RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14871
(238 letters)
>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 = 75.8 bits (187), Expect = 1e-18
Identities = 15/53 (28%), Positives = 28/53 (52%), Gaps = 3/53 (5%)
Query: 161 FKEKSRSVLRDWYT---HNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDR 210
F +++ +L W+ NPY + L + T L+ Q+ NW NRR++++
Sbjct: 5 FTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEK 57
>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 = 76.0 bits (187), Expect = 2e-18
Identities = 25/60 (41%), Positives = 37/60 (61%), Gaps = 3/60 (5%)
Query: 161 FKEKSRSVLRDW-YTH--NPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDRAAEQKDG 217
F +++ +L ++ Y+H NPYPS K ELA+ G+T +QVSNWF N+R R + K
Sbjct: 8 FNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKKNIGKFQ 67
>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 = 75.7 bits (186), Expect = 3e-18
Identities = 15/53 (28%), Positives = 28/53 (52%), Gaps = 3/53 (5%)
Query: 161 FKEKSRSVLRDWYT---HNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDR 210
F +++ +L W+ NPY + L + T L+ Q+ NW NRR++++
Sbjct: 34 FTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEK 86
>1puf_B PRE-B-cell leukemia transcription factor-1; homeodomian,
protein-DNA complex, HOX hexapeptide, TALE homeodomain,
homeodomain interaction; 1.90A {Homo sapiens} SCOP:
a.4.1.1 PDB: 1b8i_B* 2r5y_B* 2r5z_B*
Length = 73
Score = 74.7 bits (184), Expect = 6e-18
Identities = 25/58 (43%), Positives = 37/58 (63%), Gaps = 3/58 (5%)
Query: 161 FKEKSRSVLRDW-YTH--NPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDRAAEQK 215
F +++ +L ++ Y+H NPYPS K ELA+ G+T +QVSNWF N+R R + K
Sbjct: 8 FNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKKNIGK 65
>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 = 74.1 bits (182), Expect = 1e-17
Identities = 14/56 (25%), Positives = 26/56 (46%), Gaps = 3/56 (5%)
Query: 161 FKEKSRSVLRDWYT---HNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDRAAE 213
F +++ +L W+ NPY + L + T L+ Q+ NW RR +++
Sbjct: 9 FTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVAARRAKEKTIT 64
>3k2a_A Homeobox protein MEIS2; homeobox domain, DNA-binding,
transcription, nucleus, phosphoprotein, DNA bindi
protein; 1.95A {Homo sapiens}
Length = 67
Score = 69.7 bits (171), Expect = 3e-16
Identities = 23/51 (45%), Positives = 36/51 (70%), Gaps = 3/51 (5%)
Query: 161 FKEKSRSVLRDW-YTH--NPYPSPREKRELAEATGLTTTQVSNWFKNRRQR 208
F + + +++R W + H +PYPS +K++LA+ TGLT QV+NWF N R+R
Sbjct: 5 FPKVATNIMRAWLFQHLTHPYPSEEQKKQLAQDTGLTILQVNNWFINARRR 55
>2dmn_A Homeobox protein TGIF2LX; TGFB-induced factor 2-like protein,
X-linked TGF(beta) induced transcription factor 2-like
protein, TGIF-like on the X; NMR {Homo sapiens}
Length = 83
Score = 68.6 bits (168), Expect = 1e-15
Identities = 24/51 (47%), Positives = 31/51 (60%), Gaps = 3/51 (5%)
Query: 161 FKEKSRSVLRDW-YTH--NPYPSPREKRELAEATGLTTTQVSNWFKNRRQR 208
+S +LRDW Y H YPS EK+ L+E T L+ Q+SNWF N R+R
Sbjct: 14 LPAESVKILRDWMYKHRFKAYPSEEEKQMLSEKTNLSLLQISNWFINARRR 64
>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 = 68.2 bits (167), Expect = 1e-15
Identities = 21/49 (42%), Positives = 33/49 (67%), Gaps = 3/49 (6%)
Query: 163 EKSRSVLRDW-YTH--NPYPSPREKRELAEATGLTTTQVSNWFKNRRQR 208
+ + +V+R W + H +PYP+ EK+++A T LT QV+NWF N R+R
Sbjct: 16 KHATNVMRSWLFQHIGHPYPTEDEKKQIAAQTNLTLLQVNNWFINARRR 64
>1du6_A PBX1, homeobox protein PBX1; homeodomain, gene regulation; NMR {Mus
musculus} SCOP: a.4.1.1
Length = 64
Score = 67.7 bits (166), Expect = 2e-15
Identities = 23/51 (45%), Positives = 34/51 (66%), Gaps = 3/51 (5%)
Query: 161 FKEKSRSVLRDW-YTH--NPYPSPREKRELAEATGLTTTQVSNWFKNRRQR 208
+++ +L ++ Y+H NPYPS K ELA+ G+T +QVSNWF N+R R
Sbjct: 10 MNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIR 60
>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 = 67.2 bits (164), Expect = 3e-15
Identities = 17/59 (28%), Positives = 27/59 (45%), Gaps = 3/59 (5%)
Query: 161 FKEKSRS---VLRDWYTHNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDRAAEQKD 216
+KE++ L + NP P E L T +T ++ +WF RR++ A E K
Sbjct: 11 YKERAPEQLRALESSFAQNPLPLDEELDRLRSETKMTRREIDSWFSERRKKVNAEETKK 69
>2lk2_A Homeobox protein TGIF1; NESG, structural genomics, northeast
structural genomics CON PSI-biology, transcription; NMR
{Homo sapiens}
Length = 89
Score = 67.1 bits (164), Expect = 6e-15
Identities = 25/51 (49%), Positives = 33/51 (64%), Gaps = 3/51 (5%)
Query: 161 FKEKSRSVLRDW-YTH--NPYPSPREKRELAEATGLTTTQVSNWFKNRRQR 208
++S +LRDW Y H N YPS +EK L++ T L+T QV NWF N R+R
Sbjct: 12 LPKESVQILRDWLYEHRYNAYPSEQEKALLSQQTHLSTLQVCNWFINARRR 62
>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 = 63.8 bits (155), Expect = 9e-14
Identities = 17/59 (28%), Positives = 30/59 (50%), Gaps = 3/59 (5%)
Query: 161 FKEKSR---SVLRDWYTHNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDRAAEQKD 216
