RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7087
(162 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 = 110 bits (278), Expect = 7e-33
Identities = 36/55 (65%), Positives = 45/55 (81%)
Query: 107 EGVLTEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 161
E + KRKQRR RTTF+++QL ELERAF+ T YPDIYTREE+A + +LTEAR+Q
Sbjct: 9 EPGIALKRKQRRSRTTFSASQLDELERAFERTQYPDIYTREELAQRTNLTEARIQ 63
>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 = 108 bits (271), Expect = 6e-32
Identities = 25/51 (49%), Positives = 33/51 (64%)
Query: 111 TEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 161
+ RR RT FT QL+ LE FQET YPD+ TRE++A K+ L E +V+
Sbjct: 2 SSGSSGRRHRTIFTDEQLEALENLFQETKYPDVGTREQLARKVHLREEKVE 52
>2cue_A Paired box protein PAX6; homeobox domain, transcription factor,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
a.4.1.1
Length = 80
Score = 107 bits (270), Expect = 1e-31
Identities = 25/51 (49%), Positives = 36/51 (70%)
Query: 111 TEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 161
+ +R RT+FT Q++ LE+ F+ THYPD++ RE +A KIDL EAR+Q
Sbjct: 2 SSGSSGQRNRTSFTQEQIEALEKEFERTHYPDVFARERLAAKIDLPEARIQ 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 = 105 bits (264), Expect = 8e-31
Identities = 29/51 (56%), Positives = 36/51 (70%)
Query: 111 TEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 161
+ RR RTTFT AQL LE F +T YPDI+ REE+A+KI+L E+RVQ
Sbjct: 2 SSGSSGRRERTTFTRAQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQ 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 = 104 bits (262), Expect = 1e-30
Identities = 29/47 (61%), Positives = 35/47 (74%)
Query: 115 KQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 161
QRR RT FTS QL++LE FQ YPD+ TREEIA+ +LTEARV+
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 = 98.2 bits (245), Expect = 4e-28
Identities = 19/45 (42%), Positives = 27/45 (60%)
Query: 117 RRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 161
RR RT FT Q++ LE F+ YP I E++A K++L R+Q
Sbjct: 2 RRPRTAFTQNQIEVLENVFRVNCYPGIDILEDLAQKLNLELDRIQ 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 = 98.7 bits (246), Expect = 5e-28
Identities = 15/51 (29%), Positives = 27/51 (52%)
Query: 111 TEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 161
+ +R+RT+F QL+ ++ F H PD +++A K LT+ +Q
Sbjct: 2 SSGSSGKRMRTSFKHHQLRTMKSYFAINHNPDAKDLKQLAQKTGLTKRVLQ 52
>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 = 96.2 bits (240), Expect = 2e-27
Identities = 30/42 (71%), Positives = 36/42 (85%)
Query: 120 RTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 161
TFTS QL+ELE+AF THYPD++TREE+AMKI LTEAR+Q
Sbjct: 3 HMTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQ 44
>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 = 96.3 bits (240), Expect = 3e-27
Identities = 13/51 (25%), Positives = 22/51 (43%)
Query: 111 TEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 161
+ R RT FT QL+ L+ F YP E+++ ++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 = 92.0 bits (229), Expect = 1e-25
Identities = 11/47 (23%), Positives = 19/47 (40%)
Query: 115 KQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 161
K R+RT QL L + PD +E++ L+ ++
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 = 85.2 bits (211), Expect = 8e-23
Identities = 15/51 (29%), Positives = 26/51 (50%)
Query: 111 TEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 161
E ++ +R+RTT T QL+ L + + P + IA ++ L + VQ
