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= psy17256
(768 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2JTN|A Chain A, Nmr Solution Structure Of A Ldb1-Lid:lhx3-Lim Complex
Length = 182
Score = 76.6 bits (187), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 36/63 (57%), Positives = 46/63 (73%), Gaps = 1/63 (1%)
Query: 612 FRSFGAKCSKCCRGIASSDWVRKARDHVYHLACFACEACKRQLSTGEEFALHED-RVLCK 670
F+ FG KC+ C GI + VR+A+D VYHL CFAC CKRQL+TG+EF L ED R++CK
Sbjct: 115 FKRFGTKCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCK 174
Query: 671 SHY 673
+ Y
Sbjct: 175 ADY 177
>pdb|2RGT|A Chain A, Crystal Structure Of Lhx3 Lim Domains 1 And 2 With The
Binding Domain Of Isl1
pdb|2RGT|B Chain B, Crystal Structure Of Lhx3 Lim Domains 1 And 2 With The
Binding Domain Of Isl1
Length = 169
Score = 75.9 bits (185), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 36/63 (57%), Positives = 46/63 (73%), Gaps = 1/63 (1%)
Query: 612 FRSFGAKCSKCCRGIASSDWVRKARDHVYHLACFACEACKRQLSTGEEFALHED-RVLCK 670
F+ FG KC+ C GI + VR+A+D VYHL CFAC CKRQL+TG+EF L ED R++CK
Sbjct: 61 FKRFGTKCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCK 120
Query: 671 SHY 673
+ Y
Sbjct: 121 ADY 123
>pdb|3MMK|A Chain A, The Structural Basis For Partial Redundancy In A Class Of
Transcription Factors, The Lim-Homeodomain Proteins, In
Neural Cell Type Specification
pdb|3MMK|B Chain B, The Structural Basis For Partial Redundancy In A Class Of
Transcription Factors, The Lim-Homeodomain Proteins, In
Neural Cell Type Specification
Length = 169
Score = 75.5 bits (184), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 36/63 (57%), Positives = 45/63 (71%), Gaps = 1/63 (1%)
Query: 612 FRSFGAKCSKCCRGIASSDWVRKARDHVYHLACFACEACKRQLSTGEEFALHED-RVLCK 670
F+ FG KC+ C +GI + VRKA+D VYHL CFAC C RQL+TG+EF L ED R++CK
Sbjct: 61 FKRFGTKCTACQQGIPPTQVVRKAQDFVYHLHCFACIICNRQLATGDEFYLMEDGRLVCK 120
Query: 671 SHY 673
Y
Sbjct: 121 EDY 123
>pdb|2DMQ|A Chain A, Solution Structure Of The Homeobox Domain Of LimHOMEOBOX
Protein Lhx9
Length = 80
Score = 73.2 bits (178), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 31/62 (50%), Positives = 49/62 (79%)
Query: 697 SKAKRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 756
S KR+RT+F QL+ +++ F ++ NPD +DL+++AQ TGL+KRV QVWFQN+RA+ ++
Sbjct: 5 SSGKRMRTSFKHHQLRTMKSYFAINHNPDAKDLKQLAQKTGLTKRVLQVWFQNARAKFRR 64
Query: 757 HL 758
+L
Sbjct: 65 NL 66
Score = 70.1 bits (170), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 29/58 (50%), Positives = 47/58 (81%)
Query: 62 RVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKKHL 119
R+RT+F QL+ +++ F ++ NPD +DL+++AQ TGL+KRV QVWFQN+RA+ +++L
Sbjct: 9 RMRTSFKHHQLRTMKSYFAINHNPDAKDLKQLAQKTGLTKRVLQVWFQNARAKFRRNL 66
>pdb|2DA3|A Chain A, Solution Structure Of The Third Homeobox Domain Of At-
Binding Transcription Factor 1 (Atbf1)
Length = 80
Score = 70.1 bits (170), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 33/59 (55%), Positives = 43/59 (72%)
Query: 698 KAKRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 756
+ KR+RTT T EQL++L + LDSNP + L+ IA GL KRV QVWFQN+RAR++K
Sbjct: 16 RDKRLRTTITPEQLEILYQKYLLDSNPTRKMLDHIAHEVGLKKRVVQVWFQNTRARERK 74
Score = 68.2 bits (165), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 32/56 (57%), Positives = 41/56 (73%)
Query: 62 RVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 117
R+RTT T EQL++L + LDSNP + L+ IA GL KRV QVWFQN+RAR++K
Sbjct: 19 RLRTTITPEQLEILYQKYLLDSNPTRKMLDHIAHEVGLKKRVVQVWFQNTRARERK 74
>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 = 56.6 bits (135), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 26/60 (43%), Positives = 36/60 (60%)
Query: 698 KAKRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKKH 757
K RVRT E+QL L+ + + PD E++ ++TGLS RV +VWFQN R + KK
Sbjct: 2 KTTRVRTVLNEKQLHTLRTCYAANPRPDALMKEQLVEMTGLSPRVIRVWFQNKRCKDKKR 61
Score = 55.5 bits (132), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 25/57 (43%), Positives = 35/57 (61%)
Query: 62 RVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKKH 118
RVRT E+QL L+ + + PD E++ ++TGLS RV +VWFQN R + KK
Sbjct: 5 RVRTVLNEKQLHTLRTCYAANPRPDALMKEQLVEMTGLSPRVIRVWFQNKRCKDKKR 61
>pdb|2M0C|A Chain A, Solution Nmr Structure Of Homeobox Domain Of Human Alx4,
Northeast Structural Genomics Consortium (Nesg) Target
Hr4490c
Length = 75
Score = 52.8 bits (125), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 30/69 (43%), Positives = 41/69 (59%)
Query: 696 KSKAKRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQK 755
K K +R RTTFT QL+ L+ FQ PD E++A T L++ QVWFQN RA+ +
Sbjct: 6 KGKKRRNRTTFTSYQLEELEKVFQKTHYPDVYAREQLAMRTDLTEARVQVWFQNRRAKWR 65
Query: 756 KHLHTGKMK 764
K G+M+
Sbjct: 66 KRERFGQMQ 74
Score = 49.3 bits (116), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 28/64 (43%), Positives = 38/64 (59%)
Query: 62 RVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKKHLHT 121
R RTTFT QL+ L+ FQ PD E++A T L++ QVWFQN RA+ +K
Sbjct: 11 RNRTTFTSYQLEELEKVFQKTHYPDVYAREQLAMRTDLTEARVQVWFQNRRAKWRKRERF 70
Query: 122 GKMK 125
G+M+
Sbjct: 71 GQMQ 74
>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 = 52.0 bits (123), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 30/66 (45%), Positives = 38/66 (57%), Gaps = 1/66 (1%)
Query: 696 KSKAKRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQK 755
K K +R RTTF+ QL L+ F+ PD E +AQ T L++ QVWFQN RAR +
Sbjct: 15 KRKQRRSRTTFSASQLDELERAFERTQYPDIYTREELAQRTNLTEARIQVWFQNRRARLR 74
Query: 756 KHLHTG 761
K HT
Sbjct: 75 KQ-HTS 79
Score = 48.5 bits (114), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 28/61 (45%), Positives = 35/61 (57%), Gaps = 1/61 (1%)
Query: 62 RVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKKHLHT 121
R RTTF+ QL L+ F+ PD E +AQ T L++ QVWFQN RAR +K HT
Sbjct: 20 RSRTTFSASQLDELERAFERTQYPDIYTREELAQRTNLTEARIQVWFQNRRARLRKQ-HT 78
Query: 122 G 122
Sbjct: 79 S 79
>pdb|2L6Y|B Chain B, Haddock Model Of Gata1nf:lmo2lim2-Ldb1lid
pdb|2L6Z|C Chain C, Haddock Model Of Gata1nf:lmo2lim2-Ldb1lid With Fog
Length = 96
Score = 50.4 bits (119), Expect = 3e-06, Method: Composition-based stats.
Identities = 21/66 (31%), Positives = 34/66 (51%), Gaps = 2/66 (3%)
Query: 612 FRSFGAK--CSKCCRGIASSDWVRKARDHVYHLACFACEACKRQLSTGEEFALHEDRVLC 669
R FG C+ C + I + + + +D VYHL CF C AC++ S G+ + L ++C
Sbjct: 2 LRLFGQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFSVGDRYLLINSDIVC 61
Query: 670 KSHYLE 675
+ E
Sbjct: 62 EQDIYE 67
>pdb|2LXD|A Chain A, Backbone 1h, 13c, And 15n Chemical Shift Assignments For
Lmo2(Lim2)- Ldb1(Lid)
Length = 125
Score = 50.4 bits (119), Expect = 4e-06, Method: Composition-based stats.
Identities = 21/66 (31%), Positives = 34/66 (51%), Gaps = 2/66 (3%)
Query: 612 FRSFGAK--CSKCCRGIASSDWVRKARDHVYHLACFACEACKRQLSTGEEFALHEDRVLC 669
R FG C+ C + I + + + +D VYHL CF C AC++ S G+ + L ++C
Sbjct: 4 LRLFGQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFSVGDRYLLINSDIVC 63
Query: 670 KSHYLE 675
+ E
Sbjct: 64 EQDIYE 69
>pdb|1RUT|X Chain X, Complex Of Lmo4 Lim Domains 1 And 2 With The Ldb1 Lid
Domain
Length = 188
Score = 50.4 bits (119), Expect = 4e-06, Method: Composition-based stats.
Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 2/60 (3%)
Query: 613 RSFG--AKCSKCCRGIASSDWVRKARDHVYHLACFACEACKRQLSTGEEFALHEDRVLCK 670
R FG CS C + I +S+ V +A+ +VYHL CF C C+ +L G+ F + C+
Sbjct: 64 RLFGNSGACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCE 123
Score = 32.0 bits (71), Expect = 1.2, Method: Composition-based stats.
