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= 000891
(1236 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 60.8 bits (146), Expect = 4e-09, Method: Composition-based stats.
Identities = 22/42 (52%), Positives = 27/42 (64%)
Query: 377 CRICGMDGTLLCCDGCPSAYHTRCIGVSKMYVPEGSWYCPEC 418
CR+C G LLCCD CPS+YH C+ + VP+G W CP C
Sbjct: 12 CRVCKDGGELLCCDTCPSSYHIHCLRPALYEVPDGEWQCPRC 53
>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 = 59.7 bits (143), Expect = 1e-08, Method: Composition-based stats.
Identities = 21/42 (50%), Positives = 25/42 (59%)
Query: 377 CRICGMDGTLLCCDGCPSAYHTRCIGVSKMYVPEGSWYCPEC 418
CR+C G LLCCD CPS+YH C+ +P G W CP C
Sbjct: 12 CRVCKDGGELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRC 53
>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 = 57.8 bits (138), Expect = 3e-08, Method: Composition-based stats.
Identities = 22/52 (42%), Positives = 28/52 (53%)
Query: 367 GVDVDGNGDECRICGMDGTLLCCDGCPSAYHTRCIGVSKMYVPEGSWYCPEC 418
G N DEC +C G L+CCDGCP A+H C+ +P G+W C C
Sbjct: 1 GAMAQKNEDECAVCRDGGELICCDGCPRAFHLACLSPPLREIPSGTWRCSSC 52
>pdb|2L5U|A Chain A, Structure Of The First Phd Finger (Phd1) From Chd4 (Mi2b)
Length = 61
Score = 53.1 bits (126), Expect = 9e-07, Method: Composition-based stats.
Identities = 19/44 (43%), Positives = 23/44 (52%)
Query: 375 DECRICGMDGTLLCCDGCPSAYHTRCIGVSKMYVPEGSWYCPEC 418
D C +C G ++ CD CP AYH C+ PEG W CP C
Sbjct: 12 DYCEVCQQGGEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHC 55
>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 = 51.6 bits (122), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 21/46 (45%), Positives = 27/46 (58%)
Query: 373 NGDECRICGMDGTLLCCDGCPSAYHTRCIGVSKMYVPEGSWYCPEC 418
N DEC +C G L+CCDGCP A+H C+ +P G+W C C
Sbjct: 4 NEDECAVCRDGGELICCDGCPRAFHLACLSPPLREIPSGTWRCSSC 49
>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 = 48.5 bits (114), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 25/50 (50%)
Query: 369 DVDGNGDECRICGMDGTLLCCDGCPSAYHTRCIGVSKMYVPEGSWYCPEC 418
D D N D C +C G LLCC+ CP +H C + + P G W C C
Sbjct: 2 DDDPNEDWCAVCQNGGDLLCCEKCPKVFHLTCHVPTLLSFPSGDWICTFC 51
>pdb|1F62|A Chain A, Wstf-Phd
Length = 51
Score = 45.1 bits (105), Expect = 3e-04, Method: Composition-based stats.
Identities = 18/45 (40%), Positives = 25/45 (55%), Gaps = 3/45 (6%)
Query: 377 CRIC---GMDGTLLCCDGCPSAYHTRCIGVSKMYVPEGSWYCPEC 418
C++C G D L+ CD C A+H C+ + VP+G W CP C
Sbjct: 3 CKVCRKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPAC 47
>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 = 44.3 bits (103), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 22/46 (47%)
Query: 373 NGDECRICGMDGTLLCCDGCPSAYHTRCIGVSKMYVPEGSWYCPEC 418
N D C +C G LLCC+ CP +H C + P G W C C
Sbjct: 3 NEDWCAVCQNGGELLCCEKCPKVFHLSCHVPTLTNFPSGEWICTFC 48
>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 = 43.9 bits (102), Expect = 5e-04, Method: Composition-based stats.
