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= psy15514
(187 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 117 bits (294), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 59/69 (85%), Positives = 61/69 (88%)
Query: 118 SDCDSEPGIPLKRKQRRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQ 177
SDC+SEPGI LKRKQRRSRTTFSA QLDELERAFERTQYPDIYTREELAQRT LTEARIQ
Sbjct: 4 SDCESEPGIALKRKQRRSRTTFSASQLDELERAFERTQYPDIYTREELAQRTNLTEARIQ 63
Query: 178 TIFIVRKMR 186
F R+ R
Sbjct: 64 VWFQNRRAR 72
Score = 103 bits (256), Expect = 8e-23, Method: Compositional matrix adjust.
Identities = 50/54 (92%), Positives = 51/54 (94%)
Query: 48 SDCDSEPGIPLKRKQRRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKL 101
SDC+SEPGI LKRKQRRSRTTFSA QLDELERAFERTQYPDIYTREELAQRT L
Sbjct: 4 SDCESEPGIALKRKQRRSRTTFSASQLDELERAFERTQYPDIYTREELAQRTNL 57
>pdb|3CMY|A Chain A, Structure Of A Homeodomain In Complex With Dna
Length = 61
Score = 88.2 bits (217), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 43/56 (76%), Positives = 48/56 (85%)
Query: 132 QRRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIFIVRKMRG 187
QRRSRTTF+A+QL+ELERAFERT YPDIYTREELAQR KLTEAR+Q F R+ R
Sbjct: 2 QRRSRTTFTAEQLEELERAFERTHYPDIYTREELAQRAKLTEARVQVWFSNRRARW 57
Score = 73.6 bits (179), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 35/40 (87%), Positives = 38/40 (95%)
Query: 62 QRRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKL 101
QRRSRTTF+A+QL+ELERAFERT YPDIYTREELAQR KL
Sbjct: 2 QRRSRTTFTAEQLEELERAFERTHYPDIYTREELAQRAKL 41
>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 = 75.5 bits (184), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 37/59 (62%), Positives = 46/59 (77%)
Query: 129 KRKQRRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIFIVRKMRG 187
KRKQRR RTTF++ QL+ELE+AF RT YPD++TREELA + LTEARIQ F R+ +
Sbjct: 3 KRKQRRYRTTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQVWFQNRRAKW 61
Score = 62.0 bits (149), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 29/43 (67%), Positives = 36/43 (83%)
Query: 59 KRKQRRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKL 101
KRKQRR RTTF++ QL+ELE+AF RT YPD++TREELA + L
Sbjct: 3 KRKQRRYRTTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGL 45
>pdb|2M0C|A Chain A, Solution Nmr Structure Of Homeobox Domain Of Human Alx4,
Northeast Structural Genomics Consortium (Nesg) Target
Hr4490c
Length = 75
Score = 72.4 bits (176), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 32/54 (59%), Positives = 44/54 (81%)
Query: 131 KQRRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIFIVRK 184
K+RR+RTTF++ QL+ELE+ F++T YPD+Y RE+LA RT LTEAR+Q F R+
Sbjct: 8 KKRRNRTTFTSYQLEELEKVFQKTHYPDVYAREQLAMRTDLTEARVQVWFQNRR 61
Score = 59.3 bits (142), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 25/41 (60%), Positives = 35/41 (85%)
Query: 61 KQRRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKL 101
K+RR+RTTF++ QL+ELE+ F++T YPD+Y RE+LA RT L
Sbjct: 8 KKRRNRTTFTSYQLEELEKVFQKTHYPDVYAREQLAMRTDL 48
>pdb|3LNQ|A Chain A, Structure Of Aristaless Homeodomain In Complex With Dna
Length = 58
Score = 67.0 bits (162), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 32/54 (59%), Positives = 41/54 (75%)
Query: 134 RSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIFIVRKMRG 187
R RTTF++ QL+ELE+AF RT YPD++TREELA + LTEARIQ F R+ +
Sbjct: 1 RYRTTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQVWFQNRRAKW 54
Score = 53.9 bits (128), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 24/38 (63%), Positives = 31/38 (81%)
Query: 64 RSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKL 101
R RTTF++ QL+ELE+AF RT YPD++TREELA + L
Sbjct: 1 RYRTTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGL 38
>pdb|3A02|A Chain A, Crystal Structure Of Aristaless Homeodomain
Length = 60