Identities = 17/60 (28%), Positives = 28/60 (46%), Gaps = 2/60 (3%)
Query: 618 KCSKCCRGIASSDWVRKARDHVYHLACFACEACKRQL-STGEEFALHEDRVLCKSHYLEL 676
+C+ C IA ++ A D +H C C +C+ QL G +LC++ Y+ L
Sbjct: 7 RCAGCGGKIADR-FLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRL 65
>pdb|2DFY|X Chain X, Crystal Structure Of A Cyclized Protein Fusion Of Lmo4 Lim
Domains 1 And 2 With The Lim Interacting Domain Of Ldb1
pdb|2DFY|C Chain C, Crystal Structure Of A Cyclized Protein Fusion Of Lmo4 Lim
Domains 1 And 2 With The Lim Interacting Domain Of Ldb1
Length = 195
Score = 50.1 bits (118), Expect = 4e-06, Method: Composition-based stats.
Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 2/60 (3%)
Query: 613 RSFG--AKCSKCCRGIASSDWVRKARDHVYHLACFACEACKRQLSTGEEFALHEDRVLCK 670
R FG CS C + I +S+ V +A+ +VYHL CF C C+ +L G+ F + C+
Sbjct: 62 RLFGNSGACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCE 121
Score = 32.0 bits (71), Expect = 1.2, Method: Composition-based stats.
Identities = 17/60 (28%), Positives = 28/60 (46%), Gaps = 2/60 (3%)
Query: 618 KCSKCCRGIASSDWVRKARDHVYHLACFACEACKRQL-STGEEFALHEDRVLCKSHYLEL 676
+C+ C IA ++ A D +H C C +C+ QL G +LC++ Y+ L
Sbjct: 5 RCAGCGGKIADR-FLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRL 63
>pdb|2L7M|P Chain P, Solution Structure Of The Pitx2 Homeodomain R24h Mutant
Length = 68
Score = 49.7 bits (117), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 26/57 (45%), Positives = 36/57 (63%)
Query: 700 KRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 756
+R RT FT +QLQ L+A FQ + PD E IA T L++ +VWF+N RA+ +K
Sbjct: 4 RRQRTHFTSQQLQELEATFQRNHYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRK 60
Score = 48.9 bits (115), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 26/56 (46%), Positives = 35/56 (62%)
Query: 62 RVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 117
R RT FT +QLQ L+A FQ + PD E IA T L++ +VWF+N RA+ +K
Sbjct: 5 RQRTHFTSQQLQELEATFQRNHYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRK 60
Score = 30.8 bits (68), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 14/26 (53%), Positives = 18/26 (69%)
Query: 14 KRVRTTFTEEQLQVLQANFQLDSNPD 39
+R RT FT +QLQ L+A FQ + PD
Sbjct: 4 RRQRTHFTSQQLQELEATFQRNHYPD 29
>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 = 49.7 bits (117), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 26/58 (44%), Positives = 36/58 (62%)
Query: 700 KRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKKH 757
+R RT FT +QLQ L+A FQ + PD E IA T L++ +VWF+N RA+ +K
Sbjct: 4 RRQRTHFTSQQLQELEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRKR 61
Score = 48.9 bits (115), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 26/57 (45%), Positives = 35/57 (61%)
Query: 62 RVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKKH 118
R RT FT +QLQ L+A FQ + PD E IA T L++ +VWF+N RA+ +K
Sbjct: 5 RQRTHFTSQQLQELEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRKR 61
Score = 30.8 bits (68), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 14/26 (53%), Positives = 18/26 (69%)
Query: 14 KRVRTTFTEEQLQVLQANFQLDSNPD 39
+R RT FT +QLQ L+A FQ + PD
Sbjct: 4 RRQRTHFTSQQLQELEATFQRNRYPD 29
>pdb|3CMY|A Chain A, Structure Of A Homeodomain In Complex With Dna
Length = 61
Score = 48.5 bits (114), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 26/58 (44%), Positives = 34/58 (58%)
Query: 700 KRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKKH 757
+R RTTFT EQL+ L+ F+ PD E +AQ L++ QVWF N RAR +K
Sbjct: 3 RRSRTTFTAEQLEELERAFERTHYPDIYTREELAQRAKLTEARVQVWFSNRRARWRKQ 60
Score = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 26/57 (45%), Positives = 33/57 (57%)
Query: 62 RVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKKH 118
R RTTFT EQL+ L+ F+ PD E +AQ L++ QVWF N RAR +K
Sbjct: 4 RSRTTFTAEQLEELERAFERTHYPDIYTREELAQRAKLTEARVQVWFSNRRARWRKQ 60
>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 = 48.5 bits (114), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 27/62 (43%), Positives = 35/62 (56%)
Query: 696 KSKAKRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQK 755
K K +R RTTFT QL+ L+ F PD E +A GL++ QVWFQN RA+ +
Sbjct: 3 KRKQRRYRTTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQVWFQNRRAKWR 62
Query: 756 KH 757
K
Sbjct: 63 KQ 64
Score = 45.4 bits (106), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 25/57 (43%), Positives = 32/57 (56%)
Query: 62 RVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKKH 118
R RTTFT QL+ L+ F PD E +A GL++ QVWFQN RA+ +K
Sbjct: 8 RYRTTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQVWFQNRRAKWRKQ 64
>pdb|2XJY|A Chain A, Crystal Structure Of The Lmo2:ldb1-Lid Complex, P21
Crystal Form
pdb|2XJZ|A Chain A, Crystal Structure Of The Lmo2:ldb1-Lid Complex, C2 Crystal
Form
pdb|2XJZ|B Chain B, Crystal Structure Of The Lmo2:ldb1-Lid Complex, C2 Crystal
Form
pdb|2XJZ|C Chain C, Crystal Structure Of The Lmo2:ldb1-Lid Complex, C2 Crystal
Form
pdb|2XJZ|D Chain D, Crystal Structure Of The Lmo2:ldb1-Lid Complex, C2 Crystal
Form
pdb|2XJZ|E Chain E, Crystal Structure Of The Lmo2:ldb1-Lid Complex, C2 Crystal
Form
Length = 131
Score = 47.8 bits (112), Expect = 2e-05, Method: Composition-based stats.
Identities = 20/66 (30%), Positives = 33/66 (50%), Gaps = 2/66 (3%)
Query: 612 FRSFGAK--CSKCCRGIASSDWVRKARDHVYHLACFACEACKRQLSTGEEFALHEDRVLC 669
R FG C+ C + I + + + +D VYHL CF C AC++ G+ + L ++C
Sbjct: 60 LRLFGQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVC 119
Query: 670 KSHYLE 675
+ E
Sbjct: 120 EQDIYE 125
>pdb|2DA2|A Chain A, Solution Structure Of The Second Homeobox Domain Of At-
Binding Transcription Factor 1 (Atbf1)
Length = 70
Score = 46.2 bits (108), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 21/53 (39%), Positives = 33/53 (62%)
Query: 65 TTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 117
T FT+ QL+VLQ F ++ P + E+++ + L RV VWFQN+R + +K
Sbjct: 12 TRFTDYQLRVLQDFFDANAYPKDDEFEQLSNLLNLPTRVIVVWFQNARQKARK 64
Score = 46.2 bits (108), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 21/53 (39%), Positives = 33/53 (62%)
Query: 704 TTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 756
T FT+ QL+VLQ F ++ P + E+++ + L RV VWFQN+R + +K
Sbjct: 12 TRFTDYQLRVLQDFFDANAYPKDDEFEQLSNLLNLPTRVIVVWFQNARQKARK 64
>pdb|3LNQ|A Chain A, Structure Of Aristaless Homeodomain In Complex With Dna
Length = 58
Score = 45.8 bits (107), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 25/57 (43%), Positives = 32/57 (56%)
Query: 62 RVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKKH 118
R RTTFT QL+ L+ F PD E +A GL++ QVWFQN RA+ +K
Sbjct: 1 RYRTTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQVWFQNRRAKWRKQ 57
Score = 45.8 bits (107), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 25/57 (43%), Positives = 32/57 (56%)
Query: 701 RVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKKH 757
R RTTFT QL+ L+ F PD E +A GL++ QVWFQN RA+ +K
Sbjct: 1 RYRTTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQVWFQNRRAKWRKQ 57
>pdb|2K40|A Chain A, Nmr Structure Of Hesx-1 Homeodomain Double Mutant R31lE42L
Length = 67
Score = 45.8 bits (107), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 23/58 (39%), Positives = 35/58 (60%)
Query: 699 AKRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 756
+R RT FT+ Q++VL+ F+++ P LE +AQ L Q+WFQN RA+ K+
Sbjct: 1 GRRPRTAFTQNQIEVLENVFRVNCYPGIDILEDLAQKLNLELDRIQIWFQNRRAKLKR 58
Score = 44.7 bits (104), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/56 (41%), Positives = 34/56 (60%)
Query: 62 RVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 117
R RT FT+ Q++VL+ F+++ P LE +AQ L Q+WFQN RA+ K+
Sbjct: 3 RPRTAFTQNQIEVLENVFRVNCYPGIDILEDLAQKLNLELDRIQIWFQNRRAKLKR 58
>pdb|2DMU|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
Protein Goosecoid
Length = 70
Score = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/60 (38%), Positives = 36/60 (60%)
