RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13592
(321 letters)
>2r5y_A Homeotic protein sex combs reduced; homeodomain; HET: DNA; 2.60A
{Drosophila melanogaster} PDB: 2r5z_A*
Length = 88
Score = 148 bits (375), Expect = 2e-45
Identities = 54/81 (66%), Positives = 63/81 (77%)
Query: 189 ATLYPWMKSNHDASYSCKTGGGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHEL 248
+YPWMK H + + G KR R +Y+RYQTLELEKEFH+N+YL+R+RRIEIAH L
Sbjct: 6 PQIYPWMKRVHLGTSTVNANGETKRQRTSYTRYQTLELEKEFHFNRYLTRRRRIEIAHAL 65
Query: 249 QLTERQIKIWFQNRRMKLKKE 269
LTERQIKIWFQNRRMK KKE
Sbjct: 66 SLTERQIKIWFQNRRMKWKKE 86
>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 = 143 bits (362), Expect = 2e-43
Identities = 54/79 (68%), Positives = 59/79 (74%), Gaps = 7/79 (8%)
Query: 191 LYPWMKSNHDASYSCKTGGGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQL 250
YPWM T G +R RQTY+RYQTLELEKEFH N YL+R+RRIE+AH L L
Sbjct: 7 FYPWMAIAG-------TNGLRRRGRQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALSL 59
Query: 251 TERQIKIWFQNRRMKLKKE 269
TERQIKIWFQNRRMKLKKE
Sbjct: 60 TERQIKIWFQNRRMKLKKE 78
>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 = 142 bits (359), Expect = 6e-43
Identities = 43/85 (50%), Positives = 50/85 (58%), Gaps = 4/85 (4%)
Query: 189 ATLYPWMKSNH----DASYSCKTGGGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEI 244
A + WMK A S G R ++ Q ELEKEFH+NKYLSR RR+EI
Sbjct: 8 ARTFDWMKVKRNPPKTAKVSEPGLGSPSGLRTNFTTRQLTELEKEFHFNKYLSRARRVEI 67
Query: 245 AHELQLTERQIKIWFQNRRMKLKKE 269
A L+L E Q+KIWFQNRRMK KK
Sbjct: 68 AATLELNETQVKIWFQNRRMKQKKR 92
>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 = 133 bits (336), Expect = 9e-40
Identities = 49/59 (83%), Positives = 54/59 (91%)
Query: 211 NKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKE 269
KR RQTY+RYQTLELEKEFH+N+YL+R+RRIEIAH L LTERQIKIWFQNRRMK KKE
Sbjct: 2 RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWKKE 60
>2h1k_A IPF-1, pancreatic and duodenal homeobox 1, homeodomain; protein-DNA
complex, transcription/DNA complex; 2.42A {Mesocricetus
auratus}
Length = 63
Score = 131 bits (332), Expect = 3e-39
Identities = 43/61 (70%), Positives = 49/61 (80%)
Query: 209 GGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKK 268
G NKR+R Y+R Q LELEKEF +NKY+SR RR+E+A L LTER IKIWFQNRRMK KK
Sbjct: 1 GSNKRTRTAYTRAQLLELEKEFLFNKYISRPRRVELAVMLNLTERHIKIWFQNRRMKWKK 60
Query: 269 E 269
E
Sbjct: 61 E 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 = 129 bits (326), Expect = 3e-38
Identities = 28/59 (47%), Positives = 41/59 (69%)
Query: 210 GNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKK 268
KR R +S Q L++EF+ N+YL+ +RR +++ EL L E QIKIWF+N+R K+KK
Sbjct: 2 AEKRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFKNKRAKIKK 60
>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 = 129 bits (326), Expect = 3e-38
Identities = 30/63 (47%), Positives = 40/63 (63%)
Query: 207 TGGGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKL 266
+G K + +S QT+ELEK+F KYLS R +A LQL+ERQ+K WFQNRR K
Sbjct: 3 SGSSGKGGQVRFSNDQTIELEKKFETQKYLSPPERKRLAKMLQLSERQVKTWFQNRRAKW 62
Query: 267 KKE 269
++
Sbjct: 63 RRS 65
>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 = 129 bits (325), Expect = 4e-38
Identities = 23/60 (38%), Positives = 38/60 (63%)
Query: 210 GNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKE 269
G +R+R T++ Q ELE+ F +YL+ R +++ +L L Q+KIWF+NRR + K +
Sbjct: 1 GPRRTRTTFTSSQIAELEQHFLQGRYLTAPRLADLSAKLALGTAQVKIWFKNRRRRHKIQ 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 = 127 bits (321), Expect = 1e-37
Identities = 30/58 (51%), Positives = 40/58 (68%)
Query: 212 KRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKE 269
+R R ++R Q LEKEF+ Y+SR RR E+A +L L E IK+WFQNRRMK K++
Sbjct: 2 RRYRTAFTRDQLGRLEKEFYKENYVSRPRRCELAAQLNLPESTIKVWFQNRRMKDKRQ 59
>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 = 125 bits (316), Expect = 9e-37
Identities = 28/63 (44%), Positives = 43/63 (68%)
Query: 207 TGGGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKL 266
+G ++ R YS+ Q ELE+E+ NK++++ +R +I+ L+ERQI IWFQNRR+K
Sbjct: 3 SGSSGRKKRIPYSKGQLRELEREYAANKFITKDKRRKISAATSLSERQITIWFQNRRVKE 62
Query: 267 KKE 269
KK
Sbjct: 63 KKS 65
>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 = 125 bits (315), Expect = 1e-36
Identities = 37/70 (52%), Positives = 50/70 (71%)
Query: 200 DASYSCKTGGGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWF 259
+ + + ++ R Y+++QTLELEKEF +N YL+R RR E+A L LTERQ+KIWF
Sbjct: 2 NPAANWLHARSTRKKRCPYTKHQTLELEKEFLFNMYLTRDRRYEVARLLNLTERQVKIWF 61
Query: 260 QNRRMKLKKE 269
QNRRMK+KK
Sbjct: 62 QNRRMKMKKI 71
>2l7z_A Homeobox protein HOX-A13; gene regulation; NMR {Homo sapiens} PDB:
2ld5_A*
Length = 73
Score = 124 bits (313), Expect = 2e-36
