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= 047726
(1297 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2E6R|A Chain A, Solution Structure Of The Phd Domain In Smcy Protein
Length = 92
Score = 63.5 bits (153), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 26/51 (50%), Positives = 32/51 (62%)
Query: 1225 DEGICKVCGVDKDDDSVLLCDTCDAEYHTYCLEPPLVRIPEGNWYCPSCVV 1275
D IC+VC +DD +L CD CD YH +CL PPL IP G W CP C++
Sbjct: 15 DSYICQVCSRGDEDDKLLFCDGCDDNYHIFCLLPPLPEIPRGIWRCPKCIL 65
>pdb|1F62|A Chain A, Wstf-Phd
Length = 51
Score = 61.2 bits (147), Expect = 4e-09, Method: Composition-based stats.
Identities = 21/45 (46%), Positives = 30/45 (66%)
Query: 1229 CKVCGVDKDDDSVLLCDTCDAEYHTYCLEPPLVRIPEGNWYCPSC 1273
CKVC +DD ++LCD C+ +H +CL P L +P+G W CP+C
Sbjct: 3 CKVCRKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPAC 47
>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 = 60.5 bits (145), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 24/46 (52%), Positives = 30/46 (65%), Gaps = 1/46 (2%)
Query: 1229 CKVCGVDKDDDSVLLCDTCDAEYHTYCLEPPLVRIP-EGNWYCPSC 1273
C +CG +D D L+CD CD +H YCL+PPL +P E WYCP C
Sbjct: 177 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 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 = 60.1 bits (144), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 24/46 (52%), Positives = 30/46 (65%), Gaps = 1/46 (2%)
Query: 1229 CKVCGVDKDDDSVLLCDTCDAEYHTYCLEPPLVRIP-EGNWYCPSC 1273
C +CG +D D L+CD CD +H YCL+PPL +P E WYCP C
Sbjct: 193 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 238
>pdb|2KWJ|A Chain A, Solution Structures Of The Double Phd Fingers Of Human
Transcriptional Protein Dpf3 Bound To A Histone Peptide
Containing Acetylation At Lysine 14
pdb|2KWK|A Chain A, Solution Structures Of The Double Phd Fingers Of Human
Transcriptional Protein Dpf3b Bound To A H3 Peptide Wild
Type
pdb|2KWN|A Chain A, Solution Structure Of The Double Phd (Plant Homeodomain)
Fingers Of Human Transcriptional Protein Dpf3b Bound To A
Histone H4 Peptide Containing Acetylation At Lysine 16
pdb|2KWO|A Chain A, Solution Structure Of The Double Phd (Plant Homeodomain)
Fingers Of Human Transcriptional Protein Dpf3b Bound To A
Histone H4 Peptide Containing N-Terminal Acetylation At
Serine 1
Length = 114
Score = 57.4 bits (137), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 23/45 (51%), Positives = 29/45 (64%)
Query: 1229 CKVCGVDKDDDSVLLCDTCDAEYHTYCLEPPLVRIPEGNWYCPSC 1273
C +CG ++DD +L CD CD YH YCL PP+ PEG+W C C
Sbjct: 61 CILCGTSENDDQLLFCDDCDRGYHMYCLNPPVAEPPEGSWSCHLC 105
>pdb|3ZVZ|B Chain B, Phd Finger Of Human Uhrf1
Length = 57
Score = 56.6 bits (135), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 24/46 (52%), Positives = 30/46 (65%), Gaps = 1/46 (2%)
Query: 1229 CKVCGVDKDDDSVLLCDTCDAEYHTYCLEPPLVRIP-EGNWYCPSC 1273
C +CG +D D L+CD CD +H YCL+PPL +P E WYCP C
Sbjct: 8 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 53
>pdb|2E6S|A Chain A, Solution Structure Of The Phd Domain In Ring Finger Protein
107
Length = 77
Score = 56.2 bits (134), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 25/46 (54%), Positives = 31/46 (67%), Gaps = 1/46 (2%)
Query: 1229 CKVCGVDKDDDSVLLCDTCDAEYHTYCLEPPLVRIPEGN-WYCPSC 1273
C+VCG + + LLCD C+ YH YCL PPL ++PE WYCPSC
Sbjct: 29 CRVCGGKHEPNMQLLCDECNVAYHIYCLNPPLDKVPEEEYWYCPSC 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 = 55.8 bits (133), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 24/46 (52%), Positives = 30/46 (65%), Gaps = 1/46 (2%)