Query: 697 SKAKRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 756
S +R RT FT+EQL+ L+ FQ PD E++A+ L + +VWF+N RA+ ++
Sbjct: 5 SSGRRHRTIFTDEQLEALENLFQETKYPDVGTREQLARKVHLREEKVEVWFKNRRAKWRR 64
Score = 43.1 bits (100), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 22/56 (39%), Positives = 34/56 (60%)
Query: 62 RVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 117
R RT FT+EQL+ L+ FQ PD E++A+ L + +VWF+N RA+ ++
Sbjct: 9 RHRTIFTDEQLEALENLFQETKYPDVGTREQLARKVHLREEKVEVWFKNRRAKWRR 64
Score = 31.2 bits (69), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 15/31 (48%), Positives = 19/31 (61%)
Query: 9 SKSKAKRVRTTFTEEQLQVLQANFQLDSNPD 39
S S +R RT FT+EQL+ L+ FQ PD
Sbjct: 3 SGSSGRRHRTIFTDEQLEALENLFQETKYPD 33
>pdb|2DA1|A Chain A, Solution Structure Of The First Homeobox Domain Of At-
Binding Transcription Factor 1 (Atbf1)
Length = 70
Score = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 37/54 (68%)
Query: 697 SKAKRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNS 750
S KR RT T++QL+VL+ F ++++P + ++ +A +GL ++V + WF+N+
Sbjct: 5 SSGKRPRTRITDDQLRVLRQYFDINNSPSEEQIKEMADKSGLPQKVIKHWFRNT 58
Score = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 35/50 (70%)
Query: 62 RVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNS 111
R RT T++QL+VL+ F ++++P + ++ +A +GL ++V + WF+N+
Sbjct: 9 RPRTRITDDQLRVLRQYFDINNSPSEEQIKEMADKSGLPQKVIKHWFRNT 58
>pdb|2CUE|A Chain A, Solution Structure Of The Homeobox Domain Of The Human
Paired Box Protein Pax-6
Length = 80
Score = 44.7 bits (104), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/61 (37%), Positives = 35/61 (57%)
Query: 697 SKAKRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 756
S +R RT+FT+EQ++ L+ F+ PD ER+A L + QVWF N RA+ ++
Sbjct: 5 SSGQRNRTSFTQEQIEALEKEFERTHYPDVFARERLAAKIDLPEARIQVWFSNRRAKWRR 64
Query: 757 H 757
Sbjct: 65 E 65
Score = 43.1 bits (100), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 22/57 (38%), Positives = 33/57 (57%)
Query: 62 RVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKKH 118
R RT+FT+EQ++ L+ F+ PD ER+A L + QVWF N RA+ ++
Sbjct: 9 RNRTSFTQEQIEALEKEFERTHYPDVFARERLAAKIDLPEARIQVWFSNRRAKWRRE 65
Score = 31.6 bits (70), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 21/34 (61%)
Query: 9 SKSKAKRVRTTFTEEQLQVLQANFQLDSNPDGFG 42
S S +R RT+FT+EQ++ L+ F+ PD F
Sbjct: 3 SGSSGQRNRTSFTQEQIEALEKEFERTHYPDVFA 36
>pdb|2DMS|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
Protein Otx2
Length = 80
Score = 43.5 bits (101), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 25/57 (43%), Positives = 31/57 (54%)
Query: 697 SKAKRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRAR 753
S +R RTTFT QL VL+A F PD E +A L + QVWF+N RA+
Sbjct: 5 SSGRRERTTFTRAQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQVWFKNRRAK 61
Score = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 24/53 (45%), Positives = 29/53 (54%)
Query: 62 RVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRAR 114
R RTTFT QL VL+A F PD E +A L + QVWF+N RA+
Sbjct: 9 RERTTFTRAQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQVWFKNRRAK 61
Score = 32.0 bits (71), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 17/33 (51%), Positives = 19/33 (57%)
Query: 9 SKSKAKRVRTTFTEEQLQVLQANFQLDSNPDGF 41
S S +R RTTFT QL VL+A F PD F
Sbjct: 3 SGSSGRRERTTFTRAQLDVLEALFAKTRYPDIF 35
>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 = 41.6 bits (96), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 32/55 (58%)
Query: 697 SKAKRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSR 751
SK ++ RT+FT + ++ L A F+ + P GQ++ A+ + V +VWF N R
Sbjct: 91 SKKRKRRTSFTPQAIEALNAYFEKNPLPTGQEITEXAKELNYDREVVRVWFSNRR 145
Score = 38.5 bits (88), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 28/49 (57%)
Query: 64 RTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSR 112
RT+FT + ++ L A F+ + P GQ++ A+ + V +VWF N R
Sbjct: 97 RTSFTPQAIEALNAYFEKNPLPTGQEITEXAKELNYDREVVRVWFSNRR 145
>pdb|3A02|A Chain A, Crystal Structure Of Aristaless Homeodomain
Length = 60
Score = 40.8 bits (94), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 22/52 (42%), Positives = 29/52 (55%)
Query: 66 TFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 117
TFT QL+ L+ F PD E +A GL++ QVWFQN RA+ +K
Sbjct: 5 TFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQVWFQNRRAKWRK 56
Score = 40.8 bits (94), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 22/52 (42%), Positives = 29/52 (55%)
Query: 705 TFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 756
TFT QL+ L+ F PD E +A GL++ QVWFQN RA+ +K
Sbjct: 5 TFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQVWFQNRRAKWRK 56
>pdb|2DMT|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
Protein Barh-Like 1
Length = 80
Score = 40.4 bits (93), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 26/62 (41%), Positives = 34/62 (54%), Gaps = 6/62 (9%)
Query: 698 KAKRVRTTFTEEQLQVLQANFQLD---SNPDGQDLERIAQITGLSKRVTQVWFQNSRARQ 754
K +R RT FTE QL L+ F+ S PD DL A+ GLS+ + W+QN R +
Sbjct: 16 KGRRSRTVFTELQLMGLEKRFEKQKYLSTPDRIDL---AESLGLSQLQVKTWYQNRRMKW 72
Query: 755 KK 756
KK
Sbjct: 73 KK 74
Score = 38.1 bits (87), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 25/59 (42%), Positives = 32/59 (54%), Gaps = 6/59 (10%)
Query: 62 RVRTTFTEEQLQVLQANFQLD---SNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 117
R RT FTE QL L+ F+ S PD DL A+ GLS+ + W+QN R + KK
Sbjct: 19 RSRTVFTELQLMGLEKRFEKQKYLSTPDRIDL---AESLGLSQLQVKTWYQNRRMKWKK 74
>pdb|1X3H|A Chain A, Solution Structure Of The Lim Domain Of Human Leupaxin
Length = 80
Score = 40.4 bits (93), Expect = 0.004, Method: Composition-based stats.
Identities = 22/59 (37%), Positives = 27/59 (45%), Gaps = 3/59 (5%)
Query: 615 FGAKCSKCCRGIASSDWVRKARDHVYHLACFACEACKRQLSTGEEFALHEDRVLCKSHY 673
F KC C R + + A D V+H CF C C STG F L + R C+ HY
Sbjct: 14 FSPKCGGCNRPVLEN--YLSAMDTVWHPECFVCGDCFTSFSTGSFFEL-DGRPFCELHY 69
>pdb|2M34|A Chain A, Nmr Structure Of The Homeodomain Transcription Factor Gbx1
From Homo Sapiens
Length = 71
Score = 40.0 bits (92), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 32/59 (54%)
Query: 698 KAKRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 756
K++R RT FT EQL L+ F + +IA LS+ ++WFQN RA+ K+
Sbjct: 6 KSRRRRTAFTSEQLLELEKEFHCKKYLSLTERSQIAHALKLSEVQVKIWFQNRRAKWKR 64
Score = 37.7 bits (86), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 21/56 (37%), Positives = 29/56 (51%)
Query: 62 RVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 117
R RT FT EQL L+ F + +IA LS+ ++WFQN RA+ K+
Sbjct: 9 RRRTAFTSEQLLELEKEFHCKKYLSLTERSQIAHALKLSEVQVKIWFQNRRAKWKR 64
>pdb|2D8Y|A Chain A, Solution Structure Of The Lim Domain Of Epithelial Protein
Lost In Neoplasm
Length = 91
Score = 40.0 bits (92), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 635 ARDHVYHLACFACEACKRQLSTGEEFALHEDRVLCKSHYLELV 677
A V+H++CF C C +LS G +LH R+ CK H+ +L
Sbjct: 33 ANQQVFHISCFRCSYCNNKLSLGTYASLH-GRIYCKPHFNQLF 74
>pdb|1AU7|A Chain A, Pit-1 MutantDNA COMPLEX
pdb|1AU7|B Chain B, Pit-1 MutantDNA COMPLEX
Length = 146
Score = 40.0 bits (92), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 33/59 (55%)
Query: 698 KAKRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 756
+ ++ RTT + L+ +F S P Q++ R+A+ L K V +VWF N R R+K+
Sbjct: 86 RKRKRRTTISIAAKDALERHFGEHSKPSSQEIMRMAEELNLEKEVVRVWFCNRRQREKR 144
Score = 39.7 bits (91), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 20/54 (37%), Positives = 30/54 (55%)
Query: 64 RTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 117
RTT + L+ +F S P Q++ R+A+ L K V +VWF N R R+K+
Sbjct: 91 RTTISIAAKDALERHFGEHSKPSSQEIMRMAEELNLEKEVVRVWFCNRRQREKR 144
>pdb|1X63|A Chain A, Solution Structure Of The Second Lim Domain Of Skeletal
Muscle Lim Protein 1
Length = 82
Score = 38.9 bits (89), Expect = 0.010, Method: Composition-based stats.
