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= 042857
(1404 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3MWY|W Chain W, Crystal Structure Of The Chromodomain-atpase Portion Of The
Yeast Chd1 Chromatin Remodeler
Length = 800
Score = 456 bits (1174), Expect = e-128, Method: Compositional matrix adjust.
Identities = 281/686 (40%), Positives = 391/686 (56%), Gaps = 72/686 (10%)
Query: 611 SYEFLVKWVGKSNIHNSW-IPESQLKVLAKRKLENYKAKY-------------GTTVINI 656
+YEFL+KW +S++HN+W ES +V ++L+NY ++ I I
Sbjct: 71 NYEFLIKWTDESHLHNTWETYESIGQVRGLKRLDNYCKQFIIEDQQVRLDPYVTAEDIEI 130
Query: 657 CD----------ERWKQPQRVI-SLRSS-KDGTRE--AFVKWTGLPYDECTWEK---LDE 699
D E + P+R+I S R+S +DGT + VKW L YDE TWE + +
Sbjct: 131 MDMERERRLDEFEEFHVPERIIDSQRASLEDGTSQLQYLVKWRRLNYDEATWENATDIVK 190
Query: 700 PALEKYSHLTDLFVQFERQTLKKDASEDELPRGKGD--CQQSEIVALTEQPEELKGGALF 757
A E+ H + R+ K LP+ + Q+ L+ QP +KGG L
Sbjct: 191 LAPEQVKHFQN------RENSKI------LPQYSSNYTSQRPRFEKLSVQPPFIKGGELR 238
Query: 758 PHQLEALNWLRKCWHKSKNVILADEMGLGKTVSACAFISSLYCEFKAKLPCLVLVPLSTM 817
QL +NW+ W K N ILADEMGLGKTV AFIS L + P +++VPLSTM
Sbjct: 239 DFQLTGINWMAFLWSKGDNGILADEMGLGKTVQTVAFISWLIFARRQNGPHIIVVPLSTM 298
Query: 818 PNWLAEFALWAPNLNVVEYHGCAKARAIIRQYEWHASDPDNLNKKTSSYKFNVLLTTYEM 877
P WL F WAP+LN + Y G K+R IR+YE++ ++P KKT KFNVLLTTYE
Sbjct: 299 PAWLDTFEKWAPDLNCICYMGNQKSRDTIREYEFY-TNPRAKGKKT--MKFNVLLTTYEY 355
Query: 878 ILADSSHLRGVPWEVLVVDEGHRXXXXXXXXXXXXXXXXXQHRVLLTGTPLQNNIGEMYN 937
IL D + L + W+ + VDE HR +R+L+TGTPLQNNI E+
Sbjct: 356 ILKDRAELGSIKWQFMAVDEAHRLKNAESSLYESLNSFKVANRMLITGTPLQNNIKELAA 415
Query: 938 LLNFLQPASFPSLSSFEEKFNDLTTTQKVEELKKLVAPHMLRRLKKDAMQNIPPKTERMV 997
L+NFL P F + + D + + +L + + P +LRRLKKD +++P KTER++
Sbjct: 416 LVNFLMPGRFTIDQEIDFENQDEEQEEYIHDLHRRIQPFILRRLKKDVEKSLPSKTERIL 475
Query: 998 PVELSSIQAEYYRAMLTKNYQILRNIGKGVAQQSMLNIVMQLRKVCNHPYLIPGTEP--- 1054
VELS +Q EYY+ +LTKNY L KG S+LNI+ +L+K NHPYL E
Sbjct: 476 RVELSDVQTEYYKNILTKNYSALTAGAKG-GHFSLLNIMNELKKASNHPYLFDNAEERVL 534
Query: 1055 ---DSGSVEFLHEMR--IKASAKLTLLHSMLKVLYKEGHRVLIFSQMTKLLDILEDYLNI 1109
G + + +R I +S K+ LL +L L K+GHRVLIFSQM ++LDIL DYL+I
Sbjct: 535 QKFGDGKMTRENVLRGLIMSSGKMVLLDQLLTRLKKDGHRVLIFSQMVRMLDILGDYLSI 594
Query: 1110 EFGPKTYERVDGSVSVGDRQAAITRFNQ-DKSRFVFLLSTRSCGLGINLATADTVIIYDS 1168
+ ++R+DG+V R+ +I FN D + FVFLLSTR+ GLGINL TADTV+I+DS
Sbjct: 595 K--GINFQRLDGTVPSAQRRISIDHFNSPDSNDFVFLLSTRAGGLGINLMTADTVVIFDS 652
Query: 1169 DFNPHADIQAMNRAHRIGQSKRLLVYRLVVRASVEERILQLAKKKLMLDQLFV------- 1221
D+NP AD+QAM RAHRIGQ ++VYRLV + +VEE +L+ A+KK++L+ +
Sbjct: 653 DWNPQADLQAMARAHRIGQKNHVMVYRLVSKDTVEEEVLERARKKMILEYAIISLGVTDG 712
Query: 1222 NKSGSQK-----EVEDILRWGTEELF 1242
NK + E+ IL++G +F
Sbjct: 713 NKYTKKNEPNAGELSAILKFGAGNMF 738
>pdb|1Z6A|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE DOMAIN
Length = 500
Score = 202 bits (513), Expect = 1e-51, Method: Compositional matrix adjust.
Identities = 147/493 (29%), Positives = 253/493 (51%), Gaps = 57/493 (11%)
Query: 729 LPRGKGDCQQSEIVALTEQPEELKGGALFPHQLEALNWLRKCWHKSKNVILADEMGLGKT 788
+PRG +S L E P +K L P+Q++ +W+R + LAD+MGLGKT
Sbjct: 15 VPRGSHMASKS--FQLLE-PYNIKAN-LRPYQIKGFSWMRFMNKLGFGICLADDMGLGKT 70
Query: 789 VSACAFISSLYCEFKAKLPCLVLVPLSTMPNWLAEFALWAPNLNVVEYHGCAKARAIIRQ 848
+ A S E + P LV+ PLS + NW E + +AP+L +H
Sbjct: 71 LQTIAVFSDAKKENELT-PSLVICPLSVLKNWEEELSKFAPHLRFAVFH----------- 118
Query: 849 YEWHASDPDNLNKKTSSYKFNVLLTTYEMILADSSHLRGVPWEVLVVDEGHRXXXXXXXX 908
D K Y +++LTTY ++L D+ L+ V W+ +V+DE
Sbjct: 119 -------EDRSKIKLEDY--DIILTTYAVLLRDT-RLKEVEWKYIVIDEAQNIKNPQTKI 168
Query: 909 XXXXXXXXXQHRVLLTGTPLQNNIGEMYNLLNFLQPASFPSLSSFEEKFNDLTTTQK--- 965
++R+ LTGTP++N + ++++++ FL P S S F+ KF T +K
Sbjct: 169 FKAVKELKSKYRIALTGTPIENKVDDLWSIMTFLNPGLLGSYSEFKSKFA--TPIKKGDN 226
Query: 966 --VEELKKLVAPHMLRRLKKD--AMQNIPPKTERMVPVELSSIQAEYYRAMLTKNYQILR 1021
EELK +++P +LRR K D + ++P K E V L+ QA Y+A + + +
Sbjct: 227 MAKEELKAIISPFILRRTKYDKAIINDLPDKIETNVYCNLTPEQAAMYKAEVENLFNNID 286
Query: 1022 NIGKGVAQQSM-LNIVMQLRKVCNHPYLIPGTEPDSGSVEFLHEMRIKASAKLTLLHSML 1080
++ G+ ++ M L+ +++L+++ +HP L+ G E ++ S K+ ++
Sbjct: 287 SV-TGIKRKGMILSTLLKLKQIVDHPALLKGGEQS-----------VRRSGKMIRTMEII 334
Query: 1081 KVLYKEGHRVLIFSQ---MTKLL-DILEDYLNIEFGPKTYERVDGSVSVGDRQAAITRFN 1136
+ EG ++ IF+Q M K++ +I+E LN E P Y G +S +R I++F
Sbjct: 335 EEALDEGDKIAIFTQFVDMGKIIRNIIEKELNTEV-PFLY----GELSKKERDDIISKFQ 389
Query: 1137 QDKSRFVFLLSTRSCGLGINLATADTVIIYDSDFNPHADIQAMNRAHRIGQSKRLLVYRL 1196
+ S +LS ++ G GINL +A+ VI +D +NP + QA +R +RIGQ++ ++V++L
Sbjct: 390 NNPSVKFIVLSVKAGGFGINLTSANRVIHFDRWWNPAVEDQATDRVYRIGQTRNVIVHKL 449
Query: 1197 VVRASVEERILQL 1209
+ ++EE+I QL
Sbjct: 450 ISVGTLEEKIDQL 462
>pdb|1Z63|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE IN COMPLEX With
Dsdna
pdb|1Z63|B Chain B, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE IN COMPLEX With
Dsdna
Length = 500
Score = 194 bits (493), Expect = 3e-49, Method: Compositional matrix adjust.
