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= 006856
(628 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 45.1 bits (105), Expect = 1e-04, Method: Composition-based stats.
Identities = 23/59 (38%), Positives = 27/59 (45%), Gaps = 7/59 (11%)
Query: 232 GSVHHEHIICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESNQGWFCKFCEC 290
GS HH C CK D +LC TC ++H CL+PPL N W C C C
Sbjct: 4 GSDHHMEF-CRVCK------DGGELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTC 55
>pdb|2YQL|A Chain A, Solution Structure Of The Phd Domain In Phd Finger Protein
21a
Length = 56
Score = 40.8 bits (94), Expect = 0.003, Method: Composition-based stats.
Identities = 21/61 (34%), Positives = 30/61 (49%), Gaps = 7/61 (11%)
Query: 229 ATDGSVHHEHIICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESNQGWFCKFC 288
+ GS HE C+ C+ +++CD TC+ +H CLDPPL T W C C
Sbjct: 1 GSSGSSGHEDF-CSVCR-----KSGQLLMCD-TCSRVYHLDCLDPPLKTIPKGMWICPRC 53
Query: 289 E 289
+
Sbjct: 54 Q 54
>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 = 39.7 bits (91), Expect = 0.005, Method: Composition-based stats.
Identities = 18/52 (34%), Positives = 27/52 (51%), Gaps = 6/52 (11%)
Query: 241 CAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESNQGWFCKFCECKM 292
C+ C+ +++CD TC+ +H CLDPPL T W C C+ +M
Sbjct: 8 CSVCR-----KSGQLLMCD-TCSRVYHLDCLDPPLKTIPKGMWICPRCQDQM 53
>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 = 39.7 bits (91), Expect = 0.005, Method: Composition-based stats.
Identities = 17/49 (34%), Positives = 28/49 (57%), Gaps = 3/49 (6%)
Query: 240 ICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESNQGWFCKFC 288
+C CK ++ D+ +++CD TC+ +H CL P + + GW CK C
Sbjct: 56 VCQNCK--QSGEDSKMLVCD-TCDKGYHTFCLQPVMKSVPTNGWKCKNC 101
>pdb|3ZVZ|B Chain B, Phd Finger Of Human Uhrf1
Length = 57
Score = 38.5 bits (88), Expect = 0.011, Method: Composition-based stats.
Identities = 22/55 (40%), Positives = 28/55 (50%), Gaps = 4/55 (7%)
Query: 235 HHEHIICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDT-ESNQGWFCKFC 288
H C C R+ PD + +CD C+ AFH CLDPPL + S W+C C
Sbjct: 2 HMRVCACHLCGGRQD-PDKQL-MCD-ECDMAFHIYCLDPPLSSVPSEDEWYCPEC 53
>pdb|2KU3|A Chain A, Solution Structure Of Brd1 Phd1 Finger
Length = 71
Score = 38.5 bits (88), Expect = 0.012, Method: Composition-based stats.
Identities = 20/56 (35%), Positives = 27/56 (48%), Gaps = 3/56 (5%)
Query: 233 SVHHEHIICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESNQGWFCKFC 288
S+ E +C+ C E+ N I+ CD CN A HQ+C P E W C+ C
Sbjct: 11 SLIDEDAVCSICMDGESQNSNVILFCD-MCNLAVHQECYGVPYIPEGQ--WLCRHC 63
>pdb|2L5U|A Chain A, Structure Of The First Phd Finger (Phd1) From Chd4 (Mi2b)
Length = 61
Score = 38.5 bits (88), Expect = 0.013, Method: Composition-based stats.
Identities = 16/36 (44%), Positives = 21/36 (58%), Gaps = 1/36 (2%)
Query: 254 DIVLCDGTCNCAFHQKCLDPPLDTESNQGWFCKFCE 289
+I+LCD TC A+H CLDP ++ W C CE
Sbjct: 22 EIILCD-TCPRAYHMVCLDPDMEKAPEGKWSCPHCE 56
>pdb|3SHB|A Chain A, Crystal Structure Of Phd Domain Of Uhrf1
Length = 77
Score = 37.7 bits (86), Expect = 0.019, Method: Composition-based stats.
