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= psy17007
(165 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2DMT|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
Protein Barh-Like 1
Length = 80
Score = 81.3 bits (199), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 37/60 (61%), Positives = 50/60 (83%)
Query: 37 ELGSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
E G+K + R++RTVF++ QL GLEKRFE Q+YLSTP+R++LA +L LS+ QVKTW+QNR
Sbjct: 9 EPGTKAKKGRRSRTVFTELQLMGLEKRFEKQKYLSTPDRIDLAESLGLSQLQVKTWYQNR 68
Score = 64.3 bits (155), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 30/53 (56%), Positives = 43/53 (81%)
Query: 109 ELGSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
E G+K + R++RTVF++ QL GLEKRFE Q+YLSTP+R++LA +L LS+ Q+
Sbjct: 9 EPGTKAKKGRRSRTVFTELQLMGLEKRFEKQKYLSTPDRIDLAESLGLSQLQV 61
>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 = 68.2 bits (165), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 32/52 (61%), Positives = 40/52 (76%)
Query: 45 RRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
RRK R +FS Q+ LE+RF+ QRYLS PER +LA+ L+L+ TQVK WFQNR
Sbjct: 2 RRKPRVLFSQAQVYELERRFKQQRYLSAPERDQLASVLKLTSTQVKIWFQNR 53
Score = 52.0 bits (123), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 25/45 (55%), Positives = 34/45 (75%)
Query: 117 RRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
RRK R +FS Q+ LE+RF+ QRYLS PER +LA+ L+L+ TQ+
Sbjct: 2 RRKPRVLFSQAQVYELERRFKQQRYLSAPERDQLASVLKLTSTQV 46
>pdb|2DJN|A Chain A, The Solution Structure Of The Homeobox Domain Of Human
Homeobox Protein Dlx-5
Length = 70
Score = 67.4 bits (163), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 30/58 (51%), Positives = 41/58 (70%)
Query: 39 GSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
GS RK RT++S QL L++RF+ +YL+ PER ELA +L L++TQVK WFQN+
Sbjct: 1 GSSGSSGRKPRTIYSSFQLAALQRRFQKTQYLALPERAELAASLGLTQTQVKIWFQNK 58
Score = 52.0 bits (123), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 24/51 (47%), Positives = 35/51 (68%)
Query: 111 GSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
GS RK RT++S QL L++RF+ +YL+ PER ELA +L L++TQ+
Sbjct: 1 GSSGSSGRKPRTIYSSFQLAALQRRFQKTQYLALPERAELAASLGLTQTQV 51
>pdb|2E1O|A Chain A, Solution Structure Of Rsgi Ruh-028, A Homeobox Domain
From Human Cdna
Length = 70
Score = 64.3 bits (155), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 31/45 (68%), Positives = 34/45 (75%)
Query: 52 FSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
FS+ Q LEK+FE Q+YLS PER LA LQLSE QVKTWFQNR
Sbjct: 14 FSNDQTIELEKKFETQKYLSPPERKRLAKMLQLSERQVKTWFQNR 58
Score = 46.6 bits (109), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 23/38 (60%), Positives = 27/38 (71%)
Query: 124 FSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
FS+ Q LEK+FE Q+YLS PER LA LQLSE Q+
Sbjct: 14 FSNDQTIELEKKFETQKYLSPPERKRLAKMLQLSERQV 51
>pdb|1FTT|A Chain A, Thyroid Transcription Factor 1 Homeodomain (Rattus
Norvegicus)
Length = 68
Score = 62.0 bits (149), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 29/51 (56%), Positives = 37/51 (72%)
Query: 45 RRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQN 95
RRK R +FS Q+ LE+RF+ Q+YLS PER LA+ + L+ TQVK WFQN
Sbjct: 2 RRKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQVKIWFQN 52
Score = 47.4 bits (111), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 23/45 (51%), Positives = 32/45 (71%)
Query: 117 RRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
RRK R +FS Q+ LE+RF+ Q+YLS PER LA+ + L+ TQ+
Sbjct: 2 RRKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQV 46
>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 = 60.8 bits (146), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 28/53 (52%), Positives = 39/53 (73%)
Query: 44 RRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
+R+K RT F+ Q+ LEKRF Q+YL++ ER LA L++++ QVKTWFQNR
Sbjct: 16 KRKKPRTSFTRIQVAELEKRFHKQKYLASAERAALARGLKMTDAQVKTWFQNR 68
Score = 42.7 bits (99), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 20/46 (43%), Positives = 32/46 (69%)
Query: 116 RRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
+R+K RT F+ Q+ LEKRF Q+YL++ ER LA L++++ Q+
Sbjct: 16 KRKKPRTSFTRIQVAELEKRFHKQKYLASAERAALARGLKMTDAQV 61
>pdb|2M34|A Chain A, Nmr Structure Of The Homeodomain Transcription Factor
Gbx1 From Homo Sapiens
Length = 71
Score = 60.5 bits (145), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 29/51 (56%), Positives = 36/51 (70%)
Query: 46 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
R+ RT F+ QL LEK F ++YLS ER ++A AL+LSE QVK WFQNR
Sbjct: 8 RRRRTAFTSEQLLELEKEFHCKKYLSLTERSQIAHALKLSEVQVKIWFQNR 58
Score = 44.3 bits (103), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 22/44 (50%), Positives = 30/44 (68%)
Query: 118 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
R+ RT F+ QL LEK F ++YLS ER ++A AL+LSE Q+
Sbjct: 8 RRRRTAFTSEQLLELEKEFHCKKYLSLTERSQIAHALKLSEVQV 51
>pdb|1IG7|A Chain A, Msx-1 HomeodomainDNA COMPLEX STRUCTURE
Length = 58
Score = 59.7 bits (143), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 28/51 (54%), Positives = 37/51 (72%)
Query: 46 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
RK RT F+ QL LE++F ++YLS ER E +++L L+ETQVK WFQNR
Sbjct: 1 RKPRTPFTTAQLLALERKFRQKQYLSIAERAEFSSSLSLTETQVKIWFQNR 51
Score = 43.5 bits (101), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 21/44 (47%), Positives = 31/44 (70%)
Query: 118 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