Identities = 18/53 (33%), Positives = 25/53 (47%)
Query: 613 RSFGAKCSKCCRGIASSDWVRKARDHVYHLACFACEACKRQLSTGEEFALHED 665
R KC C + I + D + + V+H CF C CK+ + TG F ED
Sbjct: 12 REDSPKCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFPKGED 64
>pdb|1A7I|A Chain A, Amino-Terminal Lim Domain From Quail Cysteine And Glycine-
Rich Protein, Nmr, Minimized Average Structure
Length = 81
Score = 38.9 bits (89), Expect = 0.010, Method: Composition-based stats.
Identities = 19/58 (32%), Positives = 29/58 (50%), Gaps = 2/58 (3%)
Query: 616 GAKCSKCCRGIASSDWVRKARDHVYHLACFACEACKRQLSTGEEFALHEDRVLCKSHY 673
G KC C R + ++ V + +H CF C C++ L + A+H+ V CKS Y
Sbjct: 7 GNKCGACGRTVYHAEEV-QCDGRSFHRCCFLCMVCRKNLDS-TTVAIHDAEVYCKSCY 62
>pdb|1E3O|C Chain C, Crystal Structure Of Oct-1 Pou Dimer Bound To More
Length = 160
Score = 38.5 bits (88), Expect = 0.014, Method: Composition-based stats.
Identities = 17/60 (28%), Positives = 32/60 (53%)
Query: 697 SKAKRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 756
S+ ++ RT+ L+ +F + P +D+ IA+ + K V +VWF N R ++K+
Sbjct: 99 SRRRKKRTSIETNIRVALEKSFMENQKPTSEDITLIAEQLNMEKEVIRVWFSNRRQKEKR 158
Score = 37.0 bits (84), Expect = 0.045, Method: Composition-based stats.
Identities = 18/57 (31%), Positives = 32/57 (56%), Gaps = 1/57 (1%)
Query: 62 RVRTTFTEEQLQV-LQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 117
R + T E ++V L+ +F + P +D+ IA+ + K V +VWF N R ++K+
Sbjct: 102 RKKRTSIETNIRVALEKSFMENQKPTSEDITLIAEQLNMEKEVIRVWFSNRRQKEKR 158
>pdb|2DN0|A Chain A, Solution Structure Of The Second Homeobox Domain Of Human
Zinc Fingers And Homeoboxes Protein 3
Length = 76
Score = 38.5 bits (88), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 34/67 (50%), Gaps = 6/67 (8%)
Query: 68 TEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKKHLHTGKMKSS 127
+ EQL L+ +F + P ++E + ++TGLS R + WF + R H +K S
Sbjct: 16 SHEQLSALKGSFCRNQFPGQSEVEHLTKVTGLSTREVRKWFSDRR------YHCRNLKGS 69
Query: 128 QNRPKYG 134
++ P G
Sbjct: 70 RSGPSSG 76
Score = 36.2 bits (82), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 26/45 (57%)
Query: 707 TEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSR 751
+ EQL L+ +F + P ++E + ++TGLS R + WF + R
Sbjct: 16 SHEQLSALKGSFCRNQFPGQSEVEHLTKVTGLSTREVRKWFSDRR 60
>pdb|1X61|A Chain A, Solution Structure Of The First Lim Domain Of Thyroid
Receptor Interacting Protein 6 (Trip6)
Length = 72
Score = 38.1 bits (87), Expect = 0.017, Method: Composition-based stats.
Identities = 16/40 (40%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 635 ARDHVYHLACFACEACKRQLSTGEEFALHEDRVLCKSHYL 674
A D V+H+ CF C C+ QL G+ F E R C+ Y+
Sbjct: 24 ALDRVFHVGCFVCSTCRAQLR-GQHFYAVERRAYCEGCYV 62
>pdb|2KT0|A Chain A, Solution Structure Of Human Stem Cell Transcription Factor
Nanog Homeodomain Fragment
Length = 84
Score = 38.1 bits (87), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 31/59 (52%)
Query: 698 KAKRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 756
K ++ RT F+ QL VL FQ Q ++ ++ I LS + + WFQN R + K+
Sbjct: 21 KKQKTRTVFSSTQLCVLNDRFQRQKYLSLQQMQELSNILNLSYKQVKTWFQNQRMKSKR 79
Score = 36.6 bits (83), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 29/56 (51%)
Query: 62 RVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 117
+ RT F+ QL VL FQ Q ++ ++ I LS + + WFQN R + K+
Sbjct: 24 KTRTVFSSTQLCVLNDRFQRQKYLSLQQMQELSNILNLSYKQVKTWFQNQRMKSKR 79
>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 = 37.4 bits (85), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 29/47 (61%)
Query: 68 TEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRAR 114
T+EQ+ L+A+F PD ++ R+ ++TGL++ + WF + R R
Sbjct: 12 TKEQIAHLKASFLQSQFPDDAEVYRLIEVTGLARSEIKKWFSDHRYR 58
Score = 37.4 bits (85), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 29/47 (61%)
Query: 707 TEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRAR 753
T+EQ+ L+A+F PD ++ R+ ++TGL++ + WF + R R
Sbjct: 12 TKEQIAHLKASFLQSQFPDDAEVYRLIEVTGLARSEIKKWFSDHRYR 58
>pdb|1UHS|A Chain A, Solution Structure Of Mouse Homeodomain-Only Protein Hop
Length = 72
Score = 37.0 bits (84), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 33/53 (62%), Gaps = 1/53 (1%)
Query: 66 TFTEEQLQVLQANF-QLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 117
T TE+Q+++L+ NF +++ +PD L IA GL++ TQ WF+ A ++
Sbjct: 7 TMTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQKWFKQRLAEWRR 59
Score = 37.0 bits (84), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 33/53 (62%), Gaps = 1/53 (1%)
Query: 705 TFTEEQLQVLQANF-QLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 756
T TE+Q+++L+ NF +++ +PD L IA GL++ TQ WF+ A ++
Sbjct: 7 TMTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQKWFKQRLAEWRR 59
>pdb|2L7Z|A Chain A, Nmr Structure Of A13 Homedomain
Length = 73
Score = 37.0 bits (84), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 33/63 (52%)
Query: 64 RTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKKHLHTGK 123
R +T+ QL+ L+ + + RI+ T LS+R +WFQN R ++KK ++ K
Sbjct: 11 RVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQVTIWFQNRRVKEKKVINKLK 70
Query: 124 MKS 126
S
Sbjct: 71 TTS 73
Score = 37.0 bits (84), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 33/63 (52%)
Query: 703 RTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKKHLHTGK 762
R +T+ QL+ L+ + + RI+ T LS+R +WFQN R ++KK ++ K
Sbjct: 11 RVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQVTIWFQNRRVKEKKVINKLK 70
Query: 763 MKS 765
S
Sbjct: 71 TTS 73
>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 = 36.6 bits (83), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 32/54 (59%)
Query: 63 VRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQK 116
+R T+EQL L+ ++ + P ++ R+ +ITGL+K + WF ++R Q+
Sbjct: 9 IRAKKTKEQLAELKVSYLKNQFPHDSEIIRLMKITGLTKGEIKKWFSDTRYNQR 62
Score = 36.6 bits (83), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 32/54 (59%)
Query: 702 VRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQK 755
+R T+EQL L+ ++ + P ++ R+ +ITGL+K + WF ++R Q+
Sbjct: 9 IRAKKTKEQLAELKVSYLKNQFPHDSEIIRLMKITGLTKGEIKKWFSDTRYNQR 62
>pdb|2O10|A Chain A, Solution Structure Of The N-Terminal Lim Domain Of MlpCRP3
Length = 60
Score = 36.6 bits (83), Expect = 0.048, Method: Composition-based stats.
Identities = 18/58 (31%), Positives = 29/58 (50%), Gaps = 2/58 (3%)
Query: 616 GAKCSKCCRGIASSDWVRKARDHVYHLACFACEACKRQLSTGEEFALHEDRVLCKSHY 673
GAKC C + + ++ + + +H CF C AC++ L + A HE + CK Y
Sbjct: 1 GAKCGACEKTVYHAEEI-QCNGRSFHKTCFHCMACRKALDS-TTVAAHESEIYCKVCY 56
>pdb|2LD5|A Chain A, Solution Nmr-Derived Complex Structure Of Hoxa13 Dna
Binding Domain Bound To Dna
Length = 67
Score = 36.6 bits (83), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 33/63 (52%)
Query: 64 RTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKKHLHTGK 123
R +T+ QL+ L+ + + RI+ T LS+R +WFQN R ++KK ++ K
Sbjct: 5 RVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQVTIWFQNRRVKEKKVINKLK 64
Query: 124 MKS 126
S
Sbjct: 65 TTS 67
Score = 36.6 bits (83), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 33/63 (52%)
Query: 703 RTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKKHLHTGK 762
R +T+ QL+ L+ + + RI+ T LS+R +WFQN R ++KK ++ K
Sbjct: 5 RVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQVTIWFQNRRVKEKKVINKLK 64
Query: 763 MKS 765
S
Sbjct: 65 TTS 67
>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 = 0.054, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 34/57 (59%)
Query: 700 KRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 756
KR RT F+ EQL L+ F + + ++++ GL++ ++WFQN+RA+ KK
Sbjct: 2 KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNARAKIKK 58
Score = 35.0 bits (79), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 33/56 (58%)
Query: 62 RVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 117
R RT F+ EQL L+ F + + ++++ GL++ ++WFQN+RA+ KK
Sbjct: 3 RPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNARAKIKK 58
>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 = 36.6 bits (83), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 32/57 (56%)
Query: 700 KRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 756
+++RT F++ QL L+ FQ Q ++ ++ I LS + + WFQN R + K+
Sbjct: 4 QKMRTVFSQAQLCALKDRFQKQKYLSLQQMQELSSILNLSYKQVKTWFQNQRMKCKR 60
Score = 36.6 bits (83), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 31/56 (55%)
Query: 62 RVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 117
++RT F++ QL L+ FQ Q ++ ++ I LS + + WFQN R + K+
Sbjct: 5 KMRTVFSQAQLCALKDRFQKQKYLSLQQMQELSSILNLSYKQVKTWFQNQRMKCKR 60
>pdb|1X64|A Chain A, Solution Structure Of The Lim Domain Of Alpha-Actinin-2
Associated Lim Protein
Length = 89
Score = 36.2 bits (82), Expect = 0.067, Method: Composition-based stats.