Identities = 21/49 (42%), Positives = 27/49 (55%), Gaps = 4/49 (8%)
Query: 241 CAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDT-ESNQGWFCKFC 288
C C R+ PD + +CD C+ AFH CLDPPL + S W+C C
Sbjct: 29 CHLCGGRQD-PDKQL-MCD-ECDMAFHIYCLDPPLSSVPSEDEWYCPEC 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 = 37.7 bits (86), Expect = 0.020, Method: Composition-based stats.
Identities = 21/49 (42%), Positives = 27/49 (55%), Gaps = 4/49 (8%)
Query: 241 CAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDT-ESNQGWFCKFC 288
C C R+ PD + +CD C+ AFH CLDPPL + S W+C C
Sbjct: 26 CHLCGGRQD-PDKQL-MCD-ECDMAFHIYCLDPPLSSVPSEDEWYCPEC 71
>pdb|1F62|A Chain A, Wstf-Phd
Length = 51
Score = 37.7 bits (86), Expect = 0.021, Method: Composition-based stats.
Identities = 20/49 (40%), Positives = 28/49 (57%), Gaps = 2/49 (4%)
Query: 242 AKCKL-REAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESNQGWFCKFCE 289
A+CK+ R+ D+ ++LCD CN AFH CL P L + W C C+
Sbjct: 1 ARCKVCRKKGEDDKLILCD-ECNKAFHLFCLRPALYEVPDGEWQCPACQ 48
>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 = 37.0 bits (84), Expect = 0.029, Method: Composition-based stats.
Identities = 21/49 (42%), Positives = 27/49 (55%), Gaps = 4/49 (8%)
Query: 241 CAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDT-ESNQGWFCKFC 288
C C R+ PD + +CD C+ AFH CLDPPL + S W+C C
Sbjct: 21 CHLCGGRQD-PDKQL-MCD-ECDMAFHIYCLDPPLSSVPSEDEWYCPEC 66
>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 = 37.0 bits (84), Expect = 0.029, Method: Composition-based stats.
Identities = 21/49 (42%), Positives = 27/49 (55%), Gaps = 4/49 (8%)
Query: 241 CAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDT-ESNQGWFCKFC 288
C C R+ PD + +CD C+ AFH CLDPPL + S W+C C
Sbjct: 21 CHLCGGRQD-PDKQL-MCD-ECDMAFHIYCLDPPLSSVPSEDEWYCPEC 66
>pdb|2L43|A Chain A, Structural Basis For Histone Code Recognition By
Brpf2-Phd1 Finger
Length = 88
Score = 37.0 bits (84), Expect = 0.035, Method: Composition-based stats.
Identities = 19/52 (36%), Positives = 25/52 (48%), Gaps = 3/52 (5%)
Query: 237 EHIICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESNQGWFCKFC 288
E +C+ C E+ N I+ CD CN A HQ+C P E W C+ C
Sbjct: 24 EDAVCSICMDGESQNSNVILFCD-MCNLAVHQECYGVPYIPEGQ--WLCRHC 72
>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 = 36.6 bits (83), Expect = 0.043, Method: Composition-based stats.
Identities = 21/49 (42%), Positives = 27/49 (55%), Gaps = 4/49 (8%)
Query: 241 CAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDT-ESNQGWFCKFC 288
C C R+ PD + +CD C+ AFH CLDPPL + S W+C C
Sbjct: 23 CHLCGGRQD-PDKQL-MCD-ECDMAFHIYCLDPPLSSVPSEDEWYCPEC 68
>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 = 36.2 bits (82), Expect = 0.050, Method: Composition-based stats.
