RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11043
(217 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 = 65.0 bits (159), Expect = 1e-14
Identities = 15/57 (26%), Positives = 29/57 (50%), Gaps = 3/57 (5%)
Query: 150 KTHCFKERTRSLLREWYLQ---DPYPNPTKKRELAQATGLTPTQVGNWFKNRRQRDR 203
+ H F + +L W+ + +PY + L + T L+ Q+ NW NRR++++
Sbjct: 1 RGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEK 57
>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 = 65.6 bits (160), Expect = 1e-14
Identities = 15/58 (25%), Positives = 29/58 (50%), Gaps = 3/58 (5%)
Query: 149 QKTHCFKERTRSLLREWYLQD---PYPNPTKKRELAQATGLTPTQVGNWFKNRRQRDR 203
+ H F + +L W+ ++ PY + L + T L+ Q+ NW NRR++++
Sbjct: 29 YRGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEK 86
>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 = 64.4 bits (157), Expect = 4e-14
Identities = 14/61 (22%), Positives = 27/61 (44%), Gaps = 3/61 (4%)
Query: 149 QKTHCFKERTRSLLREWYLQ---DPYPNPTKKRELAQATGLTPTQVGNWFKNRRQRDRAA 205
+ H F + +L W+ + +PY + L + T L+ Q+ NW RR +++
Sbjct: 4 YRGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVAARRAKEKTI 63
Query: 206 A 206
Sbjct: 64 T 64
>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 = 64.1 bits (156), Expect = 6e-14
Identities = 23/67 (34%), Positives = 36/67 (53%), Gaps = 3/67 (4%)
Query: 154 FKERTRSLLREWY---LQDPYPNPTKKRELAQATGLTPTQVGNWFKNRRQRDRAAAAKNR 210
F ++ +L E++ L +PYP+ K ELA+ G+T +QV NWF N+R R + K +
Sbjct: 8 FNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKKNIGKFQ 67
Query: 211 LEVKTQT 217
E
Sbjct: 68 EEANIYA 74
>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 = 63.0 bits (153), Expect = 1e-13
Identities = 16/58 (27%), Positives = 26/58 (44%), Gaps = 3/58 (5%)
Query: 154 FKERTRS---LLREWYLQDPYPNPTKKRELAQATGLTPTQVGNWFKNRRQRDRAAAAK 208
+KER L + Q+P P + L T +T ++ +WF RR++ A K
Sbjct: 11 YKERAPEQLRALESSFAQNPLPLDEELDRLRSETKMTRREIDSWFSERRKKVNAEETK 68
>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 = 2e-13
Identities = 19/117 (16%), Positives = 44/117 (37%), Gaps = 6/117 (5%)
Query: 94 EHYKFTKDSHGKLQAMWLEAHYQEAEKLRGRPLGPVDKYRVRKKFPLPRTIWDGEQKTHC 153
K +++ ++ E +Q LR ++ + + P+ +
Sbjct: 50 SKLKSGRETFRRMWKWLQEPEFQRMSALRLAACKRKEQEHGKDRGNTPK------KPRLV 103
Query: 154 FKERTRSLLREWYLQDPYPNPTKKRELAQATGLTPTQVGNWFKNRRQRDRAAAAKNR 210
F + R L + ++ P+ + ++Q GL + V N+F N R+R ++
Sbjct: 104 FTDVQRRTLHAIFKENKRPSKELQITISQQLGLELSTVSNFFMNARRRSLDKWLEHH 160
>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 = 61.6 bits (150), Expect = 3e-13
Identities = 23/62 (37%), Positives = 36/62 (58%), Gaps = 3/62 (4%)
Query: 154 FKERTRSLLREWY---LQDPYPNPTKKRELAQATGLTPTQVGNWFKNRRQRDRAAAAKNR 210
F ++ +L E++ L +PYP+ K ELA+ G+T +QV NWF N+R R + K +
Sbjct: 8 FNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKKNIGKFQ 67
Query: 211 LE 212
E
Sbjct: 68 EE 69
>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 = 58.8 bits (142), Expect = 5e-12
Identities = 14/58 (24%), Positives = 28/58 (48%), Gaps = 3/58 (5%)
Query: 154 FKERTR---SLLREWYLQDPYPNPTKKRELAQATGLTPTQVGNWFKNRRQRDRAAAAK 208
FKE+T+ +L + +L+ +P + L T L+ ++ +WF RR+ +
Sbjct: 17 FKEKTQGQVKILEDSFLKSSFPTQAELDRLRVETKLSRREIDSWFSERRKLRDSMEQA 74
>3k2a_A Homeobox protein MEIS2; homeobox domain, DNA-binding,
transcription, nucleus, phosphoprotein, DNA bindi
protein; 1.95A {Homo sapiens}
Length = 67
Score = 58.1 bits (141), Expect = 5e-12
Identities = 23/51 (45%), Positives = 32/51 (62%), Gaps = 3/51 (5%)
Query: 154 FKERTRSLLREWYLQ---DPYPNPTKKRELAQATGLTPTQVGNWFKNRRQR 201
F + +++R W Q PYP+ +K++LAQ TGLT QV NWF N R+R
Sbjct: 5 FPKVATNIMRAWLFQHLTHPYPSEEQKKQLAQDTGLTILQVNNWFINARRR 55
>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 = 58.1 bits (140), Expect = 1e-11
Identities = 13/62 (20%), Positives = 25/62 (40%), Gaps = 3/62 (4%)
Query: 154 FKERTR---SLLREWYLQDPYPNPTKKRELAQATGLTPTQVGNWFKNRRQRDRAAAAKNR 210
FKE+T +L+ +L + L T LT ++ WF +++ K
Sbjct: 15 FKEKTAEQLRVLQASFLNSSVLTDEELNRLRAQTKLTRREIDAWFTEKKKSKALKEEKME 74
Query: 211 LE 212
++
Sbjct: 75 ID 76
>1du6_A PBX1, homeobox protein PBX1; homeodomain, gene regulation; NMR {Mus
