RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15100
(165 letters)
>2djn_A Homeobox protein DLX-5; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 70
Score = 110 bits (277), Expect = 9e-33
Identities = 31/59 (52%), Positives = 43/59 (72%)
Query: 42 PESAFTYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQNPG 100
P + ++ QL AL+ +F+ T+YL++ ER LA SL LT+TQVKIWFQN+R+K KK P
Sbjct: 10 PRTIYSSFQLAALQRRFQKTQYLALPERAELAASLGLTQTQVKIWFQNKRSKIKKSGPS 68
>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 = 110 bits (276), Expect = 2e-32
Identities = 36/88 (40%), Positives = 49/88 (55%), Gaps = 11/88 (12%)
Query: 13 SSATSAKTPPVRRNRGRSPNTQTPSEDLVPESAFTYEQLVALENKFKTTRYLSVCERLNL 72
SS +S P + +GR T FT QL+ LE +F+ +YLS +R++L
Sbjct: 2 SSGSSGGEPGTKAKKGRRSRT-----------VFTELQLMGLEKRFEKQKYLSTPDRIDL 50
Query: 73 ALSLSLTETQVKIWFQNRRTKWKKQNPG 100
A SL L++ QVK W+QNRR KWKK P
Sbjct: 51 AESLGLSQLQVKTWYQNRRMKWKKSGPS 78
>1ig7_A Homeotic protein MSX-1; helix-turn-helix, transcription/DNA
complex; 2.20A {Mus musculus} SCOP: a.4.1.1
Length = 58
Score = 108 bits (272), Expect = 4e-32
Identities = 34/55 (61%), Positives = 41/55 (74%)
Query: 42 PESAFTYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKK 96
P + FT QL+ALE KF+ +YLS+ ER + SLSLTETQVKIWFQNRR K K+
Sbjct: 3 PRTPFTTAQLLALERKFRQKQYLSIAERAEFSSSLSLTETQVKIWFQNRRAKAKR 57
>2l9r_A Homeobox protein NKX-3.1; structural genomics, northeast
structural genomics consortiu PSI-biology, protein
structure initiative; NMR {Homo sapiens}
Length = 69
Score = 106 bits (266), Expect = 4e-31
Identities = 30/57 (52%), Positives = 39/57 (68%)
Query: 42 PESAFTYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQN 98
S ++ Q++ LE KF +YLS ER +LA +L LTETQVKIWFQNRR K K++
Sbjct: 7 HHSHMSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRRYKTKRKQ 63
>3a03_A T-cell leukemia homeobox protein 2; homeodomain, developmental
protein, DNA-binding, N gene regulation; 1.54A {Homo
sapiens}
Length = 56
Score = 105 bits (264), Expect = 5e-31
Identities = 26/53 (49%), Positives = 38/53 (71%)
Query: 45 AFTYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQ 97
+F+ Q++ LE +F +YL+ ER LA +L +T+ QVK WFQNRRTKW++Q
Sbjct: 3 SFSRSQVLELERRFLRQKYLASAERAALAKALRMTDAQVKTWFQNRRTKWRRQ 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 = 106 bits (265), Expect = 7e-31
Identities = 25/79 (31%), Positives = 40/79 (50%)
Query: 19 KTPPVRRNRGRSPNTQTPSEDLVPESAFTYEQLVALENKFKTTRYLSVCERLNLALSLSL 78
K P N + P + + F+ QL L ++F+ +YLS+ + L+ L+L
Sbjct: 2 KQPTSAENSVAKKEDKVPVKKQKTRTVFSSTQLCVLNDRFQRQKYLSLQQMQELSNILNL 61
Query: 79 TETQVKIWFQNRRTKWKKQ 97
+ QVK WFQN+R K K+
Sbjct: 62 SYKQVKTWFQNQRMKSKRW 80
>2vi6_A Homeobox protein nanog; homeodomain, DNA-binding, transcription,
transcription facto developmental protein,
transcription regulation, NUC homeobox; 2.6A {Mus
musculus}
Length = 62
Score = 105 bits (263), Expect = 9e-31
Identities = 22/56 (39%), Positives = 36/56 (64%)
Query: 42 PESAFTYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQ 97
+ F+ QL AL+++F+ +YLS+ + L+ L+L+ QVK WFQN+R K K+
Sbjct: 6 MRTVFSQAQLCALKDRFQKQKYLSLQQMQELSSILNLSYKQVKTWFQNQRMKCKRW 61
>3a01_A Homeodomain-containing protein; homeodomain, protein-DNA complex,
DNA-binding, homeobox, NUC developmental protein; 2.70A
{Drosophila melanogaster}
Length = 93
Score = 105 bits (264), Expect = 1e-30
Identities = 32/76 (42%), Positives = 45/76 (59%)
Query: 23 VRRNRGRSPNTQTPSEDLVPESAFTYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQ 82
+ R G +TP + P ++FT Q+ LE +F +YL+ ER LA L +T+ Q
Sbjct: 1 MARRIGHPYQNRTPPKRKKPRTSFTRIQVAELEKRFHKQKYLASAERAALARGLKMTDAQ 60
Query: 83 VKIWFQNRRTKWKKQN 98
VK WFQNRRTKW++Q
Sbjct: 61 VKTWFQNRRTKWRRQT 76
>3rkq_A Homeobox protein NKX-2.5; helix-turn-helix, DNA binding, nucleus,
transcription-DNA CO; 1.70A {Homo sapiens}
Length = 58
Score = 103 bits (259), Expect = 4e-30
Identities = 31/54 (57%), Positives = 34/54 (62%)
Query: 42 PESAFTYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWK 95
P F+ Q+ LE +FK RYLS ER LA L LT TQVKIWFQNRR K K
Sbjct: 5 PRVLFSQAQVYELERRFKQQRYLSAPERDQLASVLKLTSTQVKIWFQNRRYKSK 58
>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 = 103 bits (258), Expect = 6e-30
Identities = 29/56 (51%), Positives = 37/56 (66%)
Query: 45 AFTYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQNPG 100
F+ +Q + LE KF+T +YLS ER LA L L+E QVK WFQNRR KW++ P
Sbjct: 13 RFSNDQTIELEKKFETQKYLSPPERKRLAKMLQLSERQVKTWFQNRRAKWRRSGPS 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 = 103 bits (258), Expect = 7e-30
Identities = 28/56 (50%), Positives = 35/56 (62%)
Query: 42 PESAFTYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQ 97
F+ Q+ LE +FK +YLS ER +LA + LT TQVKIWFQN R K K+Q
Sbjct: 5 RRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQVKIWFQNHRYKMKRQ 60
>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 = 100 bits (252), Expect = 5e-29
Identities = 28/57 (49%), Positives = 33/57 (57%)
Query: 42 PESAFTYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQN 98
FT Q LE +F+ RYLS ER +LA + LT TQVKIWFQN R K K+
Sbjct: 12 RRVLFTKAQTYELERRFRQQRYLSAPEREHLASLIRLTPTQVKIWFQNHRYKTKRAQ 68
>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 = 91.1 bits (227), Expect = 3e-25
Identities = 15/52 (28%), Positives = 28/52 (53%)
Query: 44 SAFTYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWK 95
S+ + + LE F+ + L+ E+ +A +T QV++WF N+R + K
Sbjct: 10 SSISPQARAFLEEVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMRSK 61
>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 = 89.7 bits (223), Expect = 1e-24
Identities = 26/55 (47%), Positives = 35/55 (63%)
Query: 42 PESAFTYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKK 96
P +AF+ EQL L+ +F RYL+ R L+ L L E Q+KIWF+N+R K KK
Sbjct: 6 PRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFKNKRAKIKK 60
>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 = 88.6 bits (220), Expect = 3e-24
Identities = 23/54 (42%), Positives = 31/54 (57%)
Query: 45 AFTYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQN 98
FT Q+ LE F RYL+ +L+ L+L QVKIWF+NRR + K Q+
Sbjct: 8 TFTSSQIAELEQHFLQGRYLTAPRLADLSAKLALGTAQVKIWFKNRRRRHKIQS 61
>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 = 87.8 bits (218), Expect = 5e-24
Identities = 26/53 (49%), Positives = 34/53 (64%)
Query: 45 AFTYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQ 97
AFT +QL LE +F Y+S R LA L+L E+ +K+WFQNRR K K+Q
Sbjct: 7 AFTRDQLGRLEKEFYKENYVSRPRRCELAAQLNLPESTIKVWFQNRRMKDKRQ 59
>2h1k_A IPF-1, pancreatic and duodenal homeobox 1, homeodomain;
protein-DNA complex, transcription/DNA complex; 2.42A
{Mesocricetus auratus}
Length = 63
Score = 82.8 bits (205), Expect = 4e-22
Identities = 28/54 (51%), Positives = 38/54 (70%)
Query: 45 AFTYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQN 98
A+T QL+ LE +F +Y+S R+ LA+ L+LTE +KIWFQNRR KWKK+
Sbjct: 9 AYTRAQLLELEKEFLFNKYISRPRRVELAVMLNLTERHIKIWFQNRRMKWKKEE 62
>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 = 81.9 bits (202), Expect = 3e-21
Identities = 29/54 (53%), Positives = 35/54 (64%)
Query: 45 AFTYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQN 98
FT QL LE +F +YLS R+ +A +L L ETQVKIWFQNRR K KK+
Sbjct: 40 NFTTRQLTELEKEFHFNKYLSRARRVEIAATLELNETQVKIWFQNRRMKQKKRE 93
>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 = 80.2 bits (198), Expect = 7e-21
Identities = 29/54 (53%), Positives = 38/54 (70%)
Query: 45 AFTYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQN 98
+T Q + LE +F RYL+ R+ +A +LSLTE Q+KIWFQNRR KWKK+N
Sbjct: 8 TYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWKKEN 61
>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 = 78.7 bits (194), Expect = 3e-20
Identities = 27/56 (48%), Positives = 36/56 (64%)
Query: 45 AFTYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQNPG 100
+T Q + LE +F T YL+ R+ +A +LSLTE Q+KIWFQNRR K KK+
Sbjct: 26 TYTRYQTLELEKEFHTNHYLTRRRRIEMAHALSLTERQIKIWFQNRRMKLKKEIQA 81
>2r5y_A Homeotic protein sex combs reduced; homeodomain; HET: DNA; 2.60A
{Drosophila melanogaster} PDB: 2r5z_A*
Length = 88
Score = 78.7 bits (194), Expect = 4e-20
Identities = 31/86 (36%), Positives = 46/86 (53%), Gaps = 4/86 (4%)
Query: 17 SAKTPPV----RRNRGRSPNTQTPSEDLVPESAFTYEQLVALENKFKTTRYLSVCERLNL 72
P + +R + E +++T Q + LE +F RYL+ R+ +
Sbjct: 2 KKNPPQIYPWMKRVHLGTSTVNANGETKRQRTSYTRYQTLELEKEFHFNRYLTRRRRIEI 61
Query: 73 ALSLSLTETQVKIWFQNRRTKWKKQN 98
A +LSLTE Q+KIWFQNRR KWKK++
Sbjct: 62 AHALSLTERQIKIWFQNRRMKWKKEH 87
>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 = 77.6 bits (191), Expect = 6e-20
Identities = 20/55 (36%), Positives = 34/55 (61%)
Query: 45 AFTYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQNP 99
++ QL LE ++ ++++ +R ++ + SL+E Q+ IWFQNRR K KK P
Sbjct: 13 PYSKGQLRELEREYAANKFITKDKRRKISAATSLSERQITIWFQNRRVKEKKSGP 67
>2l7z_A Homeobox protein HOX-A13; gene regulation; NMR {Homo sapiens}
PDB: 2ld5_A*
Length = 73
Score = 76.4 bits (188), Expect = 2e-19
Identities = 21/54 (38%), Positives = 34/54 (62%)
Query: 45 AFTYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQN 98
+T QL LE ++ T ++++ +R ++ + +L+E QV IWFQNRR K KK
Sbjct: 13 PYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQVTIWFQNRRVKEKKVI 66
>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 = 76.0 bits (187), Expect = 3e-19
Identities = 27/54 (50%), Positives = 33/54 (61%)
Query: 45 AFTYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQN 98
+T Q + LE +F YL+ R +A L+LTE QVKIWFQNRR K KK N
Sbjct: 19 PYTKHQTLELEKEFLFNMYLTRDRRYEVARLLNLTERQVKIWFQNRRMKMKKIN 72
