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= 000464
(1479 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1Z3I|X Chain X, Structure Of The Swi2SNF2 CHROMATIN REMODELING DOMAIN OF
EUKARYOTIC Rad54
Length = 644
Score = 254 bits (648), Expect = 3e-67, Method: Compositional matrix adjust.
Identities = 187/631 (29%), Positives = 310/631 (49%), Gaps = 93/631 (14%)
Query: 688 GASIEVLGDAITGY-IVNVVREKGEEAVRIPSSISAKLKAHQVVGIRFMWENIIQSIRKV 746
GA + AI+ + ++ +EK V + +S L+ HQ G++F+W+ + + R++
Sbjct: 19 GALVLYEPPAISAHDLIKADKEKLPVHVVVDPVLSKVLRPHQREGVKFLWDCV--TGRRI 76
Query: 747 KSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRS---VNLGLRTALIVTPVNVLHNWKQEF 803
++ GCI+A MGLGKT Q I ++T ++ + ++V+P +++ NW E
Sbjct: 77 ENS---YGCIMADEMGLGKTLQCITLIWTLLKQSPDCKPEIDKVIVVSPSSLVRNWYNEV 133
Query: 804 MKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGG------VFLIGYTAFRNLSFGKHV 857
KW ++P+ + + S+D L + ++ G + +I Y FR
Sbjct: 134 GKWLGGRVQPVAI---DGGSKDEIDSKLVNFISQQGMRIPTPILIISYETFR-------- 182
Query: 858 KDRNMAREICHALQDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLM 917
+ E+ H + G +++CDE H +KN+ T AL + QRR+ ++G+P+QN+L+
Sbjct: 183 ----LHAEVLHKGKVG--LVICDEGHRLKNSDNQTYLALNSMNAQRRVLISGTPIQNDLL 236
Query: 918 EYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNSTSEDVKIMNQRSHILYEQLKGFVQ 977
EY+ +V FV G LG++ EF+ RF+ PI G+ +++ +D Q+ L + +
Sbjct: 237 EYFSLVHFVNSGILGTAQEFKKRFEIPILKGRDADASDKDRAAGEQKLQELISIVNRCLI 296
Query: 978 RMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSFFAGYQA 1037
R +++ K LP K V+ L+PLQ+ LYK FL + + KI S + +
Sbjct: 297 RRTSDILSKYLPVKIEQVVCCNLTPLQKELYKLFLK-QAKPVESLQTGKISVSSLSSITS 355
Query: 1038 LAQIWNHPGILQ---LTKDKGYPSRXXXXXXXXXXNMDYNVVIGEKPRNMNDFLQGKNDD 1094
L ++ NHP ++ LT ++G+ G D
Sbjct: 356 LKKLCNHPALIYEKCLTGEEGF--------------------------------DGALD- 382
Query: 1095 GFFQKDWWNDLLHEHTYKELDYSGKMVLLLDILTMC-SNMGDKSLVFSQSIPTLDLIEFY 1153
F +++ + E SGKM++L IL M + DK ++ S TLDL E
Sbjct: 383 -LFPQNYSTKAV------EPQLSGKMLVLDYILAMTRTTTSDKVVLVSNYTQTLDLFE-- 433
Query: 1154 LSKLPRPGKQGKLWKKGKDWY-RLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSL 1212
KL + + Y RLDG +R K+VERFN P + ++S++AG
Sbjct: 434 -----------KLCRNRRYLYVRLDGTMSIKKRAKIVERFNNPSSPEF-IFMLSSKAGGC 481
Query: 1213 GINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYKRQVTK 1272
G+NL ANR+++ D WNP D QA+ R WR GQ K + YRL++ GT+EEKI +RQ K
Sbjct: 482 GLNLIGANRLVMFDPDWNPANDEQAMARVWRDGQKKTCYIYRLLSTGTIEEKILQRQAHK 541
Query: 1273 EGLAARVVDRQQ-VHRTISKEEMLHLFEFGD 1302
+ L++ VVD +Q V R S E+ LF +
Sbjct: 542 KALSSCVVDEEQDVERHFSLGELRELFSLNE 572
>pdb|3MWY|W Chain W, Crystal Structure Of The Chromodomain-atpase Portion Of The
Yeast Chd1 Chromatin Remodeler
Length = 800
Score = 179 bits (454), Expect = 1e-44, Method: Compositional matrix adjust.
