RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13591
(339 letters)
>2r5y_A Homeotic protein sex combs reduced; homeodomain; HET: DNA; 2.60A
{Drosophila melanogaster} PDB: 2r5z_A*
Length = 88
Score = 144 bits (364), Expect = 1e-43
Identities = 53/82 (64%), Positives = 62/82 (75%)
Query: 255 ATLYPWMKSNQDASYSCKTGGGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHEL 314
+YPWMK + + G KR R +Y+RYQTLELEKEFH+N+YL+R+RRIEIAH L
Sbjct: 6 PQIYPWMKRVHLGTSTVNANGETKRQRTSYTRYQTLELEKEFHFNRYLTRRRRIEIAHAL 65
Query: 315 QLTERQIKIWFQNRRMKLKKEK 336
LTERQIKIWFQNRRMK KKE
Sbjct: 66 SLTERQIKIWFQNRRMKWKKEH 87
>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 = 140 bits (353), Expect = 7e-42
Identities = 43/86 (50%), Positives = 52/86 (60%), Gaps = 4/86 (4%)
Query: 255 ATLYPWMK----SNQDASYSCKTGGGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEI 310
A + WMK + A S G R ++ Q ELEKEFH+NKYLSR RR+EI
Sbjct: 8 ARTFDWMKVKRNPPKTAKVSEPGLGSPSGLRTNFTTRQLTELEKEFHFNKYLSRARRVEI 67
Query: 311 AHELQLTERQIKIWFQNRRMKLKKEK 336
A L+L E Q+KIWFQNRRMK KK +
Sbjct: 68 AATLELNETQVKIWFQNRRMKQKKRE 93
>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 = 139 bits (351), Expect = 9e-42
Identities = 54/79 (68%), Positives = 59/79 (74%), Gaps = 7/79 (8%)
Query: 257 LYPWMKSNQDASYSCKTGGGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQL 316
YPWM T G +R RQTY+RYQTLELEKEFH N YL+R+RRIE+AH L L
Sbjct: 7 FYPWMAIA-------GTNGLRRRGRQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALSL 59
Query: 317 TERQIKIWFQNRRMKLKKE 335
TERQIKIWFQNRRMKLKKE
Sbjct: 60 TERQIKIWFQNRRMKLKKE 78
>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 = 130 bits (329), Expect = 2e-38
Identities = 49/60 (81%), Positives = 54/60 (90%)
Query: 277 NKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKEK 336
KR RQTY+RYQTLELEKEFH+N+YL+R+RRIEIAH L LTERQIKIWFQNRRMK KKE
Sbjct: 2 RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWKKEN 61
>2h1k_A IPF-1, pancreatic and duodenal homeobox 1, homeodomain; protein-DNA
complex, transcription/DNA complex; 2.42A {Mesocricetus
auratus}
Length = 63
Score = 129 bits (325), Expect = 4e-38
Identities = 43/62 (69%), Positives = 50/62 (80%)
Query: 275 GGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKK 334
G NKR+R Y+R Q LELEKEF +NKY+SR RR+E+A L LTER IKIWFQNRRMK KK
Sbjct: 1 GSNKRTRTAYTRAQLLELEKEFLFNKYISRPRRVELAVMLNLTERHIKIWFQNRRMKWKK 60
Query: 335 EK 336
E+
Sbjct: 61 EE 62
>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 = 127 bits (322), Expect = 2e-37
Identities = 30/64 (46%), Positives = 40/64 (62%)
Query: 273 TGGGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKL 332
+G K + +S QT+ELEK+F KYLS R +A LQL+ERQ+K WFQNRR K
Sbjct: 3 SGSSGKGGQVRFSNDQTIELEKKFETQKYLSPPERKRLAKMLQLSERQVKTWFQNRRAKW 62
Query: 333 KKEK 336
++
Sbjct: 63 RRSG 66
>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 = 126 bits (319), Expect = 4e-37
Identities = 28/59 (47%), Positives = 41/59 (69%)
Query: 276 GNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKK 334
KR R +S Q L++EF+ N+YL+ +RR +++ EL L E QIKIWF+N+R K+KK
Sbjct: 2 AEKRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFKNKRAKIKK 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 = 126 bits (318), Expect = 5e-37
Identities = 30/59 (50%), Positives = 41/59 (69%)
Query: 278 KRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKEK 336
+R R ++R Q LEKEF+ Y+SR RR E+A +L L E IK+WFQNRRMK K+++
Sbjct: 2 RRYRTAFTRDQLGRLEKEFYKENYVSRPRRCELAAQLNLPESTIKVWFQNRRMKDKRQR 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 = 126 bits (319), Expect = 5e-37
Identities = 23/61 (37%), Positives = 38/61 (62%)
Query: 276 GNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKE 335
G +R+R T++ Q ELE+ F +YL+ R +++ +L L Q+KIWF+NRR + K +
Sbjct: 1 GPRRTRTTFTSSQIAELEQHFLQGRYLTAPRLADLSAKLALGTAQVKIWFKNRRRRHKIQ 60
Query: 336 K 336
Sbjct: 61 S 61
>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 = 123 bits (309), Expect = 1e-35
Identities = 28/64 (43%), Positives = 43/64 (67%)
Query: 273 TGGGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKL 332
+G ++ R YS+ Q ELE+E+ NK++++ +R +I+ L+ERQI IWFQNRR+K
