RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13127
(64 letters)
>2l9r_A Homeobox protein NKX-3.1; structural genomics, northeast
structural genomics consortiu PSI-biology, protein
structure initiative; NMR {Homo sapiens}
Length = 69
Score = 61.2 bits (149), Expect = 5e-15
Identities = 16/45 (35%), Positives = 24/45 (53%)
Query: 19 KPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTETQ 63
+ S +Q+++LE F Y+ ER LA++L LTETQ
Sbjct: 3 HHHHHHSHMSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQ 47
>3a01_A Homeodomain-containing protein; homeodomain, protein-DNA complex,
DNA-binding, homeobox, NUC developmental protein; 2.70A
{Drosophila melanogaster}
Length = 93
Score = 60.6 bits (147), Expect = 2e-14
Identities = 19/52 (36%), Positives = 30/52 (57%)
Query: 12 FLLQPFRKPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTETQ 63
+ + K K+ RT+F+ Q+ +LE F K Y+ AER LA+ L +T+ Q
Sbjct: 9 YQNRTPPKRKKPRTSFTRIQVAELEKRFHKQKYLASAERAALARGLKMTDAQ 60
>1ig7_A Homeotic protein MSX-1; helix-turn-helix, transcription/DNA
complex; 2.20A {Mus musculus} SCOP: a.4.1.1
Length = 58
Score = 58.8 bits (143), Expect = 4e-14
Identities = 21/43 (48%), Positives = 29/43 (67%)
Query: 21 KRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTETQ 63
++ RT F+ +QLL LE F + Y+ AER + + SLSLTETQ
Sbjct: 1 RKPRTPFTTAQLLALERKFRQKQYLSIAERAEFSSSLSLTETQ 43
>3a03_A T-cell leukemia homeobox protein 2; homeodomain, developmental
protein, DNA-binding, N gene regulation; 1.54A {Homo
sapiens}
Length = 56
Score = 58.5 bits (142), Expect = 6e-14
Identities = 18/39 (46%), Positives = 27/39 (69%)
Query: 25 TAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTETQ 63
T+FS SQ+L+LE F + Y+ AER LA++L +T+ Q
Sbjct: 2 TSFSRSQVLELERRFLRQKYLASAERAALAKALRMTDAQ 40
>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 = 58.6 bits (142), Expect = 7e-14
Identities = 20/46 (43%), Positives = 29/46 (63%)
Query: 18 RKPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTETQ 63
+K +R RT F+ QL+ LE FEK Y+ +R LA+SL L++ Q
Sbjct: 15 KKGRRSRTVFTELQLMGLEKRFEKQKYLSTPDRIDLAESLGLSQLQ 60
>2djn_A Homeobox protein DLX-5; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 70
Score = 58.6 bits (142), Expect = 7e-14
Identities = 19/46 (41%), Positives = 27/46 (58%)
Query: 18 RKPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTETQ 63
++ RT +S QL L+ F+K Y+ ER +LA SL LT+TQ
Sbjct: 5 SSGRKPRTIYSSFQLAALQRRFQKTQYLALPERAELAASLGLTQTQ 50
>3rkq_A Homeobox protein NKX-2.5; helix-turn-helix, DNA binding, nucleus,
transcription-DNA CO; 1.70A {Homo sapiens}
Length = 58
Score = 56.9 bits (138), Expect = 2e-13
Identities = 18/43 (41%), Positives = 26/43 (60%)
Query: 21 KRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTETQ 63
++ R FS +Q+ +LE F++ Y+ ER QLA L LT TQ
Sbjct: 3 RKPRVLFSQAQVYELERRFKQQRYLSAPERDQLASVLKLTSTQ 45
>2kt0_A Nanog, homeobox protein nanog; homeodomain, structural genomics,
protein structure initiative, PSI, center for
eukaryotic structural genomics; NMR {Homo sapiens}
Length = 84
Score = 57.5 bits (139), Expect = 2e-13
Identities = 14/46 (30%), Positives = 26/46 (56%)
Query: 18 RKPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTETQ 63
K ++ RT FS +QL L F++ Y+ + ++L+ L+L+ Q
Sbjct: 20 VKKQKTRTVFSSTQLCVLNDRFQRQKYLSLQQMQELSNILNLSYKQ 65
>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 = 57.1 bits (138), Expect = 3e-13
