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= 000496
(1462 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 = 514 bits (1324), Expect = e-145, Method: Compositional matrix adjust.
Identities = 292/700 (41%), Positives = 411/700 (58%), Gaps = 81/700 (11%)
Query: 132 QYLVKWKGLSYLHCTWVPEKEFLKAFKSNPRLR--TKVNNFHRQMSSNNNAEEDFVAIRP 189
++L+KW S+LH TW + ++S ++R +++N+ +Q E+ V + P
Sbjct: 73 EFLIKWTDESHLHNTW-------ETYESIGQVRGLKRLDNYCKQFI----IEDQQVRLDP 121
Query: 190 EWTTVD----------------------RILACRGEDDEK-----EYLVKYKELSYDECY 222
T D RI+ + E +YLVK++ L+YDE
Sbjct: 122 YVTAEDIEIMDMERERRLDEFEEFHVPERIIDSQRASLEDGTSQLQYLVKWRRLNYDEAT 181
Query: 223 WEYESDISAFQPEIERFIKIQSRSHRSSCNKQKSSPQDVTESTKKPKEFQQYEHSPEFLS 282
WE +DI PE H + K PQ + T + F++ P F+
Sbjct: 182 WENATDIVKLAPE--------QVKHFQNRENSKILPQYSSNYTSQRPRFEKLSVQPPFIK 233
Query: 283 GGSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASL-FGERIS-PHLVVA 340
GG L +QL G+N++ F WSK + ILADEMGLGKT+Q++AF++ L F R + PH++V
Sbjct: 234 GGELRDFQLTGINWMAFLWSKGDNGILADEMGLGKTVQTVAFISWLIFARRQNGPHIIVV 293
Query: 341 PLSTLRNWEREFATWAPQMNVVMYVGTSQARNIIREYEFYFPXXXXXXXXXXXXXXXXXX 400
PLST+ W F WAP +N + Y+G ++R+ IREYEFY
Sbjct: 294 PLSTMPAWLDTFEKWAPDLNCICYMGNQKSRDTIREYEFY--------------TNPRAK 339
Query: 401 XQDRIKFDVLLTSYEMINLDSASLKPIKWQCMIVDEGHRLKNKDSKLFSSLKQYSTRHRV 460
+ +KF+VLLT+YE I D A L IKWQ M VDE HRLKN +S L+ SL + +R+
Sbjct: 340 GKKTMKFNVLLTTYEYILKDRAELGSIKWQFMAVDEAHRLKNAESSLYESLNSFKVANRM 399
Query: 461 LLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHRMLAPHLLRRV 520
L+TGTPLQNN+ EL L++FL G+F +E E +D QEE I LHR + P +LRR+
Sbjct: 400 LITGTPLQNNIKELAALVNFLMPGRFTIDQEIDFENQDEEQEEYIHDLHRRIQPFILRRL 459
Query: 521 KKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRG-GAQISLINVVMELRKL 579
KKDV K LP K E ILRVELS Q EYYK ILT+NY LT G SL+N++ EL+K
Sbjct: 460 KKDVEKSLPSKTERILRVELSDVQTEYYKNILTKNYSALTAGAKGGHFSLLNIMNELKKA 519
Query: 580 CCHPYMLEGVEP-------DIEDTNES-FKQLLESSGKLQLLDKMMVKLKEQGHRVLIYS 631
HPY+ + E D + T E+ + L+ SSGK+ LLD+++ +LK+ GHRVLI+S
Sbjct: 520 SNHPYLFDNAEERVLQKFGDGKMTRENVLRGLIMSSGKMVLLDQLLTRLKKDGHRVLIFS 579
Query: 632 QFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGI 691
Q MLD+L DYL+ K ++R+DG V A+R+I ID FN+ +S+ F FLLSTRAGGLGI
Sbjct: 580 QMVRMLDILGDYLSIKGINFQRLDGTVPSAQRRISIDHFNSPDSNDFVFLLSTRAGGLGI 639
Query: 692 NLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEERMMQMTKKKMV 751
NL TADTV+I+DSDWNP ADLQAMARAHR+GQ N VM++RL+++ ++EE +++ +KKM+
Sbjct: 640 NLMTADTVVIFDSDWNPQADLQAMARAHRIGQKNHVMVYRLVSKDTVEEEVLERARKKMI 699
Query: 752 LEHLVVG--------RLKAQNINQEELDDIIRYGSKELFA 783
LE+ ++ K N EL I+++G+ +F
Sbjct: 700 LEYAIISLGVTDGNKYTKKNEPNAGELSAILKFGAGNMFT 739
>pdb|1Z3I|X Chain X, Structure Of The Swi2SNF2 CHROMATIN REMODELING DOMAIN OF
EUKARYOTIC Rad54
Length = 644
Score = 230 bits (586), Expect = 5e-60, Method: Compositional matrix adjust.
Identities = 164/515 (31%), Positives = 261/515 (50%), Gaps = 64/515 (12%)
Query: 286 LHPYQLEGLNFLRFSWSKQTH--------VILADEMGLGKTIQSIAFLASLFGE------ 331
L P+Q EG+ FL W T I+ADEMGLGKT+Q I + +L +
Sbjct: 56 LRPHQREGVKFL---WDCVTGRRIENSYGCIMADEMGLGKTLQCITLIWTLLKQSPDCKP 112
Query: 332 RISPHLVVAPLSTLRNWEREFATW-APQMNVVMYVGTSQARNIIREYEFYFPXXXXXXXX 390
I +VV+P S +RNW E W ++ V G S+ + F
Sbjct: 113 EIDKVIVVSPSSLVRNWYNEVGKWLGGRVQPVAIDGGSKDEIDSKLVNFI---------- 162
Query: 391 XXXXXXXXXXXQDRIKFDVLLTSYEMINLDSASLKPIKWQCMIVDEGHRLKNKDSKLFSS 450
RI +L+ SYE L + L K +I DEGHRLKN D++ + +
Sbjct: 163 --------SQQGMRIPTPILIISYETFRLHAEVLHKGKVGLVICDEGHRLKNSDNQTYLA 214
Query: 451 LKQYSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEF-------KDINQ-- 501
L + + RVL++GTP+QN+L E F L+HF+++G G+ +EF++ F +D +
Sbjct: 215 LNSMNAQRRVLISGTPIQNDLLEYFSLVHFVNSGILGTAQEFKKRFEIPILKGRDADASD 274
Query: 502 ------EEQISRLHRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRN 555
E+++ L ++ L+RR + K LP K E ++ L+ QKE YK L +
Sbjct: 275 KDRAAGEQKLQELISIVNRCLIRRTSDILSKYLPVKIEQVVCCNLTPLQKELYKLFLKQA 334
Query: 556 YQILT-RRGGAQISLINVVMELRKLCCHPYML--------EGVEP--DIEDTNESFKQL- 603
+ + + G +S ++ + L+KLC HP ++ EG + D+ N S K +
Sbjct: 335 KPVESLQTGKISVSSLSSITSLKKLCNHPALIYEKCLTGEEGFDGALDLFPQNYSTKAVE 394
Query: 604 LESSGKLQLLDKMMVKLKEQ-GHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAE 662
+ SGK+ +LD ++ + +V++ S + LDL E +++ Y R+DG + +
Sbjct: 395 PQLSGKMLVLDYILAMTRTTTSDKVVLVSNYTQTLDLFEKLCRNRRYLYVRLDGTMSIKK 454
Query: 663 RQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLG 722
R ++RFN +S F F+LS++AGG G+NL A+ ++++D DWNP D QAMAR R G
Sbjct: 455 RAKIVERFNNPSSPEFIFMLSSKAGGCGLNLIGANRLVMFDPDWNPANDEQAMARVWRDG 514
Query: 723 QTNKVMIFRLITRGSIEERMMQMTKKKMVLEHLVV 757
Q I+RL++ G+IEE+++Q K L VV
Sbjct: 515 QKKTCYIYRLLSTGTIEEKILQRQAHKKALSSCVV 549
>pdb|1Z6A|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE DOMAIN
Length = 500
Score = 228 bits (580), Expect = 2e-59, Method: Compositional matrix adjust.
