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= 000734
(1324 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3AL2|A Chain A, Crystal Structure Of Topbp1 Brct78
Length = 235
Score = 65.5 bits (158), Expect = 2e-10, Method: Composition-based stats.
Identities = 47/173 (27%), Positives = 82/173 (47%), Gaps = 18/173 (10%)
Query: 1053 THFIAPEIRRTEKFFAAAASGRWILKTDYLSACSQAGKFLLEEPYEWHKNG-LSEDGAIN 1111
TH + R EK+ A+ A+G+W+L YL AC AG F+ EE YEW + L IN
Sbjct: 47 THIVVGHPLRNEKYLASVAAGKWVLHRSYLEACRTAGHFVQEEDYEWGSSSILDVLTGIN 106
Query: 1112 LEAPR------KWR---LLRERTG--HGAFHGMRIIVYGDCIAPPLDTLKRVVKAGDGNI 1160
++ R +WR R+ +G GAF G ++I++ D KR++++G +
Sbjct: 107 VQQRRLALAAXRWRKKIQQRQESGIVEGAFSGWKVILHVD--QSREAGFKRLLQSGGAKV 164
Query: 1161 LA--TSPPYTRFLNSGVDFAVVSPGMPRVDLWVQEFLKHEIPCVVADYLVEFV 1211
L + P + + D + P V+ + E + C+ +Y+ +++
Sbjct: 165 LPGHSVPLFKEATHLFSDLNKLKPDDSGVN--IAEAAAQNVYCLRTEYIADYL 215
>pdb|3AL3|A Chain A, Crystal Structure Of Topbp1 Brct78-Bach1 Peptide Complex
Length = 235
Score = 63.5 bits (153), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 47/175 (26%), Positives = 83/175 (47%), Gaps = 18/175 (10%)
Query: 1053 THFIAPEIRRTEKFFAAAASGRWILKTDYLSACSQAGKFLLEEPYEWHKNG-LSEDGAIN 1111
TH + R EK+ A+ A+G+W+L YL AC AG F+ EE YEW + L IN
Sbjct: 47 THIVVGHPLRNEKYLASVAAGKWVLHRSYLEACRTAGHFVQEEDYEWGSSSILDVLTGIN 106
Query: 1112 LEAPR------KWR---LLRERTG--HGAFHGMRIIVYGDCIAPPLDTLKRVVKAGDGNI 1160
++ R +WR R+ +G GAF G ++I++ D KR++++G +
Sbjct: 107 VQQRRLALAAMRWRKKIQQRQESGIVEGAFSGWKVILHVD--QSREAGFKRLLQSGGAKV 164
Query: 1161 LA--TSPPYTRFLNSGVDFAVVSPGMPRVDLWVQEFLKHEIPCVVADYLVEFVCK 1213
L + P + + D + P V+ + E + C+ +Y+ +++ +
Sbjct: 165 LPGHSVPLFKEATHLFSDLNKLKPDDSGVN--IAEAAAQNVYCLRTEYIADYLMQ 217
>pdb|2R1Z|A Chain A, Crystal Structure Of The Bard1 Brct Repeat
pdb|2R1Z|B Chain B, Crystal Structure Of The Bard1 Brct Repeat
Length = 209
Score = 49.7 bits (117), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 36/116 (31%), Positives = 51/116 (43%), Gaps = 14/116 (12%)
Query: 1052 ATHFIAP--EIRRTEKFFAAAASGRWILKTDYLSACSQAGKFLLEEPYEWHKNGLSEDGA 1109
TH + P ++ T K +G WILK +++ AC + EE YE
Sbjct: 36 VTHVVVPGDAVQSTLKCMLGILNGCWILKFEWVKACLRRKVCEQEEKYE----------- 84
Query: 1110 INLEAPRKWRLLRERTGHGAFHGMRIIVYGDCIAPPLDTLKRVVKAGDGNILATSP 1165
E PR+ RL RE+ F G ++G P D L ++V AG G IL+ P
Sbjct: 85 -IPEGPRRSRLNREQLLPKLFDGCYFYLWGTFKHHPKDNLIKLVTAGGGQILSRKP 139
>pdb|2NTE|A Chain A, Crystal Structure Of The Bard1 Brct Domains
pdb|2NTE|B Chain B, Crystal Structure Of The Bard1 Brct Domains
Length = 210
Score = 49.7 bits (117), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 36/116 (31%), Positives = 51/116 (43%), Gaps = 14/116 (12%)
Query: 1052 ATHFIAP--EIRRTEKFFAAAASGRWILKTDYLSACSQAGKFLLEEPYEWHKNGLSEDGA 1109
TH + P ++ T K +G WILK +++ AC + EE YE
Sbjct: 37 VTHVVVPGDAVQSTLKCMLGILNGCWILKFEWVKACLRRKVCEQEEKYE----------- 85
Query: 1110 INLEAPRKWRLLRERTGHGAFHGMRIIVYGDCIAPPLDTLKRVVKAGDGNILATSP 1165
E PR+ RL RE+ F G ++G P D L ++V AG G IL+ P
Sbjct: 86 -IPEGPRRSRLNREQLLPKLFDGCYFYLWGTFKHHPKDNLIKLVTAGGGQILSRKP 140
>pdb|3FA2|A Chain A, Crystal Structure Of The Brca1 Associated Ring Domain
(Bard1) Tandem Brct Domains
pdb|3FA2|B Chain B, Crystal Structure Of The Brca1 Associated Ring Domain
(Bard1) Tandem Brct Domains
Length = 218
Score = 49.3 bits (116), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 36/116 (31%), Positives = 51/116 (43%), Gaps = 14/116 (12%)
Query: 1052 ATHFIAP--EIRRTEKFFAAAASGRWILKTDYLSACSQAGKFLLEEPYEWHKNGLSEDGA 1109
TH + P ++ T K +G WILK +++ AC + EE YE
Sbjct: 45 VTHVVVPGDAVQSTLKCMLGILNGCWILKFEWVKACLRRKVCEQEEKYE----------- 93
Query: 1110 INLEAPRKWRLLRERTGHGAFHGMRIIVYGDCIAPPLDTLKRVVKAGDGNILATSP 1165
E PR+ RL RE+ F G ++G P D L ++V AG G IL+ P
Sbjct: 94 -IPEGPRRSRLNREQLLPKLFDGCYFYLWGTFKHHPKDNLIKLVTAGGGQILSRKP 148
>pdb|3ZVZ|B Chain B, Phd Finger Of Human Uhrf1
Length = 57
Score = 48.9 bits (115), Expect = 2e-05, Method: Composition-based stats.
Identities = 22/52 (42%), Positives = 27/52 (51%), Gaps = 7/52 (13%)
Query: 1261 CQACGCSDRGEVMLICGDESGSVGCGVGMHIDCCDPPLESVPEED-WFCPTC 1311
C CG + L+C + C + HI C DPPL SVP ED W+CP C
Sbjct: 8 CHLCGGRQDPDKQLMCDE------CDMAFHIYCLDPPLSSVPSEDEWYCPEC 53
>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 = 48.9 bits (115), Expect = 2e-05, Method: Composition-based stats.
Identities = 22/52 (42%), Positives = 27/52 (51%), Gaps = 7/52 (13%)
Query: 1261 CQACGCSDRGEVMLICGDESGSVGCGVGMHIDCCDPPLESVPEED-WFCPTC 1311
C CG + L+C + C + HI C DPPL SVP ED W+CP C
Sbjct: 177 CHLCGGRQDPDKQLMCDE------CDMAFHIYCLDPPLSSVPSEDEWYCPEC 222
>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 = 48.5 bits (114), Expect = 2e-05, Method: Composition-based stats.