RK RT F+ QL LE++F ++YLS ER E +++L L+ETQ+
Sbjct: 1 RKPRTPFTTAQLLALERKFRQKQYLSIAERAEFSSSLSLTETQV 44
>pdb|1B72|A Chain A, Pbx1, Homeobox Protein Hox-B1DNA TERNARY COMPLEX
Length = 97
Score = 59.3 bits (142), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 29/48 (60%), Positives = 34/48 (70%)
Query: 49 RTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
RT F+ QLT LEK F +YLS RVE+A L+L+ETQVK WFQNR
Sbjct: 38 RTNFTTRQLTELEKEFHFNKYLSRARRVEIAATLELNETQVKIWFQNR 85
Score = 43.5 bits (101), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 22/41 (53%), Positives = 28/41 (68%)
Query: 121 RTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
RT F+ QLT LEK F +YLS RVE+A L+L+ETQ+
Sbjct: 38 RTNFTTRQLTELEKEFHFNKYLSRARRVEIAATLELNETQV 78
>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 = 59.3 bits (142), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 28/52 (53%), Positives = 37/52 (71%)
Query: 44 RRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQN 95
++RK R +F+ Q LE+RF QRYLS PER LA+ ++L+ TQVK WFQN
Sbjct: 8 KKRKRRVLFTKAQTYELERRFRQQRYLSAPEREHLASLIRLTPTQVKIWFQN 59
Score = 44.7 bits (104), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/46 (47%), Positives = 32/46 (69%)
Query: 116 RRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
++RK R +F+ Q LE+RF QRYLS PER LA+ ++L+ TQ+
Sbjct: 8 KKRKRRVLFTKAQTYELERRFRQQRYLSAPEREHLASLIRLTPTQV 53
>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 = 58.9 bits (141), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 28/52 (53%), Positives = 37/52 (71%)
Query: 45 RRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
++K RTVFS QL L+ RF+ Q+YLS + EL++ L LS QVKTWFQN+
Sbjct: 3 KQKMRTVFSQAQLCALKDRFQKQKYLSLQQMQELSSILNLSYKQVKTWFQNQ 54
Score = 42.7 bits (99), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 21/45 (46%), Positives = 30/45 (66%)
Query: 117 RRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
++K RTVFS QL L+ RF+ Q+YLS + EL++ L LS Q+
Sbjct: 3 KQKMRTVFSQAQLCALKDRFQKQKYLSLQQMQELSSILNLSYKQV 47
>pdb|1QRY|A Chain A, Homeobox Protein Vnd (Ventral Nervous System Defective
Protein)
Length = 80
Score = 57.4 bits (137), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 27/52 (51%), Positives = 36/52 (69%)
Query: 44 RRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQN 95
++RK R +F+ Q LE+RF QRYLS PER L + ++L+ TQVK WFQN
Sbjct: 11 KKRKRRVLFTKAQTYELERRFRQQRYLSAPEREHLTSLIRLTPTQVKIWFQN 62
Score = 43.1 bits (100), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 21/46 (45%), Positives = 31/46 (67%)
Query: 116 RRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
++RK R +F+ Q LE+RF QRYLS PER L + ++L+ TQ+
Sbjct: 11 KKRKRRVLFTKAQTYELERRFRQQRYLSAPEREHLTSLIRLTPTQV 56
>pdb|3A03|A Chain A, Crystal Structure Of Hox11l1 Homeodomain
Length = 56
Score = 56.6 bits (135), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 26/47 (55%), Positives = 35/47 (74%)
Query: 50 TVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
T FS Q+ LE+RF Q+YL++ ER LA AL++++ QVKTWFQNR
Sbjct: 2 TSFSRSQVLELERRFLRQKYLASAERAALAKALRMTDAQVKTWFQNR 48
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 28/40 (70%)
Query: 122 TVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
T FS Q+ LE+RF Q+YL++ ER LA AL++++ Q+
Sbjct: 2 TSFSRSQVLELERRFLRQKYLASAERAALAKALRMTDAQV 41
>pdb|2KT0|A Chain A, Solution Structure Of Human Stem Cell Transcription
Factor Nanog Homeodomain Fragment
Length = 84
Score = 56.6 bits (135), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 28/53 (52%), Positives = 36/53 (67%)
Query: 44 RRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
+++K RTVFS QL L RF+ Q+YLS + EL+ L LS QVKTWFQN+
Sbjct: 21 KKQKTRTVFSSTQLCVLNDRFQRQKYLSLQQMQELSNILNLSYKQVKTWFQNQ 73
Score = 40.4 bits (93), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 21/46 (45%), Positives = 29/46 (63%)
Query: 116 RRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
+++K RTVFS QL L RF+ Q+YLS + EL+ L LS Q+
Sbjct: 21 KKQKTRTVFSSTQLCVLNDRFQRQKYLSLQQMQELSNILNLSYKQV 66
>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 = 55.8 bits (133), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 25/41 (60%), Positives = 31/41 (75%)
Query: 56 QLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
Q+ LE++F Q+YLS PER LA L+L+ETQVK WFQNR
Sbjct: 15 QVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNR 55
Score = 39.7 bits (91), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 18/34 (52%), Positives = 25/34 (73%)
Query: 128 QLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
Q+ LE++F Q+YLS PER LA L+L+ETQ+
Sbjct: 15 QVIELERKFSHQKYLSAPERAHLAKNLKLTETQV 48
>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 = 54.3 bits (129), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 25/51 (49%), Positives = 33/51 (64%)
Query: 46 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
++ RT ++ QL LEK F +Y+S P RVELA L L+E +K WFQNR
Sbjct: 4 KRTRTAYTRAQLLELEKEFLFNKYISRPRRVELAVMLNLTERHIKIWFQNR 54
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/44 (43%), Positives = 27/44 (61%)
Query: 118 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
++ RT ++ QL LEK F +Y+S P RVELA L L+E +
Sbjct: 4 KRTRTAYTRAQLLELEKEFLFNKYISRPRRVELAVMLNLTERHI 47
>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 = 54.3 bits (129), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 26/51 (50%), Positives = 32/51 (62%)
Query: 46 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
