RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17007
(165 letters)
>2dmt_A Homeobox protein BARH-like 1; homeobox domain, three helices with
the DNA binding helix- turn-helix motif, structural
genomics, NPPSFA; NMR {Homo sapiens}
Length = 80
Score = 98.7 bits (246), Expect = 4e-28
Identities = 38/65 (58%), Positives = 52/65 (80%)
Query: 32 STSPHELGSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKT 91
+S E G+K + R++RTVF++ QL GLEKRFE Q+YLSTP+R++LA +L LS+ QVKT
Sbjct: 4 GSSGGEPGTKAKKGRRSRTVFTELQLMGLEKRFEKQKYLSTPDRIDLAESLGLSQLQVKT 63
Query: 92 WFQNR 96
W+QNR
Sbjct: 64 WYQNR 68
Score = 77.5 bits (191), Expect = 1e-19
Identities = 31/57 (54%), Positives = 44/57 (77%)
Query: 104 STSPHELGSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQ 160
+S E G+K + R++RTVF++ QL GLEKRFE Q+YLSTP+R++LA +L LS+ Q
Sbjct: 4 GSSGGEPGTKAKKGRRSRTVFTELQLMGLEKRFEKQKYLSTPDRIDLAESLGLSQLQ 60
>1nk2_P Homeobox protein VND; homeodomain, DNA-binding protein, embryonic
development, complex (homeodomain/DNA); HET: DNA; NMR
{Drosophila melanogaster} SCOP: a.4.1.1 PDB: 1nk3_P*
1vnd_A 1qry_A
Length = 77
Score = 97.1 bits (242), Expect = 2e-27
Identities = 28/58 (48%), Positives = 37/58 (63%)
Query: 39 GSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
++RK R +F+ Q LE+RF QRYLS PER LA+ ++L+ TQVK WFQN
Sbjct: 3 DGLPNKKRKRRVLFTKAQTYELERRFRQQRYLSAPEREHLASLIRLTPTQVKIWFQNH 60
Score = 76.0 bits (187), Expect = 4e-19
Identities = 22/50 (44%), Positives = 31/50 (62%)
Query: 111 GSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQ 160
++RK R +F+ Q LE+RF QRYLS PER LA+ ++L+ TQ
Sbjct: 3 DGLPNKKRKRRVLFTKAQTYELERRFRQQRYLSAPEREHLASLIRLTPTQ 52
>3rkq_A Homeobox protein NKX-2.5; helix-turn-helix, DNA binding, nucleus,
transcription-DNA CO; 1.70A {Homo sapiens}
Length = 58
Score = 95.4 bits (238), Expect = 5e-27
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 = 73.8 bits (182), Expect = 2e-18
Identities = 25/44 (56%), Positives = 33/44 (75%)
Query: 117 RRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQ 160
RRK R +FS Q+ LE+RF+ QRYLS PER +LA+ L+L+ TQ
Sbjct: 2 RRKPRVLFSQAQVYELERRFKQQRYLSAPERDQLASVLKLTSTQ 45
>2djn_A Homeobox protein DLX-5; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 70
Score = 95.5 bits (238), Expect = 6e-27
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 = 75.1 bits (185), Expect = 6e-19
Identities = 24/50 (48%), Positives = 34/50 (68%)
Query: 111 GSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQ 160
GS RK RT++S QL L++RF+ +YL+ PER ELA +L L++TQ
Sbjct: 1 GSSGSSGRKPRTIYSSFQLAALQRRFQKTQYLALPERAELAASLGLTQTQ 50
>2vi6_A Homeobox protein nanog; homeodomain, DNA-binding, transcription,
transcription facto developmental protein,
transcription regulation, NUC homeobox; 2.6A {Mus
musculus}
Length = 62
Score = 94.7 bits (236), Expect = 9e-27
Identities = 28/53 (52%), Positives = 37/53 (69%)
Query: 44 RRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
++K RTVFS QL L+ RF+ Q+YLS + EL++ L LS QVKTWFQN+
Sbjct: 2 TKQKMRTVFSQAQLCALKDRFQKQKYLSLQQMQELSSILNLSYKQVKTWFQNQ 54
Score = 73.1 bits (180), Expect = 2e-18
Identities = 21/45 (46%), Positives = 29/45 (64%)
Query: 116 RRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQ 160
++K RTVFS QL L+ RF+ Q+YLS + EL++ L LS Q
Sbjct: 2 TKQKMRTVFSQAQLCALKDRFQKQKYLSLQQMQELSSILNLSYKQ 46
>2kt0_A Nanog, homeobox protein nanog; homeodomain, structural genomics,
protein structure initiative, PSI, center for
eukaryotic structural genomics; NMR {Homo sapiens}
Length = 84
Score = 95.3 bits (237), Expect = 1e-26
Identities = 28/65 (43%), Positives = 39/65 (60%)
Query: 32 STSPHELGSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKT 91
++ + +++K RTVFS QL L RF+ Q+YLS + EL+ L LS QVKT
Sbjct: 9 NSVAKKEDKVPVKKQKTRTVFSSTQLCVLNDRFQRQKYLSLQQMQELSNILNLSYKQVKT 68
Query: 92 WFQNR 96
WFQN+
Sbjct: 69 WFQNQ 73
Score = 74.1 bits (182), Expect = 2e-18
Identities = 21/57 (36%), Positives = 31/57 (54%)
Query: 104 STSPHELGSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQ 160
++ + +++K RTVFS QL L RF+ Q+YLS + EL+ L LS Q
Sbjct: 9 NSVAKKEDKVPVKKQKTRTVFSSTQLCVLNDRFQRQKYLSLQQMQELSNILNLSYKQ 65
>1ftt_A TTF-1 HD, thyroid transcription factor 1 homeodomain; DNA binding
protein; NMR {Rattus norvegicus} SCOP: a.4.1.1
Length = 68
Score = 94.0 bits (234), Expect = 2e-26
Identities = 29/52 (55%), Positives = 37/52 (71%)
Query: 45 RRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
RRK R +FS Q+ LE+RF+ Q+YLS PER LA+ + L+ TQVK WFQN
Sbjct: 2 RRKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQVKIWFQNH 53
Score = 72.8 bits (179), Expect = 4e-18
Identities = 23/44 (52%), Positives = 31/44 (70%)
Query: 117 RRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQ 160
RRK R +FS Q+ LE+RF+ Q+YLS PER LA+ + L+ TQ
Sbjct: 2 RRKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQ 45
>1ig7_A Homeotic protein MSX-1; helix-turn-helix, transcription/DNA
complex; 2.20A {Mus musculus} SCOP: a.4.1.1
Length = 58
Score = 93.5 bits (233), Expect = 3e-26
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 = 71.9 bits (177), Expect = 6e-18
Identities = 21/43 (48%), Positives = 30/43 (69%)
Query: 118 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQ 160
RK RT F+ QL LE++F ++YLS ER E +++L L+ETQ
Sbjct: 1 RKPRTPFTTAQLLALERKFRQKQYLSIAERAEFSSSLSLTETQ 43
>2l9r_A Homeobox protein NKX-3.1; structural genomics, northeast
structural genomics consortiu PSI-biology, protein
structure initiative; NMR {Homo sapiens}
Length = 69
Score = 92.8 bits (231), Expect = 6e-26
Identities = 26/53 (49%), Positives = 33/53 (62%)
Query: 44 RRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
+ S Q+ LE++F Q+YLS PER LA L+L+ETQVK WFQNR
Sbjct: 3 HHHHHHSHMSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNR 55
Score = 72.0 bits (177), Expect = 1e-17
Identities = 19/45 (42%), Positives = 26/45 (57%)
Query: 116 RRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQ 160
+ S Q+ LE++F Q+YLS PER LA L+L+ETQ
Sbjct: 3 HHHHHHSHMSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQ 47
>2e1o_A Homeobox protein PRH; DNA binding protein, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens} SCOP: a.4.1.1
