMSPLVA-----ARMRHIPLF 786
Query: 674 KGANFRDLPGVLVGPDNKV---RWDPSMERV--------------MLKSGKPLVPDYAMK 716
G+++RDLP + V + V + + V GK P+ + +
Sbjct: 787 PGSDWRDLPNIQVRLGDGVIAHKLQYTFHDVKNGYSSTGALRGVCSCAEGKACDPE-SRQ 845
Query: 717 FE-------------HQSSTKPFGRLWWDEIVNTVVTRAQPHNRI--LLHPSQDRVLTIR 761
F H +GRL WD +T VT +P + +LHP Q RV+++R
Sbjct: 846 FSTLIPWCLPHTGNRHNHWAGLYGRLEWDGFFSTTVTNPEPMGKQGRVLHPEQHRVVSVR 905
Query: 762 ENARLQGFPDCYQLFGPVKER 782
E AR QGFPD Y+ FG + +R
Sbjct: 906 ECARSQGFPDSYRFFGNILDR 926
Score = 48.1 bits (113), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 32/109 (29%), Positives = 54/109 (49%), Gaps = 4/109 (3%)
Query: 88 DRYKALNEEEEVLQARCHYTQASVDGCLYNLGDDAYVKAEEGAVD-YIARIVELFESVDG 146
DR L + ++ + R +Y + S+D + +GD V ++ + Y+AR+ L+E +G
Sbjct: 84 DRISWLGQPMKIEENRTYYQKVSIDEEMLEVGDCVSVIPDDSSKPLYLARVTALWEDKNG 143
Query: 147 EPYFKARWFYRAEDTVIKDLACLVDRKRVFLSDVEDDNPLNCIVSKAKI 195
+ F A WF DTV L D +FL ++ L+ I SK K+
Sbjct: 144 QMMFHAHWFCAGTDTV---LGATSDPLELFLVGECENMQLSYIHSKVKV 189
Score = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 38/70 (54%), Gaps = 5/70 (7%)
Query: 257 IGQPEMSLLDLYSGCGAMSTGLCIGASLSGVKLVTRWAIDINPHACKSLKFNHPETKVRN 316
I P++ LD++SGCG +S G +G+ T WAI++ A ++ + N+P T V
Sbjct: 489 IKLPKLRTLDVFSGCGGLSEGF----HQAGIS-ETLWAIEMWDPAAQAFRLNNPGTTVFT 543
Query: 317 EAADDFLSLL 326
E + L L+
Sbjct: 544 EDCNVLLKLV 553
>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 = 154 bits (390), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 113/381 (29%), Positives = 170/381 (44%), Gaps = 58/381 (15%)
Query: 440 LPLPGDVDFICGGPPCQGVSGFNRFRNPQAALEDIKNRQLLVFMDVIEYLKPKYVLMENV 499
LP GDV+ +CGGPPCQG SG NRF + KN ++ F+ +Y +P++ L+ENV
Sbjct: 485 LPQKGDVEMLCGGPPCQGFSGMNRFNS--RTYSKFKNSLVVSFLSYCDYYRPRFFLLENV 542
Query: 500 VDILKFSGGFLARYAVGRLVSMDYQTRLGIMAAGSYGLPQFRLRVFLWGARPFKKLPQYP 559
+ + + + + + LV M YQ G++ AG YG+ Q R R + A P +KLP +P
Sbjct: 543 RNFVSYRRSMVLKLTLRCLVRMGYQCTFGVLQAGQYGVAQTRRRAIILAAAPGEKLPLFP 602
Query: 560 LPTHEIVARG------VIPNEFQEIIVAYANNQPCQLEKGVLLSDAISDLPLVTNNESED 613
P H R V +F I ++ + + + D +SDLP + N S
Sbjct: 603 EPLHVFAPRACQLSVVVDDKKFVSNITRLSSGP----FRTITVRDTMSDLPEIQNGASNS 658
Query: 614 ERKYGTVARTEFQKYIRLRRHDVVNLSSAQMASRPSLLYDHRPFQVNNDDYERVCCIPKR 673
E Y + FQ+ +R S Q R + D P R+ IP
Sbjct: 659 EIPYNGEPLSWFQRQLR--------GSHYQPILRDHICKDMSPLVA-----ARMRHIPLF 705
Query: 674 KGANFRDLPGVLVGPDNKV---RWDPSMERV--------------MLKSGKPLVPDYAMK 716
G+++RDLP + V + V + + V GK P+ + +
Sbjct: 706 PGSDWRDLPNIQVRLGDGVIAHKLQYTFHDVKNGYSSTGALRGVCSCAEGKACDPE-SRQ 764
Query: 717 FE-------------HQSSTKPFGRLWWDEIVNTVVTRAQPHNRI--LLHPSQDRVLTIR 761
F H +GRL WD +T VT +P + +LHP Q RV+++R
Sbjct: 765 FSTLIPWCLPHTGNRHNHWAGLYGRLEWDGFFSTTVTNPEPMGKQGRVLHPEQHRVVSVR 824
Query: 762 ENARLQGFPDCYQLFGPVKER 782
E AR QGFPD Y+ FG + +R
Sbjct: 825 ECARSQGFPDSYRFFGNILDR 845
Score = 48.1 bits (113), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 32/109 (29%), Positives = 54/109 (49%), Gaps = 4/109 (3%)
Query: 88 DRYKALNEEEEVLQARCHYTQASVDGCLYNLGDDAYVKAEEGAVD-YIARIVELFESVDG 146
DR L + ++ + R +Y + S+D + +GD V ++ + Y+AR+ L+E +G
Sbjct: 3 DRISWLGQPMKIEENRTYYQKVSIDEEMLEVGDCVSVIPDDSSKPLYLARVTALWEDKNG 62
Query: 147 EPYFKARWFYRAEDTVIKDLACLVDRKRVFLSDVEDDNPLNCIVSKAKI 195
+ F A WF DTV L D +FL ++ L+ I SK K+
Sbjct: 63 QMMFHAHWFCAGTDTV---LGATSDPLELFLVGECENMQLSYIHSKVKV 108
Score = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 38/70 (54%), Gaps = 5/70 (7%)
Query: 257 IGQPEMSLLDLYSGCGAMSTGLCIGASLSGVKLVTRWAIDINPHACKSLKFNHPETKVRN 316
I P++ LD++SGCG +S G +G+ T WAI++ A ++ + N+P T V
Sbjct: 408 IKLPKLRTLDVFSGCGGLSEGF----HQAGIS-ETLWAIEMWDPAAQAFRLNNPGTTVFT 462
Query: 317 EAADDFLSLL 326
E + L L+
Sbjct: 463 EDCNVLLKLV 472
>pdb|3G7U|A Chain A, Crystal Structure Of Putative Dna Modification
Methyltransferase Encoded Within Prophage Cp-933r
(E.Coli)
Length = 376