>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 = 75.5 bits (186), Expect = 4e-19
Identities = 19/54 (35%), Positives = 26/54 (48%)
Query: 46 FTYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQNP 99
FT QL L++ F Y E L+ L+L + +WFQN R K +K P
Sbjct: 14 FTDYQLRVLQDFFDANAYPKDDEFEQLSNLLNLPTRVIVVWFQNARQKARKSGP 67
>2xsd_C POU domain, class 3, transcription factor 1; transcription-DNA
complex, SOX; 2.05A {Mus musculus}
Length = 164
Score = 76.6 bits (188), Expect = 2e-18
Identities = 20/56 (35%), Positives = 27/56 (48%)
Query: 44 SAFTYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQNP 99
++ ALE+ F S E LA SL L + V++WF NRR K K+ P
Sbjct: 104 TSIEVGVKGALESHFLKCPKPSAHEITGLADSLQLEKEVVRVWFCNRRQKEKRMTP 159
>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 = 76.2 bits (187), Expect = 3e-18
Identities = 19/85 (22%), Positives = 37/85 (43%)
Query: 14 SATSAKTPPVRRNRGRSPNTQTPSEDLVPESAFTYEQLVALENKFKTTRYLSVCERLNLA 73
+ S+ + + SP + S ++ VALE F + + + +A
Sbjct: 76 ANLSSDSSLSSPSALNSPGIEGLSRRRKKRTSIETNIRVALEKSFMENQKPTSEDITLIA 135
Query: 74 LSLSLTETQVKIWFQNRRTKWKKQN 98
L++ + +++WF NRR K K+ N
Sbjct: 136 EQLNMEKEVIRVWFSNRRQKEKRIN 160
>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 = 73.1 bits (180), Expect = 3e-18
Identities = 25/74 (33%), Positives = 35/74 (47%), Gaps = 16/74 (21%)
Query: 24 RRNRGRSPNTQTPSEDLVPESAFTYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQV 83
RR R +AFT Q+ LEN F+ Y + +LA L+L ++
Sbjct: 2 RRPR----------------TAFTQNQIEVLENVFRVNCYPGIDILEDLAQKLNLELDRI 45
Query: 84 KIWFQNRRTKWKKQ 97
+IWFQNRR K K+
Sbjct: 46 QIWFQNRRAKLKRS 59
>2hi3_A Homeodomain-only protein; transcription; NMR {Mus musculus} SCOP:
a.4.1.1
Length = 73
Score = 72.9 bits (179), Expect = 5e-18
Identities = 16/55 (29%), Positives = 26/55 (47%), Gaps = 1/55 (1%)
Query: 44 SAFTYEQLVALENKF-KTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQ 97
S T +Q+ LE F K ++ +A LTE Q + WF+ R +W++
Sbjct: 7 SGPTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQKWFKQRLAEWRRS 61
>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 = 71.2 bits (175), Expect = 2e-17
Identities = 23/52 (44%), Positives = 35/52 (67%)
Query: 46 FTYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQ 97
FT +QL LE F+ RY + R +A+ +LTE +V++WF+NRR KW+K+
Sbjct: 10 FTSQQLQQLEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRKR 61
>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 = 70.7 bits (174), Expect = 2e-17
Identities = 26/52 (50%), Positives = 33/52 (63%)
Query: 46 FTYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQ 97
FT QL LE F T Y V R LA+ + LTE ++++WFQNRR KW+KQ
Sbjct: 6 FTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQVWFQNRRAKWRKQ 57
>2dn0_A Zinc fingers and homeoboxes protein 3; triple homeobox 1 protein,
KIAA0395, TIX1, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 76
Score = 71.3 bits (175), Expect = 2e-17
Identities = 14/52 (26%), Positives = 25/52 (48%)
Query: 46 FTYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQ 97
++EQL AL+ F ++ E +L L+ +V+ WF +RR +
Sbjct: 15 KSHEQLSALKGSFCRNQFPGQSEVEHLTKVTGLSTREVRKWFSDRRYHCRNL 66
>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 = 70.8 bits (174), Expect = 3e-17
Identities = 26/52 (50%), Positives = 35/52 (67%)
Query: 46 FTYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQ 97
FT EQL ALEN F+ T+Y V R LA + L E +V++WF+NRR KW++
Sbjct: 14 FTDEQLEALENLFQETKYPDVGTREQLARKVHLREEKVEVWFKNRRAKWRRS 65
>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 = 70.1 bits (172), Expect = 6e-17
Identities = 22/52 (42%), Positives = 33/52 (63%)
Query: 46 FTYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQ 97
F+ QL LE F+ T+Y + R LA +LTE ++++WFQNRR + +KQ
Sbjct: 25 FSASQLDELERAFERTQYPDIYTREELAQRTNLTEARIQVWFQNRRARLRKQ 76
>2cue_A Paired box protein PAX6; homeobox domain, transcription factor,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
a.4.1.1
Length = 80
Score = 70.1 bits (172), Expect = 7e-17
Identities = 24/65 (36%), Positives = 38/65 (58%)
Query: 46 FTYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQNPGMDVNS 105
FT EQ+ ALE +F+ T Y V R LA + L E ++++WF NRR KW+++ +
Sbjct: 14 FTQEQIEALEKEFERTHYPDVFARERLAAKIDLPEARIQVWFSNRRAKWRREEKLRNQRR 73
Query: 106 PTVPT 110
+ P+
Sbjct: 74 QSGPS 78
>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 = 69.8 bits (171), Expect = 9e-17
Identities = 24/65 (36%), Positives = 37/65 (56%)
Query: 46 FTYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQNPGMDVNS 105
FT QL LE F TRY + R +AL ++L E++V++WF+NRR K ++Q
Sbjct: 14 FTRAQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQVWFKNRRAKCRQQQQQQQNGG 73
Query: 106 PTVPT 110
+ P+
Sbjct: 74 QSGPS 78
>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 = 71.2 bits (174), Expect = 2e-16