Length = 70
Score = 92.9 bits (231), Expect = 6e-26
Identities = 33/58 (56%), Positives = 38/58 (65%)
Query: 39 GSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
GS + + FS+ Q LEK+FE Q+YLS PER LA LQLSE QVKTWFQNR
Sbjct: 1 GSSGSSGKGGQVRFSNDQTIELEKKFETQKYLSPPERKRLAKMLQLSERQVKTWFQNR 58
Score = 72.5 bits (178), Expect = 7e-18
Identities = 25/50 (50%), Positives = 30/50 (60%)
Query: 111 GSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQ 160
GS + + FS+ Q LEK+FE Q+YLS PER LA LQLSE Q
Sbjct: 1 GSSGSSGKGGQVRFSNDQTIELEKKFETQKYLSPPERKRLAKMLQLSERQ 50
>3a01_A Homeodomain-containing protein; homeodomain, protein-DNA complex,
DNA-binding, homeobox, NUC developmental protein; 2.70A
{Drosophila melanogaster}
Length = 93
Score = 93.0 bits (231), Expect = 1e-25
Identities = 28/57 (49%), Positives = 39/57 (68%)
Query: 40 SKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
+R+K RT F+ Q+ LEKRF Q+YL++ ER LA L++++ QVKTWFQNR
Sbjct: 12 RTPPKRKKPRTSFTRIQVAELEKRFHKQKYLASAERAALARGLKMTDAQVKTWFQNR 68
Score = 72.2 bits (177), Expect = 1e-17
Identities = 20/49 (40%), Positives = 31/49 (63%)
Query: 112 SKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQ 160
+R+K RT F+ Q+ LEKRF Q+YL++ ER LA L++++ Q
Sbjct: 12 RTPPKRKKPRTSFTRIQVAELEKRFHKQKYLASAERAALARGLKMTDAQ 60
>3a03_A T-cell leukemia homeobox protein 2; homeodomain, developmental
protein, DNA-binding, N gene regulation; 1.54A {Homo
sapiens}
Length = 56
Score = 87.8 bits (218), Expect = 4e-24
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 = 65.8 bits (161), Expect = 1e-15
Identities = 18/39 (46%), Positives = 27/39 (69%)
Query: 122 TVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQ 160
T FS Q+ LE+RF Q+YL++ ER LA AL++++ Q
Sbjct: 2 TSFSRSQVLELERRFLRQKYLASAERAALAKALRMTDAQ 40
>1zq3_P PRD-4, homeotic bicoid protein; protein-DNA complex, double
helix, helix-turn-helix; NMR {Drosophila melanogaster}
SCOP: a.4.1.1
Length = 68
Score = 79.4 bits (196), Expect = 1e-20
Identities = 22/52 (42%), Positives = 30/52 (57%)
Query: 45 RRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
R+ RT F+ Q+ LE+ F RYL+ P +L+ L L QVK WF+NR
Sbjct: 2 PRRTRTTFTSSQIAELEQHFLQGRYLTAPRLADLSAKLALGTAQVKIWFKNR 53
Score = 60.1 bits (146), Expect = 4e-13
Identities = 16/44 (36%), Positives = 23/44 (52%)
Query: 117 RRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQ 160
R+ RT F+ Q+ LE+ F RYL+ P +L+ L L Q
Sbjct: 2 PRRTRTTFTSSQIAELEQHFLQGRYLTAPRLADLSAKLALGTAQ 45
>1akh_A Protein (mating-type protein A-1); complex (TWO DNA-binding
proteins/DNA), complex, DNA- binding protein, DNA; HET:
DNA; 2.50A {Saccharomyces cerevisiae} SCOP: a.4.1.1
PDB: 1f43_A 1yrn_A*
Length = 61
Score = 77.2 bits (191), Expect = 6e-20
Identities = 15/56 (26%), Positives = 29/56 (51%)
Query: 41 KHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
K + K ++ S LE+ F ++ L++ E+ E+A ++ QV+ WF N+
Sbjct: 1 KKEKSPKGKSSISPQARAFLEEVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINK 56
Score = 56.0 bits (136), Expect = 1e-11
Identities = 11/48 (22%), Positives = 23/48 (47%)
Query: 113 KHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQ 160
K + K ++ S LE+ F ++ L++ E+ E+A ++ Q
Sbjct: 1 KKEKSPKGKSSISPQARAFLEEVFRRKQSLNSKEKEEVAKKCGITPLQ 48
>1b72_A Protein (homeobox protein HOX-B1); homeodomain, DNA, complex,
DNA-binding protein, protein/DNA complex; HET: DNA;
2.35A {Homo sapiens} SCOP: a.4.1.1
Length = 97
Score = 74.2 bits (182), Expect = 3e-18
Identities = 29/52 (55%), Positives = 34/52 (65%)
Query: 45 RRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
RT F+ QLT LEK F +YLS RVE+A L+L+ETQVK WFQNR
Sbjct: 34 PSGLRTNFTTRQLTELEKEFHFNKYLSRARRVEIAATLELNETQVKIWFQNR 85
Score = 54.9 bits (132), Expect = 8e-11
Identities = 22/44 (50%), Positives = 27/44 (61%)
Query: 117 RRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQ 160
RT F+ QLT LEK F +YLS RVE+A L+L+ETQ
Sbjct: 34 PSGLRTNFTTRQLTELEKEFHFNKYLSRARRVEIAATLELNETQ 77
>1jgg_A Segmentation protein EVEN-skipped; homeodomain, protein-DNA
complex, transcription/DNA complex; 2.00A {Drosophila
melanogaster} SCOP: a.4.1.1
Length = 60
Score = 72.8 bits (179), Expect = 4e-18
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 = 53.9 bits (130), Expect = 7e-11
Identities = 20/43 (46%), Positives = 25/43 (58%)
Query: 118 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQ 160
R+ RT F+ QL LEK F + Y+S P R ELA L L E+
Sbjct: 2 RRYRTAFTRDQLGRLEKEFYKENYVSRPRRCELAAQLNLPEST 44
>2hdd_A Protein (engrailed homeodomain Q50K); DNA binding, complex (DNA
binding protein/DNA), transcription/DNA complex; HET:
DNA; 1.90A {Drosophila melanogaster} SCOP: a.4.1.1 PDB:
1hdd_C* 2jwt_A 3hdd_A 1p7j_A* 1p7i_A* 2hos_A 2hot_A
1du0_A* 1ztr_A 1enh_A 2p81_A
Length = 61
Score = 71.6 bits (176), Expect = 1e-17
Identities = 21/51 (41%), Positives = 33/51 (64%)
Query: 46 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
++ RT FS QL L++ F RYL+ R +L++ L L+E Q+K WF+N+
Sbjct: 4 KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFKNK 54
Score = 53.1 bits (128), Expect = 2e-10
Identities = 17/43 (39%), Positives = 26/43 (60%)
Query: 118 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQ 160
++ RT FS QL L++ F RYL+ R +L++ L L+E Q
Sbjct: 4 KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQ 46
>2r5y_A Homeotic protein sex combs reduced; homeodomain; HET: DNA; 2.60A
{Drosophila melanogaster} PDB: 2r5z_A*
Length = 88
Score = 71.4 bits (175), Expect = 3e-17
Identities = 24/65 (36%), Positives = 36/65 (55%)
Query: 32 STSPHELGSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKT 91
+ + ++ RT ++ +Q LEK F RYL+ R+E+A AL L+E Q+K
Sbjct: 15 VHLGTSTVNANGETKRQRTSYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKI 74
Query: 92 WFQNR 96
WFQNR
Sbjct: 75 WFQNR 79
Score = 52.9 bits (127), Expect = 3e-10
Identities = 18/58 (31%), Positives = 30/58 (51%)
Query: 104 STSPHELGSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
+ + ++ RT ++ +Q LEK F RYL+ R+E+A AL L+E Q+
Sbjct: 15 VHLGTSTVNANGETKRQRTSYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQI 72
>2h1k_A IPF-1, pancreatic and duodenal homeobox 1, homeodomain;
protein-DNA complex, transcription/DNA complex; 2.42A
{Mesocricetus auratus}
