RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15079
(74 letters)
>3a03_A T-cell leukemia homeobox protein 2; homeodomain, developmental
protein, DNA-binding, N gene regulation; 1.54A {Homo
sapiens}
Length = 56
Score = 45.4 bits (108), Expect = 9e-09
Identities = 18/18 (100%), Positives = 18/18 (100%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
MTDAQVKTWFQNRRTKWR
Sbjct: 36 MTDAQVKTWFQNRRTKWR 53
>3a01_A Homeodomain-containing protein; homeodomain, protein-DNA complex,
DNA-binding, homeobox, NUC developmental protein; 2.70A
{Drosophila melanogaster}
Length = 93
Score = 45.2 bits (107), Expect = 3e-08
Identities = 18/18 (100%), Positives = 18/18 (100%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
MTDAQVKTWFQNRRTKWR
Sbjct: 56 MTDAQVKTWFQNRRTKWR 73
>3rkq_A Homeobox protein NKX-2.5; helix-turn-helix, DNA binding, nucleus,
transcription-DNA CO; 1.70A {Homo sapiens}
Length = 58
Score = 43.8 bits (104), Expect = 4e-08
Identities = 11/18 (61%), Positives = 13/18 (72%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+T QVK WFQNRR K +
Sbjct: 41 LTSTQVKIWFQNRRYKSK 58
>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 = 44.0 bits (104), Expect = 6e-08
Identities = 10/18 (55%), Positives = 12/18 (66%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+T QVK WFQN R K +
Sbjct: 48 LTPTQVKIWFQNHRYKTK 65
>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 = 44.0 bits (104), Expect = 6e-08
Identities = 11/18 (61%), Positives = 15/18 (83%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
++ QVKTW+QNRR KW+
Sbjct: 56 LSQLQVKTWYQNRRMKWK 73
>2l9r_A Homeobox protein NKX-3.1; structural genomics, northeast
structural genomics consortiu PSI-biology, protein
structure initiative; NMR {Homo sapiens}
Length = 69
Score = 43.5 bits (103), Expect = 8e-08
Identities = 11/18 (61%), Positives = 14/18 (77%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+T+ QVK WFQNRR K +
Sbjct: 43 LTETQVKIWFQNRRYKTK 60
>1ftt_A TTF-1 HD, thyroid transcription factor 1 homeodomain; DNA binding
protein; NMR {Rattus norvegicus} SCOP: a.4.1.1
Length = 68
Score = 43.1 bits (102), Expect = 1e-07
Identities = 10/18 (55%), Positives = 12/18 (66%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+T QVK WFQN R K +
Sbjct: 41 LTPTQVKIWFQNHRYKMK 58
>2vi6_A Homeobox protein nanog; homeodomain, DNA-binding, transcription,
transcription facto developmental protein,
transcription regulation, NUC homeobox; 2.6A {Mus
musculus}
Length = 62
Score = 42.7 bits (101), Expect = 1e-07
Identities = 10/18 (55%), Positives = 14/18 (77%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
++ QVKTWFQN+R K +
Sbjct: 42 LSYKQVKTWFQNQRMKCK 59
>1ig7_A Homeotic protein MSX-1; helix-turn-helix, transcription/DNA
complex; 2.20A {Mus musculus} SCOP: a.4.1.1
Length = 58
Score = 42.6 bits (101), Expect = 2e-07
Identities = 11/18 (61%), Positives = 14/18 (77%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+T+ QVK WFQNRR K +
Sbjct: 39 LTETQVKIWFQNRRAKAK 56
>2kt0_A Nanog, homeobox protein nanog; homeodomain, structural genomics,
protein structure initiative, PSI, center for
eukaryotic structural genomics; NMR {Homo sapiens}
Length = 84
Score = 42.5 bits (100), Expect = 2e-07
Identities = 10/18 (55%), Positives = 14/18 (77%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
++ QVKTWFQN+R K +
Sbjct: 61 LSYKQVKTWFQNQRMKSK 78
>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 = 42.0 bits (99), Expect = 3e-07
Identities = 13/18 (72%), Positives = 16/18 (88%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+++ QVKTWFQNRR KWR
Sbjct: 46 LSERQVKTWFQNRRAKWR 63
>2djn_A Homeobox protein DLX-5; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 70
