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= psy17504
(196 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2DMQ|A Chain A, Solution Structure Of The Homeobox Domain Of LimHOMEOBOX
Protein Lhx9
Length = 80
Score = 89.4 bits (220), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 42/45 (93%), Positives = 43/45 (95%)
Query: 151 KRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 195
KRMRTSFKHHQLRTMKSYF IN NPDAKDLKQLAQKTGL+KRVLQ
Sbjct: 8 KRMRTSFKHHQLRTMKSYFAINHNPDAKDLKQLAQKTGLTKRVLQ 52
>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 = 52.0 bits (123), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 23/55 (41%), Positives = 33/55 (60%), Gaps = 1/55 (1%)
Query: 1 MGISSSELVMRARDLVFHLHCFTCISCGILLTKGDLFG-MRDEMIYCRPHYEILR 54
+GI +++V RA+D V+HLHCF C+ C L GD F M D + C+ YE +
Sbjct: 73 LGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETAK 127
>pdb|2JTN|A Chain A, Nmr Solution Structure Of A Ldb1-Lid:lhx3-Lim Complex
Length = 182
Score = 51.2 bits (121), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 23/56 (41%), Positives = 33/56 (58%), Gaps = 1/56 (1%)
Query: 1 MGISSSELVMRARDLVFHLHCFTCISCGILLTKGDLFG-MRDEMIYCRPHYEILRH 55
+GI +++V RA+D V+HLHCF C+ C L GD F M D + C+ YE +
Sbjct: 127 LGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETAKQ 182
>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 = 49.7 bits (117), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 23/55 (41%), Positives = 32/55 (58%), Gaps = 1/55 (1%)
Query: 2 GISSSELVMRARDLVFHLHCFTCISCGILLTKGDLFG-MRDEMIYCRPHYEILRH 55
GI +++V +A+D V+HLHCF CI C L GD F M D + C+ YE +
Sbjct: 74 GIPPTQVVRKAQDFVYHLHCFACIICNRQLATGDEFYLMEDGRLVCKEDYETAKQ 128
>pdb|2DA1|A Chain A, Solution Structure Of The First Homeobox Domain Of At-
Binding Transcription Factor 1 (Atbf1)
Length = 70
Score = 43.9 bits (102), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 31/45 (68%)
Query: 151 KRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 195
KR RT QLR ++ YF+IN +P + +K++A K+GL ++V++
Sbjct: 8 KRPRTRITDDQLRVLRQYFDINNSPSEEQIKEMADKSGLPQKVIK 52
>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 = 42.0 bits (97), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/44 (47%), Positives = 28/44 (63%)
Query: 3 ISSSELVMRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYC 46
I +SELVMRA+ V+HL CFTC +C L GD F + ++C
Sbjct: 77 IPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFC 120
>pdb|1RUT|X Chain X, Complex Of Lmo4 Lim Domains 1 And 2 With The Ldb1 Lid
Domain
Length = 188
Score = 42.0 bits (97), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/44 (47%), Positives = 28/44 (63%)
Query: 3 ISSSELVMRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYC 46
I +SELVMRA+ V+HL CFTC +C L GD F + ++C
Sbjct: 79 IPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFC 122
>pdb|2DA3|A Chain A, Solution Structure Of The Third Homeobox Domain Of At-
Binding Transcription Factor 1 (Atbf1)
Length = 80
Score = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 28/48 (58%)
Query: 148 QRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 195
QR KR+RT+ QL + + ++ NP K L +A + GL KRV+Q
Sbjct: 15 QRDKRLRTTITPEQLEILYQKYLLDSNPTRKMLDHIAHEVGLKKRVVQ 62
>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 = 37.4 bits (85), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 29/47 (61%)
Query: 149 RTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 195
+T R+RT QL T+++ + N PDA +QL + TGLS RV++
Sbjct: 2 KTTRVRTVLNEKQLHTLRTCYAANPRPDALMKEQLVEMTGLSPRVIR 48
>pdb|2LXD|A Chain A, Backbone 1h, 13c, And 15n Chemical Shift Assignments For
Lmo2(Lim2)- Ldb1(Lid)
Length = 125
Score = 37.0 bits (84), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 25/45 (55%)
Query: 3 ISSSELVMRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYCR 47
I + E+ MR +D V+HL CF C +C + GD + + + I C
Sbjct: 20 IRAYEMTMRVKDKVYHLECFKCAACQKHFSVGDRYLLINSDIVCE 64
>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 = 36.2 bits (82), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 31/59 (52%), Gaps = 2/59 (3%)
Query: 137 NSSPGSGVHSHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 195
S PG + QR R RT+F QL ++ F Q PD ++LAQ+T L++ +Q
Sbjct: 7 ESEPGIALKRKQR--RSRTTFSASQLDELERAFERTQYPDIYTREELAQRTNLTEARIQ 63