Identities = 16/46 (34%), Positives = 25/46 (54%)
Query: 18 RKPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTETQ 63
K ++ R F+ +Q +LE F + Y+ ER+ LA + LT TQ
Sbjct: 7 NKKRKRRVLFTKAQTYELERRFRQQRYLSAPEREHLASLIRLTPTQ 52
>2vi6_A Homeobox protein nanog; homeodomain, DNA-binding, transcription,
transcription facto developmental protein,
transcription regulation, NUC homeobox; 2.6A {Mus
musculus}
Length = 62
Score = 56.5 bits (137), Expect = 4e-13
Identities = 14/45 (31%), Positives = 27/45 (60%)
Query: 19 KPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTETQ 63
+++RT FS +QL L+ F+K Y+ + ++L+ L+L+ Q
Sbjct: 2 TKQKMRTVFSQAQLCALKDRFQKQKYLSLQQMQELSSILNLSYKQ 46
>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 = 55.9 bits (135), Expect = 7e-13
Identities = 18/46 (39%), Positives = 25/46 (54%)
Query: 18 RKPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTETQ 63
K + FS Q ++LE FE Y+ ERK+LA+ L L+E Q
Sbjct: 5 SSGKGGQVRFSNDQTIELEKKFETQKYLSPPERKRLAKMLQLSERQ 50
>1ftt_A TTF-1 HD, thyroid transcription factor 1 homeodomain; DNA binding
protein; NMR {Rattus norvegicus} SCOP: a.4.1.1
Length = 68
Score = 54.7 bits (132), Expect = 2e-12
Identities = 16/43 (37%), Positives = 26/43 (60%)
Query: 21 KRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTETQ 63
++ R FS +Q+ +LE F++ Y+ ER+ LA + LT TQ
Sbjct: 3 RKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQ 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 = 53.7 bits (130), Expect = 5e-12
Identities = 10/45 (22%), Positives = 22/45 (48%)
Query: 19 KPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTETQ 63
K + +++ SP LE F + + E++++A+ +T Q
Sbjct: 4 KSPKGKSSISPQARAFLEEVFRRKQSLNSKEKEEVAKKCGITPLQ 48
>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 = 53.5 bits (129), Expect = 5e-12
Identities = 14/46 (30%), Positives = 21/46 (45%)
Query: 18 RKPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTETQ 63
+ RT F+ QL L+ F+ N Y E +QL+ L+L
Sbjct: 5 SSGRSSRTRFTDYQLRVLQDFFDANAYPKDDEFEQLSNLLNLPTRV 50
>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 = 55.8 bits (134), Expect = 6e-12
Identities = 15/57 (26%), Positives = 27/57 (47%)
Query: 7 PDIPGFLLQPFRKPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTETQ 63
++ F+ K ++ RT+F+P + L FEKN G E ++A+ L+
Sbjct: 80 QNLMEFVGGEPSKKRKRRTSFTPQAIEALNAYFEKNPLPTGQEITEMAKELNYDREV 136
>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 = 53.2 bits (128), Expect = 9e-12
Identities = 15/44 (34%), Positives = 23/44 (52%)
Query: 20 PKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTETQ 63
P+R RT F+ SQ+ +LE F + Y+ L+ L+L Q
Sbjct: 2 PRRTRTTFTSSQIAELEQHFLQGRYLTAPRLADLSAKLALGTAQ 45
>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 = 51.9 bits (125), Expect = 2e-11
Identities = 20/43 (46%), Positives = 26/43 (60%)
Query: 21 KRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTETQ 63
KR RTAFS QL +L+ F +N Y+ R+QL+ L L E Q
Sbjct: 4 KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQ 46
>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 = 51.7 bits (124), Expect = 5e-11
Identities = 17/44 (38%), Positives = 23/44 (52%)
Query: 18 RKPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTE 61
KR+RT+F QL ++ F NH + KQLAQ LT+
Sbjct: 5 SSGKRMRTSFKHHQLRTMKSYFAINHNPDAKDLKQLAQKTGLTK 48
>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 = 50.9 bits (122), Expect = 9e-11