Length = 63
Score = 68.6 bits (168), Expect = 2e-16
Identities = 25/52 (48%), Positives = 33/52 (63%)
Query: 45 RRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
++ RT ++ QL LEK F +Y+S P RVELA L L+E +K WFQNR
Sbjct: 3 NKRTRTAYTRAQLLELEKEFLFNKYISRPRRVELAVMLNLTERHIKIWFQNR 54
Score = 50.1 bits (120), Expect = 2e-09
Identities = 19/45 (42%), Positives = 27/45 (60%)
Query: 117 RRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
++ RT ++ QL LEK F +Y+S P RVELA L L+E +
Sbjct: 3 NKRTRTAYTRAQLLELEKEFLFNKYISRPRRVELAVMLNLTERHI 47
>1b8i_A Ultrabithorax, protein (ultrabithorax homeotic protein IV); DNA
binding, homeodomain, homeotic proteins, development,
specificity; HET: DNA; 2.40A {Drosophila melanogaster}
SCOP: a.4.1.1 PDB: 9ant_A*
Length = 81
Score = 67.9 bits (166), Expect = 5e-16
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 = 49.4 bits (118), Expect = 7e-09
Identities = 18/44 (40%), Positives = 26/44 (59%)
Query: 117 RRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQ 160
RR+ R ++ +Q LEK F YL+ R+E+A AL L+E Q
Sbjct: 20 RRRGRQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALSLTERQ 63
>1ahd_P Antennapedia protein mutant; DNA binding protein/DNA; HET: DNA;
NMR {Drosophila melanogaster} SCOP: a.4.1.1 PDB: 2hoa_A
1hom_A 1ftz_A
Length = 68
Score = 67.4 bits (165), Expect = 6e-16
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 = 49.0 bits (117), Expect = 6e-09
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
>2cra_A Homeobox protein HOX-B13; DNA-binding, transcription regulation,
helix-turn-helix, structural genomics, NPPSFA; NMR
{Homo sapiens} SCOP: a.4.1.1
Length = 70
Score = 67.2 bits (164), Expect = 7e-16
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 = 49.1 bits (117), Expect = 7e-09
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
>2da2_A Alpha-fetoprotein enhancer binding protein; homeobox domain,
three helices with the DNA binding helix- turn-helix
motif, structural genomics; NMR {Homo sapiens}
Length = 70
Score = 65.8 bits (161), Expect = 2e-15
Identities = 21/58 (36%), Positives = 29/58 (50%)
Query: 39 GSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
GS R +RT F+D+QL L+ F+A Y E +L+ L L + WFQN
Sbjct: 1 GSSGSSGRSSRTRFTDYQLRVLQDFFDANAYPKDDEFEQLSNLLNLPTRVIVVWFQNA 58
Score = 49.3 bits (118), Expect = 6e-09
Identities = 17/51 (33%), Positives = 25/51 (49%)
Query: 111 GSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
GS R +RT F+D+QL L+ F+A Y E +L+ L L +
Sbjct: 1 GSSGSSGRSSRTRFTDYQLRVLQDFFDANAYPKDDEFEQLSNLLNLPTRVI 51
>1e3o_C Octamer-binding transcription factor 1; transcription factor, POU
domain, dimer, DNA binding; 1.9A {Homo sapiens} SCOP:
a.4.1.1 a.35.1.1 PDB: 1gt0_C 1hf0_A* 1cqt_A* 1o4x_A
1oct_C* 1pou_A 1pog_A 1hdp_A
Length = 160
Score = 68.1 bits (166), Expect = 3e-15
Identities = 16/53 (30%), Positives = 26/53 (49%)
Query: 44 RRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
RRRK RT + LEK F + ++ + +A L + + ++ WF NR
Sbjct: 100 RRRKKRTSIETNIRVALEKSFMENQKPTSEDITLIAEQLNMEKEVIRVWFSNR 152
Score = 48.8 bits (116), Expect = 4e-08
Identities = 25/101 (24%), Positives = 42/101 (41%), Gaps = 6/101 (5%)
Query: 63 RFEAQRYLSTPERVELATALQ--LSETQVKTWFQNRLPFGSLFSTSPHELGSKHCRRRKA 120
RFEA LS +L L+ L++ + + L S ++ E S RRRK
Sbjct: 49 RFEALN-LSFKNMSKLKPLLEKWLNDAEANLSSDSSLSSPSALNSPGIEGLS---RRRKK 104
Query: 121 RTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
RT + LEK F + ++ + +A L + + +
Sbjct: 105 RTSIETNIRVALEKSFMENQKPTSEDITLIAEQLNMEKEVI 145
>2l7z_A Homeobox protein HOX-A13; gene regulation; NMR {Homo sapiens}
PDB: 2ld5_A*
Length = 73
Score = 64.5 bits (157), Expect = 8e-15
Identities = 19/57 (33%), Positives = 30/57 (52%)
Query: 40 SKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
S RK R ++ QL LE+ + ++++ +R ++ LSE QV WFQNR
Sbjct: 2 SHMLEGRKKRVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQVTIWFQNR 58
Score = 46.4 bits (110), Expect = 7e-08
Identities = 13/50 (26%), Positives = 25/50 (50%)
Query: 112 SKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
S RK R ++ QL LE+ + ++++ +R ++ LSE Q+
Sbjct: 2 SHMLEGRKKRVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQV 51
>1au7_A Protein PIT-1, GHF-1; complex (DNA-binding protein/DNA), pituitary,
CPHD, POU domain, transcription factor,
transcription/DNA complex; HET: DNA; 2.30A {Rattus
norvegicus} SCOP: a.4.1.1 a.35.1.1
Length = 146
Score = 66.5 bits (162), Expect = 8e-15
Identities = 21/72 (29%), Positives = 30/72 (41%)
Query: 25 LPFGSLFSTSPHELGSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQL 84
L +E + R+RK RT S LE+ F S+ E + +A L L
Sbjct: 67 LEEAEQVGALYNEKVGANERKRKRRTTISIAAKDALERHFGEHSKPSSQEIMRMAEELNL 126
Query: 85 SETQVKTWFQNR 96
+ V+ WF NR
Sbjct: 127 EKEVVRVWFCNR 138
Score = 50.0 bits (119), Expect = 1e-08
Identities = 20/90 (22%), Positives = 32/90 (35%)
Query: 71 STPERVELATALQLSETQVKTWFQNRLPFGSLFSTSPHELGSKHCRRRKARTVFSDHQLT 130
+T R E + ++K L +E + R+RK RT S
Sbjct: 41 TTICRFENLQLSFKNACKLKAILSKWLEEAEQVGALYNEKVGANERKRKRRTTISIAAKD 100
Query: 131 GLEKRFEAQRYLSTPERVELATALQLSETQ 160
LE+ F S+ E + +A L L +
Sbjct: 101 ALERHFGEHSKPSSQEIMRMAEELNLEKEV 130
>1puf_A HOX-1.7, homeobox protein HOX-A9; homeodomian, protein-DNA
complex, HOX hexapeptide, TALE homeodomain, homeodomain
interaction; 1.90A {Mus musculus} SCOP: a.4.1.1 PDB:
1san_A
Length = 77
Score = 64.1 bits (156), Expect = 1e-14
Identities = 25/53 (47%), Positives = 30/53 (56%)
Query: 44 RRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
RK R ++ HQ LEK F YL+ R E+A L L+E QVK WFQNR
Sbjct: 12 STRKKRCPYTKHQTLELEKEFLFNMYLTRDRRYEVARLLNLTERQVKIWFQNR 64
Score = 46.0 bits (109), Expect = 1e-07
Identities = 18/46 (39%), Positives = 24/46 (52%)
Query: 116 RRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
RK R ++ HQ LEK F YL+ R E+A L L+E Q+
Sbjct: 12 STRKKRCPYTKHQTLELEKEFLFNMYLTRDRRYEVARLLNLTERQV 57
>2da3_A Alpha-fetoprotein enhancer binding protein; homeobox domain,
three helices with the DNA binding helix- turn-helix
motif, structural genomics; NMR {Homo sapiens}
Length = 80
Score = 62.5 bits (152), Expect = 5e-14
Identities = 15/65 (23%), Positives = 28/65 (43%)