Identities = 142/492 (28%), Positives = 243/492 (49%), Gaps = 55/492 (11%)
Query: 729 LPRGKGDCQQSEIVALTEQPEELKGGALFPHQLEALNWLRKCWHKSKNVILADEMGLGKT 788
+PRG +S L E P +K L P+Q++ +W R + LAD+ GLGKT
Sbjct: 15 VPRGSHMASKS--FQLLE-PYNIKAN-LRPYQIKGFSWXRFXNKLGFGICLADDXGLGKT 70
Query: 789 VSACAFISSLYCEFKAKLPCLVLVPLSTMPNWLAEFALWAPNLNVVEYHGCAKARAIIRQ 848
+ A S E + P LV+ PLS + NW E + +AP+L +H
Sbjct: 71 LQTIAVFSDAKKENELT-PSLVICPLSVLKNWEEELSKFAPHLRFAVFH----------- 118
Query: 849 YEWHASDPDNLNKKTSSYKFNVLLTTYEMILADSSHLRGVPWEVLVVDEGHRXXXXXXXX 908
D K Y +++LTTY ++L D+ L+ V W+ +V+DE
Sbjct: 119 -------EDRSKIKLEDY--DIILTTYAVLLRDT-RLKEVEWKYIVIDEAQNIKNPQTKI 168
Query: 909 XXXXXXXXXQHRVLLTGTPLQNNIGEMYNLLNFLQPASFPSLSSFEEKFNDLTTTQK--- 965
++R+ LTGTP++N + +++++ FL P S S F+ KF T +K
Sbjct: 169 FKAVKELKSKYRIALTGTPIENKVDDLWSIXTFLNPGLLGSYSEFKSKFA--TPIKKGDN 226
Query: 966 --VEELKKLVAPHMLRRLKKD--AMQNIPPKTERMVPVELSSIQAEYYRAMLTKNYQILR 1021
EELK +++P +LRR K D + ++P K E V L+ QA Y+A + + +
Sbjct: 227 XAKEELKAIISPFILRRTKYDKAIINDLPDKIETNVYCNLTPEQAAXYKAEVENLFNNID 286
Query: 1022 NIGKGVAQQSMLNIVMQLRKVCNHPYLIPGTEPDSGSVEFLHEMRIKASAKLTLLHSMLK 1081
++ + +L+ +++L+++ +HP L+ G E ++ S K +++
Sbjct: 287 SVTGIKRKGXILSTLLKLKQIVDHPALLKG-----------GEQSVRRSGKXIRTXEIIE 335
Query: 1082 VLYKEGHRVLIFSQMTK----LLDILEDYLNIEFGPKTYERVDGSVSVGDRQAAITRFNQ 1137
EG ++ IF+Q + +I+E LN E P Y G +S +R I++F
Sbjct: 336 EALDEGDKIAIFTQFVDXGKIIRNIIEKELNTEV-PFLY----GELSKKERDDIISKFQN 390
Query: 1138 DKSRFVFLLSTRSCGLGINLATADTVIIYDSDFNPHADIQAMNRAHRIGQSKRLLVYRLV 1197
+ S +LS ++ G GINL +A+ VI +D +NP + QA +R +RIGQ++ ++V++L+
Sbjct: 391 NPSVKFIVLSVKAGGFGINLTSANRVIHFDRWWNPAVEDQATDRVYRIGQTRNVIVHKLI 450
Query: 1198 VRASVEERILQL 1209
++EE+I QL
Sbjct: 451 SVGTLEEKIDQL 462
>pdb|1Z3I|X Chain X, Structure Of The Swi2SNF2 CHROMATIN REMODELING DOMAIN OF
EUKARYOTIC Rad54
Length = 644
Score = 174 bits (441), Expect = 3e-43, Method: Compositional matrix adjust.
Identities = 149/529 (28%), Positives = 249/529 (47%), Gaps = 54/529 (10%)
Query: 755 ALFPHQLEALNWLRKC-----WHKSKNVILADEMGLGKTVSACAFISSLYCEFKAKLP-- 807
L PHQ E + +L C S I+ADEMGLGKT+ I +L + P
Sbjct: 55 VLRPHQREGVKFLWDCVTGRRIENSYGCIMADEMGLGKTLQCITLIWTLLKQSPDCKPEI 114
Query: 808 --CLVLVPLSTMPNWLAEFALW-APNLNVVEYHGCAKARAIIRQYEWHASDPDNLNKKTS 864
+V+ P S + NW E W + V G +K E + + ++++
Sbjct: 115 DKVIVVSPSSLVRNWYNEVGKWLGGRVQPVAIDGGSKD-------EIDSKLVNFISQQGM 167
Query: 865 SYKFNVLLTTYEMILADSSHLRGVPWEVLVVDEGHRXXXXXXXXXXXXXXXXXQHRVLLT 924
+L+ +YE + L +++ DEGHR Q RVL++
Sbjct: 168 RIPTPILIISYETFRLHAEVLHKGKVGLVICDEGHRLKNSDNQTYLALNSMNAQRRVLIS 227
Query: 925 GTPLQNNIGEMYNLLNFLQPASFPSLSSFEEKF---------------NDLTTTQKVEEL 969
GTP+QN++ E ++L++F+ + F+++F + QK++EL
Sbjct: 228 GTPIQNDLLEYFSLVHFVNSGILGTAQEFKKRFEIPILKGRDADASDKDRAAGEQKLQEL 287
Query: 970 KKLVAPHMLRRLKKDAMQNIPPKTERMVPVELSSIQAEYYRAMLTKNYQILRNIGKGVAQ 1029
+V ++RR + +P K E++V L+ +Q E Y+ L K + + ++ G
Sbjct: 288 ISIVNRCLIRRTSDILSKYLPVKIEQVVCCNLTPLQKELYKLFL-KQAKPVESLQTGKIS 346
Query: 1030 QSMLNIVMQLRKVCNHPYLI-----PGTEPDSGSVE-FLHEMRIKA-----SAKLTLLHS 1078
S L+ + L+K+CNHP LI G E G+++ F KA S K+ +L
Sbjct: 347 VSSLSSITSLKKLCNHPALIYEKCLTGEEGFDGALDLFPQNYSTKAVEPQLSGKMLVLDY 406
Query: 1079 MLKVL-YKEGHRVLIFSQMTKLLDILEDYL-NIEFGPKTYERVDGSVSVGDRQAAITRFN 1136
+L + +V++ S T+ LD+ E N + Y R+DG++S+ R + RFN
Sbjct: 407 ILAMTRTTTSDKVVLVSNYTQTLDLFEKLCRNRRY---LYVRLDGTMSIKKRAKIVERFN 463
Query: 1137 QDKS-RFVFLLSTRSCGLGINLATADTVIIYDSDFNPHADIQAMNRAHRIGQSKRLLVYR 1195
S F+F+LS+++ G G+NL A+ ++++D D+NP D QAM R R GQ K +YR
Sbjct: 464 NPSSPEFIFMLSSKAGGCGLNLIGANRLVMFDPDWNPANDEQAMARVWRDGQKKTCYIYR 523
Query: 1196 LVVRASVEERILQLAKKKLMLDQLFVNKSGSQKEVEDILRWG-TEELFN 1243
L+ ++EE+ILQ K L V++ +++VE G ELF+
Sbjct: 524 LLSTGTIEEKILQRQAHKKALSSCVVDE---EQDVERHFSLGELRELFS 569
>pdb|1Z5Z|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE C-Terminal Domain
pdb|1Z5Z|B Chain B, Sulfolobus Solfataricus Swi2SNF2 ATPASE C-Terminal Domain
Length = 271
Score = 97.1 bits (240), Expect = 6e-20, Method: Compositional matrix adjust.
Identities = 68/231 (29%), Positives = 127/231 (54%), Gaps = 22/231 (9%)
Query: 988 NIPPKTERMVPVELSSIQAEYYRAMLTKNYQILRNIGKGVAQQSM-LNIVMQLRKVCNHP 1046
++P K E V L+ QA Y+A + + + ++ G+ ++ M L+ +++L+++ +HP
Sbjct: 24 DLPDKIETNVYCNLTPEQAAMYKAEVENLFNNIDSV-TGIKRKGMILSTLLKLKQIVDHP 82
Query: 1047 YLIPGTEPDSGSVEFLHEMRIKASAKLTLLHSMLKVLYKEGHRVLIFSQ---MTKLL-DI 1102
L+ G E ++ S K+ +++ EG ++ IF+Q M K++ +I
Sbjct: 83 ALLKGGEQS-----------VRRSGKMIRTMEIIEEALDEGDKIAIFTQFVDMGKIIRNI 131
Query: 1103 LEDYLNIEFGPKTYERVDGSVSVGDRQAAITRFNQDKSRFVFLLSTRSCGLGINLATADT 1162
+E LN E P Y G +S +R I++F + S +LS ++ G GINL +A+
Sbjct: 132 IEKELNTEV-PFLY----GELSKKERDDIISKFQNNPSVKFIVLSVKAGGFGINLTSANR 186
Query: 1163 VIIYDSDFNPHADIQAMNRAHRIGQSKRLLVYRLVVRASVEERILQLAKKK 1213
VI +D +NP + QA +R +RIGQ++ ++V++L+ ++EE+I QL K
Sbjct: 187 VIHFDRWWNPAVEDQATDRVYRIGQTRNVIVHKLISVGTLEEKIDQLLAFK 237
>pdb|1MM2|A Chain A, Solution Structure Of The 2nd Phd Domain From Mi2b
pdb|2L75|A Chain A, Solution Structure Of Chd4-Phd2 In Complex With H3k9me3
Length = 61
Score = 82.8 bits (203), Expect = 1e-15, Method: Composition-based stats.