Identities = 147/508 (28%), Positives = 275/508 (54%), Gaps = 67/508 (13%)
Query: 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGER-ISPHLVVAPL 342
+L PYQ++G +++RF + LAD+MGLGKT+Q+IA + E ++P LV+ PL
Sbjct: 36 ANLRPYQIKGFSWMRFMNKLGFGICLADDMGLGKTLQTIAVFSDAKKENELTPSLVICPL 95
Query: 343 STLRNWEREFATWAPQMNVVMYVGTSQARNIIREYEFYFPXXXXXXXXXXXXXXXXXXXQ 402
S L+NWE E + +AP + ++ +
Sbjct: 96 SVLKNWEEELSKFAPHLRFAVF------------------------------------HE 119
Query: 403 DRIK-----FDVLLTSYEMINLDSASLKPIKWQCMIVDEGHRLKNKDSKLFSSLKQYSTR 457
DR K +D++LT+Y ++ L LK ++W+ +++DE +KN +K+F ++K+ ++
Sbjct: 120 DRSKIKLEDYDIILTTYAVL-LRDTRLKEVEWKYIVIDEAQNIKNPQTKIFKAVKELKSK 178
Query: 458 HRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKD-INQEEQISR--LHRMLAP 514
+R+ LTGTP++N +D+L+ +M FL+ G GS EF+ +F I + + +++ L +++P
Sbjct: 179 YRIALTGTPIENKVDDLWSIMTFLNPGLLGSYSEFKSKFATPIKKGDNMAKEELKAIISP 238
Query: 515 HLLRRVKKD--VMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQIS--LI 570
+LRR K D ++ +LP K E + L+ +Q YKA + + + G + ++
Sbjct: 239 FILRRTKYDKAIINDLPDKIETNVYCNLTPEQAAMYKAEVENLFNNIDSVTGIKRKGMIL 298
Query: 571 NVVMELRKLCCHPYMLEGVEPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIY 630
+ +++L+++ HP +L+G E Q + SGK+ +++ + ++G ++ I+
Sbjct: 299 STLLKLKQIVDHPALLKGGE-----------QSVRRSGKMIRTMEIIEEALDEGDKIAIF 347
Query: 631 SQFQHMLDLLEDYLTFKKWQYER--IDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGG 688
+QF M ++ + + K+ E + G++ ER I +F S +F +LS +AGG
Sbjct: 348 TQFVDMGKIIRNIIE-KELNTEVPFLYGELSKKERDDIISKFQNNPSVKFI-VLSVKAGG 405
Query: 689 LGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEERMMQMT-- 746
GINL +A+ VI +D WNP + QA R +R+GQT V++ +LI+ G++EE++ Q+
Sbjct: 406 FGINLTSANRVIHFDRWWNPAVEDQATDRVYRIGQTRNVIVHKLISVGTLEEKIDQLLAF 465
Query: 747 KKKMVLEHLVVGRLKAQNINQEELDDII 774
K+ + + + G ++ EEL +I
Sbjct: 466 KRSLFKDIISSGDSWITELSTEELRKVI 493
>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 = 219 bits (558), Expect = 9e-57, Method: Compositional matrix adjust.
Identities = 148/511 (28%), Positives = 271/511 (53%), Gaps = 73/511 (14%)
Query: 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGER-ISPHLVVAPL 342
+L PYQ++G ++ RF + LAD+ GLGKT+Q+IA + E ++P LV+ PL
Sbjct: 36 ANLRPYQIKGFSWXRFXNKLGFGICLADDXGLGKTLQTIAVFSDAKKENELTPSLVICPL 95
Query: 343 STLRNWEREFATWAPQMNVVMYVGTSQARNIIREYEFYFPXXXXXXXXXXXXXXXXXXXQ 402
S L+NWE E + +AP + ++ +
Sbjct: 96 SVLKNWEEELSKFAPHLRFAVF------------------------------------HE 119
Query: 403 DRIK-----FDVLLTSYEMINLDSASLKPIKWQCMIVDEGHRLKNKDSKLFSSLKQYSTR 457
DR K +D++LT+Y ++ L LK ++W+ +++DE +KN +K+F ++K+ ++
Sbjct: 120 DRSKIKLEDYDIILTTYAVL-LRDTRLKEVEWKYIVIDEAQNIKNPQTKIFKAVKELKSK 178
Query: 458 HRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKD-INQEEQISR--LHRMLAP 514
+R+ LTGTP++N +D+L+ + FL+ G GS EF+ +F I + + ++ L +++P
Sbjct: 179 YRIALTGTPIENKVDDLWSIXTFLNPGLLGSYSEFKSKFATPIKKGDNXAKEELKAIISP 238
Query: 515 HLLRRVKKD--VMKELPPKKELILRVELSSKQKEYYKA---ILTRNYQILT--RRGGAQI 567
+LRR K D ++ +LP K E + L+ +Q YKA L N +T +R G
Sbjct: 239 FILRRTKYDKAIINDLPDKIETNVYCNLTPEQAAXYKAEVENLFNNIDSVTGIKRKG--- 295
Query: 568 SLINVVMELRKLCCHPYMLEGVEPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRV 627
+++ +++L+++ HP +L+G E Q + SGK +++ + ++G ++
Sbjct: 296 XILSTLLKLKQIVDHPALLKGGE-----------QSVRRSGKXIRTXEIIEEALDEGDKI 344
Query: 628 LIYSQFQHMLDLLEDYLTFKKWQYER--IDGKVGGAERQIRIDRFNAKNSSRFCFLLSTR 685
I++QF ++ + + K+ E + G++ ER I +F S +F +LS +
Sbjct: 345 AIFTQFVDXGKIIRNIIE-KELNTEVPFLYGELSKKERDDIISKFQNNPSVKFI-VLSVK 402
Query: 686 AGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEERMMQM 745
AGG GINL +A+ VI +D WNP + QA R +R+GQT V++ +LI+ G++EE++ Q+
Sbjct: 403 AGGFGINLTSANRVIHFDRWWNPAVEDQATDRVYRIGQTRNVIVHKLISVGTLEEKIDQL 462
Query: 746 T--KKKMVLEHLVVGRLKAQNINQEELDDII 774
K+ + + + G ++ EEL +I
Sbjct: 463 LAFKRSLFKDIISSGDSWITELSTEELRKVI 493
>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 = 92.8 bits (229), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 68/226 (30%), Positives = 124/226 (54%), Gaps = 23/226 (10%)
Query: 527 ELPPKKELILRVELSSKQKEYYKA---ILTRNYQILT--RRGGAQISLINVVMELRKLCC 581
+LP K E + L+ +Q YKA L N +T +R G +++ +++L+++
Sbjct: 24 DLPDKIETNVYCNLTPEQAAMYKAEVENLFNNIDSVTGIKRKGM---ILSTLLKLKQIVD 80
Query: 582 HPYMLEGVEPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLE 641
HP +L+G E Q + SGK+ +++ + ++G ++ I++QF M ++
Sbjct: 81 HPALLKGGE-----------QSVRRSGKMIRTMEIIEEALDEGDKIAIFTQFVDMGKIIR 129
Query: 642 DYLTFKKWQYER--IDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTV 699
+ + K+ E + G++ ER I +F S +F +LS +AGG GINL +A+ V
Sbjct: 130 NIIE-KELNTEVPFLYGELSKKERDDIISKFQNNPSVKFI-VLSVKAGGFGINLTSANRV 187
Query: 700 IIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEERMMQM 745
I +D WNP + QA R +R+GQT V++ +LI+ G++EE++ Q+
Sbjct: 188 IHFDRWWNPAVEDQATDRVYRIGQTRNVIVHKLISVGTLEEKIDQL 233
>pdb|2YQL|A Chain A, Solution Structure Of The Phd Domain In Phd Finger
Protein 21a
Length = 56
Score = 62.4 bits (150), Expect = 2e-09, Method: Composition-based stats.
Identities = 23/45 (51%), Positives = 27/45 (60%)
Query: 51 DDSCQACGESENLMSCDTCTYAYHAKCLVPPLKAPPSGSWRCPEC 95
+D C C +S L+ CDTC+ YH CL PPLK P G W CP C
Sbjct: 9 EDFCSVCRKSGQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRC 53
>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 = 62.0 bits (149), Expect = 2e-09, Method: Composition-based stats.
Identities = 23/45 (51%), Positives = 27/45 (60%)
Query: 51 DDSCQACGESENLMSCDTCTYAYHAKCLVPPLKAPPSGSWRCPEC 95
+D C C +S L+ CDTC+ YH CL PPLK P G W CP C
Sbjct: 5 EDFCSVCRKSGQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRC 49
>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 = 61.2 bits (147), Expect = 5e-09, Method: Composition-based stats.