Score = 40.5 bits (95), Expect = 1e-06
Identities = 10/18 (55%), Positives = 14/18 (77%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+T QVK WFQN+R+K +
Sbjct: 46 LTQTQVKIWFQNKRSKIK 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 = 39.5 bits (93), Expect = 3e-06
Identities = 7/18 (38%), Positives = 12/18 (66%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+T QV+ WF N+R + +
Sbjct: 44 ITPLQVRVWFINKRMRSK 61
>2dn0_A Zinc fingers and homeoboxes protein 3; triple homeobox 1 protein,
KIAA0395, TIX1, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 76
Score = 38.2 bits (89), Expect = 1e-05
Identities = 6/18 (33%), Positives = 11/18 (61%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
++ +V+ WF +RR R
Sbjct: 47 LSTREVRKWFSDRRYHCR 64
>1e3o_C Octamer-binding transcription factor 1; transcription factor, POU
domain, dimer, DNA binding; 1.9A {Homo sapiens} SCOP:
a.4.1.1 a.35.1.1 PDB: 1gt0_C 1hf0_A* 1cqt_A* 1o4x_A
1oct_C* 1pou_A 1pog_A 1hdp_A
Length = 160
Score = 39.2 bits (91), Expect = 2e-05
Identities = 7/18 (38%), Positives = 10/18 (55%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
M ++ WF NRR K +
Sbjct: 140 MEKEVIRVWFSNRRQKEK 157
>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 = 38.5 bits (89), Expect = 2e-05
Identities = 6/18 (33%), Positives = 8/18 (44%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
V+ WF NRR +
Sbjct: 132 YDREVVRVWFSNRRQTLK 149
>2xsd_C POU domain, class 3, transcription factor 1; transcription-DNA
complex, SOX; 2.05A {Mus musculus}
Length = 164
Score = 38.5 bits (89), Expect = 3e-05
Identities = 7/18 (38%), Positives = 10/18 (55%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+ V+ WF NRR K +
Sbjct: 138 LEKEVVRVWFCNRRQKEK 155
>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 = 37.0 bits (86), Expect = 3e-05
Identities = 9/18 (50%), Positives = 13/18 (72%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+ AQVK WF+NRR + +
Sbjct: 41 LGTAQVKIWFKNRRRRHK 58
>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 = 36.3 bits (84), Expect = 5e-05
Identities = 8/18 (44%), Positives = 13/18 (72%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+++ Q+ WFQNRR K +
Sbjct: 46 LSERQITIWFQNRRVKEK 63
>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 = 36.2 bits (84), Expect = 5e-05
Identities = 8/18 (44%), Positives = 14/18 (77%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+ +AQ+K WF+N+R K +
Sbjct: 42 LNEAQIKIWFKNKRAKIK 59
>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 = 36.2 bits (84), Expect = 6e-05
Identities = 11/18 (61%), Positives = 15/18 (83%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+T+ Q+K WFQNRR KW+
Sbjct: 41 LTERQIKIWFQNRRMKWK 58
>2hi3_A Homeodomain-only protein; transcription; NMR {Mus musculus} SCOP:
a.4.1.1
Length = 73
Score = 36.3 bits (84), Expect = 7e-05
Identities = 7/18 (38%), Positives = 12/18 (66%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+T+ Q + WF+ R +WR
Sbjct: 42 LTEEQTQKWFKQRLAEWR 59
>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 = 35.9 bits (83), Expect = 7e-05
Identities = 5/19 (26%), Positives = 13/19 (68%)
Query: 1 MTDAQVKTWFQNRRTKWRP 19
+ +++ WF++RR + +P
Sbjct: 48 WSVRKIQCWFRHRRNQDKP 66
>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 = 36.4 bits (84), Expect = 8e-05
Identities = 10/18 (55%), Positives = 13/18 (72%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+ + QVK WFQNRR K +
Sbjct: 73 LNETQVKIWFQNRRMKQK 90
>2h1k_A IPF-1, pancreatic and duodenal homeobox 1, homeodomain;
protein-DNA complex, transcription/DNA complex; 2.42A
{Mesocricetus auratus}
Length = 63
