RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy18046
(141 letters)
>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 = 101 bits (253), Expect = 2e-29
Identities = 32/59 (54%), Positives = 42/59 (71%)
Query: 82 GERGGGSANKPRKIRRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARVQ 140
RK RRSRTTF+ QL +LERAF++TQYPD++TRE+LA R +L+EAR+Q
Sbjct: 5 DCESEPGIALKRKQRRSRTTFSASQLDELERAFERTQYPDIYTREELAQRTNLTEARIQ 63
>2cue_A Paired box protein PAX6; homeobox domain, transcription factor,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
a.4.1.1
Length = 80
Score = 101 bits (253), Expect = 2e-29
Identities = 25/50 (50%), Positives = 36/50 (72%)
Query: 91 KPRKIRRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARVQ 140
+R+RT+FT Q+ LE+ F++T YPDVF RE LA+++DL EAR+Q
Sbjct: 3 SGSSGQRNRTSFTQEQIEALEKEFERTHYPDVFARERLAAKIDLPEARIQ 52
>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 = 100 bits (252), Expect = 2e-29
Identities = 24/50 (48%), Positives = 30/50 (60%)
Query: 91 KPRKIRRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARVQ 140
RR RT FT QL LE F +T+YPDV TRE LA ++ L E +V+
Sbjct: 3 SGSSGRRHRTIFTDEQLEALENLFQETKYPDVGTREQLARKVHLREEKVE 52
>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 = 97.5 bits (243), Expect = 7e-28
Identities = 26/50 (52%), Positives = 34/50 (68%)
Query: 91 KPRKIRRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARVQ 140
RR RTTFT QL LE F KT+YPD+F RE++A +++L E+RVQ
Sbjct: 3 SGSSGRRERTTFTRAQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQ 52
>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 = 96.2 bits (240), Expect = 1e-27
Identities = 24/47 (51%), Positives = 33/47 (70%)
Query: 94 KIRRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARVQ 140
RR RT FT+ QL QLE F + +YPD+ TRE++A +L+EARV+
Sbjct: 2 SQRRQRTHFTSQQLQQLEATFQRNRYPDMSTREEIAVWTNLTEARVR 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 = 95.5 bits (238), Expect = 3e-27
Identities = 20/45 (44%), Positives = 25/45 (55%)
Query: 96 RRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARVQ 140
RR RT FT Q+ LE F YP + EDLA +L+L R+Q
Sbjct: 2 RRPRTAFTQNQIEVLENVFRVNCYPGIDILEDLAQKLNLELDRIQ 46
>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 = 92.7 bits (231), Expect = 3e-26
Identities = 26/43 (60%), Positives = 36/43 (83%)
Query: 98 SRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARVQ 140
S TFT++QL +LE+AF +T YPDVFTRE+LA ++ L+EAR+Q
Sbjct: 2 SHMTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQ 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 = 93.3 bits (232), Expect = 3e-26
Identities = 13/51 (25%), Positives = 24/51 (47%)
Query: 90 NKPRKIRRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARVQ 140
+ +R RT+F +QL ++ F PD + LA + L++ +Q
Sbjct: 2 SSGSSGKRMRTSFKHHQLRTMKSYFAINHNPDAKDLKQLAQKTGLTKRVLQ 52
>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 = 90.5 bits (225), Expect = 3e-25
Identities = 18/51 (35%), Positives = 24/51 (47%)
Query: 90 NKPRKIRRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARVQ 140
+ R SRT FT YQL L+ FD YP E L++ L+L +