Score = 60.1 bits (144), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 46/128 (35%), Positives = 63/128 (49%), Gaps = 15/128 (11%)
Query: 431 VTKGYRSNILPLPGDVDFICGGPPCQGVSGFNRFRNPQAALEDIKNRQLLVFMDVIEYLK 490
+ KG+ N +P+ G I GGPPCQG S + NP +D +N+ + F ++ L+
Sbjct: 61 IIKGFFKNDMPIDG----IIGGPPCQGFSSIGK-GNP----DDSRNQLYMHFYRLVSELQ 111
Query: 491 PKYVLMENVVDIL--KFSGGFLARYAVGRLVSMDYQTRLGI-MAAGSYGLPQFRLRVFLW 547
P + L ENV I+ K+SG R LVS DY I + A YG P R R F
Sbjct: 112 PLFFLAENVPGIMQEKYSG---IRNKAFNLVSGDYDILDPIKVKASDYGAPTIRTRYFFI 168
Query: 548 GARPFKKL 555
G + KL
Sbjct: 169 GVKKSLKL 176
Score = 37.4 bits (85), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 15/26 (57%), Positives = 19/26 (73%)
Query: 750 LHPSQDRVLTIRENARLQGFPDCYQL 775
+HP RV+T RE ARLQGFPD ++
Sbjct: 311 IHPYHPRVITPREAARLQGFPDWFRF 336
Score = 32.7 bits (73), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 31/52 (59%), Gaps = 6/52 (11%)
Query: 261 EMSLLDLYSGCGAMSTGLCIGASLSGVKLVTRWAIDINPHACKSLKFNHPET 312
++++DL+SG G GL +GA+ +G + + A++I+ HA + N P +
Sbjct: 2 SLNVIDLFSGVG----GLSLGAARAGFDV--KMAVEIDQHAINTHAINFPRS 47
>pdb|4HAE|A Chain A, Crystal Structure Of The Cdyl2-Chromodomain
Length = 81
Score = 53.1 bits (126), Expect = 6e-07, Method: Composition-based stats.
Identities = 25/54 (46%), Positives = 33/54 (61%), Gaps = 5/54 (9%)
Query: 377 FEVERLIAVCYGDPNKTKKPGVYFKVRWKGYGPSEDTWEPIKGLSKCKEKLKEF 430
+EVER++ D K KK + +RWKGYG +EDTWEP L C+E + EF
Sbjct: 24 YEVERIV-----DKRKNKKGKWEYLIRWKGYGSTEDTWEPEHHLLHCEEFIDEF 72
>pdb|2UYH|A Chain A, Hhai Dna Methyltransferase S87q-Q237s Mutant Complex With
13mer Gcgc-Gmgc Oligonucleotide And Sah
Length = 327
Score = 52.8 bits (125), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 31/117 (26%), Positives = 47/117 (40%), Gaps = 4/117 (3%)
Query: 445 DVDFICGGPPCQGVSGFNRFRNPQAALEDIKNRQLLVFMDVIEYLKPKYVLMENVVDILK 504
D D +C G PCQ S + Q ED + ++ KPK V MENV +
Sbjct: 71 DHDILCAGFPCQAFS----IQGKQKGFEDSRGTLFFDIARIVREKKPKVVFMENVKNFAS 126
Query: 505 FSGGFLARYAVGRLVSMDYQTRLGIMAAGSYGLPQFRLRVFLWGARPFKKLPQYPLP 561
G + +DY ++ A YG+PQ R R+++ R + + P
Sbjct: 127 HDNGNTLEVVKNTMNELDYSFHAKVLNALDYGIPQKRERIYMICFRNDLNIQNFQFP 183
>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 = 52.0 bits (123), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 31/117 (26%), Positives = 46/117 (39%), Gaps = 4/117 (3%)
Query: 445 DVDFICGGPPCQGVSGFNRFRNPQAALEDIKNRQLLVFMDVIEYLKPKYVLMENVVDILK 504
D D +C G PCQ S Q ED + ++ KPK V MENV +
Sbjct: 71 DHDILCAGFPCQAFS----ISGKQKGFEDSRGTLFFDIARIVREKKPKVVFMENVKNFAS 126
Query: 505 FSGGFLARYAVGRLVSMDYQTRLGIMAAGSYGLPQFRLRVFLWGARPFKKLPQYPLP 561
G + +DY ++ A YG+PQ R R+++ R + + P
Sbjct: 127 HDNGNTLEVVKNTMNELDYSFHAKVLNALDYGIPQKRERIYMICFRNDLNIQNFQFP 183
>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 = 52.0 bits (123), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 31/117 (26%), Positives = 46/117 (39%), Gaps = 4/117 (3%)
Query: 445 DVDFICGGPPCQGVSGFNRFRNPQAALEDIKNRQLLVFMDVIEYLKPKYVLMENVVDILK 504
D D +C G PCQ S Q ED + ++ KPK V MENV +
Sbjct: 71 DHDILCAGFPCQAFS----ISGKQKGFEDSRGTLFFDIARIVREKKPKVVFMENVKNFAS 126
Query: 505 FSGGFLARYAVGRLVSMDYQTRLGIMAAGSYGLPQFRLRVFLWGARPFKKLPQYPLP 561
G + +DY ++ A YG+PQ R R+++ R + + P
Sbjct: 127 HDNGNTLEVVKNTMNELDYSFHAKVLNALDYGIPQKRERIYMICFRNDLNIQNFQFP 183
>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 = 51.6 bits (122), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 31/117 (26%), Positives = 46/117 (39%), Gaps = 4/117 (3%)
Query: 445 DVDFICGGPPCQGVSGFNRFRNPQAALEDIKNRQLLVFMDVIEYLKPKYVLMENVVDILK 504
D D +C G PCQ S Q ED + ++ KPK V MENV +
Sbjct: 71 DHDILCAGFPCQAFS----ISGKQKGFEDSRGTLFFDIARIVREKKPKVVFMENVKNFAS 126
Query: 505 FSGGFLARYAVGRLVSMDYQTRLGIMAAGSYGLPQFRLRVFLWGARPFKKLPQYPLP 561
G + +DY ++ A YG+PQ R R+++ R + + P
Sbjct: 127 HDNGNTLEVVKNTMNELDYSFHAKVLNALDYGIPQKRERIYMICFRNDLNIQNFQFP 183