Identities = 20/105 (19%), Positives = 35/105 (33%), Gaps = 9/105 (8%)
Query: 1 MTTSASTGTTTMSSATSAKTPPV---------RRNRGRSPNTQTPSEDLVPESAFTYEQL 51
TT +S + K + + + + +
Sbjct: 40 QTTICRFENLQLSFKNACKLKAILSKWLEEAEQVGALYNEKVGANERKRKRRTTISIAAK 99
Query: 52 VALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKK 96
ALE F S E + +A L+L + V++WF NRR + K+
Sbjct: 100 DALERHFGEHSKPSSQEIMRMAEELNLEKEVVRVWFCNRRQREKR 144
>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 = 70.1 bits (171), Expect = 5e-16
Identities = 15/51 (29%), Positives = 23/51 (45%)
Query: 46 FTYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKK 96
FT + + AL F+ + E +A L+ V++WF NRR K
Sbjct: 100 FTPQAIEALNAYFEKNPLPTGQEITEMAKELNYDREVVRVWFSNRRQTLKN 150
>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 = 67.4 bits (165), Expect = 6e-16
Identities = 15/57 (26%), Positives = 26/57 (45%), Gaps = 1/57 (1%)
Query: 42 PESAFTYEQLVALENKF-KTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQ 97
+ T +Q+ LE F K ++ +A LTE Q + WF+ R +W++
Sbjct: 4 GAATMTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQKWFKQRLAEWRRS 60
>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 = 66.4 bits (162), Expect = 2e-15
Identities = 22/93 (23%), Positives = 37/93 (39%), Gaps = 17/93 (18%)
Query: 8 GTTTMSSATSAKTPP-VRRNRGRSPNTQTPSEDLVPESAFTYEQLVALENKFKTTRYLSV 66
G++ S T + P +R R + T EQL L K+ +
Sbjct: 1 GSSGSSGGTGGEEPQRDKRLR----------------TTITPEQLEILYQKYLLDSNPTR 44
Query: 67 CERLNLALSLSLTETQVKIWFQNRRTKWKKQNP 99
++A + L + V++WFQN R + +K P
Sbjct: 45 KMLDHIAHEVGLKKRVVQVWFQNTRARERKSGP 77
>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 = 66.2 bits (162), Expect = 2e-15
Identities = 15/58 (25%), Positives = 24/58 (41%)
Query: 42 PESAFTYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQNP 99
P + T +QL L F S + +A L + +K WF+N K ++ P
Sbjct: 10 PRTRITDDQLRVLRQYFDINNSPSEEQIKEMADKSGLPQKVIKHWFRNTLFKERQSGP 67
>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 = 4e-15
Identities = 13/53 (24%), Positives = 23/53 (43%)
Query: 46 FTYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQN 98
+QL L + + L L+ +++WFQN+R K KK++
Sbjct: 10 LNEKQLHTLRTCYAANPRPDALMKEQLVEMTGLSPRVIRVWFQNKRCKDKKRS 62
>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 = 64.8 bits (158), Expect = 6e-15
Identities = 12/52 (23%), Positives = 24/52 (46%)
Query: 46 FTYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQ 97
T EQ+ L+ F +++ E L L +++K WF + R + ++
Sbjct: 11 KTKEQIAHLKASFLQSQFPDDAEVYRLIEVTGLARSEIKKWFSDHRYRCQRG 62
>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 = 65.2 bits (159), Expect = 6e-15
Identities = 15/65 (23%), Positives = 30/65 (46%)
Query: 46 FTYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQNPGMDVNS 105
F + QL +++ F + LA LT+ +++WFQN R K+++ +
Sbjct: 14 FKHHQLRTMKSYFAINHNPDAKDLKQLAQKTGLTKRVLQVWFQNARAKFRRNLLRQENGG 73
Query: 106 PTVPT 110
+ P+
Sbjct: 74 VSGPS 78
>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 = 66.7 bits (162), Expect = 9e-15
Identities = 15/53 (28%), Positives = 26/53 (49%)
Query: 46 FTYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQN 98
+LE F + S+ + ++A L L + V++WF NRR K K+ +
Sbjct: 103 IENRVRWSLETMFLKSPKPSLQQITHIANQLGLEKDVVRVWFSNRRQKGKRSS 155
>2ecb_A Zinc fingers and homeoboxes protein 1; homeobox domain,
transcription factor, structural genomics, NPPSFA; NMR
{Homo sapiens} SCOP: a.4.1.1
Length = 89
Score = 61.9 bits (150), Expect = 1e-13
Identities = 16/69 (23%), Positives = 28/69 (40%)
Query: 47 TYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQNPGMDVNSP 106
T EQL L+ F + L+ E L LT ++ WF ++ + M+++
Sbjct: 19 TAEQLRVLQASFLNSSVLTDEELNRLRAQTKLTRREIDAWFTEKKKSKALKEEKMEIDES 78
Query: 107 TVPTCPGGS 115
+ G S
Sbjct: 79 NAGSSSGPS 87
>2d5v_A Hepatocyte nuclear factor 6; transcription factor,
transcription-DNA complex; 2.00A {Rattus norvegicus}
PDB: 1s7e_A
Length = 164
Score = 61.8 bits (149), Expect = 8e-13
Identities = 14/56 (25%), Positives = 23/56 (41%)
Query: 42 PESAFTYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQ 97
P FT Q L FK + S ++ ++ L L + V +F N R + +
Sbjct: 100 PRLVFTDVQRRTLHAIFKENKRPSKELQITISQQLGLELSTVSNFFMNARRRSLDK 155
>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 = 59.1 bits (143), Expect = 1e-12
Identities = 15/53 (28%), Positives = 20/53 (37%)
Query: 47 TYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQNP 99
EQL ALE+ F E L +T ++ WF RR K +
Sbjct: 15 APEQLRALESSFAQNPLPLDEELDRLRSETKMTRREIDSWFSERRKKVNAEET 67
>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 = 59.2 bits (143), Expect = 1e-12
Identities = 13/67 (19%), Positives = 26/67 (38%)
Query: 47 TYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQNPGMDVNSP 106
T Q+ LE+ F + + + E L + L+ ++ WF RR + +
Sbjct: 21 TQGQVKILEDSFLKSSFPTQAELDRLRVETKLSRREIDSWFSERRKLRDSMEQAVLDSMG 80