Identities = 26/83 (31%), Positives = 37/83 (44%), Gaps = 7/83 (8%)
Query: 358 FKGTEMDAPGVDVDGNGDECRICGMDGTLLCCDGCPSAYHTRCI-------GVSKMYVPE 410
FK D D DG ++CR C G L+CCD C +A+ +CI +S +
Sbjct: 47 FKYYMSDDISRDSDGMDEQCRWCAEGGNLICCDFCHNAFCKKCILRNLGRKELSTIMDEN 106
Query: 411 GSWYCPECAINKVGPIVTIGTSL 433
WYC C + +VT S+
Sbjct: 107 NQWYCYICHPEPLLDLVTACNSV 129
>pdb|2KU3|A Chain A, Solution Structure Of Brd1 Phd1 Finger
Length = 71
Score = 43.1 bits (100), Expect = 9e-04, Method: Composition-based stats.
Identities = 23/55 (41%), Positives = 27/55 (49%), Gaps = 9/55 (16%)
Query: 377 CRICGMDG------TLLCCDGCPSAYHTRCIGVSKMYVPEGSWYCPECAINKVGP 425
C IC MDG +L CD C A H C GV Y+PEG W C C ++ P
Sbjct: 19 CSIC-MDGESQNSNVILFCDMCNLAVHQECYGVP--YIPEGQWLCRHCLQSRARP 70
>pdb|2L43|A Chain A, Structural Basis For Histone Code Recognition By
Brpf2-Phd1 Finger
Length = 88
Score = 43.1 bits (100), Expect = 0.001, Method: Composition-based stats.
Identities = 23/55 (41%), Positives = 27/55 (49%), Gaps = 9/55 (16%)
Query: 377 CRICGMDG------TLLCCDGCPSAYHTRCIGVSKMYVPEGSWYCPECAINKVGP 425
C IC MDG +L CD C A H C GV Y+PEG W C C ++ P
Sbjct: 28 CSIC-MDGESQNSNVILFCDMCNLAVHQECYGVP--YIPEGQWLCRHCLQSRARP 79
>pdb|2E6R|A Chain A, Solution Structure Of The Phd Domain In Smcy Protein
Length = 92
Score = 43.1 bits (100), Expect = 0.001, Method: Composition-based stats.
Identities = 18/47 (38%), Positives = 24/47 (51%), Gaps = 3/47 (6%)
Query: 377 CRICGM---DGTLLCCDGCPSAYHTRCIGVSKMYVPEGSWYCPECAI 420
C++C D LL CDGC YH C+ +P G W CP+C +
Sbjct: 19 CQVCSRGDEDDKLLFCDGCDDNYHIFCLLPPLPEIPRGIWRCPKCIL 65
>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 = 42.7 bits (99), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 23/46 (50%)
Query: 373 NGDECRICGMDGTLLCCDGCPSAYHTRCIGVSKMYVPEGSWYCPEC 418
+ D C +C G LL CD C YH C+ +P+G W CP C
Sbjct: 4 HEDFCSVCRKSGQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRC 49
>pdb|2YQL|A Chain A, Solution Structure Of The Phd Domain In Phd Finger Protein
21a
Length = 56
Score = 42.7 bits (99), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 24/47 (51%)
Query: 372 GNGDECRICGMDGTLLCCDGCPSAYHTRCIGVSKMYVPEGSWYCPEC 418
G+ D C +C G LL CD C YH C+ +P+G W CP C
Sbjct: 7 GHEDFCSVCRKSGQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRC 53
>pdb|2JM1|A Chain A, Structures And Chemical Shift Assignments For The Add
Domain Of The Atrx Protein
Length = 141
Score = 42.4 bits (98), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 37/83 (44%), Gaps = 7/83 (8%)
Query: 358 FKGTEMDAPGVDVDGNGDECRICGMDGTLLCCDGCPSAYHTRCI-------GVSKMYVPE 410
FK D D DG ++CR C G L+CCD C +A+ +CI +S +
Sbjct: 46 FKYYMSDDISRDSDGMDEQCRWCAEGGNLICCDFCHNAFCKKCILRNLGRKELSTIMDEN 105
Query: 411 GSWYCPECAINKVGPIVTIGTSL 433
WYC C + +VT S+
Sbjct: 106 NQWYCYICHPEPLLDLVTACNSV 128