>pdb|2I9K|A Chain A, Engineered Extrahelical Base Destabilization Enhances
Sequence Discrimination Of Dna Methyltransferase M.Hhai
Length = 327
Score = 51.6 bits (122), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 31/117 (26%), Positives = 46/117 (39%), Gaps = 4/117 (3%)
Query: 445 DVDFICGGPPCQGVSGFNRFRNPQAALEDIKNRQLLVFMDVIEYLKPKYVLMENVVDILK 504
D D +C G PCQ S Q ED + ++ KPK V MENV +
Sbjct: 71 DHDILCAGFPCQAFS----ISGKQKGFEDSRGTLFFDIARIVREKKPKVVFMENVKNAAS 126
Query: 505 FSGGFLARYAVGRLVSMDYQTRLGIMAAGSYGLPQFRLRVFLWGARPFKKLPQYPLP 561
G + +DY ++ A YG+PQ R R+++ R + + P
Sbjct: 127 HDNGNTLEVVKNTMNELDYSFHAKVLNALDYGIPQKRERIYMICFRNDLNIQNFQFP 183
>pdb|3QO2|A Chain A, Structural Insights For Mpp8 Chromodomain Interaction With
Histone H3 Lysine 9
pdb|3QO2|B Chain B, Structural Insights For Mpp8 Chromodomain Interaction With
Histone H3 Lysine 9
pdb|3QO2|C Chain C, Structural Insights For Mpp8 Chromodomain Interaction With
Histone H3 Lysine 9
pdb|3QO2|D Chain D, Structural Insights For Mpp8 Chromodomain Interaction With
Histone H3 Lysine 9
Length = 64
Score = 51.2 bits (121), Expect = 2e-06, Method: Composition-based stats.
Identities = 27/57 (47%), Positives = 34/57 (59%), Gaps = 6/57 (10%)
Query: 377 FEVERLIAVCYGDPNKTKKPGVYFKVRWKGYGPSEDTWEPIKGLSKCKEKLKEFVTK 433
FEVE+++ + KT+ V +KVRWKGY +DTWEP L CKE L EF K
Sbjct: 7 FEVEKILDM------KTEGGKVLYKVRWKGYTSDDDTWEPEIHLEDCKEVLLEFRKK 57
>pdb|3LWE|A Chain A, The Crystal Structure Of Mpp8
pdb|3LWE|B Chain B, The Crystal Structure Of Mpp8
pdb|3R93|A Chain A, Crystal Structure Of The Chromo Domain Of M-Phase
Phosphoprotein 8 Bound To H3k9me3 Peptide
pdb|3R93|B Chain B, Crystal Structure Of The Chromo Domain Of M-Phase
Phosphoprotein 8 Bound To H3k9me3 Peptide
pdb|3R93|C Chain C, Crystal Structure Of The Chromo Domain Of M-Phase
Phosphoprotein 8 Bound To H3k9me3 Peptide
pdb|3R93|D Chain D, Crystal Structure Of The Chromo Domain Of M-Phase
Phosphoprotein 8 Bound To H3k9me3 Peptide
pdb|3SVM|A Chain A, Human Mpp8 - Human Dnmt3ak47me2 Peptide
Length = 62
Score = 50.8 bits (120), Expect = 3e-06, Method: Composition-based stats.
Identities = 27/57 (47%), Positives = 34/57 (59%), Gaps = 6/57 (10%)
Query: 377 FEVERLIAVCYGDPNKTKKPGVYFKVRWKGYGPSEDTWEPIKGLSKCKEKLKEFVTK 433
FEVE+++ + KT+ V +KVRWKGY +DTWEP L CKE L EF K
Sbjct: 5 FEVEKILDM------KTEGGKVLYKVRWKGYTSDDDTWEPEIHLEDCKEVLLEFRKK 55
>pdb|2ZCJ|A Chain A, Ternary Structure Of The Glu119gln M.Hhai, C5-Cytosine Dna
Methyltransferase, With Unmodified Dna And Adohcy
Length = 327
Score = 50.8 bits (120), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 30/117 (25%), Positives = 46/117 (39%), Gaps = 4/117 (3%)
Query: 445 DVDFICGGPPCQGVSGFNRFRNPQAALEDIKNRQLLVFMDVIEYLKPKYVLMENVVDILK 504
D D +C G PCQ S Q ED + ++ KPK V M+NV +
Sbjct: 71 DHDILCAGFPCQAFS----ISGKQKGFEDSRGTLFFDIARIVREKKPKVVFMQNVKNFAS 126
Query: 505 FSGGFLARYAVGRLVSMDYQTRLGIMAAGSYGLPQFRLRVFLWGARPFKKLPQYPLP 561
G + +DY ++ A YG+PQ R R+++ R + + P
Sbjct: 127 HDNGNTLEVVKNTMNELDYSFHAKVLNALDYGIPQKRERIYMICFRNDLNIQNFQFP 183
>pdb|2UZ4|A Chain A, Hhai Dna Methyltransferase R165n Mutant Complex With 13mer
Gcgc-Gmgc Oligonucleotide And Sah
Length = 327
Score = 49.7 bits (117), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 30/117 (25%), Positives = 45/117 (38%), Gaps = 4/117 (3%)
Query: 445 DVDFICGGPPCQGVSGFNRFRNPQAALEDIKNRQLLVFMDVIEYLKPKYVLMENVVDILK 504
D D +C G PCQ S Q ED + ++ KPK V MENV +
Sbjct: 71 DHDILCAGFPCQAFS----ISGKQKGFEDSRGTLFFDIARIVREKKPKVVFMENVKNFAS 126
Query: 505 FSGGFLARYAVGRLVSMDYQTRLGIMAAGSYGLPQFRLRVFLWGARPFKKLPQYPLP 561
G + +DY ++ A YG+PQ R +++ R + + P
Sbjct: 127 HDNGNTLEVVKNTMNELDYSFHAKVLNALDYGIPQKRENIYMICFRNDLNIQNFQFP 183
>pdb|2UYC|A Chain A, Hhai Dna Methyltransferase R163n Mutant Complex With 13mer
Gcgc-Gmgc Oligonucleotide And Sah
Length = 327
Score = 49.7 bits (117), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 30/117 (25%), Positives = 45/117 (38%), Gaps = 4/117 (3%)
