RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16797
(99 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 = 87.9 bits (218), Expect = 7e-25
Identities = 29/64 (45%), Positives = 40/64 (62%)
Query: 14 ADEKKGKKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRM 73
+ K +R+RT +T QL+ LEK F +Q Y+ R LA+ L L + Q+K W+QNRRM
Sbjct: 11 GTKAKKGRRSRTVFTELQLMGLEKRFEKQKYLSTPDRIDLAESLGLSQLQVKTWYQNRRM 70
Query: 74 KKKK 77
K KK
Sbjct: 71 KWKK 74
>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 = 85.9 bits (213), Expect = 3e-24
Identities = 24/59 (40%), Positives = 36/59 (61%)
Query: 19 GKKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMKKKK 77
G +R RT +TS+Q+ LE+ F Q Y+ + L+ +L L Q+KIWF+NRR + K
Sbjct: 1 GPRRTRTTFTSSQIAELEQHFLQGRYLTAPRLADLSAKLALGTAQVKIWFKNRRRRHKI 59
>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 = 85.8 bits (213), Expect = 3e-24
Identities = 31/59 (52%), Positives = 42/59 (71%)
Query: 19 GKKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMKKKK 77
+KR RTA++S QL L++EFN+ Y+ +R QL+ EL L E QIKIWF+N+R K KK
Sbjct: 2 AEKRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFKNKRAKIKK 60
>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 = 86.5 bits (214), Expect = 5e-24
Identities = 31/59 (52%), Positives = 40/59 (67%)
Query: 19 GKKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMKKKK 77
RT +T+ QL LEKEF+ Y+ RA+R ++A L L E Q+KIWFQNRRMK+KK
Sbjct: 33 SPSGLRTNFTTRQLTELEKEFHFNKYLSRARRVEIAATLELNETQVKIWFQNRRMKQKK 91
>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 = 85.1 bits (211), Expect = 6e-24
Identities = 33/59 (55%), Positives = 45/59 (76%)
Query: 21 KRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMKKKKGK 79
+R RTA+T +QL LEKEF ++NY+ R +R +LA +LNL E IK+WFQNRRMK K+ +
Sbjct: 2 RRYRTAFTRDQLGRLEKEFYKENYVSRPRRCELAAQLNLPESTIKVWFQNRRMKDKRQR 60
>2djn_A Homeobox protein DLX-5; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 70
Score = 85.1 bits (211), Expect = 8e-24
Identities = 26/60 (43%), Positives = 38/60 (63%)
Query: 18 KGKKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMKKKK 77
++ RT Y+S QL AL++ F + Y+ +R +LA L L + Q+KIWFQN+R K KK
Sbjct: 5 SSGRKPRTIYSSFQLAALQRRFQKTQYLALPERAELAASLGLTQTQVKIWFQNKRSKIKK 64
>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 = 84.0 bits (208), Expect = 2e-23
Identities = 25/64 (39%), Positives = 38/64 (59%)
Query: 14 ADEKKGKKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRM 73
K + ++++Q + LEK+F Q Y+ +R +LAK L L ERQ+K WFQNRR
Sbjct: 1 GSSGSSGKGGQVRFSNDQTIELEKKFETQKYLSPPERKRLAKMLQLSERQVKTWFQNRRA 60
Query: 74 KKKK 77
K ++
Sbjct: 61 KWRR 64
>1ig7_A Homeotic protein MSX-1; helix-turn-helix, transcription/DNA
complex; 2.20A {Mus musculus} SCOP: a.4.1.1
Length = 58
Score = 83.5 bits (207), Expect = 2e-23
Identities = 28/57 (49%), Positives = 42/57 (73%)
Query: 21 KRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMKKKK 77
++ RT +T+ QLLALE++F Q+ Y+ A+R + + L+L E Q+KIWFQNRR K K+
Sbjct: 1 RKPRTPFTTAQLLALERKFRQKQYLSIAERAEFSSSLSLTETQVKIWFQNRRAKAKR 57
>2h1k_A IPF-1, pancreatic and duodenal homeobox 1, homeodomain;
protein-DNA complex, transcription/DNA complex; 2.42A
{Mesocricetus auratus}
Length = 63
Score = 83.2 bits (206), Expect = 4e-23
Identities = 39/59 (66%), Positives = 42/59 (71%)
Query: 21 KRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMKKKKGK 79
KR RTAYT QLL LEKEF YI R +R +LA LNL ER IKIWFQNRRMK KK +
Sbjct: 4 KRTRTAYTRAQLLELEKEFLFNKYISRPRRVELAVMLNLTERHIKIWFQNRRMKWKKEE 62
>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 = 83.3 bits (206), Expect = 6e-23
Identities = 33/58 (56%), Positives = 42/58 (72%)
Query: 20 KKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMKKKK 77
++R R YT Q L LEKEF+ +Y+ R +R ++A L+L ERQIKIWFQNRRMK KK
Sbjct: 20 RRRGRQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALSLTERQIKIWFQNRRMKLKK 77