>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 = 40.8 bits (94), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 37/83 (44%), Gaps = 7/83 (8%)
Query: 358 FKGTEMDAPGVDVDGNGDECRICGMDGTLLCCDGCPSAYHTRCI-------GVSKMYVPE 410
FK D D DG ++CR C G L+CCD C +A+ +CI +S +
Sbjct: 41 FKYYMSDDISRDSDGMDEQCRWCAEGGNLICCDFCHNAFCKKCILRNLGRRELSTIMDEN 100
Query: 411 GSWYCPECAINKVGPIVTIGTSL 433
WYC C + +VT S+
Sbjct: 101 NQWYCYICHPEPLLDLVTACNSV 123
>pdb|2LV9|A Chain A, Solution Nmr Structure Of The Phd Domain Of Human Mll5,
Northeast Structural Genomics Consortium Target Hr6512a
Length = 98
Score = 40.0 bits (92), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 36/66 (54%), Gaps = 9/66 (13%)
Query: 356 LGFKGTEMDAPGVDVDGNGDECRICGM---DGTLLCCDGCPSAYHTRCIGVSKMYVPEGS 412
L F+G+E + G DV C ICG DG ++CCD C H C+G+ + ++P+ +
Sbjct: 14 LYFQGSEDGSYGTDVT----RC-ICGFTHDDGYMICCDKCSVWQHIDCMGIDRQHIPD-T 67
Query: 413 WYCPEC 418
+ C C
Sbjct: 68 YLCERC 73
>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 = 39.7 bits (91), Expect = 0.009, Method: Composition-based stats.
Identities = 24/70 (34%), Positives = 35/70 (50%), Gaps = 7/70 (10%)
Query: 360 GTEMDAPGVDVDGNGDECRICGM-----DGT-LLCCDGCPSAYHTRCIGVSKMYVPEGSW 413
G+ M V D G++ IC DG+ ++ CD C YH C+G+ E W
Sbjct: 1 GSHMAMAYVIRDEWGNQIWICPGCNKPDDGSPMIGCDDCDDWYHWPCVGIMAAPPEEMQW 60
Query: 414 YCPECAINKV 423
+CP+CA NK+
Sbjct: 61 FCPKCA-NKI 69
>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 = 37.7 bits (86), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 24/47 (51%), Gaps = 6/47 (12%)
Query: 377 CRICG----MDGTLLCCDGCPSAYHTRCIGVSKMYVP-EGSWYCPEC 418
C +CG D L+C D C A+H C+ VP E WYCPEC
Sbjct: 177 CHLCGGRQDPDKQLMC-DECDMAFHIYCLDPPLSSVPSEDEWYCPEC 222
>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 = 37.4 bits (85), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 24/47 (51%), Gaps = 6/47 (12%)
Query: 377 CRICG----MDGTLLCCDGCPSAYHTRCIGVSKMYVP-EGSWYCPEC 418
C +CG D L+C D C A+H C+ VP E WYCPEC
Sbjct: 193 CHLCGGRQDPDKQLMC-DECDMAFHIYCLDPPLSSVPSEDEWYCPEC 238
>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 = 37.4 bits (85), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 21/56 (37%), Positives = 25/56 (44%), Gaps = 6/56 (10%)
Query: 376 ECRIC------GMDGTLLCCDGCPSAYHTRCIGVSKMYVPEGSWYCPECAINKVGP 425
EC++C G D +L CD C YHT C+ VP W C C I GP
Sbjct: 53 ECKVCQNCKQSGEDSKMLVCDTCDKGYHTFCLQPVMKSVPTNGWKCKNCRICISGP 108
Score = 30.0 bits (66), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 23/51 (45%), Gaps = 3/51 (5%)
Query: 373 NGDECRICGMDGTLL---CCDGCPSAYHTRCIGVSKMYVPEGSWYCPECAI 420
+G C +C G LL C C YH C+ ++ + W CPEC +
Sbjct: 6 SGANCAVCDSPGDLLDQFFCTTCGQHYHGMCLDIAVTPLKRAGWQCPECKV 56
>pdb|1FP0|A Chain A, Solution Structure Of The Phd Domain From The Kap-1
Corepressor
Length = 88
Score = 34.7 bits (78), Expect = 0.30, Method: Composition-based stats.
