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= 001512
(1063 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2DMU|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
Protein Goosecoid
Length = 70
Score = 48.5 bits (114), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 29/71 (40%), Positives = 43/71 (60%), Gaps = 5/71 (7%)
Query: 878 TPGSRGRRHRTSYRKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENT 937
+ GS GRRHRT + +E + L N F+E +YP+ T+E LA+++ L +V WF+N
Sbjct: 2 SSGSSGRRHRTIF---TDEQLEALENLFQETKYPDVGTREQLARKVHLREEKVEVWFKNR 58
Query: 938 R--WSFNHPSS 946
R W + PSS
Sbjct: 59 RAKWRRSGPSS 69
>pdb|1PUF|B Chain B, Crystal Structure Of Hoxa9 And Pbx1 Homeodomains Bound To
Dna
Length = 73
Score = 48.1 bits (113), Expect = 2e-05, Method: Composition-based stats.
Identities = 26/71 (36%), Positives = 36/71 (50%)
Query: 883 GRRHRTSYRKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTRWSFN 942
RR R ++ K E+ + + S N YP+ KE LAK+ G+T SQV WF N R +
Sbjct: 1 ARRKRRNFNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYK 60
Query: 943 HPSSKNAKLAN 953
K + AN
Sbjct: 61 KNIGKFQEEAN 71
>pdb|1B72|B Chain B, Pbx1, Homeobox Protein Hox-B1DNA TERNARY COMPLEX
Length = 87
Score = 48.1 bits (113), Expect = 2e-05, Method: Composition-based stats.
Identities = 26/71 (36%), Positives = 36/71 (50%)
Query: 883 GRRHRTSYRKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTRWSFN 942
RR R ++ K E+ + + S N YP+ KE LAK+ G+T SQV WF N R +
Sbjct: 1 ARRKRRNFNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYK 60
Query: 943 HPSSKNAKLAN 953
K + AN
Sbjct: 61 KNIGKFQEEAN 71
>pdb|1LFU|P Chain P, Nmr Solution Stucture Of The Extended Pbx Homeodomain
Bound To Dna
Length = 82
Score = 47.8 bits (112), Expect = 3e-05, Method: Composition-based stats.
Identities = 26/71 (36%), Positives = 36/71 (50%)
Query: 883 GRRHRTSYRKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTRWSFN 942
RR R ++ K E+ + + S N YP+ KE LAK+ G+T SQV WF N R +
Sbjct: 2 ARRKRRNFNKQATEILNEYFYSHLSNPYPSEEAKEELAKKSGITVSQVSNWFGNKRIRYK 61
Query: 943 HPSSKNAKLAN 953
K + AN
Sbjct: 62 KNIGKFQEEAN 72
>pdb|3A01|B Chain B, Crystal Structure Of Aristaless And Clawless Homeodomains
Bo
pdb|3A01|F Chain F, Crystal Structure Of Aristaless And Clawless Homeodomains
Bo
Length = 67
Score = 44.3 bits (103), Expect = 4e-04, Method: Composition-based stats.
Identities = 21/60 (35%), Positives = 36/60 (60%), Gaps = 3/60 (5%)
Query: 879 PGSRGRRHRTSYRKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
P + RR+RT++ E +K +F YP+ T+E LA ++GLT ++++ WF+N R
Sbjct: 2 PKRKQRRYRTTFTSFQLEELEK---AFSRTHYPDVFTREELAMKIGLTEARIQVWFQNRR 58
>pdb|1B8I|B Chain B, Structure Of The Homeotic UbxEXDDNA TERNARY COMPLEX
pdb|2R5Y|B Chain B, Structure Of ScrEXD COMPLEX BOUND TO A CONSENSUS HOX-Exd
Site
pdb|2R5Z|B Chain B, Structure Of ScrEXD COMPLEX BOUND TO A DNA SEQUENCE
Derived From The Fkh Gene
Length = 63
Score = 43.9 bits (102), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 22/56 (39%), Positives = 31/56 (55%)
Query: 883 GRRHRTSYRKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
RR R ++ K E+ + + S N YP+ KE LA++ G+T SQV WF N R
Sbjct: 1 ARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCGITVSQVSNWFGNKR 56
>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 = 43.1 bits (100), Expect = 9e-04, Method: Composition-based stats.
Identities = 22/52 (42%), Positives = 29/52 (55%), Gaps = 6/52 (11%)
Query: 527 CAKCGSKDLSADNDIILCDGACDRGFHQYCLEPPLLKEDIPPDDEGWLCPGC 578
C CG + + ++CD CD FH YCL+PPL +P +DE W CP C
Sbjct: 177 CHLCGGR--QDPDKQLMCD-ECDMAFHIYCLDPPL--SSVPSEDE-WYCPEC 222
>pdb|3ZVZ|B Chain B, Phd Finger Of Human Uhrf1
Length = 57
Score = 42.7 bits (99), Expect = 0.001, Method: Composition-based stats.
Identities = 23/52 (44%), Positives = 27/52 (51%), Gaps = 6/52 (11%)
Query: 527 CAKCGSKDLSADNDIILCDGACDRGFHQYCLEPPLLKEDIPPDDEGWLCPGC 578
C CG + D D L CD FH YCL+PPL +P +DE W CP C
Sbjct: 8 CHLCGGRQ---DPDKQLMCDECDMAFHIYCLDPPL--SSVPSEDE-WYCPEC 53
>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 = 41.6 bits (96), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/37 (51%), Positives = 24/37 (64%), Gaps = 4/37 (10%)
Query: 542 ILCDGACDRGFHQYCLEPPLLKEDIPPDDEGWLCPGC 578
++CD CD FH YCL+PPL +P +DE W CP C
Sbjct: 206 LMCD-ECDMAFHIYCLDPPL--SSVPSEDE-WYCPEC 238
>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 = 41.6 bits (96), Expect = 0.002, Method: Composition-based stats.
Identities = 23/52 (44%), Positives = 27/52 (51%), Gaps = 6/52 (11%)
Query: 527 CAKCGSKDLSADNDIILCDGACDRGFHQYCLEPPLLKEDIPPDDEGWLCPGC 578
C CG + D D L CD FH YCL+PPL +P +DE W CP C
Sbjct: 26 CHLCGGRQ---DPDKQLMCDECDMAFHIYCLDPPL--SSVPSEDE-WYCPEC 71
>pdb|3LNQ|A Chain A, Structure Of Aristaless Homeodomain In Complex With Dna
Length = 58
Score = 41.2 bits (95), Expect = 0.003, Method: Composition-based stats.
Identities = 19/54 (35%), Positives = 33/54 (61%), Gaps = 3/54 (5%)
Query: 885 RHRTSYRKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
R+RT++ E +K +F YP+ T+E LA ++GLT ++++ WF+N R
Sbjct: 1 RYRTTFTSFQLEELEK---AFSRTHYPDVFTREELAMKIGLTEARIQVWFQNRR 51
>pdb|2L7M|P Chain P, Solution Structure Of The Pitx2 Homeodomain R24h Mutant
Length = 68
Score = 41.2 bits (95), Expect = 0.003, Method: Composition-based stats.
Identities = 21/55 (38%), Positives = 33/55 (60%), Gaps = 3/55 (5%)
Query: 884 RRHRTSYRKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
RR RT + + Q+L +F+ N YP+ +T+E +A LT ++VR WF+N R
Sbjct: 4 RRQRTHFT---SQQLQELEATFQRNHYPDMSTREEIAVWTNLTEARVRVWFKNRR 55
>pdb|2L7F|P Chain P, Solution Structure Of The Pitx2 Homeodomain
pdb|2LKX|A Chain A, Nmr Structure Of The Homeodomain Of Pitx2 In Complex With
A Taatcc Dna Binding Site
Length = 68
Score = 41.2 bits (95), Expect = 0.003, Method: Composition-based stats.