Identities = 22/52 (42%), Positives = 27/52 (51%), Gaps = 7/52 (13%)
Query: 1261 CQACGCSDRGEVMLICGDESGSVGCGVGMHIDCCDPPLESVPEED-WFCPTC 1311
C CG + L+C + C + HI C DPPL SVP ED W+CP C
Sbjct: 26 CHLCGGRQDPDKQLMCDE------CDMAFHIYCLDPPLSSVPSEDEWYCPEC 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 = 3e-05, Method: Composition-based stats.
Identities = 22/52 (42%), Positives = 27/52 (51%), Gaps = 7/52 (13%)
Query: 1261 CQACGCSDRGEVMLICGDESGSVGCGVGMHIDCCDPPLESVPEED-WFCPTC 1311
C CG + L+C + C + HI C DPPL SVP ED W+CP C
Sbjct: 21 CHLCGGRQDPDKQLMCDE------CDMAFHIYCLDPPLSSVPSEDEWYCPEC 66
>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 = 48.1 bits (113), Expect = 3e-05, Method: Composition-based stats.
Identities = 22/52 (42%), Positives = 27/52 (51%), Gaps = 7/52 (13%)
Query: 1261 CQACGCSDRGEVMLICGDESGSVGCGVGMHIDCCDPPLESVPEED-WFCPTC 1311
C CG + L+C + C + HI C DPPL SVP ED W+CP C
Sbjct: 21 CHLCGGRQDPDKQLMCDE------CDMAFHIYCLDPPLSSVPSEDEWYCPEC 66
>pdb|3SHB|A Chain A, Crystal Structure Of Phd Domain Of Uhrf1
Length = 77
Score = 48.1 bits (113), Expect = 3e-05, Method: Composition-based stats.
Identities = 22/52 (42%), Positives = 27/52 (51%), Gaps = 7/52 (13%)
Query: 1261 CQACGCSDRGEVMLICGDESGSVGCGVGMHIDCCDPPLESVPEED-WFCPTC 1311
C CG + L+C + C + HI C DPPL SVP ED W+CP C
Sbjct: 29 CHLCGGRQDPDKQLMCDE------CDMAFHIYCLDPPLSSVPSEDEWYCPEC 74
>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 = 48.1 bits (113), Expect = 3e-05, Method: Composition-based stats.
Identities = 22/52 (42%), Positives = 27/52 (51%), Gaps = 7/52 (13%)
Query: 1261 CQACGCSDRGEVMLICGDESGSVGCGVGMHIDCCDPPLESVPEED-WFCPTC 1311
C CG + L+C + C + HI C DPPL SVP ED W+CP C
Sbjct: 23 CHLCGGRQDPDKQLMCDE------CDMAFHIYCLDPPLSSVPSEDEWYCPEC 68
>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 = 45.8 bits (107), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/53 (41%), Positives = 27/53 (50%), Gaps = 7/53 (13%)
Query: 1260 TCQACGCSDRGEVMLICGDESGSVGCGVGMHIDCCDPPLESVPEED-WFCPTC 1311
C CG + L+C + C + HI C DPPL SVP ED W+CP C
Sbjct: 192 ACHLCGGRQDPDKQLMCDE------CDMAFHIYCLDPPLSSVPSEDEWYCPEC 238
>pdb|3SQD|A Chain A, Crystal Structure Of Human Ptip Brct56-Gamma H2ax Complex
pdb|3SQD|B Chain B, Crystal Structure Of Human Ptip Brct56-Gamma H2ax Complex
Length = 219
Score = 44.3 bits (103), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 29/121 (23%), Positives = 51/121 (42%), Gaps = 6/121 (4%)
Query: 1051 QATHFIAPEIRRTEKFFAAAASGRWILKTDYLSACSQAGKFLLEEPYEWHKNGLSEDGAI 1110
+ TH IA ++ RT KF A + + I+ ++L C + KF+ E+ Y +
Sbjct: 49 KCTHLIASKVTRTVKFLTAISVVKHIVTPEWLEECFRCQKFIDEQNYILRDAEAEVLFSF 108
Query: 1111 NLEAPRKWRLLRERTGHGAFHGMRIIVYGDCIAPPLDTLKRVVKAGDGNILATSPPYTRF 1170
+LE K R + I P L T+K +V+ G +L+ P + +
Sbjct: 109 SLEESLK------RAHVSPLFKAKYFYITPGICPSLSTMKAIVECAGGKVLSKQPSFRKL 162
Query: 1171 L 1171
+
Sbjct: 163 M 163
Score = 37.4 bits (85), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 40/83 (48%), Gaps = 3/83 (3%)
Query: 15 FVLF-GFDPINERQVRSKLIDGGGVDVGLYTQSCTHVIVDKIVFDDSVCVAARTDGKTLV 73
FVLF GF+P+ +Q KL GG +V Q CTH+I K+ + A + K +V
Sbjct: 18 FVLFTGFEPVQVQQYIKKLYILGG-EVAESAQKCTHLIASKVTRTVKF-LTAISVVKHIV 75
Query: 74 TSLWVDHSLDIGMPVDAASIMYR 96
T W++ +D + + R
Sbjct: 76 TPEWLEECFRCQKFIDEQNYILR 98
Score = 33.1 bits (74), Expect = 1.00, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 38/81 (46%), Gaps = 10/81 (12%)
Query: 114 LTGYQRQDREDIMTLVRLMGSQFSKPLVANKVTHLICYKFEGEKYELAKKIKSIKLVNH- 172
TG++ + + + ++G + ++ A K THLI K K + +I +V H
Sbjct: 21 FTGFEPVQVQQYIKKLYILGGEVAES--AQKCTHLIASKVT----RTVKFLTAISVVKHI 74
Query: 173 ---RWLEDCLRVWELLPEVNY 190
WLE+C R + + E NY
Sbjct: 75 VTPEWLEECFRCQKFIDEQNY 95
>pdb|2XNH|A Chain A, Structure And Function Of The Rad9-Binding Region Of The
Dna Damage Checkpoint Adaptor Topbp1
Length = 287
Score = 44.3 bits (103), Expect = 5e-04, Method: Composition-based stats.
Identities = 23/69 (33%), Positives = 39/69 (56%), Gaps = 1/69 (1%)
Query: 111 VMCLTGYQRQDREDIMTLVRLMGSQFSKPLVANKVTHLICYKFEGEKYELAKKIKSIKLV 170
++C+TG DR+++ L G Q+ L N+ THLI + +G+KYE AK+ ++ V
Sbjct: 204 IICVTGLCGLDRKEVQQLTVKHGGQYXGQLKXNECTHLIVQEPKGQKYECAKRW-NVHCV 262
Query: 171 NHRWLEDCL 179
+W D +
Sbjct: 263 TTQWFFDSI 271
>pdb|2E6R|A Chain A, Solution Structure Of The Phd Domain In Smcy Protein
Length = 92
Score = 43.9 bits (102), Expect = 5e-04, Method: Composition-based stats.
Identities = 20/55 (36%), Positives = 23/55 (41%), Gaps = 6/55 (10%)
Query: 1257 DKITCQACGCSDRGEVMLICGDESGSVGCGVGMHIDCCDPPLESVPEEDWFCPTC 1311
D CQ C D + +L C GC HI C PPL +P W CP C
Sbjct: 15 DSYICQVCSRGDEDDKLLFCD------GCDDNYHIFCLLPPLPEIPRGIWRCPKC 63
>pdb|3OLC|X Chain X, Crystal Structure Of The N-Terminal Region Of Topbp1
Length = 298
Score = 43.9 bits (102), Expect = 5e-04, Method: Composition-based stats.