Query: 107 TVPTCPG 113
+ + P
Sbjct: 81 SGKSGPS 87
>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 = 59.7 bits (144), Expect = 1e-12
Identities = 16/80 (20%), Positives = 32/80 (40%), Gaps = 15/80 (18%)
Query: 46 FTYEQLVALENKFKTTRYLSVCERLNLALSLS---------------LTETQVKIWFQNR 90
+ E L +E+ F +Y +R +A + + +T +V WF NR
Sbjct: 14 WRKECLAVMESYFNENQYPDEAKREEIANACNAVIQKPGKKLSDLERVTSLKVYNWFANR 73
Query: 91 RTKWKKQNPGMDVNSPTVPT 110
R + K++ + + P+
Sbjct: 74 RKEIKRRANIAAILESSGPS 93
>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 = 58.3 bits (141), Expect = 2e-12
Identities = 13/59 (22%), Positives = 22/59 (37%), Gaps = 1/59 (1%)
Query: 42 PESAFTYEQLVALENKFK-TTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQNP 99
+ + E L L++ Y L+ L L + + +FQN+R K P
Sbjct: 10 SRTKISLEALGILQSFIHDVGLYPDQEAIHTLSAQLDLPKHTIIKFFQNQRYHVKHSGP 68
>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 = 48.6 bits (116), Expect = 9e-09
Identities = 14/52 (26%), Positives = 24/52 (46%), Gaps = 1/52 (1%)
Query: 49 EQLVALENKFKT-TRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQNP 99
E LE F + T+Y L+ L + +++ WF++RR + K P
Sbjct: 18 EPNDTLEKVFVSVTKYPDEKRLKGLSKQLDWSVRKIQCWFRHRRNQDKPSGP 69
>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 = 47.5 bits (112), Expect = 5e-08
Identities = 22/77 (28%), Positives = 31/77 (40%), Gaps = 7/77 (9%)
Query: 29 RSPNTQTPSEDLVPESA-------FTYEQLVALENKFKTTRYLSVCERLNLALSLSLTET 81
S + + P+S T EQL L++ F T++ S E LA L T
Sbjct: 8 HSSGLEVLFQGPAPKSGSTGKICKKTPEQLHMLKSAFVRTQWPSPEEYDKLAKESGLART 67
Query: 82 QVKIWFQNRRTKWKKQN 98
+ WF + R WK N
Sbjct: 68 DIVSWFGDTRYAWKNGN 84
>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 = 46.8 bits (110), Expect = 4e-07
Identities = 21/117 (17%), Positives = 31/117 (26%), Gaps = 37/117 (31%)
Query: 2 TTSASTGTTTMSSATSAKTPPVRRNRGRSPNTQTPSEDLVPESAFTYEQLVALENKFKTT 61
T + G + T RRNR + L ++
Sbjct: 94 THAGQGGLIEEPTGDELPTKKGRRNR----------------FKWGPASQQILFQAYERQ 137
Query: 62 RYLSVCERLNLAL---------------------SLSLTETQVKIWFQNRRTKWKKQ 97
+ S ER L S +TE +V WF NRR + +
Sbjct: 138 KNPSKEERETLVEECNRAECIQRGVSPSQAQGLGSNLVTEVRVYNWFANRRKEEAFR 194
>1lfb_A Liver transcription factor (LFB1); transcription regulation;
2.80A {Rattus norvegicus} SCOP: a.4.1.1 PDB: 2lfb_A
Length = 99
Score = 45.2 bits (106), Expect = 4e-07
Identities = 13/73 (17%), Positives = 22/73 (30%), Gaps = 21/73 (28%)
Query: 46 FTYEQLVALENKFKTTRYLSVCERLNLALSLS---------------------LTETQVK 84
+ L ++ + S ER L + +TE +V
Sbjct: 16 WGPASQQILFQAYERQKNPSKEERETLVEECNRAECIQRGVSPSQAQGLGSNLVTEVRVY 75
Query: 85 IWFQNRRTKWKKQ 97
WF NRR + +
Sbjct: 76 NWFANRRKEEAFR 88
>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 = 43.1 bits (101), Expect = 1e-06
Identities = 12/53 (22%), Positives = 20/53 (37%)
Query: 46 FTYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQN 98
T EQL L++ F ++ + L L ++ WF + R K
Sbjct: 10 KTKEQLAILKSFFLQCQWARREDYQKLEQITGLPRPEIIQWFGDTRYALKHGQ 62
>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 = 42.9 bits (101), Expect = 1e-06
Identities = 12/47 (25%), Positives = 19/47 (40%), Gaps = 1/47 (2%)
Query: 54 LENKFKT-TRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQNP 99
LE F T++ L+ L ++ WF+ RR + K P
Sbjct: 15 LEKVFTAITKHPDEKRLEGLSKQLDWDVRSIQRWFRQRRNQEKPSGP 61
>2h8r_A Hepatocyte nuclear factor 1-beta; trasncription factor, POU, homeo,
protein-DNA, human disease; 3.20A {Homo sapiens}
Length = 221
Score = 44.6 bits (104), Expect = 3e-06
Identities = 18/118 (15%), Positives = 31/118 (26%), Gaps = 37/118 (31%)
Query: 1 MTTSASTGTTTMSSATSAKTPPVRRNRGRSPNTQTPSEDLVPESAFTYEQLVALENKFKT 60
+ + + + + +RRNR + L +
Sbjct: 120 FSQQSHGPGQSDDACSEPTNKKMRRNR----------------FKWGPASQQILYQAYDR 163
Query: 61 TRYLSVCERLNLAL---------------------SLSLTETQVKIWFQNRRTKWKKQ 97
+ S ER L S +TE +V WF NRR + +
Sbjct: 164 QKNPSKEEREALVEECNRAECLQRGVSPSKAHGLGSNLVTEVRVYNWFANRRKEEAFR 221
>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 = 40.4 bits (94), Expect = 6e-06
Identities = 15/24 (62%), Positives = 18/24 (75%), Gaps = 2/24 (8%)
Query: 82 QVKIWFQNRRTKWKKQ--NPGMDV 103
Q+KIWFQNRR KWKK+ N D+
Sbjct: 2 QIKIWFQNRRMKWKKRVFNDARDI 25
>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 = 39.2 bits (90), Expect = 5e-05
Identities = 12/61 (19%), Positives = 24/61 (39%), Gaps = 4/61 (6%)
Query: 42 PESAFTYEQLVAL----ENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQ 97
+ F+ L L +N + + + +A L++ V+ W NRR K++
Sbjct: 11 DRTQFSDRDLATLKKYWDNGMTSLGSVCREKIEAVATELNVDCEIVRTWIGNRRRKYRLM 70
Query: 98 N 98
Sbjct: 71 G 71
>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 = 35.5 bits (82), Expect = 8e-04
Identities = 15/53 (28%), Positives = 20/53 (37%), Gaps = 5/53 (9%)
Query: 63 YLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQNPGMDVNSPTVPTCPGGS 115