Identities = 173/583 (29%), Positives = 252/583 (43%), Gaps = 118/583 (20%)
Query: 713 AVRIPSSISAKLKAHQVVGIR---FMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQV 769
+V+ P +L+ Q+ GI F+W GD G ILA MGLGKT Q
Sbjct: 226 SVQPPFIKGGELRDFQLTGINWMAFLW----------SKGDNG---ILADEMGLGKTVQT 272
Query: 770 IAF---LYTAMRSVNLGLRTALIVTPVNVLHNWKQEFMKWRPSELKPLRVFMLEDVSRD- 825
+AF L A R +IV P++ + W F KW P +L + +M SRD
Sbjct: 273 VAFISWLIFARRQNG----PHIIVVPLSTMPAWLDTFEKWAP-DLNCI-CYMGNQKSRDT 326
Query: 826 -RRAELLAKWRAKG------GVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILV 878
R E RAKG V L Y +KDR I +
Sbjct: 327 IREYEFYTNPRAKGKKTMKFNVLLTTYEYI--------LKDRAELGSIKWQF------MA 372
Query: 879 CDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFR 938
DEAH +KN + ++L K R+ +TG+PLQNN+ E +V+F+ G E
Sbjct: 373 VDEAHRLKNAESSLYESLNSFKVANRMLITGTPLQNNIKELAALVNFLMPGRFTIDQEID 432
Query: 939 NRFQNPIENGQHTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITV 998
F+N E + + H L+ +++ F+ R V+K LP KT ++ V
Sbjct: 433 --FENQDEEQE-------------EYIHDLHRRIQPFILRRLKKDVEKSLPSKTERILRV 477
Query: 999 KLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSFFAGYQALAQIWNHPGILQLTKDKGYPS 1058
+LS +Q YK L + + G+ +L I N +L K +P
Sbjct: 478 ELSDVQTEYYKNIL--------TKNYSALTAGAKGGHFSLLNIMN-----ELKKASNHPY 524
Query: 1059 RXXXXXXXXXXNMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYKELDYS- 1117
+ + R + F GK + E+ + L S
Sbjct: 525 ----------------LFDNAEERVLQKFGDGK-------------MTRENVLRGLIMSS 555
Query: 1118 GKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLD 1177
GKMVLL +LT G + L+FSQ + LD++ YLS KG ++ RLD
Sbjct: 556 GKMVLLDQLLTRLKKDGHRVLIFSQMVRMLDILGDYLSI------------KGINFQRLD 603
Query: 1178 GRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQA 1237
G S++R+ ++ FN P + L+STRAG LGINL +A+ V+I D WNP DLQA
Sbjct: 604 GTVPSAQRRISIDHFNSP-DSNDFVFLLSTRAGGLGINLMTADTVVIFDSDWNPQADLQA 662
Query: 1238 IYRAWRYGQTKPVFAYRLMAHGTMEEKIYKRQVTKEGLAARVV 1280
+ RA R GQ V YRL++ T+EE++ +R K L ++
Sbjct: 663 MARAHRIGQKNHVMVYRLVSKDTVEEEVLERARKKMILEYAII 705
>pdb|1Z6A|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE DOMAIN
Length = 500
Score = 111 bits (278), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 96/337 (28%), Positives = 157/337 (46%), Gaps = 56/337 (16%)
Query: 717 PSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTA 776
P +I A L+ +Q+ G F W + + G G LA MGLGKT Q IA A
Sbjct: 31 PYNIKANLRPYQIKG--FSWMRFMNKL--------GFGICLADDMGLGKTLQTIAVFSDA 80
Query: 777 MRSVNLGLRTALIVTPVNVLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRA 836
+ L +L++ P++VL NW++E K+ P LR + + DR L +
Sbjct: 81 KKENEL--TPSLVICPLSVLKNWEEELSKFAPH----LRFAVFHE---DRSKIKLEDY-- 129
Query: 837 KGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHMIKNTRADTTQAL 896
+ L Y + K V+ + +V DEA IKN + +A+
Sbjct: 130 --DIILTTYAVLLRDTRLKEVEWK---------------YIVIDEAQNIKNPQTKIFKAV 172
Query: 897 KQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNSTSE 956
K++K + RIALTG+P++N + + + ++ F+ G LGS EF+++F PI+ G N E