Identities = 15/51 (29%), Positives = 23/51 (45%)
Query: 370 VDGNGDECRICGMDGTLLCCDGCPSAYHTRCIGVSKMYVPEGSWYCPECAI 420
+D + CR+C G L+ C+ C +H C + VP W C C +
Sbjct: 21 LDDSATICRVCQKPGDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHV 71
>pdb|3KV5|D Chain D, Structure Of Kiaa1718, Human Jumonji Demethylase, In
Complex With N-Oxalylglycine
pdb|3KV5|A Chain A, Structure Of Kiaa1718, Human Jumonji Demethylase, In
Complex With N-Oxalylglycine
pdb|3KV6|A Chain A, Structure Of Kiaa1718, Human Jumonji Demethylase, In
Complex With Alpha-Ketoglutarate
pdb|3KV6|D Chain D, Structure Of Kiaa1718, Human Jumonji Demethylase, In
Complex With Alpha-Ketoglutarate
Length = 488
Score = 34.7 bits (78), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 33/141 (23%), Positives = 57/141 (40%), Gaps = 26/141 (18%)
Query: 386 LLCCDGCPSAYHTRCIGVSKMYVPEGSWY-CPECAINKVGPIVTIGTSLR---------- 434
++ CD C +H C+GV + + + Y CP CA+ ++ +
Sbjct: 52 MIECDICKDWFHGSCVGVEEHHAVDIDLYHCPNCAVLHGSSLMKKRRNWHRHDYTEIDDG 111
Query: 435 ------GAELFGIDLYERVFLGTCNHLLVLNASSNTEQYIRYYN---PIDIPKV------ 479
G F +L RVF ++ ++ S T++Y+ + PI +PK+
Sbjct: 112 SKPVQAGTRTFIKELRSRVFPSADEIIIKMHGSQLTQRYLEKHGFDVPIMVPKLDDLGLR 171
Query: 480 LQALLSSVQHVSLYLGICKAI 500
L + SV V Y+G K I
Sbjct: 172 LPSPTFSVMDVERYVGGDKVI 192
>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 = 34.7 bits (78), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 19/44 (43%), Positives = 24/44 (54%), Gaps = 4/44 (9%)
Query: 375 DECRICGMDGTLLCCD--GCPSAYHTRCIGVSKMYVPEGSWYCP 416
D C CG G L+ CD CP AYH C+ +++ P G W CP
Sbjct: 16 DYCFQCGDGGELVMCDKKDCPKAYHLLCLNLTQ--PPYGKWECP 57
>pdb|3E8J|A Chain A, Coproporphyrinogen Iii Oxidase From Leishmania Naiffi
pdb|3E8J|B Chain B, Coproporphyrinogen Iii Oxidase From Leishmania Naiffi
Length = 306
Score = 33.9 bits (76), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 22/90 (24%), Positives = 40/90 (44%), Gaps = 19/90 (21%)
Query: 864 LNSIKALLLELEENICH-IALSGDWVKLMDD-W------------LGDSSVIQSASCNFV 909
+ ++K LL+L+++ICH I + M+D W + + +VI+ NF
Sbjct: 10 VEAVKEFLLKLQDDICHAIEAEDEQATFMEDKWTREGGGGGRTRVIANGAVIEKGGVNFS 69
Query: 910 TTQKRGLSGKRGRKHSVISEVTADDCNDQS 939
+GL G +H ++ CN Q+
Sbjct: 70 HVYGKGLPGSSTERHPDMA-----GCNYQA 94
>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 = 33.5 bits (75), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 21/45 (46%), Gaps = 3/45 (6%)
Query: 377 CRICGM---DGTLLCCDGCPSAYHTRCIGVSKMYVPEGSWYCPEC 418
C +CG D LL CD C YH C+ PEGSW C C
Sbjct: 61 CILCGTSENDDQLLFCDDCDRGYHMYCLNPPVAEPPEGSWSCHLC 105
>pdb|2RO1|A Chain A, Nmr Solution Structures Of Human Kap1 Phd
Finger-Bromodomain
Length = 189
Score = 33.1 bits (74), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 20/44 (45%)
Query: 377 CRICGMDGTLLCCDGCPSAYHTRCIGVSKMYVPEGSWYCPECAI 420
