RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16800
(221 letters)
>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 = 124 bits (312), Expect = 5e-37
Identities = 53/76 (69%), Positives = 62/76 (81%)
Query: 122 PPPAALSQHQSLLNNSGRTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKI 181
P A +S+ + RTNFT +QLTELEKEFHFNKYL+RARR+EIA+ L+LNETQVKI
Sbjct: 21 PKTAKVSEPGLGSPSGLRTNFTTRQLTELEKEFHFNKYLSRARRVEIAATLELNETQVKI 80
Query: 182 WFQNRRMKQKKRIKEG 197
WFQNRRMKQKKR +EG
Sbjct: 81 WFQNRRMKQKKREREG 96
>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 = 112 bits (283), Expect = 4e-33
Identities = 29/55 (52%), Positives = 42/55 (76%)
Query: 138 GRTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
RT F+++QL L++EF+ N+YLT RR +++S L LNE Q+KIWF+N+R K KK
Sbjct: 6 PRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFKNKRAKIKK 60
>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 = 112 bits (282), Expect = 6e-33
Identities = 30/56 (53%), Positives = 40/56 (71%)
Query: 138 GRTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKR 193
RT FT QL LEKEF+ Y++R RR E+A+ L L E+ +K+WFQNRRMK K++
Sbjct: 4 YRTAFTRDQLGRLEKEFYKENYVSRPRRCELAAQLNLPESTIKVWFQNRRMKDKRQ 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 = 112 bits (281), Expect = 1e-32
Identities = 25/59 (42%), Positives = 37/59 (62%)
Query: 138 GRTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRIKE 196
RT FT+ Q+ ELE+ F +YLT R ++++ L L QVKIWF+NRR + K + +
Sbjct: 5 TRTTFTSSQIAELEQHFLQGRYLTAPRLADLSAKLALGTAQVKIWFKNRRRRHKIQSDQ 63
>2r5y_A Homeotic protein sex combs reduced; homeodomain; HET: DNA; 2.60A
{Drosophila melanogaster} PDB: 2r5z_A*
Length = 88
Score = 111 bits (279), Expect = 4e-32
Identities = 40/58 (68%), Positives = 44/58 (75%)
Query: 138 GRTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRIK 195
RT++T Q ELEKEFHFN+YLTR RRIEIA L L E Q+KIWFQNRRMK KK K
Sbjct: 31 QRTSYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWKKEHK 88
>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 = 110 bits (277), Expect = 5e-32
Identities = 39/68 (57%), Positives = 44/68 (64%)
Query: 128 SQHQSLLNNSGRTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRR 187
+ L GR +T Q ELEKEFH N YLTR RRIE+A L L E Q+KIWFQNRR
Sbjct: 13 IAGTNGLRRRGRQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALSLTERQIKIWFQNRR 72
Query: 188 MKQKKRIK 195
MK KK I+
Sbjct: 73 MKLKKEIQ 80
>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 = 107 bits (268), Expect = 9e-31
Identities = 40/63 (63%), Positives = 44/63 (69%)
Query: 134 LNNSGRTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKR 193
+ GR +T Q ELEKEFHFN+YLTR RRIEIA L L E Q+KIWFQNRRMK KK
Sbjct: 1 MRKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWKKE 60
Query: 194 IKE 196
K
Sbjct: 61 NKT 63
>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 = 107 bits (268), Expect = 1e-30
Identities = 28/59 (47%), Positives = 37/59 (62%)
Query: 138 GRTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRIKE 196
G+ F+N Q ELEK+F KYL+ R +A +LQL+E QVK WFQNRR K ++
Sbjct: 10 GQVRFSNDQTIELEKKFETQKYLSPPERKRLAKMLQLSERQVKTWFQNRRAKWRRSGPS 68
>2h1k_A IPF-1, pancreatic and duodenal homeobox 1, homeodomain; protein-DNA
complex, transcription/DNA complex; 2.42A {Mesocricetus
auratus}
Length = 63
Score = 106 bits (267), Expect = 1e-30
Identities = 35/55 (63%), Positives = 42/55 (76%)
Query: 138 GRTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
RT +T QL ELEKEF FNKY++R RR+E+A +L L E +KIWFQNRRMK KK
Sbjct: 6 TRTAYTRAQLLELEKEFLFNKYISRPRRVELAVMLNLTERHIKIWFQNRRMKWKK 60
>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 = 105 bits (264), Expect = 5e-30
Identities = 30/59 (50%), Positives = 36/59 (61%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRIKEG 197
RT FT QL LEK F KYL+ RI++A L L++ QVK W+QNRRMK KK
Sbjct: 21 RTVFTELQLMGLEKRFEKQKYLSTPDRIDLAESLGLSQLQVKTWYQNRRMKWKKSGPSS 79
>1ig7_A Homeotic protein MSX-1; helix-turn-helix, transcription/DNA
complex; 2.20A {Mus musculus} SCOP: a.4.1.1