Score = 35.4 bits (82), Expect = 1e-04
Identities = 10/18 (55%), Positives = 14/18 (77%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+T+ +K WFQNRR KW+
Sbjct: 42 LTERHIKIWFQNRRMKWK 59
>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 = 35.9 bits (83), Expect = 1e-04
Identities = 10/18 (55%), Positives = 14/18 (77%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+T+ Q+K WFQNRR K +
Sbjct: 59 LTERQIKIWFQNRRMKLK 76
>2l7z_A Homeobox protein HOX-A13; gene regulation; NMR {Homo sapiens}
PDB: 2ld5_A*
Length = 73
Score = 35.6 bits (82), Expect = 1e-04
Identities = 10/28 (35%), Positives = 16/28 (57%)
Query: 1 MTDAQVKTWFQNRRTKWRPFSFEGVSKS 28
+++ QV WFQNRR K + + + S
Sbjct: 46 LSERQVTIWFQNRRVKEKKVINKLKTTS 73
>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 = 35.6 bits (82), Expect = 1e-04
Identities = 11/18 (61%), Positives = 14/18 (77%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+T+ QVK WFQNRR K +
Sbjct: 52 LTERQVKIWFQNRRMKMK 69
>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 = 35.4 bits (82), Expect = 1e-04
Identities = 8/18 (44%), Positives = 13/18 (72%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+ ++ +K WFQNRR K +
Sbjct: 40 LPESTIKVWFQNRRMKDK 57
>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 = 35.4 bits (82), Expect = 1e-04
Identities = 7/18 (38%), Positives = 9/18 (50%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+ + WFQN R K R
Sbjct: 46 LPTRVIVVWFQNARQKAR 63
>2r5y_A Homeotic protein sex combs reduced; homeodomain; HET: DNA; 2.60A
{Drosophila melanogaster} PDB: 2r5z_A*
Length = 88
Score = 35.6 bits (82), Expect = 2e-04
Identities = 11/18 (61%), Positives = 15/18 (83%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+T+ Q+K WFQNRR KW+
Sbjct: 67 LTERQIKIWFQNRRMKWK 84
>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 = 34.7 bits (80), Expect = 2e-04
Identities = 7/18 (38%), Positives = 12/18 (66%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+T+ Q + WF+ R +WR
Sbjct: 41 LTEEQTQKWFKQRLAEWR 58
>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 = 34.5 bits (80), Expect = 2e-04
Identities = 11/18 (61%), Positives = 16/18 (88%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+T+A+++ WFQNRR KWR
Sbjct: 38 LTEARIQVWFQNRRAKWR 55
>2cue_A Paired box protein PAX6; homeobox domain, transcription factor,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
a.4.1.1
Length = 80
Score = 34.7 bits (80), Expect = 3e-04
Identities = 9/18 (50%), Positives = 14/18 (77%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+ +A+++ WF NRR KWR
Sbjct: 46 LPEARIQVWFSNRRAKWR 63
>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 = 35.0 bits (80), Expect = 3e-04
Identities = 4/18 (22%), Positives = 9/18 (50%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
++ ++ +WF RR
Sbjct: 52 LSRREIDSWFSERRKLRD 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 = 34.2 bits (79), Expect = 3e-04
Identities = 11/18 (61%), Positives = 16/18 (88%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+T+A+V+ WF+NRR KWR
Sbjct: 42 LTEARVRVWFKNRRAKWR 59
>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 = 34.2 bits (79), Expect = 3e-04
Identities = 9/18 (50%), Positives = 14/18 (77%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+ + +V+ WF+NRR KWR
Sbjct: 46 LREEKVEVWFKNRRAKWR 63
>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 = 34.7 bits (80), Expect = 3e-04
Identities = 8/18 (44%), Positives = 14/18 (77%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+ +++V+ WF+NRR K R
Sbjct: 46 LPESRVQVWFKNRRAKCR 63
>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 = 34.4 bits (79), Expect = 3e-04
