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= 044767
(656 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 57.0 bits (136), Expect = 3e-08, Method: Composition-based stats.
Identities = 25/44 (56%), Positives = 29/44 (65%), Gaps = 2/44 (4%)
Query: 337 DMCVVCLDGGELICCDHCPCMYHSSCLG--LKDIPYGDWFCPLC 378
D C VC DGGELICCD CP +H +CL L++IP G W C C
Sbjct: 9 DECAVCRDGGELICCDGCPRAFHLACLSPPLREIPSGTWRCSSC 52
>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 = 52.8 bits (125), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 26/47 (55%), Positives = 30/47 (63%), Gaps = 2/47 (4%)
Query: 337 DMCVVCLDGGELICCDHCPCMYHSSCLG--LKDIPYGDWFCPLCCCA 381
+ C VC DGGEL+CCD CP YH CL L +IP G+W CP C C
Sbjct: 10 EFCRVCKDGGELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCP 56
>pdb|2KFT|A Chain A, Nmr Solution Structure Of The First Phd Finger Domain Of
Human Autoimmune Regulator (Aire) In Complex With
Histone H3(1-20cys) Peptide
Length = 56
Score = 52.0 bits (123), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 25/44 (56%), Positives = 29/44 (65%), Gaps = 2/44 (4%)
Query: 337 DMCVVCLDGGELICCDHCPCMYHSSCLG--LKDIPYGDWFCPLC 378
D C VC DGGELICCD CP +H +CL L++IP G W C C
Sbjct: 6 DECAVCRDGGELICCDGCPRAFHLACLSPPLREIPSGTWRCSSC 49
>pdb|2L5U|A Chain A, Structure Of The First Phd Finger (Phd1) From Chd4 (Mi2b)
Length = 61
Score = 52.0 bits (123), Expect = 1e-06, Method: Composition-based stats.
Identities = 23/51 (45%), Positives = 29/51 (56%), Gaps = 2/51 (3%)
Query: 330 SHQVETYDMCVVCLDGGELICCDHCPCMYHSSCL--GLKDIPYGDWFCPLC 378
S++ + D C VC GGE+I CD CP YH CL ++ P G W CP C
Sbjct: 5 SYETDHQDYCEVCQQGGEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHC 55
>pdb|3O33|A Chain A, Crystal Structure Of Trim24 Phd-Bromo In The Free State
pdb|3O33|B Chain B, Crystal Structure Of Trim24 Phd-Bromo In The Free State
pdb|3O33|C Chain C, Crystal Structure Of Trim24 Phd-Bromo In The Free State
pdb|3O33|D Chain D, Crystal Structure Of Trim24 Phd-Bromo In The Free State
pdb|3O34|A Chain A, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(13-32)k23ac Peptide
pdb|3O35|A Chain A, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(23-31)k27ac Peptide
pdb|3O35|B Chain B, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(23-31)k27ac Peptide
pdb|3O36|A Chain A, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H4(14-19)k16ac Peptide
pdb|3O36|B Chain B, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H4(14-19)k16ac Peptide
pdb|3O37|A Chain A, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(1-10)k4 Peptide
pdb|3O37|B Chain B, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(1-10)k4 Peptide
pdb|3O37|C Chain C, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(1-10)k4 Peptide
pdb|3O37|D Chain D, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(1-10)k4 Peptide
Length = 184
Score = 50.8 bits (120), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 21/44 (47%), Positives = 28/44 (63%), Gaps = 2/44 (4%)