Identities = 29/51 (56%), Positives = 38/51 (74%)
Query: 70 GNDGYYYECVICDLGGNLLCCDSCPRTYHLQCLDPPLKRIPNGKWQCPKCT 120
G+D + C +C GG LLCCD+CP +YH+ CL+PPL IPNG+W CP+CT
Sbjct: 4 GSDHHMEFCRVCKDGGELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCT 54
>pdb|1MM3|A Chain A, Solution Structure Of The 2nd Phd Domain From Mi2b With C-
Terminal Loop Replaced By Corresponding Loop From Wstf
Length = 61
Score = 78.6 bits (192), Expect = 2e-14, Method: Composition-based stats.
Identities = 27/51 (52%), Positives = 37/51 (72%)
Query: 70 GNDGYYYECVICDLGGNLLCCDSCPRTYHLQCLDPPLKRIPNGKWQCPKCT 120
G+D + C +C GG LLCCD+CP +YH+ CL P L +P+G+WQCP+CT
Sbjct: 4 GSDHHMEFCRVCKDGGELLCCDTCPSSYHIHCLRPALYEVPDGEWQCPRCT 54
>pdb|2KFT|A Chain A, Nmr Solution Structure Of The First Phd Finger Domain Of
Human Autoimmune Regulator (Aire) In Complex With
Histone H3(1-20cys) Peptide
Length = 56
Score = 75.5 bits (184), Expect = 2e-13, Method: Composition-based stats.
Identities = 27/49 (55%), Positives = 33/49 (67%)
Query: 77 ECVICDLGGNLLCCDSCPRTYHLQCLDPPLKRIPNGKWQCPKCTQKNDQ 125
EC +C GG L+CCD CPR +HL CL PPL+ IP+G W+C C Q Q
Sbjct: 7 ECAVCRDGGELICCDGCPRAFHLACLSPPLREIPSGTWRCSSCLQATVQ 55
>pdb|1XWH|A Chain A, Nmr Structure Of The First Phd Finger Of Autoimmune
Regulator Protein (Aire1): Insights Into Apeced
pdb|2KE1|A Chain A, Molecular Basis Of Non-Modified Histone H3 Tail
Recognition By The First Phd Finger Of Autoimmune
Regulator
Length = 66
Score = 75.1 bits (183), Expect = 3e-13, Method: Composition-based stats.
Identities = 27/49 (55%), Positives = 33/49 (67%)
Query: 77 ECVICDLGGNLLCCDSCPRTYHLQCLDPPLKRIPNGKWQCPKCTQKNDQ 125
EC +C GG L+CCD CPR +HL CL PPL+ IP+G W+C C Q Q
Sbjct: 10 ECAVCRDGGELICCDGCPRAFHLACLSPPLREIPSGTWRCSSCLQATVQ 58
>pdb|2YQL|A Chain A, Solution Structure Of The Phd Domain In Phd Finger Protein
21a
Length = 56
Score = 72.8 bits (177), Expect = 1e-12, Method: Composition-based stats.
Identities = 28/53 (52%), Positives = 34/53 (64%)
Query: 70 GNDGYYYECVICDLGGNLLCCDSCPRTYHLQCLDPPLKRIPNGKWQCPKCTQK 122
G+ G+ C +C G LL CD+C R YHL CLDPPLK IP G W CP+C +
Sbjct: 4 GSSGHEDFCSVCRKSGQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQDQ 56
>pdb|2PUY|A Chain A, Crystal Structure Of The Bhc80 Phd Finger
pdb|2PUY|B Chain B, Crystal Structure Of The Bhc80 Phd Finger
Length = 60
Score = 70.9 bits (172), Expect = 5e-12, Method: Composition-based stats.
Identities = 26/45 (57%), Positives = 30/45 (66%)
Query: 78 CVICDLGGNLLCCDSCPRTYHLQCLDPPLKRIPNGKWQCPKCTQK 122
C +C G LL CD+C R YHL CLDPPLK IP G W CP+C +
Sbjct: 8 CSVCRKSGQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQDQ 52
>pdb|2L5U|A Chain A, Structure Of The First Phd Finger (Phd1) From Chd4 (Mi2b)
Length = 61
Score = 69.3 bits (168), Expect = 1e-11, Method: Composition-based stats.
Identities = 23/48 (47%), Positives = 33/48 (68%)
Query: 78 CVICDLGGNLLCCDSCPRTYHLQCLDPPLKRIPNGKWQCPKCTQKNDQ 125
C +C GG ++ CD+CPR YH+ CLDP +++ P GKW CP C ++ Q
Sbjct: 14 CEVCQQGGEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEKEGIQ 61
>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 = 57.8 bits (138), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 39/108 (36%), Positives = 53/108 (49%), Gaps = 25/108 (23%)
Query: 613 EFLVKWVGKSNIHNSWIPESQLK---VLAKRKLENYKAK-----------------YGTT 652
++L+KW G S+IHN+W E LK V +KL+NYK K Y
Sbjct: 59 QYLIKWKGWSHIHNTWETEETLKQQNVRGXKKLDNYKKKDQETKRWLKNASPEDVEYYNC 118
Query: 653 VINICDERWKQPQ---RVI--SLRSSKDGTREAFVKWTGLPYDECTWE 695
+ D+ KQ Q R+I S + S G + + KW GLPY EC+WE
Sbjct: 119 QQELTDDLHKQYQIVGRIIAHSNQKSAAGYPDYYCKWQGLPYSECSWE 166
>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 = 57.4 bits (137), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 39/108 (36%), Positives = 53/108 (49%), Gaps = 25/108 (23%)
Query: 613 EFLVKWVGKSNIHNSWIPESQLK---VLAKRKLENYKAK-----------------YGTT 652
++L+KW G S+IHN+W E LK V +KL+NYK K Y
Sbjct: 59 QYLIKWKGWSHIHNTWETEETLKQQNVRGMKKLDNYKKKDQETKRWLKNASPEDVEYYNC 118
Query: 653 VINICDERWKQPQ---RVI--SLRSSKDGTREAFVKWTGLPYDECTWE 695
+ D+ KQ Q R+I S + S G + + KW GLPY EC+WE
Sbjct: 119 QQELTDDLHKQYQIVGRIIAHSNQKSAAGYPDYYCKWQGLPYSECSWE 166
>pdb|2E6R|A Chain A, Solution Structure Of The Phd Domain In Smcy Protein
Length = 92
Score = 57.4 bits (137), Expect = 6e-08, Method: Composition-based stats.
Identities = 24/47 (51%), Positives = 27/47 (57%), Gaps = 3/47 (6%)
Query: 76 YECVICDLGG---NLLCCDSCPRTYHLQCLDPPLKRIPNGKWQCPKC 119
Y C +C G LL CD C YH+ CL PPL IP G W+CPKC
Sbjct: 17 YICQVCSRGDEDDKLLFCDGCDDNYHIFCLLPPLPEIPRGIWRCPKC 63
>pdb|3U5M|A Chain A, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|B Chain B, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|C Chain C, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|D Chain D, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|E Chain E, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|F Chain F, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|G Chain G, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|H Chain H, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|I Chain I, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|J Chain J, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|K Chain K, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|L Chain L, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5N|A Chain A, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-20) K9me3k14ac Histone Peptide
pdb|3U5N|B Chain B, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-20) K9me3k14ac Histone Peptide
pdb|3U5O|A Chain A, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|B Chain B, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|C Chain C, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|D Chain D, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|E Chain E, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|F Chain F, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|G Chain G, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|H Chain H, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5P|A Chain A, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|B Chain B, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|C Chain C, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|D Chain D, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|E Chain E, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|F Chain F, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|G Chain G, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|H Chain H, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
Length = 207
Score = 55.5 bits (132), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 20/42 (47%), Positives = 26/42 (61%)
Query: 78 CVICDLGGNLLCCDSCPRTYHLQCLDPPLKRIPNGKWQCPKC 119
C +C GG+LLCC+ CP+ +HL C P L P+G W C C
Sbjct: 10 CAVCQNGGDLLCCEKCPKVFHLTCHVPTLLSFPSGDWICTFC 51
>pdb|3O33|A Chain A, Crystal Structure Of Trim24 Phd-Bromo In The Free State
pdb|3O33|B Chain B, Crystal Structure Of Trim24 Phd-Bromo In The Free State
pdb|3O33|C Chain C, Crystal Structure Of Trim24 Phd-Bromo In The Free State
pdb|3O33|D Chain D, Crystal Structure Of Trim24 Phd-Bromo In The Free State
pdb|3O34|A Chain A, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(13-32)k23ac Peptide
pdb|3O35|A Chain A, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(23-31)k27ac Peptide
pdb|3O35|B Chain B, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(23-31)k27ac Peptide
pdb|3O36|A Chain A, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H4(14-19)k16ac Peptide
pdb|3O36|B Chain B, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H4(14-19)k16ac Peptide
pdb|3O37|A Chain A, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(1-10)k4 Peptide
pdb|3O37|B Chain B, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(1-10)k4 Peptide
pdb|3O37|C Chain C, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(1-10)k4 Peptide
pdb|3O37|D Chain D, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(1-10)k4 Peptide
Length = 184
Score = 54.7 bits (130), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 20/42 (47%), Positives = 26/42 (61%)
Query: 78 CVICDLGGNLLCCDSCPRTYHLQCLDPPLKRIPNGKWQCPKC 119
C +C GG LLCC+ CP+ +HL C P L P+G+W C C
Sbjct: 7 CAVCQNGGELLCCEKCPKVFHLSCHVPTLTNFPSGEWICTFC 48
>pdb|3V43|A Chain A, Crystal Structure Of Moz
Length = 112
Score = 53.9 bits (128), Expect = 6e-07, Method: Composition-based stats.