Identities = 10/44 (22%), Positives = 19/44 (43%)
Query: 18 RKPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTE 61
++ KR+RT +P QL L + + +A + L +
Sbjct: 15 QRDKRLRTTITPEQLEILYQKYLLDSNPTRKMLDHIAHEVGLKK 58
>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 = 52.7 bits (126), Expect = 9e-11
Identities = 8/46 (17%), Positives = 22/46 (47%)
Query: 18 RKPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTETQ 63
+ ++ RT+ + + LE +F +N + +A+ L++ +
Sbjct: 99 SRRRKKRTSIETNIRVALEKSFMENQKPTSEDITLIAEQLNMEKEV 144
>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 = 50.9 bits (122), Expect = 1e-10
Identities = 15/44 (34%), Positives = 23/44 (52%)
Query: 18 RKPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTE 61
+R RT F+ +QL LE F K Y R+++A ++L E
Sbjct: 5 SSGRRERTTFTRAQLDVLEALFAKTRYPDIFMREEVALKINLPE 48
>2xsd_C POU domain, class 3, transcription factor 1; transcription-DNA
complex, SOX; 2.05A {Mus musculus}
Length = 164
Score = 52.3 bits (125), Expect = 1e-10
Identities = 12/49 (24%), Positives = 17/49 (34%)
Query: 15 QPFRKPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTETQ 63
+ ++ RT+ LE F K E LA SL L +
Sbjct: 94 AAQGRKRKKRTSIEVGVKGALESHFLKCPKPSAHEITGLADSLQLEKEV 142
>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 = 50.0 bits (120), Expect = 1e-10
Identities = 19/43 (44%), Positives = 26/43 (60%)
Query: 21 KRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTETQ 63
+R RTAF+ QL +LE F K +YV R +LA L+L E+
Sbjct: 2 RRYRTAFTRDQLGRLEKEFYKENYVSRPRRCELAAQLNLPEST 44
>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 = 50.1 bits (120), Expect = 2e-10
Identities = 23/44 (52%), Positives = 29/44 (65%)
Query: 18 RKPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTE 61
RK +R RT FS SQL +LE AFE+ Y R++LAQ +LTE
Sbjct: 16 RKQRRSRTTFSASQLDELERAFERTQYPDIYTREELAQRTNLTE 59
>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 = 49.3 bits (118), Expect = 3e-10
Identities = 16/44 (36%), Positives = 24/44 (54%)
Query: 18 RKPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTE 61
+R RT F+ QL LE+ F++ Y R+QLA+ + L E
Sbjct: 5 SSGRRHRTIFTDEQLEALENLFQETKYPDVGTREQLARKVHLRE 48
>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 = 48.9 bits (117), Expect = 4e-10
Identities = 11/43 (25%), Positives = 18/43 (41%)
Query: 19 KPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTE 61
K R+RT + QL L + N ++QL + L+
Sbjct: 2 KTTRVRTVLNEKQLHTLRTCYAANPRPDALMKEQLVEMTGLSP 44
>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 = 50.8 bits (121), Expect = 4e-10
Identities = 10/48 (20%), Positives = 21/48 (43%)
Query: 16 PFRKPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTETQ 63
+ ++ RT S + LE F ++ E ++A+ L+L +
Sbjct: 83 ANERKRKRRTTISIAAKDALERHFGEHSKPSSQEIMRMAEELNLEKEV 130
>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 = 49.1 bits (117), Expect = 6e-10
Identities = 19/45 (42%), Positives = 26/45 (57%)
Query: 19 KPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTETQ 63
P +RT F+ QL +LE F N Y+ A R ++A +L L ETQ
Sbjct: 33 SPSGLRTNFTTRQLTELEKEFHFNKYLSRARRVEIAATLELNETQ 77
>2dn0_A Zinc fingers and homeoboxes protein 3; triple homeobox 1 protein,
KIAA0395, TIX1, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 76
Score = 48.6 bits (116), Expect = 7e-10
Identities = 9/49 (18%), Positives = 19/49 (38%)
Query: 15 QPFRKPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTETQ 63