>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 = 36.2 bits (82), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 25/44 (56%)
Query: 3 ISSSELVMRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYC 46
I + E+ MR +D V+HL CF C +C + GD + + + I C
Sbjct: 18 IRAYEMTMRVKDKVYHLECFKCAACQKHFSVGDRYLLINSDIVC 61
>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 = 34.3 bits (77), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 24/44 (54%)
Query: 3 ISSSELVMRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYC 46
I + E+ MR +D V+HL CF C +C GD + + + I C
Sbjct: 76 IRAYEMTMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVC 119
>pdb|2D8Y|A Chain A, Solution Structure Of The Lim Domain Of Epithelial
Protein Lost In Neoplasm
Length = 91
Score = 33.5 bits (75), Expect = 0.074, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 22/44 (50%), Gaps = 1/44 (2%)
Query: 10 MRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYCRPHYEIL 53
+ A VFH+ CF C C L+ G + IYC+PH+ L
Sbjct: 31 LLANQQVFHISCFRCSYCNNKLSLGTYASLHGR-IYCKPHFNQL 73
>pdb|1X6A|A Chain A, Solution Structures Of The Second Lim Domain Of Human
Lim- Kinase 2 (limk2)
Length = 81
Score = 32.7 bits (73), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 27/47 (57%), Gaps = 2/47 (4%)
Query: 9 VMRARDLVFHLHCFTCISCGILLTKGDLFGM-RDEMIYC-RPHYEIL 53
M A + +H CF C+SC +++ GD + + + +YC + H E++
Sbjct: 29 FMVAGEFKYHPECFACMSCKVIIEDGDAYALVQHATLYCGKCHNEVV 75
>pdb|1X64|A Chain A, Solution Structure Of The Lim Domain Of Alpha-Actinin-2
Associated Lim Protein
Length = 89
Score = 32.0 bits (71), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 21/41 (51%), Gaps = 1/41 (2%)
Query: 9 VMRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYCRPH 49
V++ARD H CF C C + L + F + E+ YC H
Sbjct: 39 VVKARDKYRHPECFVCADCNLNLKQKGYFFVEGEL-YCETH 78
>pdb|2DA2|A Chain A, Solution Structure Of The Second Homeobox Domain Of At-
Binding Transcription Factor 1 (Atbf1)
Length = 70
Score = 31.2 bits (69), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 22/40 (55%)
Query: 155 TSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVL 194
T F +QLR ++ +F+ N P + +QL+ L RV+
Sbjct: 12 TRFTDYQLRVLQDFFDANAYPKDDEFEQLSNLLNLPTRVI 51
>pdb|3LNQ|A Chain A, Structure Of Aristaless Homeodomain In Complex With Dna
Length = 58
Score = 30.8 bits (68), Expect = 0.55, Method: Composition-based stats.
Identities = 15/44 (34%), Positives = 24/44 (54%)
Query: 152 RMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 195
R RT+F QL ++ F+ PD ++LA K GL++ +Q
Sbjct: 1 RYRTTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQ 44
>pdb|2K40|A Chain A, Nmr Structure Of Hesx-1 Homeodomain Double Mutant R31lE42L
Length = 67
Score = 30.4 bits (67), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 23/40 (57%)
Query: 151 KRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLS 190
+R RT+F +Q+ +++ F +N P L+ LAQK L
Sbjct: 2 RRPRTAFTQNQIEVLENVFRVNCYPGIDILEDLAQKLNLE 41
>pdb|1X3H|A Chain A, Solution Structure Of The Lim Domain Of Human Leupaxin
Length = 80
Score = 30.0 bits (66), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 20/44 (45%), Gaps = 1/44 (2%)
Query: 7 ELVMRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYCRPHY 50
E + A D V+H CF C C + G F + D +C HY
Sbjct: 27 ENYLSAMDTVWHPECFVCGDCFTSFSTGSFFEL-DGRPFCELHY 69
>pdb|2DJ7|A Chain A, Solution Structure Of 3rd Lim Domain Of Actin-Binding
Lim Protein 3
Length = 80
Score = 29.6 bits (65), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 23/41 (56%), Gaps = 2/41 (4%)
Query: 10 MRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYCRPHY 50
+ A D +H+ CF C +C ++LT G+ +D + YC Y
Sbjct: 31 LLALDKQWHVSCFKCQTCSVILT-GEYI-SKDGVPYCESDY 69
>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 = 29.3 bits (64), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 25/45 (55%)
Query: 151 KRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 195
+R RT+F QL ++ F+ PD ++LA K GL++ +Q
Sbjct: 7 RRYRTTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQ 51
>pdb|2YHB|A Chain A, Crystal Structure Of The N. Crassa Qde-2 Ago Mid-Piwi
Domains
Length = 437
Score = 29.3 bits (64), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 19/34 (55%)