Sbjct: 2 SSGSSGRSSRTRFTDYQLRVLQDFFDANAYPKDDEFEQLSNLLNLPTRVIV 52
>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 = 88.2 bits (219), Expect = 2e-24
Identities = 14/47 (29%), Positives = 18/47 (38%)
Query: 94 KIRRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARVQ 140
K R RT QLH L + PD +E L LS ++
Sbjct: 2 KTTRVRTVLNEKQLHTLRTCYAANPRPDALMKEQLVEMTGLSPRVIR 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 = 86.4 bits (214), Expect = 2e-23
Identities = 17/59 (28%), Positives = 27/59 (45%)
Query: 82 GERGGGSANKPRKIRRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARVQ 140
G GG +P++ +R RTT T QL L + + P + +A + L + VQ
Sbjct: 4 GSSGGTGGEEPQRDKRLRTTITPEQLEILYQKYLLDSNPTRKMLDHIAHEVGLKKRVVQ 62
>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 = 78.6 bits (194), Expect = 1e-20
Identities = 14/46 (30%), Positives = 22/46 (47%), Gaps = 1/46 (2%)
Query: 96 RRSRTTFTTYQLHQLERAFDKT-QYPDVFTREDLASRLDLSEARVQ 140
T T Q+ LE F+K ++PD T +A+ L+E + Q
Sbjct: 2 SEGAATMTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQ 47
>2hi3_A Homeodomain-only protein; transcription; NMR {Mus musculus} SCOP:
a.4.1.1
Length = 73
Score = 75.2 bits (185), Expect = 3e-19
Identities = 13/46 (28%), Positives = 24/46 (52%), Gaps = 1/46 (2%)
Query: 96 RRSRTTFTTYQLHQLERAFDKT-QYPDVFTREDLASRLDLSEARVQ 140
++ + T Q+ LE F+K ++PD T +A+ L+E + Q
Sbjct: 3 AQTVSGPTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQ 48
>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 = 74.3 bits (183), Expect = 6e-19
Identities = 12/52 (23%), Positives = 22/52 (42%)
Query: 89 ANKPRKIRRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARVQ 140
+ +R RT T QL L + FD P +++A + L + ++
Sbjct: 1 GSSGSSGKRPRTRITDDQLRVLRQYFDINNSPSEEQIKEMADKSGLPQKVIK 52
>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 = 71.6 bits (175), Expect = 1e-17
Identities = 15/67 (22%), Positives = 27/67 (40%), Gaps = 15/67 (22%)
Query: 89 ANKPRKIRRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLD--------------- 133
+ R SR T+ L +E F++ QYPD RE++A+ +
Sbjct: 1 GSSGSSGRGSRFTWRKECLAVMESYFNENQYPDEAKREEIANACNAVIQKPGKKLSDLER 60
Query: 134 LSEARVQ 140
++ +V
Sbjct: 61 VTSLKVY 67
>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 = 68.1 bits (166), Expect = 1e-15
Identities = 14/75 (18%), Positives = 24/75 (32%)
Query: 67 SSYDYGNHGNKMADLGERGGGSANKPRKIRRSRTTFTTYQLHQLERAFDKTQYPDVFTRE 126
+ +P K R+ RT+FT + L F+K P
Sbjct: 65 EKWLNEAELRNQEGQQNLMEFVGGEPSKKRKRRTSFTPQAIEALNAYFEKNPLPTGQEIT 124
Query: 127 DLASRLDLSEARVQF 141
++A L+ V+
Sbjct: 125 EMAKELNYDREVVRV 139
>2dn0_A Zinc fingers and homeoboxes protein 3; triple homeobox 1 protein,
KIAA0395, TIX1, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 76
Score = 64.4 bits (157), Expect = 6e-15
Identities = 14/55 (25%), Positives = 24/55 (43%), Gaps = 2/55 (3%)
Query: 86 GGSANKPRKIRRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARVQ 140
G S + I +++ + QL L+ +F + Q+P E L LS V+
Sbjct: 1 GSSGSSGASIYKNKKSH--EQLSALKGSFCRNQFPGQSEVEHLTKVTGLSTREVR 53
>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 = 61.3 bits (149), Expect = 7e-14