Identities = 23/69 (33%), Positives = 39/69 (56%), Gaps = 1/69 (1%)
Query: 111 VMCLTGYQRQDREDIMTLVRLMGSQFSKPLVANKVTHLICYKFEGEKYELAKKIKSIKLV 170
++C+TG DR+++ L G Q+ L N+ THLI + +G+KYE AK+ ++ V
Sbjct: 204 IICVTGLCGLDRKEVQQLTVKHGGQYXGQLKXNECTHLIVQEPKGQKYECAKRW-NVHCV 262
Query: 171 NHRWLEDCL 179
+W D +
Sbjct: 263 TTQWFFDSI 271
>pdb|2XNK|A Chain A, Structure And Function Of The Rad9-Binding Region Of The
Dna Damage Checkpoint Adaptor Topbp1
pdb|2XNK|B Chain B, Structure And Function Of The Rad9-Binding Region Of The
Dna Damage Checkpoint Adaptor Topbp1
pdb|2XNK|C Chain C, Structure And Function Of The Rad9-Binding Region Of The
Dna Damage Checkpoint Adaptor Topbp1
pdb|2XNK|D Chain D, Structure And Function Of The Rad9-Binding Region Of The
Dna Damage Checkpoint Adaptor Topbp1
Length = 292
Score = 43.9 bits (102), Expect = 6e-04, Method: Composition-based stats.
Identities = 23/69 (33%), Positives = 39/69 (56%), Gaps = 1/69 (1%)
Query: 111 VMCLTGYQRQDREDIMTLVRLMGSQFSKPLVANKVTHLICYKFEGEKYELAKKIKSIKLV 170
++C+TG DR+++ L G Q+ L N+ THLI + +G+KYE AK+ ++ V
Sbjct: 206 IICVTGLCGLDRKEVQQLTVKHGGQYXGQLKXNECTHLIVQEPKGQKYECAKRW-NVHCV 264
Query: 171 NHRWLEDCL 179
+W D +
Sbjct: 265 TTQWFFDSI 273
>pdb|3L40|A Chain A, Crystal Structure Of S. Pombe Brc1 Brct5-Brct6 Domains
pdb|3L40|B Chain B, Crystal Structure Of S. Pombe Brc1 Brct5-Brct6 Domains
pdb|3L41|A Chain A, Crystal Structure Of S. Pombe Brc1 Brct5-Brct6 Domains In
Complex With Phosphorylated H2a
Length = 220
Score = 43.1 bits (100), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 28/47 (59%)
Query: 1051 QATHFIAPEIRRTEKFFAAAASGRWILKTDYLSACSQAGKFLLEEPY 1097
+ TH IAP I RT KF + G ++ D++++C + + + EEPY
Sbjct: 38 KCTHLIAPRILRTSKFLCSIPYGPCVVTMDWINSCLKTHEIVDEEPY 84
>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 = 41.2 bits (95), Expect = 0.003, Method: Composition-based stats.
Identities = 13/27 (48%), Positives = 18/27 (66%)
Query: 1285 CGVGMHIDCCDPPLESVPEEDWFCPTC 1311
C H+DC DPPL+++P+ W CP C
Sbjct: 23 CSRVYHLDCLDPPLKTIPKGMWICPRC 49
>pdb|2E6S|A Chain A, Solution Structure Of The Phd Domain In Ring Finger Protein
107
Length = 77
Score = 41.2 bits (95), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 23/54 (42%), Positives = 32/54 (59%), Gaps = 7/54 (12%)
Query: 1259 ITCQACGCSDRGEVMLICGDESGSVGCGVGMHIDCCDPPLESVPEED-WFCPTC 1311
+C+ CG + L+C DE C V HI C +PPL+ VPEE+ W+CP+C
Sbjct: 27 CSCRVCGGKHEPNMQLLC-DE-----CNVAYHIYCLNPPLDKVPEEEYWYCPSC 74
>pdb|2ING|X Chain X, X-Ray Structure Of The Brca1 Brct Mutant M1775k
Length = 213
Score = 40.8 bits (94), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 40/157 (25%), Positives = 69/157 (43%), Gaps = 20/157 (12%)
Query: 1062 RTEKFFAAAASGRWILKTDYLSACSQAGKFLLEEPYEWHKNGLSEDGAINLEAPRKWRLL 1121
RT K+F A G+W++ +++ + K L E +E G +G N + P++
Sbjct: 53 RTLKYFLGIAGGKWVVSYFWVTQSIKERKMLNEHDFE--VRGDVVNGR-NHQGPKR---A 106
Query: 1122 RERTGHGAFHGMRIIVYGDCIAPPLDTLKRVVKAGDGNILATSPPYTRFLNSGVD-FAVV 1180
RE F G+ I YG P D L+ +V+ +++ +T L +GV VV
Sbjct: 107 RESQDRKIFRGLEICCYGPFTNKPTDQLEWMVQLCGASVVKELSSFT--LGTGVHPIVVV 164
Query: 1181 SPGMPRVDLWVQEFLKHEI------PCVVADYLVEFV 1211
P D W ++ H I P V +++++ V
Sbjct: 165 QP-----DAWTEDNGFHAIGQMCEAPVVTREWVLDSV 196
>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 = 40.4 bits (93), Expect = 0.006, Method: Composition-based stats.
Identities = 19/51 (37%), Positives = 25/51 (49%), Gaps = 7/51 (13%)
Query: 1266 CSDRGEVMLICGDESGSVGCGVGMHIDCCDPPLESVPEEDWFCPTCTRSRI 1316
C D GE LIC D GC H+ C PPL +P W C +C ++ +
Sbjct: 14 CRDGGE--LICCD-----GCPRAFHLACLSPPLREIPSGTWRCSSCLQATV 57
>pdb|2YQL|A Chain A, Solution Structure Of The Phd Domain In Phd Finger Protein
21a
Length = 56
Score = 40.4 bits (93), Expect = 0.006, Method: Composition-based stats.