Query: 3 ISSSELVMRARDLVFHLHCFTCISCGILLTKGDL 36
++ +V RA D+ F +H C++ L TKG L
Sbjct: 91 VAIYNMVKRAADITFGVHTVCCVAEKFLSTKGQL 124
>pdb|2YHA|A Chain A, Crystal Structure Of The N. Crassa Qde-2 Ago Mid-Piwi
Domains
Length = 388
Score = 29.3 bits (64), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 19/34 (55%)
Query: 3 ISSSELVMRARDLVFHLHCFTCISCGILLTKGDL 36
++ +V RA D+ F +H C++ L TKG L
Sbjct: 91 VAIYNMVKRAADITFGVHTVCCVAEKFLSTKGQL 124
>pdb|2DN0|A Chain A, Solution Structure Of The Second Homeobox Domain Of Human
Zinc Fingers And Homeoboxes Protein 3
Length = 76
Score = 28.9 bits (63), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 21/37 (56%)
Query: 159 HHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 195
H QL +K F NQ P +++ L + TGLS R ++
Sbjct: 17 HEQLSALKGSFCRNQFPGQSEVEHLTKVTGLSTREVR 53
>pdb|2XDY|A Chain A, Crystal Structure Of The N. Crassa Qde-2 Ago Mid Domain
Length = 145
Score = 28.9 bits (63), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 19/34 (55%)
Query: 3 ISSSELVMRARDLVFHLHCFTCISCGILLTKGDL 36
++ +V RA D+ F +H C++ L TKG L
Sbjct: 91 VAIYNMVKRAADITFGVHTVCCVAEKFLSTKGQL 124
>pdb|2M0C|A Chain A, Solution Nmr Structure Of Homeobox Domain Of Human Alx4,
Northeast Structural Genomics Consortium (Nesg) Target
Hr4490c
Length = 75
Score = 28.5 bits (62), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 25/45 (55%)
Query: 151 KRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 195
+R RT+F +QL ++ F PD +QLA +T L++ +Q
Sbjct: 10 RRNRTTFTSYQLEELEKVFQKTHYPDVYAREQLAMRTDLTEARVQ 54
>pdb|1X63|A Chain A, Solution Structure Of The Second Lim Domain Of Skeletal
Muscle Lim Protein 1
Length = 82
Score = 28.5 bits (62), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 24/49 (48%), Gaps = 1/49 (2%)
Query: 3 ISSSELVMRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYCRPHYE 51
I + + + + V+H CFTC +C ++ G F + E YC +E
Sbjct: 25 IVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFF-PKGEDFYCVTCHE 72
>pdb|3CMY|A Chain A, Structure Of A Homeodomain In Complex With Dna
Length = 61
Score = 28.1 bits (61), Expect = 2.9, Method: Composition-based stats.
Identities = 14/45 (31%), Positives = 24/45 (53%)
Query: 151 KRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 195
+R RT+F QL ++ F PD ++LAQ+ L++ +Q
Sbjct: 3 RRSRTTFTAEQLEELERAFERTHYPDIYTREELAQRAKLTEARVQ 47
>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 = 28.1 bits (61), Expect = 3.0, Method: Composition-based stats.
Identities = 15/41 (36%), Positives = 24/41 (58%)
Query: 151 KRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSK 191
KR RT+F QL +K FN N+ + +QL+ + GL++
Sbjct: 5 KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNE 45
>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 = 28.1 bits (61), Expect = 3.1, Method: Composition-based stats.
Identities = 15/41 (36%), Positives = 24/41 (58%)
Query: 151 KRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSK 191
KR RT+F QL +K FN N+ + +QL+ + GL++
Sbjct: 2 KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNE 42
>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 = 28.1 bits (61), Expect = 3.2, Method: Composition-based stats.
Identities = 15/41 (36%), Positives = 24/41 (58%)
Query: 151 KRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSK 191
KR RT+F QL +K FN N+ + +QL+ + GL++
Sbjct: 4 KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNE 44
>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 = 28.1 bits (61), Expect = 3.2, Method: Composition-based stats.
Identities = 15/41 (36%), Positives = 24/41 (58%)
Query: 151 KRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSK 191
KR RT+F QL +K FN N+ + +QL+ + GL++
Sbjct: 2 KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNE 42
>pdb|1X62|A Chain A, Solution Structure Of The Lim Domain Of Carboxyl
Terminal Lim Domain Protein 1
Length = 79
Score = 28.1 bits (61), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 22/48 (45%), Gaps = 1/48 (2%)
Query: 2 GISSSELVMRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYCRPH 49
G + ++ RD H C+ C CG L + F + D+ IYC H
Sbjct: 22 GTGIVGVFVKLRDRHRHPECYVCTDCGTNLKQKGHFFVEDQ-IYCEKH 68
>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 = 28.1 bits (61), Expect = 3.3, Method: Composition-based stats.