Score = 64.7 bits (156), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 29/46 (63%), Positives = 36/46 (78%)
Query: 135 SRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIF 180
S TF++ QL+ELE+AF RT YPD++TREELA + LTEARIQ F
Sbjct: 2 SHMTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQVWF 47
Score = 51.2 bits (121), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 22/37 (59%), Positives = 29/37 (78%)
Query: 65 SRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKL 101
S TF++ QL+ELE+AF RT YPD++TREELA + L
Sbjct: 2 SHMTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGL 38
>pdb|2L7M|P Chain P, Solution Structure Of The Pitx2 Homeodomain R24h Mutant
Length = 68
Score = 62.0 bits (149), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 30/56 (53%), Positives = 39/56 (69%)
Query: 132 QRRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIFIVRKMRG 187
QRR RT F++QQL ELE F+R YPD+ TREE+A T LTEAR++ F R+ +
Sbjct: 3 QRRQRTHFTSQQLQELEATFQRNHYPDMSTREEIAVWTNLTEARVRVWFKNRRAKW 58
Score = 50.8 bits (120), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 24/40 (60%), Positives = 29/40 (72%)
Query: 62 QRRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKL 101
QRR RT F++QQL ELE F+R YPD+ TREE+A T L
Sbjct: 3 QRRQRTHFTSQQLQELEATFQRNHYPDMSTREEIAVWTNL 42
>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 = 61.2 bits (147), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 30/56 (53%), Positives = 40/56 (71%)
Query: 132 QRRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIFIVRKMRG 187
QRR RT F++QQL ELE F+R +YPD+ TREE+A T LTEAR++ F R+ +
Sbjct: 3 QRRQRTHFTSQQLQELEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNRRAKW 58
Score = 50.1 bits (118), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 24/40 (60%), Positives = 30/40 (75%)
Query: 62 QRRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKL 101
QRR RT F++QQL ELE F+R +YPD+ TREE+A T L
Sbjct: 3 QRRQRTHFTSQQLQELEATFQRNRYPDMSTREEIAVWTNL 42
>pdb|2CUE|A Chain A, Solution Structure Of The Homeobox Domain Of The Human
Paired Box Protein Pax-6
Length = 80
Score = 59.3 bits (142), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 26/53 (49%), Positives = 38/53 (71%)
Query: 134 RSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIFIVRKMR 186
R+RT+F+ +Q++ LE+ FERT YPD++ RE LA + L EARIQ F R+ +
Sbjct: 9 RNRTSFTQEQIEALEKEFERTHYPDVFARERLAAKIDLPEARIQVWFSNRRAK 61
Score = 47.0 bits (110), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 19/38 (50%), Positives = 29/38 (76%)
Query: 64 RSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKL 101
R+RT+F+ +Q++ LE+ FERT YPD++ RE LA + L
Sbjct: 9 RNRTSFTQEQIEALEKEFERTHYPDVFARERLAAKIDL 46
>pdb|2DMS|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
Protein Otx2
Length = 80
Score = 57.8 bits (138), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 27/54 (50%), Positives = 37/54 (68%)
Query: 133 RRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIFIVRKMR 186
RR RTTF+ QLD LE F +T+YPDI+ REE+A + L E+R+Q F R+ +
Sbjct: 8 RRERTTFTRAQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQVWFKNRRAK 61
Score = 48.1 bits (113), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 22/39 (56%), Positives = 28/39 (71%)
Query: 63 RRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKL 101
RR RTTF+ QLD LE F +T+YPDI+ REE+A + L
Sbjct: 8 RRERTTFTRAQLDVLEALFAKTRYPDIFMREEVALKINL 46
>pdb|2DMU|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
Protein Goosecoid
Length = 70
Score = 52.0 bits (123), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 23/54 (42%), Positives = 37/54 (68%)
Query: 133 RRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIFIVRKMR 186
RR RT F+ +QL+ LE F+ T+YPD+ TRE+LA++ L E +++ F R+ +
Sbjct: 8 RRHRTIFTDEQLEALENLFQETKYPDVGTREQLARKVHLREEKVEVWFKNRRAK 61
Score = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 20/39 (51%), Positives = 29/39 (74%)