Query: 32 STSPHELGSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKT 91
+S G + R ++ RT + QL L +++ + +A + L + V+
Sbjct: 4 GSSGGTGGEEPQRDKRLRTTITPEQLEILYQKYLLDSNPTRKMLDHIAHEVGLKKRVVQV 63
Query: 92 WFQNR 96
WFQN
Sbjct: 64 WFQNT 68
Score = 45.6 bits (108), Expect = 2e-07
Identities = 10/55 (18%), Positives = 22/55 (40%)
Query: 104 STSPHELGSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSE 158
+S G + R ++ RT + QL L +++ + +A + L +
Sbjct: 4 GSSGGTGGEEPQRDKRLRTTITPEQLEILYQKYLLDSNPTRKMLDHIAHEVGLKK 58
>2xsd_C POU domain, class 3, transcription factor 1; transcription-DNA
complex, SOX; 2.05A {Mus musculus}
Length = 164
Score = 64.7 bits (157), Expect = 6e-14
Identities = 22/68 (32%), Positives = 29/68 (42%)
Query: 29 SLFSTSPHELGSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQ 88
S S + + + R+RK RT LE F S E LA +LQL +
Sbjct: 83 SSGSPTNLDKIAAQGRKRKKRTSIEVGVKGALESHFLKCPKPSAHEITGLADSLQLEKEV 142
Query: 89 VKTWFQNR 96
V+ WF NR
Sbjct: 143 VRVWFCNR 150
Score = 45.8 bits (108), Expect = 7e-07
Identities = 33/137 (24%), Positives = 52/137 (37%), Gaps = 11/137 (8%)
Query: 32 STSPHELG--SKHCRRRKARTVFSDHQLT-GLEKRFEAQRYLSTPERVELATALQLS--- 85
+ S +L +K ++R+ + F+ + L + +T R E ALQLS
Sbjct: 9 APSSDDLEQFAKQFKQRRIKLGFTQADVGLALGTLYGNVFSQTTICRFE---ALQLSFKN 65
Query: 86 ETQVKTWFQNRL--PFGSLFSTSPHELGSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLS 143
++K L S S + + + R+RK RT LE F S
Sbjct: 66 MCKLKPLLNKWLEETDSSSGSPTNLDKIAAQGRKRKKRTSIEVGVKGALESHFLKCPKPS 125
Query: 144 TPERVELATALQLSETQ 160
E LA +LQL +
Sbjct: 126 AHEITGLADSLQLEKEV 142
>3d1n_I POU domain, class 6, transcription factor 1; protein-DNA complex,
helix-turn-helix (HTH), DNA-binding, homeobox, nucleus,
transcription regulation; 2.51A {Homo sapiens}
Length = 151
Score = 63.1 bits (153), Expect = 2e-13
Identities = 18/65 (27%), Positives = 27/65 (41%)
Query: 32 STSPHELGSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKT 91
+G + ++RK RT F+ + L FE + E E+A L V+
Sbjct: 80 QNLMEFVGGEPSKKRKRRTSFTPQAIEALNAYFEKNPLPTGQEITEMAKELNYDREVVRV 139
Query: 92 WFQNR 96
WF NR
Sbjct: 140 WFSNR 144
Score = 45.0 bits (106), Expect = 9e-07
Identities = 13/57 (22%), Positives = 21/57 (36%)
Query: 104 STSPHELGSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQ 160
+G + ++RK RT F+ + L FE + E E+A L
Sbjct: 80 QNLMEFVGGEPSKKRKRRTSFTPQAIEALNAYFEKNPLPTGQEITEMAKELNYDREV 136
>2dn0_A Zinc fingers and homeoboxes protein 3; triple homeobox 1 protein,
KIAA0395, TIX1, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 76
Score = 58.6 bits (142), Expect = 2e-12
Identities = 13/53 (24%), Positives = 21/53 (39%)
Query: 44 RRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
+ S QL+ L+ F ++ E L LS +V+ WF +R
Sbjct: 7 GASIYKNKKSHEQLSALKGSFCRNQFPGQSEVEHLTKVTGLSTREVRKWFSDR 59
Score = 40.5 bits (95), Expect = 1e-05
Identities = 9/45 (20%), Positives = 15/45 (33%)
Query: 116 RRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQ 160
+ S QL+ L+ F ++ E L LS +
Sbjct: 7 GASIYKNKKSHEQLSALKGSFCRNQFPGQSEVEHLTKVTGLSTRE 51
>2da1_A Alpha-fetoprotein enhancer binding protein; homeobox domain,
three helices with the DNA binding helix- turn-helix
motif, structural genomics; NMR {Homo sapiens}
Length = 70
Score = 57.7 bits (140), Expect = 3e-12
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
Score = 41.6 bits (98), Expect = 5e-06
Identities = 13/48 (27%), Positives = 21/48 (43%)
Query: 111 GSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSE 158
GS ++ RT +D QL L + F+ S + E+A L +
Sbjct: 1 GSSGSSGKRPRTRITDDQLRVLRQYFDINNSPSEEQIKEMADKSGLPQ 48
>2cuf_A FLJ21616 protein; homeobox domain, hepatocyte transcription
factor, structural genomics, loop insertion, NPPSFA;
NMR {Homo sapiens} SCOP: a.4.1.1
Length = 95
Score = 57.3 bits (138), Expect = 7e-12
Identities = 17/73 (23%), Positives = 27/73 (36%), Gaps = 15/73 (20%)
Query: 39 GSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATAL---------------Q 83
GS R +R + L +E F +Y +R E+A A +
Sbjct: 1 GSSGSSGRGSRFTWRKECLAVMESYFNENQYPDEAKREEIANACNAVIQKPGKKLSDLER 60
Query: 84 LSETQVKTWFQNR 96
++ +V WF NR
Sbjct: 61 VTSLKVYNWFANR 73
Score = 44.6 bits (105), Expect = 6e-07
Identities = 12/50 (24%), Positives = 19/50 (38%)
Query: 111 GSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQ 160
GS R +R + L +E F +Y +R E+A A +
Sbjct: 1 GSSGSSGRGSRFTWRKECLAVMESYFNENQYPDEAKREEIANACNAVIQK 50
>3l1p_A POU domain, class 5, transcription factor 1; POU, transcription
factor DNA complex, pore, stem cells; HET: DNA; 2.80A
{Mus musculus} PDB: 1ocp_A
Length = 155
Score = 58.6 bits (141), Expect = 1e-11
Identities = 15/65 (23%), Positives = 24/65 (36%)
Query: 32 STSPHELGSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKT 91
+ + R++ RT + LE F S + +A L L + V+
Sbjct: 83 LQEISKSETLVQARKRKRTSIENRVRWSLETMFLKSPKPSLQQITHIANQLGLEKDVVRV 142
Query: 92 WFQNR 96
WF NR
Sbjct: 143 WFSNR 147
Score = 41.6 bits (97), Expect = 2e-05
Identities = 18/93 (19%), Positives = 33/93 (35%), Gaps = 3/93 (3%)
Query: 67 QRYLSTPERVELATALQLS-ETQVKTWFQNRLPFGSLFSTSPHELGSKHCRRRKARTVFS 125
Q +S E ++L+ ++ W + +L S E + +R+ RT
Sbjct: 47 QTTISRFEALQLSLKNMSKLRPLLEKWVEEADNNENLQEISKSETLVQARKRK--RTSIE 104
Query: 126 DHQLTGLEKRFEAQRYLSTPERVELATALQLSE 158
+ LE F S + +A L L +
Sbjct: 105 NRVRWSLETMFLKSPKPSLQQITHIANQLGLEK 137
>2dmu_A Homeobox protein goosecoid; homeobox domain, three helices with
the DNA binding helix- turn-helix motif, structural
genomics, NPPSFA; NMR {Homo sapiens}
Length = 70
Score = 55.8 bits (135), Expect = 2e-11
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 = 40.4 bits (95), Expect = 1e-05
Identities = 18/48 (37%), Positives = 25/48 (52%)
Query: 111 GSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSE 158
GS R+ RT+F+D QL LE F+ +Y R +LA + L E
Sbjct: 1 GSSGSSGRRHRTIFTDEQLEALENLFQETKYPDVGTREQLARKVHLRE 48
>2cue_A Paired box protein PAX6; homeobox domain, transcription factor,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
a.4.1.1
Length = 80
Score = 55.5 bits (134), Expect = 3e-11
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 = 40.1 bits (94), Expect = 2e-05
Identities = 17/48 (35%), Positives = 22/48 (45%)
Query: 111 GSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSE 158