Query: 445 DVDFICGGPPCQGVSGFNRFRNPQAALEDIKNRQLLVFMDVIEYLKPKYVLMENVVDILK 504
D D +C G PCQ S Q ED + ++ KPK V MENV +
Sbjct: 71 DHDILCAGFPCQAFS----ISGKQKGFEDSRGTLFFDIARIVREKKPKVVFMENVKNFAS 126
Query: 505 FSGGFLARYAVGRLVSMDYQTRLGIMAAGSYGLPQFRLRVFLWGARPFKKLPQYPLP 561
G + +DY ++ A YG+PQ R+++ R + + P
Sbjct: 127 HDNGNTLEVVKNTMNELDYSFHAKVLNALDYGIPQKNERIYMICFRNDLNIQNFQFP 183
>pdb|2Z6U|A Chain A, Ternary Structure Of The Glu119ala M.Hhai, C5-Cytosine Dna
Methyltransferase, With Unmodified Dna And Adohcy
Length = 327
Score = 49.3 bits (116), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 30/117 (25%), Positives = 45/117 (38%), Gaps = 4/117 (3%)
Query: 445 DVDFICGGPPCQGVSGFNRFRNPQAALEDIKNRQLLVFMDVIEYLKPKYVLMENVVDILK 504
D D +C G PCQ S Q ED + ++ KPK V M NV +
Sbjct: 71 DHDILCAGFPCQAFS----ISGKQKGFEDSRGTLFFDIARIVREKKPKVVFMANVKNFAS 126
Query: 505 FSGGFLARYAVGRLVSMDYQTRLGIMAAGSYGLPQFRLRVFLWGARPFKKLPQYPLP 561
G + +DY ++ A YG+PQ R R+++ R + + P
Sbjct: 127 HDNGNTLEVVKNTMNELDYSFHAKVLNALDYGIPQKRERIYMICFRNDLNIQNFQFP 183
>pdb|2Z6Q|A Chain A, Ternary Structure Of Arg165ala M.Hhai C5-Cytosine Dna
Methyltransferase With Unmodified Dna And Adohcy
Length = 327
Score = 49.3 bits (116), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 30/117 (25%), Positives = 45/117 (38%), Gaps = 4/117 (3%)
Query: 445 DVDFICGGPPCQGVSGFNRFRNPQAALEDIKNRQLLVFMDVIEYLKPKYVLMENVVDILK 504
D D +C G PCQ S Q ED + ++ KPK V MENV +
Sbjct: 71 DHDILCAGFPCQAFS----ISGKQKGFEDSRGTLFFDIARIVREKKPKVVFMENVKNFAS 126
Query: 505 FSGGFLARYAVGRLVSMDYQTRLGIMAAGSYGLPQFRLRVFLWGARPFKKLPQYPLP 561
G + +DY ++ A YG+PQ R +++ R + + P
Sbjct: 127 HDNGNTLEVVKNTMNELDYSFHAKVLNALDYGIPQKREAIYMICFRNDLNIQNFQFP 183
>pdb|2Z6A|A Chain A, S-Adenosyl-L-Methionine-Dependent Methyl Transfer:
Observable Precatalytic Intermediates During Dna
Cytosine Methylation
Length = 327
Score = 48.1 bits (113), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 30/117 (25%), Positives = 45/117 (38%), Gaps = 4/117 (3%)
Query: 445 DVDFICGGPPCQGVSGFNRFRNPQAALEDIKNRQLLVFMDVIEYLKPKYVLMENVVDILK 504
D D +C G P Q S Q ED + ++ KPK V MENV +
Sbjct: 71 DHDILCAGFPAQAFS----ISGKQKGFEDSRGTLFFDIARIVREKKPKVVFMENVKNFAS 126
Query: 505 FSGGFLARYAVGRLVSMDYQTRLGIMAAGSYGLPQFRLRVFLWGARPFKKLPQYPLP 561
G + +DY ++ A YG+PQ R R+++ R + + P
Sbjct: 127 HDNGNTLEVVKNTMNELDYSFHAKVLNALDYGIPQKRERIYMICFRNDLNIQNFQFP 183
>pdb|1G55|A Chain A, Structure Of Human Dnmt2, An Enigmatic Dna
Methyltransferase Homologue
Length = 343
Score = 48.1 bits (113), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 45/158 (28%), Positives = 68/158 (43%), Gaps = 18/158 (11%)
Query: 447 DFICGGPPCQGVSGFNRFRNPQAALEDIKNRQLLVFMDVIEYLK--PKYVLMENVVDILK 504
D I PPCQ + R Q + D + L +D++ L+ PKY+L+ENV
Sbjct: 70 DMILMSPPCQPFTRIGR----QGDMTDSRTNSFLHILDILPRLQKLPKYILLENVKG--- 122
Query: 505 FSGGFLARYAVGRLVSMDYQTRLGIMAAGSYGLPQFRLRVFLWGARPFKKLPQYPLPTHE 564
F + + + +Q + +++ S G+P RLR FL KL PLP
Sbjct: 123 FEVSSTRDLLIQTIENXGFQYQEFLLSPTSLGIPNSRLRYFLIA-----KLQSEPLPFQ- 176
Query: 565 IVARGVIPNEFQEIIVAYANNQPCQLEKGVLLSDAISD 602
A G + EF +I + N Q L +L D + D
Sbjct: 177 --APGQVLMEFPKIEIHRKNQQDSDLSVK-MLKDFLED 211
Score = 34.3 bits (77), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 29/56 (51%), Gaps = 10/56 (17%)
Query: 262 MSLLDLYSGCGAMSTGL---CIGASLSGVKLVTRWAIDINPHACKSLKFNHPETKV 314
+ +L+LYSG G M L CI A + AID+N A + K+N P T++
Sbjct: 3 LRVLELYSGVGGMHHALRESCIPAQVVA-------AIDVNTVANEVYKYNFPHTQL 51
>pdb|2DNT|A Chain A, Solution Structure Of Rsgi Ruh-064, A Chromo Domain From
Human Cdna
Length = 78
Score = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 23/54 (42%), Positives = 32/54 (59%), Gaps = 5/54 (9%)
Query: 377 FEVERLIAVCYGDPNKTKKPGVYFKVRWKGYGPSEDTWEPIKGLSKCKEKLKEF 430
+EVER++ D K KK + VRWKGY +DTWEP + L C+E + +F
Sbjct: 14 YEVERIV-----DKRKNKKGKTEYLVRWKGYDSEDDTWEPEQHLVNCEEYIHDF 62