Identities = 21/55 (38%), Positives = 34/55 (61%), Gaps = 3/55 (5%)
Query: 884 RRHRTSYRKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
RR RT + + Q+L +F+ N+YP+ +T+E +A LT ++VR WF+N R
Sbjct: 4 RRQRTHFT---SQQLQELEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNRR 55
>pdb|1DU6|A Chain A, Solution Structure Of The Truncated Pbx Homeodomain
Length = 64
Score = 40.4 bits (93), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 26/47 (55%)
Query: 892 KLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
K E+ + + S N YP+ KE LAK+ G+T SQV WF N R
Sbjct: 12 KQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKR 58
>pdb|2K40|A Chain A, Nmr Structure Of Hesx-1 Homeodomain Double Mutant R31lE42L
Length = 67
Score = 40.0 bits (92), Expect = 0.007, Method: Composition-based stats.
Identities = 22/56 (39%), Positives = 32/56 (57%), Gaps = 3/56 (5%)
Query: 883 GRRHRTSYRKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
GRR RT++ + EV L N F+ N YP E LA++L L +++ WF+N R
Sbjct: 1 GRRPRTAFTQNQIEV---LENVFRVNCYPGIDILEDLAQKLNLELDRIQIWFQNRR 53
>pdb|2DJN|A Chain A, The Solution Structure Of The Homeobox Domain Of Human
Homeobox Protein Dlx-5
Length = 70
Score = 40.0 bits (92), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 23/59 (38%), Positives = 31/59 (52%), Gaps = 3/59 (5%)
Query: 880 GSRGRRHRTSYRKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
GS GR+ RT Y Q+ F++ QY + LA LGLT +QV+ WF+N R
Sbjct: 4 GSSGRKPRTIYSSFQLAALQR---RFQKTQYLALPERAELAASLGLTQTQVKIWFQNKR 59
>pdb|2R5Y|A Chain A, Structure Of ScrEXD COMPLEX BOUND TO A CONSENSUS HOX-Exd
Site
pdb|2R5Z|A Chain A, Structure Of ScrEXD COMPLEX BOUND TO A DNA SEQUENCE
Derived From The Fkh Gene
Length = 88
Score = 40.0 bits (92), Expect = 0.007, Method: Composition-based stats.
Identities = 27/77 (35%), Positives = 38/77 (49%), Gaps = 7/77 (9%)
Query: 871 KSHEGCSTPGSRG--RRHRTSYRKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFS 928
+ H G ST + G +R RTSY + T +L F N+Y R + +A L LT
Sbjct: 14 RVHLGTSTVNANGETKRQRTSYTRYQ---TLELEKEFHFNRYLTRRRRIEIAHALSLTER 70
Query: 929 QVRKWFENTR--WSFNH 943
Q++ WF+N R W H
Sbjct: 71 QIKIWFQNRRMKWKKEH 87
>pdb|1F62|A Chain A, Wstf-Phd
Length = 51
Score = 39.7 bits (91), Expect = 0.008, Method: Composition-based stats.
Identities = 22/52 (42%), Positives = 28/52 (53%), Gaps = 7/52 (13%)
Query: 527 CAKCGSKDLSADNDIILCDGACDRGFHQYCLEPPLLKEDIPPDDEGWLCPGC 578
C C K D+ +ILCD C++ FH +CL P L + PD E W CP C
Sbjct: 3 CKVCRKK--GEDDKLILCD-ECNKAFHLFCLRPALYE---VPDGE-WQCPAC 47
>pdb|2DMS|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
Protein Otx2
Length = 80
Score = 39.7 bits (91), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 36/59 (61%), Gaps = 3/59 (5%)
Query: 880 GSRGRRHRTSYRKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
GS GRR RT++ + +V + L F + +YP+ +E +A ++ L S+V+ WF+N R
Sbjct: 4 GSSGRRERTTFTRAQLDVLEAL---FAKTRYPDIFMREEVALKINLPESRVQVWFKNRR 59
>pdb|3A02|A Chain A, Crystal Structure Of Aristaless Homeodomain
Length = 60
Score = 38.9 bits (89), Expect = 0.014, Method: Composition-based stats.
Identities = 15/40 (37%), Positives = 27/40 (67%)
Query: 899 QKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
++L +F YP+ T+E LA ++GLT ++++ WF+N R
Sbjct: 12 EELEKAFSRTHYPDVFTREELAMKIGLTEARIQVWFQNRR 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 = 38.5 bits (88), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 33/59 (55%), Gaps = 3/59 (5%)
Query: 880 GSRGRRHRTSYRKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
GS +R RT++ E +L F EN+Y ++ L+ ELGL +QV+ WF+N R
Sbjct: 1 GSDEKRPRTAF---SSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQVKGWFKNMR 56
>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 = 37.7 bits (86), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 19/37 (51%), Positives = 24/37 (64%), Gaps = 4/37 (10%)
Query: 542 ILCDGACDRGFHQYCLEPPLLKEDIPPDDEGWLCPGC 578
++CD CD FH YCL+PPL +P +DE W CP C
Sbjct: 36 LMCD-ECDMAFHIYCLDPPL--SSVPSEDE-WYCPEC 68
>pdb|2E6S|A Chain A, Solution Structure Of The Phd Domain In Ring Finger
Protein 107
Length = 77
Score = 37.7 bits (86), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 23/52 (44%), Positives = 28/52 (53%), Gaps = 6/52 (11%)
Query: 527 CAKCGSKDLSADNDIILCDGACDRGFHQYCLEPPLLKEDIPPDDEGWLCPGC 578
C CG K N +LCD C+ +H YCL PPL D P++E W CP C
Sbjct: 29 CRVCGGK--HEPNMQLLCD-ECNVAYHIYCLNPPL---DKVPEEEYWYCPSC 74
>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 = 37.7 bits (86), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 29/52 (55%), Gaps = 7/52 (13%)
Query: 527 CAKCGSKDLSADNDIILCDGACDRGFHQYCLEPPLLKEDIPPDDEGWLCPGC 578
C CG+ + D+ ++ CD CDRG+H YCL PP+ + P + W C C
Sbjct: 61 CILCGTSE--NDDQLLFCDD-CDRGYHMYCLNPPVAE----PPEGSWSCHLC 105
>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 = 37.7 bits (86), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 19/37 (51%), Positives = 24/37 (64%), Gaps = 4/37 (10%)
Query: 542 ILCDGACDRGFHQYCLEPPLLKEDIPPDDEGWLCPGC 578
++CD CD FH YCL+PPL +P +DE W CP C
Sbjct: 34 LMCD-ECDMAFHIYCLDPPL--SSVPSEDE-WYCPEC 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 = 37.4 bits (85), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 19/37 (51%), Positives = 24/37 (64%), Gaps = 4/37 (10%)
Query: 542 ILCDGACDRGFHQYCLEPPLLKEDIPPDDEGWLCPGC 578
++CD CD FH YCL+PPL +P +DE W CP C
Sbjct: 34 LMCD-ECDMAFHIYCLDPPL--SSVPSEDE-WYCPEC 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 = 37.4 bits (85), Expect = 0.042, Method: Composition-based stats.