Sbjct: 173 KELKSKYRIALTGTPIENKVDDLWSIMTFLNPGLLGSYSEFKSKFATPIKKGD--NMAKE 230
Query: 957 DVKIMNQRSHILYEQLKGFVQR---MDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLD 1013
++K + + F+ R D ++ DLP K + L+P Q +YK ++
Sbjct: 231 ELKAI----------ISPFILRRTKYDKAII-NDLPDKIETNVYCNLTPEQAAMYKAEVE 279
Query: 1014 LHGFTN-DRVSNEKIRKSFFAGYQALAQIWNHPGILQ 1049
+ F N D V+ K + + L QI +HP +L+
Sbjct: 280 -NLFNNIDSVTGIKRKGMILSTLLKLKQIVDHPALLK 315
Score = 86.3 bits (212), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 58/169 (34%), Positives = 89/169 (52%), Gaps = 24/169 (14%)
Query: 1117 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSK---LPRPGKQGKLWKKGKDW 1173
SGKM+ ++I+ + GDK +F+Q + +I + K P G+L KK
Sbjct: 324 SGKMIRTMEIIEEALDEGDKIAIFTQFVDMGKIIRNIIEKELNTEVPFLYGELSKK---- 379
Query: 1174 YRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTY 1233
ER ++ +F N VK ++S +AG GINL SANRVI D WNP
Sbjct: 380 ----------ERDDIISKFQN--NPSVKFIVLSVKAGGFGINLTSANRVIHFDRWWNPAV 427
Query: 1234 DLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKI-----YKRQVTKEGLAA 1277
+ QA R +R GQT+ V ++L++ GT+EEKI +KR + K+ +++
Sbjct: 428 EDQATDRVYRIGQTRNVIVHKLISVGTLEEKIDQLLAFKRSLFKDIISS 476
>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 = 108 bits (269), Expect = 3e-23, Method: Compositional matrix adjust.
Identities = 95/337 (28%), Positives = 153/337 (45%), Gaps = 56/337 (16%)
Query: 717 PSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTA 776
P +I A L+ +Q+ G F W + G G LA GLGKT Q IA A
Sbjct: 31 PYNIKANLRPYQIKG--FSWXRFXNKL--------GFGICLADDXGLGKTLQTIAVFSDA 80
Query: 777 MRSVNLGLRTALIVTPVNVLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRA 836
+ L +L++ P++VL NW++E K+ P LR + + DR L +
Sbjct: 81 KKENEL--TPSLVICPLSVLKNWEEELSKFAPH----LRFAVFHE---DRSKIKLEDY-- 129
Query: 837 KGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHMIKNTRADTTQAL 896
+ L Y + K V+ + +V DEA IKN + +A+
Sbjct: 130 --DIILTTYAVLLRDTRLKEVEWK---------------YIVIDEAQNIKNPQTKIFKAV 172
Query: 897 KQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNSTSE 956
K++K + RIALTG+P++N + + + + F+ G LGS EF+++F PI+ G N E
Sbjct: 173 KELKSKYRIALTGTPIENKVDDLWSIXTFLNPGLLGSYSEFKSKFATPIKKGD--NXAKE 230
Query: 957 DVKIMNQRSHILYEQLKGFVQR---MDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLD 1013
++K + + F+ R D ++ DLP K + L+P Q YK ++
Sbjct: 231 ELKAI----------ISPFILRRTKYDKAII-NDLPDKIETNVYCNLTPEQAAXYKAEVE 279
Query: 1014 LHGFTN-DRVSNEKIRKSFFAGYQALAQIWNHPGILQ 1049
+ F N D V+ K + + L QI +HP +L+
Sbjct: 280 -NLFNNIDSVTGIKRKGXILSTLLKLKQIVDHPALLK 315
Score = 82.8 bits (203), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 57/169 (33%), Positives = 87/169 (51%), Gaps = 24/169 (14%)
Query: 1117 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSK---LPRPGKQGKLWKKGKDW 1173
SGK + +I+ + GDK +F+Q + +I + K P G+L KK
Sbjct: 324 SGKXIRTXEIIEEALDEGDKIAIFTQFVDXGKIIRNIIEKELNTEVPFLYGELSKK---- 379
Query: 1174 YRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTY 1233