Query: 63 RRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKL 101
RR RT F+ +QL+ LE F+ T+YPD+ TRE+LA++ L
Sbjct: 8 RRHRTIFTDEQLEALENLFQETKYPDVGTREQLARKVHL 46
>pdb|1PDN|C Chain C, Crystal Structure Of A Paired Domain-Dna Complex At 2.5
Angstroms Resolution Reveals Structural Basis For Pax
Developmental Mutations
Length = 128
Score = 44.7 bits (104), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 19/28 (67%), Positives = 26/28 (92%)
Query: 5 DRLIKEGLCDRGSAPSVSAISRLLRGHE 32
++LI+EG+CDR +APSVSAISRL+RG +
Sbjct: 101 EKLIREGVCDRSTAPSVSAISRLVRGRD 128
>pdb|2DMT|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
Protein Barh-Like 1
Length = 80
Score = 41.6 bits (96), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/64 (39%), Positives = 39/64 (60%), Gaps = 1/64 (1%)
Query: 123 EPGIPLKRKQRRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIFIV 182
EPG K K RRSRT F+ QL LE+ FE+ +Y R +LA+ L++ +++T +
Sbjct: 9 EPGTKAK-KGRRSRTVFTELQLMGLEKRFEKQKYLSTPDRIDLAESLGLSQLQVKTWYQN 67
Query: 183 RKMR 186
R+M+
Sbjct: 68 RRMK 71
Score = 33.1 bits (74), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 21/45 (46%), Positives = 27/45 (60%), Gaps = 1/45 (2%)
Query: 53 EPGIPLKRKQRRSRTTFSAQQLDELERAFERTQYPDIYTREELAQ 97
EPG K K RRSRT F+ QL LE+ FE+ +Y R +LA+
Sbjct: 9 EPGTKAK-KGRRSRTVFTELQLMGLEKRFEKQKYLSTPDRIDLAE 52
>pdb|2KT0|A Chain A, Solution Structure Of Human Stem Cell Transcription Factor
Nanog Homeodomain Fragment
Length = 84
Score = 40.8 bits (94), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 44/78 (56%), Gaps = 2/78 (2%)
Query: 110 EQQSSGEGSDCDSEPGIPLKRKQRRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRT 169
+Q +S E S E +P+K+ +++RT FS+ QL L F+R +Y + +EL+
Sbjct: 2 KQPTSAENSVAKKEDKVPVKK--QKTRTVFSSTQLCVLNDRFQRQKYLSLQQMQELSNIL 59
Query: 170 KLTEARIQTIFIVRKMRG 187
L+ +++T F ++M+
Sbjct: 60 NLSYKQVKTWFQNQRMKS 77
Score = 32.3 bits (72), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 30/54 (55%), Gaps = 2/54 (3%)
Query: 43 SDGEGSDCDSEPGIPLKRKQRRSRTTFSAQQLDELERAFERTQYPDIYTREELA 96
+ E S E +P+K+ +++RT FS+ QL L F+R +Y + +EL+
Sbjct: 5 TSAENSVAKKEDKVPVKK--QKTRTVFSSTQLCVLNDRFQRQKYLSLQQMQELS 56
>pdb|2M34|A Chain A, Nmr Structure Of The Homeodomain Transcription Factor Gbx1
From Homo Sapiens
Length = 71
Score = 40.4 bits (93), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 34/56 (60%)
Query: 131 KQRRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIFIVRKMR 186
K RR RT F+++QL ELE+ F +Y + R ++A KL+E +++ F R+ +
Sbjct: 6 KSRRRRTAFTSEQLLELEKEFHCKKYLSLTERSQIAHALKLSEVQVKIWFQNRRAK 61
Score = 33.9 bits (76), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 25/41 (60%)
Query: 61 KQRRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKL 101
K RR RT F+++QL ELE+ F +Y + R ++A KL
Sbjct: 6 KSRRRRTAFTSEQLLELEKEFHCKKYLSLTERSQIAHALKL 46
>pdb|2K40|A Chain A, Nmr Structure Of Hesx-1 Homeodomain Double Mutant R31lE42L
Length = 67
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/48 (43%), Positives = 26/48 (54%)
Query: 133 RRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIF 180
RR RT F+ Q++ LE F YP I E+LAQ+ L RIQ F
Sbjct: 2 RRPRTAFTQNQIEVLENVFRVNCYPGIDILEDLAQKLNLELDRIQIWF 49
Score = 34.7 bits (78), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 17/39 (43%), Positives = 22/39 (56%)
Query: 63 RRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKL 101
RR RT F+ Q++ LE F YP I E+LAQ+ L
Sbjct: 2 RRPRTAFTQNQIEVLENVFRVNCYPGIDILEDLAQKLNL 40
>pdb|2DJN|A Chain A, The Solution Structure Of The Homeobox Domain Of Human
Homeobox Protein Dlx-5
Length = 70
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 30/48 (62%)
Query: 133 RRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIF 180
R+ RT +S+ QL L+R F++TQY + R ELA LT+ +++ F
Sbjct: 8 RKPRTIYSSFQLAALQRRFQKTQYLALPERAELAASLGLTQTQVKIWF 55
Score = 33.1 bits (74), Expect = 0.093, Method: Compositional matrix adjust.