Identities = 7/18 (38%), Positives = 10/18 (55%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+ V+ WFQN R + R
Sbjct: 56 LKKRVVQVWFQNTRARER 73
>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 = 35.3 bits (81), Expect = 4e-04
Identities = 6/18 (33%), Positives = 10/18 (55%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+ V+ WF NRR + +
Sbjct: 126 LEKEVVRVWFCNRRQREK 143
>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 = 34.3 bits (79), Expect = 4e-04
Identities = 9/18 (50%), Positives = 15/18 (83%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+T+A+++ WFQNRR + R
Sbjct: 57 LTEARIQVWFQNRRARLR 74
>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 = 34.6 bits (79), Expect = 5e-04
Identities = 7/18 (38%), Positives = 11/18 (61%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+T +V WF NRR + +
Sbjct: 61 VTSLKVYNWFANRRKEIK 78
>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 = 33.8 bits (78), Expect = 5e-04
Identities = 7/18 (38%), Positives = 12/18 (66%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+ +++ WFQNRR K +
Sbjct: 40 LELDRIQIWFQNRRAKLK 57
>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 = 33.6 bits (77), Expect = 5e-04
Identities = 5/19 (26%), Positives = 10/19 (52%)
Query: 1 MTDAQVKTWFQNRRTKWRP 19
++ WF+ RR + +P
Sbjct: 40 WDVRSIQRWFRQRRNQEKP 58
>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 = 33.7 bits (77), Expect = 6e-04
Identities = 7/18 (38%), Positives = 10/18 (55%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
MT ++ +WF RR K
Sbjct: 46 MTRREIDSWFSERRKKVN 63
>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 = 33.6 bits (77), Expect = 7e-04
Identities = 8/18 (44%), Positives = 12/18 (66%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+T ++ WFQN R K+R
Sbjct: 46 LTKRVLQVWFQNARAKFR 63
>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 = 33.9 bits (77), Expect = 0.001
Identities = 7/18 (38%), Positives = 10/18 (55%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+ V+ WF NRR K +
Sbjct: 135 LEKDVVRVWFSNRRQKGK 152
>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 = 33.0 bits (75), Expect = 0.001
Identities = 3/18 (16%), Positives = 8/18 (44%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+T ++ WF ++
Sbjct: 50 LTRREIDAWFTEKKKSKA 67
>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 = 32.5 bits (74), Expect = 0.001
Identities = 4/18 (22%), Positives = 11/18 (61%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+ +++K WF + R + +
Sbjct: 43 LARSEIKKWFSDHRYRCQ 60
>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 = 32.3 bits (74), Expect = 0.002
Identities = 6/18 (33%), Positives = 12/18 (66%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
++ ++ WFQN+R K +
Sbjct: 42 LSPRVIRVWFQNKRCKDK 59
>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 = 31.5 bits (72), Expect = 0.004
Identities = 6/18 (33%), Positives = 9/18 (50%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+ +K WF+N K R
Sbjct: 46 LPQKVIKHWFRNTLFKER 63
>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 = 31.3 bits (71), Expect = 0.005
Identities = 4/18 (22%), Positives = 9/18 (50%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+ + +FQN+R +
Sbjct: 47 LPKHTIIKFFQNQRYHVK 64
>1lfb_A Liver transcription factor (LFB1); transcription regulation;
2.80A {Rattus norvegicus} SCOP: a.4.1.1 PDB: 2lfb_A
Length = 99
Score = 31.0 bits (69), Expect = 0.010
Identities = 7/18 (38%), Positives = 11/18 (61%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+T+ +V WF NRR +
Sbjct: 69 VTEVRVYNWFANRRKEEA 86
>2d5v_A Hepatocyte nuclear factor 6; transcription factor,
transcription-DNA complex; 2.00A {Rattus norvegicus}
PDB: 1s7e_A