Identities = 21/59 (35%), Positives = 25/59 (42%), Gaps = 7/59 (11%)
Query: 232 GSVHHEHIICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESNQGWFCKFCEC 290
GS HH C CK D +LC TC ++H CL P L + W C C C
Sbjct: 4 GSDHHMEF-CRVCK------DGGELLCCDTCPSSYHIHCLRPALYEVPDGEWQCPRCTC 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 = 36.2 bits (82), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 21/49 (42%), Positives = 27/49 (55%), Gaps = 4/49 (8%)
Query: 241 CAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDT-ESNQGWFCKFC 288
C C R+ PD + +CD C+ AFH CLDPPL + S W+C C
Sbjct: 177 CHLCGGRQD-PDKQL-MCD-ECDMAFHIYCLDPPLSSVPSEDEWYCPEC 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 = 36.2 bits (82), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 21/49 (42%), Positives = 27/49 (55%), Gaps = 4/49 (8%)
Query: 241 CAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDT-ESNQGWFCKFC 288
C C R+ PD + +CD C+ AFH CLDPPL + S W+C C
Sbjct: 193 CHLCGGRQD-PDKQL-MCD-ECDMAFHIYCLDPPLSSVPSEDEWYCPEC 238
>pdb|2XB1|A Chain A, Crystal Structure Of The Human Pygo2 Phd Finger In Complex
With The B9l Hd1 Domain
pdb|2XB1|C Chain C, Crystal Structure Of The Human Pygo2 Phd Finger In Complex
With The B9l Hd1 Domain
Length = 105
Score = 35.4 bits (80), Expect = 0.095, Method: Composition-based stats.
Identities = 17/54 (31%), Positives = 25/54 (46%), Gaps = 7/54 (12%)
Query: 241 CAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPP------LDTESNQGWFCKFC 288
C C+ E D D +LC+ +C FH++C L TE++ W C C
Sbjct: 6 CGACR-SEVNDDQDAILCEASCQKWFHRECTGMTESAYGLLTTEASAVWACDLC 58
>pdb|2DMU|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
Protein Goosecoid
Length = 70
Score = 35.4 bits (80), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 24/41 (58%)
Query: 507 VEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNAR 547
+E L +F E + P +E L++++ L EKV WFKN R
Sbjct: 19 LEALENLFQETKYPDVGTREQLARKVHLREEKVEVWFKNRR 59
>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 = 34.7 bits (78), Expect = 0.18, Method: Composition-based stats.
Identities = 18/48 (37%), Positives = 23/48 (47%), Gaps = 6/48 (12%)
Query: 241 CAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESNQGWFCKFC 288
CA C+ +++ CDG C AFH CL PPL + W C C
Sbjct: 8 CAVCR-----DGGELICCDG-CPRAFHLACLSPPLREIPSGTWRCSSC 49
>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 = 34.3 bits (77), Expect = 0.20, Method: Composition-based stats.
Identities = 18/48 (37%), Positives = 23/48 (47%), Gaps = 6/48 (12%)
Query: 241 CAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESNQGWFCKFC 288
CA C+ +++ CDG C AFH CL PPL + W C C
Sbjct: 11 CAVCR-----DGGELICCDG-CPRAFHLACLSPPLREIPSGTWRCSSC 52
>pdb|2E6R|A Chain A, Solution Structure Of The Phd Domain In Smcy Protein
Length = 92
Score = 33.5 bits (75), Expect = 0.38, Method: Composition-based stats.