CR+C G L+ C+ C +H C + VP W C C +
Sbjct: 5 CRVCQKPGDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHV 48
>pdb|3ZVZ|B Chain B, Phd Finger Of Human Uhrf1
Length = 57
Score = 33.1 bits (74), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 24/47 (51%), Gaps = 6/47 (12%)
Query: 377 CRICG----MDGTLLCCDGCPSAYHTRCIGVSKMYVP-EGSWYCPEC 418
C +CG D L+C D C A+H C+ VP E WYCPEC
Sbjct: 8 CHLCGGRQDPDKQLMC-DECDMAFHIYCLDPPLSSVPSEDEWYCPEC 53
>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 = 33.1 bits (74), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 24/47 (51%), Gaps = 6/47 (12%)
Query: 377 CRICG----MDGTLLCCDGCPSAYHTRCIGVSKMYVP-EGSWYCPEC 418
C +CG D L+C D C A+H C+ VP E WYCPEC
Sbjct: 23 CHLCGGRQDPDKQLMC-DECDMAFHIYCLDPPLSSVPSEDEWYCPEC 68
>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 = 32.7 bits (73), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 24/47 (51%), Gaps = 6/47 (12%)
Query: 377 CRICG----MDGTLLCCDGCPSAYHTRCIGVSKMYVP-EGSWYCPEC 418
C +CG D L+C D C A+H C+ VP E WYCPEC
Sbjct: 21 CHLCGGRQDPDKQLMC-DECDMAFHIYCLDPPLSSVPSEDEWYCPEC 66
>pdb|2E6S|A Chain A, Solution Structure Of The Phd Domain In Ring Finger
Protein 107
Length = 77
Score = 32.7 bits (73), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 26/71 (36%), Positives = 31/71 (43%), Gaps = 6/71 (8%)
Query: 357 GFKGTEMDAPGVDVDG--NGDECRICG---MDGTLLCCDGCPSAYHTRCIGVSKMYVPEG 411
G TE D G D + + CR+CG L CD C AYH C+ VPE
Sbjct: 7 GRNDTECDLCGGDPEKKCHSCSCRVCGGKHEPNMQLLCDECNVAYHIYCLNPPLDKVPEE 66
Query: 412 S-WYCPECAIN 421
WYCP C +
Sbjct: 67 EYWYCPSCKTD 77
>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 = 32.7 bits (73), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 24/47 (51%), Gaps = 6/47 (12%)
Query: 377 CRICG----MDGTLLCCDGCPSAYHTRCIGVSKMYVP-EGSWYCPEC 418
C +CG D L+C D C A+H C+ VP E WYCPEC
Sbjct: 21 CHLCGGRQDPDKQLMC-DECDMAFHIYCLDPPLSSVPSEDEWYCPEC 66
>pdb|3SHB|A Chain A, Crystal Structure Of Phd Domain Of Uhrf1
Length = 77
Score = 32.3 bits (72), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 24/47 (51%), Gaps = 6/47 (12%)
Query: 377 CRICG----MDGTLLCCDGCPSAYHTRCIGVSKMYVP-EGSWYCPEC 418
C +CG D L+C D C A+H C+ VP E WYCPEC
Sbjct: 29 CHLCGGRQDPDKQLMC-DECDMAFHIYCLDPPLSSVPSEDEWYCPEC 74
>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 = 32.3 bits (72), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 24/47 (51%), Gaps = 6/47 (12%)
Query: 377 CRICG----MDGTLLCCDGCPSAYHTRCIGVSKMYVP-EGSWYCPEC 418
C +CG D L+C D C A+H C+ VP E WYCPEC
Sbjct: 26 CHLCGGRQDPDKQLMC-DECDMAFHIYCLDPPLSSVPSEDEWYCPEC 71
>pdb|2GAH|C Chain C, Heterotetrameric Sarcosine: Structure Of A Diflavin
Metaloenzyme At 1.85 A Resolution
Length = 210
Score = 32.0 bits (71), Expect = 2.2, Method: Composition-based stats.