>pdb|1DCT|A Chain A, Dna (Cytosine-5) Methylase From Haeiii Covalently Bound To
Dna
pdb|1DCT|B Chain B, Dna (Cytosine-5) Methylase From Haeiii Covalently Bound To
Dna
Length = 324
Score = 44.7 bits (104), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 28/104 (26%), Positives = 47/104 (45%), Gaps = 4/104 (3%)
Query: 447 DFICGGPPCQGVSGFNRFRNPQAALEDIKNRQLLVFMDVIEYLKPKYVLMENVVDILKFS 506
D I GGPPCQ S R ++D + + ++ +++ KP + L ENV ++
Sbjct: 63 DGIIGGPPCQSWSEGGSLR----GIDDPRGKLFYEYIRILKQKKPIFFLAENVKGMMAQR 118
Query: 507 GGFLARYAVGRLVSMDYQTRLGIMAAGSYGLPQFRLRVFLWGAR 550
+ + + Y + ++ A YG+ Q R RVF G R
Sbjct: 119 HNKAVQEFIQEFDNAGYDVHIILLNANDYGVAQDRKRVFYIGFR 162
Score = 34.7 bits (78), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 45/155 (29%), Positives = 64/155 (41%), Gaps = 36/155 (23%)
Query: 652 YDHRPFQVNNDDY------ERVCCIPKRKGANFRDLPGV--LVGPDNK-VRWD------P 696
YD +N +DY +RV I RK N LP + L+ P K V WD P
Sbjct: 135 YDVHIILLNANDYGVAQDRKRVFYIGFRKELNINYLPPIPHLIKPTFKDVIWDLKDNPIP 194
Query: 697 SMERVMLKSGKPLVPDYAMKFEHQSSTKPFGR---LWWDEIVNTVVTRA-----QPHNRI 748
++++ K + P++ F ST R W+E TV P +
Sbjct: 195 ALDKNKTNGNKCIYPNHEY-FIGSYSTIFMSRNRVRQWNEPAFTVQASGRQCQLHPQAPV 253
Query: 749 LLHPSQD------------RVLTIRENARLQGFPD 771
+L S++ R LT+RE AR+QGFPD
Sbjct: 254 MLKVSKNLNKFVEGKEHLYRRLTVRECARVQGFPD 288
>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 = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 27/104 (25%), Positives = 46/104 (44%), Gaps = 4/104 (3%)
Query: 447 DFICGGPPCQGVSGFNRFRNPQAALEDIKNRQLLVFMDVIEYLKPKYVLMENVVDILKFS 506
D I GGPP Q S R ++D + + ++ +++ KP + L ENV ++
Sbjct: 63 DGIIGGPPSQSWSEGGSLR----GIDDPRGKLFYEYIRILKQKKPIFFLAENVKGMMAQR 118
Query: 507 GGFLARYAVGRLVSMDYQTRLGIMAAGSYGLPQFRLRVFLWGAR 550
+ + + Y + ++ A YG+ Q R RVF G R
Sbjct: 119 HNKAVQEFIQEFDNAGYDVHIILLNANDYGVAQDRKRVFYIGFR 162
Score = 34.7 bits (78), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 45/155 (29%), Positives = 64/155 (41%), Gaps = 36/155 (23%)
Query: 652 YDHRPFQVNNDDY------ERVCCIPKRKGANFRDLPGV--LVGPDNK-VRWD------P 696
YD +N +DY +RV I RK N LP + L+ P K V WD P
Sbjct: 135 YDVHIILLNANDYGVAQDRKRVFYIGFRKELNINYLPPIPHLIKPTFKDVIWDLKDNPIP 194
Query: 697 SMERVMLKSGKPLVPDYAMKFEHQSSTKPFGR---LWWDEIVNTVVTRA-----QPHNRI 748
++++ K + P++ F ST R W+E TV P +
Sbjct: 195 ALDKNKTNGNKCIYPNHEY-FIGSYSTIFMSRNRVRQWNEPAFTVQASGRQCQLHPQAPV 253
Query: 749 LLHPSQD------------RVLTIRENARLQGFPD 771
+L S++ R LT+RE AR+QGFPD
Sbjct: 254 MLKVSKNLNKFVEGKEHLYRRLTVRECARVQGFPD 288
>pdb|1W4S|A Chain A, Crystal Structure Of The Proximal Bah Domain Of Polybromo
Length = 174
Score = 39.3 bits (90), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 30/103 (29%), Positives = 46/103 (44%), Gaps = 2/103 (1%)
Query: 103 RCHYTQASVDGCLYNLGDDAYVK-AEEGAVDYIARIVELFESVDGEPYFKARWFYRAEDT 161
R + S +Y++GD YV+ AE +I I L+E GE + WFYR +T
Sbjct: 14 RTYSQDCSFKNSMYHVGDYVYVEPAEANLQPHIVCIERLWEDSAGEKWLYGCWFYRPNET 73
Query: 162 VIKDLACLVDRKRVFLSDVEDDNPLNCIVSKAKIAEVATNMDL 204
++ K VF SD + P++ I+ K + V L
Sbjct: 74 FHLATRKFLE-KEVFKSDYYNKVPVSKILGKCVVMFVKEYFKL 115
>pdb|1G6Z|A Chain A, Solution Structure Of The Clr4 Chromo Domain
Length = 70
Score = 38.5 bits (88), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 32/63 (50%), Gaps = 6/63 (9%)
Query: 375 EEFEVERLIAVCYGDPNKTKKPGV-YFKVRWKGYGPSEDTWEPIKGLSKCKEKLKEFVTK 433
EE+EVER++ D + V +++RW Y DTWEP + LS C L E+ +
Sbjct: 7 EEYEVERIV-----DEKLDRNGAVKLYRIRWLNYSSRSDTWEPPENLSGCSAVLAEWKRR 61
Query: 434 GYR 436
R
Sbjct: 62 KRR 64
>pdb|3MTS|A Chain A, Chromo Domain Of Human Histone-lysine N-methyltransferase
Suv39h1
pdb|3MTS|B Chain B, Chromo Domain Of Human Histone-lysine N-methyltransferase
Suv39h1
pdb|3MTS|C Chain C, Chromo Domain Of Human Histone-lysine N-methyltransferase
Suv39h1
Length = 64
Score = 36.2 bits (82), Expect = 0.079, Method: Compositional matrix adjust.