Identities = 20/55 (36%), Positives = 26/55 (47%), Gaps = 6/55 (10%)
Query: 240 ICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESNQGWFCKFC---ECK 291
IC C + D+ ++ CDG C+ +H CL PPL W C C ECK
Sbjct: 18 ICQVCSRGDE--DDKLLFCDG-CDDNYHIFCLLPPLPEIPRGIWRCPKCILAECK 69
>pdb|2E6S|A Chain A, Solution Structure Of The Phd Domain In Ring Finger
Protein 107
Length = 77
Score = 33.1 bits (74), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 16/34 (47%), Positives = 21/34 (61%), Gaps = 2/34 (5%)
Query: 256 VLCDGTCNCAFHQKCLDPPLD-TESNQGWFCKFC 288
+LCD CN A+H CL+PPLD + W+C C
Sbjct: 42 LLCD-ECNVAYHIYCLNPPLDKVPEEEYWYCPSC 74
>pdb|3D1N|I Chain I, Structure Of Human Brn-5 Transcription Factor In Complex
With Corticotrophin-Releasing Hormone Gene Promoter
pdb|3D1N|J Chain J, Structure Of Human Brn-5 Transcription Factor In Complex
With Corticotrophin-Releasing Hormone Gene Promoter
pdb|3D1N|K Chain K, Structure Of Human Brn-5 Transcription Factor In Complex
With Corticotrophin-Releasing Hormone Gene Promoter
pdb|3D1N|L Chain L, Structure Of Human Brn-5 Transcription Factor In Complex
With Corticotrophin-Releasing Hormone Gene Promoter
pdb|3D1N|M Chain M, Structure Of Human Brn-5 Transcription Factor In Complex
With Corticotrophin-Releasing Hormone Gene Promoter
pdb|3D1N|N Chain N, Structure Of Human Brn-5 Transcription Factor In Complex
With Corticotrophin-Releasing Hormone Gene Promoter
pdb|3D1N|O Chain O, Structure Of Human Brn-5 Transcription Factor In Complex
With Corticotrophin-Releasing Hormone Gene Promoter
pdb|3D1N|P Chain P, Structure Of Human Brn-5 Transcription Factor In Complex
With Corticotrophin-Releasing Hormone Gene Promoter
Length = 151
Score = 33.1 bits (74), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 29/58 (50%), Gaps = 2/58 (3%)
Query: 490 PSNAKIRRSFHRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNAR 547
PS + RR+ P A+E L F +N LP+ +KEL+ + E V WF N R
Sbjct: 90 PSKKRKRRT--SFTPQAIEALNAYFEKNPLPTGQEITEXAKELNYDREVVRVWFSNRR 145
>pdb|3V43|A Chain A, Crystal Structure Of Moz
Length = 112
Score = 32.3 bits (72), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 21/36 (58%), Gaps = 1/36 (2%)
Query: 253 NDIVLCDGTCNCAFHQKCLDPPLDTESNQGWFCKFC 288
++++ CD +C+ FH +C DPPL W C+ C
Sbjct: 75 DNMLFCD-SCDRGFHMECCDPPLTRMPKGMWICQIC 109
>pdb|2LN0|A Chain A, Structure Of Moz
Length = 110
Score = 32.3 bits (72), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 21/36 (58%), Gaps = 1/36 (2%)
Query: 253 NDIVLCDGTCNCAFHQKCLDPPLDTESNQGWFCKFC 288
++++ CD +C+ FH +C DPPL W C+ C
Sbjct: 73 DNMLFCD-SCDRGFHMECCDPPLTRMPKGMWICQIC 107
>pdb|2DN0|A Chain A, Solution Structure Of The Second Homeobox Domain Of Human
Zinc Fingers And Homeoboxes Protein 3
Length = 76
Score = 32.3 bits (72), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 21/39 (53%)
Query: 510 LRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARY 548
L+ F N+ P + E+L+K L +V KWF + RY
Sbjct: 23 LKGSFCRNQFPGQSEVEHLTKVTGLSTREVRKWFSDRRY 61
>pdb|2D5V|A Chain A, Crystal Structure Of Hnf-6alpha Dna-Binding Domain In
Complex With The Ttr Promoter
pdb|2D5V|B Chain B, Crystal Structure Of Hnf-6alpha Dna-Binding Domain In
Complex With The Ttr Promoter
Length = 164
Score = 31.2 bits (69), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 27/42 (64%)
Query: 510 LRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLAL 551
L +F EN+ PS+ ++ +S++L LE V+ +F NAR +L
Sbjct: 112 LHAIFKENKRPSKELQITISQQLGLELSTVSNFFMNARRRSL 153
>pdb|2DMS|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
Protein Otx2
Length = 80
Score = 31.2 bits (69), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 28/52 (53%), Gaps = 3/52 (5%)
Query: 496 RRSFHRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNAR 547
R +F R + +E L FA+ P ++E ++ +++L +V WFKN R
Sbjct: 11 RTTFTRAQLDVLEAL---FAKTRYPDIFMREEVALKINLPESRVQVWFKNRR 59
>pdb|1BW5|A Chain A, The Nmr Solution Structure Of The Homeodomain Of The Rat
Insulin Gene Enhancer Protein Isl-1, 50 Structures
Length = 66
Score = 31.2 bits (69), Expect = 1.8, Method: Composition-based stats.