GS ++ RT F+ Q+ LEK FE Y R LA + L E
Sbjct: 1 GSSGSSGQRNRTSFTQEQIEALEKEFERTHYPDVFARERLAAKIDLPE 48
>2dms_A Homeobox protein OTX2; homeobox domain, three helices with the
DNA binding helix- turn-helix motif, structural
genomics, NPPSFA; NMR {Mus musculus}
Length = 80
Score = 55.5 bits (134), Expect = 3e-11
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 = 40.1 bits (94), Expect = 2e-05
Identities = 18/48 (37%), Positives = 22/48 (45%)
Query: 111 GSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSE 158
GS R+ RT F+ QL LE F RY R E+A + L E
Sbjct: 1 GSSGSSGRRERTTFTRAQLDVLEALFAKTRYPDIFMREEVALKINLPE 48
>1wi3_A DNA-binding protein SATB2; homeodomain, helix-turn-helix, riken
structural genomics/proteomics initiative, RSGI,
structural genomics; NMR {Homo sapiens} SCOP: a.4.1.1
Length = 71
Score = 54.4 bits (131), Expect = 6e-11
Identities = 14/60 (23%), Positives = 23/60 (38%), Gaps = 1/60 (1%)
Query: 39 GSKHCRRRKARTVFSDHQLTGLEKRF-EAQRYLSTPERVELATALQLSETQVKTWFQNRL 97
GS ++RT S L L+ + Y L+ L L + + +FQN+
Sbjct: 1 GSSGSSGPRSRTKISLEALGILQSFIHDVGLYPDQEAIHTLSAQLDLPKHTIIKFFQNQR 60
Score = 37.9 bits (88), Expect = 1e-04
Identities = 11/52 (21%), Positives = 18/52 (34%), Gaps = 1/52 (1%)
Query: 111 GSKHCRRRKARTVFSDHQLTGLEKRF-EAQRYLSTPERVELATALQLSETQL 161
GS ++RT S L L+ + Y L+ L L + +
Sbjct: 1 GSSGSSGPRSRTKISLEALGILQSFIHDVGLYPDQEAIHTLSAQLDLPKHTI 52
>2hi3_A Homeodomain-only protein; transcription; NMR {Mus musculus} SCOP:
a.4.1.1
Length = 73
Score = 54.0 bits (130), Expect = 1e-10
Identities = 12/53 (22%), Positives = 23/53 (43%), Gaps = 1/53 (1%)
Query: 46 RKARTVFSDHQLTGLEKRFE-AQRYLSTPERVELATALQLSETQVKTWFQNRL 97
+ + ++ Q+ LE F ++ +A L+E Q + WF+ RL
Sbjct: 3 AQTVSGPTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQKWFKQRL 55
Score = 35.9 bits (83), Expect = 6e-04
Identities = 8/44 (18%), Positives = 17/44 (38%), Gaps = 1/44 (2%)
Query: 118 RKARTVFSDHQLTGLEKRFE-AQRYLSTPERVELATALQLSETQ 160
+ + ++ Q+ LE F ++ +A L+E Q
Sbjct: 3 AQTVSGPTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQ 46
>1yz8_P Pituitary homeobox 2; DNA binding protein, transcription/DNA
complex; NMR {Homo sapiens} SCOP: a.4.1.1 PDB: 2l7f_P
2lkx_A* 2l7m_P
Length = 68
Score = 53.5 bits (129), Expect = 1e-10
Identities = 21/53 (39%), Positives = 30/53 (56%)
Query: 44 RRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
+R+ RT F+ QL LE F+ RY R E+A L+E +V+ WF+NR
Sbjct: 2 SQRRQRTHFTSQQLQQLEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNR 54
Score = 37.7 bits (88), Expect = 1e-04
Identities = 16/43 (37%), Positives = 22/43 (51%)
Query: 116 RRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSE 158
+R+ RT F+ QL LE F+ RY R E+A L+E
Sbjct: 2 SQRRQRTHFTSQQLQQLEATFQRNRYPDMSTREEIAVWTNLTE 44
>2dmq_A LIM/homeobox protein LHX9; homeobox domain, three helices with
the DNA binding helix- turn-helix motif, structural
genomics, NPPSFA; NMR {Homo sapiens}
Length = 80
Score = 53.6 bits (129), Expect = 2e-10
Identities = 16/58 (27%), Positives = 26/58 (44%)
Query: 39 GSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
GS ++ RT F HQL ++ F + +LA L++ ++ WFQN
Sbjct: 1 GSSGSSGKRMRTSFKHHQLRTMKSYFAINHNPDAKDLKQLAQKTGLTKRVLQVWFQNA 58
Score = 39.0 bits (91), Expect = 5e-05
Identities = 12/48 (25%), Positives = 20/48 (41%)
Query: 111 GSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSE 158
GS ++ RT F HQL ++ F + +LA L++
Sbjct: 1 GSSGSSGKRMRTSFKHHQLRTMKSYFAINHNPDAKDLKQLAQKTGLTK 48
>2d5v_A Hepatocyte nuclear factor 6; transcription factor,
transcription-DNA complex; 2.00A {Rattus norvegicus}
PDB: 1s7e_A
Length = 164
Score = 55.6 bits (133), Expect = 2e-10
Identities = 15/90 (16%), Positives = 31/90 (34%)
Query: 7 YPSPYLHKSDSFYITPQGLPFGSLFSTSPHELGSKHCRRRKARTVFSDHQLTGLEKRFEA 66
+ + + + L + + +K R VF+D Q L F+
Sbjct: 59 FRRMWKWLQEPEFQRMSALRLAACKRKEQEHGKDRGNTPKKPRLVFTDVQRRTLHAIFKE 118
Query: 67 QRYLSTPERVELATALQLSETQVKTWFQNR 96
+ S ++ ++ L L + V +F N
Sbjct: 119 NKRPSKELQITISQQLGLELSTVSNFFMNA 148
Score = 37.5 bits (86), Expect = 5e-04
Identities = 12/67 (17%), Positives = 24/67 (35%)
Query: 94 QNRLPFGSLFSTSPHELGSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATA 153
+ L + + +K R VF+D Q L F+ + S ++ ++
Sbjct: 74 MSALRLAACKRKEQEHGKDRGNTPKKPRLVFTDVQRRTLHAIFKENKRPSKELQITISQQ 133
Query: 154 LQLSETQ 160
L L +
Sbjct: 134 LGLELST 140
>1fjl_A Paired protein; DNA-binding protein, paired BOX, transcription
regulation; HET: DNA; 2.00A {Drosophila melanogaster}
SCOP: a.4.1.1 PDB: 3a01_B
Length = 81
Score = 53.1 bits (128), Expect = 2e-10
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 = 38.1 bits (89), Expect = 1e-04
Identities = 18/43 (41%), Positives = 25/43 (58%)
Query: 116 RRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSE 158
++R++RT FS QL LE+ FE +Y R ELA L+E
Sbjct: 17 KQRRSRTTFSASQLDELERAFERTQYPDIYTREELAQRTNLTE 59
>3nau_A Zinc fingers and homeoboxes protein 2; ZHX2, corepressor,
homeodomain, domain swapping, structural oxford protein
production facility, OPPF; 2.70A {Homo sapiens}
Length = 66
Score = 51.7 bits (124), Expect = 5e-10
Identities = 9/53 (16%), Positives = 19/53 (35%)
Query: 44 RRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
+ Q+ L+ F ++ E L L+ +++K WF +
Sbjct: 3 HHHHHHRKKTKEQIAHLKASFLQSQFPDDAEVYRLIEVTGLARSEIKKWFSDH 55
Score = 35.9 bits (83), Expect = 4e-04
Identities = 6/45 (13%), Positives = 14/45 (31%)
Query: 116 RRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQ 160
+ Q+ L+ F ++ E L L+ ++
Sbjct: 3 HHHHHHRKKTKEQIAHLKASFLQSQFPDDAEVYRLIEVTGLARSE 47
>2k40_A Homeobox expressed in ES cells 1; thermostable homeodomain
variant, DNA binding protein, developmental protein,
disease mutation, DNA-binding; NMR {Homo sapiens}
Length = 67
Score = 51.5 bits (124), Expect = 6e-10
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
Score = 36.5 bits (85), Expect = 3e-04
Identities = 13/41 (31%), Positives = 18/41 (43%)
Query: 118 RKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSE 158
R+ RT F+ +Q+ LE F Y +LA L L
Sbjct: 2 RRPRTAFTQNQIEVLENVFRVNCYPGIDILEDLAQKLNLEL 42
>1bw5_A ISL-1HD, insulin gene enhancer protein ISL-1; DNA-binding
protein, homeodomain, LIM domain; NMR {Rattus