Identities = 17/32 (53%), Positives = 22/32 (68%), Gaps = 1/32 (3%)
Query: 399 YFKVRWKGYGPSEDTWEPIKGLSKCKEKLKEF 430
Y+ V+W+GY SE TWEP + L KC LK+F
Sbjct: 17 YYLVKWRGYPDSESTWEPRQNL-KCVRILKQF 47
>pdb|4DKJ|A Chain A, Cpg Specific Methyltransferase In Complex With Target Dna
Length = 403
Score = 35.4 bits (80), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 41/174 (23%), Positives = 70/174 (40%), Gaps = 40/174 (22%)
Query: 442 LPGDVDFICGGPPCQGVS------GFNRFRNPQAAL--------EDIKNRQLLVFMDVIE 487
P ++D PCQ +S G ++ N ++ L E+IKN M
Sbjct: 122 FPKNIDIFTYSFPCQDLSVQGLQKGIDKELNTRSGLLWEIERILEEIKNSFSKEEM---- 177
Query: 488 YLKPKYVLMENVVDILKFSGGFLARYAVGRLVSMDYQTRLGIMAAGSYGLPQFRLRVFLW 547
PKY+LMENV ++L + +L Y+++ ++ + ++ Q R RVF
Sbjct: 178 ---PKYLLMENVKNLLSHKNKKNYNTWLKQLEKFGYKSKTYLLNSKNFDNCQNRERVFCL 234
Query: 548 GAR---------PFKKLPQYPLPTHEIVARGVIPNEFQEIIVAYANNQPCQLEK 592
R FK+L + P P + ++I+V +N + L K
Sbjct: 235 SIRDDYLEKTGFKFKELEKVKNP----------PKKIKDILVDSSNYKYLNLNK 278
>pdb|3FDT|A Chain A, Crystal Structure Of The Complex Of Human Chromobox
Homolog 5 (Cbx5) With H3k9(Me)3 Peptide
Length = 59
Score = 32.7 bits (73), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 32/59 (54%), Gaps = 7/59 (11%)
Query: 375 EEFEVERLIAVCYGDPNKTKKPGVYFKVRWKGYGPSEDTWEPIKGLSKCKEKLKEFVTK 433
EE+ VE+++ + K V + ++WKG+ +TWEP K L C E + EF+ K
Sbjct: 2 EEYVVEKVL------DRRVVKGQVEYLLKWKGFSEEHNTWEPEKNLD-CPELISEFMKK 53
>pdb|2B2U|A Chain A, Tandem Chromodomains Of Human Chd1 Complexed With Histone
H3 Tail Containing Trimethyllysine 4 And
Dimethylarginine 2
pdb|2B2U|B Chain B, Tandem Chromodomains Of Human Chd1 Complexed With Histone
H3 Tail Containing Trimethyllysine 4 And
Dimethylarginine 2
pdb|2B2V|A Chain A, Crystal Structure Analysis Of Human Chd1 Chromodomains 1
And 2 Bound To Histone H3 Resi 1-15 Mek4
pdb|2B2V|B Chain B, Crystal Structure Analysis Of Human Chd1 Chromodomains 1
And 2 Bound To Histone H3 Resi 1-15 Mek4
pdb|2B2W|A Chain A, Tandem Chromodomains Of Human Chd1 Complexed With Histone
H3 Tail Containing Trimethyllysine 4
pdb|2B2W|B Chain B, Tandem Chromodomains Of Human Chd1 Complexed With Histone
H3 Tail Containing Trimethyllysine 4
pdb|2B2Y|A Chain A, Tandem Chromodomains Of Human Chd1
pdb|2B2Y|B Chain B, Tandem Chromodomains Of Human Chd1
Length = 187
Score = 32.3 bits (72), Expect = 0.98, Method: Composition-based stats.
Identities = 24/75 (32%), Positives = 38/75 (50%), Gaps = 16/75 (21%)
Query: 388 GDPN----KTKKPG-VYFKVRWKGYGPSEDTWEP--------IKGLSKCKE-KLKEFVTK 433
GDPN K K+PG + + ++WKG+ +TWE ++G+ K K K+ TK
Sbjct: 43 GDPNAGFEKNKEPGEIQYLIKWKGWSHIHNTWETEETLKQQNVRGMKKLDNYKKKDQETK 102
Query: 434 GYRSNILPLPGDVDF 448
+ N P DV++
Sbjct: 103 RWLKN--ASPEDVEY 115
>pdb|1KNA|A Chain A, Chromo Domain Of Hp1 Complexed With Histone H3 Tail
Containing Dimethyllysine 9.
pdb|1KNE|A Chain A, Chromo Domain Of Hp1 Complexed With Histone H3 Tail
Containing Trimethyllysine 9
pdb|1Q3L|A Chain A, Chromodomain Of Hp1 Complexed With Histone H3 Tail
Containing Monomethyllysine 9
Length = 69
Score = 32.3 bits (72), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 32/54 (59%), Gaps = 7/54 (12%)
Query: 377 FEVERLIAVCYGDPNKTKKPGVYFKVRWKGYGPSEDTWEPIKGLSKCKEKLKEF 430
+ VE++I + +K V + ++WKGY +E+TWEP L C++ ++++
Sbjct: 17 YAVEKII------DRRVRKGMVEYYLKWKGYPETENTWEPENNLD-CQDLIQQY 63
>pdb|2B2U|C Chain C, Tandem Chromodomains Of Human Chd1 Complexed With Histone
H3 Tail Containing Trimethyllysine 4 And
Dimethylarginine 2
pdb|2B2V|C Chain C, Crystal Structure Analysis Of Human Chd1 Chromodomains 1
And 2 Bound To Histone H3 Resi 1-15 Mek4
pdb|2B2W|C Chain C, Tandem Chromodomains Of Human Chd1 Complexed With Histone
H3 Tail Containing Trimethyllysine 4
pdb|2B2Y|C Chain C, Tandem Chromodomains Of Human Chd1
Length = 115
Score = 32.3 bits (72), Expect = 1.1, Method: Composition-based stats.