Identities = 19/34 (55%), Positives = 24/34 (70%)
Query: 86 NLLCCDSCPRTYHLQCLDPPLKRIPNGKWQCPKC 119
N+L CDSC R +H++C DPPL R+P G W C C
Sbjct: 76 NMLFCDSCDRGFHMECCDPPLTRMPKGMWICQIC 109
>pdb|2LN0|A Chain A, Structure Of Moz
Length = 110
Score = 53.9 bits (128), Expect = 7e-07, Method: Composition-based stats.
Identities = 19/34 (55%), Positives = 24/34 (70%)
Query: 86 NLLCCDSCPRTYHLQCLDPPLKRIPNGKWQCPKC 119
N+L CDSC R +H++C DPPL R+P G W C C
Sbjct: 74 NMLFCDSCDRGFHMECCDPPLTRMPKGMWICQIC 107
>pdb|1F62|A Chain A, Wstf-Phd
Length = 51
Score = 52.8 bits (125), Expect = 2e-06, Method: Composition-based stats.
Identities = 20/45 (44%), Positives = 27/45 (60%), Gaps = 3/45 (6%)
Query: 78 CVICDLGG---NLLCCDSCPRTYHLQCLDPPLKRIPNGKWQCPKC 119
C +C G L+ CD C + +HL CL P L +P+G+WQCP C
Sbjct: 3 CKVCRKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPAC 47
>pdb|2H1E|A Chain A, Tandem Chromodomains Of Budding Yeast Chd1
pdb|2H1E|B Chain B, Tandem Chromodomains Of Budding Yeast Chd1
Length = 177
Score = 51.2 bits (121), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 39/113 (34%), Positives = 57/113 (50%), Gaps = 28/113 (24%)
Query: 611 SYEFLVKWVGKSNIHNSW-IPESQLKVLAKRKLENYKAKY-------------GTTVINI 656
+YEFL+KW +S++HN+W ES +V ++L+NY ++ I I
Sbjct: 46 NYEFLIKWTDESHLHNTWETYESIGQVRGLKRLDNYCKQFIIEDQQVRLDPYVTAEDIEI 105
Query: 657 CD----------ERWKQPQRVI-SLRSS-KDGTR--EAFVKWTGLPYDECTWE 695
D E + P+R+I S R+S +DGT + VKW L YDE TWE
Sbjct: 106 MDMERERRLDEFEEFHVPERIIDSQRASLEDGTSQLQYLVKWRRLNYDEATWE 158
>pdb|4GND|A Chain A, Crystal Structure Of Nsd3 Tandem Phd5-C5hch Domains
pdb|4GND|C Chain C, Crystal Structure Of Nsd3 Tandem Phd5-C5hch Domains
pdb|4GNE|A Chain A, Crystal Structure Of Nsd3 Tandem Phd5-C5hch Domains
Complexed With H3 Peptide 1-7
pdb|4GNF|A Chain A, Crystal Structure Of Nsd3 Tandem Phd5-C5hch Domains
Complexed With H3 Peptide 1-15
pdb|4GNG|A Chain A, Crystal Structure Of Nsd3 Tandem Phd5-C5hch Domains
Complexed With H3k9me3 Peptide
pdb|4GNG|D Chain D, Crystal Structure Of Nsd3 Tandem Phd5-C5hch Domains
Complexed With H3k9me3 Peptide
Length = 107
Score = 47.4 bits (111), Expect = 6e-05, Method: Composition-based stats.
Identities = 26/60 (43%), Positives = 33/60 (55%), Gaps = 6/60 (10%)
Query: 60 NADRSSTKKKGNDGYYYECVICDLGGNLLCCDS--CPRTYHLQCLDPPLKRIPNGKWQCP 117
NA + T+ K Y C C GG L+ CD CP+ YHL CL+ L + P GKW+CP
Sbjct: 2 NARKIKTEPKQMHEDY--CFQCGDGGELVMCDKKDCPKAYHLLCLN--LTQPPYGKWECP 57
>pdb|3ZVZ|B Chain B, Phd Finger Of Human Uhrf1
Length = 57
Score = 46.6 bits (109), Expect = 1e-04, Method: Composition-based stats.
Identities = 18/38 (47%), Positives = 25/38 (65%), Gaps = 3/38 (7%)
Query: 88 LCCDSCPRTYHLQCLDPPLKRIPN-GKWQCPKCTQKND 124
L CD C +H+ CLDPPL +P+ +W CP+C +ND
Sbjct: 21 LMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC--RND 56
>pdb|3SHB|A Chain A, Crystal Structure Of Phd Domain Of Uhrf1
Length = 77
Score = 45.8 bits (107), Expect = 2e-04, Method: Composition-based stats.
Identities = 18/38 (47%), Positives = 25/38 (65%), Gaps = 3/38 (7%)
Query: 88 LCCDSCPRTYHLQCLDPPLKRIPN-GKWQCPKCTQKND 124
L CD C +H+ CLDPPL +P+ +W CP+C +ND
Sbjct: 42 LMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC--RND 77
>pdb|3T6R|A Chain A, Structure Of Uhrf1 In Complex With Unmodified H3
N-Terminal Tail
pdb|3T6R|B Chain B, Structure Of Uhrf1 In Complex With Unmodified H3
N-Terminal Tail
Length = 72
Score = 45.8 bits (107), Expect = 2e-04, Method: Composition-based stats.
Identities = 16/33 (48%), Positives = 22/33 (66%), Gaps = 1/33 (3%)
Query: 88 LCCDSCPRTYHLQCLDPPLKRIPN-GKWQCPKC 119
L CD C +H+ CLDPPL +P+ +W CP+C
Sbjct: 39 LMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 71
>pdb|3SOU|A Chain A, Structure Of Uhrf1 Phd Finger In Complex With Histone H3
1-9 Peptide
pdb|3SOU|B Chain B, Structure Of Uhrf1 Phd Finger In Complex With Histone H3
1-9 Peptide
pdb|3SOW|A Chain A, Structure Of Uhrf1 Phd Finger In Complex With Histone
H3k4me3 1-9 Peptide
pdb|3SOW|B Chain B, Structure Of Uhrf1 Phd Finger In Complex With Histone
H3k4me3 1-9 Peptide
pdb|3SOX|A Chain A, Structure Of Uhrf1 Phd Finger In The Free Form
pdb|3SOX|B Chain B, Structure Of Uhrf1 Phd Finger In The Free Form
pdb|3ASL|A Chain A, Structure Of Uhrf1 In Complex With Histone Tail
Length = 70
Score = 45.4 bits (106), Expect = 2e-04, Method: Composition-based stats.
Identities = 18/38 (47%), Positives = 25/38 (65%), Gaps = 3/38 (7%)
Query: 88 LCCDSCPRTYHLQCLDPPLKRIPN-GKWQCPKCTQKND 124
L CD C +H+ CLDPPL +P+ +W CP+C +ND
Sbjct: 34 LMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC--RND 69
>pdb|2LGG|A Chain A, Structure Of Phd Domain Of Uhrf1 In Complex With H3
Peptide
pdb|2LGK|A Chain A, Nmr Structure Of Uhrf1 Phd Domains In A Complex With
Histone H3 Peptide
pdb|2LGL|A Chain A, Nmr Structure Of The Uhrf1 Phd Domain
Length = 69
Score = 45.4 bits (106), Expect = 2e-04, Method: Composition-based stats.
Identities = 18/38 (47%), Positives = 25/38 (65%), Gaps = 3/38 (7%)
Query: 88 LCCDSCPRTYHLQCLDPPLKRIPN-GKWQCPKCTQKND 124
L CD C +H+ CLDPPL +P+ +W CP+C +ND
Sbjct: 34 LMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC--RND 69
>pdb|2YSM|A Chain A, Solution Structure Of The First And Second Phd Domain From
MyeloidLYMPHOID OR MIXED-Lineage Leukemia Protein 3
Homolog
Length = 111
Score = 45.1 bits (105), Expect = 3e-04, Method: Composition-based stats.
Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 6/49 (12%)
Query: 77 ECVICD------LGGNLLCCDSCPRTYHLQCLDPPLKRIPNGKWQCPKC 119
EC +C +L CD+C + YH CL P +K +P W+C C
Sbjct: 53 ECKVCQNCKQSGEDSKMLVCDTCDKGYHTFCLQPVMKSVPTNGWKCKNC 101
Score = 44.3 bits (103), Expect = 4e-04, Method: Composition-based stats.
Identities = 18/45 (40%), Positives = 25/45 (55%), Gaps = 3/45 (6%)
Query: 78 CVICDLGGNLL---CCDSCPRTYHLQCLDPPLKRIPNGKWQCPKC 119
C +CD G+LL C +C + YH CLD + + WQCP+C
Sbjct: 10 CAVCDSPGDLLDQFFCTTCGQHYHGMCLDIAVTPLKRAGWQCPEC 54
>pdb|3DMQ|A Chain A, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT
Recycles Rna Polymerase During Transcription
pdb|3DMQ|B Chain B, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT
Recycles Rna Polymerase During Transcription
Length = 968
Score = 43.9 bits (102), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 56/212 (26%), Positives = 83/212 (39%), Gaps = 29/212 (13%)
Query: 755 ALFPHQLEALNWLRKCWHKSKNVILADEMGLGKTVSACAFISSLYCEFKAKLPCLVLVPL 814
+L PHQL + + + + V+LADE+GLGKT+ A + A+ L++VP
Sbjct: 153 SLIPHQLNIAHDVGR--RHAPRVLLADEVGLGKTIEAGXILHQQLLSGAAE-RVLIIVPE 209
Query: 815 STMPNWLAEFALWAPNLNVVEYHGCAKARAIIRQYEWHASDPDNLNKKTSSYKFNVLLTT 874
+ WL E L NL + A A Q++ A +P + + L
Sbjct: 210 TLQHQWLVE-XLRRFNLRFALFDDERYAEA---QHD--AYNPFDTEQ----------LVI 253
Query: 875 YEMILADSS-----HLRGVPWEVLVVDEGHRX--XXXXXXXXXXXXXXXXQH---RVLLT 924
+ A S HL W++LVVDE H +H +LLT
Sbjct: 254 CSLDFARRSKQRLEHLCEAEWDLLVVDEAHHLVWSEDAPSREYQAIEQLAEHVPGVLLLT 313
Query: 925 GTPLQNNIGEMYNLLNFLQPASFPSLSSFEEK 956
TP Q + L L P F + F E+
Sbjct: 314 ATPEQLGXESHFARLRLLDPNRFHDFAQFVEE 345
Score = 30.0 bits (66), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 32/71 (45%)
Query: 1124 SVGDRQAAITRFNQDKSRFVFLLSTRSCGLGINLATADTVIIYDSDFNPHADIQAMNRAH 1183
S+ +R A F ++ + LL + G N A + +D FNP Q + R
Sbjct: 539 SIIERDRAAAWFAEEDTGAQVLLCSEIGSEGRNFQFASHXVXFDLPFNPDLLEQRIGRLD 598
Query: 1184 RIGQSKRLLVY 1194
RIGQ+ + ++
Sbjct: 599 RIGQAHDIQIH 609
>pdb|2KWJ|A Chain A, Solution Structures Of The Double Phd Fingers Of Human
Transcriptional Protein Dpf3 Bound To A Histone Peptide
Containing Acetylation At Lysine 14
pdb|2KWK|A Chain A, Solution Structures Of The Double Phd Fingers Of Human
Transcriptional Protein Dpf3b Bound To A H3 Peptide Wild
Type
pdb|2KWN|A Chain A, Solution Structure Of The Double Phd (Plant Homeodomain)
Fingers Of Human Transcriptional Protein Dpf3b Bound To
A Histone H4 Peptide Containing Acetylation At Lysine 16
pdb|2KWO|A Chain A, Solution Structure Of The Double Phd (Plant Homeodomain)
Fingers Of Human Transcriptional Protein Dpf3b Bound To
A Histone H4 Peptide Containing N-Terminal Acetylation
At Serine 1
Length = 114
Score = 43.9 bits (102), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 26/47 (55%), Gaps = 3/47 (6%)
Query: 78 CVICDLGGN---LLCCDSCPRTYHLQCLDPPLKRIPNGKWQCPKCTQ 121
C++C N LL CD C R YH+ CL+PP+ P G W C C +
Sbjct: 61 CILCGTSENDDQLLFCDDCDRGYHMYCLNPPVAEPPEGSWSCHLCWE 107
>pdb|3ASK|A Chain A, Structure Of Uhrf1 In Complex With Histone Tail
pdb|3ASK|B Chain B, Structure Of Uhrf1 In Complex With Histone Tail
pdb|3ASK|C Chain C, Structure Of Uhrf1 In Complex With Histone Tail
pdb|3ASK|D Chain D, Structure Of Uhrf1 In Complex With Histone Tail
Length = 226
Score = 43.5 bits (101), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/38 (47%), Positives = 25/38 (65%), Gaps = 3/38 (7%)
Query: 88 LCCDSCPRTYHLQCLDPPLKRIPN-GKWQCPKCTQKND 124
L CD C +H+ CLDPPL +P+ +W CP+C +ND
Sbjct: 190 LMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC--RND 225
>pdb|4GY5|A Chain A, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
pdb|4GY5|B Chain B, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
pdb|4GY5|C Chain C, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
pdb|4GY5|D Chain D, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
Length = 241
Score = 43.1 bits (100), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/38 (47%), Positives = 25/38 (65%), Gaps = 3/38 (7%)
Query: 88 LCCDSCPRTYHLQCLDPPLKRIPN-GKWQCPKCTQKND 124
L CD C +H+ CLDPPL +P+ +W CP+C +ND
Sbjct: 206 LMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC--RND 241
>pdb|1FP0|A Chain A, Solution Structure Of The Phd Domain From The Kap-1
Corepressor
Length = 88
Score = 42.7 bits (99), Expect = 0.001, Method: Composition-based stats.
Identities = 15/42 (35%), Positives = 23/42 (54%)
Query: 78 CVICDLGGNLLCCDSCPRTYHLQCLDPPLKRIPNGKWQCPKC 119
C +C G+L+ C+ C +HL C P L+ +P +W C C
Sbjct: 28 CRVCQKPGDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLC 69
>pdb|2B2T|C Chain C, Tandem Chromodomains Of Human Chd1 Complexed With Histone
H3 Tail Containing Trimethyllysine 4 And
Phosphothreonine 3
Length = 115
Score = 40.0 bits (92), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 19/39 (48%), Positives = 26/39 (66%), Gaps = 3/39 (7%)
Query: 613 EFLVKWVGKSNIHNSWIPESQLK---VLAKRKLENYKAK 648
++L+KW G S+IHN+W E LK V +KL+NYK K
Sbjct: 59 QYLIKWKGWSHIHNTWETEETLKQQNVRGXKKLDNYKKK 97
>pdb|2RO1|A Chain A, Nmr Solution Structures Of Human Kap1 Phd
Finger-Bromodomain
Length = 189
Score = 39.7 bits (91), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 23/42 (54%)
Query: 78 CVICDLGGNLLCCDSCPRTYHLQCLDPPLKRIPNGKWQCPKC 119
C +C G+L+ C+ C +HL C P L+ +P +W C C
Sbjct: 5 CRVCQKPGDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLC 46
>pdb|3QL9|A Chain A, Monoclinic Complex Structure Of Atrx Add Bound To Histone
H3k9me3 Peptide
pdb|3QLA|A Chain A, Hexagonal Complex Structure Of Atrx Add Bound To H3k9me3
Peptide
pdb|3QLA|D Chain D, Hexagonal Complex Structure Of Atrx Add Bound To H3k9me3
Peptide
pdb|3QLC|A Chain A, Complex Structure Of Atrx Add Domain Bound To Unmodified
H3 1-15 Peptide
pdb|3QLC|B Chain B, Complex Structure Of Atrx Add Domain Bound To Unmodified
H3 1-15 Peptide
pdb|3QLN|A Chain A, Crystal Structure Of Atrx Add Domain In Free State
pdb|3QLN|B Chain B, Crystal Structure Of Atrx Add Domain In Free State
Length = 129
Score = 38.9 bits (89), Expect = 0.023, Method: Composition-based stats.