R+ RT F+ QL LEK F + Y+S P R ELA L L E+ +K WFQNR
Sbjct: 2 RRYRTAFTRDQLGRLEKEFYKENYVSRPRRCELAAQLNLPESTIKVWFQNR 52
Score = 38.9 bits (89), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/44 (45%), Positives = 26/44 (59%)
Query: 118 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
R+ RT F+ QL LEK F + Y+S P R ELA L L E+ +
Sbjct: 2 RRYRTAFTRDQLGRLEKEFYKENYVSRPRRCELAAQLNLPESTI 45
>pdb|1B8I|A Chain A, Structure Of The Homeotic UbxEXDDNA TERNARY COMPLEX
Length = 81
Score = 52.8 bits (125), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 24/52 (46%), Positives = 33/52 (63%)
Query: 45 RRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
RR+ R ++ +Q LEK F YL+ R+E+A AL L+E Q+K WFQNR
Sbjct: 20 RRRGRQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALSLTERQIKIWFQNR 71
Score = 37.7 bits (86), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 27/45 (60%)
Query: 117 RRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
RR+ R ++ +Q LEK F YL+ R+E+A AL L+E Q+
Sbjct: 20 RRRGRQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALSLTERQI 64
>pdb|9ANT|A Chain A, Antennapedia Homeodomain-Dna Complex
pdb|9ANT|B Chain B, Antennapedia Homeodomain-Dna Complex
Length = 62
Score = 52.4 bits (124), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 24/52 (46%), Positives = 34/52 (65%)
Query: 45 RRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
R++ R ++ +Q LEK F RYL+ R+E+A AL L+E Q+K WFQNR
Sbjct: 3 RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNR 54
Score = 37.4 bits (85), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 28/45 (62%)
Query: 117 RRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
R++ R ++ +Q LEK F RYL+ R+E+A AL L+E Q+
Sbjct: 3 RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQI 47
>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 = 52.4 bits (124), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 24/52 (46%), Positives = 34/52 (65%)
Query: 45 RRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
R++ R ++ +Q LEK F RYL+ R+E+A AL L+E Q+K WFQNR
Sbjct: 2 RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNR 53
Score = 37.4 bits (85), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 28/45 (62%)
Query: 117 RRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
R++ R ++ +Q LEK F RYL+ R+E+A AL L+E Q+
Sbjct: 2 RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQI 46
>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 = 51.6 bits (122), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 24/51 (47%), Positives = 34/51 (66%)
Query: 46 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
++ RT ++ +Q LEK F RYL+ R+E+A AL L+E Q+K WFQNR
Sbjct: 29 KRQRTSYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNR 79
Score = 37.0 bits (84), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 18/44 (40%), Positives = 28/44 (63%)
Query: 118 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
++ RT ++ +Q LEK F RYL+ R+E+A AL L+E Q+
Sbjct: 29 KRQRTSYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQI 72
>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 = 51.6 bits (122), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 24/52 (46%), Positives = 34/52 (65%)
Query: 45 RRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
R++ R ++ +Q LEK F RYL+ R+E+A AL L+E Q+K WFQNR
Sbjct: 2 RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNR 53
Score = 37.0 bits (84), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 28/45 (62%)
Query: 117 RRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
R++ R ++ +Q LEK F RYL+ R+E+A AL L+E Q+
Sbjct: 2 RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQI 46
>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 = 51.2 bits (121), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 22/51 (43%), Positives = 33/51 (64%)
Query: 46 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
++ R ++ +Q LEK F RY++ R+++A AL LSE Q+K WFQNR
Sbjct: 4 KRTRQTYTRYQTLELEKEFHFNRYITRRRRIDIANALSLSERQIKIWFQNR 54
Score = 35.8 bits (81), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 27/44 (61%)
Query: 118 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
++ R ++ +Q LEK F RY++ R+++A AL LSE Q+
Sbjct: 4 KRTRQTYTRYQTLELEKEFHFNRYITRRRRIDIANALSLSERQI 47
>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 = 49.3 bits (116), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 22/51 (43%), Positives = 33/51 (64%)
Query: 46 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
++ RT FS QL L++ F RYL+ R +L++ L L+E Q+K WFQN+
Sbjct: 4 KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNK 54
Score = 35.4 bits (80), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 27/44 (61%)
Query: 118 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
++ RT FS QL L++ F RYL+ R +L++ L L+E Q+
Sbjct: 4 KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQI 47
>pdb|3HDD|A Chain A, Engrailed Homeodomain Dna Complex
pdb|3HDD|B Chain B, Engrailed Homeodomain Dna Complex
Length = 60
Score = 49.3 bits (116), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 22/51 (43%), Positives = 33/51 (64%)
Query: 46 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
++ RT FS QL L++ F RYL+ R +L++ L L+E Q+K WFQN+
Sbjct: 2 KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNK 52
Score = 35.0 bits (79), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 27/44 (61%)