Identities = 22/68 (32%), Positives = 34/68 (50%), Gaps = 14/68 (20%)
Query: 388 GDPN----KTKKPG-VYFKVRWKGYGPSEDTWEP--------IKGLSKCKE-KLKEFVTK 433
GDPN K K+PG + + ++WKG+ +TWE ++G+ K K K+ TK
Sbjct: 43 GDPNAGFEKNKEPGEIQYLIKWKGWSHIHNTWETEETLKQQNVRGMKKLDNYKKKDQETK 102
Query: 434 GYRSNILP 441
+ N P
Sbjct: 103 RWLKNASP 110
>pdb|3I8Z|A Chain A, Crystal Structure Of Human Chromobox Homolog 4 (Cbx4)
Length = 55
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 22/37 (59%)
Query: 380 ERLIAVCYGDPNKTKKPGVYFKVRWKGYGPSEDTWEP 416
E + AV + + +K V + V+W+G+ P +TWEP
Sbjct: 1 EHVFAVESIEKKRIRKGRVEYLVKWRGWSPKYNTWEP 37
>pdb|2K1B|A Chain A, Solution Nmr Structure Of The Chromo Domain Of The
Chromobox Protein Homolog 7
Length = 73
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 23/40 (57%)
Query: 377 FEVERLIAVCYGDPNKTKKPGVYFKVRWKGYGPSEDTWEP 416
F+ E++ AV + +K V + V+WKG+ P TWEP
Sbjct: 16 FQGEQVFAVESIRKKRVRKGKVEYLVKWKGWPPKYSTWEP 55
>pdb|2K28|A Chain A, Solution Nmr Structure Of The Chromo Domain Of The
Chromobox Protein Homolog 4
Length = 60
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 22/37 (59%)
Query: 380 ERLIAVCYGDPNKTKKPGVYFKVRWKGYGPSEDTWEP 416
E + AV + + +K V + V+W+G+ P +TWEP
Sbjct: 3 EHVFAVESIEKKRIRKGRVEYLVKWRGWSPKYNTWEP 39
>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 = 31.6 bits (70), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 30/67 (44%), Gaps = 5/67 (7%)
Query: 264 LLDLYSGCGAMSTGLCIGASLSGVKLVTRWAIDINPHACKSLKFNHPETKVRNEAADDFL 323
+L+LYSG G M SG+ A+DIN A K N PET + N
Sbjct: 6 ILELYSGIGGMHCAW----KESGLDGEIVAAVDINTVANSVYKHNFPETNLLNRNIQQLT 61
Query: 324 -SLLKEW 329
++K+W
Sbjct: 62 PQVIKKW 68
>pdb|2B2T|A Chain A, Tandem Chromodomains Of Human Chd1 Complexed With Histone
H3 Tail Containing Trimethyllysine 4 And
Phosphothreonine 3
pdb|2B2T|B Chain B, Tandem Chromodomains Of Human Chd1 Complexed With Histone
H3 Tail Containing Trimethyllysine 4 And
Phosphothreonine 3
Length = 187
Score = 31.6 bits (70), Expect = 2.0, Method: Composition-based stats.
Identities = 14/33 (42%), Positives = 21/33 (63%), Gaps = 5/33 (15%)
Query: 388 GDPN----KTKKPG-VYFKVRWKGYGPSEDTWE 415
GDPN K K+PG + + ++WKG+ +TWE
Sbjct: 43 GDPNAGFEKNKEPGEIQYLIKWKGWSHIHNTWE 75
>pdb|2B2T|C Chain C, Tandem Chromodomains Of Human Chd1 Complexed With Histone
H3 Tail Containing Trimethyllysine 4 And
Phosphothreonine 3
Length = 115
Score = 31.2 bits (69), Expect = 2.1, Method: Composition-based stats.
Identities = 14/33 (42%), Positives = 21/33 (63%), Gaps = 5/33 (15%)
Query: 388 GDPN----KTKKPG-VYFKVRWKGYGPSEDTWE 415
GDPN K K+PG + + ++WKG+ +TWE
Sbjct: 43 GDPNAGFEKNKEPGEIQYLIKWKGWSHIHNTWE 75
>pdb|2HXV|A Chain A, Crystal Structure Of A
Diaminohydroxyphosphoribosylaminopyrimidine Deaminase
5-Amino-6-(5-Phosphoribosylamino)uracil Reductase
(Tm1828) From Thermotoga Maritima At 1.80 A Resolution
Length = 360
Score = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 33/70 (47%), Gaps = 7/70 (10%)
Query: 285 SGVKLVTRWAIDINPHACKSLKFNHPETKVRNEAADDFLSLLKEWAK-LCQYFSIYDTDK 343
SG+K V D NP + ++ K RN + +L+E K LC++F Y T K
Sbjct: 105 SGIKTVVIGTRDPNPVSGNGVE------KFRNHGIEVIEGVLEEEVKKLCEFFITYVTKK 158
Query: 344 VPEQSLNFMS 353
P +L + S
Sbjct: 159 RPFVALKYAS 168
>pdb|2J04|B Chain B, The Tau60-Tau91 Subcomplex Of Yeast Transcription Factor
Iiic
pdb|2J04|D Chain D, The Tau60-Tau91 Subcomplex Of Yeast Transcription Factor
Iiic
Length = 524
Score = 30.8 bits (68), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 30/65 (46%), Gaps = 6/65 (9%)
Query: 405 KGYGPSEDTWEPIKGLSKCKEKLKEFVTKGYRSNILPLP------GDVDFICGGPPCQGV 458
K + D E I GL+K K L V +G+ +++ P F+C PPC+
Sbjct: 5 KDLSSARDKIERIYGLNKEKLLLLAKVKEGFETSVFDFPFKNIQPDSPYFVCLDPPCKKE 64
Query: 459 SGFNR 463
S +N+
Sbjct: 65 SAYNK 69
>pdb|1AP0|A Chain A, Structure Of The Chromatin Binding (Chromo) Domain From
Mouse Modifier Protein 1, Nmr, 26 Structures
pdb|1GUW|A Chain A, Structure Of The Chromodomain From Mouse Hp1beta In
Complex With The Lysine 9-Methyl Histone H3 N-Terminal
Peptide, Nmr, 25 Structures
Length = 73
Score = 30.4 bits (67), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 23/37 (62%), Gaps = 1/37 (2%)
Query: 395 KPGVYFKVRWKGYGPSEDTWEPIKGLSKCKEKLKEFV 431
K V + ++WKG+ ++TWEP + L C + + EF+
Sbjct: 26 KGKVEYLLKWKGFSDEDNTWEPEENLD-CPDLIAEFL 61
>pdb|2BGI|A Chain A, X-Ray Structure Of The Ferredoxin-Nadp(H) Reductase From
Rhodobacter Capsulatus Complexed With Three Molecules Of
The Detergent N-Heptyl-Beta-D-Thioglucoside At 1.7