Identities = 20/54 (37%), Positives = 25/54 (46%), Gaps = 3/54 (5%)
Query: 619 CSKCCRGIASSDWVRKARDHVYHLACFACEACKRQLSTGEEFALHEDRVLCKSH 672
C KC GI + V KARD H CF C C L F + E + C++H
Sbjct: 28 CDKCGSGIVGA--VVKARDKYRHPECFVCADCNLNLKQKGYFFV-EGELYCETH 78
>pdb|2CUR|A Chain A, Solution Structure Of Skeletal Muscle Lim-Protein 1
Length = 69
Score = 36.2 bits (82), Expect = 0.071, Method: Composition-based stats.
Identities = 20/64 (31%), Positives = 29/64 (45%), Gaps = 3/64 (4%)
Query: 614 SFGAKCSKCCRGIASSDWVRKARDHVYHLACFACEACKRQLSTGEEFALHEDRVLCKSHY 673
S + C KC + I S + D +H CF C C ++L+ G+ F ED+ C Y
Sbjct: 3 SGSSGCVKCNKAITSGGITYQ--DQPWHADCFVCVTCSKKLA-GQRFTAVEDQYYCVDCY 59
Query: 674 LELV 677
V
Sbjct: 60 KNFV 63
>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 = 0.087, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 33/57 (57%)
Query: 700 KRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 756
KR RT F+ EQL L+ F + + ++++ GL++ ++WFQN RA+ KK
Sbjct: 2 KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNERAKIKK 58
Score = 34.3 bits (77), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 32/56 (57%)
Query: 62 RVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 117
R RT F+ EQL L+ F + + ++++ GL++ ++WFQN RA+ KK
Sbjct: 3 RPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNERAKIKK 58
>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 = 35.8 bits (81), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 33/57 (57%)
Query: 700 KRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 756
KR RT F+ EQL L+ F + + ++++ GL++ ++WFQN RA+ KK
Sbjct: 4 KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNKRAKIKK 60
Score = 34.3 bits (77), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 32/56 (57%)
Query: 62 RVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 117
R RT F+ EQL L+ F + + ++++ GL++ ++WFQN RA+ KK
Sbjct: 5 RPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNKRAKIKK 60
>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 = 0.095, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 33/57 (57%)
Query: 700 KRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 756
KR RT F+ EQL L+ F + + ++++ GL++ ++WFQN RA+ KK
Sbjct: 2 KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNKRAKIKK 58
Score = 34.3 bits (77), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 32/56 (57%)
Query: 62 RVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 117
R RT F+ EQL L+ F + + ++++ GL++ ++WFQN RA+ KK
Sbjct: 3 RPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNKRAKIKK 58
>pdb|3F6Q|B Chain B, Crystal Structure Of Integrin-Linked Kinase Ankyrin Repeat
Domain In Complex With Pinch1 Lim1 Domain
Length = 72
Score = 35.8 bits (81), Expect = 0.098, Method: Composition-based stats.
Identities = 18/60 (30%), Positives = 27/60 (45%), Gaps = 1/60 (1%)
Query: 614 SFGAKCSKCCRGIASSDWVRKARDHVYHLACFACEACKRQLSTGEEFALHEDRVLCKSHY 673
S A C +C G A ++ + + +YH CF C C +Q G F E R C+ +
Sbjct: 9 SASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEG-LFYEFEGRKYCEHDF 67
>pdb|1G47|A Chain A, 1st Lim Domain Of Pinch Protein
Length = 77
Score = 35.8 bits (81), Expect = 0.099, Method: Composition-based stats.
Identities = 17/57 (29%), Positives = 26/57 (45%), Gaps = 1/57 (1%)
Query: 617 AKCSKCCRGIASSDWVRKARDHVYHLACFACEACKRQLSTGEEFALHEDRVLCKSHY 673
A C +C G A ++ + + +YH CF C C +Q G F E R C+ +
Sbjct: 12 ATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEG-LFYEFEGRKYCEHDF 67
>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 = 35.4 bits (80), Expect = 0.11, Method: Composition-based stats.
Identities = 16/60 (26%), Positives = 31/60 (51%)
Query: 697 SKAKRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 756
S+ ++ RT+ L+ +F + P +++ IA + K V +VWF N R ++K+
Sbjct: 98 SRRRKKRTSIETNIRVALEKSFLENQKPTSEEITMIADQLNMEKEVIRVWFSNRRQKEKR 157
Score = 33.9 bits (76), Expect = 0.34, Method: Composition-based stats.
Identities = 17/57 (29%), Positives = 31/57 (54%), Gaps = 1/57 (1%)
Query: 62 RVRTTFTEEQLQV-LQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 117
R + T E ++V L+ +F + P +++ IA + K V +VWF N R ++K+
Sbjct: 101 RKKRTSIETNIRVALEKSFLENQKPTSEEITMIADQLNMEKEVIRVWFSNRRQKEKR 157
>pdb|2KBX|B Chain B, Solution Structure Of Ilk-Pinch Complex
Length = 70
Score = 35.4 bits (80), Expect = 0.11, Method: Composition-based stats.
Identities = 17/57 (29%), Positives = 26/57 (45%), Gaps = 1/57 (1%)
Query: 617 AKCSKCCRGIASSDWVRKARDHVYHLACFACEACKRQLSTGEEFALHEDRVLCKSHY 673
A C +C G A ++ + + +YH CF C C +Q G F E R C+ +
Sbjct: 8 ATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEG-LFYEFEGRKYCEHDF 63
>pdb|1FTZ|A Chain A, Nuclear Magnetic Resonance Solution Structure Of The Fushi
Tarazu Homeodomain From Drosophila And Comparison With
The Antennapedia Homeodomain
Length = 70
Score = 35.4 bits (80), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 29/58 (50%)
Query: 699 AKRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 756
+KR R T+T Q L+ F + + IA LS+R ++WFQN R + KK
Sbjct: 3 SKRTRQTYTRYQTLELEKEFHFNRYITRRRRIDIANALSLSERQIKIWFQNRRMKSKK 60
Score = 33.1 bits (74), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 27/56 (48%)
Query: 62 RVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 117
R R T+T Q L+ F + + IA LS+R ++WFQN R + KK
Sbjct: 5 RTRQTYTRYQTLELEKEFHFNRYITRRRRIDIANALSLSERQIKIWFQNRRMKSKK 60
>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 = 35.4 bits (80), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 29/57 (50%)
Query: 700 KRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 756
KR RT +T QL L+ F + +A + L++R ++WFQN R + KK
Sbjct: 4 KRTRTAYTRAQLLELEKEFLFNKYISRPRRVELAVMLNLTERHIKIWFQNRRMKWKK 60
Score = 33.5 bits (75), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 28/56 (50%)
Query: 62 RVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 117
R RT +T QL L+ F + +A + L++R ++WFQN R + KK
Sbjct: 5 RTRTAYTRAQLLELEKEFLFNKYISRPRRVELAVMLNLTERHIKIWFQNRRMKWKK 60
>pdb|2D8Z|A Chain A, Solution Structure Of The Third Lim Domain Of Four And A
Half Lim Domains Protein 2 (Fhl-2)
Length = 70
Score = 35.0 bits (79), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 24/41 (58%), Gaps = 1/41 (2%)
Query: 636 RDHVYHLACFACEACKRQLSTGEEFALHEDRVLCKSHYLEL 676
R+ +H CF C AC++QLS G+ F +D C + + +L
Sbjct: 23 REQPWHKECFVCTACRKQLS-GQRFTARDDFAYCLNCFCDL 62
>pdb|1B72|A Chain A, Pbx1, Homeobox Protein Hox-B1DNA TERNARY COMPLEX
Length = 97
Score = 35.0 bits (79), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 28/60 (46%)
Query: 63 VRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKKHLHTG 122
+RT FT QL L+ F + IA L++ ++WFQN R +QKK G
Sbjct: 37 LRTNFTTRQLTELEKEFHFNKYLSRARRVEIAATLELNETQVKIWFQNRRMKQKKREREG 96
Score = 35.0 bits (79), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 28/60 (46%)
Query: 702 VRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKKHLHTG 761
+RT FT QL L+ F + IA L++ ++WFQN R +QKK G
Sbjct: 37 LRTNFTTRQLTELEKEFHFNKYLSRARRVEIAATLELNETQVKIWFQNRRMKQKKREREG 96
>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 = 35.0 bits (79), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 29/58 (50%)
Query: 699 AKRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 756
KR RT++T Q L+ F + + IA L++R ++WFQN R + KK
Sbjct: 28 TKRQRTSYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWKK 85
Score = 33.1 bits (74), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 28/56 (50%)
Query: 62 RVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 117
R RT++T Q L+ F + + IA L++R ++WFQN R + KK
Sbjct: 30 RQRTSYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWKK 85
>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 = 34.7 bits (78), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 33/57 (57%)
Query: 700 KRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 756
KR RT F+ EQL L+ F + + ++++ GL++ ++WF+N RA+ KK
Sbjct: 4 KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFKNKRAKIKK 60
Score = 33.1 bits (74), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 32/56 (57%)
Query: 62 RVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 117
R RT F+ EQL L+ F + + ++++ GL++ ++WF+N RA+ KK
Sbjct: 5 RPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFKNKRAKIKK 60
>pdb|2HI3|A Chain A, Solution Structure Of The Homeodomain-Only Protein Hop
Length = 73
Score = 34.7 bits (78), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 32/51 (62%), Gaps = 1/51 (1%)
Query: 68 TEEQLQVLQANF-QLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 117
TE+Q+++L+ NF +++ +PD L IA GL++ TQ WF+ A ++
Sbjct: 10 TEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQKWFKQRLAEWRR 60
Score = 34.7 bits (78), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 32/51 (62%), Gaps = 1/51 (1%)
Query: 707 TEEQLQVLQANF-QLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 756
TE+Q+++L+ NF +++ +PD L IA GL++ TQ WF+ A ++
Sbjct: 10 TEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQKWFKQRLAEWRR 60
>pdb|2DJN|A Chain A, The Solution Structure Of The Homeobox Domain Of Human
Homeobox Protein Dlx-5
Length = 70
Score = 34.3 bits (77), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 31/60 (51%)
Query: 697 SKAKRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 756
S ++ RT ++ QL LQ FQ + +A GL++ ++WFQN R++ KK
Sbjct: 5 SSGRKPRTIYSSFQLAALQRRFQKTQYLALPERAELAASLGLTQTQVKIWFQNKRSKIKK 64
Score = 32.3 bits (72), Expect = 1.00, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 28/54 (51%)
Query: 64 RTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 117
RT ++ QL LQ FQ + +A GL++ ++WFQN R++ KK
Sbjct: 11 RTIYSSFQLAALQRRFQKTQYLALPERAELAASLGLTQTQVKIWFQNKRSKIKK 64
>pdb|2CRA|A Chain A, Solution Structure Of The Homeobox Domain Of Human Homeo
Box B13
Length = 70
Score = 34.3 bits (77), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 32/60 (53%)
Query: 697 SKAKRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 756
S ++ R +++ QL+ L+ + + +I+ T LS+R +WFQN R ++KK
Sbjct: 5 SSGRKKRIPYSKGQLRELEREYAANKFITKDKRRKISAATSLSERQITIWFQNRRVKEKK 64
Score = 32.7 bits (73), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 29/54 (53%)
Query: 64 RTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 117
R +++ QL+ L+ + + +I+ T LS+R +WFQN R ++KK
Sbjct: 11 RIPYSKGQLRELEREYAANKFITKDKRRKISAATSLSERQITIWFQNRRVKEKK 64
>pdb|1X62|A Chain A, Solution Structure Of The Lim Domain Of Carboxyl Terminal
Lim Domain Protein 1
Length = 79
Score = 33.5 bits (75), Expect = 0.42, Method: Composition-based stats.