FKEK++ +L D + + +P+ E L T L+ ++ +WF RR+ + EQ
Sbjct: 17 FKEKTQGQVKILEDSFLKSSFPTQAELDRLRVETKLSRREIDSWFSERRKLRDSMEQAV 75
>2d5v_A Hepatocyte nuclear factor 6; transcription factor,
transcription-DNA complex; 2.00A {Rattus norvegicus}
PDB: 1s7e_A
Length = 164
Score = 64.5 bits (156), Expect = 4e-13
Identities = 15/80 (18%), Positives = 30/80 (37%)
Query: 138 KYRVRRKFPLPRTIWDGEETSYCFKEKSRSVLRDWYTHNPYPSPREKRELAEATGLTTTQ 197
+ + + ++ F + R L + N PS + +++ GL +
Sbjct: 81 ACKRKEQEHGKDRGNTPKKPRLVFTDVQRRTLHAIFKENKRPSKELQITISQQLGLELST 140
Query: 198 VSNWFKNRRQRDRAAEQKDG 217
VSN+F N R+R +
Sbjct: 141 VSNFFMNARRRSLDKWLEHH 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 = 63.5 bits (154), Expect = 6e-13
Identities = 32/110 (29%), Positives = 46/110 (41%), Gaps = 13/110 (11%)
Query: 101 ESHQFSPHNHPKLQALWLKAHYVEAEKLRGRPLGAVGKYRVRRKFPLPRTIWDGEETSYC 160
E+ Q S N KL+A+ L EAE++ VG +RK RT
Sbjct: 47 ENLQLSFKNACKLKAI-LSKWLEEAEQVGALYNEKVGANERKRK---RRT---------T 93
Query: 161 FKEKSRSVLRDWYTHNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDR 210
++ L + + PS +E +AE L V WF NRRQR++
Sbjct: 94 ISIAAKDALERHFGEHSKPSSQEIMRMAEELNLEKEVVRVWFCNRRQREK 143
>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 = 61.6 bits (149), Expect = 6e-13
Identities = 15/58 (25%), Positives = 27/58 (46%), Gaps = 3/58 (5%)
Query: 161 FKEKSR---SVLRDWYTHNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDRAAEQK 215
FKEK+ VL+ + ++ + E L T LT ++ WF +++ E+K
Sbjct: 15 FKEKTAEQLRVLQASFLNSSVLTDEELNRLRAQTKLTRREIDAWFTEKKKSKALKEEK 72
>2dn0_A Zinc fingers and homeoboxes protein 3; triple homeobox 1 protein,
KIAA0395, TIX1, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 76
Score = 57.0 bits (138), Expect = 3e-11
Identities = 15/48 (31%), Positives = 23/48 (47%)
Query: 168 VLRDWYTHNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDRAAEQK 215
L+ + N +P E L + TGL+T +V WF +RR R +
Sbjct: 22 ALKGSFCRNQFPGQSEVEHLTKVTGLSTREVRKWFSDRRYHCRNLKGS 69
>2xsd_C POU domain, class 3, transcription factor 1; transcription-DNA
complex, SOX; 2.05A {Mus musculus}
Length = 164
Score = 57.7 bits (139), Expect = 1e-10
Identities = 28/114 (24%), Positives = 42/114 (36%), Gaps = 19/114 (16%)
Query: 101 ESHQFSPHNHPKLQAL---WL-KAHYVEAEKLRGRPLGAVGKYRVRRKFPLPRTIWDGEE 156
E+ Q S N KL+ L WL + + A G+ R +R
Sbjct: 57 EALQLSFKNMCKLKPLLNKWLEETDSSSGSPTNLDKIAAQGRKRKKRT------------ 104
Query: 157 TSYCFKEKSRSVLRDWYTHNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDR 210
+ + L + P PS E LA++ L V WF NRRQ+++
Sbjct: 105 ---SIEVGVKGALESHFLKCPKPSAHEITGLADSLQLEKEVVRVWFCNRRQKEK 155
>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 = 55.7 bits (134), Expect = 5e-10
Identities = 23/112 (20%), Positives = 38/112 (33%), Gaps = 7/112 (6%)
Query: 101 ESHQFSPHNHPKLQALWLKAHYVEAEKLRGRPLGAVGKYRVRRKFPLPRTIWDGEETSY- 159
E+ S N KL+ L L+ +AE L + P
Sbjct: 51 EALNLSFKNMSKLKPL-LEKWLNDAEA----NLSSDSSLSSPSALNSPGIEGLSRRRKKR 105
Query: 160 -CFKEKSRSVLRDWYTHNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDR 210
+ R L + N P+ + +AE + + WF NRRQ+++
Sbjct: 106 TSIETNIRVALEKSFMENQKPTSEDITLIAEQLNMEKEVIRVWFSNRRQKEK 157
>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 = 52.1 bits (125), Expect = 1e-09
Identities = 12/43 (27%), Positives = 21/43 (48%)
Query: 168 VLRDWYTHNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDR 210
L+ + + +P E L E TGL +++ WF + R R +
Sbjct: 18 HLKASFLQSQFPDDAEVYRLIEVTGLARSEIKKWFSDHRYRCQ 60
>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 = 52.3 bits (126), Expect = 1e-09
Identities = 15/57 (26%), Positives = 29/57 (50%)
Query: 161 FKEKSRSVLRDWYTHNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDRAAEQKDG 217
+ VLR ++ N PS + +E+A+ +GL + +WF+N ++R + G
Sbjct: 14 ITDDQLRVLRQYFDINNSPSEEQIKEMADKSGLPQKVIKHWFRNTLFKERQSGPSSG 70
>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 = 52.0 bits (124), Expect = 8e-09
Identities = 25/113 (22%), Positives = 46/113 (40%), Gaps = 14/113 (12%)
Query: 101 ESHQFSPHNHPKLQAL---WLKAHYVEAEKLRGRPLGAVGKYRVRRKFPLPRTIWDGEET 157
E +P + KL+ + WL + ++ + + VG +++ RT
Sbjct: 48 EKLDITPKSAQKLKPVLEKWLNEAELRNQEGQQNLMEFVGGEPSKKR--KRRT------- 98
Query: 158 SYCFKEKSRSVLRDWYTHNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDR 210
F ++ L ++ NP P+ +E E+A+ V WF NRRQ +
Sbjct: 99 --SFTPQAIEALNAYFEKNPLPTGQEITEMAKELNYDREVVRVWFSNRRQTLK 149
>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 = 49.8 bits (119), Expect = 1e-08
Identities = 14/57 (24%), Positives = 23/57 (40%)
Query: 161 FKEKSRSVLRDWYTHNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDRAAEQKDG 217
+ +L Y + P+ + +A GL V WF+N R R+R + G
Sbjct: 24 ITPEQLEILYQKYLLDSNPTRKMLDHIAHEVGLKKRVVQVWFQNTRARERKSGPSSG 80
>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 = 49.6 bits (118), Expect = 1e-08
Identities = 9/55 (16%), Positives = 26/55 (47%)