musculus} SCOP: a.4.1.1
Length = 64
Score = 56.9 bits (138), Expect = 2e-11
Identities = 20/51 (39%), Positives = 31/51 (60%), Gaps = 3/51 (5%)
Query: 154 FKERTRSLLREWY---LQDPYPNPTKKRELAQATGLTPTQVGNWFKNRRQR 201
++ +L E++ L +PYP+ K ELA+ G+T +QV NWF N+R R
Sbjct: 10 MNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIR 60
>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 = 56.6 bits (137), Expect = 2e-11
Identities = 19/49 (38%), Positives = 28/49 (57%), Gaps = 3/49 (6%)
Query: 156 ERTRSLLREWYLQ---DPYPNPTKKRELAQATGLTPTQVGNWFKNRRQR 201
+ +++R W Q PYP +K+++A T LT QV NWF N R+R
Sbjct: 16 KHATNVMRSWLFQHIGHPYPTEDEKKQIAAQTNLTLLQVNNWFINARRR 64
>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 = 56.3 bits (136), Expect = 4e-11
Identities = 16/51 (31%), Positives = 28/51 (54%), Gaps = 3/51 (5%)
Query: 154 FKERTRSLLREWYLQ---DPYPNPTKKRELAQATGLTPTQVGNWFKNRRQR 201
+ +LR+W + YP+ +K+ L++ T L+ Q+ NWF N R+R
Sbjct: 14 LPAESVKILRDWMYKHRFKAYPSEEEKQMLSEKTNLSLLQISNWFINARRR 64
>2lk2_A Homeobox protein TGIF1; NESG, structural genomics, northeast
structural genomics CON PSI-biology, transcription; NMR
{Homo sapiens}
Length = 89
Score = 55.6 bits (134), Expect = 8e-11
Identities = 18/51 (35%), Positives = 29/51 (56%), Gaps = 3/51 (5%)
Query: 154 FKERTRSLLREWYLQ---DPYPNPTKKRELAQATGLTPTQVGNWFKNRRQR 201
+ + +LR+W + + YP+ +K L+Q T L+ QV NWF N R+R
Sbjct: 12 LPKESVQILRDWLYEHRYNAYPSEQEKALLSQQTHLSTLQVCNWFINARRR 62
>2dn0_A Zinc fingers and homeoboxes protein 3; triple homeobox 1 protein,
KIAA0395, TIX1, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 76
Score = 54.7 bits (132), Expect = 1e-10
Identities = 12/43 (27%), Positives = 23/43 (53%)
Query: 161 LLREWYLQDPYPNPTKKRELAQATGLTPTQVGNWFKNRRQRDR 203
L+ + ++ +P ++ L + TGL+ +V WF +RR R
Sbjct: 22 ALKGSFCRNQFPGQSEVEHLTKVTGLSTREVRKWFSDRRYHCR 64
>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 = 53.1 bits (127), Expect = 2e-09
Identities = 20/93 (21%), Positives = 34/93 (36%), Gaps = 12/93 (12%)
Query: 111 LEAHYQEAEKLRGRPLGPVDKYRVRKKFPLPRTIWDGEQKTHCFKERTRSLLREWYLQDP 170
L +EAE++ V ++K RT + L + +
Sbjct: 63 LSKWLEEAEQVGALYNEKVGANERKRK---RRT---------TISIAAKDALERHFGEHS 110
Query: 171 YPNPTKKRELAQATGLTPTQVGNWFKNRRQRDR 203
P+ + +A+ L V WF NRRQR++
Sbjct: 111 KPSSQEIMRMAEELNLEKEVVRVWFCNRRQREK 143
>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 = 50.9 bits (122), Expect = 3e-09
Identities = 12/42 (28%), Positives = 23/42 (54%)
Query: 162 LREWYLQDPYPNPTKKRELAQATGLTPTQVGNWFKNRRQRDR 203
L+ +LQ +P+ + L + TGL +++ WF + R R +
Sbjct: 19 LKASFLQSQFPDDAEVYRLIEVTGLARSEIKKWFSDHRYRCQ 60
>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 = 49.6 bits (118), Expect = 4e-08
Identities = 13/56 (23%), Positives = 24/56 (42%)
Query: 148 EQKTHCFKERTRSLLREWYLQDPYPNPTKKRELAQATGLTPTQVGNWFKNRRQRDR 203
++ F + L ++ ++P P + E+A+ V WF NRRQ +
Sbjct: 94 RKRRTSFTPQAIEALNAYFEKNPLPTGQEITEMAKELNYDREVVRVWFSNRRQTLK 149
>2da1_A Alpha-fetoprotein enhancer binding protein; homeobox domain, three
helices with the DNA binding helix- turn-helix motif,
structural genomics; NMR {Homo sapiens}
Length = 70
Score = 47.3 bits (113), Expect = 6e-08
Identities = 15/63 (23%), Positives = 31/63 (49%), Gaps = 9/63 (14%)
Query: 141 PRTIWDGEQKTHCFKERTRSLLREWYLQDPYPNPTKKRELAQATGLTPTQVGNWFKNRRQ 200
PRT +Q +LR+++ + P+ + +E+A +GL + +WF+N
Sbjct: 10 PRTRITDDQ---------LRVLRQYFDINNSPSEEQIKEMADKSGLPQKVIKHWFRNTLF 60
Query: 201 RDR 203
++R
Sbjct: 61 KER 63
>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 = 46.8 bits (112), Expect = 7e-08
Identities = 16/41 (39%), Positives = 23/41 (56%)
Query: 161 LLREWYLQDPYPNPTKKRELAQATGLTPTQVGNWFKNRRQR 201
L E + + N +K E+A+ G+TP QV WF N+R R
Sbjct: 19 FLEEVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMR 59
>2xsd_C POU domain, class 3, transcription factor 1; transcription-DNA
complex, SOX; 2.05A {Mus musculus}
Length = 164
Score = 49.2 bits (117), Expect = 7e-08
Identities = 14/52 (26%), Positives = 24/52 (46%)
Query: 152 HCFKERTRSLLREWYLQDPYPNPTKKRELAQATGLTPTQVGNWFKNRRQRDR 203