Sbjct: 12 EEPQRDKRLRTTITPEQLEILYQKYLLDSNPTRKMLDHIAHEVGLKKRVVQ 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 = 82.8 bits (205), Expect = 6e-22
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 120 RTTFTSAQLKELERAFQETH-YPDIYTREEIAMKIDLTEARVQK 162
T T Q++ LE F + + +PD T IA + LTE + QK
Sbjct: 5 AATMTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQK 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 = 80.1 bits (198), Expect = 6e-21
Identities = 13/50 (26%), Positives = 22/50 (44%)
Query: 112 EKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 161
+R RT T QL+ L + F + P +E+A K L + ++
Sbjct: 3 SGSSGKRPRTRITDDQLRVLRQYFDINNSPSEEQIKEMADKSGLPQKVIK 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 = 79.7 bits (196), Expect = 2e-20
Identities = 17/66 (25%), Positives = 23/66 (34%), Gaps = 15/66 (22%)
Query: 111 TEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKID---------------L 155
+ R R T+ L +E F E YPD REEIA + +
Sbjct: 2 SSGSSGRGSRFTWRKECLAVMESYFNENQYPDEAKREEIANACNAVIQKPGKKLSDLERV 61
Query: 156 TEARVQ 161
T +V
Sbjct: 62 TSLKVY 67
>2hi3_A Homeodomain-only protein; transcription; NMR {Mus musculus} SCOP:
a.4.1.1
Length = 73
Score = 77.9 bits (192), Expect = 5e-20
Identities = 15/47 (31%), Positives = 24/47 (51%), Gaps = 1/47 (2%)
Query: 117 RRIRTTFTSAQLKELERAFQETH-YPDIYTREEIAMKIDLTEARVQK 162
+ + T Q++ LE F + + +PD T IA + LTE + QK
Sbjct: 3 AQTVSGPTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQK 49
>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 = 71.6 bits (175), Expect = 1e-16
Identities = 15/58 (25%), Positives = 28/58 (48%)
Query: 104 SGHEGVLTEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 161
+ E V E K+R+ RT+FT ++ L F++ P E+A +++ V+
Sbjct: 81 NLMEFVGGEPSKKRKRRTSFTPQAIEALNAYFEKNPLPTGQEITEMAKELNYDREVVR 138
>2dn0_A Zinc fingers and homeoboxes protein 3; triple homeobox 1 protein,
KIAA0395, TIX1, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 76
Score = 67.8 bits (166), Expect = 4e-16
Identities = 9/50 (18%), Positives = 17/50 (34%)
Query: 113 KRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQK 162
+ + QL L+ +F +P E + L+ V+K
Sbjct: 5 SSGASIYKNKKSHEQLSALKGSFCRNQFPGQSEVEHLTKVTGLSTREVRK 54
>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 = 69.9 bits (170), Expect = 1e-15
Identities = 12/71 (16%), Positives = 24/71 (33%)
Query: 91 SMNLQSGLPYKVYSGHEGVLTEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIA 150
+ + G +K RR R + A + L +A++ P RE +
Sbjct: 90 AQQFTHAGQGGLIEEPTGDELPTKKGRRNRFKWGPASQQILFQAYERQKNPSKEERETLV 149
Query: 151 MKIDLTEARVQ 161
+ + E +
Sbjct: 150 EECNRAECIQR 160
>1lfb_A Liver transcription factor (LFB1); transcription regulation; 2.80A
{Rattus norvegicus} SCOP: a.4.1.1 PDB: 2lfb_A
Length = 99
Score = 67.2 bits (163), Expect = 2e-15
Identities = 11/55 (20%), Positives = 22/55 (40%)
Query: 108 GVLTEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQK 162
+ +K RR R + A + L +A++ P RE + + + E +
Sbjct: 1 ARIDPTKKGRRNRFKWGPASQQILFQAYERQKNPSKEERETLVEECNRAECIQRG 55
>2h8r_A Hepatocyte nuclear factor 1-beta; trasncription factor, POU, homeo,
protein-DNA, human disease; 3.20A {Homo sapiens}
Length = 221
Score = 66.6 bits (161), Expect = 3e-14
Identities = 12/81 (14%), Positives = 24/81 (29%)
Query: 79 SHQDHRTPMFPASMNLQSGLPYKVYSGHEGVLTEKRKQRRIRTTFTSAQLKELERAFQET 138
+ + + + S +K RR R + A + L +A+
Sbjct: 105 TDKSSQDQLLFLFPEFSQQSHGPGQSDDACSEPTNKKMRRNRFKWGPASQQILYQAYDRQ 164
Query: 139 HYPDIYTREEIAMKIDLTEAR 159
P RE + + + E
Sbjct: 165 KNPSKEEREALVEECNRAECL 185