>2kt0_A Nanog, homeobox protein nanog; homeodomain, structural genomics,
protein structure initiative, PSI, center for
eukaryotic structural genomics; NMR {Homo sapiens}
Length = 84
Score = 82.9 bits (205), Expect = 9e-23
Identities = 24/61 (39%), Positives = 37/61 (60%)
Query: 17 KKGKKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMKKK 76
K++ RT ++S QL L F +Q Y+ + +L+ LNL +Q+K WFQN+RMK K
Sbjct: 19 PVKKQKTRTVFSSTQLCVLNDRFQRQKYLSLQQMQELSNILNLSYKQVKTWFQNQRMKSK 78
Query: 77 K 77
+
Sbjct: 79 R 79
>2l9r_A Homeobox protein NKX-3.1; structural genomics, northeast
structural genomics consortiu PSI-biology, protein
structure initiative; NMR {Homo sapiens}
Length = 69
Score = 82.0 bits (203), Expect = 1e-22
Identities = 24/64 (37%), Positives = 37/64 (57%)
Query: 20 KKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMKKKKGK 79
+ + Q++ LE++F+ Q Y+ +R LAK L L E Q+KIWFQNRR K K+ +
Sbjct: 4 HHHHHSHMSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRRYKTKRKQ 63
Query: 80 TPED 83
+
Sbjct: 64 LSSE 67
>2r5y_A Homeotic protein sex combs reduced; homeodomain; HET: DNA; 2.60A
{Drosophila melanogaster} PDB: 2r5z_A*
Length = 88
Score = 82.6 bits (204), Expect = 1e-22
Identities = 35/64 (54%), Positives = 43/64 (67%)
Query: 14 ADEKKGKKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRM 73
+ KR RT+YT Q L LEKEF+ Y+ R +R ++A L+L ERQIKIWFQNRRM
Sbjct: 22 VNANGETKRQRTSYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRM 81
Query: 74 KKKK 77
K KK
Sbjct: 82 KWKK 85
>3rkq_A Homeobox protein NKX-2.5; helix-turn-helix, DNA binding, nucleus,
transcription-DNA CO; 1.70A {Homo sapiens}
Length = 58
Score = 81.1 bits (201), Expect = 2e-22
Identities = 26/58 (44%), Positives = 36/58 (62%)
Query: 19 GKKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMKKK 76
G+++ R ++ Q+ LE+ F QQ Y+ +R QLA L L Q+KIWFQNRR K K
Sbjct: 1 GRRKPRVLFSQAQVYELERRFKQQRYLSAPERDQLASVLKLTSTQVKIWFQNRRYKSK 58
>2vi6_A Homeobox protein nanog; homeodomain, DNA-binding, transcription,
transcription facto developmental protein,
transcription regulation, NUC homeobox; 2.6A {Mus
musculus}
Length = 62
Score = 81.2 bits (201), Expect = 2e-22
Identities = 24/58 (41%), Positives = 38/58 (65%)
Query: 20 KKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMKKKK 77
K++ RT ++ QL AL+ F +Q Y+ + +L+ LNL +Q+K WFQN+RMK K+
Sbjct: 3 KQKMRTVFSQAQLCALKDRFQKQKYLSLQQMQELSSILNLSYKQVKTWFQNQRMKCKR 60
>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 = 80.9 bits (200), Expect = 3e-22
Identities = 34/58 (58%), Positives = 41/58 (70%)
Query: 20 KKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMKKKK 77
+KR R YT Q L LEKEF+ Y+ R +R ++A L+L ERQIKIWFQNRRMK KK
Sbjct: 2 RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWKK 59
>3a01_A Homeodomain-containing protein; homeodomain, protein-DNA complex,
DNA-binding, homeobox, NUC developmental protein; 2.70A
{Drosophila melanogaster}
Length = 93
Score = 81.1 bits (200), Expect = 6e-22
Identities = 25/60 (41%), Positives = 40/60 (66%)
Query: 18 KGKKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMKKKK 77
+K+ RT++T Q+ LEK F++Q Y+ A+R LA+ L + + Q+K WFQNRR K ++
Sbjct: 15 PKRKKPRTSFTRIQVAELEKRFHKQKYLASAERAALARGLKMTDAQVKTWFQNRRTKWRR 74
>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 = 80.6 bits (199), Expect = 6e-22
Identities = 24/66 (36%), Positives = 35/66 (53%)
Query: 18 KGKKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMKKKK 77
K++ R +T Q LE+ F QQ Y+ +R LA + L Q+KIWFQN R K K+
Sbjct: 7 NKKRKRRVLFTKAQTYELERRFRQQRYLSAPEREHLASLIRLTPTQVKIWFQNHRYKTKR 66
Query: 78 GKTPED 83
+ +
Sbjct: 67 AQNEKG 72
>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 = 79.5 bits (197), Expect = 9e-22
Identities = 13/61 (21%), Positives = 35/61 (57%)
Query: 16 EKKGKKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMKK 75
+K+ + +++ + LE+ F ++ + ++ ++AK+ + Q+++WF N+RM+