Length = 58
Score = 104 bits (262), Expect = 6e-30
Identities = 31/54 (57%), Positives = 37/54 (68%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
RT FT QL LE++F +YL+ A R E +S L L ETQVKIWFQNRR K K+
Sbjct: 4 RTPFTTAQLLALERKFRQKQYLSIAERAEFSSSLSLTETQVKIWFQNRRAKAKR 57
>3a01_A Homeodomain-containing protein; homeodomain, protein-DNA complex,
DNA-binding, homeobox, NUC developmental protein; 2.70A
{Drosophila melanogaster}
Length = 93
Score = 103 bits (259), Expect = 3e-29
Identities = 29/60 (48%), Positives = 38/60 (63%)
Query: 138 GRTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRIKEG 197
RT+FT Q+ ELEK FH KYL A R +A L++ + QVK WFQNRR K +++ E
Sbjct: 20 PRTSFTRIQVAELEKRFHKQKYLASAERAALARGLKMTDAQVKTWFQNRRTKWRRQTAEE 79
>2djn_A Homeobox protein DLX-5; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 70
Score = 102 bits (256), Expect = 7e-29
Identities = 26/59 (44%), Positives = 36/59 (61%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRIKEG 197
RT +++ QL L++ F +YL R E+A+ L L +TQVKIWFQN+R K KK
Sbjct: 11 RTIYSSFQLAALQRRFQKTQYLALPERAELAASLGLTQTQVKIWFQNKRSKIKKSGPSS 69
>2l9r_A Homeobox protein NKX-3.1; structural genomics, northeast structural
genomics consortiu PSI-biology, protein structure
initiative; NMR {Homo sapiens}
Length = 69
Score = 102 bits (255), Expect = 8e-29
Identities = 27/61 (44%), Positives = 39/61 (63%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRIKEGI 198
++ ++ Q+ ELE++F KYL+ R +A L+L ETQVKIWFQNRR K K++
Sbjct: 8 HSHMSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRRYKTKRKQLSSE 67
Query: 199 L 199
L
Sbjct: 68 L 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 = 100 bits (251), Expect = 4e-28
Identities = 37/59 (62%), Positives = 41/59 (69%)
Query: 138 GRTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRIKE 196
R +T Q ELEKEF FN YLTR RR E+A +L L E QVKIWFQNRRMK KK K+
Sbjct: 16 KRCPYTKHQTLELEKEFLFNMYLTRDRRYEVARLLNLTERQVKIWFQNRRMKMKKINKD 74
>2vi6_A Homeobox protein nanog; homeodomain, DNA-binding, transcription,
transcription facto developmental protein, transcription
regulation, NUC homeobox; 2.6A {Mus musculus}
Length = 62
Score = 99.7 bits (249), Expect = 6e-28
Identities = 25/55 (45%), Positives = 35/55 (63%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKR 193
RT F+ QL L+ F KYL+ + E++S+L L+ QVK WFQN+RMK K+
Sbjct: 7 RTVFSQAQLCALKDRFQKQKYLSLQQMQELSSILNLSYKQVKTWFQNQRMKCKRW 61
>2kt0_A Nanog, homeobox protein nanog; homeodomain, structural genomics,
protein structure initiative, PSI, center for eukaryotic
structural genomics; NMR {Homo sapiens}
Length = 84
Score = 99.9 bits (249), Expect = 9e-28
Identities = 25/58 (43%), Positives = 36/58 (62%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRIKE 196
RT F++ QL L F KYL+ + E++++L L+ QVK WFQN+RMK K+ K
Sbjct: 26 RTVFSSTQLCVLNDRFQRQKYLSLQQMQELSNILNLSYKQVKTWFQNQRMKSKRWQKN 83
>3a03_A T-cell leukemia homeobox protein 2; homeodomain, developmental
protein, DNA-binding, N gene regulation; 1.54A {Homo
sapiens}
Length = 56
Score = 97.8 bits (244), Expect = 3e-27
Identities = 24/54 (44%), Positives = 35/54 (64%)
Query: 140 TNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKR 193
T+F+ Q+ ELE+ F KYL A R +A L++ + QVK WFQNRR K +++
Sbjct: 2 TSFSRSQVLELERRFLRQKYLASAERAALAKALRMTDAQVKTWFQNRRTKWRRQ 55
>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 = 97.9 bits (244), Expect = 5e-27
Identities = 27/59 (45%), Positives = 35/59 (59%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRIKEG 197
R FT Q ELE+ F +YL+ R +AS+++L TQVKIWFQN R K K+ E
Sbjct: 13 RVLFTKAQTYELERRFRQQRYLSAPEREHLASLIRLTPTQVKIWFQNHRYKTKRAQNEK 71
>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 = 97.6 bits (243), Expect = 6e-27
Identities = 25/59 (42%), Positives = 40/59 (67%)
Query: 138 GRTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRIKE 196
R ++ QL ELE+E+ NK++T+ +R +I++ L+E Q+ IWFQNRR+K+KK
Sbjct: 10 KRIPYSKGQLRELEREYAANKFITKDKRRKISAATSLSERQITIWFQNRRVKEKKSGPS 68