Length = 164
Score = 29.5 bits (65), Expect = 0.069
Identities = 4/18 (22%), Positives = 8/18 (44%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+ + V +F N R +
Sbjct: 136 LELSTVSNFFMNARRRSL 153
>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 = 27.6 bits (60), Expect = 0.14
Identities = 8/18 (44%), Positives = 11/18 (61%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+ V+TW NRR K+R
Sbjct: 51 VDCEIVRTWIGNRRRKYR 68
>2h8r_A Hepatocyte nuclear factor 1-beta; trasncription factor, POU, homeo,
protein-DNA, human disease; 3.20A {Homo sapiens}
Length = 221
Score = 28.4 bits (62), Expect = 0.17
Identities = 7/14 (50%), Positives = 10/14 (71%)
Query: 1 MTDAQVKTWFQNRR 14
+T+ +V WF NRR
Sbjct: 202 VTEVRVYNWFANRR 215
>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 = 27.5 bits (60), Expect = 0.27
Identities = 7/16 (43%), Positives = 11/16 (68%)
Query: 1 MTDAQVKTWFQNRRTK 16
+T+ +V WF NRR +
Sbjct: 175 VTEVRVYNWFANRRKE 190
>2nzz_A Penetratin conjugated GAS (374-394) peptide; conformational
analysis, G protein, GAS subunit, A2A adenosine
receptor, cell-penetrating peptides; NMR {Synthetic}
PDB: 2o00_A
Length = 37
Score = 25.4 bits (55), Expect = 0.48
Identities = 11/18 (61%), Positives = 13/18 (72%)
Query: 5 QVKTWFQNRRTKWRPFSF 22
Q+K WFQNRR KW+ F
Sbjct: 2 QIKIWFQNRRMKWKKRVF 19
>2lk2_A Homeobox protein TGIF1; NESG, structural genomics, northeast
structural genomics CON PSI-biology, transcription; NMR
{Homo sapiens}
Length = 89
Score = 25.5 bits (56), Expect = 1.2
Identities = 7/36 (19%), Positives = 11/36 (30%), Gaps = 1/36 (2%)
Query: 1 MTDAQVKTWFQN-RRTKWRPFSFEGVSKSKHIVVRP 35
++ QV WF N RR + +
Sbjct: 47 LSTLQVCNWFINARRRLLPDMLRKDGKDPNQFTISR 82
>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 = 25.5 bits (55), Expect = 1.2
Identities = 4/18 (22%), Positives = 9/18 (50%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+ + +WF + R W+
Sbjct: 64 LARTDIVSWFGDTRYAWK 81
>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 = 24.8 bits (54), Expect = 1.6
Identities = 7/18 (38%), Positives = 11/18 (61%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
++ Q+K W NRR K +
Sbjct: 69 LSRIQIKNWVSNRRRKEK 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 = 24.8 bits (54), Expect = 1.7
Identities = 6/19 (31%), Positives = 10/19 (52%)
Query: 1 MTDAQVKTWFQNRRTKWRP 19
++ Q+K W RR K +
Sbjct: 44 LSRIQIKNWVAARRAKEKT 62
>3k2a_A Homeobox protein MEIS2; homeobox domain, DNA-binding,
transcription, nucleus, phosphoprotein, DNA bindi
protein; 1.95A {Homo sapiens}
Length = 67
Score = 24.6 bits (54), Expect = 1.9
Identities = 9/20 (45%), Positives = 11/20 (55%), Gaps = 1/20 (5%)
Query: 1 MTDAQVKTWFQN-RRTKWRP 19
+T QV WF N RR +P
Sbjct: 40 LTILQVNNWFINARRRIVQP 59
>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 = 24.3 bits (53), Expect = 2.1
Identities = 8/20 (40%), Positives = 10/20 (50%), Gaps = 1/20 (5%)
Query: 1 MTDAQVKTWFQN-RRTKWRP 19
+T QV WF N RR +
Sbjct: 49 LTLLQVNNWFINARRRILQS 68
>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 = 24.7 bits (54), Expect = 2.2
Identities = 6/20 (30%), Positives = 9/20 (45%), Gaps = 1/20 (5%)
Query: 1 MTDAQVKTWFQN-RRTKWRP 19
++ Q+ WF N RR
Sbjct: 49 LSLLQISNWFINARRRILPD 68
>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 = 24.2 bits (53), Expect = 2.5
Identities = 7/18 (38%), Positives = 11/18 (61%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
++ Q+K W NRR K +
Sbjct: 40 LSRIQIKNWVSNRRRKEK 57
>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase
domains, sensor 1, sensor 2, transferase; HET: DNA;
2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*
Length = 250
Score = 24.9 bits (55), Expect = 2.6