Query: 337 DMCVVCLDGGELICCDHCPCMYHSSC--LGLKDIPYGDWFCPLC 378
D C VC +GGEL+CC+ CP ++H SC L + P G+W C C
Sbjct: 5 DWCAVCQNGGELLCCEKCPKVFHLSCHVPTLTNFPSGEWICTFC 48
>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 = 50.4 bits (119), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 25/47 (53%), Positives = 30/47 (63%), Gaps = 2/47 (4%)
Query: 337 DMCVVCLDGGELICCDHCPCMYHSSCL--GLKDIPYGDWFCPLCCCA 381
+ C VC DGGEL+CCD CP YH CL L ++P G+W CP C C
Sbjct: 10 EFCRVCKDGGELLCCDTCPSSYHIHCLRPALYEVPDGEWQCPRCTCP 56
>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 = 50.1 bits (118), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 20/44 (45%), Positives = 27/44 (61%), Gaps = 2/44 (4%)
Query: 337 DMCVVCLDGGELICCDHCPCMYHSSC--LGLKDIPYGDWFCPLC 378
D C VC +GG+L+CC+ CP ++H +C L P GDW C C
Sbjct: 8 DWCAVCQNGGDLLCCEKCPKVFHLTCHVPTLLSFPSGDWICTFC 51
>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 = 45.8 bits (107), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 25/56 (44%), Positives = 31/56 (55%), Gaps = 3/56 (5%)
Query: 323 SNRMKSNSHQVETYDMCVVCLDGGELICCDH--CPCMYHSSCLGLKDIPYGDWFCP 376
+ ++K+ Q+ D C C DGGEL+ CD CP YH CL L PYG W CP
Sbjct: 3 ARKIKTEPKQMHE-DYCFQCGDGGELVMCDKKDCPKAYHLLCLNLTQPPYGKWECP 57
>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 = 42.4 bits (98), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 22/44 (50%), Positives = 25/44 (56%), Gaps = 2/44 (4%)
Query: 337 DMCVVCLDGGELICCDHCPCMYHSSCLG--LKDIPYGDWFCPLC 378
D C VC G+L+ CD C +YH CL LK IP G W CP C
Sbjct: 6 DFCSVCRKSGQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRC 49
>pdb|1WEU|A Chain A, Solution Structure Of Phd Domain In Ing1-Like Protein
Bac25009
Length = 91
Score = 41.6 bits (96), Expect = 0.001, Method: Composition-based stats.
Identities = 17/36 (47%), Positives = 22/36 (61%), Gaps = 3/36 (8%)
Query: 346 GELICCDHCPC---MYHSSCLGLKDIPYGDWFCPLC 378
GE+I CD+ C +H +C+GL P G WFCP C
Sbjct: 47 GEMIGCDNPDCSIEWFHFACVGLTTKPRGKWFCPRC 82
>pdb|1X4I|A Chain A, Solution Structure Of Phd Domain In Inhibitor Of Growth
Protein 3 (Ing3)
Length = 70
Score = 41.2 bits (95), Expect = 0.002, Method: Composition-based stats.
Identities = 16/40 (40%), Positives = 24/40 (60%), Gaps = 3/40 (7%)
Query: 346 GELICCDHCPC---MYHSSCLGLKDIPYGDWFCPLCCCAI 382
GE++ CD+ C +H C+GL + P G W+CP C A+
Sbjct: 17 GEMVGCDNQDCPIEWFHYGCVGLTEAPKGKWYCPQCTAAM 56
>pdb|2YQL|A Chain A, Solution Structure Of The Phd Domain In Phd Finger Protein
21a
Length = 56
Score = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/44 (50%), Positives = 25/44 (56%), Gaps = 2/44 (4%)
Query: 337 DMCVVCLDGGELICCDHCPCMYHSSCLG--LKDIPYGDWFCPLC 378
D C VC G+L+ CD C +YH CL LK IP G W CP C
Sbjct: 10 DFCSVCRKSGQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRC 53
>pdb|1WEN|A Chain A, Solution Structure Of Phd Domain In Ing1-Like Protein
Bac25079
Length = 71
Score = 40.8 bits (94), Expect = 0.002, Method: Composition-based stats.