+ S QL L+ +F +N + +E + L + L+ +
Sbjct: 3 SGSSGASIYKNKKSHEQLSALKGSFCRNQFPGQSEVEHLTKVTGLSTRE 51
>2cue_A Paired box protein PAX6; homeobox domain, transcription factor,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
a.4.1.1
Length = 80
Score = 48.5 bits (116), Expect = 8e-10
Identities = 16/44 (36%), Positives = 24/44 (54%)
Query: 18 RKPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTE 61
+R RT+F+ Q+ LE FE+ HY R++LA + L E
Sbjct: 5 SSGQRNRTSFTQEQIEALEKEFERTHYPDVFARERLAAKIDLPE 48
>2h1k_A IPF-1, pancreatic and duodenal homeobox 1, homeodomain;
protein-DNA complex, transcription/DNA complex; 2.42A
{Mesocricetus auratus}
Length = 63
Score = 47.8 bits (114), Expect = 9e-10
Identities = 20/45 (44%), Positives = 27/45 (60%)
Query: 19 KPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTETQ 63
KR RTA++ +QLL+LE F N Y+ R +LA L+LTE
Sbjct: 2 SNKRTRTAYTRAQLLELEKEFLFNKYISRPRRVELAVMLNLTERH 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 = 47.7 bits (114), Expect = 1e-09
Identities = 16/43 (37%), Positives = 26/43 (60%)
Query: 19 KPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTE 61
+R RT F+ QL +LE F++N Y + R+++A +LTE
Sbjct: 2 SQRRQRTHFTSQQLQQLEATFQRNRYPDMSTREEIAVWTNLTE 44
>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 = 47.7 bits (114), Expect = 1e-09
Identities = 12/44 (27%), Positives = 19/44 (43%)
Query: 18 RKPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTE 61
KR RT + QL L F+ N+ + K++A L +
Sbjct: 5 SSGKRPRTRITDDQLRVLRQYFDINNSPSEEQIKEMADKSGLPQ 48
>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 = 46.2 bits (110), Expect = 5e-09
Identities = 16/41 (39%), Positives = 23/41 (56%)
Query: 21 KRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTE 61
+R RTAF+ +Q+ LE+ F N Y + LAQ L+L
Sbjct: 2 RRPRTAFTQNQIEVLENVFRVNCYPGIDILEDLAQKLNLEL 42
>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 = 47.0 bits (111), Expect = 1e-08
Identities = 11/47 (23%), Positives = 17/47 (36%)
Query: 15 QPFRKPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTE 61
+ KR RT+ LE F K+ + +A L L +
Sbjct: 91 TLVQARKRKRTSIENRVRWSLETMFLKSPKPSLQQITHIANQLGLEK 137
>2r5y_A Homeotic protein sex combs reduced; homeodomain; HET: DNA; 2.60A
{Drosophila melanogaster} PDB: 2r5z_A*
Length = 88
Score = 44.8 bits (106), Expect = 2e-08
Identities = 19/49 (38%), Positives = 28/49 (57%)
Query: 15 QPFRKPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTETQ 63
+ KR RT+++ Q L+LE F N Y+ R ++A +LSLTE Q
Sbjct: 23 NANGETKRQRTSYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQ 71
>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 = 44.8 bits (106), Expect = 3e-08
Identities = 18/46 (39%), Positives = 26/46 (56%)
Query: 18 RKPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTETQ 63
+R R ++ Q L+LE F NHY+ R ++A +LSLTE Q
Sbjct: 18 GLRRRGRQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALSLTERQ 63
>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 = 44.2 bits (104), Expect = 5e-08
Identities = 9/49 (18%), Positives = 20/49 (40%)
Query: 15 QPFRKPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTETQ 63
+ R + L +E F +N Y A+R+++A + + +
Sbjct: 2 SSGSSGRGSRFTWRKECLAVMESYFNENQYPDEAKREEIANACNAVIQK 50
>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 = 43.6 bits (103), Expect = 5e-08
Identities = 18/44 (40%), Positives = 25/44 (56%)