Identities = 14/38 (36%), Positives = 20/38 (52%)
Query: 510 LRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNAR 547
LR +A N P ++KE L + L P + WF+N R
Sbjct: 18 LRTCYAANPRPDALMKEQLVEMTGLSPRVIRVWFQNKR 55
>pdb|1S7E|A Chain A, Solution Structure Of Hnf-6
Length = 147
Score = 31.2 bits (69), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 25/38 (65%)
Query: 510 LRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNAR 547
L +F EN+ PS+ ++ +S++L LE V+ +F NAR
Sbjct: 110 LHAIFKENKRPSKELQITISQQLGLELSTVSNFFMNAR 147
>pdb|1FP0|A Chain A, Solution Structure Of The Phd Domain From The Kap-1
Corepressor
Length = 88
Score = 30.8 bits (68), Expect = 2.3, Method: Composition-based stats.
Identities = 17/62 (27%), Positives = 25/62 (40%), Gaps = 6/62 (9%)
Query: 227 VIATDGSVHHEHIICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESNQGWFCK 286
+I G++ IC C+ D+V+C+ C FH C P L + W C
Sbjct: 14 IIDEFGTLDDSATICRVCQ-----KPGDLVMCN-QCEFCFHLDCHLPALQDVPGEEWSCS 67
Query: 287 FC 288
C
Sbjct: 68 LC 69
>pdb|4EGC|A Chain A, Crystal Structure Of Mbp-fused Human Six1 Bound To Human
Eya2 Eya Domain
Length = 559
Score = 30.8 bits (68), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 21/38 (55%)
Query: 510 LRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNAR 547
LR+ +A N PS K L++ L +V+ WFKN R
Sbjct: 509 LREWYAHNPYPSPREKRELAEATGLTTTQVSNWFKNRR 546
>pdb|2KGG|A Chain A, Solution Structure Of Jarid1a C-Terminal Phd Finger
pdb|2KGI|A Chain A, Solution Structure Of Jarid1a C-Terminal Phd Finger In
Complex With H3(1-9)k4me3
pdb|3GL6|A Chain A, Crystal Structure Of Jarid1a-Phd3 Complexed With H3(1-9)
K4me3 Peptide
Length = 52
Score = 30.8 bits (68), Expect = 2.4, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 23/50 (46%), Gaps = 1/50 (2%)
Query: 240 ICAKCKLREAFPDN-DIVLCDGTCNCAFHQKCLDPPLDTESNQGWFCKFC 288
+CA + D D V CDG C+ FHQ C+ + N+ + C C
Sbjct: 2 VCAAQNCQRPCKDKVDWVQCDGGCDEWFHQVCVGVSPEMAENEDYICINC 51
>pdb|2HOS|A Chain A, Phage-selected Homeodomain Bound To Unmodified Dna
pdb|2HOS|B Chain B, Phage-selected Homeodomain Bound To Unmodified Dna
pdb|2HOT|A Chain A, Phage Selected Homeodomain Bound To Modified Dna
pdb|2HOT|B Chain B, Phage Selected Homeodomain Bound To Modified Dna
Length = 63
Score = 30.4 bits (67), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 23/41 (56%)
Query: 507 VEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNAR 547
+ +L++ F EN + ++ LS EL L +V WFKN R
Sbjct: 16 LARLKREFNENRYLTERRRQQLSSELGLNEAQVKGWFKNMR 56
>pdb|2M0C|A Chain A, Solution Nmr Structure Of Homeobox Domain Of Human Alx4,
Northeast Structural Genomics Consortium (Nesg) Target
Hr4490c
Length = 75
Score = 30.0 bits (66), Expect = 4.4, Method: Composition-based stats.