Query: 118 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
++ RT FS QL L++ F RYL+ R +L++ L L+E Q+
Sbjct: 2 KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQI 45
>pdb|1ENH|A Chain A, Structural Studies Of The Engrailed Homeodomain
Length = 54
Score = 48.9 bits (115), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 22/48 (45%), Positives = 31/48 (64%)
Query: 49 RTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
RT FS QL L++ F RYL+ R +L++ L L+E Q+K WFQN+
Sbjct: 3 RTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNK 50
Score = 35.0 bits (79), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 25/41 (60%)
Query: 121 RTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
RT FS QL L++ F RYL+ R +L++ L L+E Q+
Sbjct: 3 RTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQI 43
>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 = 48.9 bits (115), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 22/50 (44%), Positives = 32/50 (64%)
Query: 46 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQN 95
++ RT FS QL L++ F RYL+ R +L++ L L+E Q+K WFQN
Sbjct: 2 KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQN 51
Score = 35.4 bits (80), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 27/44 (61%)
Query: 118 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
++ RT FS QL L++ F RYL+ R +L++ L L+E Q+
Sbjct: 2 KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQI 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 = 48.9 bits (115), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 22/50 (44%), Positives = 32/50 (64%)
Query: 46 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQN 95
++ RT FS QL L++ F RYL+ R +L++ L L+E Q+K WFQN
Sbjct: 2 KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQN 51
Score = 35.0 bits (79), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 27/44 (61%)
Query: 118 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
++ RT FS QL L++ F RYL+ R +L++ L L+E Q+
Sbjct: 2 KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQI 45
>pdb|1PUF|A Chain A, Crystal Structure Of Hoxa9 And Pbx1 Homeodomains Bound
To Dna
Length = 77
Score = 48.5 bits (114), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/51 (49%), Positives = 30/51 (58%)
Query: 46 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
RK R ++ HQ LEK F YL+ R E+A L L+E QVK WFQNR
Sbjct: 14 RKKRCPYTKHQTLELEKEFLFNMYLTRDRRYEVARLLNLTERQVKIWFQNR 64
Score = 32.7 bits (73), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 18/44 (40%), Positives = 24/44 (54%)
Query: 118 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
RK R ++ HQ LEK F YL+ R E+A L L+E Q+
Sbjct: 14 RKKRCPYTKHQTLELEKEFLFNMYLTRDRRYEVARLLNLTERQV 57
>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 = 48.1 bits (113), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 22/46 (47%), Positives = 30/46 (65%)
Query: 51 VFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
++ +Q LEK F RYL+ R+E+A AL L+E Q+K WFQNR
Sbjct: 2 TYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNR 47
Score = 33.5 bits (75), Expect = 0.064, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 24/39 (61%)
Query: 123 VFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
++ +Q LEK F RYL+ R+E+A AL L+E Q+
Sbjct: 2 TYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQI 40
>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 = 48.1 bits (113), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 21/48 (43%), Positives = 31/48 (64%)
Query: 49 RTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
RT FS QL L++ F RYL+ R +L++ L L+E Q+K WF+N+
Sbjct: 7 RTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFKNK 54
Score = 35.4 bits (80), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 25/41 (60%)
Query: 121 RTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
RT FS QL L++ F RYL+ R +L++ L L+E Q+
Sbjct: 7 RTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQI 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 = 47.8 bits (112), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 22/50 (44%), Positives = 32/50 (64%)
Query: 46 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQN 95
++ RT FS QL L++ F RYL+ R +L++ L L+E QVK WF+N
Sbjct: 5 KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQVKGWFKN 54
Score = 35.0 bits (79), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 27/44 (61%)
Query: 118 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
++ RT FS QL L++ F RYL+ R +L++ L L+E Q+
Sbjct: 5 KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQV 48
>pdb|2LP0|A Chain A, The Solution Structure Of Homeodomain-Protein Complex
Length = 60
Score = 47.4 bits (111), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 24/51 (47%), Positives = 30/51 (58%)
Query: 46 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
RK R ++ +Q LEK F YL+ R E+A L L+E QVK WFQNR
Sbjct: 2 RKKRCPYTKYQTLELEKEFLFNMYLTRDRRYEVARVLNLTERQVKIWFQNR 52
Score = 31.2 bits (69), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 24/44 (54%)
Query: 118 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
RK R ++ +Q LEK F YL+ R E+A L L+E Q+
Sbjct: 2 RKKRCPYTKYQTLELEKEFLFNMYLTRDRRYEVARVLNLTERQV 45
>pdb|1ZQ3|P Chain P, Nmr Solution Structure Of The Bicoid Homeodomain Bound
To The Consensus Dna Binding Site Taatcc
Length = 68
Score = 47.4 bits (111), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 22/51 (43%), Positives = 30/51 (58%)