Identities = 21/45 (46%), Positives = 26/45 (57%)
Query: 54 CQACGESENLMSCDTCTYAYHAKCLVPPLKAPPSGSWRCPECVSP 98
C+ C + L+ CDTC +YH CL PPL P+G W CP C P
Sbjct: 12 CRVCKDGGELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCP 56
>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 = 60.8 bits (146), Expect = 5e-09, Method: Composition-based stats.
Identities = 21/46 (45%), Positives = 28/46 (60%)
Query: 51 DDSCQACGESENLMSCDTCTYAYHAKCLVPPLKAPPSGSWRCPECV 96
+D C C + L+ CD C A+H CL PPL+ PSG+WRC C+
Sbjct: 5 EDECAVCRDGGELICCDGCPRAFHLACLSPPLREIPSGTWRCSSCL 50
>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 = 60.1 bits (144), Expect = 1e-08, Method: Composition-based stats.
Identities = 21/46 (45%), Positives = 28/46 (60%)
Query: 51 DDSCQACGESENLMSCDTCTYAYHAKCLVPPLKAPPSGSWRCPECV 96
+D C C + L+ CD C A+H CL PPL+ PSG+WRC C+
Sbjct: 8 EDECAVCRDGGELICCDGCPRAFHLACLSPPLREIPSGTWRCSSCL 53
>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 = 58.5 bits (140), Expect = 3e-08, Method: Composition-based stats.
Identities = 20/45 (44%), Positives = 25/45 (55%)
Query: 54 CQACGESENLMSCDTCTYAYHAKCLVPPLKAPPSGSWRCPECVSP 98
C+ C + L+ CDTC +YH CL P L P G W+CP C P
Sbjct: 12 CRVCKDGGELLCCDTCPSSYHIHCLRPALYEVPDGEWQCPRCTCP 56
>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 = 57.8 bits (138), Expect = 4e-08, Method: Composition-based stats.
Identities = 24/46 (52%), Positives = 26/46 (56%), Gaps = 3/46 (6%)
Query: 53 SCQACGESEN---LMSCDTCTYAYHAKCLVPPLKAPPSGSWRCPEC 95
SC CG SEN L+ CD C YH CL PP+ PP GSW C C
Sbjct: 60 SCILCGTSENDDQLLFCDDCDRGYHMYCLNPPVAEPPEGSWSCHLC 105
Score = 31.6 bits (70), Expect = 3.6, Method: Composition-based stats.
Identities = 21/61 (34%), Positives = 30/61 (49%), Gaps = 10/61 (16%)
Query: 58 GESENLMSCDTCTYAYHAKCLVPPL---KAPPSGSWRCPECVSPL------NDIDKILDC 108
G E L+SC C + H CL L +A + W+C EC S + ND D++L C
Sbjct: 18 GRPEELVSCADCGRSGHPTCLQFTLNMTEAVKTYKWQCIECKSCILCGTSEND-DQLLFC 76
Query: 109 E 109
+
Sbjct: 77 D 77
>pdb|2E6R|A Chain A, Solution Structure Of The Phd Domain In Smcy Protein
Length = 92
Score = 56.2 bits (134), Expect = 1e-07, Method: Composition-based stats.
Identities = 25/66 (37%), Positives = 33/66 (50%), Gaps = 11/66 (16%)
Query: 54 CQACG---ESENLMSCDTCTYAYHAKCLVPPLKAPPSGSWRCPECVSPLNDIDKILDCEM 110
CQ C E + L+ CD C YH CL+PPL P G WRCP+C+ + +C+
Sbjct: 19 CQVCSRGDEDDKLLFCDGCDDNYHIFCLLPPLPEIPRGIWRCPKCI--------LAECKQ 70
Query: 111 RPTVAG 116
P G
Sbjct: 71 PPEAFG 76
>pdb|2L5U|A Chain A, Structure Of The First Phd Finger (Phd1) From Chd4
(Mi2b)
Length = 61
Score = 55.1 bits (131), Expect = 3e-07, Method: Composition-based stats.
Identities = 19/44 (43%), Positives = 25/44 (56%)
Query: 52 DSCQACGESENLMSCDTCTYAYHAKCLVPPLKAPPSGSWRCPEC 95
D C+ C + ++ CDTC AYH CL P ++ P G W CP C
Sbjct: 12 DYCEVCQQGGEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHC 55
>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 = 52.4 bits (124), Expect = 2e-06, Method: Composition-based stats.
Identities = 17/43 (39%), Positives = 25/43 (58%)
Query: 53 SCQACGESENLMSCDTCTYAYHAKCLVPPLKAPPSGSWRCPEC 95
+C+ GE ++ CDTC YH CL P +K+ P+ W+C C
Sbjct: 59 NCKQSGEDSKMLVCDTCDKGYHTFCLQPVMKSVPTNGWKCKNC 101
Score = 38.5 bits (88), Expect = 0.028, Method: Composition-based stats.
Identities = 19/49 (38%), Positives = 23/49 (46%), Gaps = 9/49 (18%)
Query: 53 SCQACGESENLMS---CDTCTYAYHAKCL---VPPLKAPPSGSWRCPEC 95
+C C +L+ C TC YH CL V PLK W+CPEC
Sbjct: 9 NCAVCDSPGDLLDQFFCTTCGQHYHGMCLDIAVTPLK---RAGWQCPEC 54
>pdb|1F62|A Chain A, Wstf-Phd
Length = 51
Score = 51.2 bits (121), Expect = 4e-06, Method: Composition-based stats.
Identities = 20/47 (42%), Positives = 26/47 (55%)
Query: 49 AKDDSCQACGESENLMSCDTCTYAYHAKCLVPPLKAPPSGSWRCPEC 95
A+ C+ GE + L+ CD C A+H CL P L P G W+CP C
Sbjct: 1 ARCKVCRKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPAC 47
>pdb|2E6S|A Chain A, Solution Structure Of The Phd Domain In Ring Finger
Protein 107
Length = 77
Score = 48.5 bits (114), Expect = 2e-05, Method: Composition-based stats.
Identities = 22/47 (46%), Positives = 24/47 (51%), Gaps = 4/47 (8%)
Query: 53 SCQACG---ESENLMSCDTCTYAYHAKCLVPPL-KAPPSGSWRCPEC 95
SC+ CG E + CD C AYH CL PPL K P W CP C
Sbjct: 28 SCRVCGGKHEPNMQLLCDECNVAYHIYCLNPPLDKVPEEEYWYCPSC 74
>pdb|3ZVZ|B Chain B, Phd Finger Of Human Uhrf1
Length = 57
Score = 48.1 bits (113), Expect = 3e-05, Method: Composition-based stats.
Identities = 20/47 (42%), Positives = 26/47 (55%), Gaps = 4/47 (8%)
Query: 53 SCQACG---ESENLMSCDTCTYAYHAKCLVPPLKAPPS-GSWRCPEC 95
+C CG + + + CD C A+H CL PPL + PS W CPEC
Sbjct: 7 ACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 53
>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 = 48.1 bits (113), Expect = 4e-05, Method: Composition-based stats.
Identities = 20/47 (42%), Positives = 26/47 (55%), Gaps = 4/47 (8%)
Query: 53 SCQACG---ESENLMSCDTCTYAYHAKCLVPPLKAPPS-GSWRCPEC 95
+C CG + + + CD C A+H CL PPL + PS W CPEC
Sbjct: 25 ACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 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 = 48.1 bits (113), Expect = 4e-05, Method: Composition-based stats.
Identities = 20/47 (42%), Positives = 26/47 (55%), Gaps = 4/47 (8%)
Query: 53 SCQACG---ESENLMSCDTCTYAYHAKCLVPPLKAPPS-GSWRCPEC 95
+C CG + + + CD C A+H CL PPL + PS W CPEC
Sbjct: 20 ACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 66
>pdb|3SHB|A Chain A, Crystal Structure Of Phd Domain Of Uhrf1
Length = 77
Score = 47.8 bits (112), Expect = 4e-05, Method: Composition-based stats.