Identities = 18/43 (41%), Positives = 23/43 (53%), Gaps = 4/43 (9%)
Query: 538 DNDIILCDGACDRGFHQYCLEPPLLKEDIPPDDEGWLCPGCDC 580
D +LC C +H +CL PPL +IP + WLCP C C
Sbjct: 17 DGGELLCCDTCPSSYHIHCLNPPL--PEIPNGE--WLCPRCTC 55
>pdb|2DN0|A Chain A, Solution Structure Of The Second Homeobox Domain Of Human
Zinc Fingers And Homeoboxes Protein 3
Length = 76
Score = 37.4 bits (85), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 17/39 (43%), Positives = 24/39 (61%)
Query: 901 LYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTRW 939
L SF NQ+P ++ E L K GL+ +VRKWF + R+
Sbjct: 23 LKGSFCRNQFPGQSEVEHLTKVTGLSTREVRKWFSDRRY 61
>pdb|1FJL|A Chain A, Homeodomain From The Drosophila Paired Protein Bound To A
Dna Oligonucleotide
pdb|1FJL|B Chain B, Homeodomain From The Drosophila Paired Protein Bound To A
Dna Oligonucleotide
pdb|1FJL|C Chain C, Homeodomain From The Drosophila Paired Protein Bound To A
Dna Oligonucleotide
Length = 81
Score = 37.4 bits (85), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 40/73 (54%), Gaps = 4/73 (5%)
Query: 866 NISPAKSHEGCSTPGSRGRRHRTSYRKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGL 925
+IS +S G + + RR RT++ +L +F+ QYP+ T+E LA+ L
Sbjct: 2 DISDCESEPGIALK-RKQRRSRTTF---SASQLDELERAFERTQYPDIYTREELAQRTNL 57
Query: 926 TFSQVRKWFENTR 938
T ++++ WF+N R
Sbjct: 58 TEARIQVWFQNRR 70
>pdb|3SHB|A Chain A, Crystal Structure Of Phd Domain Of Uhrf1
Length = 77
Score = 37.4 bits (85), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 19/37 (51%), Positives = 24/37 (64%), Gaps = 4/37 (10%)
Query: 542 ILCDGACDRGFHQYCLEPPLLKEDIPPDDEGWLCPGC 578
++CD CD FH YCL+PPL +P +DE W CP C
Sbjct: 42 LMCD-ECDMAFHIYCLDPPL--SSVPSEDE-WYCPEC 74
>pdb|3CMY|A Chain A, Structure Of A Homeodomain In Complex With Dna
Length = 61
Score = 37.0 bits (84), Expect = 0.054, Method: Composition-based stats.
Identities = 20/55 (36%), Positives = 32/55 (58%), Gaps = 3/55 (5%)
Query: 884 RRHRTSYRKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
RR RT++ E ++L +F+ YP+ T+E LA+ LT ++V+ WF N R
Sbjct: 3 RRSRTTFTA---EQLEELERAFERTHYPDIYTREELAQRAKLTEARVQVWFSNRR 54
>pdb|1B8I|A Chain A, Structure Of The Homeotic UbxEXDDNA TERNARY COMPLEX
Length = 81
Score = 37.0 bits (84), Expect = 0.065, Method: Composition-based stats.
Identities = 20/57 (35%), Positives = 28/57 (49%), Gaps = 6/57 (10%)
Query: 882 RGRRHRTSYRKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
RGR+ T Y+ L +L F N Y R + +A L LT Q++ WF+N R
Sbjct: 22 RGRQTYTRYQTL------ELEKEFHTNHYLTRRRRIEMAHALSLTERQIKIWFQNRR 72
>pdb|2CUE|A Chain A, Solution Structure Of The Homeobox Domain Of The Human
Paired Box Protein Pax-6
Length = 80
Score = 36.6 bits (83), Expect = 0.074, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 34/59 (57%), Gaps = 3/59 (5%)
Query: 880 GSRGRRHRTSYRKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
GS G+R+RTS+ +E + L F+ YP+ +E LA ++ L ++++ WF N R
Sbjct: 4 GSSGQRNRTSF---TQEQIEALEKEFERTHYPDVFARERLAAKIDLPEARIQVWFSNRR 59
>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 = 36.6 bits (83), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 31/55 (56%), Gaps = 3/55 (5%)
Query: 884 RRHRTSYRKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
+R RT++ E +L F EN+Y ++ L+ ELGL +Q++ WF+N R
Sbjct: 2 KRPRTAF---SSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNAR 53
>pdb|1HDD|C Chain C, Crystal Structure Of An Engrailed Homeodomain-Dna Complex
At 2.8 Angstroms Resolution: A Framework For
Understanding Homeodomain-Dna Interactions
pdb|1HDD|D Chain D, Crystal Structure Of An Engrailed Homeodomain-Dna Complex
At 2.8 Angstroms Resolution: A Framework For
Understanding Homeodomain-Dna Interactions
pdb|2JWT|A Chain A, Solution Structure Of Engrailed Homeodomain Wt
Length = 61
Score = 36.6 bits (83), Expect = 0.087, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 31/55 (56%), Gaps = 3/55 (5%)
Query: 884 RRHRTSYRKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
+R RT++ E +L F EN+Y ++ L+ ELGL +Q++ WF+N R
Sbjct: 4 KRPRTAF---SSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNKR 55
>pdb|1ENH|A Chain A, Structural Studies Of The Engrailed Homeodomain
Length = 54
Score = 36.6 bits (83), Expect = 0.087, Method: Composition-based stats.
Identities = 19/54 (35%), Positives = 30/54 (55%), Gaps = 3/54 (5%)
Query: 885 RHRTSYRKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
R RT++ E +L F EN+Y ++ L+ ELGL +Q++ WF+N R
Sbjct: 1 RPRTAF---SSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNKR 51
>pdb|2YT5|A Chain A, Solution Structure Of The Phd Domain Of Metal-Response
Element-Binding Transcription Factor 2
Length = 66
Score = 36.2 bits (82), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 27/52 (51%), Gaps = 2/52 (3%)
Query: 527 CAKCGSKDLSADNDIILCDGACDRGFHQYCLEPPLLKEDIPPDDEGWLCPGC 578
C C + A N++++CD C +G+HQ C P + + DE WLC C
Sbjct: 9 CTICQEEYSEAPNEMVICD-KCGQGYHQLC-HTPHIDSSVIDSDEKWLCRQC 58
>pdb|2LY9|A Chain A, Solution Nmr Structure Of Homeobox 2 Domain From Human
Zhx1 Repressor, Northeast Structural Genomics Consortium
(Nesg) Target Hr7907f
Length = 74
Score = 35.8 bits (81), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 35/62 (56%), Gaps = 5/62 (8%)
Query: 879 PGSRGRRHRTSYRKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
P S G R + + +L E L S+ +NQ+P+ + L K GLT +++KWF +TR
Sbjct: 4 PDSFGIRAKKTKEQLAE-----LKVSYLKNQFPHDSEIIRLMKITGLTKGEIKKWFSDTR 58
Query: 939 WS 940
++
Sbjct: 59 YN 60
>pdb|3V43|A Chain A, Crystal Structure Of Moz
Length = 112
Score = 35.8 bits (81), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 17/37 (45%), Positives = 25/37 (67%), Gaps = 2/37 (5%)
Query: 527 CAKCGSKDLSADNDIILCDGACDRGFHQYCLEPPLLK 563
C+ C + +ADN ++ CD +CDRGFH C +PPL +
Sbjct: 64 CSSCRDQGKNADN-MLFCD-SCDRGFHMECCDPPLTR 98
>pdb|2M0C|A Chain A, Solution Nmr Structure Of Homeobox Domain Of Human Alx4,
Northeast Structural Genomics Consortium (Nesg) Target
Hr4490c
Length = 75
Score = 35.8 bits (81), Expect = 0.12, Method: Composition-based stats.
Identities = 19/57 (33%), Positives = 33/57 (57%), Gaps = 3/57 (5%)
Query: 882 RGRRHRTSYRKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
+ RR+RT++ E +K+ F++ YP+ +E LA LT ++V+ WF+N R
Sbjct: 8 KKRRNRTTFTSYQLEELEKV---FQKTHYPDVYAREQLAMRTDLTEARVQVWFQNRR 61
>pdb|2HDD|A Chain A, Engrailed Homeodomain Q50k Variant Dna Complex
pdb|2HDD|B Chain B, Engrailed Homeodomain Q50k Variant Dna Complex
Length = 61
Score = 35.8 bits (81), Expect = 0.12, Method: Composition-based stats.