Identities = 13/27 (48%), Positives = 18/27 (66%)
Query: 1285 CGVGMHIDCCDPPLESVPEEDWFCPTC 1311
C H+DC DPPL+++P+ W CP C
Sbjct: 27 CSRVYHLDCLDPPLKTIPKGMWICPRC 53
>pdb|3COJ|X Chain X, Crystal Structure Of The Brct Domains Of Human Brca1 In
Complex With A Phosphorylated Peptide From Human
Acetyl-Coa Carboxylase 1
pdb|3COJ|A Chain A, Crystal Structure Of The Brct Domains Of Human Brca1 In
Complex With A Phosphorylated Peptide From Human
Acetyl-Coa Carboxylase 1
pdb|3COJ|B Chain B, Crystal Structure Of The Brct Domains Of Human Brca1 In
Complex With A Phosphorylated Peptide From Human
Acetyl-Coa Carboxylase 1
pdb|3COJ|C Chain C, Crystal Structure Of The Brct Domains Of Human Brca1 In
Complex With A Phosphorylated Peptide From Human
Acetyl-Coa Carboxylase 1
pdb|3COJ|D Chain D, Crystal Structure Of The Brct Domains Of Human Brca1 In
Complex With A Phosphorylated Peptide From Human
Acetyl-Coa Carboxylase 1
pdb|3COJ|E Chain E, Crystal Structure Of The Brct Domains Of Human Brca1 In
Complex With A Phosphorylated Peptide From Human
Acetyl-Coa Carboxylase 1
pdb|3COJ|F Chain F, Crystal Structure Of The Brct Domains Of Human Brca1 In
Complex With A Phosphorylated Peptide From Human
Acetyl-Coa Carboxylase 1
pdb|3COJ|G Chain G, Crystal Structure Of The Brct Domains Of Human Brca1 In
Complex With A Phosphorylated Peptide From Human
Acetyl-Coa Carboxylase 1
Length = 235
Score = 40.4 bits (93), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 40/157 (25%), Positives = 69/157 (43%), Gaps = 20/157 (12%)
Query: 1062 RTEKFFAAAASGRWILKTDYLSACSQAGKFLLEEPYEWHKNGLSEDGAINLEAPRKWRLL 1121
RT K+F A G+W++ +++ + K L E +E G +G N + P++
Sbjct: 75 RTLKYFLGIAGGKWVVSYFWVTQSIKERKMLNEHDFE--VRGDVVNGR-NHQGPKR---A 128
Query: 1122 RERTGHGAFHGMRIIVYGDCIAPPLDTLKRVVKAGDGNILATSPPYTRFLNSGVD-FAVV 1180
RE F G+ I YG P D L+ +V+ +++ +T L +GV VV
Sbjct: 129 RESQDRKIFRGLEICCYGPFTNMPTDQLEWMVQLCGASVVKELSSFT--LGTGVHPIVVV 186
Query: 1181 SPGMPRVDLWVQEFLKHEI------PCVVADYLVEFV 1211
P D W ++ H I P V +++++ V
Sbjct: 187 QP-----DAWTEDNGFHAIGQMCEAPVVTREWVLDSV 218
>pdb|3PXA|A Chain A, Impact Of Brca1 Brct Domain Missense Substitutions On
Phospho-Peptide Recognition: G1656d
Length = 214
Score = 40.4 bits (93), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 37/139 (26%), Positives = 61/139 (43%), Gaps = 14/139 (10%)
Query: 1062 RTEKFFAAAASGRWILKTDYLSACSQAGKFLLEEPYEWHKNGLSEDGAINLEAPRKWRLL 1121
RT K+F A G+W++ +++ + K L E +E G +G N + P++
Sbjct: 54 RTLKYFLGIAGGKWVVSYFWVTQSIKERKMLNEHDFE--VRGDVVNGR-NHQGPKR---A 107
Query: 1122 RERTGHGAFHGMRIIVYGDCIAPPLDTLKRVVKAGDGNILATSPPYTRFLNSGVD-FAVV 1180
RE F G+ I YG P D L+ +V+ +++ +T L +GV VV
Sbjct: 108 RESQDRKIFRGLEICCYGPFTNMPTDQLEWMVQLCGASVVKELSSFT--LGTGVHPIVVV 165
Query: 1181 SPGMPRVDLWVQEFLKHEI 1199
P D W ++ H I
Sbjct: 166 QP-----DAWTEDNGFHAI 179
>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 = 40.4 bits (93), Expect = 0.006, Method: Composition-based stats.
Identities = 19/51 (37%), Positives = 25/51 (49%), Gaps = 7/51 (13%)
Query: 1266 CSDRGEVMLICGDESGSVGCGVGMHIDCCDPPLESVPEEDWFCPTCTRSRI 1316
C D GE LIC D GC H+ C PPL +P W C +C ++ +
Sbjct: 11 CRDGGE--LICCD-----GCPRAFHLACLSPPLREIPSGTWRCSSCLQATV 54
>pdb|3K15|A Chain A, Crystal Structure Of Brca1 Brct D1840t In Complex With A
Minimal Recognition Tetrapeptide With An Amidated
C-Terminus
pdb|3K16|A Chain A, Crystal Structure Of Brca1 Brct D1840t In Complex With A
Minimal Recognition Tetrapeptide With A Free Carboxy
C-Terminus
Length = 215
Score = 40.4 bits (93), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 37/139 (26%), Positives = 61/139 (43%), Gaps = 14/139 (10%)
Query: 1062 RTEKFFAAAASGRWILKTDYLSACSQAGKFLLEEPYEWHKNGLSEDGAINLEAPRKWRLL 1121
RT K+F A G+W++ +++ + K L E +E G +G N + P++
Sbjct: 55 RTLKYFLGIAGGKWVVSYFWVTQSIKERKMLNEHDFE--VRGDVVNGR-NHQGPKR---A 108
Query: 1122 RERTGHGAFHGMRIIVYGDCIAPPLDTLKRVVKAGDGNILATSPPYTRFLNSGVD-FAVV 1180
RE F G+ I YG P D L+ +V+ +++ +T L +GV VV
Sbjct: 109 RESQDRKIFRGLEICCYGPFTNMPTDQLEWMVQLCGASVVKELSSFT--LGTGVHPIVVV 166
Query: 1181 SPGMPRVDLWVQEFLKHEI 1199
P D W ++ H I
Sbjct: 167 QP-----DAWTEDNGFHAI 180
>pdb|1JNX|X Chain X, Crystal Structure Of The Brct Repeat Region From The Breast
Cancer Associated Protein, Brca1
pdb|1T15|A Chain A, Crystal Structure Of The Brca1 Brct Domains In Complex With
The Phosphorylated Interacting Region From Bach1 Helicase
pdb|1T29|A Chain A, Crystal Structure Of The Brca1 Brct Repeats Bound To A
Phosphorylated Bach1 Peptide
pdb|1T2V|A Chain A, Structural Basis Of Phospho-Peptide Recognition By The Brct
Domain Of Brca1, Structure With Phosphopeptide
pdb|1T2V|B Chain B, Structural Basis Of Phospho-Peptide Recognition By The Brct
Domain Of Brca1, Structure With Phosphopeptide
pdb|1T2V|C Chain C, Structural Basis Of Phospho-Peptide Recognition By The Brct
Domain Of Brca1, Structure With Phosphopeptide
pdb|1T2V|D Chain D, Structural Basis Of Phospho-Peptide Recognition By The Brct
Domain Of Brca1, Structure With Phosphopeptide
pdb|1T2V|E Chain E, Structural Basis Of Phospho-Peptide Recognition By The Brct
Domain Of Brca1, Structure With Phosphopeptide
pdb|1Y98|A Chain A, Structure Of The Brct Repeats Of Brca1 Bound To A Ctip
Phosphopeptide
Length = 214
Score = 40.4 bits (93), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 37/139 (26%), Positives = 61/139 (43%), Gaps = 14/139 (10%)
Query: 1062 RTEKFFAAAASGRWILKTDYLSACSQAGKFLLEEPYEWHKNGLSEDGAINLEAPRKWRLL 1121
RT K+F A G+W++ +++ + K L E +E G +G N + P++
Sbjct: 54 RTLKYFLGIAGGKWVVSYFWVTQSIKERKMLNEHDFE--VRGDVVNGR-NHQGPKR---A 107
Query: 1122 RERTGHGAFHGMRIIVYGDCIAPPLDTLKRVVKAGDGNILATSPPYTRFLNSGVD-FAVV 1180
RE F G+ I YG P D L+ +V+ +++ +T L +GV VV