Identities = 17/36 (47%), Positives = 22/36 (61%), Gaps = 3/36 (8%)
Query: 346 GELICCDHCPC---MYHSSCLGLKDIPYGDWFCPLC 378
GE+I CD+ C +H +C+GL P G WFCP C
Sbjct: 27 GEMIGCDNPDCSIEWFHFACVGLTTKPRGKWFCPRC 62
>pdb|2VNF|A Chain A, Molecular Basis Of Histone H3k4me3 Recognition By Ing4
pdb|2VNF|C Chain C, Molecular Basis Of Histone H3k4me3 Recognition By Ing4
Length = 60
Score = 40.8 bits (94), Expect = 0.003, Method: Composition-based stats.
Identities = 17/36 (47%), Positives = 22/36 (61%), Gaps = 3/36 (8%)
Query: 346 GELICCDHCPC---MYHSSCLGLKDIPYGDWFCPLC 378
GE+I CD+ C +H +C+GL P G WFCP C
Sbjct: 21 GEMIGCDNPDCSIEWFHFACVGLTTKPRGKWFCPRC 56
>pdb|2E6R|A Chain A, Solution Structure Of The Phd Domain In Smcy Protein
Length = 92
Score = 40.4 bits (93), Expect = 0.003, Method: Composition-based stats.
Identities = 24/56 (42%), Positives = 30/56 (53%), Gaps = 6/56 (10%)
Query: 333 VETYDMCVVCLDGGE---LICCDHCPCMYHSSCL--GLKDIPYGDWFCPLCCCAIC 383
+++Y +C VC G E L+ CD C YH CL L +IP G W CP C A C
Sbjct: 14 IDSY-ICQVCSRGDEDDKLLFCDGCDDNYHIFCLLPPLPEIPRGIWRCPKCILAEC 68
>pdb|2QIC|A Chain A, Crystal Structure Of The Ing1 Phd Finger In Complex With A
Histone H3k4me3 Peptide
Length = 62
Score = 40.0 bits (92), Expect = 0.004, Method: Composition-based stats.
Identities = 17/36 (47%), Positives = 22/36 (61%), Gaps = 3/36 (8%)
Query: 346 GELICCDHCPC---MYHSSCLGLKDIPYGDWFCPLC 378
GE+I CD+ C +H SC+GL P G W+CP C
Sbjct: 22 GEMIGCDNDECPIEWFHFSCVGLNHKPKGKWYCPKC 57
>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 = 39.3 bits (90), Expect = 0.007, Method: Composition-based stats.
Identities = 19/46 (41%), Positives = 23/46 (50%), Gaps = 2/46 (4%)
Query: 344 DGGELICCDHCPCMYHSSCLGLKDIPYGD--WFCPLCCCAICGDGK 387
DG +I CD C YH C+G+ P + WFCP C I D K
Sbjct: 29 DGSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCANKIKKDKK 74
>pdb|2KU3|A Chain A, Solution Structure Of Brd1 Phd1 Finger
Length = 71
Score = 38.5 bits (88), Expect = 0.013, Method: Composition-based stats.
Identities = 16/46 (34%), Positives = 22/46 (47%), Gaps = 5/46 (10%)
Query: 338 MCVVCLDGGE-----LICCDHCPCMYHSSCLGLKDIPYGDWFCPLC 378
+C +C+DG ++ CD C H C G+ IP G W C C
Sbjct: 18 VCSICMDGESQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHC 63
>pdb|1F62|A Chain A, Wstf-Phd
Length = 51
Score = 37.7 bits (86), Expect = 0.018, Method: Composition-based stats.