YL NL + SL+ Q+K W RR K K +P + G
Sbjct: 29 YLDTKGLENLMKNTSLSRIQIKNWVAARRAKEKTITI-----APELADLLSGE 76
>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 = 33.8 bits (78), Expect = 0.002
Identities = 14/34 (41%), Positives = 17/34 (50%)
Query: 63 YLSVCERLNLALSLSLTETQVKIWFQNRRTKWKK 96
YL NL + SL+ Q+K W NRR K K
Sbjct: 25 YLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKT 58
>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 = 0.007
Identities = 14/33 (42%), Positives = 17/33 (51%)
Query: 63 YLSVCERLNLALSLSLTETQVKIWFQNRRTKWK 95
YL NL + SL+ Q+K W NRR K K
Sbjct: 54 YLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEK 86
>2lk2_A Homeobox protein TGIF1; NESG, structural genomics, northeast
structural genomics CON PSI-biology, transcription; NMR
{Homo sapiens}
Length = 89
Score = 31.3 bits (71), Expect = 0.033
Identities = 14/57 (24%), Positives = 18/57 (31%)
Query: 63 YLSVCERLNLALSLSLTETQVKIWFQNRRTKWKKQNPGMDVNSPTVPTCPGGSHSGP 119
Y S E+ L+ L+ QV WF N R + D P T
Sbjct: 32 YPSEQEKALLSQQTHLSTLQVCNWFINARRRLLPDMLRKDGKDPNQFTISRRGAKIS 88
>2e19_A Transcription factor 8; homeobox domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 64
Score = 30.8 bits (69), Expect = 0.037
Identities = 11/48 (22%), Positives = 18/48 (37%)
Query: 49 EQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKK 96
L L+ + S E +A S++L VK WF+ +
Sbjct: 13 NLLSLLKAYYALNAQPSAEELSKIADSVNLPLDVVKKWFEKMQAGQIS 60
>3k2a_A Homeobox protein MEIS2; homeobox domain, DNA-binding,
transcription, nucleus, phosphoprotein, DNA bindi
protein; 1.95A {Homo sapiens}
Length = 67
Score = 30.0 bits (68), Expect = 0.075
Identities = 13/34 (38%), Positives = 16/34 (47%), Gaps = 1/34 (2%)
Query: 63 YLSVCERLNLALSLSLTETQVKIWFQN-RRTKWK 95
Y S ++ LA LT QV WF N RR +
Sbjct: 25 YPSEEQKKQLAQDTGLTILQVNNWFINARRRIVQ 58
>1du6_A PBX1, homeobox protein PBX1; homeodomain, gene regulation; NMR
{Mus musculus} SCOP: a.4.1.1
Length = 64
Score = 29.6 bits (67), Expect = 0.091
Identities = 12/34 (35%), Positives = 15/34 (44%), Gaps = 1/34 (2%)
Query: 63 YLSVCERLNLALSLSLTETQVKIWFQN-RRTKWK 95
Y S + LA +T +QV WF N R K
Sbjct: 30 YPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKK 63
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 31.4 bits (70), Expect = 0.14
Identities = 31/231 (13%), Positives = 62/231 (26%), Gaps = 94/231 (40%)
Query: 1 MTTSASTGTTTMSSATSAKTPPVRRNRGRSPN---------TQTPSEDLVPESAFTYEQL 51
+TT T +S+AT+ + +P+ +DL E T +
Sbjct: 270 LTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRR 329
Query: 52 VAL--------ENKFKTTRYLSVCERLNLALSLSL-----TETQ------------VKI- 85
+++ + ++++ C++L + SL E + I
Sbjct: 330 LSIIAESIRDGLATWDNWKHVN-CDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIP 388
Query: 86 -------W--------------FQNRR--TKWKKQN----PGMDV-------NSPTVPTC 111
W K K++ P + + N +
Sbjct: 389 TILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYAL--- 445
Query: 112 PGGSHSGPAFPFHPALSGPGGHYSGTAHYPYAAAAA----AYF-HHLGAHH 157
H ++ HY+ + YF H+G HH
Sbjct: 446 ------------HRSIVD---HYNIPKTFDSDDLIPPYLDQYFYSHIG-HH 480
>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 = 28.9 bits (65), Expect = 0.26
Identities = 14/50 (28%), Positives = 21/50 (42%), Gaps = 2/50 (4%)
Query: 63 YLSVCERLNLALSLSLTETQVKIWFQN-RRTKWKKQNPGMDVNSPTVPTC 111
Y S E+ L+ +L+ Q+ WF N RR N P+ P+
Sbjct: 34 YPSEEEKQMLSEKTNLSLLQISNWFINARRRILPDMLQ-QRRNDPSGPSS 82
>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 = 27.7 bits (62), Expect = 0.49
Identities = 11/29 (37%), Positives = 15/29 (51%), Gaps = 1/29 (3%)
Query: 68 ERLNLALSLSLTETQVKIWFQN-RRTKWK 95
E+ +A +LT QV WF N RR +
Sbjct: 39 EKKQIAAQTNLTLLQVNNWFINARRRILQ 67
>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 = 27.7 bits (62), Expect = 0.49
Identities = 10/30 (33%), Positives = 13/30 (43%), Gaps = 1/30 (3%)
Query: 68 ERLNLALSLSLTETQVKIWFQN-RRTKWKK 96
+ LA +T +QV WF N R K
Sbjct: 33 AKEELAKKCGITVSQVSNWFGNKRIRYKKN 62
>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 = 27.9 bits (61), Expect = 0.53
Identities = 10/43 (23%), Positives = 19/43 (44%)
Query: 54 LENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWKK 96
LE + + L + L+ + L+ QV WF +R + +
Sbjct: 21 LERYWAAHQQLRETDIPQLSQASRLSTQQVLDWFDSRLPQPAE 63
>4a3n_A Transcription factor SOX-17; 2.40A {Homo sapiens}
Length = 71
Score = 27.6 bits (62), Expect = 0.53
Identities = 5/21 (23%), Positives = 11/21 (52%)
Query: 85 IWFQNRRTKWKKQNPGMDVNS 105
+W ++ R + +QNP +
Sbjct: 12 VWAKDERKRLAQQNPDLHNAE 32
>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 = 27.8 bits (62), Expect = 0.55
Identities = 10/30 (33%), Positives = 13/30 (43%), Gaps = 1/30 (3%)
Query: 68 ERLNLALSLSLTETQVKIWFQN-RRTKWKK 96
+ LA +T +QV WF N R K
Sbjct: 33 AKEELAKKCGITVSQVSNWFGNKRIRYKKN 62