>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 = 61.3 bits (149), Expect = 1e-13
Identities = 8/48 (16%), Positives = 18/48 (37%)
Query: 115 KQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQK 162
T Q+ L+ +F ++ +PD + L + ++K
Sbjct: 3 HHHHHHRKKTKEQIAHLKASFLQSQFPDDAEVYRLIEVTGLARSEIKK 50
>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 = 63.1 bits (153), Expect = 2e-13
Identities = 14/58 (24%), Positives = 27/58 (46%)
Query: 104 SGHEGVLTEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 161
+ + + ++R+ RTT + A LER F E P +A +++L + V+
Sbjct: 75 ALYNEKVGANERKRKRRTTISIAAKDALERHFGEHSKPSSQEIMRMAEELNLEKEVVR 132
>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 = 62.1 bits (150), Expect = 4e-13
Identities = 11/49 (22%), Positives = 23/49 (46%)
Query: 113 KRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 161
+ ++R RT+ + LE F ++ P + IA ++ L + V+
Sbjct: 93 VQARKRKRTSIENRVRWSLETMFLKSPKPSLQQITHIANQLGLEKDVVR 141
>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 = 58.4 bits (142), Expect = 1e-12
Identities = 11/50 (22%), Positives = 24/50 (48%)
Query: 112 EKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 161
+K K + +++ + LE F+ + +EE+A K +T +V+
Sbjct: 1 KKEKSPKGKSSISPQARAFLEEVFRRKQSLNSKEKEEVAKKCGITPLQVR 50
>2xsd_C POU domain, class 3, transcription factor 1; transcription-DNA
complex, SOX; 2.05A {Mus musculus}
Length = 164
Score = 60.8 bits (147), Expect = 2e-12
Identities = 10/49 (20%), Positives = 21/49 (42%)
Query: 113 KRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 161
+ ++R+ RT+ LE F + P + +A + L + V+
Sbjct: 96 QGRKRKKRTSIEVGVKGALESHFLKCPKPSAHEITGLADSLQLEKEVVR 144
>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 = 58.8 bits (142), Expect = 8e-12
Identities = 10/48 (20%), Positives = 24/48 (50%)
Query: 114 RKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 161
++R+ RT+ + LE++F E P IA ++++ + ++
Sbjct: 99 SRRRKKRTSIETNIRVALEKSFMENQKPTSEDITLIAEQLNMEKEVIR 146
>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 = 55.6 bits (134), Expect = 2e-11
Identities = 11/49 (22%), Positives = 20/49 (40%), Gaps = 1/49 (2%)
Query: 115 KQRRIRTTFTSAQLKELERAFQET-HYPDIYTREEIAMKIDLTEARVQK 162
R RT + L L+ + YPD ++ ++DL + + K
Sbjct: 6 SGPRSRTKISLEALGILQSFIHDVGLYPDQEAIHTLSAQLDLPKHTIIK 54
>1ig7_A Homeotic protein MSX-1; helix-turn-helix, transcription/DNA
complex; 2.20A {Mus musculus} SCOP: a.4.1.1
Length = 58
Score = 54.6 bits (132), Expect = 3e-11
Identities = 20/44 (45%), Positives = 27/44 (61%)
Query: 117 RRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 160
R+ RT FT+AQL LER F++ Y I R E + + LTE +V
Sbjct: 1 RKPRTPFTTAQLLALERKFRQKQYLSIAERAEFSSSLSLTETQV 44
>3a01_A Homeodomain-containing protein; homeodomain, protein-DNA complex,
DNA-binding, homeobox, NUC developmental protein; 2.70A
{Drosophila melanogaster}
Length = 93
Score = 55.6 bits (134), Expect = 4e-11
Identities = 18/58 (31%), Positives = 30/58 (51%)
Query: 103 YSGHEGVLTEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 160
GH K+++ RT+FT Q+ ELE+ F + Y R +A + +T+A+V
Sbjct: 4 RIGHPYQNRTPPKRKKPRTSFTRIQVAELEKRFHKQKYLASAERAALARGLKMTDAQV 61
>2kt0_A Nanog, homeobox protein nanog; homeodomain, structural genomics,
protein structure initiative, PSI, center for eukaryotic
structural genomics; NMR {Homo sapiens}
Length = 84
Score = 55.2 bits (133), Expect = 4e-11
Identities = 15/57 (26%), Positives = 28/57 (49%)
Query: 104 SGHEGVLTEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 160
S + K+++ RT F+S QL L FQ Y + +E++ ++L+ +V