Query: 20 PKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTETQ 63
KR R ++ Q L+LE F N Y+ R ++A +LSLTE Q
Sbjct: 2 RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQ 45
>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 = 43.4 bits (103), Expect = 5e-08
Identities = 15/38 (39%), Positives = 21/38 (55%)
Query: 24 RTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTE 61
F+ QL +LE AF + HY R++LA + LTE
Sbjct: 3 HMTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTE 40
>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 = 42.5 bits (100), Expect = 2e-07
Identities = 12/46 (26%), Positives = 26/46 (56%)
Query: 18 RKPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTETQ 63
++ R +S QL +LE + N ++ +R++++ + SL+E Q
Sbjct: 5 SSGRKKRIPYSKGQLRELEREYAANKFITKDKRRKISAATSLSERQ 50
>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 = 41.7 bits (98), Expect = 2e-07
Identities = 7/45 (15%), Positives = 18/45 (40%)
Query: 19 KPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTETQ 63
+ Q+ L+ +F ++ + AE +L + L ++
Sbjct: 3 HHHHHHRKKTKEQIAHLKASFLQSQFPDDAEVYRLIEVTGLARSE 47
>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 = 44.1 bits (103), Expect = 2e-07
Identities = 12/46 (26%), Positives = 21/46 (45%)
Query: 16 PFRKPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTE 61
P +K +R R + P+ L A+E+ ER+ L + + E
Sbjct: 111 PTKKGRRNRFKWGPASQQILFQAYERQKNPSKEERETLVEECNRAE 156
>1lfb_A Liver transcription factor (LFB1); transcription regulation;
2.80A {Rattus norvegicus} SCOP: a.4.1.1 PDB: 2lfb_A
Length = 99
Score = 42.5 bits (99), Expect = 2e-07
Identities = 12/48 (25%), Positives = 22/48 (45%)
Query: 14 LQPFRKPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTE 61
+ P +K +R R + P+ L A+E+ ER+ L + + E
Sbjct: 3 IDPTKKGRRNRFKWGPASQQILFQAYERQKNPSKEERETLVEECNRAE 50
>2l7z_A Homeobox protein HOX-A13; gene regulation; NMR {Homo sapiens}
PDB: 2ld5_A*
Length = 73
Score = 41.8 bits (98), Expect = 3e-07
Identities = 10/50 (20%), Positives = 28/50 (56%)
Query: 14 LQPFRKPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTETQ 63
+ + ++ R ++ QL +LE + N ++ +R++++ + +L+E Q
Sbjct: 1 MSHMLEGRKKRVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQ 50
>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 = 41.4 bits (97), Expect = 5e-07
Identities = 17/56 (30%), Positives = 28/56 (50%)
Query: 8 DIPGFLLQPFRKPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTETQ 63
+ P R ++ R ++ Q L+LE F N Y+ R ++A+ L+LTE Q
Sbjct: 1 NNPAANWLHARSTRKKRCPYTKHQTLELEKEFLFNMYLTRDRRYEVARLLNLTERQ 56
>2hi3_A Homeodomain-only protein; transcription; NMR {Mus musculus} SCOP:
a.4.1.1
Length = 73
Score = 40.5 bits (95), Expect = 9e-07
Identities = 11/44 (25%), Positives = 18/44 (40%), Gaps = 1/44 (2%)
Query: 21 KRIRTAFSPSQLLKLEHAFEK-NHYVVGAERKQLAQSLSLTETQ 63
+ + + Q+ LE+ F K N + +A LTE Q
Sbjct: 3 AQTVSGPTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQ 46
>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 = 40.7 bits (95), Expect = 1e-06
Identities = 11/48 (22%), Positives = 22/48 (45%), Gaps = 1/48 (2%)
Query: 16 PFRKPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTETQ 63
P P++ + + Q+ LE +F K+ + AE +L L+ +
Sbjct: 10 PDFAPQKFKEK-TQGQVKILEDSFLKSSFPTQAELDRLRVETKLSRRE 56
>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 = 40.8 bits (95), Expect = 1e-06
Identities = 10/49 (20%), Positives = 20/49 (40%), Gaps = 1/49 (2%)