Sbjct: 1 KKEKSPKGKSSISPQARAFLEEVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMRS 60
Query: 76 K 76
K
Sbjct: 61 K 61
>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 = 77.6 bits (191), Expect = 8e-21
Identities = 32/60 (53%), Positives = 43/60 (71%)
Query: 18 KGKKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMKKKK 77
+ ++ R YT +Q L LEKEF Y+ R +R+++A+ LNL ERQ+KIWFQNRRMK KK
Sbjct: 11 RSTRKKRCPYTKHQTLELEKEFLFNMYLTRDRRYEVARLLNLTERQVKIWFQNRRMKMKK 70
>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 = 77.2 bits (190), Expect = 1e-20
Identities = 25/60 (41%), Positives = 38/60 (63%)
Query: 18 KGKKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMKKKK 77
++ R Y+ QL LE+E+ +I + KR +++ +L ERQI IWFQNRR+K+KK
Sbjct: 5 SSGRKKRIPYSKGQLRELEREYAANKFITKDKRRKISAATSLSERQITIWFQNRRVKEKK 64
>3a03_A T-cell leukemia homeobox protein 2; homeodomain, developmental
protein, DNA-binding, N gene regulation; 1.54A {Homo
sapiens}
Length = 56
Score = 76.2 bits (188), Expect = 2e-20
Identities = 23/53 (43%), Positives = 37/53 (69%)
Query: 25 TAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMKKKK 77
T+++ +Q+L LE+ F +Q Y+ A+R LAK L + + Q+K WFQNRR K ++
Sbjct: 2 TSFSRSQVLELERRFLRQKYLASAERAALAKALRMTDAQVKTWFQNRRTKWRR 54
>1ftt_A TTF-1 HD, thyroid transcription factor 1 homeodomain; DNA binding
protein; NMR {Rattus norvegicus} SCOP: a.4.1.1
Length = 68
Score = 76.2 bits (188), Expect = 3e-20
Identities = 22/58 (37%), Positives = 35/58 (60%)
Query: 20 KKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMKKKK 77
+++ R ++ Q+ LE+ F QQ Y+ +R LA ++L Q+KIWFQN R K K+
Sbjct: 2 RRKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQVKIWFQNHRYKMKR 59
>2l7z_A Homeobox protein HOX-A13; gene regulation; NMR {Homo sapiens}
PDB: 2ld5_A*
Length = 73
Score = 74.9 bits (184), Expect = 1e-19
Identities = 26/57 (45%), Positives = 38/57 (66%)
Query: 21 KRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMKKKK 77
++ R YT QL LE+E+ +I + KR +++ NL ERQ+ IWFQNRR+K+KK
Sbjct: 8 RKKRVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQVTIWFQNRRVKEKK 64
>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 = 75.8 bits (186), Expect = 4e-19
Identities = 19/58 (32%), Positives = 35/58 (60%)
Query: 20 KKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMKKKK 77
+++ RT+ +N +ALEK F + +A++LN+ + I++WF NRR K+K+
Sbjct: 101 RRKKRTSIETNIRVALEKSFMENQKPTSEDITLIAEQLNMEKEVIRVWFSNRRQKEKR 158
>2dn0_A Zinc fingers and homeoboxes protein 3; triple homeobox 1 protein,
KIAA0395, TIX1, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 76
Score = 69.0 bits (169), Expect = 2e-17
Identities = 15/64 (23%), Positives = 28/64 (43%)
Query: 17 KKGKKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMKKK 76
G + + QL AL+ F + + +++ L K L R+++ WF +RR +
Sbjct: 5 SSGASIYKNKKSHEQLSALKGSFCRNQFPGQSEVEHLTKVTGLSTREVRKWFSDRRYHCR 64
Query: 77 KGKT 80
K
Sbjct: 65 NLKG 68
>2xsd_C POU domain, class 3, transcription factor 1; transcription-DNA
complex, SOX; 2.05A {Mus musculus}
Length = 164
Score = 70.8 bits (173), Expect = 3e-17
Identities = 19/81 (23%), Positives = 32/81 (39%)
Query: 1 MDRVQKYLDDSLIADEKKGKKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLC 60
D + + K++ RT+ ALE F + + LA L L
Sbjct: 80 TDSSSGSPTNLDKIAAQGRKRKKRTSIEVGVKGALESHFLKCPKPSAHEITGLADSLQLE 139
Query: 61 ERQIKIWFQNRRMKKKKGKTP 81
+ +++WF NRR K+K+
Sbjct: 140 KEVVRVWFCNRRQKEKRMTPA 160
>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 = 67.9 bits (166), Expect = 6e-17
Identities = 20/65 (30%), Positives = 35/65 (53%)
Query: 15 DEKKGKKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMK 74
+E + KR RT T QL L +++ + R +A E+ L +R +++WFQN R +
Sbjct: 12 EEPQRDKRLRTTITPEQLEILYQKYLLDSNPTRKMLDHIAHEVGLKKRVVQVWFQNTRAR 71
Query: 75 KKKGK 79
++K
Sbjct: 72 ERKSG 76
>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 = 69.6 bits (170), Expect = 7e-17
Identities = 19/65 (29%), Positives = 37/65 (56%)