Identities = 20/53 (37%), Positives = 28/53 (52%)
Query: 87 GSANKPRKIRRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARV 139
S P K R+ R FT Q ++LER F + +Y RE LAS + L+ +V
Sbjct: 1 ASDGLPNKKRKRRVLFTKAQTYELERRFRQQRYLSAPEREHLASLIRLTPTQV 53
>1lfb_A Liver transcription factor (LFB1); transcription regulation; 2.80A
{Rattus norvegicus} SCOP: a.4.1.1 PDB: 2lfb_A
Length = 99
Score = 61.4 bits (148), Expect = 1e-13
Identities = 11/51 (21%), Positives = 22/51 (43%)
Query: 87 GSANKPRKIRRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEA 137
+ +K RR+R + L +A+++ + P RE L + +E
Sbjct: 1 ARIDPTKKGRRNRFKWGPASQQILFQAYERQKNPSKEERETLVEECNRAEC 51
>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 = 63.4 bits (153), Expect = 2e-13
Identities = 14/67 (20%), Positives = 25/67 (37%)
Query: 74 HGNKMADLGERGGGSANKPRKIRRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLD 133
L E G +K RR+R + L +A+++ + P RE L +
Sbjct: 94 THAGQGGLIEEPTGDELPTKKGRRNRFKWGPASQQILFQAYERQKNPSKEERETLVEECN 153
Query: 134 LSEARVQ 140
+E +
Sbjct: 154 RAECIQR 160
>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 = 61.9 bits (150), Expect = 3e-13
Identities = 14/65 (21%), Positives = 24/65 (36%)
Query: 76 NKMADLGERGGGSANKPRKIRRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLS 135
+ +G + R+ RTT + LER F + P +A L+L
Sbjct: 68 EEAEQVGALYNEKVGANERKRKRRTTISIAAKDALERHFGEHSKPSSQEIMRMAEELNLE 127
Query: 136 EARVQ 140
+ V+
Sbjct: 128 KEVVR 132
>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 = 59.8 bits (145), Expect = 3e-13
Identities = 27/58 (46%), Positives = 33/58 (56%)
Query: 82 GERGGGSANKPRKIRRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARV 139
G GG K +K RRSRT FT QL LE+ F+K +Y R DLA L LS+ +V
Sbjct: 4 GSSGGEPGTKAKKGRRSRTVFTELQLMGLEKRFEKQKYLSTPDRIDLAESLGLSQLQV 61
>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 = 61.3 bits (148), Expect = 6e-13
Identities = 20/117 (17%), Positives = 37/117 (31%), Gaps = 14/117 (11%)
Query: 24 SHHADSNKLDPISHNLNHLDNTDPNDLEISNDLEINDDSASNASSYDYGNHGNKMADLGE 83
IS L + N ++ LE + A N + + +
Sbjct: 39 VLFGKVFSQTTISR-FEALQLSLKNMSKLRPLLEKWVEEADNNENLQEISKSETL----- 92
Query: 84 RGGGSANKPRKIRRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARVQ 140
+ +R RT+ LE F K+ P + +A++L L + V+
Sbjct: 93 --------VQARKRKRTSIENRVRWSLETMFLKSPKPSLQQITHIANQLGLEKDVVR 141
>2xsd_C POU domain, class 3, transcription factor 1; transcription-DNA
complex, SOX; 2.05A {Mus musculus}
Length = 164
Score = 61.2 bits (148), Expect = 8e-13
Identities = 13/53 (24%), Positives = 18/53 (33%)
Query: 88 SANKPRKIRRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARVQ 140
+ R+ RT+ LE F K P LA L L + V+
Sbjct: 92 KIAAQGRKRKKRTSIEVGVKGALESHFLKCPKPSAHEITGLADSLQLEKEVVR 144
>2kt0_A Nanog, homeobox protein nanog; homeodomain, structural genomics,
protein structure initiative, PSI, center for eukaryotic
structural genomics; NMR {Homo sapiens}
Length = 84
Score = 58.3 bits (141), Expect = 1e-12
Identities = 15/57 (26%), Positives = 29/57 (50%)
Query: 83 ERGGGSANKPRKIRRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARV 139