Identities = 16/59 (27%), Positives = 27/59 (45%)
Query: 489 LPSNAKIRRSFHRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNAR 547
+ + K RR+ +E+L +VF + P +E L+ L +V WF+N R
Sbjct: 3 MSNKGKKRRNRTTFTSYQLEELEKVFQKTHYPDVYAREQLAMRTDLTEARVQVWFQNRR 61
>pdb|2VPE|A Chain A, Decoding Of Methylated Histone H3 Tail By The Pygo-bcl9
Wnt Signaling Complex
pdb|2VPE|C Chain C, Decoding Of Methylated Histone H3 Tail By The Pygo-bcl9
Wnt Signaling Complex
pdb|2VPG|A Chain A, Decoding Of Methylated Histone H3 Tail By The Pygo-Bcl9
Wnt Signaling Complex
pdb|2VPG|C Chain C, Decoding Of Methylated Histone H3 Tail By The Pygo-Bcl9
Wnt Signaling Complex
Length = 63
Score = 29.6 bits (65), Expect = 5.4, Method: Composition-based stats.
Identities = 16/54 (29%), Positives = 22/54 (40%), Gaps = 7/54 (12%)
Query: 241 CAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPP------LDTESNQGWFCKFC 288
C C E D D +LC+ +C FH+ C L E++ W C C
Sbjct: 8 CGICT-NEVNDDQDAILCEASCQKWFHRICTGMTETAYGLLTAEASAVWGCDTC 60
>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 = 29.3 bits (64), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 19/37 (51%), Gaps = 1/37 (2%)
Query: 252 DNDIVLCDGTCNCAFHQKCLDPPLDTESNQGWFCKFC 288
D+ ++ CD C+ +H CL+PP+ W C C
Sbjct: 70 DDQLLFCD-DCDRGYHMYCLNPPVAEPPEGSWSCHLC 105
>pdb|1P7I|A Chain A, Crystal Structure Of Engrailed Homeodomain Mutant K52a
pdb|1P7I|B Chain B, Crystal Structure Of Engrailed Homeodomain Mutant K52a
pdb|1P7I|C Chain C, Crystal Structure Of Engrailed Homeodomain Mutant K52a
pdb|1P7I|D Chain D, Crystal Structure Of Engrailed Homeodomain Mutant K52a
Length = 59
Score = 29.3 bits (64), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 24/41 (58%)
Query: 507 VEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNAR 547
+ +L++ F EN + ++ LS EL L ++ WF+NAR
Sbjct: 13 LARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNAR 53
>pdb|2RO1|A Chain A, Nmr Solution Structures Of Human Kap1 Phd
Finger-Bromodomain
Length = 189
Score = 29.3 bits (64), Expect = 7.3, Method: Composition-based stats.
Identities = 15/49 (30%), Positives = 20/49 (40%), Gaps = 6/49 (12%)
Query: 240 ICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESNQGWFCKFC 288
IC C+ D+V+C+ C FH C P L + W C C
Sbjct: 4 ICRVCQ-----KPGDLVMCN-QCEFCFHLDCHLPALQDVPGEEWSCSLC 46
>pdb|2YYR|A Chain A, Structural Analysis Of Phd Domain Of Pygopus Complexed
With Trimethylated Histone H3 Peptide
pdb|2YYR|B Chain B, Structural Analysis Of Phd Domain Of Pygopus Complexed
With Trimethylated Histone H3 Peptide
Length = 67
Score = 28.9 bits (63), Expect = 7.9, Method: Composition-based stats.
Identities = 16/54 (29%), Positives = 22/54 (40%), Gaps = 7/54 (12%)
Query: 241 CAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPP------LDTESNQGWFCKFC 288
C C E D D +LC+ +C FH+ C L E++ W C C
Sbjct: 12 CGICT-NEVNDDQDAILCEASCQKWFHRICTGXTETAYGLLTAEASAVWGCDTC 64
>pdb|2VPD|A Chain A, Decoding Of Methylated Histone H3 Tail By The Pygo-Bcl9
Wnt Signaling Complex
pdb|2VPD|C Chain C, Decoding Of Methylated Histone H3 Tail By The Pygo-Bcl9
Wnt Signaling Complex
Length = 67
Score = 28.9 bits (63), Expect = 8.0, Method: Composition-based stats.
Identities = 16/54 (29%), Positives = 22/54 (40%), Gaps = 7/54 (12%)
Query: 241 CAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPP------LDTESNQGWFCKFC 288
C C E D D +LC+ +C FH+ C L E++ W C C
Sbjct: 12 CGICT-NEVNDDQDAILCEASCQKWFHRICTGMTETAYGLLTAEASAVWGCDTC 64
>pdb|2VPB|A Chain A, Decoding Of Methylated Histone H3 Tail By The Pygo-Bcl9
Wnt Signaling Complex
Length = 65
Score = 28.9 bits (63), Expect = 8.2, Method: Composition-based stats.