Identities = 27/94 (28%), Positives = 40/94 (42%), Gaps = 8/94 (8%)
Query: 34 GKEENLVTSESPRNTPSAKRRL-KNEINADRSSTKKKGNDGYYYECVICDLGGNLLCCDS 92
G++ N +S PS + + KN S + +DG +C C GGNL+CCD
Sbjct: 15 GQQVNHFQKDSIYRHPSLQVLICKNCFKYYMSDDISRDSDGMDEQCRWCAEGGNLICCDF 74
Query: 93 CPRTYHLQCLDPPLKRI-------PNGKWQCPKC 119
C + +C+ L R N +W C C
Sbjct: 75 CHNAFCKKCILRNLGRRELSTIMDENNQWYCYIC 108
>pdb|3C6W|A Chain A, Crystal Structure Of The Ing5 Phd Finger In Complex With
H3k4me3 Peptide
pdb|3C6W|C Chain C, Crystal Structure Of The Ing5 Phd Finger In Complex With
H3k4me3 Peptide
Length = 59
Score = 38.5 bits (88), Expect = 0.025, Method: Composition-based stats.
Identities = 17/41 (41%), Positives = 24/41 (58%), Gaps = 5/41 (12%)
Query: 85 GNLLCCDS--CP-RTYHLQCLDPPLKRIPNGKWQCPKCTQK 122
G ++ CD+ CP +H C+D K P GKW CP+C Q+
Sbjct: 20 GEMIGCDNPDCPIEWFHFACVDLTTK--PKGKWFCPRCVQE 58
>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 = 38.5 bits (88), Expect = 0.029, Method: Composition-based stats.
Identities = 19/39 (48%), Positives = 26/39 (66%), Gaps = 3/39 (7%)
Query: 613 EFLVKWVGKSNIHNSWIPESQLK---VLAKRKLENYKAK 648
++L+KW G S+IHN+W E LK V +KL+NYK K
Sbjct: 59 QYLIKWKGWSHIHNTWETEETLKQQNVRGMKKLDNYKKK 97
>pdb|2JM1|A Chain A, Structures And Chemical Shift Assignments For The Add
Domain Of The Atrx Protein
Length = 141
Score = 38.5 bits (88), Expect = 0.029, Method: Composition-based stats.
Identities = 27/94 (28%), Positives = 40/94 (42%), Gaps = 8/94 (8%)
Query: 34 GKEENLVTSESPRNTPSAKRRL-KNEINADRSSTKKKGNDGYYYECVICDLGGNLLCCDS 92
G++ N +S PS + + KN S + +DG +C C GGNL+CCD
Sbjct: 20 GQQVNHFQKDSIYRHPSLQVLICKNCFKYYMSDDISRDSDGMDEQCRWCAEGGNLICCDF 79
Query: 93 CPRTYHLQCLDPPLKRI-------PNGKWQCPKC 119
C + +C+ L R N +W C C
Sbjct: 80 CHNAFCKKCILRNLGRKELSTIMDENNQWYCYIC 113
>pdb|2LD1|A Chain A, Structures And Chemical Shift Assignments For The Add
Domain Of The Atrx Protein
pdb|2LBM|A Chain A, Solution Structure Of The Add Domain Of Atrx Complexed
With Histone Tail H3 1-15 K9me3
Length = 142
Score = 38.5 bits (88), Expect = 0.030, Method: Composition-based stats.
Identities = 27/94 (28%), Positives = 40/94 (42%), Gaps = 8/94 (8%)
Query: 34 GKEENLVTSESPRNTPSAKRRL-KNEINADRSSTKKKGNDGYYYECVICDLGGNLLCCDS 92
G++ N +S PS + + KN S + +DG +C C GGNL+CCD
Sbjct: 21 GQQVNHFQKDSIYRHPSLQVLICKNCFKYYMSDDISRDSDGMDEQCRWCAEGGNLICCDF 80
Query: 93 CPRTYHLQCLDPPLKRI-------PNGKWQCPKC 119
C + +C+ L R N +W C C
Sbjct: 81 CHNAFCKKCILRNLGRKELSTIMDENNQWYCYIC 114
>pdb|3ZVY|A Chain A, Phd Finger Of Human Uhrf1 In Complex With Unmodified
Histone H3 N-Terminal Tail
pdb|3ZVY|B Chain B, Phd Finger Of Human Uhrf1 In Complex With Unmodified
Histone H3 N-Terminal Tail
Length = 72
Score = 38.1 bits (87), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 17/36 (47%), Positives = 24/36 (66%), Gaps = 3/36 (8%)
Query: 90 CDSCPRTYHLQCLDPPLKRIPN-GKWQCPKCTQKND 124
CD C +H+ CLDPPL +P+ +W CP+C +ND
Sbjct: 38 CDECDMAFHIYCLDPPLSSVPSEDEWYCPEC--RND 71
>pdb|2E6S|A Chain A, Solution Structure Of The Phd Domain In Ring Finger
Protein 107
Length = 77
Score = 37.4 bits (85), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 15/31 (48%), Positives = 20/31 (64%), Gaps = 1/31 (3%)
Query: 90 CDSCPRTYHLQCLDPPLKRIPNGK-WQCPKC 119
CD C YH+ CL+PPL ++P + W CP C
Sbjct: 44 CDECNVAYHIYCLNPPLDKVPEEEYWYCPSC 74
>pdb|2DY7|A Chain A, Solution Structure Of The First Chromodomain Of Yeast Chd1
Length = 81
Score = 37.0 bits (84), Expect = 0.077, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 28/40 (70%), Gaps = 1/40 (2%)
Query: 611 SYEFLVKWVGKSNIHNSW-IPESQLKVLAKRKLENYKAKY 649
+YEFL+KW +S++HN+W ES +V ++L+NY ++
Sbjct: 39 NYEFLIKWTDESHLHNTWETYESIGQVRGLKRLDNYCKQF 78
>pdb|2QIC|A Chain A, Crystal Structure Of The Ing1 Phd Finger In Complex With A
Histone H3k4me3 Peptide
Length = 62
Score = 37.0 bits (84), Expect = 0.086, Method: Composition-based stats.
Identities = 17/43 (39%), Positives = 24/43 (55%), Gaps = 5/43 (11%)
Query: 85 GNLLCCDS--CP-RTYHLQCLDPPLKRIPNGKWQCPKCTQKND 124
G ++ CD+ CP +H C+ L P GKW CPKC +N+
Sbjct: 22 GEMIGCDNDECPIEWFHFSCVG--LNHKPKGKWYCPKCRGENE 62
>pdb|3FHT|A Chain A, Crystal Structure Of Human Dbp5 In Complex With Amppnp And
Rna
pdb|3FHT|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Amppnp And
Rna
Length = 412
Score = 36.6 bits (83), Expect = 0.093, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 34/73 (46%), Gaps = 2/73 (2%)
Query: 1119 VDGSVSVGDRQAAITRFNQDKSRFVFLLSTRSCGLGINLATADTVIIYDSDFNPHADIQA 1178
+ G + V R A I RF + K + L++T C GI++ VI +D + +
Sbjct: 296 LSGEMMVEQRAAVIERFREGKEKV--LVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDN 353
Query: 1179 MNRAHRIGQSKRL 1191
HRIG++ R
Sbjct: 354 ETYLHRIGRTGRF 366
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 36.6 bits (83), Expect = 0.099, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 34/73 (46%), Gaps = 2/73 (2%)
Query: 1119 VDGSVSVGDRQAAITRFNQDKSRFVFLLSTRSCGLGINLATADTVIIYDSDFNPHADIQA 1178
+ G + V R A I RF + K + L++T C GI++ VI +D + +
Sbjct: 312 LSGEMMVEQRAAVIERFREGKEKV--LVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDN 369
Query: 1179 MNRAHRIGQSKRL 1191
HRIG++ R
Sbjct: 370 ETYLHRIGRTGRF 382
>pdb|3FMP|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex With
The Dead- Box Helicase Ddx19
pdb|3FMP|D Chain D, Crystal Structure Of The Nucleoporin Nup214 In Complex With
The Dead- Box Helicase Ddx19
Length = 479
Score = 36.6 bits (83), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 34/73 (46%), Gaps = 2/73 (2%)
Query: 1119 VDGSVSVGDRQAAITRFNQDKSRFVFLLSTRSCGLGINLATADTVIIYDSDFNPHADIQA 1178
+ G + V R A I RF + K + L++T C GI++ VI +D + +
Sbjct: 363 LSGEMMVEQRAAVIERFREGKEKV--LVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDN 420
Query: 1179 MNRAHRIGQSKRL 1191
HRIG++ R
Sbjct: 421 ETYLHRIGRTGRF 433
>pdb|3EWS|A Chain A, Human Dead-Box Rna-Helicase Ddx19 In Complex With Adp
pdb|3EWS|B Chain B, Human Dead-Box Rna-Helicase Ddx19 In Complex With Adp
Length = 445
Score = 36.6 bits (83), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 34/73 (46%), Gaps = 2/73 (2%)
Query: 1119 VDGSVSVGDRQAAITRFNQDKSRFVFLLSTRSCGLGINLATADTVIIYDSDFNPHADIQA 1178
+ G + V R A I RF + K + L++T C GI++ VI +D + +
Sbjct: 333 LSGEMMVEQRAAVIERFREGKEKV--LVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDN 390
Query: 1179 MNRAHRIGQSKRL 1191
HRIG++ R
Sbjct: 391 ETYLHRIGRTGRF 403
>pdb|2G6Q|A Chain A, Crystal Structure Of Ing2 Phd Domain In Complex With
H3k4me3 Peptide
Length = 62
Score = 36.6 bits (83), Expect = 0.11, Method: Composition-based stats.