Sbjct: 108 RESQDRKIFRGLEICCYGPFTNMPTDQLEWMVQLCGASVVKELSSFT--LGTGVHPIVVV 165
Query: 1181 SPGMPRVDLWVQEFLKHEI 1199
P D W ++ H I
Sbjct: 166 QP-----DAWTEDNGFHAI 179
>pdb|3PXE|A Chain A, Impact Of Brca1 Brct Domain Missense Substitutions On
Phospho-Peptide Recognition: E1836k
pdb|3PXE|B Chain B, Impact Of Brca1 Brct Domain Missense Substitutions On
Phospho-Peptide Recognition: E1836k
pdb|3PXE|C Chain C, Impact Of Brca1 Brct Domain Missense Substitutions On
Phospho-Peptide Recognition: E1836k
pdb|3PXE|D Chain D, Impact Of Brca1 Brct Domain Missense Substitutions On
Phospho-Peptide Recognition: E1836k
Length = 214
Score = 40.4 bits (93), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 37/139 (26%), Positives = 61/139 (43%), Gaps = 14/139 (10%)
Query: 1062 RTEKFFAAAASGRWILKTDYLSACSQAGKFLLEEPYEWHKNGLSEDGAINLEAPRKWRLL 1121
RT K+F A G+W++ +++ + K L E +E G +G N + P++
Sbjct: 54 RTLKYFLGIAGGKWVVSYFWVTQSIKERKMLNEHDFE--VRGDVVNGR-NHQGPKR---A 107
Query: 1122 RERTGHGAFHGMRIIVYGDCIAPPLDTLKRVVKAGDGNILATSPPYTRFLNSGVD-FAVV 1180
RE F G+ I YG P D L+ +V+ +++ +T L +GV VV
Sbjct: 108 RESQDRKIFRGLEICCYGPFTNMPTDQLEWMVQLCGASVVKELSSFT--LGTGVHPIVVV 165
Query: 1181 SPGMPRVDLWVQEFLKHEI 1199
P D W ++ H I
Sbjct: 166 QP-----DAWTEDNGFHAI 179
>pdb|1N5O|X Chain X, Structural Consequences Of A Cancer-Causing Brca1-Brct
Missense Mutation
Length = 214
Score = 40.4 bits (93), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 40/157 (25%), Positives = 69/157 (43%), Gaps = 20/157 (12%)
Query: 1062 RTEKFFAAAASGRWILKTDYLSACSQAGKFLLEEPYEWHKNGLSEDGAINLEAPRKWRLL 1121
RT K+F A G+W++ +++ + K L E +E G +G N + P++
Sbjct: 54 RTLKYFLGIAGGKWVVSYFWVTQSIKERKMLNEHDFE--VRGDVVNGR-NHQGPKR---A 107
Query: 1122 RERTGHGAFHGMRIIVYGDCIAPPLDTLKRVVKAGDGNILATSPPYTRFLNSGVD-FAVV 1180
RE F G+ I YG P D L+ +V+ +++ +T L +GV VV
Sbjct: 108 RESQDRKIFRGLEICCYGPFTNRPTDQLEWMVQLCGASVVKELSSFT--LGTGVHPIVVV 165
Query: 1181 SPGMPRVDLWVQEFLKHEI------PCVVADYLVEFV 1211
P D W ++ H I P V +++++ V
Sbjct: 166 QP-----DAWTEDNGFHAIGQMCEAPVVTREWVLDSV 197
>pdb|3K0H|A Chain A, The Crystal Structure Of Brca1 Brct In Complex With A
Minimal Recognition Tetrapeptide With An Amidated
C-terminus
pdb|3K0K|A Chain A, Crystal Structure Of Brca1 Brct In Complex With A Minimal
Recognition Tetrapeptide With A Free Carboxy C-Terminus
Length = 215
Score = 40.4 bits (93), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 37/139 (26%), Positives = 61/139 (43%), Gaps = 14/139 (10%)
Query: 1062 RTEKFFAAAASGRWILKTDYLSACSQAGKFLLEEPYEWHKNGLSEDGAINLEAPRKWRLL 1121
RT K+F A G+W++ +++ + K L E +E G +G N + P++
Sbjct: 55 RTLKYFLGIAGGKWVVSYFWVTQSIKERKMLNEHDFE--VRGDVVNGR-NHQGPKR---A 108
Query: 1122 RERTGHGAFHGMRIIVYGDCIAPPLDTLKRVVKAGDGNILATSPPYTRFLNSGVD-FAVV 1180
RE F G+ I YG P D L+ +V+ +++ +T L +GV VV
Sbjct: 109 RESQDRKIFRGLEICCYGPFTNMPTDQLEWMVQLCGASVVKELSSFT--LGTGVHPIVVV 166
Query: 1181 SPGMPRVDLWVQEFLKHEI 1199
P D W ++ H I
Sbjct: 167 QP-----DAWTEDNGFHAI 180
>pdb|3PXD|A Chain A, Impact Of Brca1 Brct Domain Missense Substitutions On
Phospho-Peptide Recognition: R1835p
Length = 214
Score = 40.4 bits (93), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 40/157 (25%), Positives = 69/157 (43%), Gaps = 20/157 (12%)
Query: 1062 RTEKFFAAAASGRWILKTDYLSACSQAGKFLLEEPYEWHKNGLSEDGAINLEAPRKWRLL 1121
RT K+F A G+W++ +++ + K L E +E G +G N + P++
Sbjct: 54 RTLKYFLGIAGGKWVVSYFWVTQSIKERKMLNEHDFE--VRGDVVNGR-NHQGPKR---A 107
Query: 1122 RERTGHGAFHGMRIIVYGDCIAPPLDTLKRVVKAGDGNILATSPPYTRFLNSGVD-FAVV 1180
RE F G+ I YG P D L+ +V+ +++ +T L +GV VV
Sbjct: 108 RESQDRKIFRGLEICCYGPFTNMPTDQLEWMVQLCGASVVKELSSFT--LGTGVHPIVVV 165
Query: 1181 SPGMPRVDLWVQEFLKHEI------PCVVADYLVEFV 1211
P D W ++ H I P V +++++ V
Sbjct: 166 QP-----DAWTEDNGFHAIGQMCEAPVVTPEWVLDSV 197
>pdb|2ADO|A Chain A, Crystal Structure Of The Brct Repeat Region From The
Mediator Of Dna Damage Checkpoint Protein 1, Mdc1
pdb|2ADO|B Chain B, Crystal Structure Of The Brct Repeat Region From The
Mediator Of Dna Damage Checkpoint Protein 1, Mdc1
Length = 196
Score = 40.0 bits (92), Expect = 0.008, Method: Composition-based stats.
Identities = 38/121 (31%), Positives = 50/121 (41%), Gaps = 18/121 (14%)
Query: 1051 QATHFIAPEIRRTEKFFAAAASGRWILKTDYLSACSQAGKFLLEEPY-----EWHKN-GL 1104
+A+H + IRRT KF A G IL D+L +AG FL + Y E KN G
Sbjct: 32 EASHLVTDRIRRTVKFLCALGRGIPILSLDWLHQSRKAGFFLPPDEYVVTDPEQEKNFGF 91
Query: 1105 SEDGAINLEAPRKWRLLRERTGHGAFHGMRIIVYGDCIAPPLDTLKRVVKAGDGNILATS 1164
S A L R+ RLL G I V + PP + ++ G L +
Sbjct: 92 SLQDA--LSRARERRLL---------EGYEIYVTPG-VQPPPPQMGEIISCCGGTYLPSM 139
Query: 1165 P 1165
P
Sbjct: 140 P 140
>pdb|3K05|A Chain A, The Crystal Structure Of Mdc1 Brct T2067d In Complex With A
Minimal Recognition Tetrapeptide With An Amidated
C-Terminus
pdb|3K05|B Chain B, The Crystal Structure Of Mdc1 Brct T2067d In Complex With A
Minimal Recognition Tetrapeptide With An Amidated
C-Terminus
Length = 200
Score = 39.7 bits (91), Expect = 0.011, Method: Composition-based stats.
Identities = 38/121 (31%), Positives = 50/121 (41%), Gaps = 18/121 (14%)
Query: 1051 QATHFIAPEIRRTEKFFAAAASGRWILKTDYLSACSQAGKFLLEEPY-----EWHKN-GL 1104
+A+H + IRRT KF A G IL D+L +AG FL + Y E KN G
Sbjct: 33 EASHLVTDRIRRTVKFLCALGRGIPILSLDWLHQSRKAGFFLPPDEYVVTDPEQEKNFGF 92
Query: 1105 SEDGAINLEAPRKWRLLRERTGHGAFHGMRIIVYGDCIAPPLDTLKRVVKAGDGNILATS 1164
S A L R+ RLL G I V + PP + ++ G L +
Sbjct: 93 SLQDA--LSRARERRLL---------EGYEIYVTPG-VQPPPPQMGEIISCCGGTYLPSM 140
Query: 1165 P 1165
P
Sbjct: 141 P 141
>pdb|2ETX|A Chain A, Crystal Structure Of Mdc1 Tandem Brct Domains
pdb|2ETX|B Chain B, Crystal Structure Of Mdc1 Tandem Brct Domains
Length = 209
Score = 39.7 bits (91), Expect = 0.013, Method: Composition-based stats.