Query: 15 DEKKGKKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMK 74
+ K++ RT + ALE+ F + + + ++A+ELNL + +++WF NRR +
Sbjct: 82 GANERKRKRRTTISIAAKDALERHFGEHSKPSSQEIMRMAEELNLEKEVVRVWFCNRRQR 141
Query: 75 KKKGK 79
+K+ K
Sbjct: 142 EKRVK 146
>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 = 66.2 bits (162), Expect = 2e-16
Identities = 22/61 (36%), Positives = 31/61 (50%)
Query: 17 KKGKKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMKKK 76
+ +RT +T QL L+ F+ Y + QL+ LNL R I +WFQN R K +
Sbjct: 4 GSSGRSSRTRFTDYQLRVLQDFFDANAYPKDDEFEQLSNLLNLPTRVIVVWFQNARQKAR 63
Query: 77 K 77
K
Sbjct: 64 K 64
>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 = 65.1 bits (159), Expect = 6e-16
Identities = 18/66 (27%), Positives = 31/66 (46%)
Query: 14 ADEKKGKKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRM 73
KR RT T +QL L + F+ N + ++A + L ++ IK WF+N
Sbjct: 1 GSSGSSGKRPRTRITDDQLRVLRQYFDINNSPSEEQIKEMADKSGLPQKVIKHWFRNTLF 60
Query: 74 KKKKGK 79
K+++
Sbjct: 61 KERQSG 66
>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 = 64.7 bits (157), Expect = 7e-15
Identities = 19/69 (27%), Positives = 32/69 (46%)
Query: 9 DDSLIADEKKGKKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWF 68
+ E K++ RT++T + AL F + + ++AKELN +++WF
Sbjct: 82 LMEFVGGEPSKKRKRRTSFTPQAIEALNAYFEKNPLPTGQEITEMAKELNYDREVVRVWF 141
Query: 69 QNRRMKKKK 77
NRR K
Sbjct: 142 SNRRQTLKN 150
>2hi3_A Homeodomain-only protein; transcription; NMR {Mus musculus} SCOP:
a.4.1.1
Length = 73
Score = 62.5 bits (152), Expect = 9e-15
Identities = 16/65 (24%), Positives = 29/65 (44%), Gaps = 2/65 (3%)
Query: 21 KRARTAYTSNQLLALEKEFNQQN-YILRAKRHQLAKELNLCERQIKIWFQNRRMK-KKKG 78
+ + T +Q+ LE FN+ N + +A E L E Q + WF+ R + ++
Sbjct: 3 AQTVSGPTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQKWFKQRLAEWRRSE 62
Query: 79 KTPED 83
P +
Sbjct: 63 GLPSE 67
>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 = 60.5 bits (147), Expect = 5e-14
Identities = 19/69 (27%), Positives = 35/69 (50%)
Query: 16 EKKGKKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMKK 75
KR RT++ +QL ++ F + QLA++ L +R +++WFQN R K
Sbjct: 3 SGSSGKRMRTSFKHHQLRTMKSYFAINHNPDAKDLKQLAQKTGLTKRVLQVWFQNARAKF 62
Query: 76 KKGKTPEDN 84
++ ++N
Sbjct: 63 RRNLLRQEN 71
>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 = 60.2 bits (146), Expect = 5e-14
Identities = 15/59 (25%), Positives = 26/59 (44%), Gaps = 1/59 (1%)
Query: 20 KKRARTAYTSNQLLALEKEFNQQNYILRAK-RHQLAKELNLCERQIKIWFQNRRMKKKK 77
R+RT + L L+ + + H L+ +L+L + I +FQN+R K
Sbjct: 7 GPRSRTKISLEALGILQSFIHDVGLYPDQEAIHTLSAQLDLPKHTIIKFFQNQRYHVKH 65
>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 = 61.7 bits (149), Expect = 9e-14
Identities = 19/77 (24%), Positives = 35/77 (45%)
Query: 1 MDRVQKYLDDSLIADEKKGKKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLC 60
D + + S + +KR RT+ + +LE F + + +A +L L
Sbjct: 77 ADNNENLQEISKSETLVQARKRKRTSIENRVRWSLETMFLKSPKPSLQQITHIANQLGLE 136
Query: 61 ERQIKIWFQNRRMKKKK 77
+ +++WF NRR K K+
Sbjct: 137 KDVVRVWFSNRRQKGKR 153
>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 = 57.3 bits (138), Expect = 1e-12
Identities = 13/59 (22%), Positives = 26/59 (44%)
Query: 28 TSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMKKKKGKTPEDNLE 86
T+ QL L+ F + + + ++L + L R+I WF ++ K + + E
Sbjct: 19 TAEQLRVLQASFLNSSVLTDEELNRLRAQTKLTRREIDAWFTEKKKSKALKEEKMEIDE 77
>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 = 56.2 bits (136), Expect = 2e-12
Identities = 26/57 (45%), Positives = 34/57 (59%)
Query: 21 KRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMKKKK 77
+R RTA+T NQ+ LE F Y LA++LNL +I+IWFQNRR K K+
Sbjct: 2 RRPRTAFTQNQIEVLENVFRVNCYPGIDILEDLAQKLNLELDRIQIWFQNRRAKLKR 58
>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 = 56.5 bits (136), Expect = 2e-12
Identities = 15/57 (26%), Positives = 26/57 (45%)
Query: 28 TSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMKKKKGKTPEDN 84