Identities = 26/67 (38%), Positives = 44/67 (65%)
Query: 211 NKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKEV 270
++ R Y++ Q ELE+E+ NK++++ +R I+ L+ERQ+ IWFQNRR+K KK +
Sbjct: 7 GRKKRVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQVTIWFQNRRVKEKKVI 66
Query: 271 LRPNISS 277
+ +S
Sbjct: 67 NKLKTTS 73
>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 = 121 bits (304), Expect = 7e-35
Identities = 29/73 (39%), Positives = 39/73 (53%)
Query: 197 SNHDASYSCKTGGGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIK 256
S +RSR ++ Q + LEK F KYLS RI++A L L++ Q+K
Sbjct: 3 SGSSGGEPGTKAKKGRRSRTVFTELQLMGLEKRFEKQKYLSTPDRIDLAESLGLSQLQVK 62
Query: 257 IWFQNRRMKLKKE 269
W+QNRRMK KK
Sbjct: 63 TWYQNRRMKWKKS 75
>3a01_A Homeodomain-containing protein; homeodomain, protein-DNA complex,
DNA-binding, homeobox, NUC developmental protein; 2.70A
{Drosophila melanogaster}
Length = 93
Score = 119 bits (300), Expect = 3e-34
Identities = 28/78 (35%), Positives = 43/78 (55%), Gaps = 9/78 (11%)
Query: 192 YPWMKSNHDASYSCKTGGGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLT 251
+P+ T K+ R +++R Q ELEK FH KYL+ R +A L++T
Sbjct: 7 HPYQNR---------TPPKRKKPRTSFTRIQVAELEKRFHKQKYLASAERAALARGLKMT 57
Query: 252 ERQIKIWFQNRRMKLKKE 269
+ Q+K WFQNRR K +++
Sbjct: 58 DAQVKTWFQNRRTKWRRQ 75
>2djn_A Homeobox protein DLX-5; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 70
Score = 113 bits (285), Expect = 3e-32
Identities = 26/62 (41%), Positives = 38/62 (61%)
Query: 208 GGGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLK 267
G ++ R YS +Q L++ F +YL+ R E+A L LT+ Q+KIWFQN+R K+K
Sbjct: 4 GSSGRKPRTIYSSFQLAALQRRFQKTQYLALPERAELAASLGLTQTQVKIWFQNKRSKIK 63
Query: 268 KE 269
K
Sbjct: 64 KS 65
>2l9r_A Homeobox protein NKX-3.1; structural genomics, northeast structural
genomics consortiu PSI-biology, protein structure
initiative; NMR {Homo sapiens}
Length = 69
Score = 110 bits (277), Expect = 5e-31
Identities = 28/61 (45%), Positives = 38/61 (62%)
Query: 209 GGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKK 268
G + S Q +ELE++F + KYLS R +A L+LTE Q+KIWFQNRR K K+
Sbjct: 2 GHHHHHHSHMSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRRYKTKR 61
Query: 269 E 269
+
Sbjct: 62 K 62
>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 = 110 bits (277), Expect = 5e-31
Identities = 16/58 (27%), Positives = 32/58 (55%)
Query: 210 GNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLK 267
+ + + + S LE+ F + L+ K + E+A + +T Q+++WF N+RM+ K
Sbjct: 4 KSPKGKSSISPQARAFLEEVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMRSK 61
>2vi6_A Homeobox protein nanog; homeodomain, DNA-binding, transcription,
transcription facto developmental protein, transcription
regulation, NUC homeobox; 2.6A {Mus musculus}
Length = 62
Score = 107 bits (270), Expect = 5e-30
Identities = 23/61 (37%), Positives = 37/61 (60%)
Query: 209 GGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKK 268
G ++ R +S+ Q L+ F KYLS ++ E++ L L+ +Q+K WFQN+RMK K+
Sbjct: 1 GTKQKMRTVFSQAQLCALKDRFQKQKYLSLQQMQELSSILNLSYKQVKTWFQNQRMKCKR 60
Query: 269 E 269
Sbjct: 61 W 61
>1ig7_A Homeotic protein MSX-1; helix-turn-helix, transcription/DNA
complex; 2.20A {Mus musculus} SCOP: a.4.1.1
Length = 58
Score = 106 bits (267), Expect = 1e-29
Identities = 26/57 (45%), Positives = 36/57 (63%)
Query: 212 KRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKK 268
++ R ++ Q L LE++F +YLS R E + L LTE Q+KIWFQNRR K K+
Sbjct: 1 RKPRTPFTTAQLLALERKFRQKQYLSIAERAEFSSSLSLTETQVKIWFQNRRAKAKR 57
>2kt0_A Nanog, homeobox protein nanog; homeodomain, structural genomics,
protein structure initiative, PSI, center for eukaryotic
structural genomics; NMR {Homo sapiens}
Length = 84
Score = 102 bits (257), Expect = 6e-28
Identities = 23/64 (35%), Positives = 37/64 (57%)
Query: 206 KTGGGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMK 265
K +++R +S Q L F KYLS ++ E+++ L L+ +Q+K WFQN+RMK
Sbjct: 17 KVPVKKQKTRTVFSSTQLCVLNDRFQRQKYLSLQQMQELSNILNLSYKQVKTWFQNQRMK 76
Query: 266 LKKE 269
K+
Sbjct: 77 SKRW 80
>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 = 101 bits (254), Expect = 1e-27
Identities = 26/83 (31%), Positives = 40/83 (48%), Gaps = 10/83 (12%)
Query: 207 TGGGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKL 266
++ R +++ QT ELE+ F +YLS R +A ++LT Q+KIWFQN R K
Sbjct: 5 LPNKKRKRRVLFTKAQTYELERRFRQQRYLSAPEREHLASLIRLTPTQVKIWFQNHRYKT 64
Query: 267 KKEVLRPNISSTTMLDEKLEAPP 289
K+ ++ E P
Sbjct: 65 KRA----------QNEKGYEGHP 77
>3rkq_A Homeobox protein NKX-2.5; helix-turn-helix, DNA binding, nucleus,
transcription-DNA CO; 1.70A {Homo sapiens}
Length = 58
Score = 100 bits (252), Expect = 2e-27
Identities = 27/58 (46%), Positives = 37/58 (63%)
Query: 210 GNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLK 267