Identities = 38/121 (31%), Positives = 50/121 (41%), Gaps = 18/121 (14%)
Query: 1051 QATHFIAPEIRRTEKFFAAAASGRWILKTDYLSACSQAGKFLLEEPY-----EWHKN-GL 1104
+A+H + IRRT KF A G IL D+L +AG FL + Y E KN G
Sbjct: 42 EASHLVTDRIRRTVKFLCALGRGIPILSLDWLHQSRKAGFFLPPDEYVVTDPEQEKNFGF 101
Query: 1105 SEDGAINLEAPRKWRLLRERTGHGAFHGMRIIVYGDCIAPPLDTLKRVVKAGDGNILATS 1164
S A L R+ RLL G I V + PP + ++ G L +
Sbjct: 102 SLQDA--LSRARERRLL---------EGYEIYVTPG-VQPPPPQMGEIISCCGGTYLPSM 149
Query: 1165 P 1165
P
Sbjct: 150 P 150
>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 = 39.3 bits (90), Expect = 0.013, Method: Composition-based stats.
Identities = 20/47 (42%), Positives = 23/47 (48%), Gaps = 7/47 (14%)
Query: 1266 CSDRGEVMLICGDESGSVGCGVGMHIDCCDPPLESVPEEDWFCPTCT 1312
C D GE L+C D C HI C P L VP+ +W CP CT
Sbjct: 15 CKDGGE--LLCCDT-----CPSSYHIHCLRPALYEVPDGEWQCPRCT 54
>pdb|1T2U|A Chain A, Structural Basis Of Phosphopeptide Recognition By The Brct
Domain Of Brca1: Structure Of Brca1 Missense Variant
V1809f
Length = 214
Score = 38.5 bits (88), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 30/114 (26%), Positives = 52/114 (45%), Gaps = 8/114 (7%)
Query: 1062 RTEKFFAAAASGRWILKTDYLSACSQAGKFLLEEPYEWHKNGLSEDGAINLEAPRKWRLL 1121
RT K+F A G+W++ +++ + K L E +E G +G N + P++
Sbjct: 54 RTLKYFLGIAGGKWVVSYFWVTQSIKERKMLNEHDFE--VRGDVVNGR-NHQGPKR---A 107
Query: 1122 RERTGHGAFHGMRIIVYGDCIAPPLDTLKRVVKAGDGNILATSPPYTRFLNSGV 1175
RE F G+ I YG P D L+ +V+ +++ +T L +GV
Sbjct: 108 RESQDRKIFRGLEICCYGPFTNMPTDQLEWMVQLCGASVVKELSSFT--LGTGV 159
>pdb|3EF1|A Chain A, The Structure Of Fcp1, An Essential Rna Polymerase Ii Ctd
Phosphatase
Length = 442
Score = 38.5 bits (88), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 26/45 (57%)
Query: 146 THLICYKFEGEKYELAKKIKSIKLVNHRWLEDCLRVWELLPEVNY 190
THLI K EK + A + +IK+V WL + L W+ LPE +Y
Sbjct: 395 THLIAAKIRTEKVKKAVSMGNIKVVKLNWLTESLSQWKRLPESDY 439
>pdb|2L5U|A Chain A, Structure Of The First Phd Finger (Phd1) From Chd4 (Mi2b)
Length = 61
Score = 38.5 bits (88), Expect = 0.023, Method: Composition-based stats.
Identities = 21/68 (30%), Positives = 31/68 (45%), Gaps = 10/68 (14%)
Query: 1250 PPNDYDTD-KITCQACGCSDRGEVMLICGDESGSVGCGVGMHIDCCDPPLESVPEEDWFC 1308
P Y+TD + C+ C +G +++C C H+ C DP +E PE W C
Sbjct: 2 PLGSYETDHQDYCEVC---QQGGEIILCDT------CPRAYHMVCLDPDMEKAPEGKWSC 52
Query: 1309 PTCTRSRI 1316
P C + I
Sbjct: 53 PHCEKEGI 60
>pdb|3PXC|X Chain X, Impact Of Brca1 Brct Domain Missense Substitutions On
Phospho-Peptide Recognition: R1699q
Length = 214
Score = 38.5 bits (88), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 36/139 (25%), Positives = 61/139 (43%), Gaps = 14/139 (10%)
Query: 1062 RTEKFFAAAASGRWILKTDYLSACSQAGKFLLEEPYEWHKNGLSEDGAINLEAPRKWRLL 1121
+T K+F A G+W++ +++ + K L E +E G +G N + P++
Sbjct: 54 QTLKYFLGIAGGKWVVSYFWVTQSIKERKMLNEHDFE--VRGDVVNGR-NHQGPKR---A 107
Query: 1122 RERTGHGAFHGMRIIVYGDCIAPPLDTLKRVVKAGDGNILATSPPYTRFLNSGVD-FAVV 1180
RE F G+ I YG P D L+ +V+ +++ +T L +GV VV
Sbjct: 108 RESQDRKIFRGLEICCYGPFTNMPTDQLEWMVQLCGASVVKELSSFT--LGTGVHPIVVV 165
Query: 1181 SPGMPRVDLWVQEFLKHEI 1199
P D W ++ H I
Sbjct: 166 QP-----DAWTEDNGFHAI 179
>pdb|2AZM|A Chain A, Crystal Structure Of The Mdc1 Brct Repeat In Complex With
The Histone Tail Of Gamma-H2ax
pdb|2AZM|B Chain B, Crystal Structure Of The Mdc1 Brct Repeat In Complex With
The Histone Tail Of Gamma-H2ax
Length = 207
Score = 38.5 bits (88), Expect = 0.025, Method: Composition-based stats.