+ + L +L+ P P+ + LA + L V WF NRRQ+++
Sbjct: 104 TSIEVGVKGALESHFLKCPKPSAHEITGLADSLQLEKEVVRVWFCNRRQKEK 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 = 49.2 bits (117), Expect = 7e-08
Identities = 10/51 (19%), Positives = 23/51 (45%)
Query: 153 CFKERTRSLLREWYLQDPYPNPTKKRELAQATGLTPTQVGNWFKNRRQRDR 203
+ R L + ++++ P +A+ + + WF NRRQ+++
Sbjct: 107 SIETNIRVALEKSFMENQKPTSEDITLIAEQLNMEKEVIRVWFSNRRQKEK 157
>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 = 49.7 bits (118), Expect = 2e-07
Identities = 29/181 (16%), Positives = 57/181 (31%), Gaps = 48/181 (26%)
Query: 21 FALPT-LNFTVSQ--------VATVCETL----EESGDIERLARFLWSLPVAHP-NIGEL 66
+PT F SQ + E E + E + +FL V+ ++
Sbjct: 20 LLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFL-GY-VSSLVEPSKV 77
Query: 67 NKNEAVLRARAIVSFHS----GNYREMYSILEHYKFTKDSHGKLQAMWLEAHYQEAEKLR 122
+ + VL + F + GN +++++ D+ ++ + A +
Sbjct: 78 GQFDQVLNL-CLTEFENCYLEGN--DIHALAAKLLQENDTTLVKTKELIKNYIT-ARIMA 133
Query: 123 GRPLGPVDKYRVRKKFPLPRTIWDGEQKTH-----------CFKERTRSLLREWYLQDPY 171
RP + L R + +G + F+E LR+ Y Y
Sbjct: 134 KRPFDK------KSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEE-----LRDLY--QTY 180
Query: 172 P 172
Sbjct: 181 H 181
Score = 31.2 bits (70), Expect = 0.30
Identities = 17/98 (17%), Positives = 28/98 (28%), Gaps = 32/98 (32%)
Query: 16 IPCPMFAL--PTLNFTVSQVATVCETLEE-----------------SGDIERLARFLWSL 56
+P PM ++ T V L SG + L +L
Sbjct: 334 VPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTL 393
Query: 57 -PVAHPNIGELNKNEAVLRARAI--------VS--FHS 83
P+ L+++ R + V+ FHS
Sbjct: 394 RKAKAPS--GLDQSRIPFSERKLKFSNRFLPVASPFHS 429
Score = 28.5 bits (63), Expect = 2.2
Identities = 28/204 (13%), Positives = 53/204 (25%), Gaps = 88/204 (43%)
Query: 10 SRLAPVIPCPMFALPTLNFTVSQVATVCETLEESGDIER-LAR--------FLWSLPVAH 60
+ +I F+ TL+ + + + +I L +L S+P++
Sbjct: 182 VLVGDLI---KFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISC 238
Query: 61 PNIG-------------------ELNKN--------EAVLRARAI------VSFHSGNYR 87
P IG EL + ++ A AI SF + R
Sbjct: 239 PLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFV-SVR 297
Query: 88 EMYSILEHYKFTKDSHGKLQAMWLEAHYQEA------------------EK-------LR 122
+ ++L F ++ EA E +
Sbjct: 298 KAITVL----F-----------FIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSIS 342
Query: 123 GRPLGPVDKY--RVRKKFPLPRTI 144
V Y + P + +
Sbjct: 343 NLTQEQVQDYVNKTNSHLPAGKQV 366
>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 = 46.3 bits (109), Expect = 3e-07
Identities = 13/65 (20%), Positives = 28/65 (43%)
Query: 139 PLPRTIWDGEQKTHCFKERTRSLLREWYLQDPYPNPTKKRELAQATGLTPTQVGNWFKNR 198
P K +L+ +++ +P+P + +LA+ +GL T + +WF +
Sbjct: 17 QGPAPKSGSTGKICKKTPEQLHMLKSAFVRTQWPSPEEYDKLAKESGLARTDIVSWFGDT 76
Query: 199 RQRDR 203
R +
Sbjct: 77 RYAWK 81
>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 = 44.4 bits (105), Expect = 1e-06
Identities = 15/50 (30%), Positives = 20/50 (40%)
Query: 154 FKERTRSLLREWYLQDPYPNPTKKRELAQATGLTPTQVGNWFKNRRQRDR 203
+L + YL D P +A GL V WF+N R R+R
Sbjct: 24 ITPEQLEILYQKYLLDSNPTRKMLDHIAHEVGLKKRVVQVWFQNTRARER 73
>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 = 44.2 bits (104), Expect = 1e-06
Identities = 12/50 (24%), Positives = 24/50 (48%)
Query: 159 RSLLREWYLQDPYPNPTKKRELAQATGLTPTQVGNWFKNRRQRDRAAAAK 208
++L+ ++LQ + ++L Q TGL ++ WF + R + K
Sbjct: 15 LAILKSFFLQCQWARREDYQKLEQITGLPRPEIIQWFGDTRYALKHGQLK 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 = 45.1 bits (106), Expect = 2e-06
Identities = 16/51 (31%), Positives = 24/51 (47%)
Query: 153 CFKERTRSLLREWYLQDPYPNPTKKRELAQATGLTPTQVGNWFKNRRQRDR 203
+ R R L +L+ P P+ + +A GL V WF NRRQ+ +
Sbjct: 102 SIENRVRWSLETMFLKSPKPSLQQITHIANQLGLEKDVVRVWFSNRRQKGK 152
>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 = 46.8 bits (110), Expect = 2e-06
Identities = 36/220 (16%), Positives = 63/220 (28%), Gaps = 70/220 (31%)
Query: 1 MALSLGENISRLAPVIPCPMFALPTLNFTVS--QVATVCETLEESGDIERLARFLWSLPV 58
M L+ E S L + C LP T + +++ + E++ + + +
Sbjct: 296 MTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRD--GLATWDNWK----- 348