T Q+ LE F + ++ +A+ +L E L R+I WF RR + + +
Sbjct: 21 TQGQVKILEDSFLKSSFPTQAELDRLRVETKLSRREIDSWFSERRKLRDSMEQAVLD 77
>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 = 55.8 bits (135), Expect = 3e-12
Identities = 19/58 (32%), Positives = 25/58 (43%)
Query: 20 KKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMKKKK 77
R RT QL L + + QL + L R I++WFQN+R K KK
Sbjct: 3 TTRVRTVLNEKQLHTLRTCYAANPRPDALMKEQLVEMTGLSPRVIRVWFQNKRCKDKK 60
>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 = 3e-12
Identities = 23/62 (37%), Positives = 37/62 (59%)
Query: 16 EKKGKKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMKK 75
+R RT +T QL ALE F + Y R QLA++++L E ++++WF+NRR K
Sbjct: 3 SGSSGRRHRTIFTDEQLEALENLFQETKYPDVGTREQLARKVHLREEKVEVWFKNRRAKW 62
Query: 76 KK 77
++
Sbjct: 63 RR 64
>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 = 55.9 bits (135), Expect = 3e-12
Identities = 21/62 (33%), Positives = 35/62 (56%)
Query: 16 EKKGKKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMKK 75
+R RT +T QL LE F + Y R ++A ++NL E ++++WF+NRR K
Sbjct: 3 SGSSGRRERTTFTRAQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQVWFKNRRAKC 62
Query: 76 KK 77
++
Sbjct: 63 RQ 64
>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 = 55.6 bits (134), Expect = 3e-12
Identities = 14/60 (23%), Positives = 26/60 (43%)
Query: 21 KRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMKKKKGKT 80
T Q+ L+ F Q + A+ ++L + L +IK WF + R + ++G
Sbjct: 5 HHHHRKKTKEQIAHLKASFLQSQFPDDAEVYRLIEVTGLARSEIKKWFSDHRYRCQRGIV 64
>2cue_A Paired box protein PAX6; homeobox domain, transcription factor,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
a.4.1.1
Length = 80
Score = 55.9 bits (135), Expect = 3e-12
Identities = 24/62 (38%), Positives = 39/62 (62%)
Query: 16 EKKGKKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMKK 75
+R RT++T Q+ ALEKEF + +Y R +LA +++L E +I++WF NRR K
Sbjct: 3 SGSSGQRNRTSFTQEQIEALEKEFERTHYPDVFARERLAAKIDLPEARIQVWFSNRRAKW 62
Query: 76 KK 77
++
Sbjct: 63 RR 64
>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 = 55.3 bits (133), Expect = 5e-12
Identities = 18/57 (31%), Positives = 24/57 (42%)
Query: 28 TSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMKKKKGKTPEDN 84
QL ALE F Q L + +L E + R+I WF RR K +T +
Sbjct: 15 APEQLRALESSFAQNPLPLDEELDRLRSETKMTRREIDSWFSERRKKVNAEETKKSG 71
>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 = 54.7 bits (132), Expect = 9e-12
Identities = 24/69 (34%), Positives = 42/69 (60%)
Query: 9 DDSLIADEKKGKKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWF 68
+ K+ ++R+RT ++++QL LE+ F + Y R +LA+ NL E +I++WF
Sbjct: 7 ESEPGIALKRKQRRSRTTFSASQLDELERAFERTQYPDIYTREELAQRTNLTEARIQVWF 66
Query: 69 QNRRMKKKK 77
QNRR + +K
Sbjct: 67 QNRRARLRK 75
>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 = 53.9 bits (130), Expect = 1e-11
Identities = 15/54 (27%), Positives = 23/54 (42%), Gaps = 1/54 (1%)
Query: 22 RARTAYTSNQLLALEKEFNQQN-YILRAKRHQLAKELNLCERQIKIWFQNRRMK 74
T +Q+ LE FN+ N + +A E L E Q + WF+ R +
Sbjct: 3 EGAATMTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQKWFKQRLAE 56
>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 = 2e-11
Identities = 23/58 (39%), Positives = 36/58 (62%)
Query: 20 KKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMKKKK 77
++R RT +TS QL LE F + Y + R ++A NL E ++++WF+NRR K +K
Sbjct: 3 QRRQRTHFTSQQLQQLEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRK 60
>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 = 53.0 bits (128), Expect = 3e-11
Identities = 23/54 (42%), Positives = 34/54 (62%)
Query: 24 RTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMKKKK 77
+TS QL LEK F++ +Y R +LA ++ L E +I++WFQNRR K +K
Sbjct: 3 HMTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQVWFQNRRAKWRK 56
>2d5v_A Hepatocyte nuclear factor 6; transcription factor,