ER ++ +F N VK ++S +AG GINL SANRVI D WNP
Sbjct: 380 ----------ERDDIISKFQN--NPSVKFIVLSVKAGGFGINLTSANRVIHFDRWWNPAV 427
Query: 1234 DLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKI-----YKRQVTKEGLAA 1277
+ QA R +R GQT+ V ++L++ GT+EEKI +KR + K+ +++
Sbjct: 428 EDQATDRVYRIGQTRNVIVHKLISVGTLEEKIDQLLAFKRSLFKDIISS 476
>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 = 87.8 bits (216), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 58/169 (34%), Positives = 89/169 (52%), Gaps = 24/169 (14%)
Query: 1117 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSK---LPRPGKQGKLWKKGKDW 1173
SGKM+ ++I+ + GDK +F+Q + +I + K P G+L KK
Sbjct: 95 SGKMIRTMEIIEEALDEGDKIAIFTQFVDMGKIIRNIIEKELNTEVPFLYGELSKK---- 150
Query: 1174 YRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTY 1233
ER ++ +F N VK ++S +AG GINL SANRVI D WNP
Sbjct: 151 ----------ERDDIISKFQN--NPSVKFIVLSVKAGGFGINLTSANRVIHFDRWWNPAV 198
Query: 1234 DLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKI-----YKRQVTKEGLAA 1277
+ QA R +R GQT+ V ++L++ GT+EEKI +KR + K+ +++
Sbjct: 199 EDQATDRVYRIGQTRNVIVHKLISVGTLEEKIDQLLAFKRSLFKDIISS 247
>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 = 60.1 bits (144), Expect = 8e-09, Method: Composition-based stats.
Identities = 32/108 (29%), Positives = 48/108 (44%), Gaps = 6/108 (5%)
Query: 493 CTACNNVA-----IEVHPHPILNVIVCKDCKCLLEKKMHVKDADCSECYCVWCGRSSDLV 547
CTAC ++ HP L V++CK+C +D+D + C WC +L+
Sbjct: 11 CTACGQQVNHFQKDSIYRHPSLQVLICKNCFKYYMSDDISRDSDGMDEQCRWCAEGGNLI 70
Query: 548 SCKSCKTLFCTTCVKRNISEACLSDEV-QASCWQCCCCSPSLLKRLTS 594
C C FC C+ RN+ LS + + + W C C P L L +
Sbjct: 71 CCDFCHNAFCKKCILRNLGRRELSTIMDENNQWYCYICHPEPLLDLVT 118
>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 = 45.8 bits (107), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 34/110 (30%), Positives = 47/110 (42%), Gaps = 10/110 (9%)
Query: 493 CTACNNVAIE-----VHPHPILNVIVCKDCKCLLEKKMHVKDADCSECYCVWCGRSSDLV 547
CTAC ++ HP L V++CK+C +D+D + C WC +L+
Sbjct: 17 CTACGQQVNHFQKDSIYRHPSLQVLICKNCFKYYMSDDISRDSDGMDEQCRWCAEGGNLI 76
Query: 548 SCKSCKTLFCTTCVKRNISEACLS---DEVQASCWQCCCCSPSLLKRLTS 594
C C FC C+ RN+ LS DE W C C P L L +
Sbjct: 77 CCDFCHNAFCKKCILRNLGRKELSTIMDENNQ--WYCYICHPEPLLDLVT 124
>pdb|2JM1|A Chain A, Structures And Chemical Shift Assignments For The Add
Domain Of The Atrx Protein
Length = 141
Score = 45.4 bits (106), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 34/110 (30%), Positives = 47/110 (42%), Gaps = 10/110 (9%)
Query: 493 CTACNNVAIE-----VHPHPILNVIVCKDCKCLLEKKMHVKDADCSECYCVWCGRSSDLV 547
CTAC ++ HP L V++CK+C +D+D + C WC +L+
Sbjct: 16 CTACGQQVNHFQKDSIYRHPSLQVLICKNCFKYYMSDDISRDSDGMDEQCRWCAEGGNLI 75
Query: 548 SCKSCKTLFCTTCVKRNISEACLS---DEVQASCWQCCCCSPSLLKRLTS 594
C C FC C+ RN+ LS DE W C C P L L +
Sbjct: 76 CCDFCHNAFCKKCILRNLGRKELSTIMDENNQ--WYCYICHPEPLLDLVT 123
>pdb|3A1A|A Chain A, Crystal Structure Of The Dnmt3a Add Domain
Length = 144
Score = 43.5 bits (101), Expect = 8e-04, Method: Composition-based stats.