Identities = 19/55 (34%), Positives = 31/55 (56%), Gaps = 3/55 (5%)
Query: 884 RRHRTSYRKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
+R RT++ E +L F EN+Y ++ L+ ELGL +Q++ WF+N R
Sbjct: 4 KRPRTAF---SSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFKNKR 55
>pdb|2LN0|A Chain A, Structure Of Moz
Length = 110
Score = 35.8 bits (81), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 17/37 (45%), Positives = 25/37 (67%), Gaps = 2/37 (5%)
Query: 527 CAKCGSKDLSADNDIILCDGACDRGFHQYCLEPPLLK 563
C+ C + +ADN ++ CD +CDRGFH C +PPL +
Sbjct: 62 CSSCRDQGKNADN-MLFCD-SCDRGFHMECCDPPLTR 96
>pdb|3HDD|A Chain A, Engrailed Homeodomain Dna Complex
pdb|3HDD|B Chain B, Engrailed Homeodomain Dna Complex
Length = 60
Score = 35.8 bits (81), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 31/55 (56%), Gaps = 3/55 (5%)
Query: 884 RRHRTSYRKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
+R RT++ E +L F EN+Y ++ L+ ELGL +Q++ WF+N R
Sbjct: 2 KRPRTAF---SSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNKR 53
>pdb|1P7J|A Chain A, Crystal Structure Of Engrailed Homeodomain Mutant K52e
pdb|1P7J|B Chain B, Crystal Structure Of Engrailed Homeodomain Mutant K52e
pdb|1P7J|C Chain C, Crystal Structure Of Engrailed Homeodomain Mutant K52e
pdb|1P7J|D Chain D, Crystal Structure Of Engrailed Homeodomain Mutant K52e
Length = 59
Score = 35.8 bits (81), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 31/55 (56%), Gaps = 3/55 (5%)
Query: 884 RRHRTSYRKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
+R RT++ E +L F EN+Y ++ L+ ELGL +Q++ WF+N R
Sbjct: 2 KRPRTAF---SSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNER 53
>pdb|2DMT|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
Protein Barh-Like 1
Length = 80
Score = 35.4 bits (80), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 38/71 (53%), Gaps = 5/71 (7%)
Query: 878 TPGSRGRRHRTSYRKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENT 937
T +GRR RT + +L L F++ +Y + + LA+ LGL+ QV+ W++N
Sbjct: 12 TKAKKGRRSRTVFTEL---QLMGLEKRFEKQKYLSTPDRIDLAESLGLSQLQVKTWYQNR 68
Query: 938 R--WSFNHPSS 946
R W + PSS
Sbjct: 69 RMKWKKSGPSS 79
>pdb|9ANT|A Chain A, Antennapedia Homeodomain-Dna Complex
pdb|9ANT|B Chain B, Antennapedia Homeodomain-Dna Complex
Length = 62
Score = 35.4 bits (80), Expect = 0.18, Method: Composition-based stats.
Identities = 20/57 (35%), Positives = 29/57 (50%), Gaps = 6/57 (10%)
Query: 882 RGRRHRTSYRKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
RGR+ T Y+ L +L F N+Y R + +A L LT Q++ WF+N R
Sbjct: 5 RGRQTYTRYQTL------ELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRR 55
>pdb|2DMQ|A Chain A, Solution Structure Of The Homeobox Domain Of LimHOMEOBOX
Protein Lhx9
Length = 80
Score = 35.0 bits (79), Expect = 0.21, Method: Composition-based stats.
Identities = 20/64 (31%), Positives = 34/64 (53%), Gaps = 3/64 (4%)
Query: 878 TPGSRGRRHRTSYRKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENT 937
+ GS G+R RTS++ + + + F N P+ + LA++ GLT ++ WF+N
Sbjct: 2 SSGSSGKRMRTSFK---HHQLRTMKSYFAINHNPDAKDLKQLAQKTGLTKRVLQVWFQNA 58
Query: 938 RWSF 941
R F
Sbjct: 59 RAKF 62
>pdb|2M34|A Chain A, Nmr Structure Of The Homeodomain Transcription Factor Gbx1
From Homo Sapiens
Length = 71
Score = 35.0 bits (79), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 32/62 (51%), Gaps = 3/62 (4%)
Query: 877 STPGSRGRRHRTSYRKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFEN 936
S PG + RR RT++ E +L F +Y + T + +A L L+ QV+ WF+N
Sbjct: 1 SAPGGKSRRRRTAF---TSEQLLELEKEFHCKKYLSLTERSQIAHALKLSEVQVKIWFQN 57
Query: 937 TR 938
R
Sbjct: 58 RR 59
>pdb|1ZTR|A Chain A, Solution Structure Of Engrailed Homeodomain L16a Mutant
Length = 61
Score = 35.0 bits (79), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 22/34 (64%)
Query: 905 FKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
F EN+Y ++ L+ ELGL +Q++ WF+N R
Sbjct: 22 FNENRYLTERRRQQLSSELGLNEAQIKIWFQNKR 55
>pdb|1DU0|A Chain A, Engrailed Homeodomain Q50a Variant Dna Complex
pdb|1DU0|B Chain B, Engrailed Homeodomain Q50a Variant Dna Complex
Length = 57
Score = 34.7 bits (78), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 29/54 (53%), Gaps = 3/54 (5%)
Query: 885 RHRTSYRKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
R RT++ E +L F EN+Y ++ L+ ELGL +Q++ WF N R
Sbjct: 1 RPRTAF---SSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFANKR 51
>pdb|1AHD|P Chain P, Determination Of The Nmr Solution Structure Of An
Antennapedia Homeodomain-Dna Complex
pdb|2HOA|A Chain A, Structure Determination Of The Antp(C39->s) Homeodomain
From Nuclear Magnetic Resonance Data In Solution Using A
Novel Strategy For The Structure Calculation With The
Programs Diana, Caliba, Habas And Glomsa
Length = 68
Score = 34.3 bits (77), Expect = 0.37, Method: Composition-based stats.
Identities = 20/57 (35%), Positives = 29/57 (50%), Gaps = 6/57 (10%)
Query: 882 RGRRHRTSYRKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
RGR+ T Y+ L +L F N+Y R + +A L LT Q++ WF+N R
Sbjct: 4 RGRQTYTRYQTL------ELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRR 54
>pdb|2L5U|A Chain A, Structure Of The First Phd Finger (Phd1) From Chd4 (Mi2b)
Length = 61
Score = 34.3 bits (77), Expect = 0.38, Method: Composition-based stats.
Identities = 23/62 (37%), Positives = 30/62 (48%), Gaps = 13/62 (20%)
Query: 519 QIDSEDIYCAKCGSKDLSADNDIILCDGACDRGFHQYCLEPPLLKEDIPPDDEG-WLCPG 577
+ D +D YC C +IILCD C R +H CL+P D+ EG W CP
Sbjct: 7 ETDHQD-YCEVC-----QQGGEIILCD-TCPRAYHMVCLDP-----DMEKAPEGKWSCPH 54
Query: 578 CD 579
C+
Sbjct: 55 CE 56
>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 = 34.3 bits (77), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 27/41 (65%), Gaps = 5/41 (12%)
Query: 538 DNDIILCDGACDRGFHQYCLEPPLLKEDIPPDDEGWLCPGC 578
D+ +++CD CD+G+H +CL+P + + +P + GW C C
Sbjct: 66 DSKMLVCD-TCDKGYHTFCLQP--VMKSVPTN--GWKCKNC 101
>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 = 33.9 bits (76), Expect = 0.46, Method: Composition-based stats.