>1ftt_A TTF-1 HD, thyroid transcription factor 1 homeodomain; DNA binding
protein; NMR {Rattus norvegicus} SCOP: a.4.1.1
Length = 68
Score = 96.6 bits (241), Expect = 1e-26
Identities = 27/59 (45%), Positives = 37/59 (62%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRIKEG 197
R F+ Q+ ELE+ F KYL+ R +AS++ L TQVKIWFQN R K K++ K+
Sbjct: 6 RVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQVKIWFQNHRYKMKRQAKDK 64
>2l7z_A Homeobox protein HOX-A13; gene regulation; NMR {Homo sapiens} PDB:
2ld5_A*
Length = 73
Score = 96.8 bits (241), Expect = 1e-26
Identities = 28/59 (47%), Positives = 41/59 (69%)
Query: 138 GRTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRIKE 196
R +T QL ELE+E+ NK++T+ +R I++ L+E QV IWFQNRR+K+KK I +
Sbjct: 10 KRVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQVTIWFQNRRVKEKKVINK 68
>3rkq_A Homeobox protein NKX-2.5; helix-turn-helix, DNA binding, nucleus,
transcription-DNA CO; 1.70A {Homo sapiens}
Length = 58
Score = 95.8 bits (239), Expect = 2e-26
Identities = 28/53 (52%), Positives = 36/53 (67%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQK 191
R F+ Q+ ELE+ F +YL+ R ++ASVL+L TQVKIWFQNRR K K
Sbjct: 6 RVLFSQAQVYELERRFKQQRYLSAPERDQLASVLKLTSTQVKIWFQNRRYKSK 58
>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 = 89.9 bits (224), Expect = 3e-24
Identities = 14/53 (26%), Positives = 28/53 (52%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQK 191
+++ + + LE+ F + L + E+A + QV++WF N+RM+ K
Sbjct: 9 KSSISPQARAFLEEVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMRSK 61
>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 = 82.7 bits (204), Expect = 3e-20
Identities = 18/54 (33%), Positives = 27/54 (50%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
RT+ LEK F N+ T IA L + + +++WF NRR K+K+
Sbjct: 105 RTSIETNIRVALEKSFMENQKPTSEDITLIAEQLNMEKEVIRVWFSNRRQKEKR 158
>2xsd_C POU domain, class 3, transcription factor 1; transcription-DNA
complex, SOX; 2.05A {Mus musculus}
Length = 164
Score = 74.7 bits (183), Expect = 3e-17
Identities = 17/59 (28%), Positives = 25/59 (42%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRIKEG 197
RT+ LE F + +A LQL + V++WF NRR K+K+
Sbjct: 103 RTSIEVGVKGALESHFLKCPKPSAHEITGLADSLQLEKEVVRVWFCNRRQKEKRMTPAA 161
>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 = 74.3 bits (182), Expect = 4e-17
Identities = 15/54 (27%), Positives = 27/54 (50%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
RT + LE+ F + + + +A L L + V++WF NRR ++K+
Sbjct: 91 RTTISIAAKDALERHFGEHSKPSSQEIMRMAEELNLEKEVVRVWFCNRRQREKR 144
>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 = 71.0 bits (174), Expect = 1e-16
Identities = 18/58 (31%), Positives = 30/58 (51%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRIKE 196
RT T +QL L +++ + TR IA + L + V++WFQN R +++K
Sbjct: 21 RTTITPEQLEILYQKYLLDSNPTRKMLDHIAHEVGLKKRVVQVWFQNTRARERKSGPS 78
>2dn0_A Zinc fingers and homeoboxes protein 3; triple homeobox 1 protein,
KIAA0395, TIX1, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 76
Score = 70.5 bits (173), Expect = 1e-16
Identities = 12/57 (21%), Positives = 28/57 (49%)
Query: 137 SGRTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKR 193
+ +++QL+ L+ F N++ ++ + V L+ +V+ WF +RR +
Sbjct: 10 IYKNKKSHEQLSALKGSFCRNQFPGQSEVEHLTKVTGLSTREVRKWFSDRRYHCRNL 66
>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 = 70.1 bits (172), Expect = 2e-16
Identities = 19/58 (32%), Positives = 29/58 (50%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRIKE 196
RT FT+ QL L+ F N Y +++++L L + +WFQN R K +K
Sbjct: 11 RTRFTDYQLRVLQDFFDANAYPKDDEFEQLSNLLNLPTRVIVVWFQNARQKARKSGPS 68
>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 = 67.4 bits (165), Expect = 2e-15
Identities = 16/59 (27%), Positives = 27/59 (45%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRIKEG 197
RT T+ QL L + F N + + E+A L + +K WF+N K+++
Sbjct: 11 RTRITDDQLRVLRQYFDINNSPSEEQIKEMADKSGLPQKVIKHWFRNTLFKERQSGPSS 69
>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 = 66.5 bits (163), Expect = 4e-15