Angstroms
pdb|2BGJ|A Chain A, X-Ray Structure Of The Ferredoxin-Nadp(H) Reductase From
Rhodobacter Capsulatus At 2.1 Angstroms
pdb|2BGJ|B Chain B, X-Ray Structure Of The Ferredoxin-Nadp(H) Reductase From
Rhodobacter Capsulatus At 2.1 Angstroms
pdb|2BGJ|C Chain C, X-Ray Structure Of The Ferredoxin-Nadp(H) Reductase From
Rhodobacter Capsulatus At 2.1 Angstroms
pdb|2BGJ|D Chain D, X-Ray Structure Of The Ferredoxin-Nadp(H) Reductase From
Rhodobacter Capsulatus At 2.1 Angstroms
pdb|2VNH|A Chain A, X-Ray Structure Of The Ferredoxin-Nadp(H) Reductase From
Rhodobacter Capsulatus In Complex With Nadp. Form Ii At
2. 27 Angstroms Resolution
pdb|2VNI|A Chain A, X-Ray Structure Of The Ferredoxin-Nadp(H) Reductase From
Rhodobacter Capsulatus In Complex With 2p-Amp At 2.37
Angstroms Resolution
pdb|2VNJ|A Chain A, X-Ray Structure Of The Ferredoxin-Nadp(H) Reductase From
Rhodobacter Capsulatus In Complex With Nadp. Form I At
2. 13 Angstroms Resolution
pdb|2VNK|A Chain A, X-Ray Structure Of The Ferredoxin-Nadp(H) Reductase From
Rhodobacter Capsulatus In Complex With Nadp. Form Iii At
1. 93 Angstroms Resolution
pdb|2VNK|B Chain B, X-Ray Structure Of The Ferredoxin-Nadp(H) Reductase From
Rhodobacter Capsulatus In Complex With Nadp. Form Iii At
1. 93 Angstroms Resolution
pdb|2VNK|C Chain C, X-Ray Structure Of The Ferredoxin-Nadp(H) Reductase From
Rhodobacter Capsulatus In Complex With Nadp. Form Iii At
1. 93 Angstroms Resolution
pdb|2VNK|D Chain D, X-Ray Structure Of The Ferredoxin-Nadp(H) Reductase From
Rhodobacter Capsulatus In Complex With Nadp. Form Iii At
1. 93 Angstroms Resolution
Length = 272
Score = 30.4 bits (67), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 34/72 (47%), Gaps = 4/72 (5%)
Query: 573 NEFQEIIVAYANNQPCQLEKGVLLSDAISDLPLVTNNESEDERKYGTVARTEFQKYIRLR 632
+F E+I+ +A +LE G L +A+ + PL+ + Y T R EF R+
Sbjct: 146 EKFDEVIMMHACRTVAELEYGRQLVEALQEDPLIGELVEGKLKYYPTTTREEFHHMGRIT 205
Query: 633 RHDVVNLSSAQM 644
NL+S ++
Sbjct: 206 D----NLASGKV 213
>pdb|2KVM|A Chain A, Solution Structure Of The Cbx7 Chromodomain In Complex
With A H3k27me2 Peptide
Length = 74
Score = 30.0 bits (66), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 21/37 (56%)
Query: 380 ERLIAVCYGDPNKTKKPGVYFKVRWKGYGPSEDTWEP 416
E++ AV + +K V + V+WKG+ P TWEP
Sbjct: 11 EQVFAVESIRKKRVRKGKVEYLVKWKGWPPKYSTWEP 47
>pdb|1PFB|A Chain A, Structural Basis For Specific Binding Of Polycomb
Chromodomain To Histone H3 Methylated At K27
Length = 55
Score = 30.0 bits (66), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 17/25 (68%)
Query: 392 KTKKPGVYFKVRWKGYGPSEDTWEP 416
+ KK V ++V+WKG+ +TWEP
Sbjct: 13 RVKKGVVEYRVKWKGWNQRYNTWEP 37
>pdb|1PDQ|A Chain A, Polycomb Chromodomain Complexed With The Histone H3 Tail
Containing Trimethyllysine 27
Length = 72
Score = 30.0 bits (66), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 17/25 (68%)
Query: 392 KTKKPGVYFKVRWKGYGPSEDTWEP 416
+ KK V ++V+WKG+ +TWEP
Sbjct: 30 RVKKGVVEYRVKWKGWNQRYNTWEP 54
>pdb|2L12|A Chain A, Solution Nmr Structure Of The Chromobox Protein 7 With
H3k9me3
pdb|2L1B|A Chain A, Solution Nmr Structure Of The Chromobox Protein Cbx7 With
H3k27me3
Length = 56
Score = 29.6 bits (65), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 21/37 (56%)
Query: 380 ERLIAVCYGDPNKTKKPGVYFKVRWKGYGPSEDTWEP 416
E++ AV + +K V + V+WKG+ P TWEP
Sbjct: 2 EQVFAVESIRKKRVRKGKVEYLVKWKGWPPKYSTWEP 38
>pdb|3F2U|A Chain A, Crystal Structure Of Human Chromobox Homolog 1 (Cbx1)
Length = 55
Score = 29.6 bits (65), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 23/37 (62%), Gaps = 1/37 (2%)
Query: 395 KPGVYFKVRWKGYGPSEDTWEPIKGLSKCKEKLKEFV 431
K V + ++WKG+ ++TWEP + L C + + EF+
Sbjct: 15 KGKVEYLLKWKGFSDEDNTWEPEENLD-CPDLIAEFL 50
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
0.320 0.137 0.418
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,736,079
Number of Sequences: 62578
Number of extensions: 952245
Number of successful extensions: 1974
Number of sequences better than 100.0: 57
Number of HSP's better than 100.0 without gapping: 39
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 1842
Number of HSP's gapped (non-prelim): 97
length of query: 782
length of database: 14,973,337
effective HSP length: 106
effective length of query: 676
effective length of database: 8,340,069
effective search space: 5637886644
effective search space used: 5637886644
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: 55 (25.8 bits)