Identities = 23/76 (30%), Positives = 34/76 (44%), Gaps = 4/76 (5%)
Query: 337 AVEFNAENDRMKTSCKAKPLG--FKGTEMDAPG--VDVDGNGDECRICGMDGTLLCCDGC 392
AV + A ++ + TS + LG DAPG VD+ N + G D L+ C
Sbjct: 80 AVLWLAPDEFLATSAENTELGGVLSAALGDAPGQVVDLSANRSVLELTGPDAPLVLRKSC 139
Query: 393 PSAYHTRCIGVSKMYV 408
P+ H R V++ V
Sbjct: 140 PADLHPRAFAVNQAIV 155
>pdb|2GAG|C Chain C, Heteroteterameric Sarcosine: Structure Of A Diflavin
Metaloenzyme At 1.85 A Resolution
Length = 210
Score = 32.0 bits (71), Expect = 2.2, Method: Composition-based stats.
Identities = 23/76 (30%), Positives = 34/76 (44%), Gaps = 4/76 (5%)
Query: 337 AVEFNAENDRMKTSCKAKPLG--FKGTEMDAPG--VDVDGNGDECRICGMDGTLLCCDGC 392
AV + A ++ + TS + LG DAPG VD+ N + G D L+ C
Sbjct: 80 AVLWLAPDEFLATSAENTELGGVLSAALGDAPGQVVDLSANRSVLELTGPDAPLVLRKSC 139
Query: 393 PSAYHTRCIGVSKMYV 408
P+ H R V++ V
Sbjct: 140 PADLHPRAFAVNQAIV 155
>pdb|3KQI|A Chain A, Crystal Structure Of Phf2 Phd Domain Complexed With
H3k4me3 Peptide
Length = 75
Score = 31.6 bits (70), Expect = 3.1, Method: Composition-based stats.
Identities = 11/31 (35%), Positives = 17/31 (54%), Gaps = 1/31 (3%)
Query: 389 CDGCPSAYHTRCIGVSKMYVPE-GSWYCPEC 418
CD C +H C+GV + P+ ++CP C
Sbjct: 28 CDACKDWFHGSCVGVEEEEAPDIDIYHCPNC 58
>pdb|3C6W|A Chain A, Crystal Structure Of The Ing5 Phd Finger In Complex With
H3k4me3 Peptide
pdb|3C6W|C Chain C, Crystal Structure Of The Ing5 Phd Finger In Complex With
H3k4me3 Peptide
Length = 59
Score = 31.6 bits (70), Expect = 3.3, Method: Composition-based stats.