>1hry_A Human SRY; DNA, DNA-binding protein, DNA binding protein/DNA
complex; HET: DNA; NMR {Homo sapiens} SCOP: a.21.1.1
PDB: 1hrz_A*
Length = 76
Score = 27.1 bits (61), Expect = 0.84
Identities = 6/20 (30%), Positives = 12/20 (60%)
Query: 85 IWFQNRRTKWKKQNPGMDVN 104
+W +++R K +NP M +
Sbjct: 14 VWSRDQRRKMALENPRMRNS 33
>1j46_A SRY, sex-determining region Y protein; MALE sex determining factor,
SRY, sex-reversal mutation; NMR {Homo sapiens} SCOP:
a.21.1.1 PDB: 1j47_A
Length = 85
Score = 26.8 bits (60), Expect = 1.2
Identities = 6/20 (30%), Positives = 12/20 (60%)
Query: 85 IWFQNRRTKWKKQNPGMDVN 104
+W +++R K +NP M +
Sbjct: 14 VWSRDQRRKMALENPRMRNS 33
>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 = 26.3 bits (57), Expect = 1.5
Identities = 9/45 (20%), Positives = 22/45 (48%)
Query: 49 EQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTK 93
+ + L+ + + E L +++++ L + VK WF+ R+
Sbjct: 15 DHMSVLKAYYAMNMEPNSDELLKISIAVGLPQEFVKEWFEQRKVY 59
>1gt0_D Transcription factor SOX-2; POU factors, SOX proteins; 2.6A {Mus
musculus} SCOP: a.21.1.1 PDB: 2le4_A 1o4x_B
Length = 80
Score = 26.4 bits (59), Expect = 1.6
Identities = 6/20 (30%), Positives = 12/20 (60%)
Query: 85 IWFQNRRTKWKKQNPGMDVN 104
+W + +R K ++NP M +
Sbjct: 12 VWSRGQRRKMAQENPKMHNS 31
>1i11_A Transcription factor SOX-5; HMG BOX, DNA bending, DNA recognition,
chromatin, DNA binding protein, DNA sequence specific,
testis determining.; NMR {Mus musculus} SCOP: a.21.1.1
Length = 81
Score = 26.4 bits (59), Expect = 1.7
Identities = 5/18 (27%), Positives = 9/18 (50%)
Query: 85 IWFQNRRTKWKKQNPGMD 102
+W ++ R K + P M
Sbjct: 14 VWAKDERRKILQAFPDMH 31
>3f27_D Transcription factor SOX-17; protein-DNA complex, HMG domain,
endodermal, activator, DNA- nucleus, transcription
regulation, transcrip complex; HET: DNA; 2.75A {Mus
musculus} PDB: 2yul_A
Length = 83
Score = 26.4 bits (59), Expect = 1.7
Identities = 5/20 (25%), Positives = 11/20 (55%)
Query: 85 IWFQNRRTKWKKQNPGMDVN 104
+W ++ R + +QNP +
Sbjct: 16 VWAKDERKRLAQQNPDLHNA 35
>2bec_A Calcineurin B homologous protein 2; calcineurin-homologous
protein, calcium-binding protein, NHE1 regulating
protein; 2.70A {Homo sapiens}
Length = 202
Score = 27.4 bits (61), Expect = 1.9
Identities = 6/34 (17%), Positives = 15/34 (44%)
Query: 26 NRGRSPNTQTPSEDLVPESAFTYEQLVALENKFK 59
+R + + E+ F+ L+ L ++F+
Sbjct: 3 SRSSHAAVIPDGDSIRRETGFSQASLLRLHHRFR 36
>3u2b_C Transcription factor SOX-4; HMG domain, transcriptional regulation,
transcription-DNA CO; HET: DNA; 2.40A {Mus musculus}
Length = 79
Score = 26.4 bits (59), Expect = 1.9
Identities = 7/21 (33%), Positives = 10/21 (47%)
Query: 85 IWFQNRRTKWKKQNPGMDVNS 105
+W Q R K +Q+P M
Sbjct: 12 VWSQIERRKIMEQSPDMHNAE 32
>2cs1_A PMS1 protein homolog 1; DNA mismatch repair protein PMS1,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 92
Score = 26.2 bits (58), Expect = 2.1
Identities = 4/19 (21%), Positives = 11/19 (57%)
Query: 85 IWFQNRRTKWKKQNPGMDV 103
++ Q+ R ++ +NP +
Sbjct: 17 LFVQDHRPQFLIENPKTSL 35
>1wz6_A HMG-box transcription factor BBX; bobby SOX homolog, HMG_BOX
domain, structural genomics, NPPSFA, riken structural
genomics/proteomics initiative; NMR {Mus musculus}
Length = 82
Score = 26.0 bits (58), Expect = 2.1
Identities = 3/20 (15%), Positives = 12/20 (60%)
Query: 85 IWFQNRRTKWKKQNPGMDVN 104
++ + R+ ++++P +D
Sbjct: 17 LFCKRHRSLVRQEHPRLDNR 36
>2gzk_A Sex-determining region on Y / HMGB1; protein-DNA complex, HMG BOX,
amphoterin, DNA/structural protein complex; NMR {Homo
sapiens} SCOP: a.21.1.1 a.21.1.1
Length = 159
Score = 26.7 bits (59), Expect = 2.7
Identities = 6/19 (31%), Positives = 11/19 (57%)
Query: 85 IWFQNRRTKWKKQNPGMDV 103
+W +++R K +NP M
Sbjct: 14 VWSRDQRRKMALENPRMRN 32
>1wgf_A Upstream binding factor 1; transcription factor, DNA binding,
structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Mus musculus}
SCOP: a.21.1.1
Length = 90
Score = 25.8 bits (57), Expect = 3.3
Identities = 3/20 (15%), Positives = 12/20 (60%)
Query: 85 IWFQNRRTKWKKQNPGMDVN 104
I+ + +R + +++ P + +
Sbjct: 30 IFSEEKRRQLQEERPELSES 49
>3nm9_A HMG-D, high mobility group protein D; DNA bending,
non-sequence-specific, HMG chromosomal protein; HET:
DNA; 2.85A {Drosophila melanogaster} PDB: 1e7j_A* 1hma_A
1qrv_A*
Length = 73
Score = 25.3 bits (56), Expect = 3.4
Identities = 7/19 (36%), Positives = 12/19 (63%)
Query: 85 IWFQNRRTKWKKQNPGMDV 103
+W + R K++NPG+ V
Sbjct: 13 LWLNSARESIKRENPGIKV 31
>3ar4_A Sarcoplasmic/endoplasmic reticulum calcium ATPase; P-type ATPase,
hydrolase, calcium transport, calcium binding binding;
HET: ATP TG1 PTY; 2.15A {Oryctolagus cuniculus} PDB:
2ear_A* 2eas_A* 2eat_A* 2eau_A* 2dqs_A* 2zbe_A 2zbf_A*
2zbg_A* 3ar2_A* 2zbd_A* 3ar3_A* 3ar5_A* 3ar6_A* 3ar7_A*
3ar8_A* 3ar9_A* 3n5k_A* 1kju_A 1iwo_A 1t5s_A* ...