P K +++RT F++ QL L F + +Y + ++L++ L+LS +V
Sbjct: 10 SVAKKEDKVPVKKQKTRTVFSSTQLCVLNDRFQRQKYLSLQQMQELSNILNLSYKQV 66
>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-12
Identities = 16/44 (36%), Positives = 26/44 (59%)
Query: 96 RRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARV 139
R+ R F+ Q+++LER F + +Y R+ LAS L L+ +V
Sbjct: 3 RKPRVLFSQAQVYELERRFKQQRYLSAPERDQLASVLKLTSTQV 46
>1ig7_A Homeotic protein MSX-1; helix-turn-helix, transcription/DNA
complex; 2.20A {Mus musculus} SCOP: a.4.1.1
Length = 58
Score = 56.9 bits (138), Expect = 3e-12
Identities = 20/44 (45%), Positives = 27/44 (61%)
Query: 96 RRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARV 139
R+ RT FTT QL LER F + QY + R + +S L L+E +V
Sbjct: 1 RKPRTPFTTAQLLALERKFRQKQYLSIAERAEFSSSLSLTETQV 44
>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 = 57.1 bits (138), Expect = 3e-12
Identities = 9/46 (19%), Positives = 19/46 (41%)
Query: 96 RRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARVQF 141
T Q+ L+ +F ++Q+PD L L+ + ++
Sbjct: 5 HHHHRKKTKEQIAHLKASFLQSQFPDDAEVYRLIEVTGLARSEIKK 50
>2djn_A Homeobox protein DLX-5; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 70
Score = 57.0 bits (138), Expect = 4e-12
Identities = 18/50 (36%), Positives = 31/50 (62%)
Query: 90 NKPRKIRRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARV 139
+ R+ RT ++++QL L+R F KTQY + R +LA+ L L++ +V
Sbjct: 2 SSGSSGRKPRTIYSSFQLAALQRRFQKTQYLALPERAELAASLGLTQTQV 51
>2h8r_A Hepatocyte nuclear factor 1-beta; trasncription factor, POU, homeo,
protein-DNA, human disease; 3.20A {Homo sapiens}
Length = 221
Score = 60.4 bits (145), Expect = 4e-12
Identities = 17/79 (21%), Positives = 30/79 (37%), Gaps = 4/79 (5%)
Query: 60 DDSASNASSYDYGNHGNKMADLGERGGGSANKPRKIRRSRTTFTTYQLHQLERAFDKTQY 119
D + +HG +D S +K+RR+R + L +A+D+ +
Sbjct: 111 DQLLFLFPEFSQQSHGPGQSD----DACSEPTNKKMRRNRFKWGPASQQILYQAYDRQKN 166
Query: 120 PDVFTREDLASRLDLSEAR 138
P RE L + +E
Sbjct: 167 PSKEEREALVEECNRAECL 185
>3a01_A Homeodomain-containing protein; homeodomain, protein-DNA complex,
DNA-binding, homeobox, NUC developmental protein; 2.70A
{Drosophila melanogaster}
Length = 93
Score = 56.8 bits (137), Expect = 6e-12
Identities = 18/53 (33%), Positives = 29/53 (54%)
Query: 87 GSANKPRKIRRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARV 139
P K ++ RT+FT Q+ +LE+ F K +Y R LA L +++A+V
Sbjct: 9 YQNRTPPKRKKPRTSFTRIQVAELEKRFHKQKYLASAERAALARGLKMTDAQV 61
>1ftt_A TTF-1 HD, thyroid transcription factor 1 homeodomain; DNA binding
protein; NMR {Rattus norvegicus} SCOP: a.4.1.1
Length = 68
Score = 55.8 bits (135), Expect = 8e-12
Identities = 16/44 (36%), Positives = 26/44 (59%)
Query: 96 RRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARV 139
R+ R F+ Q+++LER F + +Y RE LAS + L+ +V
Sbjct: 3 RKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQV 46
>2vi6_A Homeobox protein nanog; homeodomain, DNA-binding, transcription,
transcription facto developmental protein, transcription
regulation, NUC homeobox; 2.6A {Mus musculus}
Length = 62