Identities = 24/57 (42%), Positives = 33/57 (57%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRIK 195
FT+ QL ELEK F Y R E+A + L E ++++WFQNRR K +K+ K
Sbjct: 3 HMTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQVWFQNRRAKWRKQEK 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 = 66.2 bits (162), Expect = 5e-15
Identities = 23/59 (38%), Positives = 31/59 (52%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRIKEG 197
RT FT Q+ LE F N Y ++A L L +++IWFQNRR K K+ +E
Sbjct: 5 RTAFTQNQIEVLENVFRVNCYPGIDILEDLAQKLNLELDRIQIWFQNRRAKLKRSHRES 63
>2hi3_A Homeodomain-only protein; transcription; NMR {Mus musculus} SCOP:
a.4.1.1
Length = 73
Score = 65.9 bits (161), Expect = 9e-15
Identities = 15/56 (26%), Positives = 25/56 (44%), Gaps = 1/56 (1%)
Query: 139 RTNFTNKQLTELEKEFH-FNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKR 193
+ T Q+ LE F+ NK+ IA+ L E Q + WF+ R + ++
Sbjct: 6 VSGPTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQKWFKQRLAEWRRS 61
>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 = 65.1 bits (159), Expect = 1e-14
Identities = 17/55 (30%), Positives = 27/55 (49%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKR 193
RT KQL L + N + ++ + L+ +++WFQN+R K KKR
Sbjct: 7 RTVLNEKQLHTLRTCYAANPRPDALMKEQLVEMTGLSPRVIRVWFQNKRCKDKKR 61
>3l1p_A POU domain, class 5, transcription factor 1; POU, transcription
factor DNA complex, pore, stem cells; HET: DNA; 2.80A
{Mus musculus} PDB: 1ocp_A
Length = 155
Score = 67.4 bits (164), Expect = 1e-14
Identities = 18/54 (33%), Positives = 28/54 (51%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
RT+ N+ LE F + + + IA+ L L + V++WF NRR K K+
Sbjct: 100 RTSIENRVRWSLETMFLKSPKPSLQQITHIANQLGLEKDVVRVWFSNRRQKGKR 153
>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 = 65.0 bits (159), Expect = 2e-14
Identities = 26/57 (45%), Positives = 38/57 (66%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRIK 195
RT+FT++QL +LE F N+Y + R EIA L E +V++WF+NRR K +KR +
Sbjct: 7 RTHFTSQQLQQLEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRKREE 63
>2d5v_A Hepatocyte nuclear factor 6; transcription factor,
transcription-DNA complex; 2.00A {Rattus norvegicus}
PDB: 1s7e_A
Length = 164
Score = 66.8 bits (162), Expect = 4e-14
Identities = 17/58 (29%), Positives = 26/58 (44%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRIKE 196
R FT+ Q L F NK ++ +I I+ L L + V +F N R + + E
Sbjct: 101 RLVFTDVQRRTLHAIFKENKRPSKELQITISQQLGLELSTVSNFFMNARRRSLDKWLE 158
>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 = 66.2 bits (161), Expect = 4e-14
Identities = 18/54 (33%), Positives = 25/54 (46%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
RT+FT + + L F N T E+A L + V++WF NRR K
Sbjct: 97 RTSFTPQAIEALNAYFEKNPLPTGQEITEMAKELNYDREVVRVWFSNRRQTLKN 150
>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 = 64.0 bits (156), Expect = 5e-14
Identities = 15/57 (26%), Positives = 28/57 (49%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRIK 195
RT+F + QL ++ F N ++A L + +++WFQN R K ++ +
Sbjct: 11 RTSFKHHQLRTMKSYFAINHNPDAKDLKQLAQKTGLTKRVLQVWFQNARAKFRRNLL 67
>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 = 62.7 bits (153), Expect = 1e-13
Identities = 22/57 (38%), Positives = 33/57 (57%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRIK 195
RT FT++QL LE F KY R ++A + L E +V++WF+NRR K ++
Sbjct: 11 RTIFTDEQLEALENLFQETKYPDVGTREQLARKVHLREEKVEVWFKNRRAKWRRSGP 67
>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 = 63.2 bits (154), Expect = 1e-13
Identities = 22/57 (38%), Positives = 33/57 (57%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRIK 195
RT F+ QL ELE+ F +Y R E+A L E ++++WFQNRR + +K+
Sbjct: 22 RTTFSASQLDELERAFERTQYPDIYTREELAQRTNLTEARIQVWFQNRRARLRKQHT 78
>3nau_A Zinc fingers and homeoboxes protein 2; ZHX2, corepressor,
homeodomain, domain swapping, structural oxford protein
production facility, OPPF; 2.70A {Homo sapiens}
Length = 66
Score = 61.7 bits (150), Expect = 2e-13