Identities = 17/43 (39%), Positives = 21/43 (48%), Gaps = 4/43 (9%)
Query: 538 DNDIILCDGACDRGFHQYCLEPPLLKEDIPPDDEGWLCPGCDC 580
D +LC C +H +CL P L + PD E W CP C C
Sbjct: 17 DGGELLCCDTCPSSYHIHCLRPALYE---VPDGE-WQCPRCTC 55
>pdb|1HOM|A Chain A, Determination Of The Three-Dimensional Structure Of The
Antennapedia Homeodomain From Drosophila In Solution By
1h Nuclear Magnetic Resonance Spectroscopy
Length = 68
Score = 33.9 bits (76), Expect = 0.47, Method: Composition-based stats.
Identities = 20/57 (35%), Positives = 29/57 (50%), Gaps = 6/57 (10%)
Query: 882 RGRRHRTSYRKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
RGR+ T Y+ L +L F N+Y R + +A L LT Q++ WF+N R
Sbjct: 4 RGRQTYTRYQTL------ELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRR 54
>pdb|3NAU|A Chain A, Crystal Structure Of Zhx2 Hd2 (Zinc-Fingers And Homeoboxes
Protein 2, Homeodomain 2)
pdb|3NAU|B Chain B, Crystal Structure Of Zhx2 Hd2 (Zinc-Fingers And Homeoboxes
Protein 2, Homeodomain 2)
Length = 66
Score = 33.9 bits (76), Expect = 0.49, Method: Composition-based stats.
Identities = 16/49 (32%), Positives = 27/49 (55%)
Query: 891 RKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTRW 939
RK +E L SF ++Q+P+ L + GL S+++KWF + R+
Sbjct: 9 RKKTKEQIAHLKASFLQSQFPDDAEVYRLIEVTGLARSEIKKWFSDHRY 57
>pdb|3K2A|A Chain A, Crystal Structure Of The Homeobox Domain Of Human Homeobox
Protein Meis2
pdb|3K2A|B Chain B, Crystal Structure Of The Homeobox Domain Of Human Homeobox
Protein Meis2
Length = 67
Score = 33.9 bits (76), Expect = 0.49, Method: Composition-based stats.
Identities = 15/35 (42%), Positives = 19/35 (54%)
Query: 910 YPNRTTKESLAKELGLTFSQVRKWFENTRWSFNHP 944
YP+ K+ LA++ GLT QV WF N R P
Sbjct: 25 YPSEEQKKQLAQDTGLTILQVNNWFINARRRIVQP 59
>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 = 33.9 bits (76), Expect = 0.54, Method: Composition-based stats.
Identities = 18/53 (33%), Positives = 27/53 (50%), Gaps = 10/53 (18%)
Query: 526 YCAKCGSKDLSADNDIILCDGACDRGFHQYCLEPPLLKEDIPPDDEGWLCPGC 578
+C+ C +++CD C R +H CL+PPL + IP W+CP C
Sbjct: 7 FCSVC-----RKSGQLLMCD-TCSRVYHLDCLDPPL--KTIPKG--MWICPRC 49
>pdb|2P81|A Chain A, Engrailed Homeodomain Helix-Turn-Helix Motif
Length = 44
Score = 33.5 bits (75), Expect = 0.65, Method: Composition-based stats.
Identities = 14/34 (41%), Positives = 22/34 (64%)
Query: 905 FKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
F EN+Y ++ L+ ELGL +Q++ WF+N R
Sbjct: 5 FNENRYLTERRRQQLSSELGLNEAQIKIWFQNKR 38
>pdb|2LP0|A Chain A, The Solution Structure Of Homeodomain-Protein Complex
Length = 60
Score = 33.5 bits (75), Expect = 0.67, Method: Composition-based stats.
Identities = 20/55 (36%), Positives = 27/55 (49%), Gaps = 3/55 (5%)
Query: 884 RRHRTSYRKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
R+ R Y K T +L F N Y R + +A+ L LT QV+ WF+N R
Sbjct: 2 RKKRCPYTKYQ---TLELEKEFLFNMYLTRDRRYEVARVLNLTERQVKIWFQNRR 53
>pdb|1PUF|A Chain A, Crystal Structure Of Hoxa9 And Pbx1 Homeodomains Bound To
Dna
Length = 77
Score = 33.5 bits (75), Expect = 0.71, Method: Composition-based stats.
Identities = 22/67 (32%), Positives = 30/67 (44%), Gaps = 3/67 (4%)
Query: 884 RRHRTSYRKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTRWSFNH 943
R+ R Y K T +L F N Y R + +A+ L LT QV+ WF+N R
Sbjct: 14 RKKRCPYTK---HQTLELEKEFLFNMYLTRDRRYEVARLLNLTERQVKIWFQNRRMKMKK 70
Query: 944 PSSKNAK 950
+ AK
Sbjct: 71 INKDRAK 77
>pdb|1FTT|A Chain A, Thyroid Transcription Factor 1 Homeodomain (Rattus
Norvegicus)
Length = 68
Score = 33.5 bits (75), Expect = 0.73, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 27/50 (54%)
Query: 900 KLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTRWSFNHPSSKNA 949
+L FK+ +Y + +E LA + LT +QV+ WF+N R+ + A
Sbjct: 16 ELERRFKQQKYLSAPEREHLASMIHLTPTQVKIWFQNHRYKMKRQAKDKA 65
>pdb|4EGC|A Chain A, Crystal Structure Of Mbp-fused Human Six1 Bound To Human
Eya2 Eya Domain
Length = 559
Score = 33.1 bits (74), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 21/38 (55%)
Query: 901 LYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
L + N YP+ K LA+ GLT +QV WF+N R
Sbjct: 509 LREWYAHNPYPSPREKRELAEATGLTTTQVSNWFKNRR 546
>pdb|2E6R|A Chain A, Solution Structure Of The Phd Domain In Smcy Protein
Length = 92
Score = 33.1 bits (74), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 19/42 (45%), Positives = 25/42 (59%), Gaps = 7/42 (16%)
Query: 538 DNDIILCDGACDRGFHQYCLEPPLLKEDIPPDDEG-WLCPGC 578
D+ ++ CDG CD +H +CL PPL +IP G W CP C
Sbjct: 28 DDKLLFCDG-CDDNYHIFCLLPPL--PEIP---RGIWRCPKC 63
>pdb|2DA3|A Chain A, Solution Structure Of The Third Homeobox Domain Of At-
Binding Transcription Factor 1 (Atbf1)
Length = 80
Score = 32.7 bits (73), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 30/57 (52%), Gaps = 3/57 (5%)
Query: 882 RGRRHRTSYRKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
R +R RT+ + E + LY + + P R + +A E+GL V+ WF+NTR
Sbjct: 16 RDKRLRTT---ITPEQLEILYQKYLLDSNPTRKMLDHIAHEVGLKKRVVQVWFQNTR 69
>pdb|2HI3|A Chain A, Solution Structure Of The Homeodomain-Only Protein Hop
Length = 73
Score = 32.7 bits (73), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/33 (48%), Positives = 21/33 (63%)
Query: 902 YNSFKENQYPNRTTKESLAKELGLTFSQVRKWF 934
YN K N++P+ TT +A E GLT Q +KWF
Sbjct: 19 YNFNKVNKHPDPTTLCLIAAEAGLTEEQTQKWF 51
>pdb|3RKQ|A Chain A, Nkx2.5 Homeodomain Dimer Bound To Anf-242 Dna
pdb|3RKQ|B Chain B, Nkx2.5 Homeodomain Dimer Bound To Anf-242 Dna
Length = 58
Score = 32.7 bits (73), Expect = 1.2, Method: Composition-based stats.