Query: 1229 CKVCGVDKDDDSVLLCDTCDAEYHTYCLEPPLVRIP-EGNWYCPSC 1273
C +CG +D D L+CD CD +H YCL+PPL +P E WYCP C
Sbjct: 23 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 68
>pdb|3SHB|A Chain A, Crystal Structure Of Phd Domain Of Uhrf1
Length = 77
Score = 55.8 bits (133), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 24/46 (52%), Positives = 30/46 (65%), Gaps = 1/46 (2%)
Query: 1229 CKVCGVDKDDDSVLLCDTCDAEYHTYCLEPPLVRIP-EGNWYCPSC 1273
C +CG +D D L+CD CD +H YCL+PPL +P E WYCP C
Sbjct: 29 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 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 = 55.8 bits (133), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 24/46 (52%), Positives = 30/46 (65%), Gaps = 1/46 (2%)
Query: 1229 CKVCGVDKDDDSVLLCDTCDAEYHTYCLEPPLVRIP-EGNWYCPSC 1273
C +CG +D D L+CD CD +H YCL+PPL +P E WYCP C
Sbjct: 26 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 71
>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 = 55.8 bits (133), Expect = 1e-07, Method: Composition-based stats.
Identities = 23/48 (47%), Positives = 28/48 (58%), Gaps = 3/48 (6%)
Query: 1226 EGICKVCGVDKDDDSVLLCDTCDAEYHTYCLEPPLVRIPEGNWYCPSC 1273
E C VC + +L+CDTC YH CL+PPL IP+G W CP C
Sbjct: 5 EDFCSVC---RKSGQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRC 49
>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 = 55.8 bits (133), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 24/46 (52%), Positives = 30/46 (65%), Gaps = 1/46 (2%)
Query: 1229 CKVCGVDKDDDSVLLCDTCDAEYHTYCLEPPLVRIP-EGNWYCPSC 1273
C +CG +D D L+CD CD +H YCL+PPL +P E WYCP C
Sbjct: 21 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 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 = 55.5 bits (132), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 24/46 (52%), Positives = 30/46 (65%), Gaps = 1/46 (2%)
Query: 1229 CKVCGVDKDDDSVLLCDTCDAEYHTYCLEPPLVRIP-EGNWYCPSC 1273
C +CG +D D L+CD CD +H YCL+PPL +P E WYCP C
Sbjct: 21 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 66
>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 = 54.7 bits (130), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 23/46 (50%), Positives = 27/46 (58%)
Query: 1230 KVCGVDKDDDSVLLCDTCDAEYHTYCLEPPLVRIPEGNWYCPSCVV 1275
+ C V KD +L CDTC + YH +CL PPL IP G W CP C
Sbjct: 10 EFCRVCKDGGELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTC 55
>pdb|2YSM|A Chain A, Solution Structure Of The First And Second Phd Domain From
MyeloidLYMPHOID OR MIXED-Lineage Leukemia Protein 3
Homolog
Length = 111
Score = 52.8 bits (125), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 24/65 (36%), Positives = 37/65 (56%), Gaps = 3/65 (4%)
Query: 1214 VQTSEIPKAPWDEGICKVCGVDK---DDDSVLLCDTCDAEYHTYCLEPPLVRIPEGNWYC 1270
+ + + +A W CKVC K +D +L+CDTCD YHT+CL+P + +P W C
Sbjct: 39 IAVTPLKRAGWQCPECKVCQNCKQSGEDSKMLVCDTCDKGYHTFCLQPVMKSVPTNGWKC 98
Query: 1271 PSCVV 1275
+C +
Sbjct: 99 KNCRI 103
Score = 33.9 bits (76), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 21/53 (39%)
Query: 1229 CKVCGVDKDDDSVLLCDTCDAEYHTYCLEPPLVRIPEGNWYCPSCVVRNSMVQ 1281
C VC D C TC YH CL+ + + W CP C V + Q
Sbjct: 10 CAVCDSPGDLLDQFFCTTCGQHYHGMCLDIAVTPLKRAGWQCPECKVCQNCKQ 62
>pdb|2L5U|A Chain A, Structure Of The First Phd Finger (Phd1) From Chd4 (Mi2b)
Length = 61
Score = 52.0 bits (123), Expect = 2e-06, Method: Composition-based stats.