Identities = 20/45 (44%), Positives = 24/45 (53%), Gaps = 5/45 (11%)
Query: 339 CVVCLDGGE---LICCDHCPCMYHSSCL--GLKDIPYGDWFCPLC 378
C VC GE LI CD C +H CL L ++P G+W CP C
Sbjct: 3 CKVCRKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPAC 47
>pdb|2JMI|A Chain A, Nmr Solution Structure Of Phd Finger Fragment Of Yeast
Yng1 Protein In Free State
pdb|2JMJ|A Chain A, Nmr Solution Structure Of The Phd Domain From The Yeast
Yng1 Protein In Complex With H3(1-9)k4me3 Peptide
Length = 90
Score = 37.7 bits (86), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 33/69 (47%), Gaps = 8/69 (11%)
Query: 310 HMVSTDNTAIVKGSNRMKSNSHQVETYDMCVVCLDGGELICCDHCPC---MYHSSCLGLK 366
HM S + + + N++Q E Y C + G ++ CD+ C +H C+GLK
Sbjct: 6 HMASE----FINQGDVTEGNNNQEEVYCFCRN-VSYGPMVACDNPACPFEWFHYGCVGLK 60
Query: 367 DIPYGDWFC 375
P G W+C
Sbjct: 61 QAPKGKWYC 69
>pdb|1WES|A Chain A, Solution Structure Of Phd Domain In Inhibitor Of Growth
Family, Member 1-Like
Length = 71
Score = 37.4 bits (85), Expect = 0.027, Method: Composition-based stats.
Identities = 17/36 (47%), Positives = 22/36 (61%), Gaps = 3/36 (8%)
Query: 346 GELICCDH--CPC-MYHSSCLGLKDIPYGDWFCPLC 378
GE+I CD+ CP +H SC+ L P G W+CP C
Sbjct: 27 GEMIGCDNEQCPIEWFHFSCVSLTYKPKGKWYCPKC 62
>pdb|2G6Q|A Chain A, Crystal Structure Of Ing2 Phd Domain In Complex With
H3k4me3 Peptide
Length = 62
Score = 37.0 bits (84), Expect = 0.036, Method: Composition-based stats.
Identities = 17/36 (47%), Positives = 22/36 (61%), Gaps = 3/36 (8%)
Query: 346 GELICCDH--CPC-MYHSSCLGLKDIPYGDWFCPLC 378
GE+I CD+ CP +H SC+ L P G W+CP C
Sbjct: 22 GEMIGCDNEQCPIEWFHFSCVSLTYKPKGKWYCPKC 57
>pdb|2RO1|A Chain A, Nmr Solution Structures Of Human Kap1 Phd
Finger-Bromodomain
Length = 189
Score = 36.6 bits (83), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 24/43 (55%), Gaps = 2/43 (4%)
Query: 338 MCVVCLDGGELICCDHCPCMYHSSC--LGLKDIPYGDWFCPLC 378
+C VC G+L+ C+ C +H C L+D+P +W C LC
Sbjct: 4 ICRVCQKPGDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLC 46
>pdb|2K1J|A Chain A, Plan Homeodomain Finger Of Tumour Supressor Ing4
Length = 63
Score = 35.8 bits (81), Expect = 0.076, Method: Compositional matrix adjust.
Identities = 17/36 (47%), Positives = 22/36 (61%), Gaps = 3/36 (8%)
Query: 346 GELICCDHCPC---MYHSSCLGLKDIPYGDWFCPLC 378
GE+I CD+ C +H +C+GL P G WFCP C
Sbjct: 21 GEMIGCDNPDCSIEWFHFACVGLTTKPRGKWFCPRC 56
>pdb|2PNX|A Chain A, The Phd Finger Of Ing4 In Complex With An H3k4me3 Histone
Peptide
pdb|2PNX|C Chain C, The Phd Finger Of Ing4 In Complex With An H3k4me3 Histone
Peptide
Length = 55
Score = 35.4 bits (80), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 17/36 (47%), Positives = 22/36 (61%), Gaps = 3/36 (8%)
Query: 346 GELICCDHCPC---MYHSSCLGLKDIPYGDWFCPLC 378
GE+I CD+ C +H +C+GL P G WFCP C
Sbjct: 16 GEMIGCDNPDCSIEWFHFACVGLTTKPRGKWFCPRC 51
>pdb|2M1R|A Chain A, Phd Domain Of Ing4 N214d Mutant
Length = 63
Score = 35.0 bits (79), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 17/36 (47%), Positives = 21/36 (58%), Gaps = 3/36 (8%)