Identities = 17/43 (39%), Positives = 23/43 (53%), Gaps = 5/43 (11%)
Query: 85 GNLLCCDS--CP-RTYHLQCLDPPLKRIPNGKWQCPKCTQKND 124
G ++ CD+ CP +H C+ K P GKW CPKC N+
Sbjct: 22 GEMIGCDNEQCPIEWFHFSCVSLTYK--PKGKWYCPKCRGDNE 62
>pdb|1X4I|A Chain A, Solution Structure Of Phd Domain In Inhibitor Of Growth
Protein 3 (Ing3)
Length = 70
Score = 35.4 bits (80), Expect = 0.20, Method: Composition-based stats.
Identities = 20/55 (36%), Positives = 29/55 (52%), Gaps = 9/55 (16%)
Query: 70 GNDGYYYECVICDLG-GNLLCCDS--CP-RTYHLQCLDPPLKRIPNGKWQCPKCT 120
G+ GY C+ + G ++ CD+ CP +H C+ L P GKW CP+CT
Sbjct: 4 GSSGY---CICNQVSYGEMVGCDNQDCPIEWFHYGCVG--LTEAPKGKWYCPQCT 53
>pdb|1WES|A Chain A, Solution Structure Of Phd Domain In Inhibitor Of Growth
Family, Member 1-Like
Length = 71
Score = 35.0 bits (79), Expect = 0.28, Method: Composition-based stats.
Identities = 16/38 (42%), Positives = 21/38 (55%), Gaps = 5/38 (13%)
Query: 85 GNLLCCDS--CP-RTYHLQCLDPPLKRIPNGKWQCPKC 119
G ++ CD+ CP +H C+ K P GKW CPKC
Sbjct: 27 GEMIGCDNEQCPIEWFHFSCVSLTYK--PKGKWYCPKC 62
>pdb|2EE1|A Chain A, Solution Structures Of The Chromo Domain Of Human
Chromodomain Helicase-Dna-Binding Protein 4
Length = 64
Score = 34.7 bits (78), Expect = 0.39, Method: Composition-based stats.
Identities = 13/38 (34%), Positives = 19/38 (50%)
Query: 661 WKQPQRVISLRSSKDGTREAFVKWTGLPYDECTWEKLD 698
W R+++ K G +KW LPYD+ +WE D
Sbjct: 11 WMMIHRILNHSVDKKGHVHYLIKWRDLPYDQASWESED 48
>pdb|2KU3|A Chain A, Solution Structure Of Brd1 Phd1 Finger
Length = 71
Score = 34.3 bits (77), Expect = 0.51, Method: Composition-based stats.
Identities = 18/49 (36%), Positives = 22/49 (44%), Gaps = 7/49 (14%)
Query: 78 CVICDLGGN-----LLCCDSCPRTYHLQCLDPPLKRIPNGKWQCPKCTQ 121
C IC G + +L CD C H +C P IP G+W C C Q
Sbjct: 19 CSICMDGESQNSNVILFCDMCNLAVHQECYGVPY--IPEGQWLCRHCLQ 65
>pdb|4A15|A Chain A, Crystal Structure Of An Xpd Dna Complex
Length = 620
Score = 33.5 bits (75), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 21/54 (38%), Positives = 29/54 (53%), Gaps = 2/54 (3%)
Query: 759 HQLEALNWLRKCWHKSKNVILADEMGLGKTVSACAFISSLYCEFKAKLPCLVLV 812
+Q+EA+++LR KS V L G GKT+ A S+L + KL L LV
Sbjct: 7 YQVEAIDFLRSSLQKSYGVALESPTGSGKTIMALK--SALQYSSERKLKVLYLV 58
>pdb|2L43|A Chain A, Structural Basis For Histone Code Recognition By
Brpf2-Phd1 Finger
Length = 88
Score = 33.5 bits (75), Expect = 0.95, Method: Composition-based stats.
Identities = 18/49 (36%), Positives = 22/49 (44%), Gaps = 7/49 (14%)
Query: 78 CVICDLGGN-----LLCCDSCPRTYHLQCLDPPLKRIPNGKWQCPKCTQ 121
C IC G + +L CD C H +C P IP G+W C C Q
Sbjct: 28 CSICMDGESQNSNVILFCDMCNLAVHQECYGVPY--IPEGQWLCRHCLQ 74
>pdb|2JMI|A Chain A, Nmr Solution Structure Of Phd Finger Fragment Of Yeast
Yng1 Protein In Free State
pdb|2JMJ|A Chain A, Nmr Solution Structure Of The Phd Domain From The Yeast
Yng1 Protein In Complex With H3(1-9)k4me3 Peptide
Length = 90
Score = 33.5 bits (75), Expect = 0.96, Method: Composition-based stats.
Identities = 22/61 (36%), Positives = 31/61 (50%), Gaps = 11/61 (18%)
Query: 85 GNLLCCD--SCP-RTYHLQCLDPPLKRIPNGKWQCPKCTQKNDQLKPISNLDSISKRARS 141
G ++ CD +CP +H C+ LK+ P GKW C K K I+N S SKR +
Sbjct: 37 GPMVACDNPACPFEWFHYGCVG--LKQAPKGKWYCSK------DCKEIANQRSKSKRQKR 88
Query: 142 K 142
+
Sbjct: 89 R 89
>pdb|1WEU|A Chain A, Solution Structure Of Phd Domain In Ing1-Like Protein
Bac25009
Length = 91
Score = 33.1 bits (74), Expect = 1.3, Method: Composition-based stats.
Identities = 15/42 (35%), Positives = 24/42 (57%), Gaps = 5/42 (11%)
Query: 85 GNLLCCDS--CP-RTYHLQCLDPPLKRIPNGKWQCPKCTQKN 123
G ++ CD+ C +H C+ K P GKW CP+C+Q++
Sbjct: 47 GEMIGCDNPDCSIEWFHFACVGLTTK--PRGKWFCPRCSQES 86
>pdb|2K16|A Chain A, Solution Structure Of The Free Taf3 Phd Domain
pdb|2K17|A Chain A, Solution Structure Of The Taf3 Phd Domain In Complex With
A H3k4me3 Peptide
Length = 75
Score = 33.1 bits (74), Expect = 1.3, Method: Composition-based stats.
Identities = 15/45 (33%), Positives = 19/45 (42%)
Query: 78 CVICDLGGNLLCCDSCPRTYHLQCLDPPLKRIPNGKWQCPKCTQK 122
C D G ++ CD C YH C+ +W CPKC K
Sbjct: 24 CNKPDDGSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCANK 68
>pdb|2DY8|A Chain A, Solution Structure Of The Second Chromodomain Of Yeast
Chd1
Length = 69
Score = 32.7 bits (73), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 19/36 (52%), Positives = 24/36 (66%), Gaps = 4/36 (11%)
Query: 664 PQRVI-SLRSS-KDGTRE--AFVKWTGLPYDECTWE 695
P+R+I S R+S +DGT + VKW L YDE TWE
Sbjct: 9 PERIIDSQRASLEDGTSQLQYLVKWRRLNYDEATWE 44
>pdb|2PNX|A Chain A, The Phd Finger Of Ing4 In Complex With An H3k4me3 Histone
Peptide
pdb|2PNX|C Chain C, The Phd Finger Of Ing4 In Complex With An H3k4me3 Histone
Peptide
Length = 55
Score = 32.7 bits (73), Expect = 1.4, Method: Composition-based stats.
Identities = 15/41 (36%), Positives = 23/41 (56%), Gaps = 5/41 (12%)
Query: 85 GNLLCCDS--CP-RTYHLQCLDPPLKRIPNGKWQCPKCTQK 122
G ++ CD+ C +H C+ K P GKW CP+C+Q+
Sbjct: 16 GEMIGCDNPDCSIEWFHFACVGLTTK--PRGKWFCPRCSQE 54
>pdb|3A1A|A Chain A, Crystal Structure Of The Dnmt3a Add Domain
Length = 144
Score = 32.7 bits (73), Expect = 1.5, Method: Composition-based stats.
Identities = 18/60 (30%), Positives = 26/60 (43%), Gaps = 8/60 (13%)
Query: 71 NDGYYYECVICDLGGNLLCC--DSCPRTYHLQCLD------PPLKRIPNGKWQCPKCTQK 122
+DGY C IC G +L C ++C R + ++C+D I W C C K
Sbjct: 60 DDGYQSYCTICCGGREVLMCGNNNCCRCFCVECVDLLVGPGAAQAAIKEDPWNCYMCGHK 119
>pdb|2VNF|A Chain A, Molecular Basis Of Histone H3k4me3 Recognition By Ing4
pdb|2VNF|C Chain C, Molecular Basis Of Histone H3k4me3 Recognition By Ing4
Length = 60
Score = 32.7 bits (73), Expect = 1.5, Method: Composition-based stats.