Score = 54.6 bits (132), Expect = 3e-11
Identities = 15/46 (32%), Positives = 26/46 (56%)
Query: 94 KIRRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARV 139
++ RT F+ QL L+ F K +Y + ++L+S L+LS +V
Sbjct: 2 TKQKMRTVFSQAQLCALKDRFQKQKYLSLQQMQELSSILNLSYKQV 47
>2l9r_A Homeobox protein NKX-3.1; structural genomics, northeast structural
genomics consortiu PSI-biology, protein structure
initiative; NMR {Homo sapiens}
Length = 69
Score = 53.5 bits (129), Expect = 8e-11
Identities = 13/46 (28%), Positives = 20/46 (43%)
Query: 94 KIRRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARV 139
+ + Q+ +LER F +Y R LA L L+E +V
Sbjct: 3 HHHHHHSHMSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQV 48
>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 = 55.0 bits (132), Expect = 1e-10
Identities = 11/74 (14%), Positives = 29/74 (39%)
Query: 67 SSYDYGNHGNKMADLGERGGGSANKPRKIRRSRTTFTTYQLHQLERAFDKTQYPDVFTRE 126
+ + + ++ + R+ RT+ T LE++F + Q P
Sbjct: 73 DAEANLSSDSSLSSPSALNSPGIEGLSRRRKKRTSIETNIRVALEKSFMENQKPTSEDIT 132
Query: 127 DLASRLDLSEARVQ 140
+A +L++ + ++
Sbjct: 133 LIAEQLNMEKEVIR 146
>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 = 52.2 bits (126), Expect = 2e-10
Identities = 9/50 (18%), Positives = 24/50 (48%)
Query: 91 KPRKIRRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARVQ 140
K K + +++ + LE F + Q + +E++A + ++ +V+
Sbjct: 1 KKEKSPKGKSSISPQARAFLEEVFRRKQSLNSKEKEEVAKKCGITPLQVR 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 = 51.7 bits (124), Expect = 4e-10
Identities = 15/57 (26%), Positives = 23/57 (40%), Gaps = 4/57 (7%)
Query: 86 GGSANKPRKIRRSRTTFTTYQLHQLERAFDKTQ-YPDVFTREDLASRLDLSEARVQF 141
G S + RSRT + L L+ YPD L+++LDL + +
Sbjct: 1 GSSGSSGP---RSRTKISLEALGILQSFIHDVGLYPDQEAIHTLSAQLDLPKHTIIK 54
>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 = 49.0 bits (117), Expect = 5e-09
Identities = 17/53 (32%), Positives = 26/53 (49%), Gaps = 2/53 (3%)
Query: 87 GSANKPRKIRRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARV 139
GS+ K + F+ Q +LE+ F+ +Y R+ LA L LSE +V
Sbjct: 1 GSSGSSGK--GGQVRFSNDQTIELEKKFETQKYLSPPERKRLAKMLQLSERQV 51
>3a03_A T-cell leukemia homeobox protein 2; homeodomain, developmental
protein, DNA-binding, N gene regulation; 1.54A {Homo
sapiens}
Length = 56
Score = 47.7 bits (114), Expect = 1e-08
Identities = 14/40 (35%), Positives = 24/40 (60%)
Query: 100 TTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARV 139
T+F+ Q+ +LER F + +Y R LA L +++A+V
Sbjct: 2 TSFSRSQVLELERRFLRQKYLASAERAALAKALRMTDAQV 41
>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 = 48.0 bits (114), Expect = 1e-08
Identities = 11/57 (19%), Positives = 20/57 (35%), Gaps = 4/57 (7%)
Query: 85 GGGSANKPRKIRRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARVQF 141
G ++ P K + QL LE +F + P + L S ++ +
Sbjct: 1 GSSGSSGPTKYKE----RAPEQLRALESSFAQNPLPLDEELDRLRSETKMTRREIDS 53
>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 = 48.1 bits (114), Expect = 2e-08
Identities = 13/57 (22%), Positives = 20/57 (35%)
Query: 85 GGGSANKPRKIRRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARVQF 141