transcription-DNA complex; 2.00A {Rattus norvegicus}
PDB: 1s7e_A
Length = 164
Score = 54.5 bits (130), Expect = 8e-11
Identities = 12/70 (17%), Positives = 25/70 (35%)
Query: 15 DEKKGKKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMK 74
D K+ R +T Q L F + + + ++++L L + +F N R +
Sbjct: 92 DRGNTPKKPRLVFTDVQRRTLHAIFKENKRPSKELQITISQQLGLELSTVSNFFMNARRR 151
Query: 75 KKKGKTPEDN 84
+
Sbjct: 152 SLDKWLEHHH 161
>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 = 49.3 bits (117), Expect = 2e-09
Identities = 17/79 (21%), Positives = 29/79 (36%), Gaps = 15/79 (18%)
Query: 14 ADEKKGKKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELN--------------- 58
+ +R + L +E FN+ Y AKR ++A N
Sbjct: 1 GSSGSSGRGSRFTWRKECLAVMESYFNENQYPDEAKREEIANACNAVIQKPGKKLSDLER 60
Query: 59 LCERQIKIWFQNRRMKKKK 77
+ ++ WF NRR + K+
Sbjct: 61 VTSLKVYNWFANRRKEIKR 79
>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 = 46.7 bits (111), Expect = 1e-08
Identities = 17/59 (28%), Positives = 26/59 (44%), Gaps = 3/59 (5%)
Query: 20 KKRARTAYTSNQLLALEKEFNQQN-YILRAKRHQLAKELNLCERQIKIWFQNRRMKKKK 77
K N L EK F Y + L+K+L+ R+I+ WF++RR + K
Sbjct: 10 KDSPVNKVEPNDTL--EKVFVSVTKYPDEKRLKGLSKQLDWSVRKIQCWFRHRRNQDKP 66
>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 = 45.6 bits (107), Expect = 5e-08
Identities = 18/63 (28%), Positives = 24/63 (38%)
Query: 17 KKGKKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMKKK 76
K G T QL L+ F + + + +LAKE L I WF + R K
Sbjct: 22 KSGSTGKICKKTPEQLHMLKSAFVRTQWPSPEEYDKLAKESGLARTDIVSWFGDTRYAWK 81
Query: 77 KGK 79
G
Sbjct: 82 NGN 84
>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 = 41.3 bits (97), Expect = 1e-06
Identities = 14/44 (31%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 35 LEKEFNQQN-YILRAKRHQLAKELNLCERQIKIWFQNRRMKKKK 77
LEK F + + L+K+L+ R I+ WF+ RR ++K
Sbjct: 15 LEKVFTAITKHPDEKRLEGLSKQLDWDVRSIQRWFRQRRNQEKP 58
>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 = 41.1 bits (96), Expect = 2e-06
Identities = 15/60 (25%), Positives = 23/60 (38%)
Query: 22 RARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMKKKKGKTP 81
+ T QL L+ F Q + R +L + L +I WF + R K G+
Sbjct: 5 SSGKRKTKEQLAILKSFFLQCQWARREDYQKLEQITGLPRPEIIQWFGDTRYALKHGQLK 64
>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 = 41.5 bits (96), Expect = 2e-06
Identities = 17/68 (25%), Positives = 29/68 (42%), Gaps = 4/68 (5%)
Query: 14 ADEKKGKKRARTAYTSNQLLALEKEF----NQQNYILRAKRHQLAKELNLCERQIKIWFQ 69
+ G + RT ++ L L+K + + R K +A ELN+ ++ W
Sbjct: 2 SSGSSGALQDRTQFSDRDLATLKKYWDNGMTSLGSVCREKIEAVATELNVDCEIVRTWIG 61
Query: 70 NRRMKKKK 77
NRR K +
Sbjct: 62 NRRRKYRL 69
>2h8r_A Hepatocyte nuclear factor 1-beta; trasncription factor, POU, homeo,
protein-DNA, human disease; 3.20A {Homo sapiens}
Length = 221
Score = 43.1 bits (100), Expect = 2e-06
Identities = 17/89 (19%), Positives = 32/89 (35%), Gaps = 21/89 (23%)
Query: 9 DDSLIADEKKGKKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELN---------- 58
DD+ K +R R + L + +++Q + +R L +E N
Sbjct: 131 DDACSEPTNKKMRRNRFKWGPASQQILYQAYDRQKNPSKEEREALVEECNRAECLQRGVS 190
Query: 59 -----------LCERQIKIWFQNRRMKKK 76
+ E ++ WF NRR ++
Sbjct: 191 PSKAHGLGSNLVTEVRVYNWFANRRKEEA 219
>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 = 40.6 bits (94), Expect = 1e-05
Identities = 15/89 (16%), Positives = 30/89 (33%), Gaps = 21/89 (23%)
Query: 9 DDSLIADEKKGKKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELN---------- 58
+ + K +R R + L + + +Q + +R L +E N
Sbjct: 104 EPTGDELPTKKGRRNRFKWGPASQQILFQAYERQKNPSKEERETLVEECNRAECIQRGVS 163
Query: 59 -----------LCERQIKIWFQNRRMKKK 76
+ E ++ WF NRR ++
Sbjct: 164 PSQAQGLGSNLVTEVRVYNWFANRRKEEA 192
>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 = 37.5 bits (86), Expect = 5e-05
Identities = 10/60 (16%), Positives = 21/60 (35%)
Query: 22 RARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMKKKKGKTP 81
+ LE+ + + QL++ L +Q+ WF +R + + P