Identities = 24/95 (25%), Positives = 41/95 (43%), Gaps = 5/95 (5%)
Query: 493 CTACNNVAIEVHPHPILNVIVCKDCK-CLLEKKMHVKDADCSECYCVWCGRSSDLVSC-- 549
C +C ++ + + HP+ +C++CK C LE D D + YC C +++ C
Sbjct: 24 CISCGSLNVTLE-HPLFVGGMCQNCKNCFLECAYQYDD-DGYQSYCTICCGGREVLMCGN 81
Query: 550 KSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCC 584
+C FC CV + ++ W C C
Sbjct: 82 NNCCRCFCVECVDLLVGPGAAQAAIKEDPWNCYMC 116
>pdb|3A1B|A Chain A, Crystal Structure Of The Dnmt3a Add Domain In Complex With
Histone H3
Length = 159
Score = 43.1 bits (100), Expect = 0.001, Method: Composition-based stats.
Identities = 24/95 (25%), Positives = 41/95 (43%), Gaps = 5/95 (5%)
Query: 493 CTACNNVAIEVHPHPILNVIVCKDCK-CLLEKKMHVKDADCSECYCVWCGRSSDLVSC-- 549
C +C ++ + + HP+ +C++CK C LE D D + YC C +++ C
Sbjct: 39 CISCGSLNVTLE-HPLFVGGMCQNCKNCFLECAYQYDD-DGYQSYCTICCGGREVLMCGN 96
Query: 550 KSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCC 584
+C FC CV + ++ W C C
Sbjct: 97 NNCCRCFCVECVDLLVGPGAAQAAIKEDPWNCYMC 131
>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 = 39.7 bits (91), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 27/105 (25%), Positives = 39/105 (37%), Gaps = 7/105 (6%)
Query: 493 CTACNNVAIEVHPHPILNVIVCKDCKCLLEKKMHVKDADCSECYCVWCGRSSDLVSC--K 550
C C ++ + HP+ +C CK + + D D + YC C L+ C
Sbjct: 53 CICCGSLQVHTQ-HPLFEGGICAPCKDKFLDALFLYDDDGYQSYCSICCSGETLLICGNP 111
Query: 551 SCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS----LLKR 591
C +C CV + S W C C PS LL+R
Sbjct: 112 DCTRCYCFECVDSLVGPGTSGKVHAMSNWVCYLCLPSSRSGLLQR 156
>pdb|3PEW|A Chain A, S. Cerevisiae Dbp5 L327v Bound To Rna And Adp Bef3
pdb|3RRM|A Chain A, S. Cerevisiae Dbp5 L327v Bound To Nup159, Gle1 H337r, Ip6
And Adp
pdb|3RRN|A Chain A, S. Cerevisiae Dbp5 L327v Bound To Gle1 H337r And Ip6
Length = 395
Score = 38.5 bits (88), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 32/126 (25%), Positives = 58/126 (46%), Gaps = 13/126 (10%)
Query: 1130 CSNMGDKSLVFSQSIPTLDL---IEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQ 1186
C N DK V ++ + + I F +K GKL +G + L G ++ ER
Sbjct: 224 CKNEADKFDVLTELYGVMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERD 283
Query: 1187 KLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVI------IVDGSWNPTYDLQAIYR 1240
+L++ F E +K LI+T + GI++ + + V+ + +G +P + I R
Sbjct: 284 RLIDDFREGRSK----VLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGR 339
Query: 1241 AWRYGQ 1246
R+G+
Sbjct: 340 TGRFGR 345
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 38.1 bits (87), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 32/126 (25%), Positives = 58/126 (46%), Gaps = 13/126 (10%)
Query: 1130 CSNMGDKSLVFSQSIPTLDL---IEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQ 1186
C N DK V ++ + + I F +K GKL +G + L G ++ ER