G S P + T Q+ LE +F K+ +P + L LS +
Sbjct: 3 SGSSGAYPDFAPQKFKEKTQGQVKILEDSFLKSSFPTQAELDRLRVETKLSRREIDS 59
>2d5v_A Hepatocyte nuclear factor 6; transcription factor,
transcription-DNA complex; 2.00A {Rattus norvegicus}
PDB: 1s7e_A
Length = 164
Score = 49.1 bits (116), Expect = 2e-08
Identities = 10/51 (19%), Positives = 21/51 (41%)
Query: 90 NKPRKIRRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARVQ 140
++ ++ R FT Q L F + + P + ++ +L L + V
Sbjct: 92 DRGNTPKKPRLVFTDVQRRTLHAIFKENKRPSKELQITISQQLGLELSTVS 142
>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 = 46.2 bits (110), Expect = 4e-08
Identities = 17/44 (38%), Positives = 30/44 (68%)
Query: 96 RRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARV 139
+R RT F++ QL +L+R F++ +Y R+ L+S L L+EA++
Sbjct: 4 KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQI 47
>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 = 45.4 bits (108), Expect = 7e-08
Identities = 19/45 (42%), Positives = 28/45 (62%)
Query: 95 IRRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARV 139
+RR RT FT QL +LE+ F K Y R +LA++L+L E+ +
Sbjct: 1 VRRYRTAFTRDQLGRLEKEFYKENYVSRPRRCELAAQLNLPESTI 45
>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 = 45.1 bits (107), Expect = 1e-07
Identities = 18/44 (40%), Positives = 29/44 (65%)
Query: 96 RRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARV 139
RR+RTTFT+ Q+ +LE+ F + +Y DL+++L L A+V
Sbjct: 3 RRTRTTFTSSQIAELEQHFLQGRYLTAPRLADLSAKLALGTAQV 46
>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 = 44.2 bits (104), Expect = 4e-07
Identities = 9/51 (17%), Positives = 18/51 (35%), Gaps = 4/51 (7%)
Query: 91 KPRKIRRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARVQF 141
P+K + T QL L+ +F + L ++ L+ +
Sbjct: 11 TPQKFKEK----TAEQLRVLQASFLNSSVLTDEELNRLRAQTKLTRREIDA 57
>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 = 43.2 bits (101), Expect = 1e-06
Identities = 15/67 (22%), Positives = 23/67 (34%)
Query: 74 HGNKMADLGERGGGSANKPRKIRRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLD 133
H + + E T QLH L+ AF +TQ+P + LA
Sbjct: 4 HHHHHSSGLEVLFQGPAPKSGSTGKICKKTPEQLHMLKSAFVRTQWPSPEEYDKLAKESG 63
Query: 134 LSEARVQ 140
L+ +
Sbjct: 64 LARTDIV 70
>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 = 42.6 bits (100), Expect = 2e-06
Identities = 18/55 (32%), Positives = 27/55 (49%)
Query: 85 GGGSANKPRKIRRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARV 139
S RT FTT QL +LE+ F +Y R ++A+ L+L+E +V
Sbjct: 24 AKVSEPGLGSPSGLRTNFTTRQLTELEKEFHFNKYLSRARRVEIAATLELNETQV 78
>2h1k_A IPF-1, pancreatic and duodenal homeobox 1, homeodomain; protein-DNA
complex, transcription/DNA complex; 2.42A {Mesocricetus
auratus}
Length = 63
Score = 39.7 bits (93), Expect = 1e-05
Identities = 16/44 (36%), Positives = 26/44 (59%)
Query: 96 RRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARV 139
+R+RT +T QL +LE+ F +Y R +LA L+L+E +
Sbjct: 4 KRTRTAYTRAQLLELEKEFLFNKYISRPRRVELAVMLNLTERHI 47
>2l7z_A Homeobox protein HOX-A13; gene regulation; NMR {Homo sapiens} PDB:
2ld5_A*
Length = 73
Score = 38.3 bits (89), Expect = 6e-05