Query: 15 QPFRKPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTETQ 63
P P++ + + QL L+ +F + + E +L LT +
Sbjct: 7 GPDFTPQKFKEK-TAEQLRVLQASFLNSSVLTDEELNRLRAQTKLTRRE 54
>2h8r_A Hepatocyte nuclear factor 1-beta; trasncription factor, POU, homeo,
protein-DNA, human disease; 3.20A {Homo sapiens}
Length = 221
Score = 41.5 bits (96), Expect = 2e-06
Identities = 10/46 (21%), Positives = 20/46 (43%)
Query: 16 PFRKPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTE 61
+K +R R + P+ L A+++ ER+ L + + E
Sbjct: 138 TNKKMRRNRFKWGPASQQILYQAYDRQKNPSKEEREALVEECNRAE 183
>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 = 38.0 bits (88), Expect = 9e-06
Identities = 11/47 (23%), Positives = 18/47 (38%), Gaps = 2/47 (4%)
Query: 17 FRKPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTETQ 63
K +P QL LE +F +N + E +L +T +
Sbjct: 6 SGPTKYKER--APEQLRALESSFAQNPLPLDEELDRLRSETKMTRRE 50
>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 = 37.5 bits (87), Expect = 2e-05
Identities = 10/46 (21%), Positives = 14/46 (30%), Gaps = 1/46 (2%)
Query: 19 KPKRIRTAFSPSQLLKLEHAF-EKNHYVVGAERKQLAQSLSLTETQ 63
R RT S L L+ + Y L+ L L +
Sbjct: 6 SGPRSRTKISLEALGILQSFIHDVGLYPDQEAIHTLSAQLDLPKHT 51
>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 = 36.6 bits (85), Expect = 3e-05
Identities = 9/39 (23%), Positives = 15/39 (38%), Gaps = 1/39 (2%)
Query: 24 RTAFSPSQLLKLEHAFEKNH-YVVGAERKQLAQSLSLTE 61
+ Q+ LE+ F K + + +A LTE
Sbjct: 5 AATMTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTE 43
>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 = 33.6 bits (76), Expect = 9e-04
Identities = 12/49 (24%), Positives = 18/49 (36%)
Query: 15 QPFRKPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTETQ 63
P +P QL L+ AF + + E +LA+ L T
Sbjct: 20 APKSGSTGKICKKTPEQLHMLKSAFVRTQWPSPEEYDKLAKESGLARTD 68
>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 = 27.1 bits (59), Expect = 0.21
Identities = 8/39 (20%), Positives = 15/39 (38%)
Query: 17 FRKPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQ 55
R R + P+ L A+++ ER+ L +
Sbjct: 3 SGSSGRNRFKWGPASQQILYQAYDRQKNPSKEEREALVE 41
>1nt2_A Fibrillarin-like PRE-rRNA processing protein; adeMet, binding
motif, RNA binding protein; HET: SAM; 2.90A
{Archaeoglobus fulgidus} SCOP: c.66.1.3
Length = 210
Score = 27.2 bits (60), Expect = 0.31
Identities = 6/30 (20%), Positives = 12/30 (40%), Gaps = 1/30 (3%)
Query: 21 KRIRTAFSPSQLLKLEHAFEKNHYVVGAER 50
K + F + L + ++H + A R
Sbjct: 181 KEMEGDFKIVKHGSLMP-YHRDHIFIHAYR 209
>1wh7_A ZF-HD homeobox family protein; homeobox domain, structural
genomics, riken structural genomics/proteomics
initiative, RSGI; NMR {Arabidopsis thaliana} SCOP:
a.4.1.1
Length = 80
Score = 25.3 bits (55), Expect = 0.82
Identities = 9/54 (16%), Positives = 15/54 (27%)
Query: 4 GIRPDIPGFLLQPFRKPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSL 57
G KR RT F+ Q K+ E+ + + +
Sbjct: 1 GSSGSSGSNPSSSGGTTKRFRTKFTAEQKEKMLAFAERLGWRIQKHDDVAVEQF 54
>1wh5_A ZF-HD homeobox family protein; structural genomics, zinc finger
homeobox family protein, riken structural
genomics/proteomics initiative; NMR {Arabidopsis
thaliana} SCOP: a.4.1.1
Length = 80
Score = 24.6 bits (53), Expect = 1.4
Identities = 9/54 (16%), Positives = 18/54 (33%)
Query: 4 GIRPDIPGFLLQPFRKPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSL 57
G KR RT F+ Q ++ E+ + + + ++ Q