Identities = 20/47 (42%), Positives = 26/47 (55%), Gaps = 4/47 (8%)
Query: 53 SCQACG---ESENLMSCDTCTYAYHAKCLVPPLKAPPS-GSWRCPEC 95
+C CG + + + CD C A+H CL PPL + PS W CPEC
Sbjct: 28 ACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 74
>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 = 47.8 bits (112), Expect = 4e-05, Method: Composition-based stats.
Identities = 20/47 (42%), Positives = 26/47 (55%), Gaps = 4/47 (8%)
Query: 53 SCQACG---ESENLMSCDTCTYAYHAKCLVPPLKAPPS-GSWRCPEC 95
+C CG + + + CD C A+H CL PPL + PS W CPEC
Sbjct: 20 ACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 66
>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 = 47.8 bits (112), Expect = 5e-05, Method: Composition-based stats.
Identities = 20/47 (42%), Positives = 26/47 (55%), Gaps = 4/47 (8%)
Query: 53 SCQACG---ESENLMSCDTCTYAYHAKCLVPPLKAPPS-GSWRCPEC 95
+C CG + + + CD C A+H CL PPL + PS W CPEC
Sbjct: 22 ACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 68
>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 = 46.6 bits (109), Expect = 1e-04, Method: Composition-based stats.
Identities = 20/47 (42%), Positives = 26/47 (55%), Gaps = 4/47 (8%)
Query: 53 SCQACG---ESENLMSCDTCTYAYHAKCLVPPLKAPPS-GSWRCPEC 95
+C CG + + + CD C A+H CL PPL + PS W CPEC
Sbjct: 176 ACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 222
>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 = 45.1 bits (105), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 38/128 (29%), Positives = 60/128 (46%), Gaps = 22/128 (17%)
Query: 132 QYLVKWKGLSYLHCTWVPEKEFLKAFKSNPRLRTKVNNFHRQ---------------MSS 176
QYL+KWKG S++H TW E E LK + N R K++N+ ++ +
Sbjct: 59 QYLIKWKGWSHIHNTWETE-ETLK--QQNVRGXKKLDNYKKKDQETKRWLKNASPEDVEY 115
Query: 177 NNNAEEDFVAIRPEWTTVDRILACRGEDDEK---EYLVKYKELSYDECYWEYESDIS-AF 232
N +E + ++ V RI+A + +Y K++ L Y EC WE + IS F
Sbjct: 116 YNCQQELTDDLHKQYQIVGRIIAHSNQKSAAGYPDYYCKWQGLPYSECSWEDGALISKKF 175
Query: 233 QPEIERFI 240
Q I+ +
Sbjct: 176 QAXIDEYF 183
>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 = 44.7 bits (104), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 23/57 (40%), Positives = 30/57 (52%), Gaps = 8/57 (14%)
Query: 43 RIVRIDAKDDSCQACG---ESENLMSCDTCTYAYHAKCLVPPLKAPPS-GSWRCPEC 95
R+ R+ A C CG + + + CD C A+H CL PPL + PS W CPEC
Sbjct: 186 RLCRVCA----CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 238
>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 = 44.7 bits (104), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 24/48 (50%)
Query: 48 DAKDDSCQACGESENLMSCDTCTYAYHAKCLVPPLKAPPSGSWRCPEC 95
D +D C C +L+ C+ C +H C VP L + PSG W C C
Sbjct: 4 DPNEDWCAVCQNGGDLLCCEKCPKVFHLTCHVPTLLSFPSGDWICTFC 51
>pdb|3V43|A Chain A, Crystal Structure Of Moz
Length = 112
Score = 44.7 bits (104), Expect = 4e-04, Method: Composition-based stats.
Identities = 16/47 (34%), Positives = 26/47 (55%), Gaps = 4/47 (8%)
Query: 53 SCQACGE----SENLMSCDTCTYAYHAKCLVPPLKAPPSGSWRCPEC 95
+C +C + ++N++ CD+C +H +C PPL P G W C C
Sbjct: 63 TCSSCRDQGKNADNMLFCDSCDRGFHMECCDPPLTRMPKGMWICQIC 109
>pdb|2LN0|A Chain A, Structure Of Moz
Length = 110
Score = 44.3 bits (103), Expect = 5e-04, Method: Composition-based stats.
Identities = 16/47 (34%), Positives = 26/47 (55%), Gaps = 4/47 (8%)
Query: 53 SCQACGE----SENLMSCDTCTYAYHAKCLVPPLKAPPSGSWRCPEC 95
+C +C + ++N++ CD+C +H +C PPL P G W C C
Sbjct: 61 TCSSCRDQGKNADNMLFCDSCDRGFHMECCDPPLTRMPKGMWICQIC 107
>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 = 44.3 bits (103), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 38/128 (29%), Positives = 60/128 (46%), Gaps = 22/128 (17%)
Query: 132 QYLVKWKGLSYLHCTWVPEKEFLKAFKSNPRLRTKVNNFHRQ---------------MSS 176
QYL+KWKG S++H TW E E LK + N R K++N+ ++ +
Sbjct: 59 QYLIKWKGWSHIHNTWETE-ETLK--QQNVRGMKKLDNYKKKDQETKRWLKNASPEDVEY 115
Query: 177 NNNAEEDFVAIRPEWTTVDRILACRGEDDEK---EYLVKYKELSYDECYWEYESDIS-AF 232
N +E + ++ V RI+A + +Y K++ L Y EC WE + IS F
Sbjct: 116 YNCQQELTDDLHKQYQIVGRIIAHSNQKSAAGYPDYYCKWQGLPYSECSWEDGALISKKF 175
Query: 233 QPEIERFI 240
Q I+ +
Sbjct: 176 QACIDEYF 183
>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 = 43.1 bits (100), Expect = 0.001, Method: Composition-based stats.
Identities = 23/54 (42%), Positives = 26/54 (48%), Gaps = 9/54 (16%)
Query: 51 DDSCQACGESENLMSCDT--CTYAYHAKCLVPPLKAPPSGSWRCP-----ECVS 97
+D C CG+ L+ CD C AYH CL L PP G W CP EC S
Sbjct: 15 EDYCFQCGDGGELVMCDKKDCPKAYHLLCL--NLTQPPYGKWECPWHQCDECSS 66
>pdb|1FP0|A Chain A, Solution Structure Of The Phd Domain From The Kap-1
Corepressor
Length = 88
Score = 42.4 bits (98), Expect = 0.002, Method: Composition-based stats.
Identities = 16/48 (33%), Positives = 25/48 (52%), Gaps = 3/48 (6%)
Query: 51 DDS---CQACGESENLMSCDTCTYAYHAKCLVPPLKAPPSGSWRCPEC 95
DDS C+ C + +L+ C+ C + +H C +P L+ P W C C
Sbjct: 22 DDSATICRVCQKPGDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLC 69
>pdb|1WE9|A Chain A, Solution Structure Of Phd Domain In Nucleic Acid Binding
Protein-like Np_197993
Length = 64
Score = 40.8 bits (94), Expect = 0.006, Method: Composition-based stats.
Identities = 18/47 (38%), Positives = 25/47 (53%), Gaps = 5/47 (10%)
Query: 54 CQACGES----ENLMSCDTCTYAYHAKCL-VPPLKAPPSGSWRCPEC 95
C ACGES E + CD C +H KC+ + P +A ++CP C
Sbjct: 9 CGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSC 55
>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 = 40.4 bits (93), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 21/45 (46%)
Query: 51 DDSCQACGESENLMSCDTCTYAYHAKCLVPPLKAPPSGSWRCPEC 95
+D C C L+ C+ C +H C VP L PSG W C C
Sbjct: 4 EDWCAVCQNGGELLCCEKCPKVFHLSCHVPTLTNFPSGEWICTFC 48
>pdb|2XB0|X Chain X, Dna-Binding Domain From Saccharomyces Cerevisiae Chromatin-
Remodelling Protein Chd1
Length = 270
Score = 39.7 bits (91), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 34/79 (43%), Gaps = 9/79 (11%)
Query: 1084 WKEEHDSLLLRAVLKHGYGRWQAIVDDKDLKVQE-VICQELNLPFI--------NLPVPG 1134
W +E D LL V K+GYG W I DD L + + + E++ P P P
Sbjct: 171 WTKEEDEKLLIGVFKYGYGSWTQIRDDPFLGITDKIFLNEVHNPVAKKSASSSDTTPTPS 230
Query: 1135 ASSQAPNGANSANPEALQM 1153
+ G++ P A+ +
Sbjct: 231 KKGKGITGSSKKVPGAIHL 249
>pdb|3TED|A Chain A, Crystal Structure Of The Chd1 Dna-Binding Domain In Complex
With A Dna Duplex
Length = 271
Score = 39.3 bits (90), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 34/79 (43%), Gaps = 9/79 (11%)
Query: 1084 WKEEHDSLLLRAVLKHGYGRWQAIVDDKDLKVQE-VICQELNLPFI--------NLPVPG 1134
W +E D LL V K+GYG W I DD L + + + E++ P P P
Sbjct: 172 WTKEEDEKLLIGVFKYGYGSWTQIRDDPFLGITDKIFLNEVHNPVAKKSASSSDTTPTPS 231
Query: 1135 ASSQAPNGANSANPEALQM 1153
+ G++ P A+ +
Sbjct: 232 KKGKGITGSSKKVPGAIHL 250
>pdb|2LRI|C Chain C, Nmr Structure Of The Second Phd Finger Of Aire
(aire-phd2)
Length = 66
Score = 38.9 bits (89), Expect = 0.024, Method: Composition-based stats.