Identities = 16/34 (47%), Positives = 23/34 (67%)
Query: 63 RRSRTTFSAQQLDELERAFERTQYPDIYTREELA 96
R+ RT +S+ QL L+R F++TQY + R ELA
Sbjct: 8 RKPRTIYSSFQLAALQRRFQKTQYLALPERAELA 41
>pdb|2K27|A Chain A, Solution Structure Of Human Pax8 Paired Box Domain
Length = 159
Score = 36.6 bits (83), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 14/25 (56%), Positives = 21/25 (84%)
Query: 5 DRLIKEGLCDRGSAPSVSAISRLLR 29
DRL+ EG+CD + PSVS+I+R++R
Sbjct: 109 DRLLAEGVCDNDTVPSVSSINRIIR 133
>pdb|1IG7|A Chain A, Msx-1 HomeodomainDNA COMPLEX STRUCTURE
Length = 58
Score = 35.4 bits (80), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 29/55 (52%)
Query: 133 RRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIFIVRKMRG 187
R+ RT F+ QL LER F + QY I R E + LTE +++ F R+ +
Sbjct: 1 RKPRTPFTTAQLLALERKFRQKQYLSIAERAEFSSSLSLTETQVKIWFQNRRAKA 55
Score = 28.5 bits (62), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 19/34 (55%)
Query: 63 RRSRTTFSAQQLDELERAFERTQYPDIYTREELA 96
R+ RT F+ QL LER F + QY I R E +
Sbjct: 1 RKPRTPFTTAQLLALERKFRQKQYLSIAERAEFS 34
>pdb|3A01|A Chain A, Crystal Structure Of Aristaless And Clawless Homeodomains
Bo
pdb|3A01|E Chain E, Crystal Structure Of Aristaless And Clawless Homeodomains
Bo
Length = 93
Score = 35.0 bits (79), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 35/54 (64%)
Query: 131 KQRRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIFIVRK 184
K+++ RT+F+ Q+ ELE+ F + +Y R LA+ K+T+A+++T F R+
Sbjct: 16 KRKKPRTSFTRIQVAELEKRFHKQKYLASAERAALARGLKMTDAQVKTWFQNRR 69
>pdb|2DMQ|A Chain A, Solution Structure Of The Homeobox Domain Of LimHOMEOBOX
Protein Lhx9
Length = 80
Score = 35.0 bits (79), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 26/48 (54%)
Query: 133 RRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIF 180
+R RT+F QL ++ F PD ++LAQ+T LT+ +Q F
Sbjct: 8 KRMRTSFKHHQLRTMKSYFAINHNPDAKDLKQLAQKTGLTKRVLQVWF 55
Score = 30.0 bits (66), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 25/51 (49%)
Query: 63 RRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLFPHFLIIIEQQS 113
+R RT+F QL ++ F PD ++LAQ+T L L + Q +
Sbjct: 8 KRMRTSFKHHQLRTMKSYFAINHNPDAKDLKQLAQKTGLTKRVLQVWFQNA 58
>pdb|1B72|A Chain A, Pbx1, Homeobox Protein Hox-B1DNA TERNARY COMPLEX
Length = 97
Score = 34.7 bits (78), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 29/51 (56%)
Query: 136 RTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIFIVRKMR 186
RT F+ +QL ELE+ F +Y R E+A +L E +++ F R+M+
Sbjct: 38 RTNFTTRQLTELEKEFHFNKYLSRARRVEIAATLELNETQVKIWFQNRRMK 88
>pdb|6PAX|A Chain A, Crystal Structure Of The Human Pax-6 Paired Domain-Dna
Complex Reveals A General Model For Pax Protein-Dna
Interactions
Length = 133
Score = 34.3 bits (77), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 17/37 (45%), Positives = 26/37 (70%), Gaps = 5/37 (13%)
Query: 5 DRLIKEGLCDRGSAPSVSAISRLLRGHEGDDTSSEKK 41
DRL+ EG+C + PSVS+I+R+LR + +SEK+
Sbjct: 101 DRLLSEGVCTNDNIPSVSSINRVLR-----NLASEKQ 132
>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 = 33.5 bits (75), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 21/56 (37%), Positives = 30/56 (53%)
Query: 132 QRRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIFIVRKMRG 187
+R+RT ++ QL ELE+ F +Y R ELA LTE I+ F R+M+
Sbjct: 3 NKRTRTAYTRAQLLELEKEFLFNKYISRPRRVELAVMLNLTERHIKIWFQNRRMKW 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 = 33.5 bits (75), Expect = 0.069, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 29/49 (59%)
Query: 132 QRRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIF 180