Sbjct: 10 SVAKKEDKVPVKKQKTRTVFSSTQLCVLNDRFQRQKYLSLQQMQELSNILNLSYKQV 66
>2djn_A Homeobox protein DLX-5; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 70
Score = 54.7 bits (132), Expect = 4e-11
Identities = 18/50 (36%), Positives = 29/50 (58%)
Query: 111 TEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 160
+ R+ RT ++S QL L+R FQ+T Y + R E+A + LT+ +V
Sbjct: 2 SSGSSGRKPRTIYSSFQLAALQRRFQKTQYLALPERAELAASLGLTQTQV 51
>3rkq_A Homeobox protein NKX-2.5; helix-turn-helix, DNA binding, nucleus,
transcription-DNA CO; 1.70A {Homo sapiens}
Length = 58
Score = 54.2 bits (131), Expect = 4e-11
Identities = 16/45 (35%), Positives = 27/45 (60%)
Query: 116 QRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 160
+R+ R F+ AQ+ ELER F++ Y R+++A + LT +V
Sbjct: 2 RRKPRVLFSQAQVYELERRFKQQRYLSAPERDQLASVLKLTSTQV 46
>2l9r_A Homeobox protein NKX-3.1; structural genomics, northeast structural
genomics consortiu PSI-biology, protein structure
initiative; NMR {Homo sapiens}
Length = 69
Score = 54.7 bits (132), Expect = 4e-11
Identities = 13/46 (28%), Positives = 19/46 (41%)
Query: 115 KQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 160
+ + Q+ ELER F Y R +A + LTE +V
Sbjct: 3 HHHHHHSHMSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQV 48
>2vi6_A Homeobox protein nanog; homeodomain, DNA-binding, transcription,
transcription facto developmental protein, transcription
regulation, NUC homeobox; 2.6A {Mus musculus}
Length = 62
Score = 54.2 bits (131), Expect = 5e-11
Identities = 13/46 (28%), Positives = 28/46 (60%)
Query: 115 KQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 160
++++RT F+ AQL L+ FQ+ Y + +E++ ++L+ +V
Sbjct: 2 TKQKMRTVFSQAQLCALKDRFQKQKYLSLQQMQELSSILNLSYKQV 47
>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 = 54.8 bits (132), Expect = 6e-11
Identities = 18/50 (36%), Positives = 29/50 (58%)
Query: 111 TEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 160
T+ +K RR RT FT QL LE+ F++ Y R ++A + L++ +V
Sbjct: 12 TKAKKGRRSRTVFTELQLMGLEKRFEKQKYLSTPDRIDLAESLGLSQLQV 61
>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 = 54.4 bits (131), Expect = 6e-11
Identities = 20/47 (42%), Positives = 26/47 (55%)
Query: 114 RKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 160
K+R+ R FT AQ ELER F++ Y RE +A I LT +V
Sbjct: 7 NKKRKRRVLFTKAQTYELERRFRQQRYLSAPEREHLASLIRLTPTQV 53
>1ftt_A TTF-1 HD, thyroid transcription factor 1 homeodomain; DNA binding
protein; NMR {Rattus norvegicus} SCOP: a.4.1.1
Length = 68
Score = 53.1 bits (128), Expect = 1e-10
Identities = 18/45 (40%), Positives = 26/45 (57%)
Query: 116 QRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 160
+R+ R F+ AQ+ ELER F++ Y RE +A I LT +V
Sbjct: 2 RRKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQV 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 = 50.1 bits (120), Expect = 2e-09
Identities = 12/50 (24%), Positives = 24/50 (48%)
Query: 111 TEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 160
+ + + F++ Q ELE+ F+ Y R+ +A + L+E +V
Sbjct: 2 SSGSSGKGGQVRFSNDQTIELEKKFETQKYLSPPERKRLAKMLQLSERQV 51
>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 = 50.0 bits (119), Expect = 4e-09
Identities = 10/58 (17%), Positives = 25/58 (43%), Gaps = 5/58 (8%)
Query: 104 SGHEGVLTEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 161
SG ++ + + T Q+K LE +F ++ +P + + ++ L+ +
Sbjct: 6 SGAYPDFAPQKFKEK-----TQGQVKILEDSFLKSSFPTQAELDRLRVETKLSRREID 58
>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 = 48.9 bits (117), Expect = 6e-09