Query: 59 AHPNIGELNKNEAVLRARAIVSFHSGNYREMY---SILEHYKFTKDSH---GKLQAMWLE 112
H N +L + ++ YR+M+ S+ F +H L +W +
Sbjct: 349 -HVNCDKLTT----IIESSLNVLEPAEYRKMFDRLSV-----FPPSAHIPTILLSLIWFD 398
Query: 113 AHYQEAE----KLRGRPL---GP----------------------------VDKYRVRKK 137
+ KL L P VD Y + K
Sbjct: 399 VIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKT 458
Query: 138 FP---LPRTIWDGEQKTH-------CFKERTRSLLREWYL 167
F L D +H +L R +L
Sbjct: 459 FDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFL 498
Score = 32.9 bits (74), Expect = 0.071
Identities = 21/97 (21%), Positives = 30/97 (30%), Gaps = 17/97 (17%)
Query: 47 ERLARFLWSLP----------VAHPNIGE-LNKNEAVL---RARAIVSFHSGNYREMYSI 92
L R L S P V + N + +L R + + F S S+
Sbjct: 232 AELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISL 291
Query: 93 LEHYK-FTKDSHGKLQAMWLEAHYQE--AEKLRGRPL 126
H T D L +L+ Q+ E L P
Sbjct: 292 DHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPR 328
Score = 32.9 bits (74), Expect = 0.086
Identities = 18/141 (12%), Positives = 40/141 (28%), Gaps = 46/141 (32%)
Query: 38 ETLEESGDIERLARFLWSLPVAHPNIGELNKNEAVLRARAIVSFHSGNYREMYSILEHYK 97
+ + R W+L L+K E ++ + + NY+
Sbjct: 53 HIIMSKDAVSGTLRLFWTL---------LSKQEEMV-QKFVEEVLRINYK---------- 92
Query: 98 FTKDSHGKLQAMWLEAHYQEAEKLRGRPLGPVDKYRVRKKFPLPRT-IWDGEQ---KTHC 153
+L ++ P + + R +++ Q K +
Sbjct: 93 ------------FL------MSPIKTEQRQPSMMT---RMYIEQRDRLYNDNQVFAKYNV 131
Query: 154 FKERTRSLLREWYLQ-DPYPN 173
+ + LR+ L+ P N
Sbjct: 132 SRLQPYLKLRQALLELRPAKN 152
>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 = 42.5 bits (100), Expect = 4e-06
Identities = 8/36 (22%), Positives = 20/36 (55%)
Query: 168 QDPYPNPTKKRELAQATGLTPTQVGNWFKNRRQRDR 203
YP+ + + L++ + ++ WF++RR +D+
Sbjct: 30 VTKYPDEKRLKGLSKQLDWSVRKIQCWFRHRRNQDK 65
>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 = 41.6 bits (98), Expect = 7e-06
Identities = 17/50 (34%), Positives = 28/50 (56%)
Query: 154 FKERTRSLLREWYLQDPYPNPTKKRELAQATGLTPTQVGNWFKNRRQRDR 203
E+ LR Y +P P+ K +L + TGL+P + WF+N+R +D+
Sbjct: 10 LNEKQLHTLRTCYAANPRPDALMKEQLVEMTGLSPRVIRVWFQNKRCKDK 59
>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 = 41.7 bits (98), Expect = 7e-06
Identities = 8/52 (15%), Positives = 18/52 (34%), Gaps = 1/52 (1%)
Query: 153 CFKERTRSLLREWYLQ-DPYPNPTKKRELAQATGLTPTQVGNWFKNRRQRDR 203
+L+ + YP+ L+ L + +F+N+R +
Sbjct: 13 KISLEALGILQSFIHDVGLYPDQEAIHTLSAQLDLPKHTIIKFFQNQRYHVK 64
>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 = 41.9 bits (98), Expect = 1e-05
Identities = 16/77 (20%), Positives = 30/77 (38%), Gaps = 24/77 (31%)
Query: 142 RTIWDGEQKTHCFKERTRSLLREWYLQDPYPNPTKKRELA---------------QATGL 186
R W E +++ ++ ++ YP+ K+ E+A +
Sbjct: 11 RFTWRKEC---------LAVMESYFNENQYPDEAKREEIANACNAVIQKPGKKLSDLERV 61
Query: 187 TPTQVGNWFKNRRQRDR 203
T +V NWF NRR+ +
Sbjct: 62 TSLKVYNWFANRRKEIK 78
>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 = 40.4 bits (95), Expect = 2e-05
Identities = 11/42 (26%), Positives = 22/42 (52%)
Query: 162 LREWYLQDPYPNPTKKRELAQATGLTPTQVGNWFKNRRQRDR 203
L++++ + YP + +L+ L + WF+N RQ+ R
Sbjct: 22 LQDFFDANAYPKDDEFEQLSNLLNLPTRVIVVWFQNARQKAR 63
>2hi3_A Homeodomain-only protein; transcription; NMR {Mus musculus} SCOP:
a.4.1.1
Length = 73
Score = 39.7 bits (93), Expect = 4e-05
Identities = 13/35 (37%), Positives = 17/35 (48%)
Query: 169 DPYPNPTKKRELAQATGLTPTQVGNWFKNRRQRDR 203
+ +P+PT +A GLT Q WFK R R
Sbjct: 25 NKHPDPTTLCLIAAEAGLTEEQTQKWFKQRLAEWR 59
>3a03_A T-cell leukemia homeobox protein 2; homeodomain, developmental
protein, DNA-binding, N gene regulation; 1.54A {Homo
sapiens}
Length = 56
Score = 37.3 bits (87), Expect = 2e-04
Identities = 12/29 (41%), Positives = 17/29 (58%)
Query: 171 YPNPTKKRELAQATGLTPTQVGNWFKNRR 199
Y ++ LA+A +T QV WF+NRR
Sbjct: 21 YLASAERAALAKALRMTDAQVKTWFQNRR 49
>1ftt_A TTF-1 HD, thyroid transcription factor 1 homeodomain; DNA binding
protein; NMR {Rattus norvegicus} SCOP: a.4.1.1
Length = 68
Score = 37.3 bits (87), Expect = 2e-04
Identities = 13/29 (44%), Positives = 17/29 (58%)
Query: 171 YPNPTKKRELAQATGLTPTQVGNWFKNRR 199
Y + ++ LA LTPTQV WF+N R