Query: 161 FKEKSRSVLRDWYTHNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDRAAEQK 215
++ ++L+ ++ + + ++L + TGL ++ WF + R + + K
Sbjct: 10 KTKEQLAILKSFFLQCQWARREDYQKLEQITGLPRPEIIQWFGDTRYALKHGQLK 64
>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 = 50.5 bits (120), Expect = 3e-08
Identities = 26/110 (23%), Positives = 40/110 (36%), Gaps = 11/110 (10%)
Query: 101 ESHQFSPHNHPKLQALWLKAHYVEAEKLRGRPLGAVGKYRVRRKFPLPRTIWDGEETSYC 160
E+ Q S N KL+ L +VE + + RT
Sbjct: 54 EALQLSLKNMSKLRPL--LEKWVEEADNNENLQEISKSETLVQARKRKRT---------S 102
Query: 161 FKEKSRSVLRDWYTHNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDR 210
+ + R L + +P PS ++ +A GL V WF NRRQ+ +
Sbjct: 103 IENRVRWSLETMFLKSPKPSLQQITHIANQLGLEKDVVRVWFSNRRQKGK 152
>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 = 48.0 bits (115), Expect = 4e-08
Identities = 14/41 (34%), Positives = 22/41 (53%)
Query: 168 VLRDWYTHNPYPSPREKRELAEATGLTTTQVSNWFKNRRQR 208
L + + + +EK E+A+ G+T QV WF N+R R
Sbjct: 19 FLEEVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMR 59
>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 = 48.3 bits (114), Expect = 6e-08
Identities = 14/65 (21%), Positives = 26/65 (40%)
Query: 146 PLPRTIWDGEETSYCFKEKSRSVLRDWYTHNPYPSPREKRELAEATGLTTTQVSNWFKNR 205
P + +L+ + +PSP E +LA+ +GL T + +WF +
Sbjct: 17 QGPAPKSGSTGKICKKTPEQLHMLKSAFVRTQWPSPEEYDKLAKESGLARTDIVSWFGDT 76
Query: 206 RQRDR 210
R +
Sbjct: 77 RYAWK 81
>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 = 50.8 bits (121), Expect = 1e-07
Identities = 36/203 (17%), Positives = 61/203 (30%), Gaps = 63/203 (31%)
Query: 11 ILGSANITSSPNTSTSTASISPIL----------PSFGFTQEQVACVCEVLQQSGNIERL 60
L ++ T++ I+ L P+ GF + + + E +
Sbjct: 10 TLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADD--------EPTTPAELV 61
Query: 61 GRFLW---SLPACEKLHKNESVLKAKAMVAFHRGNF---KDLYRILESH----QFSPHNH 110
G+FL SL K+ + + VL + F + D+ H + N
Sbjct: 62 GKFLGYVSSLVEPSKVGQFDQVLNL-CLTEFEN-CYLEGNDI------HALAAKLLQEND 113
Query: 111 PKL--QALWLKAHYVEAEKLRGRPLGAVGKYRVRRKFPLPRTIWDGEETSY--------- 159
L +K Y+ A + RP + L R + +G
Sbjct: 114 TTLVKTKELIKN-YITARIMAKRPFDK------KSNSALFRAVGEGNAQLVAIFGGQGNT 166
Query: 160 --CFKEKSRSVLRDWYTHNPYPS 180
F+E LRD Y Y
Sbjct: 167 DDYFEE-----LRDLYQT--YHV 182
Score = 27.7 bits (61), Expect = 3.8
Identities = 13/94 (13%), Positives = 30/94 (31%), Gaps = 31/94 (32%)
Query: 28 ASISPILPSFGFTQEQVACVCEVL-----------------QQ---SGN---IERLGRFL 64
+I+P + F+QE + V E + QQ +G+ ++ + L
Sbjct: 1810 IAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVL 1869
Query: 65 WSLPACEKLHKNESVLKAKAMVAFHRGNFKD-LY 97
K + + + + + L+
Sbjct: 1870 -------NFIKLQKIDIIELQKSLSLEEVEGHLF 1896
Score = 26.6 bits (58), Expect = 9.3
Identities = 7/53 (13%), Positives = 18/53 (33%), Gaps = 7/53 (13%)
Query: 142 RRKFPLPRTIWDGEETSYCFKEKSRSVLRDWYTHNP-----YPSPREKRELAE 189
+ + +W+ FK+ + D +NP + + + + E
Sbjct: 1636 YKTSKAAQDVWN--RADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRE 1686
>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 = 46.3 bits (110), Expect = 2e-07
Identities = 9/44 (20%), Positives = 22/44 (50%)
Query: 174 THNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDRAAEQKDG 217
+ YP + + L++ + ++ WF++RR +D+ + G
Sbjct: 29 SVTKYPDEKRLKGLSKQLDWSVRKIQCWFRHRRNQDKPSGPSSG 72
>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 = 46.6 bits (110), Expect = 3e-07
Identities = 15/65 (23%), Positives = 31/65 (47%), Gaps = 15/65 (23%)
Query: 161 FKEKSRSVLRDWYTHNPYPSPREKRELAEATG---------------LTTTQVSNWFKNR 205
++++ +V+ ++ N YP ++ E+A A +T+ +V NWF NR
Sbjct: 14 WRKECLAVMESYFNENQYPDEAKREEIANACNAVIQKPGKKLSDLERVTSLKVYNWFANR 73
Query: 206 RQRDR 210
R+ +
Sbjct: 74 RKEIK 78
>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 = 45.0 bits (107), Expect = 4e-07
Identities = 19/55 (34%), Positives = 26/55 (47%)
Query: 161 FKEKSRSVLRDWYTHNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDRAAEQK 215
EK LR Y NP P K +L E TGL+ + WF+N+R +D+
Sbjct: 10 LNEKQLHTLRTCYAANPRPDALMKEQLVEMTGLSPRVIRVWFQNKRCKDKKRSIM 64
>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 = 44.8 bits (106), Expect = 5e-07
Identities = 8/52 (15%), Positives = 19/52 (36%), Gaps = 1/52 (1%)
Query: 160 CFKEKSRSVLRDWYTH-NPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDR 210
++ +L+ + YP L+ L + +F+N+R +
Sbjct: 13 KISLEALGILQSFIHDVGLYPDQEAIHTLSAQLDLPKHTIIKFFQNQRYHVK 64
>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 = 43.9 bits (104), Expect = 1e-06
Identities = 18/57 (31%), Positives = 28/57 (49%)
Query: 161 FKEKSRSVLRDWYTHNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDRAAEQKDG 217
F + VL+D++ N YP E +L+ L T + WF+N RQ+ R + G
Sbjct: 14 FTDYQLRVLQDFFDANAYPKDDEFEQLSNLLNLPTRVIVVWFQNARQKARKSGPSSG 70
>2e19_A Transcription factor 8; homeobox domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 64
Score = 41.6 bits (97), Expect = 9e-06