norvegicus} SCOP: a.4.1.1
Length = 66
Score = 51.6 bits (124), Expect = 6e-10
Identities = 14/53 (26%), Positives = 24/53 (45%)
Query: 44 RRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
+ + RTV ++ QL L + A + +L LS ++ WFQN+
Sbjct: 2 KTTRVRTVLNEKQLHTLRTCYAANPRPDALMKEQLVEMTGLSPRVIRVWFQNK 54
Score = 36.9 bits (86), Expect = 2e-04
Identities = 10/43 (23%), Positives = 17/43 (39%)
Query: 116 RRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSE 158
+ + RTV ++ QL L + A + +L LS
Sbjct: 2 KTTRVRTVLNEKQLHTLRTCYAANPRPDALMKEQLVEMTGLSP 44
>3a02_A Homeobox protein aristaless; homeodomain, developmental protein,
DNA-binding, N gene regulation; 1.00A {Drosophila
melanogaster} PDB: 3lnq_A 3cmy_A
Length = 60
Score = 49.9 bits (120), Expect = 2e-09
Identities = 19/48 (39%), Positives = 25/48 (52%)
Query: 49 RTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
F+ QL LEK F Y R ELA + L+E +++ WFQNR
Sbjct: 3 HMTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQVWFQNR 50
Score = 34.1 bits (79), Expect = 0.002
Identities = 14/38 (36%), Positives = 17/38 (44%)
Query: 121 RTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSE 158
F+ QL LEK F Y R ELA + L+E
Sbjct: 3 HMTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTE 40
>2da5_A Zinc fingers and homeoboxes protein 3; homeobox domain, three
helices with the DNA binding helix- turn-helix motif,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 75
Score = 49.9 bits (119), Expect = 3e-09
Identities = 14/58 (24%), Positives = 22/58 (37%), Gaps = 3/58 (5%)
Query: 39 GSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
GS + K R QL LE F E L + +++ ++ +WF R
Sbjct: 4 GSSGPTKYKERA---PEQLRALESSFAQNPLPLDEELDRLRSETKMTRREIDSWFSER 58
Score = 33.3 bits (76), Expect = 0.006
Identities = 11/50 (22%), Positives = 17/50 (34%), Gaps = 3/50 (6%)
Query: 111 GSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQ 160
GS + K R QL LE F E L + +++ +
Sbjct: 4 GSSGPTKYKERA---PEQLRALESSFAQNPLPLDEELDRLRSETKMTRRE 50
>1uhs_A HOP, homeodomain only protein; structural genomics, cardiac
development, riken structural genomics/proteomics
initiative, RSGI, transcription; NMR {Mus musculus}
SCOP: a.4.1.1
Length = 72
Score = 48.9 bits (117), Expect = 7e-09
Identities = 12/53 (22%), Positives = 22/53 (41%), Gaps = 1/53 (1%)
Query: 46 RKARTVFSDHQLTGLEKRFE-AQRYLSTPERVELATALQLSETQVKTWFQNRL 97
+ ++ Q+ LE F ++ +A L+E Q + WF+ RL
Sbjct: 2 SEGAATMTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQKWFKQRL 54
Score = 31.6 bits (72), Expect = 0.019
Identities = 7/42 (16%), Positives = 15/42 (35%), Gaps = 1/42 (2%)
Query: 118 RKARTVFSDHQLTGLEKRFE-AQRYLSTPERVELATALQLSE 158
+ ++ Q+ LE F ++ +A L+E
Sbjct: 2 SEGAATMTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTE 43
>2dmp_A Zinc fingers and homeoboxes protein 2; homeobox domain, three
helices with the DNA binding helix- turn-helix motif,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 89
Score = 48.4 bits (115), Expect = 2e-08
Identities = 15/65 (23%), Positives = 25/65 (38%), Gaps = 3/65 (4%)
Query: 32 STSPHELGSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKT 91
S S ++ K +T Q+ LE F + + E L +LS ++ +
Sbjct: 3 SGSSGAYPDFAPQKFKEKT---QGQVKILEDSFLKSSFPTQAELDRLRVETKLSRREIDS 59
Query: 92 WFQNR 96
WF R
Sbjct: 60 WFSER 64
Score = 31.9 bits (72), Expect = 0.024
Identities = 12/57 (21%), Positives = 20/57 (35%), Gaps = 3/57 (5%)
Query: 104 STSPHELGSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQ 160
S S ++ K +T Q+ LE F + + E L +LS +
Sbjct: 3 SGSSGAYPDFAPQKFKEKT---QGQVKILEDSFLKSSFPTQAELDRLRVETKLSRRE 56
>1ic8_A Hepatocyte nuclear factor 1-alpha; transcription regulation,
DNA-binding, POU domain, diabetes, disease mutation,
MODY3, transcription/DNA comple; 2.60A {Homo sapiens}
SCOP: a.4.1.1 a.35.1.1
Length = 194
Score = 48.3 bits (114), Expect = 1e-07
Identities = 16/86 (18%), Positives = 25/86 (29%), Gaps = 21/86 (24%)
Query: 32 STSPHELGSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATAL--------- 82
P + R+ R + L + +E Q+ S ER L
Sbjct: 102 IEEPTGDELPTKKGRRNRFKWGPASQQILFQAYERQKNPSKEERETLVEECNRAECIQRG 161
Query: 83 ------------QLSETQVKTWFQNR 96
++E +V WF NR
Sbjct: 162 VSPSQAQGLGSNLVTEVRVYNWFANR 187
Score = 41.4 bits (96), Expect = 3e-05
Identities = 20/85 (23%), Positives = 32/85 (37%), Gaps = 2/85 (2%)
Query: 70 LSTPERVELATALQLSETQVKTWFQNRLPFGSLFSTSPHELGSKHCRRRKARTVFSDHQL 129
+ T +R L T + +V F + G + + EL +K RR R +
Sbjct: 70 MKTQKRAALYTWYVRKQREVAQQFTHAGQGGLIEEPTGDELPTKKGRRN--RFKWGPASQ 127
Query: 130 TGLEKRFEAQRYLSTPERVELATAL 154
L + +E Q+ S ER L
Sbjct: 128 QILFQAYERQKNPSKEERETLVEEC 152
>2ecb_A Zinc fingers and homeoboxes protein 1; homeobox domain,
transcription factor, structural genomics, NPPSFA; NMR
{Homo sapiens} SCOP: a.4.1.1
Length = 89
Score = 46.1 bits (109), Expect = 1e-07
Identities = 15/69 (21%), Positives = 25/69 (36%), Gaps = 7/69 (10%)
Query: 28 GSLFSTSPHELGSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSET 87
GS S+ P K + + QL L+ F L+ E L +L+
Sbjct: 1 GSSGSSGPDFTPQKFKEK-------TAEQLRVLQASFLNSSVLTDEELNRLRAQTKLTRR 53
Query: 88 QVKTWFQNR 96
++ WF +
Sbjct: 54 EIDAWFTEK 62
Score = 29.6 bits (66), Expect = 0.13
Identities = 13/61 (21%), Positives = 21/61 (34%), Gaps = 7/61 (11%)
Query: 100 GSLFSTSPHELGSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSET 159
GS S+ P K + + QL L+ F L+ E L +L+
Sbjct: 1 GSSGSSGPDFTPQKFKEK-------TAEQLRVLQASFLNSSVLTDEELNRLRAQTKLTRR 53
Query: 160 Q 160
+
Sbjct: 54 E 54
>2cqx_A LAG1 longevity assurance homolog 5; homeodomain, DNA binding
domain, transcription, structural genomics, NPPSFA; NMR
{Mus musculus} SCOP: a.4.1.1
Length = 72
Score = 44.0 bits (104), Expect = 5e-07
Identities = 14/60 (23%), Positives = 22/60 (36%), Gaps = 7/60 (11%)
Query: 38 LGSKHCRRRKARTVFSDHQLTGLEKRFEAQ-RYLSTPERVELATALQLSETQVKTWFQNR 96
G K K LEK F + +Y L+ L S +++ WF++R
Sbjct: 7 GGIKDSPVNKV------EPNDTLEKVFVSVTKYPDEKRLKGLSKQLDWSVRKIQCWFRHR 60
>2da4_A Hypothetical protein DKFZP686K21156; homeobox domain, three
helices with the DNA binding helix- turn-helix motif,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 80
Score = 44.2 bits (103), Expect = 7e-07