Query: 346 GELICCDHCPC---MYHSSCLGLKDIPYGDWFCPLC 378
GE+I CD C +H +C+GL P G WFCP C
Sbjct: 21 GEMIGCDDPDCSIEWFHFACVGLTTKPRGKWFCPRC 56
>pdb|2L43|A Chain A, Structural Basis For Histone Code Recognition By
Brpf2-Phd1 Finger
Length = 88
Score = 34.7 bits (78), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 22/46 (47%), Gaps = 5/46 (10%)
Query: 338 MCVVCLDGGE-----LICCDHCPCMYHSSCLGLKDIPYGDWFCPLC 378
+C +C+DG ++ CD C H C G+ IP G W C C
Sbjct: 27 VCSICMDGESQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHC 72
>pdb|1FP0|A Chain A, Solution Structure Of The Phd Domain From The Kap-1
Corepressor
Length = 88
Score = 32.7 bits (73), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 30/59 (50%), Gaps = 2/59 (3%)
Query: 322 GSNRMKSNSHQVETYDMCVVCLDGGELICCDHCPCMYHSSC--LGLKDIPYGDWFCPLC 378
GS+ + ++ +C VC G+L+ C+ C +H C L+D+P +W C LC
Sbjct: 11 GSDIIDEFGTLDDSATICRVCQKPGDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLC 69
>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 = 1.3, Method: Compositional matrix adjust.
Identities = 17/36 (47%), Positives = 22/36 (61%), Gaps = 3/36 (8%)
Query: 346 GELICCDH--CPC-MYHSSCLGLKDIPYGDWFCPLC 378
GE+I CD+ CP +H +C+ L P G WFCP C
Sbjct: 20 GEMIGCDNPDCPIEWFHFACVDLTTKPKGKWFCPRC 55
>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 = 31.6 bits (70), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 16/64 (25%), Positives = 27/64 (42%), Gaps = 13/64 (20%)
Query: 374 FCPLCCCAICGDGKFKQRTLHSVDDDDGLVRTCDQCEHKFHTGCTRKSKRELKVKSQNKW 433
C +C C +CG + + L CD+C+ FH C V S+++W
Sbjct: 171 LCRVCACHLCGGRQDPDKQL-----------MCDECDMAFHIYCLDPPLS--SVPSEDEW 217
Query: 434 FCSD 437
+C +
Sbjct: 218 YCPE 221
Score = 28.9 bits (63), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%), Gaps = 3/38 (7%)
Query: 344 DGGELICCDHCPCMYHSSCLG--LKDIPYGD-WFCPLC 378
D + + CD C +H CL L +P D W+CP C
Sbjct: 185 DPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 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 = 31.6 bits (70), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 16/64 (25%), Positives = 27/64 (42%), Gaps = 13/64 (20%)
Query: 374 FCPLCCCAICGDGKFKQRTLHSVDDDDGLVRTCDQCEHKFHTGCTRKSKRELKVKSQNKW 433
C +C C +CG + + L CD+C+ FH C V S+++W
Sbjct: 187 LCRVCACHLCGGRQDPDKQL-----------MCDECDMAFHIYCLDPPLS--SVPSEDEW 233
Query: 434 FCSD 437
+C +
Sbjct: 234 YCPE 237
>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 = 31.2 bits (69), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 31/102 (30%), Positives = 40/102 (39%), Gaps = 18/102 (17%)
Query: 339 CVVCLDGGELI---CCDHCPCMYHSSCLGLKDIPY--GDWFCPLCCCAICGDGKFKQRTL 393
C VC G+L+ C C YH CL + P W CP C K Q
Sbjct: 10 CAVCDSPGDLLDQFFCTTCGQHYHGMCLDIAVTPLKRAGWQCPEC--------KVCQNCK 61
Query: 394 HSVDDDDGLVRTCDQCEHKFHTGCTRKSKRELKVKSQNKWFC 435
S +D LV CD C+ +HT C + + + N W C
Sbjct: 62 QSGEDSKMLV--CDTCDKGYHTFCLQPVMKSVPT---NGWKC 98
>pdb|4E1F|A Chain A, Structure Of A Vgrg Vibrio Cholerae Toxin Acd Domain