Sbjct: 26 YLSAPEREHLASMIHLTPTQVKIWFQNHR 54
>3rkq_A Homeobox protein NKX-2.5; helix-turn-helix, DNA binding, nucleus,
transcription-DNA CO; 1.70A {Homo sapiens}
Length = 58
Score = 37.2 bits (87), Expect = 2e-04
Identities = 13/29 (44%), Positives = 18/29 (62%)
Query: 171 YPNPTKKRELAQATGLTPTQVGNWFKNRR 199
Y + ++ +LA LT TQV WF+NRR
Sbjct: 26 YLSAPERDQLASVLKLTSTQVKIWFQNRR 54
>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 = 37.1 bits (86), Expect = 3e-04
Identities = 6/36 (16%), Positives = 16/36 (44%)
Query: 168 QDPYPNPTKKRELAQATGLTPTQVGNWFKNRRQRDR 203
+P+ + L++ + WF+ RR +++
Sbjct: 22 ITKHPDEKRLEGLSKQLDWDVRSIQRWFRQRRNQEK 57
>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 = 37.1 bits (86), Expect = 4e-04
Identities = 15/50 (30%), Positives = 26/50 (52%)
Query: 154 FKERTRSLLREWYLQDPYPNPTKKRELAQATGLTPTQVGNWFKNRRQRDR 203
FK ++ ++ + P+ ++LAQ TGLT + WF+N R + R
Sbjct: 14 FKHHQLRTMKSYFAINHNPDAKDLKQLAQKTGLTKRVLQVWFQNARAKFR 63
>2e19_A Transcription factor 8; homeobox domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 64
Score = 36.6 bits (84), Expect = 4e-04
Identities = 10/48 (20%), Positives = 21/48 (43%)
Query: 156 ERTRSLLREWYLQDPYPNPTKKRELAQATGLTPTQVGNWFKNRRQRDR 203
+ SLL+ +Y + P+ + ++A + L V WF+ +
Sbjct: 12 KNLLSLLKAYYALNAQPSAEELSKIADSVNLPLDVVKKWFEKMQAGQI 59
>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 = 36.3 bits (84), Expect = 7e-04
Identities = 13/29 (44%), Positives = 17/29 (58%)
Query: 171 YPNPTKKRELAQATGLTPTQVGNWFKNRR 199
Y + ++ LA LTPTQV WF+N R
Sbjct: 33 YLSAPEREHLASLIRLTPTQVKIWFQNHR 61
>2vi6_A Homeobox protein nanog; homeodomain, DNA-binding, transcription,
transcription facto developmental protein, transcription
regulation, NUC homeobox; 2.6A {Mus musculus}
Length = 62
Score = 35.7 bits (83), Expect = 8e-04
Identities = 10/29 (34%), Positives = 17/29 (58%)
Query: 171 YPNPTKKRELAQATGLTPTQVGNWFKNRR 199
Y + + +EL+ L+ QV WF+N+R
Sbjct: 27 YLSLQQMQELSSILNLSYKQVKTWFQNQR 55
>2kt0_A Nanog, homeobox protein nanog; homeodomain, structural genomics,
protein structure initiative, PSI, center for eukaryotic
structural genomics; NMR {Homo sapiens}
Length = 84
Score = 36.3 bits (84), Expect = 9e-04
Identities = 16/67 (23%), Positives = 32/67 (47%), Gaps = 8/67 (11%)
Query: 141 PRTIWDGEQKTHCFKERTRSL--------LREWYLQDPYPNPTKKRELAQATGLTPTQVG 192
++ E K K++TR++ L + + + Y + + +EL+ L+ QV
Sbjct: 8 ENSVAKKEDKVPVKKQKTRTVFSSTQLCVLNDRFQRQKYLSLQQMQELSNILNLSYKQVK 67
Query: 193 NWFKNRR 199
WF+N+R
Sbjct: 68 TWFQNQR 74
>1ig7_A Homeotic protein MSX-1; helix-turn-helix, transcription/DNA
complex; 2.20A {Mus musculus} SCOP: a.4.1.1
Length = 58
Score = 34.9 bits (81), Expect = 0.001
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 179 ELAQATGLTPTQVGNWFKNRR 199
E + + LT TQV WF+NRR
Sbjct: 32 EFSSSLSLTETQVKIWFQNRR 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 = 37.2 bits (85), Expect = 0.002
Identities = 14/83 (16%), Positives = 26/83 (31%), Gaps = 30/83 (36%)
Query: 142 RTIWDGEQKTHCFKERTRSLLREWYLQDPYPNPTKKRELAQA------------------ 183
R W + +L + Y + P+ ++ L +
Sbjct: 119 RFKWGPAS---------QQILFQAYERQKNPSKEERETLVEECNRAECIQRGVSPSQAQG 169
Query: 184 ---TGLTPTQVGNWFKNRRQRDR 203
+T +V NWF NRR+ +
Sbjct: 170 LGSNLVTEVRVYNWFANRRKEEA 192
>2l9r_A Homeobox protein NKX-3.1; structural genomics, northeast structural
genomics consortiu PSI-biology, protein structure
initiative; NMR {Homo sapiens}
Length = 69
Score = 34.6 bits (80), Expect = 0.002
Identities = 13/29 (44%), Positives = 18/29 (62%)
Query: 171 YPNPTKKRELAQATGLTPTQVGNWFKNRR 199
Y + ++ LA+ LT TQV WF+NRR
Sbjct: 28 YLSAPERAHLAKNLKLTETQVKIWFQNRR 56
>3a01_A Homeodomain-containing protein; homeodomain, protein-DNA complex,
DNA-binding, homeobox, NUC developmental protein; 2.70A
{Drosophila melanogaster}
Length = 93
Score = 35.2 bits (81), Expect = 0.002
Identities = 11/29 (37%), Positives = 16/29 (55%)
Query: 171 YPNPTKKRELAQATGLTPTQVGNWFKNRR 199
Y ++ LA+ +T QV WF+NRR
Sbjct: 41 YLASAERAALARGLKMTDAQVKTWFQNRR 69
>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 = 34.3 bits (79), Expect = 0.003