Identities = 20/45 (44%), Positives = 27/45 (60%), Gaps = 3/45 (6%)
Query: 1229 CKVCGVDKDDDSVLLCDTCDAEYHTYCLEPPLVRIPEGNWYCPSC 1273
C+VC + ++LCDTC YH CL+P + + PEG W CP C
Sbjct: 14 CEVC---QQGGEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHC 55
>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 = 51.6 bits (122), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 21/46 (45%), Positives = 27/46 (58%)
Query: 1230 KVCGVDKDDDSVLLCDTCDAEYHTYCLEPPLVRIPEGNWYCPSCVV 1275
+ C V KD +L CDTC + YH +CL P L +P+G W CP C
Sbjct: 10 EFCRVCKDGGELLCCDTCPSSYHIHCLRPALYEVPDGEWQCPRCTC 55
>pdb|2YQL|A Chain A, Solution Structure Of The Phd Domain In Phd Finger Protein
21a
Length = 56
Score = 50.8 bits (120), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 21/42 (50%), Positives = 26/42 (61%)
Query: 1232 CGVDKDDDSVLLCDTCDAEYHTYCLEPPLVRIPEGNWYCPSC 1273
C V + +L+CDTC YH CL+PPL IP+G W CP C
Sbjct: 12 CSVCRKSGQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRC 53
>pdb|3V43|A Chain A, Crystal Structure Of Moz
Length = 112
Score = 50.1 bits (118), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 23/57 (40%), Positives = 31/57 (54%), Gaps = 4/57 (7%)
Query: 1224 WDEGICKVCGVDKDD----DSVLLCDTCDAEYHTYCLEPPLVRIPEGNWYCPSCVVR 1276
W CK C +D D++L CD+CD +H C +PPL R+P+G W C C R
Sbjct: 56 WQCIECKTCSSCRDQGKNADNMLFCDSCDRGFHMECCDPPLTRMPKGMWICQICRPR 112
>pdb|2LN0|A Chain A, Structure Of Moz
Length = 110
Score = 49.7 bits (117), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 23/57 (40%), Positives = 31/57 (54%), Gaps = 4/57 (7%)
Query: 1224 WDEGICKVCGVDKDD----DSVLLCDTCDAEYHTYCLEPPLVRIPEGNWYCPSCVVR 1276
W CK C +D D++L CD+CD +H C +PPL R+P+G W C C R
Sbjct: 54 WQCIECKTCSSCRDQGKNADNMLFCDSCDRGFHMECCDPPLTRMPKGMWICQICRPR 110
>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 = 47.8 bits (112), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 19/43 (44%), Positives = 24/43 (55%)
Query: 1232 CGVDKDDDSVLLCDTCDAEYHTYCLEPPLVRIPEGNWYCPSCV 1274
C V +D ++ CD C +H CL PPL IP G W C SC+
Sbjct: 11 CAVCRDGGELICCDGCPRAFHLACLSPPLREIPSGTWRCSSCL 53
>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 = 47.0 bits (110), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 19/43 (44%), Positives = 24/43 (55%)
Query: 1232 CGVDKDDDSVLLCDTCDAEYHTYCLEPPLVRIPEGNWYCPSCV 1274
C V +D ++ CD C +H CL PPL IP G W C SC+
Sbjct: 8 CAVCRDGGELICCDGCPRAFHLACLSPPLREIPSGTWRCSSCL 50
>pdb|2KU3|A Chain A, Solution Structure Of Brd1 Phd1 Finger
Length = 71
Score = 41.6 bits (96), Expect = 0.003, Method: Composition-based stats.