Identities = 12/51 (23%), Positives = 24/51 (47%)
Query: 163 EKSRSVLRDWYTHNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDRAAE 213
+ S+L+ +Y N PS E ++A++ L V WF+ + + +
Sbjct: 12 KNLLSLLKAYYALNAQPSAEELSKIADSVNLPLDVVKKWFEKMQAGQISVQ 62
>3a03_A T-cell leukemia homeobox protein 2; homeodomain, developmental
protein, DNA-binding, N gene regulation; 1.54A {Homo
sapiens}
Length = 56
Score = 40.8 bits (96), Expect = 1e-05
Identities = 13/32 (40%), Positives = 18/32 (56%)
Query: 175 HNPYPSPREKRELAEATGLTTTQVSNWFKNRR 206
Y + E+ LA+A +T QV WF+NRR
Sbjct: 18 RQKYLASAERAALAKALRMTDAQVKTWFQNRR 49
>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 = 40.6 bits (95), Expect = 2e-05
Identities = 7/44 (15%), Positives = 17/44 (38%)
Query: 174 THNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDRAAEQKDG 217
+P + L++ + WF+ RR +++ + G
Sbjct: 21 AITKHPDEKRLEGLSKQLDWDVRSIQRWFRQRRNQEKPSGPSSG 64
>3a01_A Homeodomain-containing protein; homeodomain, protein-DNA complex,
DNA-binding, homeobox, NUC developmental protein; 2.70A
{Drosophila melanogaster}
Length = 93
Score = 41.4 bits (97), Expect = 2e-05
Identities = 15/44 (34%), Positives = 22/44 (50%), Gaps = 3/44 (6%)
Query: 175 HNPYPSPREKRELAEATGLTTTQVSNWFKNRR---QRDRAAEQK 215
Y + E+ LA +T QV WF+NRR +R A E++
Sbjct: 38 KQKYLASAERAALARGLKMTDAQVKTWFQNRRTKWRRQTAEERE 81
>2vi6_A Homeobox protein nanog; homeodomain, DNA-binding, transcription,
transcription facto developmental protein, transcription
regulation, NUC homeobox; 2.6A {Mus musculus}
Length = 62
Score = 40.0 bits (94), Expect = 3e-05
Identities = 13/38 (34%), Positives = 22/38 (57%)
Query: 169 LRDWYTHNPYPSPREKRELAEATGLTTTQVSNWFKNRR 206
L+D + Y S ++ +EL+ L+ QV WF+N+R
Sbjct: 18 LKDRFQKQKYLSLQQMQELSSILNLSYKQVKTWFQNQR 55
>2hi3_A Homeodomain-only protein; transcription; NMR {Mus musculus} SCOP:
a.4.1.1
Length = 73
Score = 40.5 bits (95), Expect = 3e-05
Identities = 17/49 (34%), Positives = 20/49 (40%), Gaps = 1/49 (2%)
Query: 176 NPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDRAAEQKDGSVTRSVH 224
N +P P +A GLT Q WFK R R + S RSV
Sbjct: 25 NKHPDPTTLCLIAAEAGLTEEQTQKWFKQRLAEWR-RSEGLPSECRSVT 72
>3rkq_A Homeobox protein NKX-2.5; helix-turn-helix, DNA binding, nucleus,
transcription-DNA CO; 1.70A {Homo sapiens}
Length = 58
Score = 39.9 bits (94), Expect = 3e-05
Identities = 15/32 (46%), Positives = 19/32 (59%)
Query: 175 HNPYPSPREKRELAEATGLTTTQVSNWFKNRR 206
Y S E+ +LA LT+TQV WF+NRR
Sbjct: 23 QQRYLSAPERDQLASVLKLTSTQVKIWFQNRR 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 = 40.0 bits (94), Expect = 3e-05
Identities = 18/46 (39%), Positives = 23/46 (50%), Gaps = 6/46 (13%)
Query: 175 HNPYPSPREKRELAEATGLTTTQVSNWFKNRR------QRDRAAEQ 214
Y S E+ LA LT TQV WF+N R +D+AA+Q
Sbjct: 23 QQKYLSAPEREHLASMIHLTPTQVKIWFQNHRYKMKRQAKDKAAQQ 68
>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 = 39.7 bits (93), Expect = 5e-05
Identities = 16/47 (34%), Positives = 22/47 (46%), Gaps = 3/47 (6%)
Query: 175 HNPYPSPREKRELAEATGLTTTQVSNWFKNRR---QRDRAAEQKDGS 218
Y S E+ LA LT TQV WF+N R +R + + +G
Sbjct: 30 QQRYLSAPEREHLASLIRLTPTQVKIWFQNHRYKTKRAQNEKGYEGH 76
>1ig7_A Homeotic protein MSX-1; helix-turn-helix, transcription/DNA
complex; 2.20A {Mus musculus} SCOP: a.4.1.1
Length = 58
Score = 39.2 bits (92), Expect = 6e-05
Identities = 14/32 (43%), Positives = 18/32 (56%)
Query: 175 HNPYPSPREKRELAEATGLTTTQVSNWFKNRR 206
Y S E+ E + + LT TQV WF+NRR
Sbjct: 21 QKQYLSIAERAEFSSSLSLTETQVKIWFQNRR 52
>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 = 41.4 bits (96), Expect = 6e-05
Identities = 16/71 (22%), Positives = 24/71 (33%), Gaps = 21/71 (29%)
Query: 161 FKEKSRSVLRDWYTHNPYPSPREKRELAEA---------------------TGLTTTQVS 199
+ S+ +L Y PS E+ L E +T +V
Sbjct: 122 WGPASQQILFQAYERQKNPSKEERETLVEECNRAECIQRGVSPSQAQGLGSNLVTEVRVY 181
Query: 200 NWFKNRRQRDR 210
NWF NRR+ +
Sbjct: 182 NWFANRRKEEA 192
>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 = 38.9 bits (91), Expect = 8e-05
Identities = 16/43 (37%), Positives = 23/43 (53%)
Query: 175 HNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDRAAEQKDG 217
Y SP E++ LA+ L+ QV WF+NRR + R + G
Sbjct: 28 TQKYLSPPERKRLAKMLQLSERQVKTWFQNRRAKWRRSGPSSG 70
>2kt0_A Nanog, homeobox protein nanog; homeodomain, structural genomics,
protein structure initiative, PSI, center for eukaryotic
structural genomics; NMR {Homo sapiens}
Length = 84
Score = 39.0 bits (91), Expect = 1e-04
Identities = 13/38 (34%), Positives = 21/38 (55%)
Query: 169 LRDWYTHNPYPSPREKRELAEATGLTTTQVSNWFKNRR 206
L D + Y S ++ +EL+ L+ QV WF+N+R
Sbjct: 37 LNDRFQRQKYLSLQQMQELSNILNLSYKQVKTWFQNQR 74
>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 = 38.6 bits (90), Expect = 1e-04
Identities = 17/65 (26%), Positives = 31/65 (47%)
Query: 161 FKEKSRSVLRDWYTHNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDRAAEQKDGSVT 220
FK ++ ++ N P ++ ++LA+ TGLT + WF+N R + R + +