Identities = 13/47 (27%), Positives = 25/47 (53%)
Query: 93 RKIRRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARV 139
+ R+ R +T QL +LER + ++ R +++ +LSE +V
Sbjct: 5 LEGRKKRVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQV 51
>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 = 38.1 bits (88), Expect = 7e-05
Identities = 9/44 (20%), Positives = 14/44 (31%)
Query: 97 RSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARVQ 140
S T QL L+ F + Q+ + L L +
Sbjct: 5 SSGKRKTKEQLAILKSFFLQCQWARREDYQKLEQITGLPRPEII 48
>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 = 37.9 bits (88), Expect = 7e-05
Identities = 11/51 (21%), Positives = 24/51 (47%)
Query: 89 ANKPRKIRRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARV 139
+ R+ R ++ QL +LER + ++ R +++ LSE ++
Sbjct: 1 GSSGSSGRKKRIPYSKGQLRELEREYAANKFITKDKRRKISAATSLSERQI 51
>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 = 37.8 bits (88), Expect = 7e-05
Identities = 15/46 (32%), Positives = 26/46 (56%)
Query: 96 RRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARVQF 141
+R R T+T YQ +LE+ F +Y R ++A L L+E +++
Sbjct: 3 KRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKI 48
>2r5y_A Homeotic protein sex combs reduced; homeodomain; HET: DNA; 2.60A
{Drosophila melanogaster} PDB: 2r5z_A*
Length = 88
Score = 37.9 bits (88), Expect = 1e-04
Identities = 17/55 (30%), Positives = 30/55 (54%)
Query: 85 GGGSANKPRKIRRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARV 139
G + N + +R RT++T YQ +LE+ F +Y R ++A L L+E ++
Sbjct: 18 GTSTVNANGETKRQRTSYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQI 72
>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 = 37.1 bits (86), Expect = 2e-04
Identities = 16/44 (36%), Positives = 24/44 (54%)
Query: 96 RRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARV 139
RR R T+T YQ +LE+ F Y R ++A L L+E ++
Sbjct: 21 RRGRQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALSLTERQI 64
>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 = 36.0 bits (83), Expect = 4e-04
Identities = 15/49 (30%), Positives = 25/49 (51%)
Query: 91 KPRKIRRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEARV 139
R R+ R +T +Q +LE+ F Y R ++A L+L+E +V
Sbjct: 9 HARSTRKKRCPYTKHQTLELEKEFLFNMYLTRDRRYEVARLLNLTERQV 57
>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 = 34.8 bits (80), Expect = 0.001
Identities = 12/46 (26%), Positives = 20/46 (43%), Gaps = 1/46 (2%)
Query: 97 RSRTTFTTYQLHQLERAFDK-TQYPDVFTREDLASRLDLSEARVQF 141
+ LE+ F T+YPD + L+ +LD S ++Q
Sbjct: 10 KDSPVNKVEPNDTLEKVFVSVTKYPDEKRLKGLSKQLDWSVRKIQC 55
>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 = 34.1 bits (77), Expect = 0.004
Identities = 10/46 (21%), Positives = 18/46 (39%)
Query: 92 PRKIRRSRTTFTTYQLHQLERAFDKTQYPDVFTREDLASRLDLSEA 137
R+R + L +A+D+ + P RE L + +E
Sbjct: 3 SGSSGRNRFKWGPASQQILYQAYDRQKNPSKEEREALVEECNRAEC 48
>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 = 30.2 bits (68), Expect = 0.042
Identities = 13/56 (23%), Positives = 22/56 (39%), Gaps = 10/56 (17%)