Identities = 17/52 (32%), Positives = 27/52 (51%), Gaps = 4/52 (7%)
Query: 1225 DEGICKVC--GVDKDDDSVLLCDTCDAEYHTYCLEPPLVRIPEGNWYCPSCV 1274
++ +C +C G ++ + +L CD C+ H C P IPEG W C C+
Sbjct: 15 EDAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPY--IPEGQWLCRHCL 64
>pdb|2L43|A Chain A, Structural Basis For Histone Code Recognition By Brpf2-Phd1
Finger
Length = 88
Score = 41.6 bits (96), Expect = 0.003, Method: Composition-based stats.
Identities = 17/52 (32%), Positives = 27/52 (51%), Gaps = 4/52 (7%)
Query: 1225 DEGICKVC--GVDKDDDSVLLCDTCDAEYHTYCLEPPLVRIPEGNWYCPSCV 1274
++ +C +C G ++ + +L CD C+ H C P IPEG W C C+
Sbjct: 24 EDAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPY--IPEGQWLCRHCL 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 = 36.6 bits (83), Expect = 0.087, Method: Composition-based stats.
Identities = 16/46 (34%), Positives = 20/46 (43%)
Query: 1228 ICKVCGVDKDDDSVLLCDTCDAEYHTYCLEPPLVRIPEGNWYCPSC 1273
IC C D ++ CD CD YH C+ E W+CP C
Sbjct: 20 ICPGCNKPDDGSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKC 65
>pdb|2WZO|A Chain A, The Structure Of The Fyr Domain
Length = 146
Score = 35.4 bits (80), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 31/63 (49%), Gaps = 12/63 (19%)
Query: 366 LPVQFEDFFILSLGHV-DGRPSYHNVNVIYPVGYTSCWHDKITGS--------LFICEVL 416
P+ + SLG + RP +H+ + IYPVGY S +I S L+ C++
Sbjct: 5 FPIGLGGLTVYSLGEIITDRPGFHDESAIYPVGYCS---TRIYASMKCPDQKCLYTCQIK 61
Query: 417 DGG 419
DGG
Sbjct: 62 DGG 64
>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 = 35.4 bits (80), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 21/42 (50%)
Query: 1232 CGVDKDDDSVLLCDTCDAEYHTYCLEPPLVRIPEGNWYCPSC 1273
C V ++ +L C+ C +H C P L+ P G+W C C
Sbjct: 10 CAVCQNGGDLLCCEKCPKVFHLTCHVPTLLSFPSGDWICTFC 51
>pdb|1E6I|A Chain A, Bromodomain From Gcn5 Complexed With Acetylated H4 Peptide
Length = 121
Score = 34.3 bits (77), Expect = 0.43, Method: Composition-based stats.