Identities = 16/45 (35%), Positives = 28/45 (62%)
Query: 116 QRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 160
++R RT F+S QL L+R F E Y R++++ ++ L EA++
Sbjct: 3 EKRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQI 47
>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 = 2e-08
Identities = 10/57 (17%), Positives = 20/57 (35%), Gaps = 5/57 (8%)
Query: 105 GHEGVLTEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 161
G G + + R QL+ LE +F + P + + + +T +
Sbjct: 1 GSSGSSGPTKYKER-----APEQLRALESSFAQNPLPLDEELDRLRSETKMTRREID 52
>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 = 47.4 bits (113), Expect = 2e-08
Identities = 18/45 (40%), Positives = 27/45 (60%)
Query: 116 QRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 160
RR RTTFTS+Q+ ELE+ F + Y +++ K+ L A+V
Sbjct: 2 PRRTRTTFTSSQIAELEQHFLQGRYLTAPRLADLSAKLALGTAQV 46
>2d5v_A Hepatocyte nuclear factor 6; transcription factor,
transcription-DNA complex; 2.00A {Rattus norvegicus}
PDB: 1s7e_A
Length = 164
Score = 49.5 bits (117), Expect = 2e-08
Identities = 11/50 (22%), Positives = 20/50 (40%)
Query: 112 EKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 161
++ R FT Q + L F+E P + I+ ++ L + V
Sbjct: 93 RGNTPKKPRLVFTDVQRRTLHAIFKENKRPSKELQITISQQLGLELSTVS 142
>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 = 48.1 bits (114), Expect = 3e-08
Identities = 8/52 (15%), Positives = 20/52 (38%), Gaps = 5/52 (9%)
Query: 110 LTEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 161
T ++ + + T+ QL+ L+ +F + + + LT +
Sbjct: 10 FTPQKFKEK-----TAEQLRVLQASFLNSSVLTDEELNRLRAQTKLTRREID 56
>3a03_A T-cell leukemia homeobox protein 2; homeodomain, developmental
protein, DNA-binding, N gene regulation; 1.54A {Homo
sapiens}
Length = 56
Score = 46.5 bits (111), Expect = 4e-08
Identities = 14/40 (35%), Positives = 23/40 (57%)
Query: 121 TTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 160
T+F+ +Q+ ELER F Y R +A + +T+A+V
Sbjct: 2 TSFSRSQVLELERRFLRQKYLASAERAALAKALRMTDAQV 41
>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 = 46.2 bits (110), Expect = 5e-08
Identities = 17/44 (38%), Positives = 26/44 (59%)
Query: 117 RRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 160
RR RT FT QL LE+ F + +Y R E+A +++L E+ +
Sbjct: 2 RRYRTAFTRDQLGRLEKEFYKENYVSRPRRCELAAQLNLPESTI 45
>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 = 45.3 bits (107), Expect = 3e-07
Identities = 18/46 (39%), Positives = 24/46 (52%)
Query: 115 KQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 160
+RT FT+ QL ELE+ F Y R EIA ++L E +V
Sbjct: 33 SPSGLRTNFTTRQLTELEKEFHFNKYLSRARRVEIAATLELNETQV 78
>2h1k_A IPF-1, pancreatic and duodenal homeobox 1, homeodomain; protein-DNA
complex, transcription/DNA complex; 2.42A {Mesocricetus
auratus}
Length = 63
Score = 44.3 bits (105), Expect = 3e-07
Identities = 18/46 (39%), Positives = 26/46 (56%)
Query: 115 KQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 160
+R RT +T AQL ELE+ F Y R E+A+ ++LTE +
Sbjct: 2 SNKRTRTAYTRAQLLELEKEFLFNKYISRPRRVELAVMLNLTERHI 47
>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 = 42.8 bits (101), Expect = 1e-06
Identities = 17/45 (37%), Positives = 24/45 (53%)
Query: 116 QRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 160
++R R T+T Q ELE+ F Y R EIA + LTE ++
Sbjct: 2 RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQI 46
>2l7z_A Homeobox protein HOX-A13; gene regulation; NMR {Homo sapiens} PDB:
2ld5_A*
Length = 73
Score = 42.5 bits (100), Expect = 2e-06