G ++ R +S+ Q ELE+ F +YLS R ++A L+LT Q+KIWFQNRR K K
Sbjct: 1 GRRKPRVLFSQAQVYELERRFKQQRYLSAPERDQLASVLKLTSTQVKIWFQNRRYKSK 58
>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-26
Identities = 24/53 (45%), Positives = 36/53 (67%)
Query: 217 TYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKE 269
++SR Q LELE+ F KYL+ R +A L++T+ Q+K WFQNRR K +++
Sbjct: 3 SFSRSQVLELERRFLRQKYLASAERAALAKALRMTDAQVKTWFQNRRTKWRRQ 55
>1ftt_A TTF-1 HD, thyroid transcription factor 1 homeodomain; DNA binding
protein; NMR {Rattus norvegicus} SCOP: a.4.1.1
Length = 68
Score = 97.8 bits (244), Expect = 4e-26
Identities = 25/58 (43%), Positives = 36/58 (62%)
Query: 212 KRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKE 269
++ R +S+ Q ELE+ F KYLS R +A + LT Q+KIWFQN R K+K++
Sbjct: 3 RKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQVKIWFQNHRYKMKRQ 60
>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 = 88.5 bits (219), Expect = 1e-21
Identities = 20/92 (21%), Positives = 35/92 (38%), Gaps = 14/92 (15%)
Query: 191 LYPWMKSNHDASYSCKT--------------GGGNKRSRQTYSRYQTLELEKEFHYNKYL 236
L W+ S + ++ R + + LEK F N+
Sbjct: 67 LEKWLNDAEANLSSDSSLSSPSALNSPGIEGLSRRRKKRTSIETNIRVALEKSFMENQKP 126
Query: 237 SRKRRIEIAHELQLTERQIKIWFQNRRMKLKK 268
+ + IA +L + + I++WF NRR K K+
Sbjct: 127 TSEDITLIAEQLNMEKEVIRVWFSNRRQKEKR 158
>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 = 84.3 bits (208), Expect = 4e-20
Identities = 20/82 (24%), Positives = 35/82 (42%), Gaps = 4/82 (4%)
Query: 191 LYPWMKSNHDASYSCKTGGGN----KRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAH 246
L W++ G ++ R T S LE+ F + S + + +A
Sbjct: 63 LSKWLEEAEQVGALYNEKVGANERKRKRRTTISIAAKDALERHFGEHSKPSSQEIMRMAE 122
Query: 247 ELQLTERQIKIWFQNRRMKLKK 268
EL L + +++WF NRR + K+
Sbjct: 123 ELNLEKEVVRVWFCNRRQREKR 144
>2dn0_A Zinc fingers and homeoboxes protein 3; triple homeobox 1 protein,
KIAA0395, TIX1, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 76
Score = 78.2 bits (193), Expect = 9e-19
Identities = 13/71 (18%), Positives = 27/71 (38%)
Query: 208 GGGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLK 267
G + S Q L+ F N++ + + L+ R+++ WF +RR +
Sbjct: 5 SSGASIYKNKKSHEQLSALKGSFCRNQFPGQSEVEHLTKVTGLSTREVRKWFSDRRYHCR 64
Query: 268 KEVLRPNISST 278
+ S+
Sbjct: 65 NLKGSRSGPSS 75
>2xsd_C POU domain, class 3, transcription factor 1; transcription-DNA
complex, SOX; 2.05A {Mus musculus}
Length = 164
Score = 80.1 bits (197), Expect = 2e-18
Identities = 17/75 (22%), Positives = 27/75 (36%)
Query: 194 WMKSNHDASYSCKTGGGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTER 253
+ G ++ R + LE F S +A LQL +
Sbjct: 82 SSSGSPTNLDKIAAQGRKRKKRTSIEVGVKGALESHFLKCPKPSAHEITGLADSLQLEKE 141
Query: 254 QIKIWFQNRRMKLKK 268
+++WF NRR K K+
Sbjct: 142 VVRVWFCNRRQKEKR 156
>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 = 75.6 bits (186), Expect = 9e-18
Identities = 21/72 (29%), Positives = 36/72 (50%)
Query: 197 SNHDASYSCKTGGGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIK 256
S + +KR R T + Q L +++ + +RK IAHE+ L +R ++
Sbjct: 3 SGSSGGTGGEEPQRDKRLRTTITPEQLEILYQKYLLDSNPTRKMLDHIAHEVGLKKRVVQ 62
Query: 257 IWFQNRRMKLKK 268
+WFQN R + +K
Sbjct: 63 VWFQNTRARERK 74
>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 = 74.3 bits (183), Expect = 2e-17
Identities = 20/63 (31%), Positives = 31/63 (49%)
Query: 207 TGGGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKL 266
+G + SR ++ YQ L+ F N Y ++++ L L R I +WFQN R K
Sbjct: 3 SGSSGRSSRTRFTDYQLRVLQDFFDANAYPKDDEFEQLSNLLNLPTRVIVVWFQNARQKA 62
Query: 267 KKE 269
+K
Sbjct: 63 RKS 65
>2hi3_A Homeodomain-only protein; transcription; NMR {Mus musculus} SCOP:
a.4.1.1
Length = 73
Score = 72.9 bits (179), Expect = 8e-17
Identities = 20/71 (28%), Positives = 31/71 (43%), Gaps = 2/71 (2%)
Query: 211 NKRSRQTYSRYQTLELEKEFH-YNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKK- 268
+ ++ + Q LE F+ NK+ IA E LTE Q + WF+ R + ++
Sbjct: 2 SAQTVSGPTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQKWFKQRLAEWRRS 61
Query: 269 EVLRPNISSTT 279
E L S T
Sbjct: 62 EGLPSECRSVT 72
>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 = 69.7 bits (171), Expect = 1e-15
Identities = 18/61 (29%), Positives = 29/61 (47%)
Query: 208 GGGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLK 267
G KR R + Q L + F N S ++ E+A + L ++ IK WF+N K +
Sbjct: 4 GSSGKRPRTRITDDQLRVLRQYFDINNSPSEEQIKEMADKSGLPQKVIKHWFRNTLFKER 63
Query: 268 K 268
+
Sbjct: 64 Q 64
>3l1p_A POU domain, class 5, transcription factor 1; POU, transcription
factor DNA complex, pore, stem cells; HET: DNA; 2.80A
{Mus musculus} PDB: 1ocp_A
Length = 155
Score = 69.8 bits (170), Expect = 8e-15
Identities = 23/119 (19%), Positives = 44/119 (36%), Gaps = 10/119 (8%)
Query: 160 RADSNGVGSPDVQDSCSVSSQQDHEGEDGATLYPWMKSNHDASYSCKTGG---------- 209