Sbjct: 14 FKHHQLRTMKSYFAINHNPDAKDLKQLAQKTGLTKRVLQVWFQNARAKFRRNLLRQENGG 73
Query: 221 RSVHS 225
S S
Sbjct: 74 VSGPS 78
>2l9r_A Homeobox protein NKX-3.1; structural genomics, northeast structural
genomics consortiu PSI-biology, protein structure
initiative; NMR {Homo sapiens}
Length = 69
Score = 38.1 bits (89), Expect = 2e-04
Identities = 16/32 (50%), Positives = 19/32 (59%)
Query: 175 HNPYPSPREKRELAEATGLTTTQVSNWFKNRR 206
H Y S E+ LA+ LT TQV WF+NRR
Sbjct: 25 HQKYLSAPERAHLAKNLKLTETQVKIWFQNRR 56
>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 = 38.2 bits (89), Expect = 2e-04
Identities = 13/32 (40%), Positives = 20/32 (62%)
Query: 175 HNPYPSPREKRELAEATGLTTTQVSNWFKNRR 206
Y S ++ +LAE+ GL+ QV W++NRR
Sbjct: 38 KQKYLSTPDRIDLAESLGLSQLQVKTWYQNRR 69
>2djn_A Homeobox protein DLX-5; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 70
Score = 37.8 bits (88), Expect = 2e-04
Identities = 15/32 (46%), Positives = 20/32 (62%)
Query: 175 HNPYPSPREKRELAEATGLTTTQVSNWFKNRR 206
Y + E+ ELA + GLT TQV WF+N+R
Sbjct: 28 KTQYLALPERAELAASLGLTQTQVKIWFQNKR 59
>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 = 37.5 bits (86), Expect = 3e-04
Identities = 15/52 (28%), Positives = 25/52 (48%)
Query: 167 SVLRDWYTHNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDRAAEQKDGS 218
SVL+ +Y N P+ E +++ A GL V WF+ R+ + + S
Sbjct: 18 SVLKAYYAMNMEPNSDELLKISIAVGLPQEFVKEWFEQRKVYQYSNSRSGPS 69
>1lfb_A Liver transcription factor (LFB1); transcription regulation; 2.80A
{Rattus norvegicus} SCOP: a.4.1.1 PDB: 2lfb_A
Length = 99
Score = 38.3 bits (88), Expect = 3e-04
Identities = 16/71 (22%), Positives = 24/71 (33%), Gaps = 21/71 (29%)
Query: 161 FKEKSRSVLRDWYTHNPYPSPREKRELAEA---------------------TGLTTTQVS 199
+ S+ +L Y PS E+ L E +T +V
Sbjct: 16 WGPASQQILFQAYERQKNPSKEERETLVEECNRAECIQRGVSPSQAQGLGSNLVTEVRVY 75
Query: 200 NWFKNRRQRDR 210
NWF NRR+ +
Sbjct: 76 NWFANRRKEEA 86
>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 = 39.8 bits (92), Expect = 5e-04
Identities = 27/154 (17%), Positives = 52/154 (33%), Gaps = 53/154 (34%)
Query: 39 FTQEQVACVCEVLQQSGNIERLGRFLWSLPACEKLHKNESVLKAKAMVAFHRGNFK---- 94
++E++ ++ + R W+L L K E +++ K + R N+K
Sbjct: 46 LSKEEID---HIIMSKDAVSGTLRLFWTL-----LSKQEEMVQ-KFVEEVLRINYKFLMS 96
Query: 95 -------------DLY-----RILESHQ-FSPHNHPKLQALW-LKAHYVEAEKLRGRP-- 132
+Y R+ +Q F+ +N +LQ L+ +LR
Sbjct: 97 PIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQA---LLELRPAKNV 153
Query: 133 ----LGAVGK----------YRVRRKFPLPRTIW 152
+ GK Y+V+ K + W
Sbjct: 154 LIDGVLGSGKTWVALDVCLSYKVQCKMDF-KIFW 186
Score = 37.1 bits (85), Expect = 0.004
Identities = 34/243 (13%), Positives = 64/243 (26%), Gaps = 82/243 (33%)
Query: 29 SISPILPSFGFTQEQVACVCEVLQQSGNIERLGRFLWSLPACEKLHK-NESVLKAKAMVA 87
+ +P ++ + E ++ + W C+KL ES L
Sbjct: 324 TTNPRR---------LSIIAESIRD--GLATWDN--WKHVNCDKLTTIIESSLNV----- 365
Query: 88 FHRGNFKDLYRILESHQFSPHNH-PK--LQALWLKAHYVEAE----KLRGRPLGA----- 135
++ ++ L F P H P L +W + KL L
Sbjct: 366 LEPAEYRKMFDRLSV--FPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKE 423
Query: 136 --------------------------VGKYRVRRKFP---LPRTIWDGEETSYCFKEKSR 166
V Y + + F L D Y
Sbjct: 424 STISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQ----Y------- 472
Query: 167 SVLRDWYTHNPYPSPREKRELAEATGLTTTQVSN--WFKNRRQRDRAAEQKDGSVTRSVH 224
+Y+H + + E E L + + + + + D A GS+ ++
Sbjct: 473 -----FYSHIGHHL--KNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQ 525
Query: 225 SFR 227
+
Sbjct: 526 QLK 528
>2h8r_A Hepatocyte nuclear factor 1-beta; trasncription factor, POU, homeo,
protein-DNA, human disease; 3.20A {Homo sapiens}
Length = 221
Score = 38.8 bits (89), Expect = 7e-04
Identities = 16/71 (22%), Positives = 24/71 (33%), Gaps = 21/71 (29%)
Query: 161 FKEKSRSVLRDWYTHNPYPSPREKRELAEA---------------------TGLTTTQVS 199
+ S+ +L Y PS E+ L E +T +V
Sbjct: 149 WGPASQQILYQAYDRQKNPSKEEREALVEECNRAECLQRGVSPSKAHGLGSNLVTEVRVY 208
Query: 200 NWFKNRRQRDR 210
NWF NRR+ +
Sbjct: 209 NWFANRRKEEA 219
>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 = 35.9 bits (83), Expect = 9e-04
Identities = 12/32 (37%), Positives = 15/32 (46%)
Query: 175 HNPYPSPREKRELAEATGLTTTQVSNWFKNRR 206
Y + +L+ L T QV WFKNRR
Sbjct: 23 QGRYLTAPRLADLSAKLALGTAQVKIWFKNRR 54
>2l7z_A Homeobox protein HOX-A13; gene regulation; NMR {Homo sapiens} PDB:
2ld5_A*
Length = 73
Score = 35.6 bits (82), Expect = 0.001
Identities = 13/48 (27%), Positives = 27/48 (56%)
Query: 173 YTHNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDRAAEQKDGSVT 220
Y N + + ++R ++ T L+ QV+ WF+NRR +++ K + +
Sbjct: 26 YATNKFITKDKRRRISATTNLSERQVTIWFQNRRVKEKKVINKLKTTS 73
>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 = 35.8 bits (83), Expect = 0.001
Identities = 17/49 (34%), Positives = 20/49 (40%), Gaps = 1/49 (2%)
Query: 176 NPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDRAAEQKDGSVTRSVH 224
N +P P +A GLT Q WFK R R + S RSV
Sbjct: 24 NKHPDPTTLCLIAAEAGLTEEQTQKWFKQRLAEWR-RSEGLPSECRSVT 71
>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 = 35.9 bits (83), Expect = 0.001
Identities = 18/52 (34%), Positives = 26/52 (50%), Gaps = 2/52 (3%)
Query: 174 THNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDRAAEQKDGSVTRSVHS 225
T P RE E+A L ++V WFKNRR + R +Q+ + +S S
Sbjct: 29 TRYPDIFMRE--EVALKINLPESRVQVWFKNRRAKCRQQQQQQQNGGQSGPS 78
>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 = 0.003
Identities = 16/70 (22%), Positives = 24/70 (34%), Gaps = 21/70 (30%)
Query: 161 FKEKSRSVLRDWYTHNPYPSPREKRELAEA---------------------TGLTTTQVS 199
+ S+ +L Y PS E+ L E +T +V
Sbjct: 13 WGPASQQILYQAYDRQKNPSKEEREALVEECNRAECLQRGVSPSKAHGLGSNLVTEVRVY 72
Query: 200 NWFKNRRQRD 209
NWF NRR+ +
Sbjct: 73 NWFANRRKEE 82
>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 = 33.9 bits (78), Expect = 0.003
Identities = 12/38 (31%), Positives = 19/38 (50%)
Query: 173 YTHNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDR 210
+ Y S + ELA L + + WF+NRR +D+
Sbjct: 20 FYKENYVSRPRRCELAAQLNLPESTIKVWFQNRRMKDK 57
>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 = 34.0 bits (78), Expect = 0.004
Identities = 12/42 (28%), Positives = 27/42 (64%)
Query: 176 NPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDRAAEQKDG 217
N + + ++R+++ AT L+ Q++ WF+NRR +++ + G
Sbjct: 29 NKFITKDKRRKISAATSLSERQITIWFQNRRVKEKKSGPSSG 70
>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 = 33.8 bits (78), Expect = 0.004
Identities = 12/34 (35%), Positives = 20/34 (58%)
Query: 173 YTHNPYPSPREKRELAEATGLTTTQVSNWFKNRR 206
+ N Y + R +++L+ GL Q+ WFKN+R
Sbjct: 22 FNENRYLTERRRQQLSSELGLNEAQIKIWFKNKR 55
>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 = 36.7 bits (85), Expect = 0.004
Identities = 15/49 (30%), Positives = 26/49 (53%)
Query: 162 KEKSRSVLRDWYTHNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDR 210
++R+ L + + +EK E+A+ G+T QV WF N+R R +
Sbjct: 373 SPQARAFLEQVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMRSK 421
>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 = 34.5 bits (79), Expect = 0.005
Identities = 16/42 (38%), Positives = 23/42 (54%)
Query: 176 NPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDRAAEQKDG 217
N Y S + E+A L TQV WF+NRR + + E++ G
Sbjct: 56 NKYLSRARRVEIAATLELNETQVKIWFQNRRMKQKKREREGG 97
>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 = 33.5 bits (77), Expect = 0.006
Identities = 16/44 (36%), Positives = 20/44 (45%), Gaps = 2/44 (4%)
Query: 174 THNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDRAAEQKDG 217
T P RE +LA L +V WFKNRR + R + G
Sbjct: 29 TKYPDVGTRE--QLARKVHLREEKVEVWFKNRRAKWRRSGPSSG 70
>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 = 34.9 bits (79), Expect = 0.008
Identities = 14/56 (25%), Positives = 20/56 (35%), Gaps = 28/56 (50%)
Query: 71 EK--LHKNESVLKAKAMVAFHRGNFKDLYRILESHQFSPHNHPKLQALWLKAHYVE 124
EK L K ++ LK LY + + P AL +KA +E
Sbjct: 18 EKQALKKLQASLK--------------LY--------ADDSAP---ALAIKAT-ME 47
>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 = 33.1 bits (76), Expect = 0.009
Identities = 18/41 (43%), Positives = 22/41 (53%), Gaps = 2/41 (4%)
Query: 174 THNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDRAAEQ 214
P S RE E+A T LT +V WFKNRR + R E+
Sbjct: 25 NRYPDMSTRE--EIAVWTNLTEARVRVWFKNRRAKWRKREE 63
>2h1k_A IPF-1, pancreatic and duodenal homeobox 1, homeodomain; protein-DNA
complex, transcription/DNA complex; 2.42A {Mesocricetus
auratus}
Length = 63
Score = 32.7 bits (75), Expect = 0.009
Identities = 13/32 (40%), Positives = 16/32 (50%)
Query: 175 HNPYPSPREKRELAEATGLTTTQVSNWFKNRR 206
N Y S + ELA LT + WF+NRR
Sbjct: 24 FNKYISRPRRVELAVMLNLTERHIKIWFQNRR 55
>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 = 32.7 bits (75), Expect = 0.011
Identities = 10/41 (24%), Positives = 19/41 (46%), Gaps = 2/41 (4%)
Query: 174 THNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDRAAEQ 214
P E +LA+ L ++ WF+NRR + + + +
Sbjct: 23 NCYPGIDILE--DLAQKLNLELDRIQIWFQNRRAKLKRSHR 61
>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 = 32.8 bits (75), Expect = 0.011
Identities = 15/43 (34%), Positives = 23/43 (53%)
Query: 176 NPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDRAAEQKDGS 218
N Y + R + E+A A LT Q+ WF+NRR + + + G
Sbjct: 24 NRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWKKENKTKGE 66
>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 = 32.6 bits (75), Expect = 0.011
Identities = 18/41 (43%), Positives = 23/41 (56%), Gaps = 2/41 (4%)
Query: 174 THNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDRAAEQ 214
TH P RE ELA GLT ++ WF+NRR + R E+
Sbjct: 21 THYPDVFTRE--ELAMKIGLTEARIQVWFQNRRAKWRKQEK 59
>2r5y_A Homeotic protein sex combs reduced; homeodomain; HET: DNA; 2.60A
{Drosophila melanogaster} PDB: 2r5z_A*