Identities = 15/51 (29%), Positives = 26/51 (50%)
Query: 110 LTEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 160
++ + R+ R +T QLKELER + + R I+ +L+E +V
Sbjct: 1 MSHMLEGRKKRVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQV 51
>2r5y_A Homeotic protein sex combs reduced; homeodomain; HET: DNA; 2.60A
{Drosophila melanogaster} PDB: 2r5z_A*
Length = 88
Score = 42.5 bits (100), Expect = 3e-06
Identities = 18/60 (30%), Positives = 27/60 (45%)
Query: 101 KVYSGHEGVLTEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 160
K + + +R RT++T Q ELE+ F Y R EIA + LTE ++
Sbjct: 13 KRVHLGTSTVNANGETKRQRTSYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQI 72
>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 = 41.4 bits (97), Expect = 5e-06
Identities = 12/47 (25%), Positives = 23/47 (48%)
Query: 114 RKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 160
R+ R ++ QL+ELER + + R +I+ L+E ++
Sbjct: 5 SSGRKKRIPYSKGQLRELEREYAANKFITKDKRRKISAATSLSERQI 51
>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 = 41.3 bits (97), Expect = 7e-06
Identities = 18/47 (38%), Positives = 25/47 (53%)
Query: 114 RKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 160
+RR R T+T Q ELE+ F HY R E+A + LTE ++
Sbjct: 18 GLRRRGRQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALSLTERQI 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 = 40.2 bits (94), Expect = 2e-05
Identities = 17/47 (36%), Positives = 24/47 (51%)
Query: 114 RKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 160
R R+ R +T Q ELE+ F Y R E+A ++LTE +V
Sbjct: 11 RSTRKKRCPYTKHQTLELEKEFLFNMYLTRDRRYEVARLLNLTERQV 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 = 39.0 bits (90), Expect = 7e-05
Identities = 11/50 (22%), Positives = 18/50 (36%)
Query: 113 KRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQK 162
K T QL L+ AF T +P +++A + L +
Sbjct: 22 KSGSTGKICKKTPEQLHMLKSAFVRTQWPSPEEYDKLAKESGLARTDIVS 71
>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 = 35.2 bits (80), Expect = 0.002
Identities = 8/37 (21%), Positives = 13/37 (35%)
Query: 114 RKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIA 150
R R + A + L +A+ P RE +
Sbjct: 4 GSSGRNRFKWGPASQQILYQAYDRQKNPSKEEREALV 40
>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 = 33.8 bits (77), Expect = 0.004
Identities = 6/45 (13%), Positives = 14/45 (31%)
Query: 118 RIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQK 162
T QL L+ F + + +++ L + +
Sbjct: 5 SSGKRKTKEQLAILKSFFLQCQWARREDYQKLEQITGLPRPEIIQ 49
>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 = 33.2 bits (76), Expect = 0.005
Identities = 10/51 (19%), Positives = 19/51 (37%), Gaps = 6/51 (11%)
Query: 113 KRKQRRIRTTFTSAQLKELERAFQ-ETHYPDIYTREEIAMKIDLTEARVQK 162
K LE+ F T YPD + ++ ++D + ++Q
Sbjct: 10 KDSPVN-----KVEPNDTLEKVFVSVTKYPDEKRLKGLSKQLDWSVRKIQC 55
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 35.0 bits (80), Expect = 0.009
Identities = 25/148 (16%), Positives = 41/148 (27%), Gaps = 45/148 (30%)
Query: 2 DYSYLNQAAAQFDASSC---ALTS------SMDPTGLGPCSYGDQMSSAAYR----YTAA 48
D YL SC + + G P + A TA
Sbjct: 227 DKDYLLSIPI-----SCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAV 281
Query: 49 AASMARS----YNTAGPMGHHL-SSGSAQCAVMARSHQDHRTPMFPASMNLQSGLPYKVY 103
A + S + + L G R ++ + P S+ S +
Sbjct: 282 AIAETDSWESFFVSVRKAITVLFFIG-------VRCYEAYPNTSLPPSILEDS-----LE 329
Query: 104 SGHEGV---------LTEKRKQRRIRTT 122
+ EGV LT+++ Q + T
Sbjct: 330 NN-EGVPSPMLSISNLTQEQVQDYVNKT 356