Identities = 20/59 (33%), Positives = 25/59 (42%), Gaps = 3/59 (5%)
Query: 619 CSKCCRGIASSDWVRKARDHVYHLACFACEACKRQLSTGEEFALHEDRVLCKSHYLELV 677
C KC GI K RD H C+ C C L F + ED++ C+ H E V
Sbjct: 18 CDKCGTGIVGV--FVKLRDRHRHPECYVCTDCGTNLKQKGHFFV-EDQIYCEKHARERV 73
>pdb|1B8T|A Chain A, Solution Structure Of The Chicken Crp1
Length = 192
Score = 33.5 bits (75), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 30/58 (51%), Gaps = 2/58 (3%)
Query: 616 GAKCSKCCRGIASSDWVRKARDHVYHLACFACEACKRQLSTGEEFALHEDRVLCKSHY 673
G KC C + + ++ V+ +H +CF C CK+ L + A+H D + CKS Y
Sbjct: 7 GKKCGVCQKAVYFAEEVQ-CEGSSFHKSCFLCMVCKKNLDS-TTVAVHGDEIYCKSCY 62
>pdb|2EHE|A Chain A, Solution Structure Of The First Lim Domain From Human Four
And A Half Lim Domains Protein 3
Length = 82
Score = 33.5 bits (75), Expect = 0.52, Method: Composition-based stats.
Identities = 17/60 (28%), Positives = 26/60 (43%), Gaps = 1/60 (1%)
Query: 614 SFGAKCSKCCRGIASSDWVRKARDHVYHLACFACEACKRQLSTGEEFALHEDRVLCKSHY 673
+F C++C + I D +H CF C C+R L+ E F + +LC Y
Sbjct: 13 TFANTCAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSLAD-EPFTCQDSELLCNDCY 71
>pdb|9ANT|A Chain A, Antennapedia Homeodomain-Dna Complex
pdb|9ANT|B Chain B, Antennapedia Homeodomain-Dna Complex
Length = 62
Score = 33.1 bits (74), Expect = 0.53, Method: Composition-based stats.
Identities = 19/57 (33%), Positives = 28/57 (49%)
Query: 700 KRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 756
KR R T+T Q L+ F + + IA L++R ++WFQN R + KK
Sbjct: 4 KRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWKK 60
Score = 31.6 bits (70), Expect = 1.7, Method: Composition-based stats.
Identities = 18/56 (32%), Positives = 27/56 (48%)
Query: 62 RVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 117
R R T+T Q L+ F + + IA L++R ++WFQN R + KK
Sbjct: 5 RGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWKK 60
>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 = 33.1 bits (74), Expect = 0.62, Method: Composition-based stats.
Identities = 20/61 (32%), Positives = 29/61 (47%)
Query: 700 KRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKKHLH 759
KR R T+T Q L+ F + + IA L++R ++WFQN R + KK
Sbjct: 3 KRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKENK 62
Query: 760 T 760
T
Sbjct: 63 T 63
Score = 31.2 bits (69), Expect = 2.0, Method: Composition-based stats.
Identities = 19/60 (31%), Positives = 28/60 (46%)
Query: 62 RVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKKHLHT 121
R R T+T Q L+ F + + IA L++R ++WFQN R + KK T
Sbjct: 4 RGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKENKT 63
>pdb|2DLO|A Chain A, Solution Structure Of The Second Lim Domain Of Human
Thyroid Receptor-Interacting Protein 6
Length = 81
Score = 33.1 bits (74), Expect = 0.65, Method: Composition-based stats.
Identities = 15/44 (34%), Positives = 21/44 (47%), Gaps = 2/44 (4%)
Query: 611 CFRSFGAKCSKCCRGIASSDWVRKARDHVYHLACFACEACKRQL 654
C+ + KC+ C + I D + +A YH CF C C R L
Sbjct: 10 CYVATLEKCATCSQPIL--DRILRAMGKAYHPGCFTCVVCHRGL 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 = 32.7 bits (73), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 28/57 (49%)
Query: 700 KRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 756
KR R T+T Q L+ F + + IA L++R ++WFQN R + KK
Sbjct: 3 KRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWKK 59
Score = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 27/56 (48%)
Query: 62 RVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 117
R R T+T Q L+ F + + IA L++R ++WFQN R + KK
Sbjct: 4 RGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWKK 59
>pdb|2ECB|A Chain A, The Solution Structure Of The Third Homeobox Domain Of
Human Zinc Fingers And Homeoboxes Protein
Length = 89
Score = 32.7 bits (73), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 32/58 (55%), Gaps = 2/58 (3%)
Query: 68 TEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKKHLHTGKMK 125
T EQL+VLQA+F S ++L R+ T L++R WF + ++ K L KM+
Sbjct: 19 TAEQLRVLQASFLNSSVLTDEELNRLRAQTKLTRREIDAWF--TEKKKSKALKEEKME 74
Score = 32.7 bits (73), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 32/58 (55%), Gaps = 2/58 (3%)
Query: 707 TEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKKHLHTGKMK 764
T EQL+VLQA+F S ++L R+ T L++R WF + ++ K L KM+
Sbjct: 19 TAEQLRVLQASFLNSSVLTDEELNRLRAQTKLTRREIDAWF--TEKKKSKALKEEKME 74
>pdb|3L1P|A Chain A, Pou Protein:dna Complex
pdb|3L1P|B Chain B, Pou Protein:dna Complex
Length = 155
Score = 32.7 bits (73), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 26/57 (45%)
Query: 700 KRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 756
KR RT+ L+ F P Q + IA GL K V +VWF N R + K+
Sbjct: 97 KRKRTSIENRVRWSLETMFLKSPKPSLQQITHIANQLGLEKDVVRVWFSNRRQKGKR 153
Score = 30.8 bits (68), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 25/56 (44%)
Query: 62 RVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 117
R RT+ L+ F P Q + IA GL K V +VWF N R + K+
Sbjct: 98 RKRTSIENRVRWSLETMFLKSPKPSLQQITHIANQLGLEKDVVRVWFSNRRQKGKR 153
>pdb|1V6G|A Chain A, Solution Structure Of The Lim Domain Of The Human Actin
Binding Lim Protein 2
Length = 81
Score = 32.7 bits (73), Expect = 0.87, Method: Composition-based stats.