Sbjct: 16 CKNEADKFDVLTELYGLMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERD 75
Query: 1187 KLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVI------IVDGSWNPTYDLQAIYR 1240
+L++ F E +K LI+T + GI++ + + V+ + +G +P + I R
Sbjct: 76 RLIDDFREGRSK----VLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGR 131
Query: 1241 AWRYGQ 1246
R+G+
Sbjct: 132 TGRFGR 137
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 38.1 bits (87), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 32/126 (25%), Positives = 58/126 (46%), Gaps = 13/126 (10%)
Query: 1130 CSNMGDKSLVFSQSIPTLDL---IEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQ 1186
C N DK V ++ + + I F +K GKL +G + L G ++ ER
Sbjct: 224 CKNEADKFDVLTELYGLMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERD 283
Query: 1187 KLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVI------IVDGSWNPTYDLQAIYR 1240
+L++ F E +K LI+T + GI++ + + V+ + +G +P + I R
Sbjct: 284 RLIDDFREGRSK----VLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGR 339
Query: 1241 AWRYGQ 1246
R+G+
Sbjct: 340 TGRFGR 345
>pdb|3PEU|A Chain A, S. Cerevisiae Dbp5 L327v C-Terminal Domain Bound To Gle1
H337r And Ip6
pdb|3PEV|A Chain A, S. Cerevisiae Dbp5 L327v C-Terminal Domain Bound To Gle1 And
Ip6
Length = 188
Score = 35.4 bits (80), Expect = 0.21, Method: Composition-based stats.
Identities = 33/126 (26%), Positives = 59/126 (46%), Gaps = 13/126 (10%)
Query: 1130 CSNMGDKSLVFSQ--SIPTL-DLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQ 1186
C N DK V ++ + T+ I F +K GKL +G + L G ++ ER
Sbjct: 17 CKNEADKFDVLTELYGVXTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERD 76
Query: 1187 KLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVI------IVDGSWNPTYDLQAIYR 1240
+L++ F E +K LI+T + GI++ + + V+ + +G +P + I R
Sbjct: 77 RLIDDFREGRSK----VLITTNVLARGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGR 132
Query: 1241 AWRYGQ 1246
R+G+
Sbjct: 133 TGRFGR 138
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 35.4 bits (80), Expect = 0.27, Method: Composition-based stats.
Identities = 24/89 (26%), Positives = 45/89 (50%), Gaps = 10/89 (11%)
Query: 1164 GKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVI 1223
GKL +G + L G ++ ER +L++ F E +K LI+T + GI++ + + V+
Sbjct: 55 GKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSK----VLITTNVLARGIDIPTVSXVV 110
Query: 1224 ------IVDGSWNPTYDLQAIYRAWRYGQ 1246
+ +G +P + I R R+G+
Sbjct: 111 NYDLPTLANGQADPATYIHRIGRTGRFGR 139
>pdb|1IOO|A Chain A, Crystal Structure Of Nicotiana Alata Gemetophytic
Self-incompatibility Associated Sf11-rnase
pdb|1IOO|B Chain B, Crystal Structure Of Nicotiana Alata Gemetophytic
Self-incompatibility Associated Sf11-rnase
Length = 196
Score = 33.9 bits (76), Expect = 0.64, Method: Composition-based stats.