Identities = 15/41 (36%), Positives = 24/41 (58%)
Query: 151 KRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSK 191
KR RT+F QL +K FN N+ + +QL+ + GL++
Sbjct: 4 KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNE 44
>pdb|3HDD|A Chain A, Engrailed Homeodomain Dna Complex
pdb|3HDD|B Chain B, Engrailed Homeodomain Dna Complex
Length = 60
Score = 28.1 bits (61), Expect = 3.4, Method: Composition-based stats.
Identities = 15/41 (36%), Positives = 24/41 (58%)
Query: 151 KRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSK 191
KR RT+F QL +K FN N+ + +QL+ + GL++
Sbjct: 2 KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNE 42
>pdb|1E3O|C Chain C, Crystal Structure Of Oct-1 Pou Dimer Bound To More
Length = 160
Score = 28.1 bits (61), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 13/53 (24%), Positives = 29/53 (54%)
Query: 143 GVHSHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 195
G+ R ++ RTS + + ++ F NQ P ++D+ +A++ + K V++
Sbjct: 94 GIEGLSRRRKKRTSIETNIRVALEKSFMENQKPTSEDITLIAEQLNMEKEVIR 146
>pdb|2DMU|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
Protein Goosecoid
Length = 70
Score = 27.7 bits (60), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 21/39 (53%)
Query: 151 KRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGL 189
+R RT F QL +++ F + PD +QLA+K L
Sbjct: 8 RRHRTIFTDEQLEALENLFQETKYPDVGTREQLARKVHL 46
>pdb|2CUF|A Chain A, Solution Structure Of The Homeobox Domain Of The Human
Hypothetical Protein Flj21616
Length = 95
Score = 27.3 bits (59), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 18/29 (62%)
Query: 156 SFKHHQLRTMKSYFNINQNPDAKDLKQLA 184
+++ L M+SYFN NQ PD +++A
Sbjct: 13 TWRKECLAVMESYFNENQYPDEAKREEIA 41
>pdb|1ZTR|A Chain A, Solution Structure Of Engrailed Homeodomain L16a Mutant
Length = 61
Score = 26.9 bits (58), Expect = 7.2, Method: Composition-based stats.
Identities = 15/41 (36%), Positives = 23/41 (56%)
Query: 151 KRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSK 191
KR RT+F QL K FN N+ + +QL+ + GL++
Sbjct: 4 KRPRTAFSSEQLARAKREFNENRYLTERRRQQLSSELGLNE 44
>pdb|1POG|A Chain A, Solution Structure Of The Oct-1 Pou-Homeo Domain
Determined By Nmr And Restrained Molecular Dynamics
Length = 67
Score = 26.9 bits (58), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 13/50 (26%), Positives = 28/50 (56%)
Query: 146 SHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 195
SH R ++ RTS + + ++ F NQ P ++++ +A + + K V++
Sbjct: 3 SHMRRRKKRTSIETNIRVALEKSFLENQKPTSEEITMIADQLNMEKEVIR 52
>pdb|1X61|A Chain A, Solution Structure Of The First Lim Domain Of Thyroid
Receptor Interacting Protein 6 (Trip6)
Length = 72
Score = 26.6 bits (57), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 19/39 (48%), Gaps = 1/39 (2%)
Query: 12 ARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYCRPHY 50
A D VFH+ CF C +C L +G F + YC Y
Sbjct: 24 ALDRVFHVGCFVCSTCRAQL-RGQHFYAVERRAYCEGCY 61
>pdb|1ENH|A Chain A, Structural Studies Of The Engrailed Homeodomain
Length = 54
Score = 26.6 bits (57), Expect = 9.1, Method: Composition-based stats.
Identities = 14/40 (35%), Positives = 23/40 (57%)
Query: 152 RMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSK 191
R RT+F QL +K FN N+ + +QL+ + GL++
Sbjct: 1 RPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNE 40
>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 = 26.6 bits (57), Expect = 9.3, Method: Composition-based stats.
Identities = 14/40 (35%), Positives = 23/40 (57%)
Query: 152 RMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSK 191
R RT+F QL +K FN N+ + +QL+ + GL++
Sbjct: 1 RPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNE 40
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.320 0.133 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,327,096
Number of Sequences: 62578
Number of extensions: 188161
Number of successful extensions: 391
Number of sequences better than 100.0: 56
Number of HSP's better than 100.0 without gapping: 47
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 343
Number of HSP's gapped (non-prelim): 56
length of query: 196
length of database: 14,973,337
effective HSP length: 94
effective length of query: 102
effective length of database: 9,091,005
effective search space: 927282510
effective search space used: 927282510
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: 49 (23.5 bits)