++R RT FS++QL L+R F +Y R++L+ L EA+I+ F
Sbjct: 3 EKRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWF 51
Score = 26.6 bits (57), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 22/35 (62%)
Query: 62 QRRSRTTFSAQQLDELERAFERTQYPDIYTREELA 96
++R RT FS++QL L+R F +Y R++L+
Sbjct: 3 EKRPRTAFSSEQLARLKREFNENRYLTERRRQQLS 37
>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 = 33.5 bits (75), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 29/49 (59%)
Query: 132 QRRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIF 180
++R RT FS++QL L+R F +Y R++L+ L EA+I+ F
Sbjct: 3 EKRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWF 51
Score = 26.6 bits (57), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 22/35 (62%)
Query: 62 QRRSRTTFSAQQLDELERAFERTQYPDIYTREELA 96
++R RT FS++QL L+R F +Y R++L+
Sbjct: 3 EKRPRTAFSSEQLARLKREFNENRYLTERRRQQLS 37
>pdb|1K78|A Chain A, Pax5(1-149)+ets-1(331-440)+dna
pdb|1K78|E Chain E, Pax5(1-149)+ets-1(331-440)+dna
pdb|1K78|I Chain I, Pax5(1-149)+ets-1(331-440)+dna
pdb|1MDM|A Chain A, Inhibited Fragment Of Ets-1 And Paired Domain Of Pax5
Bound To Dna
Length = 149
Score = 33.5 bits (75), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 13/25 (52%), Positives = 20/25 (80%)
Query: 5 DRLIKEGLCDRGSAPSVSAISRLLR 29
DRL+ E +CD + PSVS+I+R++R
Sbjct: 116 DRLLAERVCDNDTVPSVSSINRIIR 140
>pdb|3A03|A Chain A, Crystal Structure Of Hox11l1 Homeodomain
Length = 56
Score = 33.5 bits (75), Expect = 0.078, Method: Compositional matrix adjust.
Identities = 18/44 (40%), Positives = 28/44 (63%)
Query: 137 TTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIF 180
T+FS Q+ ELER F R +Y R LA+ ++T+A+++T F
Sbjct: 2 TSFSRSQVLELERRFLRQKYLASAERAALAKALRMTDAQVKTWF 45
>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 = 33.5 bits (75), Expect = 0.081, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 29/49 (59%)
Query: 132 QRRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIF 180
++R RT FS++QL L+R F +Y R++L+ L EA+I+ F
Sbjct: 1 EKRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWF 49
>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 = 33.1 bits (74), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 29/49 (59%)
Query: 132 QRRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIF 180
++R RT FS++QL L+R F +Y R++L+ L EA+++ F
Sbjct: 4 EKRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQVKGWF 52
Score = 26.6 bits (57), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 22/35 (62%)
Query: 62 QRRSRTTFSAQQLDELERAFERTQYPDIYTREELA 96
++R RT FS++QL L+R F +Y R++L+
Sbjct: 4 EKRPRTAFSSEQLARLKREFNENRYLTERRRQQLS 38
>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 = 33.1 bits (74), Expect = 0.088, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 29/49 (59%)
Query: 132 QRRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIF 180
++R RT FS++QL L+R F +Y R++L+ L EA+I+ F
Sbjct: 1 EKRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWF 49
>pdb|3HDD|A Chain A, Engrailed Homeodomain Dna Complex
pdb|3HDD|B Chain B, Engrailed Homeodomain Dna Complex
Length = 60
Score = 33.1 bits (74), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 29/49 (59%)
Query: 132 QRRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIF 180
++R RT FS++QL L+R F +Y R++L+ L EA+I+ F
Sbjct: 1 EKRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWF 49
>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 = 33.1 bits (74), Expect = 0.093, Method: Compositional matrix adjust.