Identities = 13/42 (30%), Positives = 20/42 (47%)
Query: 54 CQACGESENLMSCDTCTYAYHAKCLVPPLKAPPSGSWRCPEC 95
C CG+ +++ C C A+H +C P + P RC C
Sbjct: 15 CGVCGDGTDVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSC 56
>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 = 38.5 bits (88), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 49/207 (23%), Positives = 87/207 (42%), Gaps = 46/207 (22%)
Query: 307 VILADEMGLGKTIQSIAFL----ASLFGERISPHLVVAPLSTLRNWEREFATWAPQMNVV 362
V+LADE+GLGKTI++ L S ER+ L++ P + W E + N+
Sbjct: 173 VLLADEVGLGKTIEAGXILHQQLLSGAAERV---LIIVPETLQHQWLVEXLR---RFNLR 226
Query: 363 MYVGTSQARNIIREYEFYFPXXXXXXXXXXXXXXXXXXXQDRIKFD---VLLTSYEMINL 419
+ + R +++ Y P FD +++ S +
Sbjct: 227 FALFDDE-RYAEAQHDAYNP------------------------FDTEQLVICSLDFARR 261
Query: 420 DSASLKPI---KWQCMIVDEGHRL---KNKDSKLFSSLKQYSTR--HRVLLTGTPLQNNL 471
L+ + +W ++VDE H L ++ S+ + +++Q + +LLT TP Q
Sbjct: 262 SKQRLEHLCEAEWDLLVVDEAHHLVWSEDAPSREYQAIEQLAEHVPGVLLLTATPEQLGX 321
Query: 472 DELFMLMHFLDAGKFGSLEEFQEEFKD 498
+ F + LD +F +F EE K+
Sbjct: 322 ESHFARLRLLDPNRFHDFAQFVEEQKN 348
>pdb|2RO1|A Chain A, Nmr Solution Structures Of Human Kap1 Phd
Finger-Bromodomain
Length = 189
Score = 37.7 bits (86), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 22/42 (52%)
Query: 54 CQACGESENLMSCDTCTYAYHAKCLVPPLKAPPSGSWRCPEC 95
C+ C + +L+ C+ C + +H C +P L+ P W C C
Sbjct: 5 CRVCQKPGDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLC 46
>pdb|2KU3|A Chain A, Solution Structure Of Brd1 Phd1 Finger
Length = 71
Score = 37.7 bits (86), Expect = 0.044, Method: Composition-based stats.
Identities = 19/52 (36%), Positives = 25/52 (48%), Gaps = 7/52 (13%)
Query: 50 KDDSCQAC--GESEN---LMSCDTCTYAYHAKCLVPPLKAPPSGSWRCPECV 96
+D C C GES+N ++ CD C A H +C P P G W C C+
Sbjct: 15 EDAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPYI--PEGQWLCRHCL 64
>pdb|2L43|A Chain A, Structural Basis For Histone Code Recognition By
Brpf2-Phd1 Finger
Length = 88
Score = 37.4 bits (85), Expect = 0.060, Method: Composition-based stats.
Identities = 19/52 (36%), Positives = 25/52 (48%), Gaps = 7/52 (13%)
Query: 50 KDDSCQAC--GESEN---LMSCDTCTYAYHAKCLVPPLKAPPSGSWRCPECV 96
+D C C GES+N ++ CD C A H +C P P G W C C+
Sbjct: 24 EDAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPYI--PEGQWLCRHCL 73
>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 = 37.0 bits (84), Expect = 0.089, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 42/85 (49%), Gaps = 16/85 (18%)
Query: 102 IDKILDCEMRPTVA-------------GDSDVSKLGSKQIFVKQYLVKWKGLSYLHCTWV 148
I++ +DC + A GD + +K+ QYL+KWKG S++H TW
Sbjct: 16 IERFMDCRIGRKGATGATTTIYAVEADGDPNAGFEKNKEPGEIQYLIKWKGWSHIHNTWE 75
Query: 149 PEKEFLKAFKSNPRLRTKVNNFHRQ 173
E E LK + N R K++N+ ++
Sbjct: 76 TE-ETLK--QQNVRGMKKLDNYKKK 97
>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 = 36.2 bits (82), Expect = 0.13, Method: Composition-based stats.
Identities = 13/32 (40%), Positives = 19/32 (59%)
Query: 48 DAKDDSCQACGESENLMSCDTCTYAYHAKCLV 79
D D+ C+ C E NL+ CD C A+ KC++
Sbjct: 54 DGMDEQCRWCAEGGNLICCDFCHNAFCKKCIL 85
>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 = 36.2 bits (82), Expect = 0.13, Method: Composition-based stats.
Identities = 13/32 (40%), Positives = 19/32 (59%)
Query: 48 DAKDDSCQACGESENLMSCDTCTYAYHAKCLV 79
D D+ C+ C E NL+ CD C A+ KC++
Sbjct: 60 DGMDEQCRWCAEGGNLICCDFCHNAFCKKCIL 91
>pdb|2JM1|A Chain A, Structures And Chemical Shift Assignments For The Add
Domain Of The Atrx Protein
Length = 141
Score = 36.2 bits (82), Expect = 0.14, Method: Composition-based stats.
Identities = 13/32 (40%), Positives = 19/32 (59%)
Query: 48 DAKDDSCQACGESENLMSCDTCTYAYHAKCLV 79
D D+ C+ C E NL+ CD C A+ KC++
Sbjct: 59 DGMDEQCRWCAEGGNLICCDFCHNAFCKKCIL 90
>pdb|2DNV|A Chain A, Solution Structure Of Rsgi Ruh-055, A Chromo Domain From
Mus Musculus Cdna
Length = 64
Score = 35.4 bits (80), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 17/35 (48%), Positives = 21/35 (60%), Gaps = 5/35 (14%)
Query: 132 QYLVKWKGLSYLHCTWVPEK-----EFLKAFKSNP 161
+YLVKWKG S + TW PE+ L AF+S P
Sbjct: 27 EYLVKWKGWSQKYSTWEPEENILDARLLAAFESGP 61
>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 = 35.4 bits (80), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 34/133 (25%), Positives = 57/133 (42%), Gaps = 40/133 (30%)
Query: 132 QYLVKWKGLSYLHCTWVPEKEFLKAFKSNPRLR--TKVNNFHRQMSSNNNAEEDFVAIRP 189
++L+KW S+LH TW + ++S ++R +++N+ +Q E+ V + P
Sbjct: 48 EFLIKWTDESHLHNTW-------ETYESIGQVRGLKRLDNYCKQFI----IEDQQVRLDP 96
Query: 190 EWTTVD----------------------RILACRGEDDEK-----EYLVKYKELSYDECY 222
T D RI+ + E +YLVK++ L+YDE
Sbjct: 97 YVTAEDIEIMDMERERRLDEFEEFHVPERIIDSQRASLEDGTSQLQYLVKWRRLNYDEAT 156
Query: 223 WEYESDISAFQPE 235
WE +DI PE
Sbjct: 157 WENATDIVKLAPE 169
>pdb|2B2T|C Chain C, Tandem Chromodomains Of Human Chd1 Complexed With Histone
H3 Tail Containing Trimethyllysine 4 And
Phosphothreonine 3
Length = 115
Score = 35.4 bits (80), Expect = 0.26, Method: Composition-based stats.