Identities = 30/77 (38%), Positives = 37/77 (48%), Gaps = 8/77 (10%)
Query: 1051 QATHFIAPEIRRTEKFFAAAASGRWILKTDYLSACSQAGKFLLEEPY-----EWHKN-GL 1104
+A+H + IRRT KF A G IL D+L +AG FL + Y E KN G
Sbjct: 40 EASHLVTDRIRRTVKFLCALGRGIPILSLDWLHQSRKAGFFLPPDEYVVTDPEQEKNFGF 99
Query: 1105 SEDGAINLEAPRKWRLL 1121
S A L R+ RLL
Sbjct: 100 SLQDA--LSRARERRLL 114
>pdb|3PXB|A Chain A, Impact Of Brca1 Brct Domain Missense Substitutions On
Phospho-Peptide Recognition: T1700a
Length = 214
Score = 38.5 bits (88), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 36/139 (25%), Positives = 60/139 (43%), Gaps = 14/139 (10%)
Query: 1062 RTEKFFAAAASGRWILKTDYLSACSQAGKFLLEEPYEWHKNGLSEDGAINLEAPRKWRLL 1121
R K+F A G+W++ +++ + K L E +E G +G N + P++
Sbjct: 54 RALKYFLGIAGGKWVVSYFWVTQSIKERKMLNEHDFE--VRGDVVNGR-NHQGPKR---A 107
Query: 1122 RERTGHGAFHGMRIIVYGDCIAPPLDTLKRVVKAGDGNILATSPPYTRFLNSGVD-FAVV 1180
RE F G+ I YG P D L+ +V+ +++ +T L +GV VV
Sbjct: 108 RESQDRKIFRGLEICCYGPFTNMPTDQLEWMVQLCGASVVKELSSFT--LGTGVHPIVVV 165
Query: 1181 SPGMPRVDLWVQEFLKHEI 1199
P D W ++ H I
Sbjct: 166 QP-----DAWTEDNGFHAI 179
>pdb|3EF0|A Chain A, The Structure Of Fcp1, An Essential Rna Polymerase Ii Ctd
Phosphatase
Length = 372
Score = 38.1 bits (87), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 26/45 (57%)
Query: 146 THLICYKFEGEKYELAKKIKSIKLVNHRWLEDCLRVWELLPEVNY 190
THLI K EK + A + +IK+V WL + L W+ LPE +Y
Sbjct: 325 THLIAAKIRTEKVKKAVSMGNIKVVKLNWLTESLSQWKRLPESDY 369
>pdb|3V43|A Chain A, Crystal Structure Of Moz
Length = 112
Score = 38.1 bits (87), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 22/57 (38%), Positives = 29/57 (50%), Gaps = 10/57 (17%)
Query: 1259 ITCQACG-CSDRG---EVMLICGDESGSVGCGVGMHIDCCDPPLESVPEEDWFCPTC 1311
I C+ C C D+G + ML C C G H++CCDPPL +P+ W C C
Sbjct: 59 IECKTCSSCRDQGKNADNMLFCD------SCDRGFHMECCDPPLTRMPKGMWICQIC 109
>pdb|2LN0|A Chain A, Structure Of Moz
Length = 110
Score = 37.7 bits (86), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 22/57 (38%), Positives = 29/57 (50%), Gaps = 10/57 (17%)
Query: 1259 ITCQACG-CSDRG---EVMLICGDESGSVGCGVGMHIDCCDPPLESVPEEDWFCPTC 1311
I C+ C C D+G + ML C C G H++CCDPPL +P+ W C C
Sbjct: 57 IECKTCSSCRDQGKNADNMLFCD------SCDRGFHMECCDPPLTRMPKGMWICQIC 107
>pdb|2D8M|A Chain A, Solution Structure Of The First Brct Domain Of Dna-Repair
Protein Xrcc1
Length = 129
Score = 37.4 bits (85), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 40/87 (45%), Gaps = 2/87 (2%)
Query: 108 NSLVMCLTGYQRQDREDIMTLVRLMGSQFSKPLVANKVTHLICYKFEGEKYELAKKIKSI 167
+V+ L+G+Q R ++ +G+++ +P THLIC KY +
Sbjct: 24 QGVVVVLSGFQNPFRSELRDKALELGAKY-RPDWTRDSTHLICAFANTPKYSQVLGLGG- 81
Query: 168 KLVNHRWLEDCLRVWELLPEVNYDKSG 194
++V W+ DC R+ LP Y +G
Sbjct: 82 RIVRKEWVLDCHRMRRRLPSQRYLMAG 108
>pdb|1L0B|A Chain A, Crystal Structure Of Rat Brca1 Tandem-Brct Region
Length = 229
Score = 37.4 bits (85), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 29/108 (26%), Positives = 50/108 (46%), Gaps = 7/108 (6%)
Query: 1062 RTEKFFAAAASGRWILKTDYLSACSQAGKFLLEEPYEWHKNGLSEDGAINLEAPRKWRLL 1121
RT K+F A G+WI+ ++ Q K L +E+ G G+ N + PR+ R
Sbjct: 57 RTLKYFLGIAGGKWIVSYSWVIKSIQERKLL--SVHEFEVKGDVVTGS-NHQGPRRSRES 113
Query: 1122 RERTGHGAFHGMRIIVYGDCIAPPLDTLKRVVKAGDGNILATSPPYTR 1169
+E+ F G++I P D L+R+++ +++ P TR
Sbjct: 114 QEK----LFEGLQIYCCEPFTNMPKDELERMLQLCGASVVKELPLLTR 157
>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 = 36.2 bits (82), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 24/47 (51%), Gaps = 7/47 (14%)
Query: 1266 CSDRGEVMLICGDESGSVGCGVGMHIDCCDPPLESVPEEDWFCPTCT 1312
C D GE L+C D C HI C +PPL +P +W CP CT
Sbjct: 15 CKDGGE--LLCCDT-----CPSSYHIHCLNPPLPEIPNGEWLCPRCT 54
>pdb|1F62|A Chain A, Wstf-Phd
Length = 51
Score = 35.8 bits (81), Expect = 0.16, Method: Composition-based stats.
Identities = 16/51 (31%), Positives = 24/51 (47%), Gaps = 6/51 (11%)
Query: 1261 CQACGCSDRGEVMLICGDESGSVGCGVGMHIDCCDPPLESVPEEDWFCPTC 1311
C+ C + +++C DE C H+ C P L VP+ +W CP C
Sbjct: 3 CKVCRKKGEDDKLILC-DE-----CNKAFHLFCLRPALYEVPDGEWQCPAC 47
>pdb|2KU3|A Chain A, Solution Structure Of Brd1 Phd1 Finger
Length = 71
Score = 34.7 bits (78), Expect = 0.33, Method: Composition-based stats.
Identities = 21/67 (31%), Positives = 29/67 (43%), Gaps = 11/67 (16%)
Query: 1255 DTDKITCQAC--GCSDRGEVMLICGDESGSVGCGVGMHIDCCDPPLESVPEEDWFCPTCT 1312
D D + C C G S V+L C C + +H +C P +PE W C C
Sbjct: 14 DEDAV-CSICMDGESQNSNVILFCD------MCNLAVHQECYGVPY--IPEGQWLCRHCL 64
Query: 1313 RSRINPS 1319
+SR P+
Sbjct: 65 QSRARPA 71
>pdb|2L43|A Chain A, Structural Basis For Histone Code Recognition By Brpf2-Phd1
Finger
Length = 88
Score = 34.3 bits (77), Expect = 0.48, Method: Composition-based stats.
Identities = 21/67 (31%), Positives = 29/67 (43%), Gaps = 11/67 (16%)
Query: 1255 DTDKITCQAC--GCSDRGEVMLICGDESGSVGCGVGMHIDCCDPPLESVPEEDWFCPTCT 1312
D D + C C G S V+L C C + +H +C P +PE W C C
Sbjct: 23 DEDAV-CSICMDGESQNSNVILFCD------MCNLAVHQECYGVPY--IPEGQWLCRHCL 73
Query: 1313 RSRINPS 1319
+SR P+
Sbjct: 74 QSRARPA 80
>pdb|2RO1|A Chain A, Nmr Solution Structures Of Human Kap1 Phd Finger-Bromodomain
Length = 189
Score = 33.5 bits (75), Expect = 0.84, Method: Composition-based stats.
Identities = 12/27 (44%), Positives = 15/27 (55%)
Query: 1285 CGVGMHIDCCDPPLESVPEEDWFCPTC 1311
C H+DC P L+ VP E+W C C
Sbjct: 20 CEFCFHLDCHLPALQDVPGEEWSCSLC 46
>pdb|1FP0|A Chain A, Solution Structure Of The Phd Domain From The Kap-1
Corepressor
Length = 88
Score = 33.5 bits (75), Expect = 0.84, Method: Composition-based stats.
Identities = 12/27 (44%), Positives = 15/27 (55%)
Query: 1285 CGVGMHIDCCDPPLESVPEEDWFCPTC 1311
C H+DC P L+ VP E+W C C
Sbjct: 43 CEFCFHLDCHLPALQDVPGEEWSCSLC 69
>pdb|4ID3|A Chain A, Crystal Structure Of The Brct Domain Of S. Cerevisiae Rev1
pdb|4ID3|B Chain B, Crystal Structure Of The Brct Domain Of S. Cerevisiae Rev1
Length = 92
Score = 33.5 bits (75), Expect = 0.88, Method: Composition-based stats.