Identities = 21/54 (38%), Positives = 29/54 (53%)
Query: 133 RRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIFIVRKMR 186
RR RT F+ QL LE+ F + Y R ELA + L E+ I+ F R+M+
Sbjct: 2 RRYRTAFTRDQLGRLEKEFYKENYVSRPRRCELAAQLNLPESTIKVWFQNRRMK 55
>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 = 33.1 bits (74), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 31/56 (55%), Gaps = 2/56 (3%)
Query: 125 GIPLKRKQRRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIF 180
G+P K+++RR F+ Q ELER F + +Y RE LA +LT +++ F
Sbjct: 4 GLPNKKRKRR--VLFTKAQTYELERRFRQQRYLSAPEREHLASLIRLTPTQVKIWF 57
Score = 31.6 bits (70), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 34/71 (47%), Gaps = 2/71 (2%)
Query: 55 GIPLKRKQRRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLFPHFLIIIEQQSS 114
G+P K+++RR F+ Q ELER F + +Y RE LA +L P + I Q
Sbjct: 4 GLPNKKRKRR--VLFTKAQTYELERRFRQQRYLSAPEREHLASLIRLTPTQVKIWFQNHR 61
Query: 115 GEGSDCDSEPG 125
+ +E G
Sbjct: 62 YKTKRAQNEKG 72
>pdb|3RKQ|A Chain A, Nkx2.5 Homeodomain Dimer Bound To Anf-242 Dna
pdb|3RKQ|B Chain B, Nkx2.5 Homeodomain Dimer Bound To Anf-242 Dna
Length = 58
Score = 32.7 bits (73), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 31/55 (56%)
Query: 133 RRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIFIVRKMRG 187
R+ R FS Q+ ELER F++ +Y R++LA KLT +++ F R+ +
Sbjct: 3 RKPRVLFSQAQVYELERRFKQQRYLSAPERDQLASVLKLTSTQVKIWFQNRRYKS 57
>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 = 32.7 bits (73), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 27/47 (57%)
Query: 134 RSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIF 180
R RT FS++QL L+R F +Y R++L+ L EA+I+ F
Sbjct: 1 RPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWF 47
>pdb|1ENH|A Chain A, Structural Studies Of The Engrailed Homeodomain
Length = 54
Score = 32.3 bits (72), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 27/47 (57%)
Query: 134 RSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIF 180
R RT FS++QL L+R F +Y R++L+ L EA+I+ F
Sbjct: 1 RPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWF 47
>pdb|1B8I|A Chain A, Structure Of The Homeotic UbxEXDDNA TERNARY COMPLEX
Length = 81
Score = 32.0 bits (71), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 20/54 (37%), Positives = 28/54 (51%)
Query: 133 RRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIFIVRKMR 186
RR R T++ Q ELE+ F Y R E+A LTE +I+ F R+M+
Sbjct: 21 RRGRQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALSLTERQIKIWFQNRRMK 74
>pdb|1ZQ3|P Chain P, Nmr Solution Structure Of The Bicoid Homeodomain Bound To
The Consensus Dna Binding Site Taatcc
Length = 68
Score = 31.6 bits (70), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 32/54 (59%)
Query: 133 RRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIFIVRKMR 186
RR+RTTF++ Q+ ELE+ F + +Y +L+ + L A+++ F R+ R
Sbjct: 3 RRTRTTFTSSQIAELEQHFLQGRYLTAPRLADLSAKLALGTAQVKIWFKNRRRR 56
Score = 27.7 bits (60), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 19/24 (79%)
Query: 63 RRSRTTFSAQQLDELERAFERTQY 86
RR+RTTF++ Q+ ELE+ F + +Y
Sbjct: 3 RRTRTTFTSSQIAELEQHFLQGRY 26
>pdb|1QRY|A Chain A, Homeobox Protein Vnd (Ventral Nervous System Defective
Protein)
Length = 80
Score = 31.6 bits (70), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 30/56 (53%), Gaps = 2/56 (3%)
Query: 125 GIPLKRKQRRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIF 180
G+P K+++RR F+ Q ELER F + +Y RE L +LT +++ F
Sbjct: 7 GLPNKKRKRR--VLFTKAQTYELERRFRQQRYLSAPEREHLTSLIRLTPTQVKIWF 60
Score = 29.6 bits (65), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 33/71 (46%), Gaps = 2/71 (2%)