Glu16gln Mutant In Complex With Adp And Mn++
Length = 396
Score = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 22/40 (55%), Gaps = 2/40 (5%)
Query: 279 TGFEVHAGSKNHRPAANIFLEDGRSLVDCL--RHMVSTDN 316
T F H NH+P A I EDGR +++ +H+++ N
Sbjct: 116 THFTTHIDQSNHQPLAPIQSEDGRFVIEITNAKHVIAAGN 155
>pdb|4DTF|A Chain A, Structure Of A Vgrg Vibrio Cholerae Toxin Acd Domain In
Complex With Amp-Pnp And Mg++
pdb|4DTH|A Chain A, Structure Of A Vgrg Vibrio Cholerae Toxin Acd Domain In
Complex With Atp And Mg++
pdb|4E1C|A Chain A, Structure Of A Vgrg Vibrio Cholerae Toxin Acd Domain In
Complex With Adp And Mg++
pdb|4E1D|A Chain A, Structure Of A Vgrg Vibrio Cholerae Toxin Acd Domain In
Complex With Adp And Mn++
Length = 396
Score = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 22/40 (55%), Gaps = 2/40 (5%)
Query: 279 TGFEVHAGSKNHRPAANIFLEDGRSLVDCL--RHMVSTDN 316
T F H NH+P A I EDGR +++ +H+++ N
Sbjct: 116 THFTTHIDQSNHQPLAPIQSEDGRFVIEITNAKHVIAAGN 155
>pdb|4DTL|A Chain A, Structure Of A Vgrg Vibrio Cholerae Toxin Acd Domain In
Complex With Atp And Mn++
Length = 396
Score = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 22/40 (55%), Gaps = 2/40 (5%)
Query: 279 TGFEVHAGSKNHRPAANIFLEDGRSLVDCL--RHMVSTDN 316
T F H NH+P A I EDGR +++ +H+++ N
Sbjct: 116 THFTTHIDQSNHQPLAPIQSEDGRFVIEITNAKHVIAAGN 155
>pdb|4DTD|A Chain A, Structure And Functional Characterization Of A Vibrio
Cholerae Toxin From The MartxVGRG FAMILY
Length = 396
Score = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 22/40 (55%), Gaps = 2/40 (5%)
Query: 279 TGFEVHAGSKNHRPAANIFLEDGRSLVDCL--RHMVSTDN 316
T F H NH+P A I EDGR +++ +H+++ N
Sbjct: 116 THFTTHIDQSNHQPLAPIQSEDGRFVIEITNAKHVIAAGN 155
>pdb|3N9L|A Chain A, Cekdm7a From C.Elegans, Complex With H3k4me3 Peptide And
Nog
pdb|3N9M|A Chain A, Cekdm7a From C.Elegans, Alone
pdb|3N9M|C Chain C, Cekdm7a From C.Elegans, Alone
pdb|3N9N|A Chain A, Cekdm7a From C.Elegans, Complex With H3k4me3k9me2 Peptide
And Nog
pdb|3N9O|A Chain A, Cekdm7a From C.Elegans, Complex With H3k4me3 Peptide,
H3k9me2 Peptide And Nog
pdb|3N9P|A Chain A, Cekdm7a From C.Elegans, Complex With H3k4me3k27me2 Peptide
And Nog
pdb|3N9Q|A Chain A, Cekdm7a From C.Elegans, Complex With H3k4me3 Peptide,
H3k27me2 Peptide And Nog
pdb|3PUQ|A Chain A, Cekdm7a From C.Elegans, Complex With Alpha-Kg
pdb|3PUQ|C Chain C, Cekdm7a From C.Elegans, Complex With Alpha-Kg
pdb|3PUR|A Chain A, Cekdm7a From C.Elegans, Complex With D-2-Hg
pdb|3PUR|C Chain C, Cekdm7a From C.Elegans, Complex With D-2-Hg
Length = 528
Score = 30.8 bits (68), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 17/36 (47%), Gaps = 3/36 (8%)
Query: 347 ELICCDHCPCMYHSSCLGLKDIP---YGDWFCPLCC 379
+ I CD C YH C GL+ Y +FCP C
Sbjct: 57 QWIGCDSCQTWYHFLCSGLEQFEYYLYEKFFCPKCV 92
>pdb|2LV9|A Chain A, Solution Nmr Structure Of The Phd Domain Of Human Mll5,
Northeast Structural Genomics Consortium Target Hr6512a
Length = 98
Score = 30.0 bits (66), Expect = 3.7, Method: Composition-based stats.