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 31.7 bits (71), Expect = 0.10
Identities = 22/167 (13%), Positives = 44/167 (26%), Gaps = 56/167 (33%)
Query: 20 LTSSMDPTGLGPCSYGDQMSSAAYRYTAAAASMARSYNTAGPMGHHLSSGSAQCAVMARS 79
+ + D L P Y DQ Y Y S+ +GHHL +
Sbjct: 455 IPKTFDSDDLIP-PYLDQ-----YFY---------SH-----IGHHLKN----------I 484
Query: 80 HQDHRTPMFPAS-MNL--------QSGLPYKVYSGHEGVLTEKRKQRR-IR---TTFTSA 126
R +F ++ + L + + + I +
Sbjct: 485 EHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKY-ER 543
Query: 127 QLKELERAFQETHYPDIYTREE-----IAMK------IDLTEARVQK 162
+ + F ++ + IA+ + +VQ+
Sbjct: 544 LVNAILD-FLPKIEENLICSKYTDLLRIALMAEDEAIFEEAHKQVQR 589
>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 = 27.8 bits (62), Expect = 0.45
Identities = 9/51 (17%), Positives = 17/51 (33%), Gaps = 7/51 (13%)
Query: 113 KRKQRRIRTTFTSAQLKELERAF-QETHYPDIYTREEIAMKIDLTEARVQK 162
LE+ F T +PD E ++ ++D +Q+
Sbjct: 3 SGSSGTA------QPNAILEKVFTAITKHPDEKRLEGLSKQLDWDVRSIQR 47
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 28.8 bits (63), Expect = 0.54
Identities = 10/48 (20%), Positives = 19/48 (39%), Gaps = 20/48 (41%)
Query: 115 KQRRIRTTFTSAQLKELERAFQETHY-PDIYTREEIAMKIDLTEARVQ 161
KQ LK+L+ + + Y D + +A+K A ++
Sbjct: 19 KQ----------ALKKLQASLKL--YADD--SAPALAIK-----ATME 47
>2jul_A Calsenilin; EF-hand, calcium, LXXLL, DNA binding protein, dimer,
alternative splicing, apoptosis, cytoplasm, endoplasmic
reticulum, golgi apparatus; NMR {Mus musculus}
Length = 256
Score = 27.3 bits (60), Expect = 2.5
Identities = 9/38 (23%), Positives = 16/38 (42%)
Query: 111 TEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREE 148
E Q + +T FT +L+ L R F+ + +
Sbjct: 76 PEGLDQLQAQTKFTKKELQSLYRGFKNECPTGLVDEDT 113
>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 = 2.8
Identities = 4/24 (16%), Positives = 12/24 (50%)
Query: 139 HYPDIYTREEIAMKIDLTEARVQK 162
+Y T+ +IA ++ + + +
Sbjct: 17 YYEQDMTQAQIARELGIYRTTISR 40
>1s1e_A KV channel interacting protein 1; kchip, calcium-binding protein,
EF-finger, transport protein; 2.30A {Homo sapiens} SCOP:
a.39.1.5
Length = 224
Score = 26.9 bits (59), Expect = 2.9
Identities = 10/38 (26%), Positives = 16/38 (42%)
Query: 111 TEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREE 148
E +Q +T FT +L+ L R F+ + E
Sbjct: 36 PEGLEQLEAQTNFTKRELQVLYRGFKNECPSGVVNEET 73
>1vq8_Q 50S ribosomal protein L21E; ribosome 50S, protein-protein complex,
RNA-RNA complex, PROT complex, peptidyl transferase
reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A
{Haloarcula marismortui} SCOP: b.34.5.1 PDB: 1vq4_Q*
1vq5_Q* 1vq6_Q* 1vq7_Q* 1s72_Q* 1vq9_Q* 1vqk_Q* 1vql_Q*
1vqm_Q* 1vqn_Q* 1vqo_Q* 1vqp_Q* 1yhq_Q* 1yi2_Q* 1yij_Q*
1yit_Q* 1yj9_Q* 1yjn_Q* 1yjw_Q* 2otj_Q* ...
Length = 96
Score = 25.7 bits (57), Expect = 3.3
Identities = 4/21 (19%), Positives = 9/21 (42%)
Query: 95 QSGLPYKVYSGHEGVLTEKRK 115
+G + + G G + K+
Sbjct: 49 PNGRFHPRFDGQTGTVEGKQG 69
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
0.316 0.125 0.358
Gapped
Lambda K H
0.267 0.0495 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,402,826
Number of extensions: 126289
Number of successful extensions: 397
Number of sequences better than 10.0: 1
Number of HSP's gapped: 391
Number of HSP's successfully gapped: 74
Length of query: 162
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 76
Effective length of database: 4,300,587
Effective search space: 326844612
Effective search space used: 326844612
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: 53 (24.8 bits)