G Q + S ++ + L P ++ + + + +
Sbjct: 35 LTLGVLFGKVFSQTTISRFEALQLSLKNMSKLRPLLEKWVEEADNNENLQEISKSETLVQ 94
Query: 210 GNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKK 268
KR R + LE F + S ++ IA++L L + +++WF NRR K K+
Sbjct: 95 ARKRKRTSIENRVRWSLETMFLKSPKPSLQQITHIANQLGLEKDVVRVWFSNRRQKGKR 153
>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 = 68.1 bits (166), Expect = 3e-14
Identities = 17/86 (19%), Positives = 32/86 (37%)
Query: 183 HEGEDGATLYPWMKSNHDASYSCKTGGGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRI 242
+ + A L + + ++ R +++ L F N + +
Sbjct: 65 EKWLNEAELRNQEGQQNLMEFVGGEPSKKRKRRTSFTPQAIEALNAYFEKNPLPTGQEIT 124
Query: 243 EIAHELQLTERQIKIWFQNRRMKLKK 268
E+A EL +++WF NRR LK
Sbjct: 125 EMAKELNYDREVVRVWFSNRRQTLKN 150
>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 = 65.2 bits (159), Expect = 5e-14
Identities = 16/64 (25%), Positives = 27/64 (42%), Gaps = 1/64 (1%)
Query: 206 KTGGGNKRSRQTYSRYQTLELEKEFH-YNKYLSRKRRIEIAHELQLTERQIKIWFQNRRM 264
+G RSR S L+ H Y ++ ++ +L L + I +FQN+R
Sbjct: 2 SSGSSGPRSRTKISLEALGILQSFIHDVGLYPDQEAIHTLSAQLDLPKHTIIKFFQNQRY 61
Query: 265 KLKK 268
+K
Sbjct: 62 HVKH 65
>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-14
Identities = 9/60 (15%), Positives = 23/60 (38%)
Query: 209 GGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKK 268
+ + ++ Q L+ F +++ + L +IK WF + R + ++
Sbjct: 2 AHHHHHHRKKTKEQIAHLKASFLQSQFPDDAEVYRLIEVTGLARSEIKKWFSDHRYRCQR 61
>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 = 7e-14
Identities = 19/69 (27%), Positives = 35/69 (50%)
Query: 211 NKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKEV 270
KR R ++ +Q ++ F N K ++A + LT+R +++WFQN R K ++ +
Sbjct: 7 GKRMRTSFKHHQLRTMKSYFAINHNPDAKDLKQLAQKTGLTKRVLQVWFQNARAKFRRNL 66
Query: 271 LRPNISSTT 279
LR +
Sbjct: 67 LRQENGGVS 75
>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 = 64.3 bits (157), Expect = 8e-14
Identities = 16/58 (27%), Positives = 25/58 (43%)
Query: 211 NKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKK 268
R R + Q L + N + ++ L+ R I++WFQN+R K KK
Sbjct: 3 TTRVRTVLNEKQLHTLRTCYAANPRPDALMKEQLVEMTGLSPRVIRVWFQNKRCKDKK 60
>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 = 64.3 bits (157), Expect = 1e-13
Identities = 22/58 (37%), Positives = 32/58 (55%)
Query: 212 KRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKE 269
+R R +++ Q LE F N Y ++A +L L +I+IWFQNRR KLK+
Sbjct: 2 RRPRTAFTQNQIEVLENVFRVNCYPGIDILEDLAQKLNLELDRIQIWFQNRRAKLKRS 59
>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 = 63.2 bits (154), Expect = 3e-13
Identities = 20/58 (34%), Positives = 35/58 (60%)
Query: 212 KRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKE 269
+R R T++R Q LE F +Y R E+A ++ L E ++++WF+NRR K +++
Sbjct: 8 RRERTTFTRAQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQVWFKNRRAKCRQQ 65
>2da5_A Zinc fingers and homeoboxes protein 3; homeobox domain, three
helices with the DNA binding helix- turn-helix motif,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 75
Score = 63.4 bits (154), Expect = 3e-13
Identities = 17/72 (23%), Positives = 29/72 (40%)
Query: 207 TGGGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKL 266
+G + + Q LE F N + + E ++T R+I WF RR K+
Sbjct: 3 SGSSGPTKYKERAPEQLRALESSFAQNPLPLDEELDRLRSETKMTRREIDSWFSERRKKV 62
Query: 267 KKEVLRPNISST 278
E + + S+
Sbjct: 63 NAEETKKSGPSS 74
>2d5v_A Hepatocyte nuclear factor 6; transcription factor,
transcription-DNA complex; 2.00A {Rattus norvegicus}
PDB: 1s7e_A
Length = 164
Score = 65.3 bits (158), Expect = 4e-13
Identities = 17/70 (24%), Positives = 30/70 (42%)
Query: 203 YSCKTGGGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNR 262
+ G K+ R ++ Q L F NK S++ +I I+ +L L + +F N
Sbjct: 89 HGKDRGNTPKKPRLVFTDVQRRTLHAIFKENKRPSKELQITISQQLGLELSTVSNFFMNA 148
Query: 263 RMKLKKEVLR 272
R + + L
Sbjct: 149 RRRSLDKWLE 158
>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 = 62.3 bits (152), Expect = 6e-13
Identities = 23/61 (37%), Positives = 34/61 (55%)
Query: 209 GGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKK 268
G +R R ++ Q +LE F N+Y R EIA LTE ++++WF+NRR K +K
Sbjct: 1 GSQRRQRTHFTSQQLQQLEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRK 60
Query: 269 E 269
Sbjct: 61 R 61
>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 = 62.0 bits (151), Expect = 8e-13
Identities = 18/58 (31%), Positives = 32/58 (55%)
Query: 212 KRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKE 269
+R R ++ Q LE F KY R ++A ++ L E ++++WF+NRR K ++
Sbjct: 8 RRHRTIFTDEQLEALENLFQETKYPDVGTREQLARKVHLREEKVEVWFKNRRAKWRRS 65
>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 = 61.6 bits (150), Expect = 9e-13
Identities = 21/69 (30%), Positives = 28/69 (40%), Gaps = 2/69 (2%)