Identities = 13/33 (39%), Positives = 16/33 (48%)
Query: 171 YPNPTKKRELAQATGLTPTQVGNWFKNRRQRDR 203
+P+PT +A GLT Q WFK R R
Sbjct: 26 HPDPTTLCLIAAEAGLTEEQTQKWFKQRLAEWR 58
>2djn_A Homeobox protein DLX-5; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 70
Score = 34.3 bits (79), Expect = 0.003
Identities = 22/59 (37%), Positives = 29/59 (49%), Gaps = 9/59 (15%)
Query: 141 PRTIWDGEQKTHCFKERTRSLLREWYLQDPYPNPTKKRELAQATGLTPTQVGNWFKNRR 199
PRTI+ Q R + YL P ++ ELA + GLT TQV WF+N+R
Sbjct: 10 PRTIYSSFQ----LAALQRRFQKTQYLALP-----ERAELAASLGLTQTQVKIWFQNKR 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 = 34.0 bits (77), Expect = 0.005
Identities = 12/44 (27%), Positives = 22/44 (50%)
Query: 160 SLLREWYLQDPYPNPTKKRELAQATGLTPTQVGNWFKNRRQRDR 203
S+L+ +Y + PN + +++ A GL V WF+ R+
Sbjct: 18 SVLKAYYAMNMEPNSDELLKISIAVGLPQEFVKEWFEQRKVYQY 61
>1lfb_A Liver transcription factor (LFB1); transcription regulation; 2.80A
{Rattus norvegicus} SCOP: a.4.1.1 PDB: 2lfb_A
Length = 99
Score = 34.4 bits (78), Expect = 0.005
Identities = 12/71 (16%), Positives = 26/71 (36%), Gaps = 21/71 (29%)
Query: 154 FKERTRSLLREWYLQDPYPNPTKKRELAQA---------------------TGLTPTQVG 192
+ ++ +L + Y + P+ ++ L + +T +V
Sbjct: 16 WGPASQQILFQAYERQKNPSKEERETLVEECNRAECIQRGVSPSQAQGLGSNLVTEVRVY 75
Query: 193 NWFKNRRQRDR 203
NWF NRR+ +
Sbjct: 76 NWFANRRKEEA 86
>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 = 33.5 bits (77), Expect = 0.006
Identities = 12/29 (41%), Positives = 19/29 (65%)
Query: 171 YPNPTKKRELAQATGLTPTQVGNWFKNRR 199
Y +P +++ LA+ L+ QV WF+NRR
Sbjct: 31 YLSPPERKRLAKMLQLSERQVKTWFQNRR 59
>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 = 36.3 bits (84), Expect = 0.006
Identities = 16/49 (32%), Positives = 27/49 (55%)
Query: 155 KERTRSLLREWYLQDPYPNPTKKRELAQATGLTPTQVGNWFKNRRQRDR 203
+ R+ L + + + N +K E+A+ G+TP QV WF N+R R +
Sbjct: 373 SPQARAFLEQVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMRSK 421
>2l7z_A Homeobox protein HOX-A13; gene regulation; NMR {Homo sapiens} PDB:
2ld5_A*
Length = 73
Score = 33.7 bits (77), Expect = 0.006
Identities = 17/56 (30%), Positives = 30/56 (53%), Gaps = 1/56 (1%)
Query: 155 KERTRSLLREWYLQDPYPNPTKKRELAQATGLTPTQVGNWFKNRRQRDRAAAAKNR 210
K + + L RE Y + + K+R ++ T L+ QV WF+NRR +++ K +
Sbjct: 16 KVQLKELERE-YATNKFITKDKRRRISATTNLSERQVTIWFQNRRVKEKKVINKLK 70
>2h8r_A Hepatocyte nuclear factor 1-beta; trasncription factor, POU, homeo,
protein-DNA, human disease; 3.20A {Homo sapiens}
Length = 221
Score = 35.0 bits (79), Expect = 0.009
Identities = 12/71 (16%), Positives = 26/71 (36%), Gaps = 21/71 (29%)
Query: 154 FKERTRSLLREWYLQDPYPNPTKKRELAQA---------------------TGLTPTQVG 192
+ ++ +L + Y + P+ ++ L + +T +V
Sbjct: 149 WGPASQQILYQAYDRQKNPSKEEREALVEECNRAECLQRGVSPSKAHGLGSNLVTEVRVY 208
Query: 193 NWFKNRRQRDR 203
NWF NRR+ +
Sbjct: 209 NWFANRRKEEA 219
>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 = 33.2 bits (76), Expect = 0.010
Identities = 10/21 (47%), Positives = 16/21 (76%)
Query: 179 ELAQATGLTPTQVGNWFKNRR 199
+LA++ GL+ QV W++NRR
Sbjct: 49 DLAESLGLSQLQVKTWYQNRR 69
>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 = 31.9 bits (73), Expect = 0.022
Identities = 15/33 (45%), Positives = 21/33 (63%)
Query: 171 YPNPTKKRELAQATGLTPTQVGNWFKNRRQRDR 203
YP+ + + E+A T LT +V WFKNRR + R
Sbjct: 27 YPDMSTREEIAVWTNLTEARVRVWFKNRRAKWR 59
>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 = 31.5 bits (72), Expect = 0.024
Identities = 11/33 (33%), Positives = 17/33 (51%)
Query: 171 YPNPTKKRELAQATGLTPTQVGNWFKNRRQRDR 203
YP +LAQ L ++ WF+NRR + +
Sbjct: 25 YPGIDILEDLAQKLNLELDRIQIWFQNRRAKLK 57
>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 = 32.0 bits (73), Expect = 0.026
Identities = 13/33 (39%), Positives = 19/33 (57%)
Query: 171 YPNPTKKRELAQATGLTPTQVGNWFKNRRQRDR 203
YP+ + E+A L ++V WFKNRR + R
Sbjct: 31 YPDIFMREEVALKINLPESRVQVWFKNRRAKCR 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 = 31.5 bits (72), Expect = 0.034
Identities = 13/33 (39%), Positives = 19/33 (57%)
Query: 171 YPNPTKKRELAQATGLTPTQVGNWFKNRRQRDR 203
YP+ + +LA+ L +V WFKNRR + R