Identities = 15/40 (37%), Positives = 25/40 (62%)
Query: 900 KLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTRW 939
+L FK+ +Y + ++ LA L LT +QV+ WF+N R+
Sbjct: 16 ELERRFKQQRYLSAPERDQLASVLKLTSTQVKIWFQNRRY 55
>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 = 32.7 bits (73), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 21/40 (52%), Gaps = 5/40 (12%)
Query: 539 NDIILCDGACDRGFHQYCLEPPLLKEDIPPDDEGWLCPGC 578
++I CDG C R FH CL PPL +IP W C C
Sbjct: 18 GELICCDG-CPRAFHLACLSPPL--REIPSGT--WRCSSC 52
>pdb|1UHS|A Chain A, Solution Structure Of Mouse Homeodomain-Only Protein Hop
Length = 72
Score = 32.7 bits (73), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 16/33 (48%), Positives = 21/33 (63%)
Query: 902 YNSFKENQYPNRTTKESLAKELGLTFSQVRKWF 934
YN K N++P+ TT +A E GLT Q +KWF
Sbjct: 18 YNFNKVNKHPDPTTLCLIAAEAGLTEEQTQKWF 50
>pdb|1YRN|A Chain A, Crystal Structure Of The Mata1MATALPHA2 HOMEODOMAIN
Heterodimer Bound To Dna
pdb|1F43|A Chain A, Solution Structure Of The Mata1 Homeodomain
Length = 61
Score = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 17/38 (44%), Positives = 21/38 (55%)
Query: 901 LYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
L F+ Q N KE +AK+ G+T QVR WF N R
Sbjct: 20 LEQVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKR 57
>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 = 32.3 bits (72), Expect = 1.5, Method: Composition-based stats.
Identities = 12/39 (30%), Positives = 22/39 (56%)
Query: 518 GQIDSEDIYCAKCGSKDLSADNDIILCDGACDRGFHQYC 556
G S+ +Y + +++ D D ILC+ +C + FH+ C
Sbjct: 2 GHSSSDPVYPCGICTNEVNDDQDAILCEASCQKWFHRIC 40
>pdb|2VPB|A Chain A, Decoding Of Methylated Histone H3 Tail By The Pygo-Bcl9
Wnt Signaling Complex
Length = 65
Score = 32.3 bits (72), Expect = 1.5, Method: Composition-based stats.
Identities = 12/39 (30%), Positives = 22/39 (56%)
Query: 518 GQIDSEDIYCAKCGSKDLSADNDIILCDGACDRGFHQYC 556
G S+ +Y + +++ D D ILC+ +C + FH+ C
Sbjct: 1 GHSSSDPVYPCGICTNEVNDDQDAILCEASCQKWFHRIC 39
>pdb|1AKH|A Chain A, Mat A1ALPHA2DNA TERNARY COMPLEX
Length = 61
Score = 32.3 bits (72), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 17/38 (44%), Positives = 21/38 (55%)
Query: 901 LYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
L F+ Q N KE +AK+ G+T QVR WF N R
Sbjct: 20 LEEVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKR 57
>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 = 32.3 bits (72), Expect = 1.6, Method: Composition-based stats.
Identities = 12/39 (30%), Positives = 22/39 (56%)
Query: 518 GQIDSEDIYCAKCGSKDLSADNDIILCDGACDRGFHQYC 556
G S+ +Y + +++ D D ILC+ +C + FH+ C
Sbjct: 2 GHSSSDPVYPCGICTNEVNDDQDAILCEASCQKWFHRIC 40
>pdb|1LE8|A Chain A, Crystal Structure Of The Mata1MATALPHA2-3a Heterodimer
Bound To Dna Complex
Length = 53
Score = 32.0 bits (71), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 17/38 (44%), Positives = 21/38 (55%)
Query: 901 LYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
L F+ Q N KE +AK+ G+T QVR WF N R
Sbjct: 12 LEQVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKR 49
>pdb|1NK2|P Chain P, VndNK-2 HomeodomainDNA COMPLEX, NMR, 20 STRUCTURES
pdb|1NK3|P Chain P, VndNK-2 HomeodomainDNA COMPLEX, NMR, MINIMIZED AVERAGE
Structure
pdb|1VND|A Chain A, VndNK-2 Protein (Homeodomain), Nmr
Length = 77
Score = 32.0 bits (71), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 32/60 (53%), Gaps = 8/60 (13%)
Query: 898 TQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTRWSFNHPSSKNAKLANSEKG 957
T +L F++ +Y + +E LA + LT +QV+ WF+N R+ K A +EKG
Sbjct: 21 TYELERRFRQQRYLSAPEREHLASLIRLTPTQVKIWFQNHRYK--------TKRAQNEKG 72
>pdb|1MH3|A Chain A, Maltose Binding-A1 Homeodomain Protein Chimera, Crystal
Form I
pdb|1MH4|A Chain A, Maltose Binding-A1 Homeodomain Protein Chimera, Crystal
Form Ii
Length = 421
Score = 32.0 bits (71), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 16/34 (47%), Positives = 20/34 (58%)
Query: 905 FKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
F+ Q N KE +AK+ G+T QVR WF N R
Sbjct: 384 FRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKR 417
>pdb|1QU2|A Chain A, Insights Into Editing From An Ile-Trna Synthetase
Structure With Trna(Ile) And Mupirocin
pdb|1QU3|A Chain A, Insights Into Editing From An Ile-Trna Synthetase
Structure With Trna(Ile) And Mupirocin
pdb|1FFY|A Chain A, Insights Into Editing From An Ile-Trna Synthetase
Structure With Trna(Ile) And Mupirocin
Length = 917
Score = 32.0 bits (71), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 25/100 (25%), Positives = 47/100 (47%), Gaps = 17/100 (17%)
Query: 354 TPPNYVANNSACLGRKGKRATKSLKNNYTVRSLIGSDRVLRSRSGERP-IPPESSINLAD 412
+P ++ ++ + +GK+ +KSL N +I D+V++ + + + S+ LAD
Sbjct: 577 SPYKFLLSHGFVMDGEGKKMSKSLGN------VIVPDQVVKQKGADIARLWVSSTDYLAD 630
Query: 413 VNSIGEXXXXXXXXXXXXXIVADEYSRIRTHLRYLLNRIN 452
V E +D+Y +IR LR++L IN
Sbjct: 631 VRISDEILKQT----------SDDYRKIRNTLRFMLGNIN 660
>pdb|2VP7|A Chain A, Decoding Of Methylated Histone H3 Tail By The Pygo-Bcl9
Wnt Signaling Complex
Length = 71
Score = 32.0 bits (71), Expect = 2.0, Method: Composition-based stats.
Identities = 12/39 (30%), Positives = 22/39 (56%)
Query: 518 GQIDSEDIYCAKCGSKDLSADNDIILCDGACDRGFHQYC 556
G S+ +Y + +++ D D ILC+ +C + FH+ C
Sbjct: 2 GHSSSDPVYPCGICTNEVNDDQDAILCEASCQKFFHRIC 40
>pdb|2KU3|A Chain A, Solution Structure Of Brd1 Phd1 Finger
Length = 71
Score = 32.0 bits (71), Expect = 2.0, Method: Composition-based stats.
Identities = 18/56 (32%), Positives = 23/56 (41%), Gaps = 7/56 (12%)
Query: 523 EDIYCAKCGSKDLSADNDIILCDGACDRGFHQYCLEPPLLKEDIPPDDEGWLCPGC 578
ED C+ C + N I+ CD C+ HQ C P + E WLC C
Sbjct: 15 EDAVCSICMDGESQNSNVILFCD-MCNLAVHQECYGVPYIPEG------QWLCRHC 63
>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 = 32.0 bits (71), Expect = 2.0, Method: Composition-based stats.
Identities = 12/39 (30%), Positives = 22/39 (56%)
Query: 518 GQIDSEDIYCAKCGSKDLSADNDIILCDGACDRGFHQYC 556
G S+ +Y + +++ D D ILC+ +C + FH+ C
Sbjct: 2 GHSSSDPVYPCGICTNEVNDDQDAILCEASCQKWFHRIC 40
>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 = 31.6 bits (70), Expect = 2.2, Method: Composition-based stats.