Identities = 19/42 (45%), Positives = 28/42 (66%), Gaps = 3/42 (7%)
Query: 132 QYLVKWKGLSYLHCTWVPEKEFLKAFKSNPRLRTKVNNFHRQ 173
QYL+KWKG S++H TW E E LK + N R K++N+ ++
Sbjct: 59 QYLIKWKGWSHIHNTWETE-ETLK--QQNVRGXKKLDNYKKK 97
>pdb|2DY8|A Chain A, Solution Structure Of The Second Chromodomain Of Yeast
Chd1
Length = 69
Score = 35.0 bits (79), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 14/28 (50%), Positives = 19/28 (67%)
Query: 208 EYLVKYKELSYDECYWEYESDISAFQPE 235
+YLVK++ L+YDE WE +DI PE
Sbjct: 28 QYLVKWRRLNYDEATWENATDIVKLAPE 55
>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 = 34.3 bits (77), Expect = 0.48, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 25/50 (50%), Gaps = 5/50 (10%)
Query: 54 CQACGESEN---LMSCDTCTYAYHAKCLVPPLKAPPSG-SWRCPECVSPL 99
C C + ++ ++ CD C YH C V + APP W CP+C + +
Sbjct: 21 CPGCNKPDDGSPMIGCDDCDDWYHWPC-VGIMAAPPEEMQWFCPKCANKI 69
>pdb|3HGT|A Chain A, Structural And Functional Studies Of The Yeast Class Ii
Hda1 Hdac Complex
pdb|3HGT|B Chain B, Structural And Functional Studies Of The Yeast Class Ii
Hda1 Hdac Complex
Length = 328
Score = 34.3 bits (77), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 35/130 (26%), Positives = 55/130 (42%), Gaps = 9/130 (6%)
Query: 536 LRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCC--------HPYML- 586
L +S QKE I++ +Y + R +V++E K C HPY+L
Sbjct: 28 LPTTMSLYQKELTDQIVSLHYSDILRYFETSHYKEDVILESMKTMCLNGSLVATHPYLLI 87
Query: 587 EGVEPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTF 646
+ P T + L E+SGK +L ++ ++E I + +DLLE L
Sbjct: 88 DHYMPKSLITRDVPAHLAENSGKFSVLRDLINLVQEYETETAIVCRPGRTMDLLEALLLG 147
Query: 647 KKWQYERIDG 656
K +R DG
Sbjct: 148 NKVHIKRYDG 157
>pdb|4B4C|A Chain A, Crystal Structure Of The Dna-Binding Domain Of Human Chd1
Length = 211
Score = 33.9 bits (76), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 21/36 (58%)
Query: 1084 WKEEHDSLLLRAVLKHGYGRWQAIVDDKDLKVQEVI 1119
W +E DS LL + ++GYG W+ I D DL + I
Sbjct: 137 WGKEDDSNLLIGIYEYGYGSWEMIKMDPDLSLTHKI 172
>pdb|3FDT|A Chain A, Crystal Structure Of The Complex Of Human Chromobox
Homolog 5 (Cbx5) With H3k9(Me)3 Peptide
Length = 59
Score = 33.9 bits (76), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 17/36 (47%), Positives = 21/36 (58%), Gaps = 9/36 (25%)
Query: 132 QYLVKWKGLSYLHCTWVPEK---------EFLKAFK 158
+YL+KWKG S H TW PEK EF+K +K
Sbjct: 20 EYLLKWKGFSEEHNTWEPEKNLDCPELISEFMKKYK 55
>pdb|2K28|A Chain A, Solution Nmr Structure Of The Chromo Domain Of The
Chromobox Protein Homolog 4
Length = 60
Score = 33.5 bits (75), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 23/42 (54%), Gaps = 5/42 (11%)
Query: 132 QYLVKWKGLSYLHCTWVPEKEFLKAFKSNPRLRTKVNNFHRQ 173
+YLVKW+G S + TW PE+ L +PRL N RQ
Sbjct: 22 EYLVKWRGWSPKYNTWEPEENIL-----DPRLLIAFQNRERQ 58
>pdb|2EE1|A Chain A, Solution Structures Of The Chromo Domain Of Human
Chromodomain Helicase-Dna-Binding Protein 4
Length = 64
Score = 33.1 bits (74), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
Query: 188 RPEWTTVDRIL-ACRGEDDEKEYLVKYKELSYDECYWEYE 226
+PEW + RIL + YL+K+++L YD+ WE E
Sbjct: 8 KPEWMMIHRILNHSVDKKGHVHYLIKWRDLPYDQASWESE 47
>pdb|3HGQ|A Chain A, Structural And Functional Studies Of The Yeast Class Ii
Hda1 Hdac Complex
pdb|3HGQ|B Chain B, Structural And Functional Studies Of The Yeast Class Ii
Hda1 Hdac Complex
pdb|3HGQ|C Chain C, Structural And Functional Studies Of The Yeast Class Ii
Hda1 Hdac Complex
pdb|3HGQ|D Chain D, Structural And Functional Studies Of The Yeast Class Ii
Hda1 Hdac Complex
Length = 328
Score = 32.7 bits (73), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 34/125 (27%), Positives = 52/125 (41%), Gaps = 9/125 (7%)
Query: 541 SSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCC--------HPYML-EGVEP 591
S QKE I++ +Y + R +V++E K C HPY+L + P
Sbjct: 33 SLYQKELTDQIVSLHYSDILRYFETSHYKEDVILESXKTXCLNGSLVATHPYLLIDHYXP 92
Query: 592 DIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQY 651
T + L E+SGK +L ++ ++E I + DLLE L K
Sbjct: 93 KSLITRDVPAHLAENSGKFSVLRDLINLVQEYETETAIVCRPGRTXDLLEALLLGNKVHI 152
Query: 652 ERIDG 656
+R DG
Sbjct: 153 KRYDG 157
>pdb|1G20|A Chain A, Mgatp-Bound And Nucleotide-Free Structures Of A
Nitrogenase Protein Complex Between Leu127del-Fe Protein
And The Mofe Protein
pdb|1G20|C Chain C, Mgatp-Bound And Nucleotide-Free Structures Of A
Nitrogenase Protein Complex Between Leu127del-Fe Protein
And The Mofe Protein
pdb|1G21|A Chain A, Mgatp-Bound And Nucleotide-Free Structures Of A
Nitrogenase Protein Complex Between Leu127del-Fe Protein
And The Mofe Protein
pdb|1G21|C Chain C, Mgatp-Bound And Nucleotide-Free Structures Of A
Nitrogenase Protein Complex Between Leu127del-Fe Protein
And The Mofe Protein
pdb|3U7Q|A Chain A, A. Vinelandii Nitrogenase Mofe Protein At Atomic
Resolution
pdb|3U7Q|C Chain C, A. Vinelandii Nitrogenase Mofe Protein At Atomic
Resolution
Length = 492
Score = 32.7 bits (73), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 30/131 (22%), Positives = 54/131 (41%), Gaps = 14/131 (10%)
Query: 251 CNKQKSSPQDVTESTKKPKEFQQYEHSPEFLSGGSLHPYQLEGLNFLRFSWSKQTHVILA 310
C Q S ++E PK H ++ S H + G+ ++ +++
Sbjct: 249 CVAQWSGDGSISEIELTPKVKLNLVHCYRSMNYISRHMEEKYGIPWMEYNF--------- 299
Query: 311 DEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLRNWEREFATWAPQM---NVVMYVGT 367
G KTI+S+ +A+ F E I WE A + P++ V++Y+G
Sbjct: 300 --FGPTKTIESLRAIAAKFDESIQKKCEEVIAKYKPEWEAVVAKYRPRLEGKRVMLYIGG 357
Query: 368 SQARNIIREYE 378
+ R++I YE
Sbjct: 358 LRPRHVIGAYE 368
>pdb|1FP4|A Chain A, Crystal Structure Of The Alpha-H195q Mutant Of Nitrogenase