Identities = 15/43 (34%), Positives = 21/43 (48%), Gaps = 3/43 (6%)
Query: 338 MCVVCLDGGELICCDHCPCMYHSSCLGL--KDIPYGDWFCPLC 378
+C D G +ICCD C H C+G+ + IP + C C
Sbjct: 32 ICGFTHDDGYMICCDKCSVWQHIDCMGIDRQHIP-DTYLCERC 73
>pdb|2JM1|A Chain A, Structures And Chemical Shift Assignments For The Add
Domain Of The Atrx Protein
Length = 141
Score = 29.3 bits (64), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 36/82 (43%), Gaps = 21/82 (25%)
Query: 306 DCLRHMVSTDNTAIVKGSNRMKSNSHQVETYDMCVVCLDGGELICCDHCPCMYHSSC--- 362
+C ++ +S D I + S+ M + C C +GG LICCD C + C
Sbjct: 44 NCFKYYMSDD---ISRDSDGMD---------EQCRWCAEGGNLICCDFCHNAFCKKCILR 91
Query: 363 -LGLKDIPY-----GDWFCPLC 378
LG K++ W+C +C
Sbjct: 92 NLGRKELSTIMDENNQWYCYIC 113
>pdb|2LD1|A Chain A, Structures And Chemical Shift Assignments For The Add
Domain Of The Atrx Protein
pdb|2LBM|A Chain A, Solution Structure Of The Add Domain Of Atrx Complexed
With Histone Tail H3 1-15 K9me3
Length = 142
Score = 28.9 bits (63), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 36/82 (43%), Gaps = 21/82 (25%)
Query: 306 DCLRHMVSTDNTAIVKGSNRMKSNSHQVETYDMCVVCLDGGELICCDHCPCMYHSSC--- 362
+C ++ +S D I + S+ M + C C +GG LICCD C + C
Sbjct: 45 NCFKYYMSDD---ISRDSDGMD---------EQCRWCAEGGNLICCDFCHNAFCKKCILR 92
Query: 363 -LGLKDIPY-----GDWFCPLC 378
LG K++ W+C +C
Sbjct: 93 NLGRKELSTIMDENNQWYCYIC 114
>pdb|2LRI|C Chain C, Nmr Structure Of The Second Phd Finger Of Aire (aire-phd2)
Length = 66
Score = 28.9 bits (63), Expect = 9.3, Method: Composition-based stats.
Identities = 10/24 (41%), Positives = 14/24 (58%)
Query: 339 CVVCLDGGELICCDHCPCMYHSSC 362
C VC DG +++ C HC +H C
Sbjct: 15 CGVCGDGTDVLRCTHCAAAFHWRC 38
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
0.320 0.133 0.408
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,765,506
Number of Sequences: 62578
Number of extensions: 757193
Number of successful extensions: 1702
Number of sequences better than 100.0: 55
Number of HSP's better than 100.0 without gapping: 31
Number of HSP's successfully gapped in prelim test: 24
Number of HSP's that attempted gapping in prelim test: 1622
Number of HSP's gapped (non-prelim): 80
length of query: 656
length of database: 14,973,337
effective HSP length: 105
effective length of query: 551
effective length of database: 8,402,647
effective search space: 4629858497
effective search space used: 4629858497
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: 55 (25.8 bits)