Identities = 13/70 (18%), Positives = 29/70 (41%), Gaps = 5/70 (7%)
Query: 127 LSQHQSLLNNSGRTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNR 186
++ H T +Q+ L+ F +++ A + V L +++K WF +
Sbjct: 1 MAHHHH-----HHRKKTKEQIAHLKASFLQSQFPDDAEVYRLIEVTGLARSEIKKWFSDH 55
Query: 187 RMKQKKRIKE 196
R + ++ I
Sbjct: 56 RYRCQRGIVH 65
>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 = 62.1 bits (151), Expect = 2e-13
Identities = 22/59 (37%), Positives = 35/59 (59%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRIKEG 197
RT FT QL LE F +Y R E+A + L E++V++WF+NRR K +++ ++
Sbjct: 11 RTTFTRAQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQVWFKNRRAKCRQQQQQQ 69
>2cue_A Paired box protein PAX6; homeobox domain, transcription factor,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
a.4.1.1
Length = 80
Score = 61.6 bits (150), Expect = 5e-13
Identities = 22/59 (37%), Positives = 34/59 (57%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRIKEG 197
RT+FT +Q+ LEKEF Y R +A+ + L E ++++WF NRR K ++ K
Sbjct: 11 RTSFTQEQIEALEKEFERTHYPDVFARERLAAKIDLPEARIQVWFSNRRAKWRREEKLR 69
>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 = 58.9 bits (142), Expect = 6e-12
Identities = 19/74 (25%), Positives = 31/74 (41%), Gaps = 15/74 (20%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVL---------------QLNETQVKIWF 183
R + + L +E F+ N+Y A+R EIA+ ++ +V WF
Sbjct: 11 RFTWRKECLAVMESYFNENQYPDEAKREEIANACNAVIQKPGKKLSDLERVTSLKVYNWF 70
Query: 184 QNRRMKQKKRIKEG 197
NRR + K+R
Sbjct: 71 ANRRKEIKRRANIA 84
>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 = 57.9 bits (140), Expect = 7e-12
Identities = 13/59 (22%), Positives = 24/59 (40%), Gaps = 1/59 (1%)
Query: 139 RTNFTNKQLTELEKEFH-FNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRIKE 196
RT + + L L+ H Y + +++ L L + + +FQN+R K
Sbjct: 11 RTKISLEALGILQSFIHDVGLYPDQEAIHTLSAQLDLPKHTIIKFFQNQRYHVKHSGPS 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 = 57.8 bits (140), Expect = 9e-12
Identities = 15/56 (26%), Positives = 24/56 (42%), Gaps = 1/56 (1%)
Query: 139 RTNFTNKQLTELEKEFH-FNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKR 193
T Q+ LE F+ NK+ IA+ L E Q + WF+ R + ++
Sbjct: 5 AATMTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQKWFKQRLAEWRRS 60
>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 = 55.0 bits (132), Expect = 2e-10
Identities = 12/50 (24%), Positives = 22/50 (44%)
Query: 143 TNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
T Q+ LE F + + T+A + +L+ ++ WF RR +
Sbjct: 21 TQGQVKILEDSFLKSSFPTQAELDRLRVETKLSRREIDSWFSERRKLRDS 70
>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 = 52.6 bits (126), Expect = 8e-10
Identities = 12/54 (22%), Positives = 18/54 (33%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
+QL LE F N + S ++ ++ WF RR K
Sbjct: 11 YKERAPEQLRALESSFAQNPLPLDEELDRLRSETKMTRREIDSWFSERRKKVNA 64
>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 = 52.7 bits (126), Expect = 1e-09
Identities = 12/64 (18%), Positives = 27/64 (42%)
Query: 143 TNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRIKEGILIGV 202
T +QL L+ F + LT + + +L ++ WF ++ + + ++ +
Sbjct: 19 TAEQLRVLQASFLNSSVLTDEELNRLRAQTKLTRREIDAWFTEKKKSKALKEEKMEIDES 78
Query: 203 GEGS 206
GS
Sbjct: 79 NAGS 82
>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 = 45.2 bits (107), Expect = 4e-07
Identities = 13/51 (25%), Positives = 23/51 (45%), Gaps = 1/51 (1%)
Query: 143 TNKQLTELEKEF-HFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
+ LEK F KY R ++ L + +++ WF++RR + K
Sbjct: 16 KVEPNDTLEKVFVSVTKYPDEKRLKGLSKQLDWSVRKIQCWFRHRRNQDKP 66
>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 = 44.0 bits (103), Expect = 2e-06
Identities = 15/86 (17%), Positives = 29/86 (33%), Gaps = 5/86 (5%)
Query: 107 SPSTDYTTPLTALKYPPPAALSQHQSLLNNSGRTNFTNKQLTELEKEFHFNKYLTRARRI 166
+ + + + + PA S T +QL L+ F ++ +
Sbjct: 2 AHHHHHHSSGLEVLFQGPAPKSGSTG-----KICKKTPEQLHMLKSAFVRTQWPSPEEYD 56
Query: 167 EIASVLQLNETQVKIWFQNRRMKQKK 192