Query: 87 GSANKPRKIRRSRTTFTTYQLHQLERAF-DKTQYPDVFTREDLASRLDLSEARVQF 141
GS+ + + LE+ F T++PD E L+ +LD +Q
Sbjct: 1 GSSGSSGTAQPNAI---------LEKVFTAITKHPDEKRLEGLSKQLDWDVRSIQR 47
>2w48_A Sorbitol operon regulator; SORC, activator, repressor, DNA-binding,
transcription, transcription regulator, transcription
regulation; 3.20A {Klebsiella pneumoniae}
Length = 315
Score = 27.1 bits (60), Expect = 2.4
Identities = 4/22 (18%), Positives = 8/22 (36%)
Query: 119 YPDVFTREDLASRLDLSEARVQ 140
Y T+ +A L + +
Sbjct: 18 YEQDMTQAQIARELGIYRTTIS 39
>1t4y_A Adaptive-response sensory-kinase SASA; alpha/beta protein,
thioredoxin fold, transferase; NMR {Synechococcus
elongatus} SCOP: c.47.1.15 PDB: 1t4z_A
Length = 105
Score = 26.1 bits (57), Expect = 2.7
Identities = 10/53 (18%), Positives = 22/53 (41%)
Query: 5 DQLGNLSGRFNLVLHLHSDSHHADSNKLDPISHNLNHLDNTDPNDLEISNDLE 57
L + L+L L D+ + + + + L ++ T P L++ N +
Sbjct: 2 SSLSPQALAQPLLLQLFVDTRPLSQHIVQRVKNILAAVEATVPISLQVINVAD 54
>3c5e_A Acyl-coenzyme A synthetase ACSM2A, mitochondrial; middle-chain
acyl-COA synthetase, xenobiotic/medium-chain FA COA
ligase; HET: ATP; 1.60A {Homo sapiens} PDB: 2vze_A
3b7w_A* 3day_A* 3eq6_A* 3eyn_A* 3gpc_A* 2wd9_A*
Length = 570
Score = 25.7 bits (57), Expect = 5.9
Identities = 5/17 (29%), Positives = 9/17 (52%)
Query: 123 FTREDLASRLDLSEARV 139
D+ RL +S+A+
Sbjct: 133 MKSTDILYRLQMSKAKA 149
>3p86_A Serine/threonine-protein kinase CTR1; ETR1, ERS1, ETR2,
phosphorylation, transferase; HET: STU; 2.50A
{Arabidopsis thaliana} PDB: 3ppz_A*
Length = 309
Score = 25.3 bits (56), Expect = 7.8
Identities = 13/39 (33%), Positives = 18/39 (46%), Gaps = 1/39 (2%)
Query: 21 HSDSHHADSNKLDPISHNLNHLDNTDPNDLEIS-NDLEI 58
H HH S+ P + NL D +D++I DL I
Sbjct: 3 HHHHHHPMSDYDIPTTENLYFQGAMDGDDMDIPWCDLNI 41
>1o3u_A Conserved hypothetical protein TM0613; structural genomics, joint
center for structural genomics, J protein structure
initiative, PSI; 1.75A {Thermotoga maritima} SCOP:
a.24.16.3
Length = 135
Score = 24.7 bits (53), Expect = 8.6
Identities = 9/34 (26%), Positives = 14/34 (41%)
Query: 105 YQLHQLERAFDKTQYPDVFTREDLASRLDLSEAR 138
+L++A T+YPD +R EA
Sbjct: 82 DHALELDKACIPTRYPDALPSGSPRNRYSRIEAE 115
>3etc_A AMP-binding protein; adenylate-forming acyl-COA synthetase ligase,
ligase; HET: PGE 1PE EPE; 2.10A {Methanosarcina
acetivorans}
Length = 580
Score = 25.2 bits (56), Expect = 9.7
Identities = 2/17 (11%), Positives = 8/17 (47%)
Query: 123 FTREDLASRLDLSEARV 139
D+ R++ + ++
Sbjct: 145 LKTRDIVYRIEKAGLKM 161
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
0.313 0.131 0.378
Gapped
Lambda K H
0.267 0.0501 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,086,018
Number of extensions: 111505
Number of successful extensions: 219
Number of sequences better than 10.0: 1
Number of HSP's gapped: 215
Number of HSP's successfully gapped: 82
Length of query: 141
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 57
Effective length of database: 4,356,429
Effective search space: 248316453
Effective search space used: 248316453
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 52 (24.3 bits)