Query: 46 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
R+ RT F+ Q+ LE+ F RYL+ P +L+ L L QVK WF+NR
Sbjct: 3 RRTRTTFTSSQIAELEQHFLQGRYLTAPRLADLSAKLALGTAQVKIWFKNR 53
Score = 32.7 bits (73), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 24/44 (54%)
Query: 118 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
R+ RT F+ Q+ LE+ F RYL+ P +L+ L L Q+
Sbjct: 3 RRTRTTFTSSQIAELEQHFLQGRYLTAPRLADLSAKLALGTAQV 46
>pdb|1ZTR|A Chain A, Solution Structure Of Engrailed Homeodomain L16a Mutant
Length = 61
Score = 47.0 bits (110), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 21/48 (43%), Positives = 30/48 (62%)
Query: 49 RTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
RT FS QL ++ F RYL+ R +L++ L L+E Q+K WFQN+
Sbjct: 7 RTAFSSEQLARAKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNK 54
Score = 33.1 bits (74), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 24/41 (58%)
Query: 121 RTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
RT FS QL ++ F RYL+ R +L++ L L+E Q+
Sbjct: 7 RTAFSSEQLARAKREFNENRYLTERRRQQLSSELGLNEAQI 47
>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 = 47.0 bits (110), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 21/48 (43%), Positives = 30/48 (62%)
Query: 49 RTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
RT FS QL L++ F RYL+ R +L++ L L+E Q+K WF N+
Sbjct: 3 RTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFANK 50
Score = 35.4 bits (80), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 25/41 (60%)
Query: 121 RTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
RT FS QL L++ F RYL+ R +L++ L L+E Q+
Sbjct: 3 RTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQI 43
>pdb|2DMU|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
Protein Goosecoid
Length = 70
Score = 47.0 bits (110), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 23/58 (39%), Positives = 33/58 (56%)
Query: 39 GSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
GS R+ RT+F+D QL LE F+ +Y R +LA + L E +V+ WF+NR
Sbjct: 1 GSSGSSGRRHRTIFTDEQLEALENLFQETKYPDVGTREQLARKVHLREEKVEVWFKNR 58
Score = 33.9 bits (76), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 27/51 (52%)
Query: 111 GSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
GS R+ RT+F+D QL LE F+ +Y R +LA + L E ++
Sbjct: 1 GSSGSSGRRHRTIFTDEQLEALENLFQETKYPDVGTREQLARKVHLREEKV 51
>pdb|2CRA|A Chain A, Solution Structure Of The Homeobox Domain Of Human Homeo
Box B13
Length = 70
Score = 46.6 bits (109), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 22/58 (37%), Positives = 34/58 (58%)
Query: 39 GSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
GS RK R +S QL LE+ + A ++++ +R +++ A LSE Q+ WFQNR
Sbjct: 1 GSSGSSGRKKRIPYSKGQLRELEREYAANKFITKDKRRKISAATSLSERQITIWFQNR 58
Score = 33.5 bits (75), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 29/51 (56%)
Query: 111 GSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
GS RK R +S QL LE+ + A ++++ +R +++ A LSE Q+
Sbjct: 1 GSSGSSGRKKRIPYSKGQLRELEREYAANKFITKDKRRKISAATSLSERQI 51
>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 = 45.1 bits (105), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 23/53 (43%), Positives = 33/53 (62%)
Query: 44 RRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
++R++RT FS QL LE+ FE +Y R ELA L+E +++ WFQNR
Sbjct: 17 KQRRSRTTFSASQLDELERAFERTQYPDIYTREELAQRTNLTEARIQVWFQNR 69
Score = 30.8 bits (68), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 27/46 (58%)
Query: 116 RRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
++R++RT FS QL LE+ FE +Y R ELA L+E ++
Sbjct: 17 KQRRSRTTFSASQLDELERAFERTQYPDIYTREELAQRTNLTEARI 62
>pdb|2M0C|A Chain A, Solution Nmr Structure Of Homeobox Domain Of Human Alx4,
Northeast Structural Genomics Consortium (Nesg) Target
Hr4490c
Length = 75
Score = 44.3 bits (103), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 23/57 (40%), Positives = 33/57 (57%)
Query: 40 SKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
S ++R+ RT F+ +QL LEK F+ Y R +LA L+E +V+ WFQNR
Sbjct: 4 SNKGKKRRNRTTFTSYQLEELEKVFQKTHYPDVYAREQLAMRTDLTEARVQVWFQNR 60
Score = 29.6 bits (65), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 27/50 (54%)
Query: 112 SKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
S ++R+ RT F+ +QL LEK F+ Y R +LA L+E ++
Sbjct: 4 SNKGKKRRNRTTFTSYQLEELEKVFQKTHYPDVYAREQLAMRTDLTEARV 53
>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 = 41.6 bits (96), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/53 (41%), Positives = 31/53 (58%)
Query: 44 RRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
++R+ RT F+ QL LEK F Y R ELA + L+E +++ WFQNR
Sbjct: 5 KQRRYRTTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQVWFQNR 57
Score = 28.1 bits (61), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 25/46 (54%)
Query: 116 RRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
++R+ RT F+ QL LEK F Y R ELA + L+E ++
Sbjct: 5 KQRRYRTTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARI 50
>pdb|2L7F|P Chain P, Solution Structure Of The Pitx2 Homeodomain
pdb|2LKX|A Chain A, Nmr Structure Of The Homeodomain Of Pitx2 In Complex
With A Taatcc Dna Binding Site
Length = 68
Score = 41.6 bits (96), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/51 (41%), Positives = 29/51 (56%)
Query: 46 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
R+ RT F+ QL LE F+ RY R E+A L+E +V+ WF+NR
Sbjct: 4 RRQRTHFTSQQLQELEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNR 54