Query: 55 GIPLKRKQRRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLFPHFLIIIEQQSS 114
G+P K+++RR F+ Q ELER F + +Y RE L +L P + I Q
Sbjct: 7 GLPNKKRKRR--VLFTKAQTYELERRFRQQRYLSAPEREHLTSLIRLTPTQVKIWFQNHR 64
Query: 115 GEGSDCDSEPG 125
+ +E G
Sbjct: 65 YKTKRAQNEKG 75
>pdb|1ZTR|A Chain A, Solution Structure Of Engrailed Homeodomain L16a Mutant
Length = 61
Score = 31.2 bits (69), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 28/49 (57%)
Query: 132 QRRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIF 180
++R RT FS++QL +R F +Y R++L+ L EA+I+ F
Sbjct: 3 EKRPRTAFSSEQLARAKREFNENRYLTERRRQQLSSELGLNEAQIKIWF 51
>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 = 31.2 bits (69), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 30/54 (55%)
Query: 133 RRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIFIVRKMR 186
+R RT+++ Q ELE+ F +Y R E+A LTE +I+ F R+M+
Sbjct: 29 KRQRTSYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMK 82
>pdb|1YRN|A Chain A, Crystal Structure Of The Mata1MATALPHA2 HOMEODOMAIN
Heterodimer Bound To Dna
pdb|1F43|A Chain A, Solution Structure Of The Mata1 Homeodomain
Length = 61
Score = 30.0 bits (66), Expect = 0.70, Method: Composition-based stats.
Identities = 17/58 (29%), Positives = 33/58 (56%)
Query: 129 KRKQRRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIFIVRKMR 186
K K + +++ S Q LE+ F R Q + +EE+A++ +T +++ FI ++MR
Sbjct: 2 KEKSPKGKSSISPQARAFLEQVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMR 59
>pdb|1AKH|A Chain A, Mat A1ALPHA2DNA TERNARY COMPLEX
Length = 61
Score = 29.6 bits (65), Expect = 0.90, Method: Composition-based stats.
Identities = 17/58 (29%), Positives = 32/58 (55%)
Query: 129 KRKQRRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIFIVRKMR 186
K K + +++ S Q LE F R Q + +EE+A++ +T +++ FI ++MR
Sbjct: 2 KEKSPKGKSSISPQARAFLEEVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMR 59
>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 = 29.6 bits (65), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 30/55 (54%)
Query: 132 QRRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIFIVRKMR 186
++R R T++ Q ELE+ F +Y R E+A LTE +I+ F R+M+
Sbjct: 2 RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMK 56
>pdb|2L9R|A Chain A, Solution Nmr Structure Of Homeobox Domain Of Homeobox
Protein Nkx-3.1 From Homo Sapiens, Northeast Structural
Genomics Consortium Target Hr6470a
Length = 69
Score = 29.6 bits (65), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 24/44 (54%)
Query: 143 QLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIFIVRKMR 186
Q+ ELER F +Y R LA+ KLTE +++ F R+ +
Sbjct: 15 QVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRRYK 58
>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 = 28.9 bits (63), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 30/55 (54%)
Query: 132 QRRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIFIVRKMR 186
++R R T++ Q ELE+ F +Y R E+A LTE +I+ F R+M+
Sbjct: 2 RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMK 56
>pdb|9ANT|A Chain A, Antennapedia Homeodomain-Dna Complex
pdb|9ANT|B Chain B, Antennapedia Homeodomain-Dna Complex
Length = 62
Score = 28.9 bits (63), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 29/55 (52%)
Query: 133 RRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIFIVRKMRG 187
+R R T++ Q ELE+ F +Y R E+A LTE +I+ F R+M+
Sbjct: 4 KRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKW 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 = 28.1 bits (61), Expect = 2.7, Method: Composition-based stats.