Identities = 16/60 (26%), Positives = 29/60 (48%), Gaps = 1/60 (1%)
Query: 1120 VSRPLDFRTIDLRLAVGAYDGSHDSFLQDVREFWNNVRTAFGDQPDFVDLAEKLSRNFES 1179
+ P+D T++++L Y D F+ D R +NN R G+ + A +L + F +
Sbjct: 50 IKEPMDLSTMEIKLESNKYQKMED-FIYDARLVFNNCRMYNGENTSYYKYANRLEKFFNN 108
>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 = 33.9 bits (76), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 19/42 (45%)
Query: 1232 CGVDKDDDSVLLCDTCDAEYHTYCLEPPLVRIPEGNWYCPSC 1273
C V ++ +L C+ C +H C P L P G W C C
Sbjct: 7 CAVCQNGGELLCCEKCPKVFHLSCHVPTLTNFPSGEWICTFC 48
>pdb|3IHJ|A Chain A, Human Alanine Aminotransferase 2 In Complex With Plp
Length = 498
Score = 33.1 bits (74), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 34/143 (23%), Positives = 55/143 (38%), Gaps = 5/143 (3%)
Query: 853 RRGRKKDADNSIPHKRGKLNMLPINELTWPELARRYILAFLSMDGILDSPEITARESGRV 912
+RG KK I G + +T+ R ++A + +LDSP R
Sbjct: 55 QRGIKKPFTEVIRANIGDAQAMGQQPITF----LRQVMALCTYPNLLDSPSFPEDAKKRA 110
Query: 913 FRCLQGDGGVLCGSLTGVAGMEADALLLAEATKKIFGSLNRENDVLTIEEEVSDASGTCE 972
R LQ GG GS + G+ +A + G + + D + + SD T
Sbjct: 111 RRILQACGGNSLGSYSASQGVNCIREDVAAYITRRDGGVPADPDNIYLTTGASDGISTIL 170
Query: 973 KNIVNDGTLPEWAKMLEPVRKLP 995
K +V+ G M+ P+ + P
Sbjct: 171 KILVSGGGKSRTGVMI-PIPQYP 192
>pdb|2RO1|A Chain A, Nmr Solution Structures Of Human Kap1 Phd Finger-Bromodomain
Length = 189
Score = 33.1 bits (74), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 24/48 (50%), Gaps = 3/48 (6%)
Query: 1228 ICKVCGVDKDDDSVLLCDTCDAEYHTYCLEPPLVRIPEGNWYCPSCVV 1275
IC+VC D +++C+ C+ +H C P L +P W C C V
Sbjct: 4 ICRVCQKPGD---LVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHV 48
>pdb|3G0L|A Chain A, Crystal Structure Of Human Bromodomain Adjacent To Zinc
Finger Domain 2b (Baz2b)
pdb|3Q2F|A Chain A, Crystal Structure Of The Bromodomain Of Human Baz2b In
Complex With A Triazolo Ligand
pdb|4IR3|A Chain A, Crystal Structure Of The Bromodomain Of Human Baz2b In
Complex With 1-
[7-amino-1-(pyrimidin-2-yl)indolizin-3-yl]ethanone
(gsk2833282a)
pdb|4IR4|A Chain A, Crystal Structure Of The Bromodomain Of Human Baz2b In
Complex With 1-
[7-(morpholin-4-yl)-1-(pyridin-2-yl)indolizin-3-
yl]ethanone (gsk2834113a)
pdb|4IR5|A Chain A, Crystal Structure Of The Bromodomain Of Human Baz2b In
Complex With 1-
{1-[2-(hydroxymethyl)phenyl]-7-phenoxyindolizin-3-
yl}ethanone (gsk2847449a)
pdb|4IR6|A Chain A, Crystal Structure Of The Bromodomain Of Human Baz2b In
Complex With 1-
{1-[2-(methylsulfonyl)phenyl]-7-phenoxyindolizin-3-
yl}ethanone (gsk2838097a)
Length = 117
Score = 32.3 bits (72), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 34/69 (49%), Gaps = 1/69 (1%)
Query: 1115 GSPAMVSRPLDFRTIDLRLAVGAYDGSHDSFLQDVREFWNNVRTAFGDQPDFVDLAEKLS 1174
G ++ +P+DF TI +L+ G Y + ++F DVR ++N T D D +
Sbjct: 45 GYKKVIKKPMDFSTIREKLSSGQY-PNLETFALDVRLVFDNCETFNEDDSDIGRAGHNMR 103
Query: 1175 RNFESLYEN 1183
+ FE + +
Sbjct: 104 KYFEKKWTD 112