Sbjct: 8 PLPIPPPPPDIQPLERYWAAHQQLRETDIPQLSQASRLSTQQVLDWFDSRLPQPAEVSGP 67
>2e19_A Transcription factor 8; homeobox domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 64
Score = 36.2 bits (83), Expect = 1e-04
Identities = 9/50 (18%), Positives = 20/50 (40%)
Query: 30 NQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMKKKKGK 79
N L L+ + + ++A +NL +K WF+ + + +
Sbjct: 13 NLLSLLKAYYALNAQPSAEELSKIADSVNLPLDVVKKWFEKMQAGQISVQ 62
>1lfb_A Liver transcription factor (LFB1); transcription regulation;
2.80A {Rattus norvegicus} SCOP: a.4.1.1 PDB: 2lfb_A
Length = 99
Score = 36.0 bits (82), Expect = 3e-04
Identities = 16/84 (19%), Positives = 29/84 (34%), Gaps = 21/84 (25%)
Query: 15 DEKKGKKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELN---------------- 58
D K +R R + L + + +Q + +R L +E N
Sbjct: 4 DPTKKGRRNRFKWGPASQQILFQAYERQKNPSKEERETLVEECNRAECIQRGVSPSQAQG 63
Query: 59 -----LCERQIKIWFQNRRMKKKK 77
+ E ++ WF NRR ++
Sbjct: 64 LGSNLVTEVRVYNWFANRRKEEAF 87
>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 = 32.8 bits (74), Expect = 0.003
Identities = 7/64 (10%), Positives = 23/64 (35%)
Query: 19 GKKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMKKKKG 78
G + + + L+ + + +++ + L + +K WF+ R++ +
Sbjct: 4 GSSGSPINPYKDHMSVLKAYYAMNMEPNSDELLKISIAVGLPQEFVKEWFEQRKVYQYSN 63
Query: 79 KTPE 82
Sbjct: 64 SRSG 67
>1mh3_A Maltose binding-A1 homeodomain protein chimera; MATA1, binding
cooperativity, maltose binding protein, MBP, sugar
binding, DNA binding protein; 2.10A {Escherichia coli}
SCOP: a.4.1.1 c.94.1.1 PDB: 1mh4_A 1le8_A
Length = 421
Score = 31.7 bits (72), Expect = 0.022
Identities = 14/60 (23%), Positives = 31/60 (51%)
Query: 17 KKGKKRARTAYTSNQLLALEKEFNQQNYILRAKRHQLAKELNLCERQIKIWFQNRRMKKK 76
+ A A + LE+ F ++ + ++ ++AK+ + Q+++WF N+RM+ K
Sbjct: 362 AAAQTAAAAAISPQARAFLEQVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMRSK 421
>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 = 29.2 bits (66), Expect = 0.054
Identities = 12/28 (42%), Positives = 14/28 (50%)
Query: 50 RHQLAKELNLCERQIKIWFQNRRMKKKK 77
L K +L QIK W NRR K+K
Sbjct: 31 LENLMKNTSLSRIQIKNWVSNRRRKEKT 58
>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 = 29.0 bits (65), Expect = 0.076
Identities = 11/28 (39%), Positives = 13/28 (46%)
Query: 50 RHQLAKELNLCERQIKIWFQNRRMKKKK 77
L K +L QIK W RR K+K
Sbjct: 35 LENLMKNTSLSRIQIKNWVAARRAKEKT 62
>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 = 28.7 bits (64), Expect = 0.11
Identities = 20/75 (26%), Positives = 30/75 (40%), Gaps = 1/75 (1%)
Query: 3 RVQKYLDDSLIADEKKGKKRARTAYTSNQLLALEKEFNQQN-YILRAKRHQLAKELNLCE 61
V + +I K + R + ++L N +N Y+ L K +L
Sbjct: 12 LVFNVVTQDMINKSTKPYRGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSR 71
Query: 62 RQIKIWFQNRRMKKK 76
QIK W NRR K+K
Sbjct: 72 IQIKNWVSNRRRKEK 86
>1z3a_A TRNA-specific adenosine deaminase; tRNA adenosine deaminase, dimer,
zinc, metalloenzyme, structural genomics, PSI, protein
structure initiative; 2.03A {Escherichia coli} SCOP:
c.97.1.2 PDB: 3ocq_A
Length = 168
Score = 28.7 bits (65), Expect = 0.18
Identities = 9/34 (26%), Positives = 16/34 (47%), Gaps = 3/34 (8%)
Query: 53 LAKELNLCERQIKIWFQNRRMKKKKGKTPEDNLE 86
LA E C + +F+ RR + K K + + +
Sbjct: 138 LADE---CAALLSDFFRMRRQEIKAQKKAQSSTD 168
>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 = 27.3 bits (60), Expect = 0.34
Identities = 13/72 (18%), Positives = 25/72 (34%), Gaps = 4/72 (5%)
Query: 10 DSLIADEKKGKKRARTAYTSNQLLALEKEFNQQNYILRAKR----HQLAKELNLCERQIK 65
S + KR RT +T+ Q + + + ++ Q E + + +K
Sbjct: 7 GSNPSSSGGTTKRFRTKFTAEQKEKMLAFAERLGWRIQKHDDVAVEQFCAETGVRRQVLK 66
Query: 66 IWFQNRRMKKKK 77
IW N +
Sbjct: 67 IWMHNNKNSGPS 78
>2nx8_A TRNA-specific adenosine deaminase; TAD, hydrolase; 2.00A
{Streptococcus pyogenes serotype M6}
Length = 179
Score = 27.9 bits (63), Expect = 0.37
Identities = 8/30 (26%), Positives = 14/30 (46%), Gaps = 3/30 (10%)