Identities = 12/30 (40%), Positives = 19/30 (63%), Gaps = 1/30 (3%)
Query: 527 CAKCGSKDLSADNDIILCDGACDRGFHQYC 556
C C S +++ D D ILC+ +C + FH+ C
Sbjct: 6 CGACRS-EVNDDQDAILCEASCQKWFHREC 34
>pdb|1JGG|A Chain A, Even-Skipped Homeodomain Complexed To At-Rich Dna
pdb|1JGG|B Chain B, Even-Skipped Homeodomain Complexed To At-Rich Dna
Length = 60
Score = 31.6 bits (70), Expect = 2.4, Method: Composition-based stats.
Identities = 17/55 (30%), Positives = 30/55 (54%), Gaps = 3/55 (5%)
Query: 884 RRHRTSYRKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
RR+RT++ + + +L F + Y +R + LA +L L S ++ WF+N R
Sbjct: 2 RRYRTAFTR---DQLGRLEKEFYKENYVSRPRRCELAAQLNLPESTIKVWFQNRR 53
>pdb|2L9R|A Chain A, Solution Nmr Structure Of Homeobox Domain Of Homeobox
Protein Nkx-3.1 From Homo Sapiens, Northeast Structural
Genomics Consortium Target Hr6470a
Length = 69
Score = 31.6 bits (70), Expect = 2.4, Method: Composition-based stats.
Identities = 15/40 (37%), Positives = 23/40 (57%)
Query: 900 KLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTRW 939
+L F +Y + + LAK L LT +QV+ WF+N R+
Sbjct: 18 ELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRRY 57
>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 = 31.6 bits (70), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 21/40 (52%), Gaps = 5/40 (12%)
Query: 539 NDIILCDGACDRGFHQYCLEPPLLKEDIPPDDEGWLCPGC 578
++I CDG C R FH CL PPL +IP W C C
Sbjct: 15 GELICCDG-CPRAFHLACLSPPL--REIPSGT--WRCSSC 49
>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 = 31.6 bits (70), Expect = 2.8, Method: Composition-based stats.
Identities = 11/30 (36%), Positives = 19/30 (63%), Gaps = 1/30 (3%)
Query: 527 CAKCGSKDLSADNDIILCDGACDRGFHQYC 556
C C + +++ D D ILC+ +C + FH+ C
Sbjct: 8 CGIC-TNEVNDDQDAILCEASCQKWFHRIC 36
>pdb|3A01|A Chain A, Crystal Structure Of Aristaless And Clawless Homeodomains
Bo
pdb|3A01|E Chain E, Crystal Structure Of Aristaless And Clawless Homeodomains
Bo
Length = 93
Score = 31.2 bits (69), Expect = 3.2, Method: Composition-based stats.
Identities = 19/61 (31%), Positives = 34/61 (55%), Gaps = 4/61 (6%)
Query: 878 TPGSRGRRHRTSYRKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENT 937
TP R ++ RTS+ ++ +L F + +Y + +LA+ L +T +QV+ WF+N
Sbjct: 13 TPPKR-KKPRTSFTRIQ---VAELEKRFHKQKYLASAERAALARGLKMTDAQVKTWFQNR 68
Query: 938 R 938
R
Sbjct: 69 R 69
>pdb|1SAN|A Chain A, The Des(1-6)antennapedia Homeodomain: Comparison Of The
Nmr Solution Structure And The Dna Binding Affinity With
The Intact Antennapedia Homeodomain
Length = 62
Score = 31.2 bits (69), Expect = 3.3, Method: Composition-based stats.
Identities = 15/41 (36%), Positives = 22/41 (53%)
Query: 898 TQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
T +L F N+Y R + +A L LT Q++ WF+N R
Sbjct: 8 TLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRR 48
>pdb|1S7E|A Chain A, Solution Structure Of Hnf-6
Length = 147
Score = 31.2 bits (69), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 25/38 (65%)
Query: 901 LYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
L+ FKEN+ P++ + +++++LGL S V +F N R
Sbjct: 110 LHAIFKENKRPSKELQITISQQLGLELSTVSNFFMNAR 147
>pdb|2L43|A Chain A, Structural Basis For Histone Code Recognition By
Brpf2-Phd1 Finger
Length = 88
Score = 30.8 bits (68), Expect = 3.8, Method: Composition-based stats.
Identities = 18/56 (32%), Positives = 23/56 (41%), Gaps = 7/56 (12%)
Query: 523 EDIYCAKCGSKDLSADNDIILCDGACDRGFHQYCLEPPLLKEDIPPDDEGWLCPGC 578
ED C+ C + N I+ CD C+ HQ C P + E WLC C
Sbjct: 24 EDAVCSICMDGESQNSNVILFCD-MCNLAVHQECYGVPYIPEG------QWLCRHC 72
>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 = 30.8 bits (68), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 25/38 (65%)
Query: 901 LYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
L+ FKEN+ P++ + +++++LGL S V +F N R
Sbjct: 112 LHAIFKENKRPSKELQITISQQLGLELSTVSNFFMNAR 149
>pdb|3NAR|A Chain A, Crystal Structure Of Zhx1 Hd4 (Zinc-Fingers And Homeoboxes
Protein 1, Homeodomain 4)
pdb|3NAR|B Chain B, Crystal Structure Of Zhx1 Hd4 (Zinc-Fingers And Homeoboxes
Protein 1, Homeodomain 4)
Length = 96
Score = 30.8 bits (68), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 26/46 (56%)
Query: 896 EVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTRWSF 941
E L ++F Q+P+ + LAKE GL + + WF +TR+++
Sbjct: 35 EQLHMLKSAFVRTQWPSPEEYDKLAKESGLARTDIVSWFGDTRYAW 80
>pdb|1B72|A Chain A, Pbx1, Homeobox Protein Hox-B1DNA TERNARY COMPLEX
Length = 97
Score = 30.8 bits (68), Expect = 4.5, Method: Composition-based stats.
Identities = 28/90 (31%), Positives = 41/90 (45%), Gaps = 8/90 (8%)
Query: 850 NTPKRRGRPKLNTEDSNISPAK-SHEGCSTPGSRGRRHRTSYRKLGEEVTQKLYNSFKEN 908
NTP R + + + AK S G +P G R + R+L E L F N
Sbjct: 4 NTPTARTFDWMKVKRNPPKTAKVSEPGLGSPS--GLRTNFTTRQLTE-----LEKEFHFN 56
Query: 909 QYPNRTTKESLAKELGLTFSQVRKWFENTR 938
+Y +R + +A L L +QV+ WF+N R
Sbjct: 57 KYLSRARRVEIAATLELNETQVKIWFQNRR 86
>pdb|1E3O|C Chain C, Crystal Structure Of Oct-1 Pou Dimer Bound To More
Length = 160
Score = 30.4 bits (67), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 3/58 (5%)
Query: 881 SRGRRHRTSYRKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
SR R+ RTS + + L SF ENQ P +A++L + +R WF N R
Sbjct: 99 SRRRKKRTS---IETNIRVALEKSFMENQKPTSEDITLIAEQLNMEKEVIRVWFSNRR 153
>pdb|3A03|A Chain A, Crystal Structure Of Hox11l1 Homeodomain
Length = 56
Score = 30.4 bits (67), Expect = 5.7, Method: Composition-based stats.