Sbjct: 31 YPDVGTREQLARKVHLREEKVEVWFKNRRAKWR 63
>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 = 31.1 bits (71), Expect = 0.038
Identities = 14/33 (42%), Positives = 20/33 (60%)
Query: 171 YPNPTKKRELAQATGLTPTQVGNWFKNRRQRDR 203
YP+ + ELA GLT ++ WF+NRR + R
Sbjct: 23 YPDVFTREELAMKIGLTEARIQVWFQNRRAKWR 55
>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 = 31.2 bits (71), Expect = 0.053
Identities = 16/33 (48%), Positives = 21/33 (63%)
Query: 171 YPNPTKKRELAQATGLTPTQVGNWFKNRRQRDR 203
YP+ + ELAQ T LT ++ WF+NRR R R
Sbjct: 42 YPDIYTREELAQRTNLTEARIQVWFQNRRARLR 74
>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 = 30.6 bits (69), Expect = 0.057
Identities = 17/45 (37%), Positives = 27/45 (60%), Gaps = 1/45 (2%)
Query: 155 KERTRSLLREWYLQDPYPNPTKKRELAQATGLTPTQVGNWFKNRR 199
K + R L RE Y + + K+R+++ AT L+ Q+ WF+NRR
Sbjct: 16 KGQLRELERE-YAANKFITKDKRRKISAATSLSERQITIWFQNRR 59
>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 = 30.5 bits (69), Expect = 0.060
Identities = 10/21 (47%), Positives = 12/21 (57%)
Query: 179 ELAQATGLTPTQVGNWFKNRR 199
+L+ L QV WFKNRR
Sbjct: 34 DLSAKLALGTAQVKIWFKNRR 54
>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 = 30.4 bits (69), Expect = 0.062
Identities = 11/27 (40%), Positives = 17/27 (62%), Gaps = 2/27 (7%)
Query: 175 TKKR--ELAQATGLTPTQVGNWFKNRR 199
T++R +L+ GL Q+ WFKN+R
Sbjct: 29 TERRRQQLSSELGLNEAQIKIWFKNKR 55
>3bdn_A Lambda repressor; repressor, allostery; HET: DNA; 3.91A
{Enterobacteria phage lambda}
Length = 236
Score = 32.6 bits (74), Expect = 0.073
Identities = 7/31 (22%), Positives = 11/31 (35%)
Query: 178 RELAQATGLTPTQVGNWFKNRRQRDRAAAAK 208
+A G+ + VG F + AA
Sbjct: 34 ESVADKMGMGQSGVGALFNGINALNAYNAAL 64
>2cue_A Paired box protein PAX6; homeobox domain, transcription factor,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
a.4.1.1
Length = 80
Score = 30.4 bits (69), Expect = 0.085
Identities = 11/33 (33%), Positives = 16/33 (48%)
Query: 171 YPNPTKKRELAQATGLTPTQVGNWFKNRRQRDR 203
YP+ + LA L ++ WF NRR + R
Sbjct: 31 YPDVFARERLAAKIDLPEARIQVWFSNRRAKWR 63
>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 = 29.6 bits (67), Expect = 0.10
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 179 ELAQATGLTPTQVGNWFKNRRQRDR 203
ELA L + + WF+NRR +D+
Sbjct: 33 ELAAQLNLPESTIKVWFQNRRMKDK 57
>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 = 30.2 bits (67), Expect = 0.14
Identities = 12/70 (17%), Positives = 26/70 (37%), Gaps = 21/70 (30%)
Query: 154 FKERTRSLLREWYLQDPYPNPTKKRELAQA---------------------TGLTPTQVG 192
+ ++ +L + Y + P+ ++ L + +T +V
Sbjct: 13 WGPASQQILYQAYDRQKNPSKEEREALVEECNRAECLQRGVSPSKAHGLGSNLVTEVRVY 72
Query: 193 NWFKNRRQRD 202
NWF NRR+ +
Sbjct: 73 NWFANRRKEE 82
>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 = 29.8 bits (67), Expect = 0.16
Identities = 13/27 (48%), Positives = 18/27 (66%), Gaps = 2/27 (7%)
Query: 175 TKKR--ELAQATGLTPTQVGNWFKNRR 199
T++R E+A A LT Q+ WF+NRR
Sbjct: 46 TRRRRIEMAHALSLTERQIKIWFQNRR 72
>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 = 29.9 bits (67), Expect = 0.17
Identities = 12/27 (44%), Positives = 16/27 (59%), Gaps = 2/27 (7%)
Query: 175 TKKR--ELAQATGLTPTQVGNWFKNRR 199
++ R E+A L TQV WF+NRR
Sbjct: 60 SRARRVEIAATLELNETQVKIWFQNRR 86
>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 = 29.5 bits (65), Expect = 0.19
Identities = 12/59 (20%), Positives = 22/59 (37%), Gaps = 4/59 (6%)
Query: 149 QKTHCFKERTRSLLREWYLQ----DPYPNPTKKRELAQATGLTPTQVGNWFKNRRQRDR 203
Q F +R + L++++ K +A + V W NRR++ R
Sbjct: 10 QDRTQFSDRDLATLKKYWDNGMTSLGSVCREKIEAVATELNVDCEIVRTWIGNRRRKYR 68
>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 = 29.4 bits (66), Expect = 0.20
Identities = 17/45 (37%), Positives = 26/45 (57%), Gaps = 1/45 (2%)
Query: 155 KERTRSLLREWYLQDPYPNPTKKRELAQATGLTPTQVGNWFKNRR 199
K +T L +E +L + Y ++ E+A+ LT QV WF+NRR
Sbjct: 22 KHQTLELEKE-FLFNMYLTRDRRYEVARLLNLTERQVKIWFQNRR 65
>2r5y_A Homeotic protein sex combs reduced; homeodomain; HET: DNA; 2.60A
{Drosophila melanogaster} PDB: 2r5z_A*
Length = 88
Score = 29.4 bits (66), Expect = 0.22