Length = 88
Score = 33.3 bits (76), Expect = 0.011
Identities = 14/31 (45%), Positives = 19/31 (61%)
Query: 176 NPYPSPREKRELAEATGLTTTQVSNWFKNRR 206
N Y + R + E+A A LT Q+ WF+NRR
Sbjct: 50 NRYLTRRRRIEIAHALSLTERQIKIWFQNRR 80
>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 = 32.9 bits (75), Expect = 0.015
Identities = 14/31 (45%), Positives = 19/31 (61%)
Query: 176 NPYPSPREKRELAEATGLTTTQVSNWFKNRR 206
N Y + R + E+A A LT Q+ WF+NRR
Sbjct: 42 NHYLTRRRRIEMAHALSLTERQIKIWFQNRR 72
>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 = 32.7 bits (75), Expect = 0.017
Identities = 17/41 (41%), Positives = 21/41 (51%), Gaps = 2/41 (4%)
Query: 174 THNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDRAAEQ 214
T P RE ELA+ T LT ++ WF+NRR R R
Sbjct: 40 TQYPDIYTRE--ELAQRTNLTEARIQVWFQNRRARLRKQHT 78
>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 = 32.5 bits (74), Expect = 0.017
Identities = 13/42 (30%), Positives = 20/42 (47%)
Query: 176 NPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDRAAEQKDG 217
N Y + + E+A LT QV WF+NRR + + +
Sbjct: 35 NMYLTRDRRYEVARLLNLTERQVKIWFQNRRMKMKKINKDRA 76
>2cue_A Paired box protein PAX6; homeobox domain, transcription factor,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
a.4.1.1
Length = 80
Score = 32.4 bits (74), Expect = 0.020
Identities = 17/52 (32%), Positives = 22/52 (42%), Gaps = 2/52 (3%)
Query: 174 THNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDRAAEQKDGSVTRSVHS 225
TH P RE LA L ++ WF NRR + R E+ +S S
Sbjct: 29 THYPDVFARE--RLAAKIDLPEARIQVWFSNRRAKWRREEKLRNQRRQSGPS 78
>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 = 31.9 bits (71), Expect = 0.033
Identities = 10/54 (18%), Positives = 21/54 (38%), Gaps = 4/54 (7%)
Query: 161 FKEKSRSVLRDWY----THNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDR 210
F ++ + L+ ++ T + +A + V W NRR++ R
Sbjct: 15 FSDRDLATLKKYWDNGMTSLGSVCREKIEAVATELNVDCEIVRTWIGNRRRKYR 68
>3bdn_A Lambda repressor; repressor, allostery; HET: DNA; 3.91A
{Enterobacteria phage lambda}
Length = 236
Score = 33.0 bits (75), Expect = 0.060
Identities = 4/31 (12%), Positives = 9/31 (29%)
Query: 185 RELAEATGLTTTQVSNWFKNRRQRDRAAEQK 215
+A+ G+ + V F +
Sbjct: 34 ESVADKMGMGQSGVGALFNGINALNAYNAAL 64
>3bs3_A Putative DNA-binding protein; XRE-family, structural genomics,
PSI-2, protein structure initiative; HET: MSE; 1.65A
{Bacteroides fragilis}
Length = 76
Score = 29.5 bits (67), Expect = 0.18
Identities = 9/23 (39%), Positives = 12/23 (52%)
Query: 185 RELAEATGLTTTQVSNWFKNRRQ 207
R LAE G + +S W N+ Q
Sbjct: 27 RWLAEQMGKSENTISRWCSNKSQ 49
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 30.9 bits (69), Expect = 0.21
Identities = 19/99 (19%), Positives = 34/99 (34%), Gaps = 31/99 (31%)
Query: 124 EAEKLRGRPLGAVGKYRVRRKFPLPRTIWDGEETSYC--FKEKSRSVLRDWYTHNPYPSP 181
E E +R K+R ++ L D ++EK++ L +W
Sbjct: 83 EPESIR--------KWREEQRKRLQEL--DAASKVMEQEWREKAKKDLEEWN-------- 124
Query: 182 REKRELAEATGLTTTQVSNWFKNRRQRDRA-AEQKDGSV 219
+++ QV N R D+A +Q D +
Sbjct: 125 -QRQS---------EQVEKNKINNRIADKAFYQQPDADI 153
>3omt_A Uncharacterized protein; structural genomics, PSI-2, protein
structure initiative, MI center for structural genomics,
MCSG; 1.65A {Cytophaga hutchinsonii}
Length = 73
Score = 28.4 bits (64), Expect = 0.42
Identities = 8/23 (34%), Positives = 8/23 (34%)
Query: 185 RELAEATGLTTTQVSNWFKNRRQ 207
L E T VS W N Q
Sbjct: 25 LWLTETLDKNKTTVSKWCTNDVQ 47
>2kpj_A SOS-response transcriptional repressor, LEXA; NESG, GFT, structural
genomics, PSI-2, protein structure initiative; NMR
{Eubacterium rectale atcc 33656}
Length = 94
Score = 28.2 bits (63), Expect = 0.75
Identities = 6/31 (19%), Positives = 12/31 (38%), Gaps = 5/31 (16%)
Query: 182 REKR-----ELAEATGLTTTQVSNWFKNRRQ 207
K E+A++ G++ + W K
Sbjct: 18 IAKSEKTQLEIAKSIGVSPQTFNTWCKGIAI 48
>2l49_A C protein; P2 bacteriophage, P2 C, direct repeats, DNA-binding
protein, binding protein; NMR {Enterobacteria phage P2}
PDB: 2xcj_A
Length = 99
Score = 28.4 bits (63), Expect = 0.76
Identities = 6/31 (19%), Positives = 12/31 (38%)
Query: 185 RELAEATGLTTTQVSNWFKNRRQRDRAAEQK 215
++LA+ TG+ +S + R
Sbjct: 21 QQLADLTGVPYGTLSYYESGRSTPPTDVMMN 51
>2ygw_A Malonyl-COA decarboxylase, mitochondrial; lyase; 2.80A {Homo
sapiens}
Length = 460
Score = 29.4 bits (65), Expect = 1.2
Identities = 13/59 (22%), Positives = 19/59 (32%)
Query: 96 LYRILESHQFSPHNHPKLQALWLKAHYVEAEKLRGRPLGAVGKYRVRRKFPLPRTIWDG 154
L + + L A Y+ EK RG L V + ++ L R W
Sbjct: 349 LSSSEWVQSEKLVRALQTPLMRLCAWYLYGEKHRGYALNPVANFHLQNGAVLWRINWMA 407
>1r69_A Repressor protein CI; gene regulating protein; 2.00A {Phage 434}
SCOP: a.35.1.2 PDB: 1pra_A 1per_L 1rpe_L* 2or1_L* 1r63_A
2r63_A 1sq8_A
Length = 69
Score = 26.4 bits (59), Expect = 2.0
Identities = 7/26 (26%), Positives = 11/26 (42%)
Query: 185 RELAEATGLTTTQVSNWFKNRRQRDR 210
ELA+ G T + + +R R
Sbjct: 18 AELAQKVGTTQQSIEQLENGKTKRPR 43