Identities = 15/42 (35%), Positives = 24/42 (57%), Gaps = 2/42 (4%)
Query: 900 KLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFEN--TRW 939
+L F +Y + +LAK L +T +QV+ WF+N T+W
Sbjct: 11 ELERRFLRQKYLASAERAALAKALRMTDAQVKTWFQNRRTKW 52
>pdb|1QRY|A Chain A, Homeobox Protein Vnd (Ventral Nervous System Defective
Protein)
Length = 80
Score = 30.4 bits (67), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 31/60 (51%), Gaps = 8/60 (13%)
Query: 898 TQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTRWSFNHPSSKNAKLANSEKG 957
T +L F++ +Y + +E L + LT +QV+ WF+N R+ K A +EKG
Sbjct: 24 TYELERRFRQQRYLSAPEREHLTSLIRLTPTQVKIWFQNHRY--------KTKRAQNEKG 75
>pdb|2H1K|A Chain A, Crystal Structure Of The Pdx1 Homeodomain In Complex With
Dna
pdb|2H1K|B Chain B, Crystal Structure Of The Pdx1 Homeodomain In Complex With
Dna
Length = 63
Score = 30.4 bits (67), Expect = 5.9, Method: Composition-based stats.
Identities = 18/55 (32%), Positives = 28/55 (50%), Gaps = 3/55 (5%)
Query: 884 RRHRTSYRKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
+R RT+Y + +L F N+Y +R + LA L LT ++ WF+N R
Sbjct: 4 KRTRTAYTR---AQLLELEKEFLFNKYISRPRRVELAVMLNLTERHIKIWFQNRR 55
>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 = 30.0 bits (66), Expect = 6.4, Method: Composition-based stats.
Identities = 15/46 (32%), Positives = 22/46 (47%)
Query: 893 LGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
L E+ L + N P+ KE L + GL+ +R WF+N R
Sbjct: 10 LNEKQLHTLRTCYAANPRPDALMKEQLVEMTGLSPRVIRVWFQNKR 55
>pdb|1X2N|A Chain A, Solution Structure Of The Homeobox Domain Of Human
Homeobox Protein Pknox1
Length = 73
Score = 30.0 bits (66), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 24/59 (40%)
Query: 880 GSRGRRHRTSYRKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
GS G+ R K V + + YP K+ +A + LT QV WF N R
Sbjct: 4 GSSGKNKRGVLPKHATNVMRSWLFQHIGHPYPTEDEKKQIAAQTNLTLLQVNNWFINAR 62
>pdb|2YQL|A Chain A, Solution Structure Of The Phd Domain In Phd Finger Protein
21a
Length = 56
Score = 30.0 bits (66), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 23/38 (60%), Gaps = 5/38 (13%)
Query: 541 IILCDGACDRGFHQYCLEPPLLKEDIPPDDEGWLCPGC 578
+++CD C R +H CL+PPL + IP W+CP C
Sbjct: 21 LLMCD-TCSRVYHLDCLDPPL--KTIP--KGMWICPRC 53
>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 = 30.0 bits (66), Expect = 6.8, Method: Composition-based stats.
Identities = 15/40 (37%), Positives = 21/40 (52%), Gaps = 6/40 (15%)
Query: 540 DIILCDGACDRGFHQYCLE-PPLLKEDIPPDDEGWLCPGC 578
D + CDG CD FHQ C+ P + E +E ++C C
Sbjct: 17 DWVQCDGGCDEWFHQVCVGVSPEMAE-----NEDYICINC 51
>pdb|2VI6|A Chain A, Crystal Structure Of The Nanog Homeodomain
pdb|2VI6|B Chain B, Crystal Structure Of The Nanog Homeodomain
pdb|2VI6|C Chain C, Crystal Structure Of The Nanog Homeodomain
pdb|2VI6|D Chain D, Crystal Structure Of The Nanog Homeodomain
pdb|2VI6|E Chain E, Crystal Structure Of The Nanog Homeodomain
pdb|2VI6|F Chain F, Crystal Structure Of The Nanog Homeodomain
pdb|2VI6|G Chain G, Crystal Structure Of The Nanog Homeodomain
pdb|2VI6|H Chain H, Crystal Structure Of The Nanog Homeodomain
Length = 62
Score = 30.0 bits (66), Expect = 7.7, Method: Composition-based stats.
Identities = 12/38 (31%), Positives = 23/38 (60%)
Query: 901 LYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
L + F++ +Y + + L+ L L++ QV+ WF+N R
Sbjct: 18 LKDRFQKQKYLSLQQMQELSSILNLSYKQVKTWFQNQR 55
>pdb|1KD7|A Chain A, Crystal Structure Of An Extracellular Domain Fragment Of
Human Baff
pdb|1KD7|B Chain B, Crystal Structure Of An Extracellular Domain Fragment Of
Human Baff
pdb|1KD7|C Chain C, Crystal Structure Of An Extracellular Domain Fragment Of
Human Baff
pdb|1KD7|K Chain K, Crystal Structure Of An Extracellular Domain Fragment Of
Human Baff
pdb|1KD7|L Chain L, Crystal Structure Of An Extracellular Domain Fragment Of
Human Baff
pdb|1KD7|M Chain M, Crystal Structure Of An Extracellular Domain Fragment Of
Human Baff
Length = 164
Score = 29.6 bits (65), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 27/53 (50%), Gaps = 4/53 (7%)
Query: 244 DANKSCQAGEIS----CLQQSSSEQTPEFTPGISSHEPSVVNYKLGSQLEQTE 292
D NK Q E + CLQ + +TP G + P ++++K GS LE+ E
Sbjct: 9 DLNKELQGPEETVTQDCLQLIADSETPTIQKGSYTFVPWLLSFKRGSALEEKE 61
>pdb|1HF0|A Chain A, Crystal Structure Of The Dna-Binding Domain Of Oct-1 Bound
To Dna As A Dimer
pdb|1HF0|B Chain B, Crystal Structure Of The Dna-Binding Domain Of Oct-1 Bound
To Dna As A Dimer
pdb|1GT0|C Chain C, Crystal Structure Of A PouHMGDNA TERNARY COMPLEX
Length = 159
Score = 29.6 bits (65), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 27/58 (46%), Gaps = 3/58 (5%)
Query: 881 SRGRRHRTSYRKLGEEVTQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
SR R+ RTS + + L SF ENQ P +A +L + +R WF N R
Sbjct: 98 SRRRKKRTS---IETNIRVALEKSFLENQKPTSEEITMIADQLNMEKEVIRVWFSNRR 152
>pdb|1IG7|A Chain A, Msx-1 HomeodomainDNA COMPLEX STRUCTURE
Length = 58
Score = 29.6 bits (65), Expect = 9.1, Method: Composition-based stats.
Identities = 13/38 (34%), Positives = 21/38 (55%)
Query: 901 LYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR 938
L F++ QY + + + L LT +QV+ WF+N R
Sbjct: 15 LERKFRQKQYLSIAERAEFSSSLSLTETQVKIWFQNRR 52
>pdb|2E1O|A Chain A, Solution Structure Of Rsgi Ruh-028, A Homeobox Domain From
Human Cdna
Length = 70
Score = 29.6 bits (65), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 29/51 (56%), Gaps = 2/51 (3%)
Query: 898 TQKLYNSFKENQYPNRTTKESLAKELGLTFSQVRKWFENTR--WSFNHPSS 946
T +L F+ +Y + ++ LAK L L+ QV+ WF+N R W + PSS
Sbjct: 19 TIELEKKFETQKYLSPPERKRLAKMLQLSERQVKTWFQNRRAKWRRSGPSS 69
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
0.308 0.126 0.362
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 29,345,565
Number of Sequences: 62578
Number of extensions: 1158590
Number of successful extensions: 1902
Number of sequences better than 100.0: 127
Number of HSP's better than 100.0 without gapping: 95
Number of HSP's successfully gapped in prelim test: 32
Number of HSP's that attempted gapping in prelim test: 1788
Number of HSP's gapped (non-prelim): 129
length of query: 1063
length of database: 14,973,337
effective HSP length: 109
effective length of query: 954
effective length of database: 8,152,335
effective search space: 7777327590
effective search space used: 7777327590
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 57 (26.6 bits)