Identities = 13/27 (48%), Positives = 18/27 (66%), Gaps = 2/27 (7%)
Query: 175 TKKR--ELAQATGLTPTQVGNWFKNRR 199
T++R E+A A LT Q+ WF+NRR
Sbjct: 54 TRRRRIEIAHALSLTERQIKIWFQNRR 80
>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 = 31.0 bits (71), Expect = 0.26
Identities = 12/33 (36%), Positives = 16/33 (48%), Gaps = 4/33 (12%)
Query: 171 YPNPTKKRELAQATGLTPTQVGNWFKNRRQRDR 203
YP P + + GLT T VGNW R++
Sbjct: 53 YPVPPR----PETQGLTETYVGNWLAKHGSREK 81
>2h1k_A IPF-1, pancreatic and duodenal homeobox 1, homeodomain; protein-DNA
complex, transcription/DNA complex; 2.42A {Mesocricetus
auratus}
Length = 63
Score = 28.5 bits (64), Expect = 0.27
Identities = 10/24 (41%), Positives = 14/24 (58%)
Query: 176 KKRELAQATGLTPTQVGNWFKNRR 199
++ ELA LT + WF+NRR
Sbjct: 32 RRVELAVMLNLTERHIKIWFQNRR 55
>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 = 28.5 bits (64), Expect = 0.31
Identities = 13/27 (48%), Positives = 18/27 (66%), Gaps = 2/27 (7%)
Query: 175 TKKR--ELAQATGLTPTQVGNWFKNRR 199
T++R E+A A LT Q+ WF+NRR
Sbjct: 28 TRRRRIEIAHALSLTERQIKIWFQNRR 54
>2ygw_A Malonyl-COA decarboxylase, mitochondrial; lyase; 2.80A {Homo
sapiens}
Length = 460
Score = 29.1 bits (64), Expect = 1.4
Identities = 14/46 (30%), Positives = 18/46 (39%)
Query: 102 SHGKLQAMWLEAHYQEAEKLRGRPLGPVDKYRVRKKFPLPRTIWDG 147
+ M L A Y EK RG L PV + ++ L R W
Sbjct: 362 RALQTPLMRLCAWYLYGEKHRGYALNPVANFHLQNGAVLWRINWMA 407
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 26.7 bits (58), Expect = 5.5
Identities = 15/97 (15%), Positives = 32/97 (32%), Gaps = 37/97 (38%)
Query: 116 QEAEKLRGRPLGPVDKYRVRKKFPLPRTIWDGEQKTHCFKERTRSLLREWYLQDPYPNPT 175
QE E +R K+R ++ L ++ ++ + +EW
Sbjct: 82 QEPESIR--------KWREEQRKRL-------QEL----DAASKVMEQEW---------- 112
Query: 176 KKRELAQATGLTPTQVGNWFKNRRQRDRAAAAKNRLE 212
RE A+ + W + + ++ NR+
Sbjct: 113 --REKAKK------DLEEWNQRQSEQVEKNKINNRIA 141
>2fwr_A DNA repair protein RAD25; DNA unwinding, XPB, DNA binding protein;
HET: DNA; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.19
c.37.1.19 PDB: 2fzl_A*
Length = 472
Score = 26.7 bits (59), Expect = 5.9
Identities = 10/76 (13%), Positives = 22/76 (28%), Gaps = 9/76 (11%)
Query: 133 RVRKKFPLPRTIWDGEQKTHCFKERTRSLLREWYLQDPYP------NPTKKRELAQATGL 186
V+ +P +D T+ + E++ + +P L
Sbjct: 35 VVKGDAHVPHAKFDSRSGTYRALAFRYRDIIEYFESNGIEFVDNAADPIPTPYFDAEISL 94
Query: 187 TPTQ---VGNWFKNRR 199
Q + W ++R
Sbjct: 95 RDYQEKALERWLVDKR 110
>3bs3_A Putative DNA-binding protein; XRE-family, structural genomics,
PSI-2, protein structure initiative; HET: MSE; 1.65A
{Bacteroides fragilis}
Length = 76
Score = 24.9 bits (55), Expect = 8.3
Identities = 7/23 (30%), Positives = 11/23 (47%)
Query: 178 RELAQATGLTPTQVGNWFKNRRQ 200
R LA+ G + + W N+ Q
Sbjct: 27 RWLAEQMGKSENTISRWCSNKSQ 49
>2kpj_A SOS-response transcriptional repressor, LEXA; NESG, GFT, structural
genomics, PSI-2, protein structure initiative; NMR
{Eubacterium rectale atcc 33656}
Length = 94
Score = 25.1 bits (55), Expect = 8.5
Identities = 6/22 (27%), Positives = 11/22 (50%)
Query: 179 ELAQATGLTPTQVGNWFKNRRQ 200
E+A++ G++P W K
Sbjct: 27 EIAKSIGVSPQTFNTWCKGIAI 48
>3bd1_A CRO protein; transcription factor, helix-turn-helix, prophage,
structural evolution, transcription; 1.40A {Xylella
fastidiosa}
Length = 79
Score = 24.9 bits (54), Expect = 8.8
Identities = 6/22 (27%), Positives = 10/22 (45%)
Query: 178 RELAQATGLTPTQVGNWFKNRR 199
LA + G+ + + NW R
Sbjct: 15 SALAASLGVRQSAISNWRARGR 36
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
0.319 0.133 0.411
Gapped
Lambda K H
0.267 0.0770 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,397,425
Number of extensions: 197078
Number of successful extensions: 560
Number of sequences better than 10.0: 1
Number of HSP's gapped: 548
Number of HSP's successfully gapped: 95
Length of query: 217
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 127
Effective length of database: 4,188,903
Effective search space: 531990681
Effective search space used: 531990681
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 55 (24.9 bits)