>3bd1_A CRO protein; transcription factor, helix-turn-helix, prophage,
structural evolution, transcription; 1.40A {Xylella
fastidiosa}
Length = 79
Score = 26.4 bits (58), Expect = 2.3
Identities = 9/41 (21%), Positives = 16/41 (39%), Gaps = 4/41 (9%)
Query: 185 RELAEATGLTTTQVSNWFKNRR----QRDRAAEQKDGSVTR 221
LA + G+ + +SNW R + +G+V
Sbjct: 15 SALAASLGVRQSAISNWRARGRVPAERCIDIERVTNGAVIC 55
>1zug_A Phage 434 CRO protein; gene regulating protein, transcription
regulation; NMR {Phage 434} SCOP: a.35.1.2 PDB: 2cro_A
3cro_L*
Length = 71
Score = 26.1 bits (58), Expect = 2.5
Identities = 6/25 (24%), Positives = 9/25 (36%)
Query: 186 ELAEATGLTTTQVSNWFKNRRQRDR 210
ELA G+ + +R R
Sbjct: 21 ELATKAGVKQQSIQLIEAGVTKRPR 45
>3op9_A PLI0006 protein; structural genomics, PSI-2, protein structure
initiative, MI center for structural genomics, MCSG,
transcription regulat; HET: MSE; 1.90A {Listeria
innocua}
Length = 114
Score = 27.0 bits (60), Expect = 2.7
Identities = 4/31 (12%), Positives = 13/31 (41%), Gaps = 5/31 (16%)
Query: 182 REKR-----ELAEATGLTTTQVSNWFKNRRQ 207
+++ ++AE + T V+ + +
Sbjct: 18 KKEHGLKNHQIAELLNVQTRTVAYYMSGETK 48
>1lqa_A TAS protein; TIM barrel, structure 2 function project, S2F,
structural GE oxidoreductase; HET: NDP; 1.60A
{Escherichia coli} SCOP: c.1.7.1
Length = 346
Score = 27.5 bits (62), Expect = 4.3
Identities = 12/33 (36%), Positives = 14/33 (42%), Gaps = 4/33 (12%)
Query: 178 YPSPREKRELAEATGLTTTQVSNWFKNRRQRDR 210
YP P E GLT T V NW R++
Sbjct: 53 YPVPPR----PETQGLTETYVGNWLAKHGSREK 81
>2p5t_A Putative transcriptional regulator PEZA; postsegregational killing
system, phosphoryltransferase, HEL helix motif,
transcription regulator; 3.20A {Streptococcus
pneumoniae}
Length = 158
Score = 26.8 bits (59), Expect = 5.0
Identities = 5/31 (16%), Positives = 10/31 (32%), Gaps = 5/31 (16%)
Query: 182 REKR-----ELAEATGLTTTQVSNWFKNRRQ 207
R+ E A G++ +S +
Sbjct: 10 RKTHDLTQLEFARIVGISRNSLSRYENGTSS 40
>2ehb_A Calcineurin B-like protein 4; protein complex, Ca(II) IONS bound to
SOS3 (EF-hands 1 and 4 FISL motif; 2.10A {Arabidopsis
thaliana} PDB: 1v1g_A 1v1f_A
Length = 207
Score = 26.7 bits (59), Expect = 5.4
Identities = 8/43 (18%), Positives = 18/43 (41%), Gaps = 1/43 (2%)
Query: 179 PSPREKRELAEATGLTTTQVSNWFKNRRQRDRAAEQKDGSVTR 221
P + LA T T +V ++ ++ ++ DG + +
Sbjct: 17 PGYEDPELLASVTPFTVEEVEALYE-LFKKLSSSIIDDGLIHK 58
>3chm_A COP9 signalosome complex subunit 7; heat/ARM repeats, winged helix
motif, developmental protein, phosphoprotein; 1.50A
{Arabidopsis thaliana}
Length = 169
Score = 26.5 bits (58), Expect = 5.8
Identities = 11/54 (20%), Positives = 18/54 (33%), Gaps = 1/54 (1%)
Query: 64 LWSLPACEKLHKNESVLKAKAMVAFHRGNFKDLYRILESH-QFSPHNHPKLQAL 116
+ +LP +L + + F G + D SP KL+ L
Sbjct: 45 ILALPNVAQLEGTTDSVYLDLLRLFAHGTWGDYKCNATRLPHLSPDQILKLKQL 98
>2ct9_A Calcium-binding protein P22; EF-hand, metal binding protein; 2.20A
{Rattus norvegicus} PDB: 2e30_A
Length = 208
Score = 26.7 bits (59), Expect = 6.6
Identities = 8/42 (19%), Positives = 21/42 (50%), Gaps = 3/42 (7%)
Query: 180 SPREKRELAEATGLTTTQVSNWFKNRRQRDRAAEQKDGSVTR 221
E E+ + TG + +Q++ + D+ ++G+++R
Sbjct: 10 RDEELEEIKKETGFSHSQITRLYSRFTSLDK---GENGTLSR 48
>3qwu_A DNA ligase; structural genomics, PSI-2, midwest center for
structural GE MCSG; HET: DNA ADN; 2.35A {Aquifex
aeolicus}
Length = 370
Score = 26.8 bits (59), Expect = 7.9
Identities = 10/63 (15%), Positives = 17/63 (26%), Gaps = 10/63 (15%)
Query: 169 LRDWYTHNPYPSPREKRELAEATGLTTTQVSNWFKNRRQ---------RDRAAEQKDGSV 219
EK EL E L ++ F + + E ++G V
Sbjct: 159 FMKKNEQGFLS-QEEKMELIEKYNLPHVEILGRFTASEEGIKKIKEILKRFNEEGREGVV 217
Query: 220 TRS 222
+
Sbjct: 218 FKE 220
>1hlv_A CENP-B, major centromere autoantigen B; helix-turn-helix,
protein-DNA complex, riken structural
genomics/proteomics initiative, RSGI; 2.50A {Homo
sapiens} SCOP: a.4.1.7 a.4.1.7 PDB: 1bw6_A
Length = 131
Score = 25.6 bits (55), Expect = 9.8
Identities = 10/62 (16%), Positives = 24/62 (38%), Gaps = 5/62 (8%)
Query: 157 TSYCFKEKSRSVLRDWYTHNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDRAAEQKD 216
F+EK ++++ + K E+A + + +S KN+R + +
Sbjct: 6 RQLTFREK-SRIIQEVEENPDLR----KGEIARRFNIPPSTLSTILKNKRAILASERKYG 60
Query: 217 GS 218
+
Sbjct: 61 VA 62
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
0.318 0.131 0.404
Gapped
Lambda K H
0.267 0.0503 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,596,669
Number of extensions: 200932
Number of successful extensions: 671
Number of sequences better than 10.0: 1
Number of HSP's gapped: 655
Number of HSP's successfully gapped: 100
Length of query: 238
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 147
Effective length of database: 4,160,982
Effective search space: 611664354
Effective search space used: 611664354
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: 56 (25.9 bits)