Identities = 15/58 (25%), Positives = 23/58 (39%), Gaps = 2/58 (3%)
Query: 613 RSFGAKCSKCCRGIASSDWVRKARDHVYHLACFACEACKRQLSTGEEFALHEDRVLCK 670
R +G +C C + I V A YH CF C C+ G+ + +C+
Sbjct: 12 RLYGTRCFSCDQFIEGE--VVSALGKTYHPDCFVCAVCRLPFPPGDRVTFNGKECMCQ 67
>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 = 32.3 bits (72), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 33/60 (55%)
Query: 697 SKAKRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 756
S KR RT F+ EQL L+ F + + ++++ GL++ + WF+N RA+ KK
Sbjct: 2 SDEKRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQVKGWFKNMRAKIKK 61
Score = 30.4 bits (67), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 31/56 (55%)
Query: 62 RVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 117
R RT F+ EQL L+ F + + ++++ GL++ + WF+N RA+ KK
Sbjct: 6 RPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQVKGWFKNMRAKIKK 61
>pdb|1ENH|A Chain A, Structural Studies Of The Engrailed Homeodomain
Length = 54
Score = 32.3 bits (72), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 30/53 (56%)
Query: 62 RVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRAR 114
R RT F+ EQL L+ F + + ++++ GL++ ++WFQN RA+
Sbjct: 1 RPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNKRAK 53
Score = 32.3 bits (72), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 30/53 (56%)
Query: 701 RVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRAR 753
R RT F+ EQL L+ F + + ++++ GL++ ++WFQN RA+
Sbjct: 1 RPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNKRAK 53
>pdb|1M3V|A Chain A, Flin4: Fusion Of The Lim Binding Domain Of Ldb1 And The N-
Terminal Lim Domain Of Lmo4
Length = 122
Score = 32.3 bits (72), Expect = 1.1, Method: Composition-based stats.
Identities = 17/60 (28%), Positives = 28/60 (46%), Gaps = 2/60 (3%)
Query: 618 KCSKCCRGIASSDWVRKARDHVYHLACFACEACKRQL-STGEEFALHEDRVLCKSHYLEL 676
+C+ C IA ++ A D +H C C +C+ QL G +LC++ Y+ L
Sbjct: 7 RCAGCGGKIADR-FLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRL 65
>pdb|1B8I|A Chain A, Structure Of The Homeotic UbxEXDDNA TERNARY COMPLEX
Length = 81
Score = 32.3 bits (72), Expect = 1.1, Method: Composition-based stats.
Identities = 17/60 (28%), Positives = 29/60 (48%)
Query: 700 KRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKKHLH 759
+R R T+T Q L+ F + + +A L++R ++WFQN R + KK +
Sbjct: 21 RRGRQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALSLTERQIKIWFQNRRMKLKKEIQ 80
Score = 31.6 bits (70), Expect = 1.9, Method: Composition-based stats.
Identities = 17/59 (28%), Positives = 28/59 (47%)
Query: 62 RVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKKHLH 120
R R T+T Q L+ F + + +A L++R ++WFQN R + KK +
Sbjct: 22 RGRQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALSLTERQIKIWFQNRRMKLKKEIQ 80
>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 = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 31/56 (55%)
Query: 62 RVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 117
R RT F+ EQL L+ F + + ++++ GL++ ++WF N RA+ KK
Sbjct: 1 RPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFANKRAKIKK 56
Score = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 31/56 (55%)
Query: 701 RVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 756
R RT F+ EQL L+ F + + ++++ GL++ ++WF N RA+ KK
Sbjct: 1 RPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFANKRAKIKK 56
>pdb|1X6A|A Chain A, Solution Structures Of The Second Lim Domain Of Human Lim-
Kinase 2 (limk2)
Length = 81
Score = 32.0 bits (71), Expect = 1.5, Method: Composition-based stats.
Identities = 21/64 (32%), Positives = 30/64 (46%), Gaps = 3/64 (4%)
Query: 615 FGAKCSKCCRGIASSDWVRKARDHVYHLACFACEACKRQLSTGEEFALHEDRVL-CKSHY 673
FG C C + V A + YH CFAC +CK + G+ +AL + L C +
Sbjct: 14 FGEFCHGCSLLMTGPFMV--AGEFKYHPECFACMSCKVIIEDGDAYALVQHATLYCGKCH 71
Query: 674 LELV 677
E+V
Sbjct: 72 NEVV 75
>pdb|1ZTR|A Chain A, Solution Structure Of Engrailed Homeodomain L16a Mutant
Length = 61
Score = 31.6 bits (70), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 30/54 (55%)
Query: 700 KRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRAR 753
KR RT F+ EQL + F + + ++++ GL++ ++WFQN RA+
Sbjct: 4 KRPRTAFSSEQLARAKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNKRAK 57
Score = 30.0 bits (66), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 29/53 (54%)
Query: 62 RVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRAR 114
R RT F+ EQL + F + + ++++ GL++ ++WFQN RA+
Sbjct: 5 RPRTAFSSEQLARAKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNKRAK 57
>pdb|2L4Z|A Chain A, Nmr Structure Of Fusion Of Ctip (641-685) To Lmo4-Lim1
(18-82)
Length = 123
Score = 31.6 bits (70), Expect = 1.7, Method: Composition-based stats.
Identities = 17/60 (28%), Positives = 28/60 (46%), Gaps = 2/60 (3%)
Query: 618 KCSKCCRGIASSDWVRKARDHVYHLACFACEACKRQL-STGEEFALHEDRVLCKSHYLEL 676
+C+ C IA ++ A D +H C C +C+ QL G +LC++ Y+ L
Sbjct: 63 RCAGCGGKIADR-FLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRL 121
>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 = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 28/59 (47%)
Query: 699 AKRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKKH 757
+R RT FT +QL L+ F ++ +A L + +VWFQN R + K+
Sbjct: 1 VRRYRTAFTRDQLGRLEKEFYKENYVSRPRRCELAAQLNLPESTIKVWFQNRRMKDKRQ 59
Score = 30.4 bits (67), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 27/57 (47%)
Query: 62 RVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKKH 118
R RT FT +QL L+ F ++ +A L + +VWFQN R + K+
Sbjct: 3 RYRTAFTRDQLGRLEKEFYKENYVSRPRRCELAAQLNLPESTIKVWFQNRRMKDKRQ 59
>pdb|2E1O|A Chain A, Solution Structure Of Rsgi Ruh-028, A Homeobox Domain From
Human Cdna
Length = 70
Score = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 29/51 (56%)
Query: 67 FTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 117
F+ +Q L+ F+ + +R+A++ LS+R + WFQN RA+ ++
Sbjct: 14 FSNDQTIELEKKFETQKYLSPPERKRLAKMLQLSERQVKTWFQNRRAKWRR 64
Score = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 29/51 (56%)
Query: 706 FTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 756
F+ +Q L+ F+ + +R+A++ LS+R + WFQN RA+ ++
Sbjct: 14 FSNDQTIELEKKFETQKYLSPPERKRLAKMLQLSERQVKTWFQNRRAKWRR 64
>pdb|2LP0|A Chain A, The Solution Structure Of Homeodomain-Protein Complex
Length = 60
Score = 31.2 bits (69), Expect = 2.3, Method: Composition-based stats.
Identities = 15/57 (26%), Positives = 29/57 (50%)
Query: 700 KRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 756
++ R +T+ Q L+ F + +A++ L++R ++WFQN R + KK
Sbjct: 2 RKKRCPYTKYQTLELEKEFLFNMYLTRDRRYEVARVLNLTERQVKIWFQNRRMKMKK 58
Score = 30.4 bits (67), Expect = 3.8, Method: Composition-based stats.
Identities = 15/54 (27%), Positives = 27/54 (50%)
Query: 64 RTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 117
R +T+ Q L+ F + +A++ L++R ++WFQN R + KK
Sbjct: 5 RCPYTKYQTLELEKEFLFNMYLTRDRRYEVARVLNLTERQVKIWFQNRRMKMKK 58
>pdb|1LFU|P Chain P, Nmr Solution Stucture Of The Extended Pbx Homeodomain
Bound To Dna
Length = 82
Score = 31.2 bits (69), Expect = 2.5, Method: Composition-based stats.