Score = 28.9 bits (63), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%)
Query: 118 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
R+ RT F+ QL LE F+ RY R E+A L+E ++
Sbjct: 4 RRQRTHFTSQQLQELEATFQRNRYPDMSTREEIAVWTNLTEARV 47
>pdb|2DMS|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
Protein Otx2
Length = 80
Score = 41.6 bits (96), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/58 (39%), Positives = 31/58 (53%)
Query: 39 GSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
GS R+ RT F+ QL LE F RY R E+A + L E++V+ WF+NR
Sbjct: 1 GSSGSSGRRERTTFTRAQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQVWFKNR 58
Score = 28.1 bits (61), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 25/51 (49%)
Query: 111 GSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
GS R+ RT F+ QL LE F RY R E+A + L E+++
Sbjct: 1 GSSGSSGRRERTTFTRAQLDVLEALFAKTRYPDIFMREEVALKINLPESRV 51
>pdb|3CMY|A Chain A, Structure Of A Homeodomain In Complex With Dna
Length = 61
Score = 40.8 bits (94), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 22/51 (43%), Positives = 30/51 (58%)
Query: 46 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
R++RT F+ QL LE+ FE Y R ELA +L+E +V+ WF NR
Sbjct: 3 RRSRTTFTAEQLEELERAFERTHYPDIYTREELAQRAKLTEARVQVWFSNR 53
Score = 28.9 bits (63), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 25/44 (56%)
Query: 118 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
R++RT F+ QL LE+ FE Y R ELA +L+E ++
Sbjct: 3 RRSRTTFTAEQLEELERAFERTHYPDIYTREELAQRAKLTEARV 46
>pdb|3LNQ|A Chain A, Structure Of Aristaless Homeodomain In Complex With Dna
Length = 58
Score = 40.0 bits (92), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 21/48 (43%), Positives = 27/48 (56%)
Query: 49 RTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
RT F+ QL LEK F Y R ELA + L+E +++ WFQNR
Sbjct: 3 RTTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQVWFQNR 50
Score = 26.6 bits (57), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 21/41 (51%)
Query: 121 RTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
RT F+ QL LEK F Y R ELA + L+E ++
Sbjct: 3 RTTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARI 43
>pdb|2L7Z|A Chain A, Nmr Structure Of A13 Homedomain
Length = 73
Score = 40.0 bits (92), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 29/51 (56%)
Query: 46 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
RK R ++ QL LE+ + ++++ +R ++ LSE QV WFQNR
Sbjct: 8 RKKRVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQVTIWFQNR 58
Score = 26.2 bits (56), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 12/44 (27%), Positives = 24/44 (54%)
Query: 118 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
RK R ++ QL LE+ + ++++ +R ++ LSE Q+
Sbjct: 8 RKKRVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQV 51
>pdb|2CUE|A Chain A, Solution Structure Of The Homeobox Domain Of The Human
Paired Box Protein Pax-6
Length = 80
Score = 39.7 bits (91), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 29/58 (50%)
Query: 39 GSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
GS ++ RT F+ Q+ LEK FE Y R LA + L E +++ WF NR
Sbjct: 1 GSSGSSGQRNRTSFTQEQIEALEKEFERTHYPDVFARERLAAKIDLPEARIQVWFSNR 58
Score = 28.5 bits (62), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 24/51 (47%)
Query: 111 GSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
GS ++ RT F+ Q+ LEK FE Y R LA + L E ++
Sbjct: 1 GSSGSSGQRNRTSFTQEQIEALEKEFERTHYPDVFARERLAAKIDLPEARI 51
>pdb|2LD5|A Chain A, Solution Nmr-Derived Complex Structure Of Hoxa13 Dna
Binding Domain Bound To Dna
Length = 67
Score = 39.7 bits (91), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 29/51 (56%)
Query: 46 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
RK R ++ QL LE+ + ++++ +R ++ LSE QV WFQNR
Sbjct: 2 RKKRVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQVTIWFQNR 52
Score = 26.2 bits (56), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 12/44 (27%), Positives = 24/44 (54%)
Query: 118 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
RK R ++ QL LE+ + ++++ +R ++ LSE Q+
Sbjct: 2 RKKRVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQV 45
>pdb|2L7M|P Chain P, Solution Structure Of The Pitx2 Homeodomain R24h Mutant
Length = 68
Score = 38.9 bits (89), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/51 (39%), Positives = 28/51 (54%)
Query: 46 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
R+ RT F+ QL LE F+ Y R E+A L+E +V+ WF+NR
Sbjct: 4 RRQRTHFTSQQLQELEATFQRNHYPDMSTREEIAVWTNLTEARVRVWFKNR 54
>pdb|3A02|A Chain A, Crystal Structure Of Aristaless Homeodomain
Length = 60
Score = 37.0 bits (84), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 25/45 (55%)
Query: 52 FSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
F+ QL LEK F Y R ELA + L+E +++ WFQNR
Sbjct: 6 FTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQVWFQNR 50
>pdb|2K40|A Chain A, Nmr Structure Of Hesx-1 Homeodomain Double Mutant
R31lE42L
Length = 67
Score = 35.8 bits (81), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 26/51 (50%)
Query: 46 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
R+ RT F+ +Q+ LE F Y +LA L L +++ WFQNR
Sbjct: 2 RRPRTAFTQNQIEVLENVFRVNCYPGIDILEDLAQKLNLELDRIQIWFQNR 52
>pdb|4EGC|A Chain A, Crystal Structure Of Mbp-fused Human Six1 Bound To Human
Eya2 Eya Domain
Length = 559
Score = 35.0 bits (79), Expect = 0.019, Method: Composition-based stats.