Query: 213 RSRQTYSRYQTLELEKEFH-YNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKL-KKEV 270
T + Q LE F+ NK+ IA E LTE Q + WF+ R + + E
Sbjct: 3 EGAATMTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQKWFKQRLAEWRRSEG 62
Query: 271 LRPNISSTT 279
L S T
Sbjct: 63 LPSECRSVT 71
>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 = 59.9 bits (146), Expect = 3e-12
Identities = 24/56 (42%), Positives = 35/56 (62%)
Query: 214 SRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKE 269
S T++ +Q ELEK F Y R E+A ++ LTE +I++WFQNRR K +K+
Sbjct: 2 SHMTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQVWFQNRRAKWRKQ 57
>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 = 60.5 bits (147), Expect = 3e-12
Identities = 26/58 (44%), Positives = 37/58 (63%)
Query: 212 KRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKE 269
+RSR T+S Q ELE+ F +Y R E+A LTE +I++WFQNRR +L+K+
Sbjct: 19 RRSRTTFSASQLDELERAFERTQYPDIYTREELAQRTNLTEARIQVWFQNRRARLRKQ 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 = 60.5 bits (147), Expect = 3e-12
Identities = 21/58 (36%), Positives = 35/58 (60%)
Query: 212 KRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKE 269
+R+R ++++ Q LEKEF Y R +A ++ L E +I++WF NRR K ++E
Sbjct: 8 QRNRTSFTQEQIEALEKEFERTHYPDVFARERLAAKIDLPEARIQVWFSNRRAKWRRE 65
>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 = 59.6 bits (144), Expect = 8e-12
Identities = 12/58 (20%), Positives = 24/58 (41%)
Query: 212 KRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKE 269
+ + ++ Q LE F + + ++ + E +L+ R+I WF RR
Sbjct: 14 PQKFKEKTQGQVKILEDSFLKSSFPTQAELDRLRVETKLSRREIDSWFSERRKLRDSM 71
>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 = 58.1 bits (140), Expect = 3e-11
Identities = 18/71 (25%), Positives = 32/71 (45%), Gaps = 15/71 (21%)
Query: 213 RSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHEL---------------QLTERQIKI 257
SR T+ + +E F+ N+Y +R EIA+ ++T ++
Sbjct: 9 GSRFTWRKECLAVMESYFNENQYPDEAKREEIANACNAVIQKPGKKLSDLERVTSLKVYN 68
Query: 258 WFQNRRMKLKK 268
WF NRR ++K+
Sbjct: 69 WFANRRKEIKR 79
>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 = 57.3 bits (138), Expect = 5e-11
Identities = 11/74 (14%), Positives = 27/74 (36%)
Query: 215 RQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKEVLRPN 274
+ + Q L+ F + L+ + + + +LT R+I WF ++ + +
Sbjct: 15 FKEKTAEQLRVLQASFLNSSVLTDEELNRLRAQTKLTRREIDAWFTEKKKSKALKEEKME 74
Query: 275 ISSTTMLDEKLEAP 288
I + +
Sbjct: 75 IDESNAGSSSGPSS 88
>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 = 52.5 bits (126), Expect = 2e-09
Identities = 16/58 (27%), Positives = 26/58 (44%), Gaps = 1/58 (1%)
Query: 213 RSRQTYSRYQTLELEKEF-HYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKE 269
+ LEK F KY KR ++ +L + R+I+ WF++RR + K
Sbjct: 10 KDSPVNKVEPNDTLEKVFVSVTKYPDEKRLKGLSKQLDWSVRKIQCWFRHRRNQDKPS 67
>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 = 50.3 bits (119), Expect = 1e-07
Identities = 16/109 (14%), Positives = 32/109 (29%), Gaps = 21/109 (19%)
Query: 180 QQDHEGEDGATLYPWMKSNHDASYSCKTGGGNKRSRQTYSRYQTLELEKEFHYNKYLSRK 239
++ E T + + +R+R + L + + K S++
Sbjct: 84 RKQREVAQQFTHAGQGGLIEEPTGDELPTKKGRRNRFKWGPASQQILFQAYERQKNPSKE 143
Query: 240 RRIEIAHEL---------------------QLTERQIKIWFQNRRMKLK 267
R + E +TE ++ WF NRR +
Sbjct: 144 ERETLVEECNRAECIQRGVSPSQAQGLGSNLVTEVRVYNWFANRRKEEA 192
>2h8r_A Hepatocyte nuclear factor 1-beta; trasncription factor, POU, homeo,
protein-DNA, human disease; 3.20A {Homo sapiens}
Length = 221
Score = 50.4 bits (119), Expect = 2e-07
Identities = 20/127 (15%), Positives = 35/127 (27%), Gaps = 21/127 (16%)
Query: 162 DSNGVGSPDVQDSCSVSSQQDHEGEDGATLYPWMKSNHDASYSCKTGGGNKRSRQTYSRY 221
N + S Q + D + S T +R+R +
Sbjct: 93 QFNQTVQSSGNMTDKSSQDQLLFLFPEFSQQSHGPGQSDDACSEPTNKKMRRNRFKWGPA 152
Query: 222 QTLELEKEFHYNKYLSRKRRIEIAHEL---------------------QLTERQIKIWFQ 260
L + + K S++ R + E +TE ++ WF
Sbjct: 153 SQQILYQAYDRQKNPSKEEREALVEECNRAECLQRGVSPSKAHGLGSNLVTEVRVYNWFA 212
Query: 261 NRRMKLK 267
NRR +
Sbjct: 213 NRRKEEA 219
>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 = 45.6 bits (108), Expect = 4e-07
Identities = 15/44 (34%), Positives = 22/44 (50%), Gaps = 1/44 (2%)
Query: 226 LEKEF-HYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKK 268
LEK F K+ KR ++ +L R I+ WF+ RR + K
Sbjct: 15 LEKVFTAITKHPDEKRLEGLSKQLDWDVRSIQRWFRQRRNQEKP 58
>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 = 44.4 bits (104), Expect = 2e-06
Identities = 14/63 (22%), Positives = 24/63 (38%)
Query: 210 GNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKE 269
G+ + Q L+ F ++ S + ++A E L I WF + R K
Sbjct: 24 GSTGKICKKTPEQLHMLKSAFVRTQWPSPEEYDKLAKESGLARTDIVSWFGDTRYAWKNG 83
Query: 270 VLR 272
L+
Sbjct: 84 NLK 86
>1lfb_A Liver transcription factor (LFB1); transcription regulation; 2.80A
{Rattus norvegicus} SCOP: a.4.1.1 PDB: 2lfb_A