Identities = 14/42 (33%), Positives = 22/42 (52%), Gaps = 5/42 (11%)
Query: 384 GTLLCCDG--CP-SAYHTRCIGVSKMYVPEGSWYCPECAINK 422
G ++ CD CP +H C+ ++ P+G W+CP C K
Sbjct: 20 GEMIGCDNPDCPIEWFHFACVDLTTK--PKGKWFCPRCVQEK 59
>pdb|1X4I|A Chain A, Solution Structure Of Phd Domain In Inhibitor Of Growth
Protein 3 (Ing3)
Length = 70
Score = 31.2 bits (69), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 24/38 (63%), Gaps = 5/38 (13%)
Query: 384 GTLLCCDG--CP-SAYHTRCIGVSKMYVPEGSWYCPEC 418
G ++ CD CP +H C+G+++ P+G WYCP+C
Sbjct: 17 GEMVGCDNQDCPIEWFHYGCVGLTE--APKGKWYCPQC 52
>pdb|1WEE|A Chain A, Solution Structure Of Phd Domain In Phd Finger Family
Protein
Length = 72
Score = 31.2 bits (69), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 21/40 (52%), Gaps = 1/40 (2%)
Query: 386 LLCCDGCPSAYHTRCIGVSKMYVPEGSWYCPECAINKVGP 425
+L CDGC +HTRCIG++ + C C I GP
Sbjct: 31 MLACDGCGVWHHTRCIGINNADALPSKFLCFRC-IELSGP 69
>pdb|2LRI|C Chain C, Nmr Structure Of The Second Phd Finger Of Aire (aire-phd2)
Length = 66
Score = 30.8 bits (68), Expect = 5.2, Method: Composition-based stats.
Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 2/47 (4%)
Query: 374 GDECRICGMDGT-LLCCDGCPSAYHTRCIGVSKMYVPEGSWYCPECA 419
G C +CG DGT +L C C +A+H RC + P C C+
Sbjct: 12 GARCGVCG-DGTDVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCS 57
>pdb|2QIC|A Chain A, Crystal Structure Of The Ing1 Phd Finger In Complex With A
Histone H3k4me3 Peptide
Length = 62
Score = 30.8 bits (68), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 24/38 (63%), Gaps = 5/38 (13%)
Query: 384 GTLLCCDG--CP-SAYHTRCIGVSKMYVPEGSWYCPEC 418
G ++ CD CP +H C+G++ + P+G WYCP+C
Sbjct: 22 GEMIGCDNDECPIEWFHFSCVGLN--HKPKGKWYCPKC 57
>pdb|2G6Q|A Chain A, Crystal Structure Of Ing2 Phd Domain In Complex With
H3k4me3 Peptide
Length = 62
Score = 30.4 bits (67), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 17/38 (44%), Positives = 22/38 (57%), Gaps = 5/38 (13%)
Query: 384 GTLLCCDG--CP-SAYHTRCIGVSKMYVPEGSWYCPEC 418
G ++ CD CP +H C VS Y P+G WYCP+C
Sbjct: 22 GEMIGCDNEQCPIEWFHFSC--VSLTYKPKGKWYCPKC 57
>pdb|1WES|A Chain A, Solution Structure Of Phd Domain In Inhibitor Of Growth
Family, Member 1-Like
Length = 71
Score = 30.4 bits (67), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 17/38 (44%), Positives = 22/38 (57%), Gaps = 5/38 (13%)
Query: 384 GTLLCCDG--CP-SAYHTRCIGVSKMYVPEGSWYCPEC 418
G ++ CD CP +H C VS Y P+G WYCP+C
Sbjct: 27 GEMIGCDNEQCPIEWFHFSC--VSLTYKPKGKWYCPKC 62
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
0.319 0.134 0.403
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 34,718,840
Number of Sequences: 62578
Number of extensions: 1406239
Number of successful extensions: 2693
Number of sequences better than 100.0: 58
Number of HSP's better than 100.0 without gapping: 27
Number of HSP's successfully gapped in prelim test: 31
Number of HSP's that attempted gapping in prelim test: 2650
Number of HSP's gapped (non-prelim): 64
length of query: 1236
length of database: 14,973,337
effective HSP length: 110
effective length of query: 1126
effective length of database: 8,089,757
effective search space: 9109066382
effective search space used: 9109066382
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 57 (26.6 bits)