Identities = 15/55 (27%), Positives = 32/55 (58%)
Query: 132 QRRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIFIVRKMR 186
+++ RT FS QL L+ F++ +Y + +EL+ L+ +++T F ++M+
Sbjct: 3 KQKMRTVFSQAQLCALKDRFQKQKYLSLQQMQELSSILNLSYKQVKTWFQNQRMK 57
>pdb|1MH3|A Chain A, Maltose Binding-A1 Homeodomain Protein Chimera, Crystal
Form I
pdb|1MH4|A Chain A, Maltose Binding-A1 Homeodomain Protein Chimera, Crystal
Form Ii
Length = 421
Score = 28.1 bits (61), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 25/40 (62%)
Query: 147 LERAFERTQYPDIYTREELAQRTKLTEARIQTIFIVRKMR 186
LE+ F R Q + +EE+A++ +T +++ FI ++MR
Sbjct: 380 LEQVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMR 419
>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 = 28.1 bits (61), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 21/46 (45%)
Query: 61 KQRRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLFPHFL 106
K R RT + +QL L + PD +E+L + T L P +
Sbjct: 2 KTTRVRTVLNEKQLHTLRTCYAANPRPDALMKEQLVEMTGLSPRVI 47
Score = 27.7 bits (60), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 23/50 (46%)
Query: 131 KQRRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIF 180
K R RT + +QL L + PD +E+L + T L+ I+ F
Sbjct: 2 KTTRVRTVLNEKQLHTLRTCYAANPRPDALMKEQLVEMTGLSPRVIRVWF 51
>pdb|1LE8|A Chain A, Crystal Structure Of The Mata1MATALPHA2-3a Heterodimer
Bound To Dna Complex
Length = 53
Score = 27.7 bits (60), Expect = 3.6, Method: Composition-based stats.
Identities = 15/51 (29%), Positives = 30/51 (58%)
Query: 136 RTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIFIVRKMR 186
+++ S Q LE+ F R Q + +EE+A++ +T +++ FI ++MR
Sbjct: 1 KSSISPQARAFLEQVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMR 51
>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 = 27.7 bits (60), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 30/55 (54%)
Query: 133 RRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIFIVRKMRG 187
+R+R T++ Q ELE+ F +Y R ++A L+E +I+ F R+M+
Sbjct: 4 KRTRQTYTRYQTLELEKEFHFNRYITRRRRIDIANALSLSERQIKIWFQNRRMKS 58
>pdb|1PUF|A Chain A, Crystal Structure Of Hoxa9 And Pbx1 Homeodomains Bound To
Dna
Length = 77
Score = 26.9 bits (58), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 29/57 (50%)
Query: 130 RKQRRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIFIVRKMR 186
R R+ R ++ Q ELE+ F Y R E+A+ LTE +++ F R+M+
Sbjct: 11 RSTRKKRCPYTKHQTLELEKEFLFNMYLTRDRRYEVARLLNLTERQVKIWFQNRRMK 67
>pdb|2LP0|A Chain A, The Solution Structure Of Homeodomain-Protein Complex
Length = 60
Score = 26.9 bits (58), Expect = 6.5, Method: Composition-based stats.
Identities = 17/54 (31%), Positives = 28/54 (51%)
Query: 133 RRSRTTFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIFIVRKMR 186
R+ R ++ Q ELE+ F Y R E+A+ LTE +++ F R+M+
Sbjct: 2 RKKRCPYTKYQTLELEKEFLFNMYLTRDRRYEVARVLNLTERQVKIWFQNRRMK 55
>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 = 26.6 bits (57), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 26/49 (53%)
Query: 138 TFSAQQLDELERAFERTQYPDIYTREELAQRTKLTEARIQTIFIVRKMR 186
T++ Q ELE+ F +Y R E+A LTE +I+ F R+M+
Sbjct: 2 TYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMK 50
>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 = 26.6 bits (57), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 29/57 (50%), Gaps = 3/57 (5%)
Query: 133 RRSRTTFSAQQ---LDELERAFERTQYPDIYTREELAQRTKLTEARIQTIFIVRKMR 186
RR R FS Q L+E + YP +EELA++ +T +++ F +++R
Sbjct: 2 RRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCGITVSQVSNWFGNKRIR 58
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
0.316 0.133 0.380
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,083,617
Number of Sequences: 62578
Number of extensions: 195086
Number of successful extensions: 508
Number of sequences better than 100.0: 68
Number of HSP's better than 100.0 without gapping: 60
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 394
Number of HSP's gapped (non-prelim): 126
length of query: 187
length of database: 14,973,337
effective HSP length: 93
effective length of query: 94
effective length of database: 9,153,583
effective search space: 860436802
effective search space used: 860436802
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 48 (23.1 bits)