Identities = 20/57 (35%), Positives = 29/57 (50%), Gaps = 8/57 (14%)
Query: 40 SKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
+ +C + K+R V L + + Y S E+ ELA A L+ TQV WF+NR
Sbjct: 497 TSYCFKEKSRGV--------LREWYAHNPYPSPREKRELAEATGLTTTQVSNWFKNR 545
>pdb|2P81|A Chain A, Engrailed Homeodomain Helix-Turn-Helix Motif
Length = 44
Score = 35.0 bits (79), Expect = 0.019, Method: Composition-based stats.
Identities = 15/36 (41%), Positives = 24/36 (66%)
Query: 61 EKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
++ F RYL+ R +L++ L L+E Q+K WFQN+
Sbjct: 2 KREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNK 37
>pdb|1POG|A Chain A, Solution Structure Of The Oct-1 Pou-Homeo Domain
Determined By Nmr And Restrained Molecular Dynamics
Length = 67
Score = 33.5 bits (75), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 27/55 (49%)
Query: 42 HCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
H RRRK RT + LEK F + ++ E +A L + + ++ WF NR
Sbjct: 4 HMRRRKKRTSIETNIRVALEKSFLENQKPTSEEITMIADQLNMEKEVIRVWFCNR 58
>pdb|2DA2|A Chain A, Solution Structure Of The Second Homeobox Domain Of At-
Binding Transcription Factor 1 (Atbf1)
Length = 70
Score = 33.1 bits (74), Expect = 0.069, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 24/46 (52%)
Query: 50 TVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQN 95
T F+D+QL L+ F+A Y E +L+ L L + WFQN
Sbjct: 12 TRFTDYQLRVLQDFFDANAYPKDDEFEQLSNLLNLPTRVIVVWFQN 57
>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 = 32.7 bits (73), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 26/54 (48%)
Query: 43 CRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
RRRK RT + LEK F + ++ E +A L + + ++ WF NR
Sbjct: 98 SRRRKKRTSIETNIRVALEKSFLENQKPTSEEITMIADQLNMEKEVIRVWFSNR 151
>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 = 32.3 bits (72), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 26/59 (44%)
Query: 38 LGSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
+G + ++RK RT F+ + L FE + E E A L V+ WF NR
Sbjct: 86 VGGEPSKKRKRRTSFTPQAIEALNAYFEKNPLPTGQEITEXAKELNYDREVVRVWFSNR 144
>pdb|1AU7|A Chain A, Pit-1 MutantDNA COMPLEX
pdb|1AU7|B Chain B, Pit-1 MutantDNA COMPLEX
Length = 146
Score = 32.0 bits (71), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 35/69 (50%), Gaps = 4/69 (5%)
Query: 28 GSLFSTSPHELGSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSET 87
G+L++ ++G+ R+RK RT S LE+ F S+ E + +A L L +
Sbjct: 74 GALYN---EKVGANE-RKRKRRTTISIAAKDALERHFGEHSKPSSQEIMRMAEELNLEKE 129
Query: 88 QVKTWFQNR 96
V+ WF NR
Sbjct: 130 VVRVWFCNR 138
>pdb|1CQT|A Chain A, Crystal Structure Of A Ternary Complex Containing An Oca-B
Peptide, The Oct-1 Pou Domain, And An Octamer Element
pdb|1CQT|B Chain B, Crystal Structure Of A Ternary Complex Containing An Oca-B
Peptide, The Oct-1 Pou Domain, And An Octamer Element
Length = 163
Score = 32.0 bits (71), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 26/53 (49%)
Query: 44 RRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
RRRK RT + LEK F + ++ E +A L + + ++ WF NR
Sbjct: 102 RRRKKRTSIETNIRVALEKSFLENQKPTSEEITMIADQLNMEKEVIRVWFCNR 154
>pdb|1OCT|C Chain C, Crystal Structure Of The Oct-1 Pou Domain Bound To An
Octamer Site: Dna Recognition With Tethered Dna-Binding
Modules
Length = 156
Score = 32.0 bits (71), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 26/53 (49%)
Query: 44 RRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
RRRK RT + LEK F + ++ E +A L + + ++ WF NR
Sbjct: 95 RRRKKRTSIETNIRVALEKSFLENQKPTSEEITMIADQLNMEKEVIRVWFCNR 147
>pdb|1E3O|C Chain C, Crystal Structure Of Oct-1 Pou Dimer Bound To More
Length = 160
Score = 31.2 bits (69), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 26/54 (48%)
Query: 43 CRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
RRRK RT + LEK F + ++ + +A L + + ++ WF NR
Sbjct: 99 SRRRKKRTSIETNIRVALEKSFMENQKPTSEDITLIAEQLNMEKEVIRVWFSNR 152
>pdb|2DA1|A Chain A, Solution Structure Of The First Homeobox Domain Of At-
Binding Transcription Factor 1 (Atbf1)
Length = 70
Score = 30.4 bits (67), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 28/59 (47%)
Query: 39 GSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNRL 97
GS ++ RT +D QL L + F+ S + E+A L + +K WF+N L
Sbjct: 1 GSSGSSGKRPRTRITDDQLRVLRQYFDINNSPSEEQIKEMADKSGLPQKVIKHWFRNTL 59
>pdb|1O4X|A Chain A, Ternary Complex Of The Dna Binding Domains Of The Oct1 And
Sox2 Transcription Factors With A 19mer Oligonucleotide
From The Hoxb1 Regulatory Element
Length = 167
Score = 30.0 bits (66), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 25/52 (48%)