Identities = 16/57 (28%), Positives = 26/57 (45%), Gaps = 4/57 (7%)
Query: 44 RRRKARTVFSDHQLTGLEKRFE----AQRYLSTPERVELATALQLSETQVKTWFQNR 96
+ RT FSD L L+K ++ + + + +AT L + V+TW NR
Sbjct: 7 GALQDRTQFSDRDLATLKKYWDNGMTSLGSVCREKIEAVATELNVDCEIVRTWIGNR 63
Score = 29.9 bits (66), Expect = 0.11
Identities = 11/50 (22%), Positives = 21/50 (42%), Gaps = 4/50 (8%)
Query: 116 RRRKARTVFSDHQLTGLEKRFE----AQRYLSTPERVELATALQLSETQL 161
+ RT FSD L L+K ++ + + + +AT L + +
Sbjct: 7 GALQDRTQFSDRDLATLKKYWDNGMTSLGSVCREKIEAVATELNVDCEIV 56
>2h8r_A Hepatocyte nuclear factor 1-beta; trasncription factor, POU, homeo,
protein-DNA, human disease; 3.20A {Homo sapiens}
Length = 221
Score = 46.2 bits (108), Expect = 7e-07
Identities = 17/110 (15%), Positives = 28/110 (25%), Gaps = 22/110 (20%)
Query: 8 PSPYLHKSDSFYITPQGLPFGSLFSTSPHELGSKHCRRRKARTVFSDHQLTGLEKRFEAQ 67
+ + G S + RR R + L + ++ Q
Sbjct: 106 DKSSQDQLLFLFPEFSQQSHGPGQSDDACSEPTNKKMRRN-RFKWGPASQQILYQAYDRQ 164
Query: 68 RYLSTPERVELATAL---------------------QLSETQVKTWFQNR 96
+ S ER L ++E +V WF NR
Sbjct: 165 KNPSKEEREALVEECNRAECLQRGVSPSKAHGLGSNLVTEVRVYNWFANR 214
Score = 36.9 bits (84), Expect = 0.001
Identities = 11/59 (18%), Positives = 19/59 (32%), Gaps = 1/59 (1%)
Query: 95 NRLPFGSLFSTSPHELGSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATA 153
++ G S + RR R + L + ++ Q+ S ER L
Sbjct: 121 SQQSHGPGQSDDACSEPTNKKMRRN-RFKWGPASQQILYQAYDRQKNPSKEEREALVEE 178
>1lfb_A Liver transcription factor (LFB1); transcription regulation;
2.80A {Rattus norvegicus} SCOP: a.4.1.1 PDB: 2lfb_A
Length = 99
Score = 41.0 bits (95), Expect = 2e-05
Identities = 15/74 (20%), Positives = 24/74 (32%), Gaps = 21/74 (28%)
Query: 44 RRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATAL--------------------- 82
+ R+ R + L + +E Q+ S ER L
Sbjct: 8 KGRRNRFKWGPASQQILFQAYERQKNPSKEERETLVEECNRAECIQRGVSPSQAQGLGSN 67
Query: 83 QLSETQVKTWFQNR 96
++E +V WF NR
Sbjct: 68 LVTEVRVYNWFANR 81
Score = 34.8 bits (79), Expect = 0.002
Identities = 10/43 (23%), Positives = 17/43 (39%)
Query: 116 RRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSE 158
+ R+ R + L + +E Q+ S ER L +E
Sbjct: 8 KGRRNRFKWGPASQQILFQAYERQKNPSKEERETLVEECNRAE 50
>3nar_A ZHX1, zinc fingers and homeoboxes protein 1; corepressor,
homeodomain, structural genomics, oxford production
facility, OPPF, transcription; 2.60A {Homo sapiens}
Length = 96
Score = 39.4 bits (91), Expect = 4e-05
Identities = 12/65 (18%), Positives = 23/65 (35%)
Query: 32 STSPHELGSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKT 91
+ + + QL L+ F ++ S E +LA L+ T + +
Sbjct: 12 LEVLFQGPAPKSGSTGKICKKTPEQLHMLKSAFVRTQWPSPEEYDKLAKESGLARTDIVS 71
Query: 92 WFQNR 96
WF +
Sbjct: 72 WFGDT 76
Score = 27.5 bits (60), Expect = 1.0
Identities = 10/58 (17%), Positives = 19/58 (32%)
Query: 104 STSPHELGSKHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQL 161
+ + + QL L+ F ++ S E +LA L+ T +
Sbjct: 12 LEVLFQGPAPKSGSTGKICKKTPEQLHMLKSAFVRTQWPSPEEYDKLAKESGLARTDI 69
>1x2m_A LAG1 longevity assurance homolog 6; homeobox domain, structural
genomics, NPPSFA, national project on protein
structural and functional analyses; NMR {Mus musculus}
SCOP: a.4.1.1
Length = 64
Score = 34.8 bits (80), Expect = 0.001
Identities = 10/38 (26%), Positives = 16/38 (42%), Gaps = 1/38 (2%)
Query: 60 LEKRFEAQ-RYLSTPERVELATALQLSETQVKTWFQNR 96
LEK F A ++ L+ L ++ WF+ R
Sbjct: 15 LEKVFTAITKHPDEKRLEGLSKQLDWDVRSIQRWFRQR 52
>1mnm_C Protein (MAT alpha-2 transcriptional repressor); transcription
regulation, transcriptional repression, DNA- binding
protein; HET: DNA; 2.25A {Saccharomyces cerevisiae}
SCOP: a.4.1.1
Length = 87
Score = 34.8 bits (80), Expect = 0.002
Identities = 16/71 (22%), Positives = 21/71 (29%), Gaps = 3/71 (4%)
Query: 29 SLFSTSPHELGSKHCRRRKARTVFSDHQLTGLEKRFEAQR---YLSTPERVELATALQLS 85
L + + F+ + LE F YL T L LS
Sbjct: 11 GLVFNVVTQDMINKSTKPYRGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLS 70
Query: 86 ETQVKTWFQNR 96
Q+K W NR
Sbjct: 71 RIQIKNWVSNR 81
>2ecc_A Homeobox and leucine zipper protein homez; homeobox domain,
transcription factor, leucine zipper- containing
factor, structural genomics, NPPSFA; NMR {Homo sapiens}
SCOP: a.4.1.1
Length = 76
Score = 32.7 bits (74), Expect = 0.009
Identities = 8/50 (16%), Positives = 18/50 (36%)
Query: 47 KARTVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
+ + QL L+ F ++ + +L L ++ WF +
Sbjct: 5 SSGKRKTKEQLAILKSFFLQCQWARREDYQKLEQITGLPRPEIIQWFGDT 54
>1le8_B Mating-type protein alpha-2; matalpha2, isothermal titration
calorimetry, protein-DNA complex, transcription/DNA
complex; 2.30A {Saccharomyces cerevisiae} SCOP: a.4.1.1
PDB: 1akh_B* 1apl_C* 1yrn_B*
Length = 83
Score = 32.5 bits (74), Expect = 0.013
Identities = 14/55 (25%), Positives = 18/55 (32%), Gaps = 3/55 (5%)
Query: 45 RRKARTVFSDHQLTGLEKRFEAQR---YLSTPERVELATALQLSETQVKTWFQNR 96
+ F+ + LE F YL T L LS Q+K W R
Sbjct: 2 KPYRGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVAAR 56
>2ys9_A Homeobox and leucine zipper protein homez; homeodomain,
structural genomics, NPPSFA, national project on
protein structural and functional analyses; NMR {Homo
sapiens}
Length = 70
Score = 32.1 bits (72), Expect = 0.014
Identities = 15/49 (30%), Positives = 24/49 (48%)
Query: 50 TVFSDHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNRLP 98
+ LE+ + A + L + +L+ A +LS QV WF +RLP
Sbjct: 11 IPPPPPDIQPLERYWAAHQQLRETDIPQLSQASRLSTQQVLDWFDSRLP 59
>1k61_A Mating-type protein alpha-2; protein-DNA complex, homeodomain,
hoogsteen base PAIR, transcription/DNA complex; HET:
5IU; 2.10A {Synthetic} SCOP: a.4.1.1
Length = 60
Score = 31.9 bits (73), Expect = 0.014
Identities = 11/28 (39%), Positives = 12/28 (42%)
Query: 69 YLSTPERVELATALQLSETQVKTWFQNR 96
YL T L LS Q+K W NR
Sbjct: 25 YLDTKGLENLMKNTSLSRIQIKNWVSNR 52
>2e19_A Transcription factor 8; homeobox domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 64
Score = 30.4 bits (68), Expect = 0.045
Identities = 10/43 (23%), Positives = 19/43 (44%)
Query: 54 DHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
+ L+ L+ + S E ++A ++ L VK WF+
Sbjct: 12 KNLLSLLKAYYALNAQPSAEELSKIADSVNLPLDVVKKWFEKM 54
>1x2n_A Homeobox protein pknox1; homeobox domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens} SCOP: a.4.1.1