>pdb|2E7O|A Chain A, Solution Structure Of The Bromodomain From Human Bromodomain
Adjacent To Zinc Finger Domain 2b
Length = 112
Score = 32.3 bits (72), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 32/64 (50%), Gaps = 1/64 (1%)
Query: 1115 GSPAMVSRPLDFRTIDLRLAVGAYDGSHDSFLQDVREFWNNVRTAFGDQPDFVDLAEKLS 1174
G ++ +P+DF TI +L+ G Y + ++F DVR ++N T D D +
Sbjct: 42 GYKKVIKKPMDFSTIREKLSSGQY-PNLETFALDVRLVFDNCETFNEDDSDIGRAGHNMR 100
Query: 1175 RNFE 1178
+ FE
Sbjct: 101 KYFE 104
>pdb|2LV9|A Chain A, Solution Nmr Structure Of The Phd Domain Of Human Mll5,
Northeast Structural Genomics Consortium Target Hr6512a
Length = 98
Score = 32.0 bits (71), Expect = 2.3, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 21/47 (44%), Gaps = 1/47 (2%)
Query: 1231 VCGVDKDDDSVLLCDTCDAEYHTYCLEPPLVRIPEGNWYCPSCVVRN 1277
+CG DD ++ CD C H C+ IP+ + C C RN
Sbjct: 32 ICGFTHDDGYMICCDKCSVWQHIDCMGIDRQHIPD-TYLCERCQPRN 77
>pdb|3HH8|A Chain A, Crystal Structure And Metal Binding Properties Of The
Lipoprotein Mtsa
Length = 294
Score = 30.4 bits (67), Expect = 6.8, Method: Composition-based stats.
Identities = 22/67 (32%), Positives = 35/67 (52%), Gaps = 12/67 (17%)
Query: 783 RENPHAFINLENG-------AAREAAQDEMGFVSYSRCSGVVLTKAHSSLLEVLIAELQS 835
+E+PHA++NLENG A + A+D +Y + KA+ + LE L E +S
Sbjct: 120 KEDPHAWLNLENGIIYSKNIAKQLIAKDPKNKETYEKN-----LKAYVAKLEKLDKEAKS 174
Query: 836 KVAALVD 842
K A+ +
Sbjct: 175 KFDAIAE 181
>pdb|2LRI|C Chain C, Nmr Structure Of The Second Phd Finger Of Aire (aire-phd2)
Length = 66
Score = 30.0 bits (66), Expect = 8.0, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 17/42 (40%)
Query: 1232 CGVDKDDDSVLLCDTCDAEYHTYCLEPPLVRIPEGNWYCPSC 1273
CGV D VL C C A +H C P P C SC
Sbjct: 15 CGVCGDGTDVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSC 56
>pdb|1FP0|A Chain A, Solution Structure Of The Phd Domain From The Kap-1
Corepressor
Length = 88
Score = 30.0 bits (66), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 24/48 (50%), Gaps = 3/48 (6%)
Query: 1228 ICKVCGVDKDDDSVLLCDTCDAEYHTYCLEPPLVRIPEGNWYCPSCVV 1275
IC+VC D +++C+ C+ +H C P L +P W C C V
Sbjct: 27 ICRVCQKPGD---LVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHV 71
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
0.318 0.135 0.413
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 38,069,176
Number of Sequences: 62578
Number of extensions: 1606377
Number of successful extensions: 3331
Number of sequences better than 100.0: 41
Number of HSP's better than 100.0 without gapping: 30
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 3284
Number of HSP's gapped (non-prelim): 47
length of query: 1297
length of database: 14,973,337
effective HSP length: 110
effective length of query: 1187
effective length of database: 8,089,757
effective search space: 9602541559
effective search space used: 9602541559
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 57 (26.6 bits)