Identities = 20/73 (27%), Positives = 35/73 (47%), Gaps = 5/73 (6%)
Query: 699 AKRVRTTFTEEQLQVLQANFQL---DSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQK 755
A+R R F ++ ++L F + P + E +A+ +G++ WF N R R K
Sbjct: 2 ARRKRRNFNKQATEILNEYFYSHLSNPYPSEEAKEELAKKSGITVSQVSNWFGNKRIRYK 61
Query: 756 KHLHTGKMKSSQN 768
K++ GK + N
Sbjct: 62 KNI--GKFQEEAN 72
>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 = 31.2 bits (69), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 30/60 (50%)
Query: 697 SKAKRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 756
+K ++ R FT+ Q L+ F+ + E +A + L+ ++WFQN R + K+
Sbjct: 7 NKKRKRRVLFTKAQTYELERRFRQQRYLSAPEREHLASLIRLTPTQVKIWFQNHRYKTKR 66
Score = 29.3 bits (64), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 26/54 (48%)
Query: 64 RTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 117
R FT+ Q L+ F+ + E +A + L+ ++WFQN R + K+
Sbjct: 13 RVLFTKAQTYELERRFRQQRYLSAPEREHLASLIRLTPTQVKIWFQNHRYKTKR 66
>pdb|2DA5|A Chain A, Solution Structure Of The Second Homeobox Domain Of Zinc
Fingers And Homeoboxes Protein 3 (Triple Homeobox 1
Protein)
Length = 75
Score = 30.8 bits (68), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 13/45 (28%), Positives = 26/45 (57%)
Query: 70 EQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRAR 114
EQL+ L+++F + P ++L+R+ T +++R WF R +
Sbjct: 17 EQLRALESSFAQNPLPLDEELDRLRSETKMTRREIDSWFSERRKK 61
Score = 30.8 bits (68), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 13/45 (28%), Positives = 26/45 (57%)
Query: 709 EQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRAR 753
EQL+ L+++F + P ++L+R+ T +++R WF R +
Sbjct: 17 EQLRALESSFAQNPLPLDEELDRLRSETKMTRREIDSWFSERRKK 61
>pdb|1PUF|A Chain A, Crystal Structure Of Hoxa9 And Pbx1 Homeodomains Bound To
Dna
Length = 77
Score = 30.4 bits (67), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 15/58 (25%), Positives = 29/58 (50%)
Query: 699 AKRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 756
++ R +T+ Q L+ F + +A++ L++R ++WFQN R + KK
Sbjct: 13 TRKKRCPYTKHQTLELEKEFLFNMYLTRDRRYEVARLLNLTERQVKIWFQNRRMKMKK 70
Score = 30.4 bits (67), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 27/54 (50%)
Query: 64 RTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 117
R +T+ Q L+ F + +A++ L++R ++WFQN R + KK
Sbjct: 17 RCPYTKHQTLELEKEFLFNMYLTRDRRYEVARLLNLTERQVKIWFQNRRMKMKK 70
>pdb|1PUF|B Chain B, Crystal Structure Of Hoxa9 And Pbx1 Homeodomains Bound To
Dna
Length = 73
Score = 30.4 bits (67), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 38/75 (50%), Gaps = 9/75 (12%)
Query: 699 AKRVRTTFTEEQLQVLQANFQL---DSNPDGQDLERIAQITGLSKRVTQV--WFQNSRAR 753
A+R R F ++ ++L F + P + E +A+ G++ V+QV WF N R R
Sbjct: 1 ARRKRRNFNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGIT--VSQVSNWFGNKRIR 58
Query: 754 QKKHLHTGKMKSSQN 768
KK++ GK + N
Sbjct: 59 YKKNI--GKFQEEAN 71
>pdb|1B72|B Chain B, Pbx1, Homeobox Protein Hox-B1DNA TERNARY COMPLEX
Length = 87
Score = 30.4 bits (67), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 38/75 (50%), Gaps = 9/75 (12%)
Query: 699 AKRVRTTFTEEQLQVLQANFQL---DSNPDGQDLERIAQITGLSKRVTQV--WFQNSRAR 753
A+R R F ++ ++L F + P + E +A+ G++ V+QV WF N R R
Sbjct: 1 ARRKRRNFNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGIT--VSQVSNWFGNKRIR 58
Query: 754 QKKHLHTGKMKSSQN 768
KK++ GK + N
Sbjct: 59 YKKNI--GKFQEEAN 71
>pdb|1ZQ3|P Chain P, Nmr Solution Structure Of The Bicoid Homeodomain Bound To
The Consensus Dna Binding Site Taatcc
Length = 68
Score = 30.4 bits (67), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 26/56 (46%)
Query: 700 KRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQK 755
+R RTTFT Q+ L+ +F L ++ L ++WF+N R R K
Sbjct: 3 RRTRTTFTSSQIAELEQHFLQGRYLTAPRLADLSAKLALGTAQVKIWFKNRRRRHK 58
Score = 29.6 bits (65), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 25/55 (45%)
Query: 62 RVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQK 116
R RTTFT Q+ L+ +F L ++ L ++WF+N R R K
Sbjct: 4 RTRTTFTSSQIAELEQHFLQGRYLTAPRLADLSAKLALGTAQVKIWFKNRRRRHK 58
>pdb|3IXE|B Chain B, Structural Basis Of Competition Between Pinch1 And Pinch2
For Binding To The Ankyrin Repeat Domain Of
Integrin-Linked Kinase
Length = 72
Score = 30.0 bits (66), Expect = 4.9, Method: Composition-based stats.
Identities = 16/60 (26%), Positives = 25/60 (41%), Gaps = 1/60 (1%)
Query: 614 SFGAKCSKCCRGIASSDWVRKARDHVYHLACFACEACKRQLSTGEEFALHEDRVLCKSHY 673
S A C +C + ++ + + +YH CF C C R G F E R C+ +
Sbjct: 9 SANAVCQRCQARFSPAERIVNSNGELYHEHCFVCAQCFRPFPEG-LFYEFEGRKYCEHDF 67
>pdb|2PQQ|A Chain A, Structural Genomics, The Crystal Structure Of The
N-Terminal Domain Of A Transcriptional Regulator From
Streptomyces Coelicolor A3(2)
pdb|2PQQ|B Chain B, Structural Genomics, The Crystal Structure Of The
N-Terminal Domain Of A Transcriptional Regulator From
Streptomyces Coelicolor A3(2)
pdb|2PQQ|C Chain C, Structural Genomics, The Crystal Structure Of The
N-Terminal Domain Of A Transcriptional Regulator From
Streptomyces Coelicolor A3(2)
pdb|2PQQ|D Chain D, Structural Genomics, The Crystal Structure Of The
N-Terminal Domain Of A Transcriptional Regulator From
Streptomyces Coelicolor A3(2)
Length = 149
Score = 30.0 bits (66), Expect = 5.6, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 23/42 (54%), Gaps = 2/42 (4%)
Query: 552 YGHVLSWLRVRTEFS--ILKAVSLRLRGTRQIVKPYGFDDGA 591
+G + WL VR E + +L+AV+ RLR T F DG+
Sbjct: 108 HGDLQPWLNVRPEVATALLRAVARRLRKTNDAXSDLVFSDGS 149
>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 = 29.6 bits (65), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 35/65 (53%), Gaps = 7/65 (10%)
Query: 699 AKRVRTTFTEEQLQVLQANFQL---DSNPDGQDLERIAQITGLSKRVTQV--WFQNSRAR 753
A+R R F+++ ++L F + P + E +A+ G++ V+QV WF N R R
Sbjct: 1 ARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCGIT--VSQVSNWFGNKRIR 58
Query: 754 QKKHL 758
KK++
Sbjct: 59 YKKNI 63
>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 = 29.6 bits (65), Expect = 6.9, Method: Composition-based stats.
Identities = 17/56 (30%), Positives = 26/56 (46%)
Query: 66 TFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKKHLHT 121
T+T Q L+ F + + IA L++R ++WFQN R + KK T
Sbjct: 2 TYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWKKENKT 57
Score = 29.6 bits (65), Expect = 6.9, Method: Composition-based stats.
Identities = 17/56 (30%), Positives = 26/56 (46%)
Query: 705 TFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKKHLHT 760
T+T Q L+ F + + IA L++R ++WFQN R + KK T
Sbjct: 2 TYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWKKENKT 57
>pdb|1QRY|A Chain A, Homeobox Protein Vnd (Ventral Nervous System Defective
Protein)
Length = 80
Score = 29.6 bits (65), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 15/60 (25%), Positives = 29/60 (48%)
Query: 697 SKAKRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 756
+K ++ R FT+ Q L+ F+ + E + + L+ ++WFQN R + K+
Sbjct: 10 NKKRKRRVLFTKAQTYELERRFRQQRYLSAPEREHLTSLIRLTPTQVKIWFQNHRYKTKR 69
>pdb|2DMP|A Chain A, Solution Structure Of The Third Homeobox Domain Of Zinc
Fingers And Homeoboxes Protein 2
Length = 89
Score = 29.3 bits (64), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 25/45 (55%)
Query: 68 TEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSR 112
T+ Q+++L+ +F S P +L+R+ T LS+R WF R
Sbjct: 21 TQGQVKILEDSFLKSSFPTQAELDRLRVETKLSRREIDSWFSERR 65
Score = 29.3 bits (64), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 25/45 (55%)
Query: 707 TEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSR 751
T+ Q+++L+ +F S P +L+R+ T LS+R WF R
Sbjct: 21 TQGQVKILEDSFLKSSFPTQAELDRLRVETKLSRREIDSWFSERR 65
>pdb|1FTT|A Chain A, Thyroid Transcription Factor 1 Homeodomain (Rattus
Norvegicus)
Length = 68
Score = 29.3 bits (64), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 14/57 (24%), Positives = 29/57 (50%)
Query: 700 KRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 756
++ R F++ Q+ L+ F+ + E +A + L+ ++WFQN R + K+
Sbjct: 3 RKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQVKIWFQNHRYKMKR 59
Score = 29.3 bits (64), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 14/54 (25%), Positives = 27/54 (50%)
Query: 64 RTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 117
R F++ Q+ L+ F+ + E +A + L+ ++WFQN R + K+
Sbjct: 6 RVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQVKIWFQNHRYKMKR 59
>pdb|1WH5|A Chain A, Solution Structure Of Homeobox Domain Of
Arabidopsisthaliana Zinc Finger Homeobox Family Protein
Length = 80
Score = 29.3 bits (64), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 32/57 (56%), Gaps = 6/57 (10%)
Query: 700 KRVRTTFTEEQLQVLQA-----NFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSR 751
KR RT FT EQ + + A +++ D + ++R Q TG+ ++V +VW N++
Sbjct: 18 KRHRTKFTAEQKERMLALAERIGWRIQRQ-DDEVIQRFCQETGVPRQVLKVWLHNNK 73
>pdb|1IG7|A Chain A, Msx-1 HomeodomainDNA COMPLEX STRUCTURE
Length = 58
Score = 28.9 bits (63), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 28/57 (49%)
Query: 700 KRVRTTFTEEQLQVLQANFQLDSNPDGQDLERIAQITGLSKRVTQVWFQNSRARQKK 756
++ RT FT QL L+ F+ + + L++ ++WFQN RA+ K+
Sbjct: 1 RKPRTPFTTAQLLALERKFRQKQYLSIAERAEFSSSLSLTETQVKIWFQNRRAKAKR 57
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.319 0.133 0.396
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,995,548
Number of Sequences: 62578
Number of extensions: 806327
Number of successful extensions: 1889
Number of sequences better than 100.0: 109
Number of HSP's better than 100.0 without gapping: 82
Number of HSP's successfully gapped in prelim test: 27
Number of HSP's that attempted gapping in prelim test: 1691
Number of HSP's gapped (non-prelim): 222
length of query: 768
length of database: 14,973,337
effective HSP length: 106
effective length of query: 662
effective length of database: 8,340,069
effective search space: 5521125678
effective search space used: 5521125678
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 55 (25.8 bits)