Length = 73
Score = 28.9 bits (65), Expect = 0.22
Identities = 14/60 (23%), Positives = 21/60 (35%), Gaps = 3/60 (5%)
Query: 39 GSKHCRRRKARTVFSDHQLTGLEKRFEAQR---YLSTPERVELATALQLSETQVKTWFQN 95
GS + R V H + Y + E+ ++A L+ QV WF N
Sbjct: 1 GSSGSSGKNKRGVLPKHATNVMRSWLFQHIGHPYPTEDEKKQIAAQTNLTLLQVNNWFIN 60
>3k2a_A Homeobox protein MEIS2; homeobox domain, DNA-binding,
transcription, nucleus, phosphoprotein, DNA bindi
protein; 1.95A {Homo sapiens}
Length = 67
Score = 28.4 bits (64), Expect = 0.29
Identities = 10/27 (37%), Positives = 14/27 (51%)
Query: 69 YLSTPERVELATALQLSETQVKTWFQN 95
Y S ++ +LA L+ QV WF N
Sbjct: 25 YPSEEQKKQLAQDTGLTILQVNNWFIN 51
>2lk2_A Homeobox protein TGIF1; NESG, structural genomics, northeast
structural genomics CON PSI-biology, transcription; NMR
{Homo sapiens}
Length = 89
Score = 28.6 bits (64), Expect = 0.32
Identities = 11/27 (40%), Positives = 13/27 (48%)
Query: 69 YLSTPERVELATALQLSETQVKTWFQN 95
Y S E+ L+ LS QV WF N
Sbjct: 32 YPSEQEKALLSQQTHLSTLQVCNWFIN 58
>1du6_A PBX1, homeobox protein PBX1; homeodomain, gene regulation; NMR
{Mus musculus} SCOP: a.4.1.1
Length = 64
Score = 27.7 bits (62), Expect = 0.40
Identities = 12/55 (21%), Positives = 19/55 (34%), Gaps = 3/55 (5%)
Query: 44 RRRKARTVFSDHQLTGLEKRFEAQR---YLSTPERVELATALQLSETQVKTWFQN 95
+ L + F + Y S + ELA ++ +QV WF N
Sbjct: 2 SGHIEGRHMNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGN 56
>2da6_A Hepatocyte nuclear factor 1-beta; homeobox domain, three helices
with the DNA binding helix- turn-helix motif,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 102
Score = 28.3 bits (62), Expect = 0.58
Identities = 13/74 (17%), Positives = 22/74 (29%), Gaps = 21/74 (28%)
Query: 44 RRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATAL--------------------- 82
+ R + L + ++ Q+ S ER L
Sbjct: 5 SSGRNRFKWGPASQQILYQAYDRQKNPSKEEREALVEECNRAECLQRGVSPSKAHGLGSN 64
Query: 83 QLSETQVKTWFQNR 96
++E +V WF NR
Sbjct: 65 LVTEVRVYNWFANR 78
Score = 26.0 bits (56), Expect = 3.5
Identities = 7/38 (18%), Positives = 13/38 (34%)
Query: 116 RRRKARTVFSDHQLTGLEKRFEAQRYLSTPERVELATA 153
+ R + L + ++ Q+ S ER L
Sbjct: 5 SSGRNRFKWGPASQQILYQAYDRQKNPSKEEREALVEE 42
>2da7_A Zinc finger homeobox protein 1B; homeobox domain, three helices
with the DNA binding helix- turn-helix motif,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 71
Score = 27.4 bits (60), Expect = 0.60
Identities = 9/43 (20%), Positives = 22/43 (51%)
Query: 54 DHQLTGLEKRFEAQRYLSTPERVELATALQLSETQVKTWFQNR 96
++ L+ + ++ E ++++ A+ L + VK WF+ R
Sbjct: 14 KDHMSVLKAYYAMNMEPNSDELLKISIAVGLPQEFVKEWFEQR 56
>1puf_B PRE-B-cell leukemia transcription factor-1; homeodomian,
protein-DNA complex, HOX hexapeptide, TALE homeodomain,
homeodomain interaction; 1.90A {Homo sapiens} SCOP:
a.4.1.1 PDB: 1b8i_B* 2r5y_B* 2r5z_B*
Length = 73
Score = 26.9 bits (60), Expect = 0.94
Identities = 10/27 (37%), Positives = 14/27 (51%)
Query: 69 YLSTPERVELATALQLSETQVKTWFQN 95
Y S + ELA ++ +QV WF N
Sbjct: 28 YPSEEAKEELAKKCGITVSQVSNWFGN 54
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 28.0 bits (61), Expect = 1.1
Identities = 7/26 (26%), Positives = 11/26 (42%), Gaps = 3/26 (11%)
Query: 62 KRFEAQRYLSTPERVELATALQLSET 87
K+ +A L + A AL + T
Sbjct: 23 KKLQASLKLYADDS---APALAIKAT 45
Score = 28.0 bits (61), Expect = 1.1
Identities = 7/26 (26%), Positives = 11/26 (42%), Gaps = 3/26 (11%)
Query: 134 KRFEAQRYLSTPERVELATALQLSET 159
K+ +A L + A AL + T
Sbjct: 23 KKLQASLKLYADDS---APALAIKAT 45
>2dmn_A Homeobox protein TGIF2LX; TGFB-induced factor 2-like protein,
X-linked TGF(beta) induced transcription factor 2-like
protein, TGIF-like on the X; NMR {Homo sapiens}
Length = 83
Score = 27.0 bits (60), Expect = 1.1
Identities = 10/27 (37%), Positives = 13/27 (48%)
Query: 69 YLSTPERVELATALQLSETQVKTWFQN 95
Y S E+ L+ LS Q+ WF N
Sbjct: 34 YPSEEEKQMLSEKTNLSLLQISNWFIN 60
>1b72_B Protein (PBX1); homeodomain, DNA, complex, DNA-binding protein,
protein/DNA complex; HET: DNA; 2.35A {Homo sapiens}
SCOP: a.4.1.1 PDB: 1lfu_P
Length = 87
Score = 26.3 bits (58), Expect = 2.1
Identities = 10/27 (37%), Positives = 14/27 (51%)
Query: 69 YLSTPERVELATALQLSETQVKTWFQN 95
Y S + ELA ++ +QV WF N
Sbjct: 28 YPSEEAKEELAKKCGITVSQVSNWFGN 54
>2p8t_A Hypothetical protein PH0730; pyrococcus horikoshii OT3, STR
genomics, PSI, protein structure initiative; 1.80A
{Pyrococcus horikoshii} SCOP: a.4.5.72 d.74.4.2
Length = 200
Score = 26.9 bits (59), Expect = 2.5
Identities = 12/52 (23%), Positives = 22/52 (42%), Gaps = 7/52 (13%)
Query: 41 KHCRRRKARTVFSDHQLTGLEKRFEAQRYLSTPE-RVELATALQLSETQVKT 91
+ R+R A ++ +E L P R +++ L+L E V+T
Sbjct: 4 QVIRKRGAYPEYT------VEDVLAVIFLLKEPLGRKQISERLELGEGSVRT 49
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 26.9 bits (59), Expect = 4.2
Identities = 16/79 (20%), Positives = 25/79 (31%), Gaps = 12/79 (15%)
Query: 76 VELATALQLSETQVKTWFQNRLPFGSLFS------TSPHELGSK---HCRRRKARTVFSD 126
+ + TA +Q++ F LP + T+P EL K + +
Sbjct: 20 LLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQ 79
Query: 127 HQ--LTGLEKRFEAQRYLS 143
L FE YL
Sbjct: 80 FDQVLNLCLTEFE-NCYLE 97
>1e4c_P L-fuculose 1-phosphate aldolase; aldolase (class II), bacterial
L-fucose metabolism; 1.66A {Escherichia coli} SCOP:
c.74.1.1 PDB: 1fua_A 2fua_A 3fua_A 4fua_A* 1dzv_P
1e4b_P 1e47_P* 1e48_P* 1dzz_P 1e46_P 1dzu_P 1dzy_P
1dzx_P 1dzw_P 1e49_P 1e4a_P
Length = 215
Score = 25.7 bits (57), Expect = 8.0
Identities = 7/15 (46%), Positives = 9/15 (60%)
Query: 16 DSFYITPQGLPFGSL 30
D ITP G+P+ L
Sbjct: 36 DGMLITPTGIPYEKL 50
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.320 0.132 0.388
Gapped
Lambda K H
0.267 0.0770 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,413,158
Number of extensions: 126706
Number of successful extensions: 425
Number of sequences better than 10.0: 1
Number of HSP's gapped: 407
Number of HSP's successfully gapped: 136
Length of query: 165
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 79
Effective length of database: 4,300,587
Effective search space: 339746373
Effective search space used: 339746373
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (24.1 bits)