pdb|1FP4|C Chain C, Crystal Structure Of The Alpha-H195q Mutant Of Nitrogenase
Length = 492
Score = 32.7 bits (73), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 30/131 (22%), Positives = 54/131 (41%), Gaps = 14/131 (10%)
Query: 251 CNKQKSSPQDVTESTKKPKEFQQYEHSPEFLSGGSLHPYQLEGLNFLRFSWSKQTHVILA 310
C Q S ++E PK H ++ S H + G+ ++ +++
Sbjct: 249 CVAQWSGDGSISEIELTPKVKLNLVHCYRSMNYISRHMEEKYGIPWMEYNF--------- 299
Query: 311 DEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLRNWEREFATWAPQM---NVVMYVGT 367
G KTI+S+ +A+ F E I WE A + P++ V++Y+G
Sbjct: 300 --FGPTKTIESLRAIAAKFDESIQKKCEEVIAKYKPEWEAVVAKYRPRLEGKRVMLYIGG 357
Query: 368 SQARNIIREYE 378
+ R++I YE
Sbjct: 358 LRPRHVIGAYE 368
>pdb|3K1A|A Chain A, Insights Into Substrate Binding At Femo-Cofactor In
Nitrogenase From The Structure Of An Alpha-70ile Mofe
Protein Variant
pdb|3K1A|C Chain C, Insights Into Substrate Binding At Femo-Cofactor In
Nitrogenase From The Structure Of An Alpha-70ile Mofe
Protein Variant
Length = 491
Score = 32.7 bits (73), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 30/131 (22%), Positives = 54/131 (41%), Gaps = 14/131 (10%)
Query: 251 CNKQKSSPQDVTESTKKPKEFQQYEHSPEFLSGGSLHPYQLEGLNFLRFSWSKQTHVILA 310
C Q S ++E PK H ++ S H + G+ ++ +++
Sbjct: 248 CVAQWSGDGSISEIELTPKVKLNLVHCYRSMNYISRHMEEKYGIPWMEYNF--------- 298
Query: 311 DEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLRNWEREFATWAPQM---NVVMYVGT 367
G KTI+S+ +A+ F E I WE A + P++ V++Y+G
Sbjct: 299 --FGPTKTIESLRAIAAKFDESIQKKCEEVIAKYKPEWEAVVAKYRPRLEGKRVMLYIGG 356
Query: 368 SQARNIIREYE 378
+ R++I YE
Sbjct: 357 LRPRHVIGAYE 367
>pdb|3MIN|A Chain A, Nitrogenase Mofe Protein From Azotobacter Vinelandii,
Oxidized State
pdb|3MIN|C Chain C, Nitrogenase Mofe Protein From Azotobacter Vinelandii,
Oxidized State
pdb|2MIN|A Chain A, Nitrogenase Mofe Protein From Azotobacter Vinelandii,
Oxidized State
pdb|2MIN|C Chain C, Nitrogenase Mofe Protein From Azotobacter Vinelandii,
Oxidized State
pdb|1N2C|A Chain A, Nitrogenase Complex From Azotobacter Vinelandii Stabilized
By Adp-Tetrafluoroaluminate
pdb|1N2C|C Chain C, Nitrogenase Complex From Azotobacter Vinelandii Stabilized
By Adp-Tetrafluoroaluminate
pdb|1L5H|A Chain A, Femo-Cofactor Deficient Nitrogenase Mofe Protein
pdb|1M1N|A Chain A, Nitrogenase Mofe Protein From Azotobacter Vinelandii
pdb|1M1N|C Chain C, Nitrogenase Mofe Protein From Azotobacter Vinelandii
pdb|1M1N|E Chain E, Nitrogenase Mofe Protein From Azotobacter Vinelandii
pdb|1M1N|G Chain G, Nitrogenase Mofe Protein From Azotobacter Vinelandii
pdb|1M1Y|A Chain A, Chemical Crosslink Of Nitrogenase Mofe Protein And Fe
Protein
pdb|1M1Y|C Chain C, Chemical Crosslink Of Nitrogenase Mofe Protein And Fe
Protein
pdb|1M1Y|I Chain I, Chemical Crosslink Of Nitrogenase Mofe Protein And Fe
Protein
pdb|1M1Y|K Chain K, Chemical Crosslink Of Nitrogenase Mofe Protein And Fe
Protein
pdb|1M34|A Chain A, Nitrogenase Complex From Azotobacter Vinelandii Stabilized
By Adp- Tetrafluoroaluminate
pdb|1M34|C Chain C, Nitrogenase Complex From Azotobacter Vinelandii Stabilized
By Adp- Tetrafluoroaluminate
pdb|1M34|I Chain I, Nitrogenase Complex From Azotobacter Vinelandii Stabilized
By Adp- Tetrafluoroaluminate
pdb|1M34|K Chain K, Nitrogenase Complex From Azotobacter Vinelandii Stabilized
By Adp- Tetrafluoroaluminate
pdb|2AFH|A Chain A, Crystal Structure Of Nucleotide-Free Av2-Av1 Complex
pdb|2AFH|C Chain C, Crystal Structure Of Nucleotide-Free Av2-Av1 Complex
pdb|2AFI|A Chain A, Crystal Structure Of Mgadp Bound Av2-Av1 Complex
pdb|2AFI|C Chain C, Crystal Structure Of Mgadp Bound Av2-Av1 Complex
pdb|2AFI|I Chain I, Crystal Structure Of Mgadp Bound Av2-Av1 Complex
pdb|2AFI|K Chain K, Crystal Structure Of Mgadp Bound Av2-Av1 Complex
pdb|2AFK|A Chain A, Crystal Structure Of Mgamppcp-Bound Av2-Av1 Complex
pdb|2AFK|C Chain C, Crystal Structure Of Mgamppcp-Bound Av2-Av1 Complex
Length = 491
Score = 32.7 bits (73), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 30/131 (22%), Positives = 54/131 (41%), Gaps = 14/131 (10%)
Query: 251 CNKQKSSPQDVTESTKKPKEFQQYEHSPEFLSGGSLHPYQLEGLNFLRFSWSKQTHVILA 310
C Q S ++E PK H ++ S H + G+ ++ +++
Sbjct: 248 CVAQWSGDGSISEIELTPKVKLNLVHCYRSMNYISRHMEEKYGIPWMEYNF--------- 298
Query: 311 DEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLRNWEREFATWAPQM---NVVMYVGT 367
G KTI+S+ +A+ F E I WE A + P++ V++Y+G
Sbjct: 299 --FGPTKTIESLRAIAAKFDESIQKKCEEVIAKYKPEWEAVVAKYRPRLEGKRVMLYIGG 356
Query: 368 SQARNIIREYE 378
+ R++I YE
Sbjct: 357 LRPRHVIGAYE 367
>pdb|3I91|A Chain A, Crystal Structure Of Human Chromobox Homolog 8 (Cbx8) With
H3k9 Peptide
pdb|3I91|B Chain B, Crystal Structure Of Human Chromobox Homolog 8 (Cbx8) With
H3k9 Peptide
Length = 54
Score = 32.7 bits (73), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 14/25 (56%), Positives = 17/25 (68%)
Query: 132 QYLVKWKGLSYLHCTWVPEKEFLKA 156
+YLVKWKG S + TW PE+ L A
Sbjct: 20 EYLVKWKGWSQKYSTWEPEENILDA 44
>pdb|2D9U|A Chain A, Solution Structure Of The Chromo Domain Of Chromobox
Homolog 2 From Human
Length = 74
Score = 32.7 bits (73), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 15/32 (46%), Positives = 20/32 (62%), Gaps = 5/32 (15%)
Query: 132 QYLVKWKGLSYLHCTWVPEKEFLKAFKSNPRL 163
+YLVKW+G S H +W PE+ L +PRL
Sbjct: 27 EYLVKWRGWSSKHNSWEPEENIL-----DPRL 53
>pdb|3I90|A Chain A, Crystal Structure Of Human Chromobox Homolog 6 (Cbx6) With
H3k27 Peptide
pdb|3I90|B Chain B, Crystal Structure Of Human Chromobox Homolog 6 (Cbx6) With
H3k27 Peptide
Length = 51
Score = 31.6 bits (70), Expect = 3.2, Method: Composition-based stats.