Length = 995
Score = 26.8 bits (60), Expect = 3.6
Identities = 7/29 (24%), Positives = 10/29 (34%), Gaps = 4/29 (13%)
Query: 14 SATSAKTPPVRRNRGRSPNTQTPSEDLVP 42
K V R R + + D+VP
Sbjct: 124 EPEMGK---VYRA-DRKSVQRIKARDIVP 148
>1hme_A High mobility group protein fragment-B; DNA-binding; NMR {Rattus
norvegicus} SCOP: a.21.1.1 PDB: 1hmf_A 1nhm_A 1nhn_A
1hsm_A 1hsn_A 1j3c_A 1j3d_A 2yqi_A
Length = 77
Score = 25.3 bits (56), Expect = 3.6
Identities = 5/19 (26%), Positives = 11/19 (57%)
Query: 85 IWFQNRRTKWKKQNPGMDV 103
++ R K K ++PG+ +
Sbjct: 16 LFCSEYRPKIKGEHPGLSI 34
>2e6o_A HMG box-containing protein 1; HMG-box domain, HMG-box transcription
factor 1, high mobility group box transcription factor
1, structural genomics; NMR {Homo sapiens}
Length = 87
Score = 25.4 bits (56), Expect = 4.0
Identities = 4/18 (22%), Positives = 10/18 (55%)
Query: 85 IWFQNRRTKWKKQNPGMD 102
++ + R ++ + PG D
Sbjct: 27 LFAKKYRVEYTQMYPGKD 44
>2crj_A SWI/SNF-related matrix-associated actin- dependent regulator of
chromatin subfamily...; structural DNA-binding protein
BRAF35, DNA-bending; NMR {Mus musculus}
Length = 92
Score = 25.4 bits (56), Expect = 4.2
Identities = 3/19 (15%), Positives = 9/19 (47%)
Query: 85 IWFQNRRTKWKKQNPGMDV 103
+ RR + + ++P +
Sbjct: 17 RFLNERREQIRTRHPDLPF 35
>4euw_A Transcription factor SOX-9; protein-DNA complex, HMG domain,
activator, DNA-binding, NUC transcription; HET: DNA;
2.77A {Homo sapiens}
Length = 106
Score = 25.4 bits (56), Expect = 5.7
Identities = 6/21 (28%), Positives = 8/21 (38%)
Query: 85 IWFQNRRTKWKKQNPGMDVNS 105
+W Q R K Q P +
Sbjct: 39 VWAQAARRKLADQYPHLHNAE 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 = 26.3 bits (58), Expect = 5.8
Identities = 15/53 (28%), Positives = 28/53 (52%)
Query: 43 ESAFTYEQLVALENKFKTTRYLSVCERLNLALSLSLTETQVKIWFQNRRTKWK 95
+A + + LE F+ + L+ E+ +A +T QV++WF N+R + K
Sbjct: 369 AAAISPQARAFLEQVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMRSK 421
>3h0g_A DNA-directed RNA polymerase II subunit RPB1; transcription,
multi-protein complex, DNA- binding, magnesium; 3.65A
{Schizosaccharomyces pombe}
Length = 1752
Score = 26.2 bits (57), Expect = 7.5
Identities = 15/52 (28%), Positives = 20/52 (38%), Gaps = 2/52 (3%)
Query: 99 PGMDVNSP-TVPTCPGGSHSGPAFPFHPALSGPGGHYSGTAHYPYAAAAAAY 149
P SP T P S S P + PA YS T+ Y+ + +Y
Sbjct: 1542 PFSSAMSPGYGLTSPSYSPSSPGYSTSPAYMPSSPSYSPTSP-SYSPTSPSY 1592
>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 = 24.8 bits (53), Expect = 8.0
Identities = 23/100 (23%), Positives = 35/100 (35%), Gaps = 6/100 (6%)
Query: 20 TPPVRRNRGR-SPNTQTPSEDLVPESAF----TYEQLVALENKFKTTRYLSVCERLNLAL 74
+ RNR + P +Q E LV N+ + + + +
Sbjct: 3 SGSSGRNRFKWGPASQQILYQAYDRQKNPSKEEREALVEECNRAECLQRGVSPSKAHGLG 62
Query: 75 SLSLTETQVKIWFQNRRTKWK-KQNPGMDVNSPTVPTCPG 113
S +TE +V WF NRR + +Q MD S G
Sbjct: 63 SNLVTEVRVYNWFANRRKEEAFRQKLAMDAYSSNSGPSSG 102
>3tj0_A Nucleoprotein; RNA-binding, HOMO-oligomerization, transcription
regulation, RNA binding protein; 3.23A {Influenza b
virus}
Length = 562
Score = 25.7 bits (55), Expect = 8.8
Identities = 26/120 (21%), Positives = 43/120 (35%), Gaps = 20/120 (16%)
Query: 3 TSASTGTTTMSSATSAKTPPV-RRNRGRSPNTQTPS-EDLVPESAFTYEQLVALENKFKT 60
TS ++GTT + PP +R R SP T S ED V T ++ E K
Sbjct: 24 TSGTSGTTRPIIRPATLAPPSNKRTRNPSPERATTSSEDDVGRK--TQKKQTPTEIKKSV 81
Query: 61 TR--------YLSVCERLNLALSLSLT--------ETQVKIWFQNRRTKWKKQNPGMDVN 104
Y + + L + E + +++T+++K+ DV
Sbjct: 82 YNMVVKLGEFYNQMMVKAGLNDDMERNLIQNAHAVERILLAATDDKKTEFQKKKNARDVK 141
>1tvc_A Methane monooxygenase component C, methane monooxygenase;
FAD-binding, NADH-binding, oxidoreductase; HET: FDA; NMR
{Methylococcus capsulatus} SCOP: b.43.4.2 c.25.1.2
Length = 250
Score = 25.7 bits (57), Expect = 8.8
Identities = 5/38 (13%), Positives = 7/38 (18%)
Query: 119 PAFPFHPALSGPGGHYSGTAHYPYAAAAAAYFHHLGAH 156
+ P G + G P A
Sbjct: 174 RNLTVKACVWHPSGDWEGEQGSPIDALREDLESSDANP 211
>2co9_A Thymus high mobility group box protein TOX; TOX protein, HMG box
domain, structural genomics, NPPSFA; NMR {Mus musculus}
Length = 102
Score = 24.7 bits (54), Expect = 9.0
Identities = 5/19 (26%), Positives = 10/19 (52%)
Query: 85 IWFQNRRTKWKKQNPGMDV 103
++F++ + K QNP
Sbjct: 27 LFFRDTQAAIKGQNPNATF 45
>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 = 25.8 bits (56), Expect = 9.6
Identities = 23/143 (16%), Positives = 40/143 (27%), Gaps = 42/143 (29%)
Query: 34 QTPSEDLVPE--SAF-TYEQLVALENKFKTTRYLSVCERLNLAL-SLSLTETQVKIWFQN 89
Q ++D E + TY LV + + L L T + F
Sbjct: 163 QGNTDDYFEELRDLYQTYHVLVG-----------DLIKFSAETLSELIRTTLDAEKVFTQ 211
Query: 90 RRTKWKKQNPGMDV----NSPTVPTCPGGSHSGPAFPF--HPALSGPG-GHYSGTAHYPY 142
G+++ +P+ + P + +S P G AHY
Sbjct: 212 ----------GLNILEWLENPS---------NTPDKDYLLSIPISCPLIGVIQ-LAHYVV 251
Query: 143 AAAAAAYFHHLGAHHTHGGLTHT 165
A + + G H+
Sbjct: 252 TAKLLGFTPGELRSYLKGATGHS 274
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 0.126 0.390
Gapped
Lambda K H
0.267 0.0696 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,513,627
Number of extensions: 134664
Number of successful extensions: 357
Number of sequences better than 10.0: 1
Number of HSP's gapped: 347
Number of HSP's successfully gapped: 108
Length of query: 165
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 79
Effective length of database: 4,300,587
Effective search space: 339746373
Effective search space used: 339746373
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 (22.0 bits)
S2: 53 (24.3 bits)