Identities = 15/41 (36%), Positives = 23/41 (56%), Gaps = 5/41 (12%)
Query: 85 GNLLCCDS--CP-RTYHLQCLDPPLKRIPNGKWQCPKCTQK 122
G ++ CD+ C +H C+ K P GKW CP+C+Q+
Sbjct: 21 GEMIGCDNPDCSIEWFHFACVGLTTK--PRGKWFCPRCSQE 59
>pdb|2D9U|A Chain A, Solution Structure Of The Chromo Domain Of Chromobox
Homolog 2 From Human
Length = 74
Score = 32.3 bits (72), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 21/50 (42%), Positives = 29/50 (58%), Gaps = 4/50 (8%)
Query: 586 TSGSVAKRVQEPAVTESAQV-KGKAVSYEFLVKWVGKSNIHNSWIPESQL 634
+SGS ++V S ++ KGK E+LVKW G S+ HNSW PE +
Sbjct: 2 SSGSSGEQVFAAECILSKRLRKGK---LEYLVKWRGWSSKHNSWEPEENI 48
>pdb|1WEN|A Chain A, Solution Structure Of Phd Domain In Ing1-Like Protein
Bac25079
Length = 71
Score = 32.3 bits (72), Expect = 1.8, Method: Composition-based stats.
Identities = 15/42 (35%), Positives = 24/42 (57%), Gaps = 5/42 (11%)
Query: 85 GNLLCCDS--CP-RTYHLQCLDPPLKRIPNGKWQCPKCTQKN 123
G ++ CD+ C +H C+ L P GKW CP+C+Q++
Sbjct: 27 GEMIGCDNPDCSIEWFHFACVG--LTTKPRGKWFCPRCSQES 66
>pdb|3A1B|A Chain A, Crystal Structure Of The Dnmt3a Add Domain In Complex With
Histone H3
Length = 159
Score = 32.0 bits (71), Expect = 2.2, Method: Composition-based stats.
Identities = 18/60 (30%), Positives = 26/60 (43%), Gaps = 8/60 (13%)
Query: 71 NDGYYYECVICDLGGNLLCC--DSCPRTYHLQCLD------PPLKRIPNGKWQCPKCTQK 122
+DGY C IC G +L C ++C R + ++C+D I W C C K
Sbjct: 75 DDGYQSYCTICCGGREVLMCGNNNCCRCFCVECVDLLVGPGAAQAAIKEDPWNCYMCGHK 134
>pdb|2LV9|A Chain A, Solution Nmr Structure Of The Phd Domain Of Human Mll5,
Northeast Structural Genomics Consortium Target Hr6512a
Length = 98
Score = 32.0 bits (71), Expect = 2.2, Method: Composition-based stats.
Identities = 12/39 (30%), Positives = 21/39 (53%), Gaps = 1/39 (2%)
Query: 85 GNLLCCDSCPRTYHLQCLDPPLKRIPNGKWQCPKCTQKN 123
G ++CCD C H+ C+ + IP+ + C +C +N
Sbjct: 40 GYMICCDKCSVWQHIDCMGIDRQHIPD-TYLCERCQPRN 77
>pdb|2K1J|A Chain A, Plan Homeodomain Finger Of Tumour Supressor Ing4
Length = 63
Score = 32.0 bits (71), Expect = 2.3, Method: Composition-based stats.
Identities = 15/44 (34%), Positives = 24/44 (54%), Gaps = 5/44 (11%)
Query: 85 GNLLCCDS--CP-RTYHLQCLDPPLKRIPNGKWQCPKCTQKNDQ 125
G ++ CD+ C +H C+ L P GKW CP+C+Q+ +
Sbjct: 21 GEMIGCDNPDCSIEWFHFACVG--LTTKPRGKWFCPRCSQERKK 62
>pdb|3H91|A Chain A, Crystal Structure Of The Complex Of Human Chromobox
Homolog 2 (Cbx2) And H3k27 Peptide
pdb|3H91|B Chain B, Crystal Structure Of The Complex Of Human Chromobox
Homolog 2 (Cbx2) And H3k27 Peptide
Length = 54
Score = 31.6 bits (70), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 13/22 (59%), Positives = 16/22 (72%)
Query: 613 EFLVKWVGKSNIHNSWIPESQL 634
E+LVKW G S+ HNSW PE +
Sbjct: 20 EYLVKWRGWSSKHNSWEPEENI 41
>pdb|2M1R|A Chain A, Phd Domain Of Ing4 N214d Mutant
Length = 63
Score = 31.6 bits (70), Expect = 3.1, Method: Composition-based stats.
Identities = 15/44 (34%), Positives = 23/44 (52%), Gaps = 5/44 (11%)
Query: 85 GNLLCCDS--CP-RTYHLQCLDPPLKRIPNGKWQCPKCTQKNDQ 125
G ++ CD C +H C+ L P GKW CP+C+Q+ +
Sbjct: 21 GEMIGCDDPDCSIEWFHFACVG--LTTKPRGKWFCPRCSQERKK 62
>pdb|3FDT|A Chain A, Crystal Structure Of The Complex Of Human Chromobox
Homolog 5 (Cbx5) With H3k9(Me)3 Peptide
Length = 59
Score = 31.2 bits (69), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/30 (50%), Positives = 19/30 (63%), Gaps = 3/30 (10%)
Query: 605 VKGKAVSYEFLVKWVGKSNIHNSWIPESQL 634
VKG+ E+L+KW G S HN+W PE L
Sbjct: 15 VKGQV---EYLLKWKGFSEEHNTWEPEKNL 41
>pdb|2PV0|B Chain B, Dna Methyltransferase 3 Like Protein (Dnmt3l)
pdb|2PV0|A Chain A, Dna Methyltransferase 3 Like Protein (Dnmt3l)
pdb|2PV0|C Chain C, Dna Methyltransferase 3 Like Protein (Dnmt3l)
pdb|2PVC|B Chain B, Dnmt3l Recognizes Unmethylated Histone H3 Lysine 4
pdb|2PVC|A Chain A, Dnmt3l Recognizes Unmethylated Histone H3 Lysine 4
pdb|2PVC|C Chain C, Dnmt3l Recognizes Unmethylated Histone H3 Lysine 4
Length = 386
Score = 30.8 bits (68), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 26/57 (45%), Gaps = 8/57 (14%)
Query: 71 NDGYYYECVICDLGGNLLCCDS--CPRTYHLQCLDPPLKRIPNGK------WQCPKC 119
+DGY C IC G LL C + C R Y +C+D + +GK W C C
Sbjct: 89 DDGYQSYCSICCSGETLLICGNPDCTRCYCFECVDSLVGPGTSGKVHAMSNWVCYLC 145
>pdb|4HR3|A Chain A, Structure Of A Putative Acyl-Coa Dehydrogenase From
Mycobacterium Abscessus
Length = 415
Score = 30.8 bits (68), Expect = 5.5, Method: Composition-based stats.
Identities = 19/67 (28%), Positives = 32/67 (47%)
Query: 997 VPVELSSIQAEYYRAMLTKNYQILRNIGKGVAQQSMLNIVMQLRKVCNHPYLIPGTEPDS 1056
VP EL S++A+ A L + +G G++ + Q+ + P + PDS
Sbjct: 56 VPPELDSLKAKARAAGLWNLFLPDPELGGGLSNSEYAPLAEQMGRSLFAPTVFNCNAPDS 115
Query: 1057 GSVEFLH 1063
G++E LH
Sbjct: 116 GNMEVLH 122
>pdb|1WE9|A Chain A, Solution Structure Of Phd Domain In Nucleic Acid Binding
Protein-like Np_197993
Length = 64
Score = 30.4 bits (67), Expect = 7.4, Method: Composition-based stats.
Identities = 12/37 (32%), Positives = 21/37 (56%), Gaps = 1/37 (2%)
Query: 88 LCCDSCPRTYHLQCLDPPLKRIPNGK-WQCPKCTQKN 123
+CCD C +H +C+ R + K ++CP C+ K+
Sbjct: 23 ICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNKS 59
>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 = 30.0 bits (66), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 15/30 (50%), Positives = 19/30 (63%), Gaps = 3/30 (10%)
Query: 605 VKGKAVSYEFLVKWVGKSNIHNSWIPESQL 634
VKGK E+L+KW G S+ N+W PE L
Sbjct: 25 VKGKV---EYLLKWKGFSDEDNTWEPEENL 51
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
0.313 0.130 0.374
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 39,874,704
Number of Sequences: 62578
Number of extensions: 1646848
Number of successful extensions: 3079
Number of sequences better than 100.0: 98
Number of HSP's better than 100.0 without gapping: 48
Number of HSP's successfully gapped in prelim test: 50
Number of HSP's that attempted gapping in prelim test: 2979
Number of HSP's gapped (non-prelim): 115
length of query: 1404
length of database: 14,973,337
effective HSP length: 111
effective length of query: 1293
effective length of database: 8,027,179
effective search space: 10379142447
effective search space used: 10379142447
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 58 (26.9 bits)