Identities = 24/83 (28%), Positives = 42/83 (50%), Gaps = 8/83 (9%)
Query: 111 VMCLTGYQRQDREDIMTLVRLMGSQFSKPLVANK-VTHLICYKFEGEKYELAKKIK--SI 167
V+ + GY + R + ++ L G +F L + K VTH++ L K+I+ +
Sbjct: 12 VIYINGYTKPGRLQLHEMIVLHGGKFLHYLSSKKTVTHIV-----ASNLPLKKRIEFANY 66
Query: 168 KLVNHRWLEDCLRVWELLPEVNY 190
K+V+ W+ D ++ LLP NY
Sbjct: 67 KVVSPDWIVDSVKEARLLPWQNY 89
>pdb|2M2I|A Chain A, Nmr Solution Structure Of Brct Domain Of Yeast Rev1
Length = 94
Score = 33.5 bits (75), Expect = 0.92, Method: Composition-based stats.
Identities = 24/83 (28%), Positives = 42/83 (50%), Gaps = 8/83 (9%)
Query: 111 VMCLTGYQRQDREDIMTLVRLMGSQFSKPLVANK-VTHLICYKFEGEKYELAKKIK--SI 167
V+ + GY + R + ++ L G +F L + K VTH++ L K+I+ +
Sbjct: 13 VIYINGYTKPGRLQLHEMIVLHGGKFLHYLSSKKTVTHIV-----ASNLPLKKRIEFANY 67
Query: 168 KLVNHRWLEDCLRVWELLPEVNY 190
K+V+ W+ D ++ LLP NY
Sbjct: 68 KVVSPDWIVDSVKEARLLPWQNY 90
>pdb|2EBW|A Chain A, Solution Structure Of The Brct Domain From Human Dna
Repair Protein Rev1
Length = 97
Score = 32.7 bits (73), Expect = 1.3, Method: Composition-based stats.
Identities = 19/77 (24%), Positives = 35/77 (45%), Gaps = 3/77 (3%)
Query: 114 LTGYQRQDREDIMTLVRLMGSQFSKPLVANKVTHLICYKFEGEKYELAKKIKSIKLVNHR 173
+ GY E++ L+ L G Q+ +K TH+I K K++K K++
Sbjct: 20 VNGYTDPSAEELRKLMMLHGGQYHVYYSRSKTTHIIATNLPNAK---IKELKGEKVIRPE 76
Query: 174 WLEDCLRVWELLPEVNY 190
W+ + ++ LL + Y
Sbjct: 77 WIVESIKAGRLLSYIPY 93
>pdb|3SZM|A Chain A, Structure Of Human Microcephalin (Mcph1) Tandem Brct Domains
In Complex With A Gamma-H2ax Phosphopeptide
pdb|3SZM|B Chain B, Structure Of Human Microcephalin (Mcph1) Tandem Brct Domains
In Complex With A Gamma-H2ax Phosphopeptide
pdb|3SZM|C Chain C, Structure Of Human Microcephalin (Mcph1) Tandem Brct Domains
In Complex With A Gamma-H2ax Phosphopeptide
pdb|3SZM|D Chain D, Structure Of Human Microcephalin (Mcph1) Tandem Brct Domains
In Complex With A Gamma-H2ax Phosphopeptide
pdb|3SZM|E Chain E, Structure Of Human Microcephalin (Mcph1) Tandem Brct Domains
In Complex With A Gamma-H2ax Phosphopeptide
pdb|3SZM|F Chain F, Structure Of Human Microcephalin (Mcph1) Tandem Brct Domains
In Complex With A Gamma-H2ax Phosphopeptide
pdb|3SZM|G Chain G, Structure Of Human Microcephalin (Mcph1) Tandem Brct Domains
In Complex With A Gamma-H2ax Phosphopeptide
pdb|3SZM|H Chain H, Structure Of Human Microcephalin (Mcph1) Tandem Brct Domains
In Complex With A Gamma-H2ax Phosphopeptide
pdb|3T1N|A Chain A, Structure Of Human Microcephalin (Mcph1) Tandem Brct Domains
In Complex With A Cdc27 Phosphopeptide
pdb|3T1N|B Chain B, Structure Of Human Microcephalin (Mcph1) Tandem Brct Domains
In Complex With A Cdc27 Phosphopeptide
pdb|3U3Z|A Chain A, Structure Of Human Microcephalin (Mcph1) Tandem Brct Domains
In Complex With An H2a.X Peptide Phosphorylated At Ser139
And Tyr142
Length = 199
Score = 32.7 bits (73), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 24/46 (52%)
Query: 1053 THFIAPEIRRTEKFFAAAASGRWILKTDYLSACSQAGKFLLEEPYE 1098
TH ++ + RT A G W+L D++ + G ++ EEP+E
Sbjct: 48 THVLSGKPLRTLNVLLGIARGCWVLSYDWVLWSLELGHWISEEPFE 93
>pdb|3SHT|A Chain A, Crystal Structure Of Human Mcph1 Tandem Brct Domains
pdb|3SHT|B Chain B, Crystal Structure Of Human Mcph1 Tandem Brct Domains
pdb|3SHT|C Chain C, Crystal Structure Of Human Mcph1 Tandem Brct Domains
pdb|3SHV|A Chain A, Crystal Structure Of Human Mcph1 Tandem Brct Domains-Gamma
H2ax Complex
pdb|3SHV|B Chain B, Crystal Structure Of Human Mcph1 Tandem Brct Domains-Gamma
H2ax Complex
Length = 206
Score = 32.3 bits (72), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 24/46 (52%)
Query: 1053 THFIAPEIRRTEKFFAAAASGRWILKTDYLSACSQAGKFLLEEPYE 1098
TH ++ + RT A G W+L D++ + G ++ EEP+E
Sbjct: 55 THVLSGKPLRTLNVLLGIARGCWVLSYDWVLWSLELGHWISEEPFE 100
>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 = 32.0 bits (71), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 25/52 (48%), Gaps = 6/52 (11%)
Query: 1260 TCQACGCSDRGEVMLICGDESGSVGCGVGMHIDCCDPPLESVPEEDWFCPTC 1311
+C CG S+ + +L C D C G H+ C +PP+ PE W C C
Sbjct: 60 SCILCGTSENDDQLLFCDD------CDRGYHMYCLNPPVAEPPEGSWSCHLC 105
>pdb|3PD7|A Chain A, Crystal Structure Of The Sixth Brct Domain Of Human Topbp1
pdb|3PD7|B Chain B, Crystal Structure Of The Sixth Brct Domain Of Human Topbp1
Length = 107
Score = 30.8 bits (68), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 20/88 (22%), Positives = 44/88 (50%), Gaps = 9/88 (10%)
Query: 108 NSLVMCLTGYQRQDREDIMTLVRLMGSQFSKPLVANKVTHLICYKFEGEKYELAKKIKSI 167
+ +V+C++ + + ++ + +G+ + + VTH I ++G + ++ KS+
Sbjct: 17 HKVVVCVSKKLSKKQSELNGIAASLGADYRRSF-DETVTHFI---YQGRPNDTNREYKSV 72
Query: 168 K-----LVNHRWLEDCLRVWELLPEVNY 190
K +V+ WL DC + + LPE Y
Sbjct: 73 KERGVHIVSEHWLLDCAQECKHLPESLY 100
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 0.382
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 38,329,971
Number of Sequences: 62578
Number of extensions: 1587942
Number of successful extensions: 2571
Number of sequences better than 100.0: 70
Number of HSP's better than 100.0 without gapping: 42
Number of HSP's successfully gapped in prelim test: 28
Number of HSP's that attempted gapping in prelim test: 2494
Number of HSP's gapped (non-prelim): 78
length of query: 1324
length of database: 14,973,337
effective HSP length: 110
effective length of query: 1214
effective length of database: 8,089,757
effective search space: 9820964998
effective search space used: 9820964998
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: 57 (26.6 bits)