Query: 45 RRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
RRK RT + LEK F + ++ E +A L + + ++ WF NR
Sbjct: 104 RRKKRTSIETNIRVALEKSFLENQKPTSEEITMIADQLNMEKEVIRVWFCNR 155
>pdb|2XSD|C Chain C, Crystal Structure Of The Dimeric Oct-6 (Pou3f1) Pou Domain
Bound To Palindromic More Dna
Length = 164
Score = 30.0 bits (66), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 24/67 (35%), Positives = 29/67 (43%), Gaps = 2/67 (2%)
Query: 32 STSPHELG--SKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQV 89
S SP L + R+RK RT LE F S E LA +LQL + V
Sbjct: 84 SGSPTNLDKIAAQGRKRKKRTSIEVGVKGALESHFLKCPKPSAHEITGLADSLQLEKEVV 143
Query: 90 KTWFQNR 96
+ WF NR
Sbjct: 144 RVWFCNR 150
>pdb|1HDP|A Chain A, Solution Structure Of A Pou-Specific Homeodomain: 3d-Nmr
Studies Of Human B-Cell Transcription Factor Oct-2
Length = 63
Score = 30.0 bits (66), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 27/52 (51%)
Query: 45 RRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
RRK RT + LEK F A + ++ E + +A L + + ++ WF NR
Sbjct: 1 RRKKRTSIETNVRFALEKSFLANQKPTSEEILLIAEQLHMEKEVIRVWFCNR 52
>pdb|2DMQ|A Chain A, Solution Structure Of The Homeobox Domain Of LimHOMEOBOX
Protein Lhx9
Length = 80
Score = 28.9 bits (63), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 26/57 (45%)
Query: 39 GSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQN 95
GS ++ RT F HQL ++ F + +LA L++ ++ WFQN
Sbjct: 1 GSSGSSGKRMRTSFKHHQLRTMKSYFAINHNPDAKDLKQLAQKTGLTKRVLQVWFQN 57
>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 = 28.5 bits (62), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 27/50 (54%)
Query: 47 KARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
K ++ S LE+ F ++ L++ E+ E+A ++ QV+ WF N+
Sbjct: 7 KGKSSISPQARAFLEQVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINK 56
>pdb|1AKH|A Chain A, Mat A1ALPHA2DNA TERNARY COMPLEX
Length = 61
Score = 28.5 bits (62), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 27/50 (54%)
Query: 47 KARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
K ++ S LE+ F ++ L++ E+ E+A ++ QV+ WF N+
Sbjct: 7 KGKSSISPQARAFLEEVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINK 56
>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 = 2.2, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 23/37 (62%)
Query: 60 LEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
LE+ F ++ L++ E+ E+A ++ QV+ WF N+
Sbjct: 380 LEQVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINK 416
>pdb|1Y1U|A Chain A, Structure Of Unphosphorylated Stat5a
pdb|1Y1U|B Chain B, Structure Of Unphosphorylated Stat5a
pdb|1Y1U|C Chain C, Structure Of Unphosphorylated Stat5a
Length = 585
Score = 26.9 bits (58), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 35/80 (43%), Gaps = 7/80 (8%)
Query: 60 LEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNRLPFGSLFSTSPHELGSKHCRR-- 117
++ +F L+ ER+ TALQ + ++TW Q EL KH +
Sbjct: 55 IQAQFAQLGQLNPQERMSRETALQQKQVSLETWLQRE---AQTLQQYRVELAEKHQKTLQ 111
Query: 118 --RKARTVFSDHQLTGLEKR 135
RK +T+ D +L ++R
Sbjct: 112 LLRKQQTIILDDELIQWKRR 131
>pdb|1LE8|A Chain A, Crystal Structure Of The Mata1MATALPHA2-3a Heterodimer
Bound To Dna Complex
Length = 53
Score = 26.6 bits (57), Expect = 6.3, Method: Composition-based stats.
Identities = 12/37 (32%), Positives = 23/37 (62%)
Query: 60 LEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
LE+ F ++ L++ E+ E+A ++ QV+ WF N+
Sbjct: 12 LEQVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINK 48
>pdb|2YS9|A Chain A, Structure Of The Third Homeodomain From The Human
Homeobox And Leucine Zipper Protein, Homez
Length = 70
Score = 26.6 bits (57), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 22/38 (57%)
Query: 61 EKRFEAQRYLSTPERVELATALQLSETQVKTWFQNRLP 98
E+ + A + L + +L+ A +LS QV WF +RLP
Sbjct: 22 ERYWAAHQQLRETDIPQLSQASRLSTQQVLDWFDSRLP 59
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 0.132 0.388
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,389,809
Number of Sequences: 62578
Number of extensions: 152114
Number of successful extensions: 419
Number of sequences better than 100.0: 74
Number of HSP's better than 100.0 without gapping: 73
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 289
Number of HSP's gapped (non-prelim): 131
length of query: 165
length of database: 14,973,337
effective HSP length: 91
effective length of query: 74
effective length of database: 9,278,739
effective search space: 686626686
effective search space used: 686626686
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 47 (22.7 bits)