++A L T + WF + R K
Sbjct: 57 KLAKESGLARTDIVSWFGDTRYAWKN 82
>1lfb_A Liver transcription factor (LFB1); transcription regulation; 2.80A
{Rattus norvegicus} SCOP: a.4.1.1 PDB: 2lfb_A
Length = 99
Score = 43.3 bits (101), Expect = 4e-06
Identities = 13/78 (16%), Positives = 23/78 (29%), Gaps = 21/78 (26%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVL---------------------QLNET 177
R + L + + K ++ R + + E
Sbjct: 13 RFKWGPASQQILFQAYERQKNPSKEERETLVEECNRAECIQRGVSPSQAQGLGSNLVTEV 72
Query: 178 QVKIWFQNRRMKQKKRIK 195
+V WF NRR ++ R K
Sbjct: 73 RVYNWFANRRKEEAFRHK 90
>2h8r_A Hepatocyte nuclear factor 1-beta; trasncription factor, POU, homeo,
protein-DNA, human disease; 3.20A {Homo sapiens}
Length = 221
Score = 45.0 bits (105), Expect = 5e-06
Identities = 12/76 (15%), Positives = 22/76 (28%), Gaps = 21/76 (27%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVL---------------------QLNET 177
R + L + + K ++ R + + E
Sbjct: 146 RFKWGPASQQILYQAYDRQKNPSKEEREALVEECNRAECLQRGVSPSKAHGLGSNLVTEV 205
Query: 178 QVKIWFQNRRMKQKKR 193
+V WF NRR ++ R
Sbjct: 206 RVYNWFANRRKEEAFR 221
>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 = 44.1 bits (103), Expect = 9e-06
Identities = 12/76 (15%), Positives = 22/76 (28%), Gaps = 21/76 (27%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVL---------------------QLNET 177
R + L + + K ++ R + + E
Sbjct: 119 RFKWGPASQQILFQAYERQKNPSKEERETLVEECNRAECIQRGVSPSQAQGLGSNLVTEV 178
Query: 178 QVKIWFQNRRMKQKKR 193
+V WF NRR ++ R
Sbjct: 179 RVYNWFANRRKEEAFR 194
>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 = 39.0 bits (91), Expect = 5e-05
Identities = 13/51 (25%), Positives = 23/51 (45%), Gaps = 1/51 (1%)
Query: 143 TNKQLTELEKEF-HFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
T + LEK F K+ R ++ L + ++ WF+ RR ++K
Sbjct: 8 TAQPNAILEKVFTAITKHPDEKRLEGLSKQLDWDVRSIQRWFRQRRNQEKP 58
>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 = 39.2 bits (91), Expect = 6e-05
Identities = 12/56 (21%), Positives = 22/56 (39%)
Query: 137 SGRTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
S T +QL L+ F ++ R ++ + L ++ WF + R K
Sbjct: 5 SSGKRKTKEQLAILKSFFLQCQWARREDYQKLEQITGLPRPEIIQWFGDTRYALKH 60
>2e19_A Transcription factor 8; homeobox domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 64
Score = 37.3 bits (86), Expect = 2e-04
Identities = 12/58 (20%), Positives = 21/58 (36%)
Query: 135 NNSGRTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
+ S L+ L+ + N + +IA + L VK WF+ + Q
Sbjct: 3 SGSSGQPPLKNLLSLLKAYYALNAQPSAEELSKIADSVNLPLDVVKKWFEKMQAGQIS 60
>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 = 36.5 bits (83), Expect = 7e-04
Identities = 16/62 (25%), Positives = 29/62 (46%), Gaps = 4/62 (6%)
Query: 139 RTNFTNKQLTELEKEFH----FNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRI 194
RT F+++ L L+K + + R + +A+ L ++ V+ W NRR K +
Sbjct: 12 RTQFSDRDLATLKKYWDNGMTSLGSVCREKIEAVATELNVDCEIVRTWIGNRRRKYRLMG 71
Query: 195 KE 196
E
Sbjct: 72 IE 73
>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 = 34.6 bits (79), Expect = 0.001
Identities = 14/17 (82%), Positives = 16/17 (94%)
Query: 178 QVKIWFQNRRMKQKKRI 194
Q+KIWFQNRRMK KKR+
Sbjct: 2 QIKIWFQNRRMKWKKRV 18
>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 = 37.7 bits (87), Expect = 0.002
Identities = 20/78 (25%), Positives = 34/78 (43%), Gaps = 21/78 (26%)
Query: 99 LGVHPHPTSPSTDYTTPLTALKYPPPAALSQHQSLLNNSGR-------TNFTNKQLTELE 151
+GV + P T+L PP+ L SL NN G +N T +Q+ +
Sbjct: 306 IGVRCY-------EAYPNTSL---PPSILED--SLENNEGVPSPMLSISNLTQEQVQDYV 353
Query: 152 KEFHFNKYLTRARRIEIA 169
+ N +L +++EI+
Sbjct: 354 NKT--NSHLPAGKQVEIS 369
Score = 28.5 bits (63), Expect = 2.4
Identities = 33/184 (17%), Positives = 55/184 (29%), Gaps = 64/184 (34%)
Query: 44 PGEGREGEERDFSARDV---------KTIGIFFCVFSLSSLRDLFPVKGEI---GVTKVQ 91
G G + + +A+DV T G FS+ + PV I G +
Sbjct: 1629 QGMGMDLYKTSKAAQDVWNRADNHFKDTYG-----FSILDIVINNPVNLTIHFGGEKGKR 1683
Query: 92 IPSELSPLGVHPHPTSPST------DYTTPLTALKYPPPAALSQHQSLLNNSGRTNFTNK 145