Identities = 7/17 (41%), Positives = 11/17 (64%)
Query: 16 KWRPFSFEGVSKSKHIV 32
KWRP +F V +H++
Sbjct: 16 KWRPQTFADVVGQEHVL 32
>1jr3_A DNA polymerase III subunit gamma; processivity, processivity
clamp, clamp loader, AAA+ ATPase, transferase; HET:
DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20
PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*
Length = 373
Score = 24.5 bits (54), Expect = 4.0
Identities = 7/17 (41%), Positives = 11/17 (64%)
Query: 16 KWRPFSFEGVSKSKHIV 32
KWRP +F V +H++
Sbjct: 9 KWRPQTFADVVGQEHVL 25
>2e19_A Transcription factor 8; homeobox domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 64
Score = 23.5 bits (50), Expect = 4.6
Identities = 4/17 (23%), Positives = 6/17 (35%)
Query: 6 VKTWFQNRRTKWRPFSF 22
VK WF+ +
Sbjct: 47 VKKWFEKMQAGQISVQS 63
>3o0q_A Ribonucleoside-diphosphate reductase; alpha/beta barrel,
adenosylcobalamin dependent, ribonucle reductase; HET:
TTP GDP ADN; 1.80A {Thermotoga maritima} PDB: 1xjf_A*
1xjg_A* 1xje_A* 1xjk_A* 1xjm_A* 1xjn_A* 3o0n_A* 3o0o_A*
1xjj_A*
Length = 644
Score = 24.2 bits (53), Expect = 4.7
Identities = 11/37 (29%), Positives = 16/37 (43%), Gaps = 5/37 (13%)
Query: 32 VVRPLIDKVNLYVIEAVWTVLSAL---IDVNRWPVDQ 65
+D L E V + L IDVN +P+D+
Sbjct: 344 YNNGFVDLEALQ--ELVQIAVRFLDNVIDVNVFPIDK 378
>3hb3_B Cytochrome C oxidase subunit 2; electron transfer, proton transfer,
proton pumping, membrane protein, cell inner membrane,
cell membrane, copper; HET: HEA LDA LMT; 2.25A
{Paracoccus denitrificans} PDB: 1ar1_B* 3ehb_B* 1qle_B*
Length = 298
Score = 23.5 bits (51), Expect = 8.4
Identities = 6/13 (46%), Positives = 9/13 (69%)
Query: 44 VIEAVWTVLSALI 56
IE +WT++ LI
Sbjct: 105 PIEVIWTLVPVLI 117
>1v54_B Cytochrome C oxidase polypeptide II; oxidoreductase; HET: FME TPO
HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus}
SCOP: b.6.1.2 f.17.2.1 PDB: 1oco_B* 1occ_B* 1ocz_B*
1ocr_B* 1v55_B* 2dyr_B* 2dys_B* 2eij_B* 2eik_B* 2eil_B*
2eim_B* 2ein_B* 2occ_B* 2y69_B* 2ybb_M* 2zxw_B* 3abk_B*
3abl_B* 3abm_B* 3ag1_B* ...
Length = 227
Score = 23.3 bits (51), Expect = 8.7
Identities = 6/12 (50%), Positives = 10/12 (83%)
Query: 45 IEAVWTVLSALI 56
+E +WT+L A+I
Sbjct: 61 VETIWTILPAII 72
>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 = 23.0 bits (49), Expect = 8.9
Identities = 3/18 (16%), Positives = 8/18 (44%)
Query: 1 MTDAQVKTWFQNRRTKWR 18
+ ++ WF + R +
Sbjct: 42 LPRPEIIQWFGDTRYALK 59
>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 = 22.7 bits (49), Expect = 9.1
Identities = 7/20 (35%), Positives = 10/20 (50%), Gaps = 1/20 (5%)
Query: 1 MTDAQVKTWFQN-RRTKWRP 19
+T +QV WF N R +
Sbjct: 43 ITVSQVSNWFGNKRIRYKKN 62
>2gsm_B Cytochrome C oxidase subunit 2; transmembrane protein complex,
oxidoreductase; HET: DMU HEA TRD; 2.00A {Rhodobacter
sphaeroides} SCOP: b.6.1.2 f.17.2.1 PDB: 3dtu_B*
3fye_B* 3fyi_B* 3omi_B* 3om3_B* 3oma_B* 3omn_B* 1m56_B*
1m57_B*
Length = 262
Score = 23.4 bits (51), Expect = 9.5
Identities = 4/12 (33%), Positives = 8/12 (66%)
Query: 45 IEAVWTVLSALI 56
+E WT++ +I
Sbjct: 75 LEIAWTIVPIVI 86
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
0.323 0.134 0.432
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: 1,130,000
Number of extensions: 51344
Number of successful extensions: 142
Number of sequences better than 10.0: 1
Number of HSP's gapped: 142
Number of HSP's successfully gapped: 78
Length of query: 74
Length of database: 6,701,793
Length adjustment: 44
Effective length of query: 30
Effective length of database: 5,473,269
Effective search space: 164198070
Effective search space used: 164198070
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 (22.0 bits)
S2: 51 (23.3 bits)