Identities = 23/74 (31%), Positives = 40/74 (54%), Gaps = 2/74 (2%)
Query: 1244 YGQT-KPVFAYRLMAHGTMEEKIYKRQVTKEGLAARVVDRQQVHRTISKEEMLHLFEFGD 1302
YG+T +P + Y+ + HG+ +K Y Q T GLA R+ D+ + RT+ ++ +
Sbjct: 76 YGRTEQPSWKYQYIKHGSCCQKRYN-QNTYFGLALRLKDKFDLLRTLQTHRIIPGSSYTF 134
Query: 1303 DENPDPLTAVSKEN 1316
+ D + VS+EN
Sbjct: 135 QDIFDAIKTVSQEN 148
>pdb|4H1Z|A Chain A, Crystal Structure Of Putative Isomerase From Sinorhizobium
Meliloti, Open Loop Conformation (Target Efi-502104)
pdb|4H1Z|B Chain B, Crystal Structure Of Putative Isomerase From Sinorhizobium
Meliloti, Open Loop Conformation (Target Efi-502104)
pdb|4H1Z|C Chain C, Crystal Structure Of Putative Isomerase From Sinorhizobium
Meliloti, Open Loop Conformation (Target Efi-502104)
pdb|4H1Z|D Chain D, Crystal Structure Of Putative Isomerase From Sinorhizobium
Meliloti, Open Loop Conformation (Target Efi-502104)
pdb|4H1Z|E Chain E, Crystal Structure Of Putative Isomerase From Sinorhizobium
Meliloti, Open Loop Conformation (Target Efi-502104)
pdb|4H1Z|F Chain F, Crystal Structure Of Putative Isomerase From Sinorhizobium
Meliloti, Open Loop Conformation (Target Efi-502104)
pdb|4H1Z|G Chain G, Crystal Structure Of Putative Isomerase From Sinorhizobium
Meliloti, Open Loop Conformation (Target Efi-502104)
pdb|4H1Z|H Chain H, Crystal Structure Of Putative Isomerase From Sinorhizobium
Meliloti, Open Loop Conformation (Target Efi-502104)
Length = 412
Score = 32.0 bits (71), Expect = 2.6, Method: Composition-based stats.
Identities = 22/65 (33%), Positives = 34/65 (52%), Gaps = 13/65 (20%)
Query: 819 LEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQD--GPDI 876
L + +R +RAEL A W+AKG F + F V D +A+E+ L++ GP +
Sbjct: 184 LPEDTRAKRAELAAAWQAKG---------FSSFKFASPVADDGVAKEM-EILRERLGPAV 233
Query: 877 -LVCD 880
+ CD
Sbjct: 234 RIACD 238
>pdb|3PRX|B Chain B, Structure Of Complement C5 In Complex With Cvf And Ssl7
pdb|3PRX|D Chain D, Structure Of Complement C5 In Complex With Cvf And Ssl7
pdb|3PVM|B Chain B, Structure Of Complement C5 In Complex With Cvf
pdb|3PVM|D Chain D, Structure Of Complement C5 In Complex With Cvf
Length = 1642
Score = 31.6 bits (70), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 19/42 (45%), Positives = 22/42 (52%), Gaps = 5/42 (11%)
Query: 871 QDGPDILVCDEAHMIK-----NTRADTTQALKQVKCQRRIAL 907
QDG DI V D +IK N RA T Q + Q KCQ + L
Sbjct: 1534 QDGNDIYVMDVLEVIKQGTDENPRAKTHQYISQRKCQEALNL 1575
>pdb|3FRP|B Chain B, Crystal Structure Of Cobra Venom Factor, A Co-Factor For
C3- And C5 Convertase Cvfbb
pdb|3HRZ|C Chain C, Cobra Venom Factor (Cvf) In Complex With Human Factor B
pdb|3HS0|C Chain C, Cobra Venom Factor (Cvf) In Complex With Human Factor B
pdb|3HS0|H Chain H, Cobra Venom Factor (Cvf) In Complex With Human Factor B
Length = 379
Score = 31.2 bits (69), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 19/42 (45%), Positives = 22/42 (52%), Gaps = 5/42 (11%)
Query: 871 QDGPDILVCDEAHMIK-----NTRADTTQALKQVKCQRRIAL 907
QDG DI V D +IK N RA T Q + Q KCQ + L
Sbjct: 271 QDGNDIYVMDVLEVIKQGTDENPRAKTHQYISQRKCQEALNL 312
>pdb|3KAJ|A Chain A, Apoenzyme Structure Of Homoglutathione Synthetase From
Glycine Max In Open Conformation
pdb|3KAJ|B Chain B, Apoenzyme Structure Of Homoglutathione Synthetase From
Glycine Max In Open Conformation
pdb|3KAK|A Chain A, Structure Of Homoglutathione Synthetase From Glycine Max In
Open Conformation With Gamma-Glutamyl-Cysteine Bound.
pdb|3KAK|B Chain B, Structure Of Homoglutathione Synthetase From Glycine Max In
Open Conformation With Gamma-Glutamyl-Cysteine Bound.