Identities = 16/54 (29%), Positives = 22/54 (40%), Gaps = 7/54 (12%)
Query: 241 CAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPP------LDTESNQGWFCKFC 288
C C E D D +LC+ +C FH+ C L E++ W C C
Sbjct: 11 CGICT-NEVNDDQDAILCEASCQKWFHRICTGMTETAYGLLTAEASAVWGCDTC 63
>pdb|2VP7|A Chain A, Decoding Of Methylated Histone H3 Tail By The Pygo-Bcl9
Wnt Signaling Complex
Length = 71
Score = 28.9 bits (63), Expect = 8.2, Method: Composition-based stats.
Identities = 16/54 (29%), Positives = 22/54 (40%), Gaps = 7/54 (12%)
Query: 241 CAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPP------LDTESNQGWFCKFC 288
C C E D D +LC+ +C FH+ C L E++ W C C
Sbjct: 12 CGICT-NEVNDDQDAILCEASCQKFFHRICTGMTETAYGLLTAEASAVWGCDTC 64
>pdb|1B72|B Chain B, Pbx1, Homeobox Protein Hox-B1DNA TERNARY COMPLEX
Length = 87
Score = 28.9 bits (63), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 28/55 (50%), Gaps = 6/55 (10%)
Query: 496 RRSFHRMPPNAVEKLRQVFAE---NELPSRIVKENLSKELSLEPEKVNKWFKNAR 547
RR+F++ A E L + F N PS KE L+K+ + +V+ WF N R
Sbjct: 5 RRNFNKQ---ATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKR 56
>pdb|2DX8|A Chain A, Crystal Structure Analysis Of The Phd Domain Of The
Transcription Coactivator Pygophus
pdb|2DX8|B Chain B, Crystal Structure Analysis Of The Phd Domain Of The
Transcription Coactivator Pygophus
Length = 67
Score = 28.9 bits (63), Expect = 8.7, Method: Composition-based stats.
Identities = 16/54 (29%), Positives = 22/54 (40%), Gaps = 7/54 (12%)
Query: 241 CAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPP------LDTESNQGWFCKFC 288
C C E D D +LC+ +C FH+ C L E++ W C C
Sbjct: 12 CGICT-NEVNDDQDAILCEASCQKWFHRICTGMTETAYGLLTAEASAVWGCDTC 64
>pdb|2DA3|A Chain A, Solution Structure Of The Third Homeobox Domain Of At-
Binding Transcription Factor 1 (Atbf1)
Length = 80
Score = 28.9 bits (63), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 25/44 (56%)
Query: 504 PNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNAR 547
P +E L Q + + P+R + ++++ E+ L+ V WF+N R
Sbjct: 26 PEQLEILYQKYLLDSNPTRKMLDHIAHEVGLKKRVVQVWFQNTR 69
>pdb|1W7B|A Chain A, Annexin A2: Does It Induce Membrane Aggregation By A New
Multimeric State Of The Protein
Length = 339
Score = 28.9 bits (63), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 20/34 (58%)
Query: 403 IGSDETSDGEIICGRRQRRTVDYKKLYDEMFGKD 436
+G+DE S EIIC R + + ++Y EM+ D
Sbjct: 121 LGTDEDSLIEIICSRTNQELQEINRVYKEMYKTD 154
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
0.312 0.128 0.366
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,977,848
Number of Sequences: 62578
Number of extensions: 581868
Number of successful extensions: 1207
Number of sequences better than 100.0: 71
Number of HSP's better than 100.0 without gapping: 51
Number of HSP's successfully gapped in prelim test: 20
Number of HSP's that attempted gapping in prelim test: 1155
Number of HSP's gapped (non-prelim): 72
length of query: 628
length of database: 14,973,337
effective HSP length: 105
effective length of query: 523
effective length of database: 8,402,647
effective search space: 4394584381
effective search space used: 4394584381
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: 54 (25.4 bits)