Sbjct: 1 GSSGSSGSSAEAGGGIRKRHRTKFTAEQKERMLALAERIGWRIQRQDDEVIQRF 54
>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 = 24.2 bits (51), Expect = 2.2
Identities = 7/41 (17%), Positives = 19/41 (46%)
Query: 18 RKPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLS 58
+ RT FS L L+ ++ +G+ ++ ++++
Sbjct: 6 SGALQDRTQFSDRDLATLKKYWDNGMTSLGSVCREKIEAVA 46
>3qbc_A 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine
pyrophosphokinase; protein-inhibitor complex,
ferredoxin-like fold; HET: B55; 1.65A {Staphylococcus
aureus}
Length = 161
Score = 24.0 bits (53), Expect = 3.7
Identities = 6/22 (27%), Positives = 10/22 (45%)
Query: 22 RIRTAFSPSQLLKLEHAFEKNH 43
I+T + QLL+ E+
Sbjct: 63 EIQTTLTVLQLLECCLKTEECL 84
>1cbk_A Protein (7,8-dihydro-6-hydroxymethylpterin- pyrophosphokinase);
transferase; HET: ROI; 2.02A {Haemophilus influenzae}
SCOP: d.58.30.1
Length = 160
Score = 24.0 bits (53), Expect = 3.8
Identities = 7/22 (31%), Positives = 9/22 (40%)
Query: 22 RIRTAFSPSQLLKLEHAFEKNH 43
+I T SP +LL E
Sbjct: 60 KIETELSPLKLLDELQRIENEQ 81
>1f9y_A HPPK, protein (6-hydroxymethyl-7,8-dihydropterin
pyrophosphokinase); pyrophosphoryl transfer, catalytic
mechanism, folate, ternary complex; HET: APC HHR; 0.89A
{Escherichia coli} SCOP: d.58.30.1 PDB: 1eq0_A 1dy3_A*
1ex8_A* 1eqm_A* 1hka_A 1q0n_A* 1rao_A* 1rb0_A* 2f63_A
2f65_A 3h4a_A* 3ip0_A* 3ud5_A* 3ude_A* 3udv_A* 3kue_A
3hd2_A* 1f9h_A* 1g4c_A 1kbr_A ...
Length = 158
Score = 23.6 bits (52), Expect = 4.5
Identities = 5/22 (22%), Positives = 9/22 (40%)
Query: 22 RIRTAFSPSQLLKLEHAFEKNH 43
+ T+ +P +LL E
Sbjct: 59 ALETSLAPEELLNHTQRIELQQ 80
>2qx0_A 7,8-dihydro-6-hydroxymethylpterin- pyrophosphokinase; 3-layered
alpha-BATA-alpha fold, homodimer, ternary complex,
transferase; HET: APC PH2; 1.80A {Yersinia pestis}
Length = 159
Score = 23.6 bits (52), Expect = 5.2
Identities = 8/22 (36%), Positives = 11/22 (50%)
Query: 22 RIRTAFSPSQLLKLEHAFEKNH 43
+ T+ P QLL A E+N
Sbjct: 60 ALDTSLPPEQLLDHTQAIERNQ 81
>2cg8_A Dihydroneopterin aldolase 6-hydroxymethyl-7,8- dihydropterin
synthase; lyase/transferase, folate biosynthesis,
pyrophosphokinase, lyase; 2.9A {Streptococcus
pneumoniae}
Length = 270
Score = 23.7 bits (52), Expect = 5.4
Identities = 5/22 (22%), Positives = 7/22 (31%)
Query: 22 RIRTAFSPSQLLKLEHAFEKNH 43
+ T LL+ A E
Sbjct: 177 EVETWLPAQDLLETLLAIESEL 198
>3e9k_A Kynureninase; kynurenine-L-hydrolase, kynurenine hydrolase,
pyridoxal-5'-phosphate, inhibitor complex, 3-hydroxy
hippur hydroxyhippuric acid, PLP; HET: PLP 3XH; 1.70A
{Homo sapiens} PDB: 2hzp_A*
Length = 465
Score = 23.4 bits (50), Expect = 5.9
Identities = 8/29 (27%), Positives = 9/29 (31%), Gaps = 8/29 (27%)
Query: 1 MANGIRPDIPGFLLQPFRKPKRIRTAFSP 29
G+ D R P IR A P
Sbjct: 419 EKRGVVCD--------KRNPNGIRVAPVP 439
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
0.322 0.136 0.391
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: 922,499
Number of extensions: 40135
Number of successful extensions: 163
Number of sequences better than 10.0: 1
Number of HSP's gapped: 153
Number of HSP's successfully gapped: 65
Length of query: 64
Length of database: 6,701,793
Length adjustment: 35
Effective length of query: 29
Effective length of database: 5,724,558
Effective search space: 166012182
Effective search space used: 166012182
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: 51 (23.3 bits)