Length = 99
Score = 42.9 bits (100), Expect = 9e-06
Identities = 14/79 (17%), Positives = 26/79 (32%), Gaps = 21/79 (26%)
Query: 212 KRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHEL---------------------QL 250
+R+R + L + + K S++ R + E +
Sbjct: 10 RRNRFKWGPASQQILFQAYERQKNPSKEERETLVEECNRAECIQRGVSPSQAQGLGSNLV 69
Query: 251 TERQIKIWFQNRRMKLKKE 269
TE ++ WF NRR +
Sbjct: 70 TEVRVYNWFANRRKEEAFR 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 = 40.0 bits (93), Expect = 5e-05
Identities = 14/64 (21%), Positives = 27/64 (42%)
Query: 209 GGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKK 268
G + S + ++ Q L+ F ++ R+ ++ L +I WF + R LK
Sbjct: 1 GSSGSSGKRKTKEQLAILKSFFLQCQWARREDYQKLEQITGLPRPEIIQWFGDTRYALKH 60
Query: 269 EVLR 272
L+
Sbjct: 61 GQLK 64
>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 = 37.6 bits (86), Expect = 4e-04
Identities = 14/65 (21%), Positives = 26/65 (40%), Gaps = 4/65 (6%)
Query: 209 GGNKRSRQTYSRYQTLELEKEFH----YNKYLSRKRRIEIAHELQLTERQIKIWFQNRRM 264
G + R +S L+K + + R++ +A EL + ++ W NRR
Sbjct: 6 SGALQDRTQFSDRDLATLKKYWDNGMTSLGSVCREKIEAVATELNVDCEIVRTWIGNRRR 65
Query: 265 KLKKE 269
K +
Sbjct: 66 KYRLM 70
>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 = 35.4 bits (81), Expect = 0.001
Identities = 16/19 (84%), Positives = 16/19 (84%)
Query: 253 RQIKIWFQNRRMKLKKEVL 271
RQIKIWFQNRRMK KK V
Sbjct: 1 RQIKIWFQNRRMKWKKRVF 19
>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 = 36.7 bits (85), Expect = 0.001
Identities = 14/47 (29%), Positives = 19/47 (40%)
Query: 231 HYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKEVLRPNISS 277
N YL K + L+ QIK W RR K K + P ++
Sbjct: 25 IENPYLDTKGLENLMKNTSLSRIQIKNWVAARRAKEKTITIAPELAD 71
>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 = 35.6 bits (81), Expect = 0.002
Identities = 8/51 (15%), Positives = 22/51 (43%)
Query: 218 YSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKK 268
LE+ + ++ L +++ +L+ +Q+ WF +R + +
Sbjct: 13 PPPPDIQPLERYWAAHQQLRETDIPQLSQASRLSTQQVLDWFDSRLPQPAE 63
>2e19_A Transcription factor 8; homeobox domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 64
Score = 35.0 bits (80), Expect = 0.002
Identities = 12/60 (20%), Positives = 22/60 (36%)
Query: 209 GGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKK 268
G + S Q + L+ + N S + +IA + L +K WF+ +
Sbjct: 1 GSSGSSGQPPLKNLLSLLKAYYALNAQPSAEELSKIADSVNLPLDVVKKWFEKMQAGQIS 60
>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 = 37.0 bits (85), Expect = 0.010
Identities = 25/128 (19%), Positives = 43/128 (33%), Gaps = 46/128 (35%)
Query: 225 ELEKE-FHYNKYLSRKRRIEIA-----------------HELQLTER---------QIKI 257
+++ N +L +++EI+ + L LT R Q +I
Sbjct: 348 QVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRI 407
Query: 258 WFQNRRMKLKKEVLRPNISSTTMLDEKLEAP---PVFMPAYS---AALPKANYDWNGSQI 311
F R++K L P ++ +P + +PA L K N +N I
Sbjct: 408 PFSERKLKFSNRFL-P-VA----------SPFHSHLLVPASDLINKDLVKNNVSFNAKDI 455
Query: 312 GE-VGSTE 318
V T
Sbjct: 456 QIPVYDTF 463
Score = 35.0 bits (80), Expect = 0.035
Identities = 48/326 (14%), Positives = 88/326 (26%), Gaps = 120/326 (36%)
Query: 1 MSGIAQMSPYNQMNH-NVMQSF----NNWYQNQTFHPNQYYEPYNNNCPTKSEPNPCQ-- 53
M + P ++H ++ ++ F +Q E + K P P +
Sbjct: 1 MDAYS-TRPL-TLSHGSLEHVLLVPTASF-----FIASQLQEQF-----NKILPEPTEGF 48
Query: 54 -YEDRDARYFEKDAKYFAKDANSFDKDPAKYYDNFLDHNTMNYNHMNAFNQFHMKSNPNH 112
+D E K+ ++ + +D L+ + F +++ N H
Sbjct: 49 AADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNL------CLTEFENCYLEGNDIH 102
Query: 113 TDYLRTNSDKET-LNATNFVPKDEAISEMVDGKPPGFNMDRNGNPVGLRADSNGVGSPDV 171
+ + +T L T + K+ + ++ +P D+ N RA G
Sbjct: 103 ALAAKLLQENDTTLVKTKELIKNYITARIMAKRP----FDKKSNSALFRAVGEG------ 152
Query: 172 QDSCSVSSQQDHEGEDGATLYPWMKSNHDASYSCKTGG-GNKRS-----RQTYSRYQTL- 224
A L A + GG GN R Y Y L
Sbjct: 153 ----------------NAQLV--------AIF----GGQGNTDDYFEELRDLYQTYHVLV 184
Query: 225 -----------------ELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLK 267
L+ E + + L I W L+
Sbjct: 185 GDLIKFSAETLSELIRTTLDAEKVFTQGL-----------------NILEW-------LE 220
Query: 268 KEVLRPNISSTTMLDEKLEAPPVFMP 293
P+ + L + P+ P
Sbjct: 221 NPSNTPD-------KDYLLSIPISCP 239
Score = 28.1 bits (62), Expect = 4.6
Identities = 17/96 (17%), Positives = 29/96 (30%), Gaps = 19/96 (19%)
Query: 54 YEDRD-ARYFEKDAKYFAKDANSFD------KDPAKYYDNF-------LDHN--TMNYNH 97
Y+ A+ A KD F +P +F + N M +
Sbjct: 1636 YKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFET 1695
Query: 98 MNAFNQFHMKSNPNHTDYLRT---NSDKETLNATNF 130
+ K ++ + S+K L+AT F
Sbjct: 1696 IVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQF 1731
>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 = 33.0 bits (76), Expect = 0.010
Identities = 14/38 (36%), Positives = 16/38 (42%)