Identities = 12/25 (48%), Positives = 17/25 (68%)
Query: 132 QYLVKWKGLSYLHCTWVPEKEFLKA 156
+YLVKWKG + + TW PE+ L +
Sbjct: 19 EYLVKWKGWAIKYSTWEPEENILDS 43
>pdb|1X41|A Chain A, Solution Structure Of The Myb-Like Dna Binding Domain Of
Human Transcriptional Adaptor 2-Like, Isoform B
Length = 60
Score = 31.6 bits (70), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 14/51 (27%), Positives = 26/51 (50%), Gaps = 1/51 (1%)
Query: 1084 WKEEHDSLLLRAVLKHGYGRWQAIVDDKDLKVQEVICQELNLPFINLPVPG 1134
W + + LL AV+ G+G WQ + + K +E C++ + + + P G
Sbjct: 11 WTAQEEMALLEAVMDCGFGNWQDVANQMCTKTKEE-CEKHYMKYFSGPSSG 60
>pdb|4A15|A Chain A, Crystal Structure Of An Xpd Dna Complex
Length = 620
Score = 31.6 bits (70), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 20/34 (58%)
Query: 289 YQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSI 322
YQ+E ++FLR S K V L G GKTI ++
Sbjct: 7 YQVEAIDFLRSSLQKSYGVALESPTGSGKTIMAL 40
>pdb|2EPB|A Chain A, Solution Structure Of Chromo Domain 2 In Chromodomain-
Helicase-Dna-Binding Protein 6
Length = 68
Score = 31.2 bits (69), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 24/48 (50%), Gaps = 6/48 (12%)
Query: 188 RPEWTTVDRILACRGEDDEK------EYLVKYKELSYDECYWEYESDI 229
P++ VDRIL D + YLVK+ L Y+E WE E D+
Sbjct: 8 NPDYVEVDRILEVAHTKDAETGEEVTHYLVKWCSLPYEESTWELEEDV 55
>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 = 30.8 bits (68), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 15/32 (46%), Positives = 20/32 (62%), Gaps = 5/32 (15%)
Query: 132 QYLVKWKGLSYLHCTWVPEKEFLKAFKSNPRL 163
+YLVKW+G S H +W PE+ L +PRL
Sbjct: 20 EYLVKWRGWSSKHNSWEPEENIL-----DPRL 46
>pdb|2KVM|A Chain A, Solution Structure Of The Cbx7 Chromodomain In Complex
With A H3k27me2 Peptide
Length = 74
Score = 30.8 bits (68), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 15/32 (46%), Positives = 19/32 (59%), Gaps = 5/32 (15%)
Query: 132 QYLVKWKGLSYLHCTWVPEKEFLKAFKSNPRL 163
+YLVKWKG + TW PE+ L +PRL
Sbjct: 30 EYLVKWKGWPPKYSTWEPEEHIL-----DPRL 56
>pdb|3I8Z|A Chain A, Crystal Structure Of Human Chromobox Homolog 4 (Cbx4)
Length = 55
Score = 30.8 bits (68), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 22/41 (53%), Gaps = 5/41 (12%)
Query: 132 QYLVKWKGLSYLHCTWVPEKEFLKAFKSNPRLRTKVNNFHR 172
+YLVKW+G S + TW PE+ L +PRL N R
Sbjct: 20 EYLVKWRGWSPKYNTWEPEENIL-----DPRLLIAFQNRER 55
>pdb|2HJV|A Chain A, Structure Of The Second Domain (Residues 207-368) Of The
Bacillus Subtilis Yxin Protein
pdb|2HJV|B Chain B, Structure Of The Second Domain (Residues 207-368) Of The
Bacillus Subtilis Yxin Protein
Length = 163
Score = 30.8 bits (68), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 25/113 (22%), Positives = 46/113 (40%), Gaps = 3/113 (2%)
Query: 618 VKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSR 677
V + E +I+ + + ++ L D L + ++I G G ++ R D N
Sbjct: 29 VLMTENPDSCIIFCRTKEHVNQLTDELDDLGYPCDKIHG---GMIQEDRFDVMNEFKRGE 85
Query: 678 FCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIF 730
+ +L++T GI++ VI YD + + R R G K + F
Sbjct: 86 YRYLVATDVAARGIDIENISLVINYDLPLEKESYVHRTGRTGRAGNKGKAISF 138
>pdb|3GV6|A Chain A, Crystal Structure Of Human Chromobox Homolog 6 (Cbx6) With
H3k9 Peptide
Length = 58
Score = 30.4 bits (67), Expect = 6.7, Method: Composition-based stats.
Identities = 16/38 (42%), Positives = 21/38 (55%), Gaps = 5/38 (13%)
Query: 132 QYLVKWKGLSYLHCTWVPEKEFLK-----AFKSNPRLR 164
+YLVKWKG + + TW PE+ L AF+ R R
Sbjct: 20 EYLVKWKGWAIKYSTWEPEENILDSRLIAAFEQKERER 57
>pdb|2K1B|A Chain A, Solution Nmr Structure Of The Chromo Domain Of The
Chromobox Protein Homolog 7
Length = 73
Score = 30.4 bits (67), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 15/32 (46%), Positives = 19/32 (59%), Gaps = 5/32 (15%)
Query: 132 QYLVKWKGLSYLHCTWVPEKEFLKAFKSNPRL 163
+YLVKWKG + TW PE+ L +PRL
Sbjct: 38 EYLVKWKGWPPKYSTWEPEEHIL-----DPRL 64
>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 = 30.4 bits (67), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 15/32 (46%), Positives = 19/32 (59%), Gaps = 5/32 (15%)
Query: 132 QYLVKWKGLSYLHCTWVPEKEFLKAFKSNPRL 163
+YLVKWKG + TW PE+ L +PRL
Sbjct: 21 EYLVKWKGWPPKYSTWEPEEHIL-----DPRL 47
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 30.4 bits (67), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 33/73 (45%), Gaps = 3/73 (4%)
Query: 654 IDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQ 713
+ G + GA+R +D F S L++T GI+++ + V+ YD +
Sbjct: 387 LTGNLEGAQRDAIMDSFRVGTSK---VLVTTNVIARGIDVSQVNLVVNYDMPLDQAGRPD 443
Query: 714 AMARAHRLGQTNK 726
HR+G+T +
Sbjct: 444 PQTYLHRIGRTGR 456
>pdb|2EC6|A Chain A, Placopecten Striated Muscle Myosin Ii
Length = 838
Score = 30.4 bits (67), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 25/97 (25%), Positives = 45/97 (46%), Gaps = 13/97 (13%)
Query: 461 LLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHRMLAPHLLRRV 520
+LTG + + L F AG G+LEE ++E++S++ M H+ +
Sbjct: 745 ILTGLQMDPSEYRLGTTKVFFKAGVLGNLEEM--------RDERLSKIISMFQAHIRGYL 796
Query: 521 KKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQ 557
+ K+L + R+ LS Q+ K ++ RN+Q
Sbjct: 797 IRKAYKKLQDQ-----RIGLSVIQRNIRKWLVLRNWQ 828
>pdb|2OS8|A Chain A, Rigor-Like Structures Of Muscle Myosins Reveal Key
Mechanical Elements In The Transduction Pathways Of This
Allosteric Motor
pdb|2OTG|A Chain A, Rigor-Like Structures Of Muscle Myosins Reveal Key
Mechanical Elements In The Transduction Pathways Of This
Allosteric Motor
Length = 840
Score = 30.0 bits (66), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 25/97 (25%), Positives = 45/97 (46%), Gaps = 13/97 (13%)
Query: 461 LLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHRMLAPHLLRRV 520
+LTG + + L F AG G+LEE ++E++S++ M H+ +
Sbjct: 744 ILTGLQMDPSEYRLGTTKVFFKAGVLGNLEEM--------RDERLSKIISMFQAHIRGYL 795
Query: 521 KKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQ 557
+ K+L + R+ LS Q+ K ++ RN+Q
Sbjct: 796 IRKAYKKLQDQ-----RIGLSVIQRNIRKWLVLRNWQ 827
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
0.316 0.133 0.386
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 39,978,673
Number of Sequences: 62578
Number of extensions: 1602464
Number of successful extensions: 4109
Number of sequences better than 100.0: 87
Number of HSP's better than 100.0 without gapping: 65
Number of HSP's successfully gapped in prelim test: 22
Number of HSP's that attempted gapping in prelim test: 3963
Number of HSP's gapped (non-prelim): 131
length of query: 1462
length of database: 14,973,337
effective HSP length: 111
effective length of query: 1351
effective length of database: 8,027,179
effective search space: 10844718829
effective search space used: 10844718829
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 58 (26.9 bits)