I S + + T+ + + LL+ T FT
Sbjct: 1684 IRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSE------KGLLS---ATQFT-- 1732
Query: 146 Q----LTE------LEKEFHFNK-----------Y--LTRARRIEIASVLQLNETQVKIW 182
Q L E L+ + Y L + +A V+ + E+ V++
Sbjct: 1733 QPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALA-S----LADVMSI-ESLVEVV 1786
Query: 183 FQNR 186
F R
Sbjct: 1787 FY-R 1789
>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 = 33.4 bits (77), Expect = 0.005
Identities = 12/39 (30%), Positives = 16/39 (41%)
Query: 155 HFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKR 193
N YL + L+ Q+K W NRR K+K
Sbjct: 21 IENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKTI 59
>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 = 33.6 bits (77), Expect = 0.008
Identities = 11/39 (28%), Positives = 15/39 (38%)
Query: 155 HFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKR 193
N YL + L+ Q+K W RR K+K
Sbjct: 25 IENPYLDTKGLENLMKNTSLSRIQIKNWVAARRAKEKTI 63
>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 = 33.3 bits (76), Expect = 0.010
Identities = 17/56 (30%), Positives = 23/56 (41%), Gaps = 3/56 (5%)
Query: 139 RTNFTNKQLTELEKEF---HFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQK 191
FT + + LE F N YL + L+ Q+K W NRR K+K
Sbjct: 31 GHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEK 86
>2ys9_A Homeobox and leucine zipper protein homez; homeodomain, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens}
Length = 70
Score = 32.9 bits (74), Expect = 0.010
Identities = 9/55 (16%), Positives = 22/55 (40%)
Query: 138 GRTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
+ LE+ + ++ L +++ +L+ QV WF +R + +
Sbjct: 9 LPIPPPPPDIQPLERYWAAHQQLRETDIPQLSQASRLSTQQVLDWFDSRLPQPAE 63
>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 = 32.5 bits (73), Expect = 0.018
Identities = 11/59 (18%), Positives = 25/59 (42%)
Query: 135 NNSGRTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKR 193
++ N ++ L+ + N ++I+ + L + VK WF+ R++ Q
Sbjct: 5 SSGSPINPYKDHMSVLKAYYAMNMEPNSDELLKISIAVGLPQEFVKEWFEQRKVYQYSN 63
>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 = 33.2 bits (76), Expect = 0.049
Identities = 20/98 (20%), Positives = 37/98 (37%), Gaps = 12/98 (12%)
Query: 102 HPHPTSPS-TDYTTPLTAL-------KYPPPAALSQHQSLLNNSGRTNFTNKQLTELEKE 153
P P + + + + AAL+ Q+ + + LE+
Sbjct: 328 EIMPNIPQMSAFWYAVRTAVINAASGRQTVDAALAAAQTAAAA----AISPQARAFLEQV 383
Query: 154 FHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQK 191
F + L + E+A + QV++WF N+RM+ K
Sbjct: 384 FRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMRSK 421
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 29.7 bits (66), Expect = 0.57
Identities = 9/63 (14%), Positives = 20/63 (31%), Gaps = 9/63 (14%)
Query: 1 MDEKEERQRRGSRSRKDDENKGGVGGEVGKVGEEMKEKEEERLPGEGREGEERDFSARDV 60
+D + + R + + + E + E EK + R ++ + D
Sbjct: 101 LDAASKVMEQEWREKAKKDLE-----EWNQRQSEQVEKNKI----NNRIADKAFYQQPDA 151
Query: 61 KTI 63
I
Sbjct: 152 DII 154
Score = 28.6 bits (63), Expect = 1.2
Identities = 9/31 (29%), Positives = 17/31 (54%), Gaps = 6/31 (19%)
Query: 168 IASVLQLNE--TQVKIWFQNRRMKQKKRIKE 196
IA +L + ++ W R +Q+KR++E
Sbjct: 74 IAQADRLTQEPESIRKW----REEQRKRLQE 100
>3k2a_A Homeobox protein MEIS2; homeobox domain, DNA-binding,
transcription, nucleus, phosphoprotein, DNA bindi
protein; 1.95A {Homo sapiens}
Length = 67
Score = 26.9 bits (60), Expect = 1.3
Identities = 10/43 (23%), Positives = 20/43 (46%), Gaps = 1/43 (2%)
Query: 155 HF-NKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRIKE 196
H + Y + ++ ++A L QV WF N R + + + +
Sbjct: 20 HLTHPYPSEEQKKQLAQDTGLTILQVNNWFINARRRIVQPMID 62
>3qye_A TBC1 domain family member 1; rabgap, RAB, myocytes, hydrolase
activator; 2.20A {Homo sapiens} PDB: 3qyb_A
Length = 331
Score = 28.6 bits (64), Expect = 1.7
Identities = 23/98 (23%), Positives = 36/98 (36%), Gaps = 13/98 (13%)
Query: 66 FFCVFSLS-----SLR--DLFPVKGEIGVTKVQIPSELSPLGVHPHPTSPSTDYTTPLTA 118
F +F+ R D+ ++G +V LS LG H + T +