Query: 231 HYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKK 268
N YL K + L+ QIK W NRR K K
Sbjct: 21 IENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKT 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 = 32.1 bits (73), Expect = 0.046
Identities = 17/63 (26%), Positives = 22/63 (34%), Gaps = 3/63 (4%)
Query: 208 GGGNKRSRQTYSRYQTLELEKEF---HYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRM 264
+++ LE F N YL K + L+ QIK W NRR
Sbjct: 24 KSTKPYRGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRR 83
Query: 265 KLK 267
K K
Sbjct: 84 KEK 86
>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 = 32.8 bits (75), Expect = 0.14
Identities = 16/57 (28%), Positives = 29/57 (50%)
Query: 211 NKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLK 267
+ S LE+ F + L+ K + E+A + +T Q+++WF N+RM+ K
Sbjct: 365 QTAAAAAISPQARAFLEQVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMRSK 421
>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 = 30.1 bits (67), Expect = 0.17
Identities = 10/56 (17%), Positives = 24/56 (42%)
Query: 210 GNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMK 265
G+ S + L+ + N + ++I+ + L + +K WF+ R++
Sbjct: 4 GSSGSPINPYKDHMSVLKAYYAMNMEPNSDELLKISIAVGLPQEFVKEWFEQRKVY 59
>3vkj_A Isopentenyl-diphosphate delta-isomerase; type 2 isopentenyl
diphosphate isomerase; HET: FNR; 1.70A {Sulfolobus
shibatae} PDB: 2zrv_A* 2zrw_A* 2zrx_A* 2zry_A* 2zrz_A*
3b03_A* 3b04_A* 3b05_A* 3b06_A* 2zru_A*
Length = 368
Score = 32.5 bits (74), Expect = 0.18
Identities = 11/59 (18%), Positives = 20/59 (33%), Gaps = 10/59 (16%)
Query: 237 SRKRR-IEIAHELQLTERQIKIWFQNRRMKLKKEVLRPNIS------STTMLDEKLEAP 288
+RK +EIA + + + L + P IS T +++ P
Sbjct: 6 NRKVEHVEIAAFENVDGLSSSTFLN--DVILVHQGF-PGISFSEINTKTKFFRKEISVP 61
>4dgw_C PRE-mRNA-splicing factor PRP11; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 231
Score = 30.1 bits (67), Expect = 0.79
Identities = 7/74 (9%), Positives = 22/74 (29%), Gaps = 22/74 (29%)
Query: 15 HNVMQSFNNWYQNQTFHPN-QY----YEPYNN--------------NCPTKSEPNPCQYE 55
++ + T ++ YEP+ N N + +
Sbjct: 145 IRIVSGLE---LSDTKQKGKKFLVIAYEPFENIAIELPPNEILFSENNDMDNNNDGVDEL 201
Query: 56 DRDARYFEKDAKYF 69
++ +++ +K +
Sbjct: 202 NKKCTFWDAISKLY 215
>3k2a_A Homeobox protein MEIS2; homeobox domain, DNA-binding,
transcription, nucleus, phosphoprotein, DNA bindi
protein; 1.95A {Homo sapiens}
Length = 67
Score = 28.1 bits (63), Expect = 0.82
Identities = 10/42 (23%), Positives = 23/42 (54%)
Query: 231 HYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKEVLR 272
+ Y S +++ ++A + LT Q+ WF N R ++ + ++
Sbjct: 21 LTHPYPSEEQKKQLAQDTGLTILQVNNWFINARRRIVQPMID 62
>1p0k_A Isopentenyl-diphosphate delta-isomerase; terpene biosynthesis,
dimethylallyl diphosphate, flavoprotein; 1.90A {Bacillus
subtilis} SCOP: c.1.4.1 PDB: 1p0n_A*
Length = 349
Score = 30.1 bits (68), Expect = 1.0
Identities = 15/78 (19%), Positives = 30/78 (38%), Gaps = 14/78 (17%)
Query: 237 SRKRR-IEIAHELQLTERQIKIWFQNRRMKLKKEVLRPNIS------STTMLDEKLEAPP 289
RKR+ I A ++ + + L P+++ ST + + + P
Sbjct: 5 ERKRQHINHALS---IGQKRETGLD--DITFVHVSL-PDLALEQVDISTKIGELSSSS-P 57
Query: 290 VFMPAYSAALPKANYDWN 307
+F+ A + K Y+ N
Sbjct: 58 IFINAMTGGGGKLTYEIN 75
>1s35_A Beta-I spectrin, spectrin beta chain, erythrocyte; two repeats of
spectrin, alpha helical linker region, 3- helix
coiled-coils, beta spectrin; 2.40A {Homo sapiens} SCOP:
a.7.1.1 a.7.1.1
Length = 214
Score = 29.5 bits (66), Expect = 1.1
Identities = 10/72 (13%), Positives = 22/72 (30%), Gaps = 3/72 (4%)
Query: 219 SRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTER---QIKIWFQNRRMKLKKEVLRPNI 275
R + L+ + + SR + Q ++ Q + N+ L ++
Sbjct: 80 QRLEGLDTGWDALGRMWESRSHTLAQCLGFQEFQKDAKQAEAILSNQEYTLAHLEPPDSL 139
Query: 276 SSTTMLDEKLEA 287
+ K E
Sbjct: 140 EAAEAGIRKFED 151
>3fb2_A Spectrin alpha chain, brain spectrin; non-erythroid alpha chain
alpha-II spectrin, fordrin alpha chain, sptan1,
SPTA2_human, NESG, HR5563A; 2.30A {Homo sapiens}
Length = 218
Score = 29.5 bits (66), Expect = 1.2
Identities = 17/72 (23%), Positives = 29/72 (40%), Gaps = 3/72 (4%)
Query: 219 SRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTER---QIKIWFQNRRMKLKKEVLRPNI 275
+ L+ E+ ++ R+ ++ ELQL R Q + W R L E ++
Sbjct: 92 QKLDILDQERADLEKAWVQRRMMLDQCLELQLFHRDCEQAENWMAAREAFLNTEDKGDSL 151
Query: 276 SSTTMLDEKLEA 287
S L +K E
Sbjct: 152 DSVEALIKKHED 163
>2lk2_A Homeobox protein TGIF1; NESG, structural genomics, northeast
structural genomics CON PSI-biology, transcription; NMR
{Homo sapiens}
Length = 89
Score = 27.8 bits (62), Expect = 1.2
Identities = 13/42 (30%), Positives = 23/42 (54%)
Query: 231 HYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKEVLR 272
YN Y S + + ++ + L+ Q+ WF N R +L ++LR
Sbjct: 28 RYNAYPSEQEKALLSQQTHLSTLQVCNWFINARRRLLPDMLR 69