pdb|3KAL|A Chain A, Structure Of Homoglutathione Synthetase From Glycine Max In
Closed Conformation With Homoglutathione, Adp, A Sulfate
Ion, And Three Magnesium Ions Bound
pdb|3KAL|B Chain B, Structure Of Homoglutathione Synthetase From Glycine Max In
Closed Conformation With Homoglutathione, Adp, A Sulfate
Ion, And Three Magnesium Ions Bound
Length = 499
Score = 31.2 bits (69), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 35/79 (44%), Gaps = 13/79 (16%)
Query: 1130 CSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKG----------KDWYRLDGR 1179
C +GDKS+ S +P + L+ LS LP P + WK+G D LDG+
Sbjct: 54 CLLVGDKSVQRSGRVPGVGLVHLPLSLLPGPFPESH-WKQGCELAPIFNELVDRVSLDGK 112
Query: 1180 --TESSERQKLVERFNEPL 1196
ES R K + F L
Sbjct: 113 FLQESLSRTKNADEFTSRL 131
>pdb|4AKS|A Chain A, Patg Macrocyclase Domain
pdb|4AKS|B Chain B, Patg Macrocyclase Domain
Length = 360
Score = 30.8 bits (68), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 32/64 (50%), Gaps = 4/64 (6%)
Query: 861 NMAREICHALQDGPDILVCDEAHMIKNTRAD--TTQALKQVKCQRRIALTGSPLQNNLME 918
N+AR I AL+ G +I+ C + + + QA+K KCQ L SP NN E
Sbjct: 173 NLARAIDLALELGANIIHCAFCRPTQTSEGEEILVQAIK--KCQDNNVLIVSPTGNNSNE 230
Query: 919 YYCM 922
+C+
Sbjct: 231 SWCL 234
>pdb|4AKT|A Chain A, Patg Macrocyclase In Complex With Peptide
pdb|4AKT|B Chain B, Patg Macrocyclase In Complex With Peptide
Length = 360
Score = 30.8 bits (68), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 32/64 (50%), Gaps = 4/64 (6%)
Query: 861 NMAREICHALQDGPDILVCDEAHMIKNTRAD--TTQALKQVKCQRRIALTGSPLQNNLME 918
N+AR I AL+ G +I+ C + + + QA+K KCQ L SP NN E
Sbjct: 173 NLARAIDLALELGANIIHCAFCRPTQTSEGEEILVQAIK--KCQDNNVLIVSPTGNNSNE 230
Query: 919 YYCM 922
+C+
Sbjct: 231 SWCL 234
>pdb|4H6X|A Chain A, Structure Of Patellamide Maturation Protease Patg
pdb|4H6X|B Chain B, Structure Of Patellamide Maturation Protease Patg
Length = 357
Score = 30.8 bits (68), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 32/64 (50%), Gaps = 4/64 (6%)
Query: 861 NMAREICHALQDGPDILVCDEAHMIKNTRAD--TTQALKQVKCQRRIALTGSPLQNNLME 918
N+AR I AL+ G +I+ C + + + QA+K KCQ L SP NN E
Sbjct: 155 NLARAIDLALELGANIIHCAFCRPTQTSEGEEILVQAIK--KCQDNNVLIVSPTGNNSNE 212
Query: 919 YYCM 922
+C+
Sbjct: 213 SWCL 216
>pdb|2YSL|A Chain A, Solution Structure Of The Ring Domain (1-66) From
Tripartite Motif-containing Protein 31
Length = 73
Score = 30.0 bits (66), Expect = 9.0, Method: Composition-based stats.
Identities = 15/53 (28%), Positives = 25/53 (47%), Gaps = 3/53 (5%)
Query: 512 IVCKDCKCLLEKKMHVKDADCSECYCVWCGRSSDLVSCKSCKTLFCTTCVKRN 564
++C C +L+K + + DC +C+ C SC K C T V++N
Sbjct: 21 VICPICLDILQKPVTI---DCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKN 70
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 0.132 0.392
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 39,127,133
Number of Sequences: 62578
Number of extensions: 1532391
Number of successful extensions: 4174
Number of sequences better than 100.0: 31
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 22
Number of HSP's that attempted gapping in prelim test: 4138
Number of HSP's gapped (non-prelim): 38
length of query: 1479
length of database: 14,973,337
effective HSP length: 111
effective length of query: 1368
effective length of database: 8,027,179
effective search space: 10981180872
effective search space used: 10981180872
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)