Sbjct: 229 FLTMFASQFPLGFVARVFDMIFLQGT----EVIFKVALSLLGSHKPLILQHENLETIVDF 284
Query: 119 LK-YPPPAALSQHQSLLNNSGRTNFTNKQLTELEKEFH 155
+K P L Q + +N + KQL E E+H
Sbjct: 285 IKSTLPNLGLVQMEKTINQVFEMDIA-KQLQAYEVEYH 321
>1du6_A PBX1, homeobox protein PBX1; homeodomain, gene regulation; NMR {Mus
musculus} SCOP: a.4.1.1
Length = 64
Score = 26.5 bits (59), Expect = 1.7
Identities = 12/38 (31%), Positives = 20/38 (52%)
Query: 155 HFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
N Y + + E+A + +QV WF N+R++ KK
Sbjct: 26 LSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKK 63
>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 = 26.7 bits (59), Expect = 2.1
Identities = 22/62 (35%), Positives = 33/62 (53%), Gaps = 5/62 (8%)
Query: 139 RTNFTNKQLTELEKEF---HF-NKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRI 194
R NF KQ TE+ E+ H N Y + + E+A + +QV WF N+R++ KK I
Sbjct: 5 RRNFN-KQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKKNI 63
Query: 195 KE 196
+
Sbjct: 64 GK 65
>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 = 26.2 bits (58), Expect = 2.8
Identities = 13/42 (30%), Positives = 22/42 (52%)
Query: 155 HFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRIKE 196
N Y + + E+A + +QV WF N+R++ KK I +
Sbjct: 24 LSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKKNIGK 65
>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 = 26.0 bits (56), Expect = 4.4
Identities = 16/78 (20%), Positives = 26/78 (33%), Gaps = 21/78 (26%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEI------ASVLQ---------------LNET 177
R + L + + K ++ R + A LQ + E
Sbjct: 10 RFKWGPASQQILYQAYDRQKNPSKEEREALVEECNRAECLQRGVSPSKAHGLGSNLVTEV 69
Query: 178 QVKIWFQNRRMKQKKRIK 195
+V WF NRR ++ R K
Sbjct: 70 RVYNWFANRRKEEAFRQK 87
>2lk2_A Homeobox protein TGIF1; NESG, structural genomics, northeast
structural genomics CON PSI-biology, transcription; NMR
{Homo sapiens}
Length = 89
Score = 25.9 bits (57), Expect = 4.5
Identities = 9/42 (21%), Positives = 17/42 (40%)
Query: 155 HFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRIKE 196
+N Y + + ++ L+ QV WF N R + +
Sbjct: 28 RYNAYPSEQEKALLSQQTHLSTLQVCNWFINARRRLLPDMLR 69
>3dty_A Oxidoreductase, GFO/IDH/MOCA family; MGCL2, tetramer, PSI-2, 11131,
NYSGXRC, structural genomics, protein structure
initiative; 2.04A {Pseudomonas syringae PV}
Length = 398
Score = 26.8 bits (59), Expect = 6.9
Identities = 6/26 (23%), Positives = 12/26 (46%), Gaps = 1/26 (3%)
Query: 185 NRRMKQKKRIKEGILIGVGEGSLMGA 210
N + + I+ + +G G S +G
Sbjct: 4 NGSRRIPQPIRWAM-VGGGSQSQIGY 28
>4akk_A Nitrate regulatory protein; transcription; 2.14A {Klebsiella
oxytoca}
Length = 423
Score = 26.8 bits (58), Expect = 7.7
Identities = 10/52 (19%), Positives = 22/52 (42%), Gaps = 1/52 (1%)
Query: 145 KQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRIKE 196
QL L+ K + +A+ + + + + E Q + M + +R+ E
Sbjct: 355 GQLASLKDALEERKLIEKAKSV-LMTYQGMQEEQAWQALRKMAMDKNQRMVE 405
>3t18_A Aminotransferase class I and II; PSI-biology, MCSG, midwest center
for structural genomics, P 5'-phosphate binding; HET:
PLP; 2.86A {Anaerococcus prevotii}
Length = 413
Score = 26.1 bits (58), Expect = 9.3
Identities = 8/40 (20%), Positives = 16/40 (40%), Gaps = 3/40 (7%)
Query: 141 NFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVK 180
+ + +LEKE F + R+ I + E ++
Sbjct: 364 DKAFDIVKDLEKENIFTIPSAKGIRVAICG---VGEEKIP 400
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.313 0.134 0.379
Gapped
Lambda K H
0.267 0.0467 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,297,920
Number of extensions: 191324
Number of successful extensions: 377
Number of sequences better than 10.0: 1
Number of HSP's gapped: 362
Number of HSP's successfully gapped: 87
Length of query: 221
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 131
Effective length of database: 4,188,903
Effective search space: 548746293
Effective search space used: 548746293
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 55 (25.6 bits)