>1du6_A PBX1, homeobox protein PBX1; homeodomain, gene regulation; NMR {Mus
musculus} SCOP: a.4.1.1
Length = 64
Score = 27.3 bits (61), Expect = 1.3
Identities = 13/38 (34%), Positives = 22/38 (57%)
Query: 231 HYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKK 268
N Y S + + E+A + +T Q+ WF N+R++ KK
Sbjct: 26 LSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKK 63
>1wh7_A ZF-HD homeobox family protein; homeobox domain, structural
genomics, riken structural genomics/proteomics
initiative, RSGI; NMR {Arabidopsis thaliana} SCOP:
a.4.1.1
Length = 80
Score = 27.6 bits (61), Expect = 1.4
Identities = 13/72 (18%), Positives = 25/72 (34%), Gaps = 4/72 (5%)
Query: 201 ASYSCKTGGGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRR----IEIAHELQLTERQIK 256
S +GG KR R ++ Q ++ + +K + E + + +K
Sbjct: 7 GSNPSSSGGTTKRFRTKFTAEQKEKMLAFAERLGWRIQKHDDVAVEQFCAETGVRRQVLK 66
Query: 257 IWFQNRRMKLKK 268
IW N +
Sbjct: 67 IWMHNNKNSGPS 78
>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 = 27.3 bits (61), Expect = 1.6
Identities = 18/64 (28%), Positives = 36/64 (56%), Gaps = 3/64 (4%)
Query: 212 KRSRQTYSRYQTLELEKEFH---YNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKK 268
+R R+ +++ T L + F+ N Y S + + E+A + +T Q+ WF N+R++ KK
Sbjct: 2 RRKRRNFNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKK 61
Query: 269 EVLR 272
+ +
Sbjct: 62 NIGK 65
>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 = 27.5 bits (61), Expect = 1.9
Identities = 18/64 (28%), Positives = 36/64 (56%), Gaps = 3/64 (4%)
Query: 212 KRSRQTYSRYQTLELEKEFH---YNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKK 268
+R R+ +++ T L + F+ N Y S + + E+A + +T Q+ WF N+R++ KK
Sbjct: 2 RRKRRNFNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKK 61
Query: 269 EVLR 272
+ +
Sbjct: 62 NIGK 65
>3myv_A SUSD superfamily protein; RAGB, SUSD and hypothetical proteins,
structural genomics, J center for structural genomics,
JCSG; HET: MSE; 1.80A {Bacteroides vulgatus}
Length = 454
Score = 29.0 bits (65), Expect = 2.4
Identities = 10/80 (12%), Positives = 19/80 (23%), Gaps = 3/80 (3%)
Query: 17 VMQSFNNWYQNQTFHPNQYYEPYNNNCPTKSEPNPCQYEDRDARYFEKDAKYFAKDANSF 76
+ S ++ ++ + Y T+ + D R K A
Sbjct: 252 IANSVDDTPGRDSWGYLLNWYGYQKGFVTQKYAEQMLADPGDVR---GHLLEENKYAGKT 308
Query: 77 DKDPAKYYDNFLDHNTMNYN 96
K L + N
Sbjct: 309 VWWLYKLRGTDLKTAPLECN 328
>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 = 26.2 bits (58), Expect = 4.3
Identities = 14/70 (20%), Positives = 28/70 (40%), Gaps = 3/70 (4%)
Query: 207 TGGGNKRSRQTYSRYQTLELEK---EFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRR 263
+G K R ++ T + + + Y + + +IA + LT Q+ WF N R
Sbjct: 3 SGSSGKNKRGVLPKHATNVMRSWLFQHIGHPYPTEDEKKQIAAQTNLTLLQVNNWFINAR 62
Query: 264 MKLKKEVLRP 273
++ +
Sbjct: 63 RRILQSGPSS 72
>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 = 26.3 bits (58), Expect = 4.6
Identities = 13/70 (18%), Positives = 29/70 (41%), Gaps = 3/70 (4%)
Query: 207 TGGGNKRSRQTYSRYQTLELEKEFH---YNKYLSRKRRIEIAHELQLTERQIKIWFQNRR 263
+G K+ + L + + Y S + + ++ + L+ QI WF N R
Sbjct: 3 SGSSGKKRKGNLPAESVKILRDWMYKHRFKAYPSEEEKQMLSEKTNLSLLQISNWFINAR 62
Query: 264 MKLKKEVLRP 273
++ ++L+
Sbjct: 63 RRILPDMLQQ 72
>3otn_A SUSD superfamily protein; putative outer membrane protein,
carbohydrate binding, structural genomics; HET: MSE;
1.95A {Parabacteroides distasonis}
Length = 482
Score = 27.0 bits (60), Expect = 8.4
Identities = 14/72 (19%), Positives = 21/72 (29%), Gaps = 2/72 (2%)
Query: 20 SFNNWYQNQTFHPNQYYEPYNNNCPTKSEPNPCQYEDRDARYFEKDAKYFAKDANSFDKD 79
+ + Y Y + PTK +E D R EK + +
Sbjct: 263 ESVRIFLPSRSGISAYDLEYGSLIPTKEFVES--FEKGDKRTEEKQYFFTNYKGHPSKFS 320
Query: 80 PAKYYDNFLDHN 91
P F+D N
Sbjct: 321 PGAAELEFMDLN 332
>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 = 9.1
Identities = 17/98 (17%), Positives = 31/98 (31%), Gaps = 24/98 (24%)
Query: 212 KRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHEL---------------------QL 250
R+R + L + + K S++ R + E +
Sbjct: 7 GRNRFKWGPASQQILYQAYDRQKNPSKEEREALVEECNRAECLQRGVSPSKAHGLGSNLV 66
Query: 251 TERQIKIWFQNRRMKLKKEVLRPNISSTTMLDEKLEAP 288
TE ++ WF NRR K+E R ++ +
Sbjct: 67 TEVRVYNWFANRR---KEEAFRQKLAMDAYSSNSGPSS 101
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 0.128 0.390
Gapped
Lambda K H
0.267 0.0515 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,851,452
Number of extensions: 273867
Number of successful extensions: 555
Number of sequences better than 10.0: 1
Number of HSP's gapped: 538
Number of HSP's successfully gapped: 99
Length of query: 321
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 227
Effective length of database: 4,077,219
Effective search space: 925528713
Effective search space used: 925528713
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: 57 (26.2 bits)