Query: 53 LAKELNLCERQIKIWFQNRRMKKKKGKTPE 82
LA + C ++ +F+ R +KK K
Sbjct: 145 LAAD---CANIMQTFFRQGRERKKIAKHLI 171
>2nzz_A Penetratin conjugated GAS (374-394) peptide; conformational
analysis, G protein, GAS subunit, A2A adenosine
receptor, cell-penetrating peptides; NMR {Synthetic}
PDB: 2o00_A
Length = 37
Score = 26.5 bits (58), Expect = 0.38
Identities = 15/16 (93%), Positives = 15/16 (93%)
Query: 62 RQIKIWFQNRRMKKKK 77
RQIKIWFQNRRMK KK
Sbjct: 1 RQIKIWFQNRRMKWKK 16
>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 = 25.5 bits (56), Expect = 1.9
Identities = 14/40 (35%), Positives = 19/40 (47%), Gaps = 2/40 (5%)
Query: 51 HQLAKELNLCERQIKIWFQN--RRMKKKKGKTPEDNLEYK 88
+LAK+ + Q+ WF N R KK GK E+ Y
Sbjct: 35 EELAKKCGITVSQVSNWFGNKRIRYKKNIGKFQEEANIYA 74
>2b3j_A TRNA adenosine deaminase; mixed alpha-beta, protein-RNA complex,
RNA stem-loop, hydrol complex; HET: P5P; 2.00A
{Staphylococcus aureus subsp} SCOP: c.97.1.2
Length = 159
Score = 25.9 bits (58), Expect = 2.2
Identities = 7/24 (29%), Positives = 11/24 (45%), Gaps = 3/24 (12%)
Query: 53 LAKELNLCERQIKIWFQNRRMKKK 76
L + C + +F+N R KK
Sbjct: 136 LKEA---CSTLLTTFFKNLRANKK 156
>3dh1_A TRNA-specific adenosine deaminase 2; zinc-binding protein, TRA tRNA
processing, hydrolase, structural genomics, structural
consortium, SGC; 2.80A {Homo sapiens}
Length = 189
Score = 25.3 bits (56), Expect = 3.9
Identities = 5/27 (18%), Positives = 10/27 (37%), Gaps = 3/27 (11%)
Query: 53 LAKELNLCERQIKIWFQNRRMKKKKGK 79
A+E +K +++ K K
Sbjct: 163 RAEE---AVEMLKTFYKQENPNAPKSK 186
>3n0q_A Putative aromatic-ring hydroxylating dioxygenase; rieske [2Fe-2S]
domain, structural genomics, joint center FO structural
genomics, JCSG; HET: MSE; 1.80A {Ruegeria SP}
Length = 409
Score = 25.4 bits (56), Expect = 4.0
Identities = 6/29 (20%), Positives = 15/29 (51%)
Query: 10 DSLIADEKKGKKRARTAYTSNQLLALEKE 38
++LIA+ + G + YT ++ + +
Sbjct: 7 NTLIANHRAGHALDQAFYTDAEVFQTDLQ 35
>3k2a_A Homeobox protein MEIS2; homeobox domain, DNA-binding,
transcription, nucleus, phosphoprotein, DNA bindi
protein; 1.95A {Homo sapiens}
Length = 67
Score = 23.8 bits (52), Expect = 5.4
Identities = 9/27 (33%), Positives = 14/27 (51%)
Query: 51 HQLAKELNLCERQIKIWFQNRRMKKKK 77
QLA++ L Q+ WF N R + +
Sbjct: 32 KQLAQDTGLTILQVNNWFINARRRIVQ 58
>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 = 23.9 bits (52), Expect = 6.5
Identities = 9/28 (32%), Positives = 15/28 (53%)
Query: 50 RHQLAKELNLCERQIKIWFQNRRMKKKK 77
+ Q+A + NL Q+ WF N R + +
Sbjct: 40 KKQIAAQTNLTLLQVNNWFINARRRILQ 67
>1du6_A PBX1, homeobox protein PBX1; homeodomain, gene regulation; NMR
{Mus musculus} SCOP: a.4.1.1
Length = 64
Score = 23.4 bits (51), Expect = 7.3
Identities = 10/27 (37%), Positives = 17/27 (62%)
Query: 51 HQLAKELNLCERQIKIWFQNRRMKKKK 77
+LAK+ + Q+ WF N+R++ KK
Sbjct: 37 EELAKKCGITVSQVSNWFGNKRIRYKK 63
>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 = 23.4 bits (50), Expect = 9.0
Identities = 11/73 (15%), Positives = 24/73 (32%), Gaps = 6/73 (8%)
Query: 10 DSLIADEKKGKKRARTAYTSNQLLALEKEFNQQ-----NYILRAKRHQLAKELNLCERQI 64
S +KR RT +T+ Q + ++ + +E + + +
Sbjct: 7 GSSAEAGGGIRKRHRTKFTAEQKERML-ALAERIGWRIQRQDDEVIQRFCQETGVPRQVL 65
Query: 65 KIWFQNRRMKKKK 77
K+W N +
Sbjct: 66 KVWLHNNKHSGPS 78
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
0.317 0.130 0.367
Gapped
Lambda K H
0.267 0.0667 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,480,124
Number of extensions: 73170
Number of successful extensions: 247
Number of sequences better than 10.0: 1
Number of HSP's gapped: 231
Number of HSP's successfully gapped: 102
Length of query: 99
Length of database: 6,701,793
Length adjustment: 65
Effective length of query: 34
Effective length of database: 4,886,928
Effective search space: 166155552
Effective search space used: 166155552
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (23.6 bits)