Sbjct: 3 SGSSGRKKRIPYSKGQLRELEREYAANKFITKDKRRKISAATSLSERQITIWFQNRRVKE 62
Query: 333 KKEK 336
KK
Sbjct: 63 KKSG 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 = 122 bits (308), Expect = 3e-35
Identities = 37/71 (52%), Positives = 50/71 (70%)
Query: 266 DASYSCKTGGGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWF 325
+ + + ++ R Y+++QTLELEKEF +N YL+R RR E+A L LTERQ+KIWF
Sbjct: 2 NPAANWLHARSTRKKRCPYTKHQTLELEKEFLFNMYLTRDRRYEVARLLNLTERQVKIWF 61
Query: 326 QNRRMKLKKEK 336
QNRRMK+KK
Sbjct: 62 QNRRMKMKKIN 72
>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 = 9e-35
Identities = 29/74 (39%), Positives = 39/74 (52%)
Query: 263 SNQDASYSCKTGGGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIK 322
S +RSR ++ Q + LEK F KYLS RI++A L L++ Q+K
Sbjct: 3 SGSSGGEPGTKAKKGRRSRTVFTELQLMGLEKRFEKQKYLSTPDRIDLAESLGLSQLQVK 62
Query: 323 IWFQNRRMKLKKEK 336
W+QNRRMK KK
Sbjct: 63 TWYQNRRMKWKKSG 76
>2l7z_A Homeobox protein HOX-A13; gene regulation; NMR {Homo sapiens} PDB:
2ld5_A*
Length = 73
Score = 118 bits (296), Expect = 1e-33
Identities = 25/60 (41%), Positives = 40/60 (66%)
Query: 277 NKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKEK 336
++ R Y++ Q ELE+E+ NK++++ +R I+ L+ERQ+ IWFQNRR+K KK
Sbjct: 7 GRKKRVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQVTIWFQNRRVKEKKVI 66
>3a01_A Homeodomain-containing protein; homeodomain, protein-DNA complex,
DNA-binding, homeobox, NUC developmental protein; 2.70A
{Drosophila melanogaster}
Length = 93
Score = 118 bits (298), Expect = 1e-33
Identities = 28/79 (35%), Positives = 43/79 (54%), Gaps = 9/79 (11%)
Query: 258 YPWMKSNQDASYSCKTGGGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLT 317
+P+ T K+ R +++R Q ELEK FH KYL+ R +A L++T
Sbjct: 7 HPYQNR---------TPPKRKKPRTSFTRIQVAELEKRFHKQKYLASAERAALARGLKMT 57
Query: 318 ERQIKIWFQNRRMKLKKEK 336
+ Q+K WFQNRR K +++
Sbjct: 58 DAQVKTWFQNRRTKWRRQT 76
>2djn_A Homeobox protein DLX-5; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 70
Score = 112 bits (282), Expect = 1e-31
Identities = 26/63 (41%), Positives = 38/63 (60%)
Query: 274 GGGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLK 333
G ++ R YS +Q L++ F +YL+ R E+A L LT+ Q+KIWFQN+R K+K
Sbjct: 4 GSSGRKPRTIYSSFQLAALQRRFQKTQYLALPERAELAASLGLTQTQVKIWFQNKRSKIK 63
Query: 334 KEK 336
K
Sbjct: 64 KSG 66
>2l9r_A Homeobox protein NKX-3.1; structural genomics, northeast structural
genomics consortiu PSI-biology, protein structure
initiative; NMR {Homo sapiens}
Length = 69
Score = 109 bits (274), Expect = 2e-30
Identities = 28/62 (45%), Positives = 39/62 (62%)
Query: 275 GGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKK 334
G + S Q +ELE++F + KYLS R +A L+LTE Q+KIWFQNRR K K+
Sbjct: 2 GHHHHHHSHMSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRRYKTKR 61
Query: 335 EK 336
++
Sbjct: 62 KQ 63
>1akh_A Protein (mating-type protein A-1); complex (TWO DNA-binding
proteins/DNA), complex, DNA- binding protein, DNA; HET:
DNA; 2.50A {Saccharomyces cerevisiae} SCOP: a.4.1.1 PDB:
1f43_A 1yrn_A*
Length = 61
Score = 108 bits (272), Expect = 4e-30
Identities = 16/58 (27%), Positives = 32/58 (55%)
Query: 276 GNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLK 333
+ + + + 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 = 106 bits (266), Expect = 3e-29
Identities = 23/62 (37%), Positives = 38/62 (61%)
Query: 275 GGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKK 334
G ++ R +S+ Q L+ F KYLS ++ E++ L L+ +Q+K WFQN+RMK K+
Sbjct: 1 GTKQKMRTVFSQAQLCALKDRFQKQKYLSLQQMQELSSILNLSYKQVKTWFQNQRMKCKR 60
Query: 335 EK 336
+
Sbjct: 61 WQ 62
>1ig7_A Homeotic protein MSX-1; helix-turn-helix, transcription/DNA
complex; 2.20A {Mus musculus} SCOP: a.4.1.1
Length = 58
Score = 105 bits (263), Expect = 6e-29
Identities = 26/57 (45%), Positives = 36/57 (63%)
Query: 278 KRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKK 334
++ 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 = 103 bits (258), Expect = 7e-28
Identities = 25/74 (33%), Positives = 40/74 (54%)
Query: 263 SNQDASYSCKTGGGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIK 322
N A K +++R +S Q L F KYLS ++ E+++ L L+ +Q+K
Sbjct: 8 ENSVAKKEDKVPVKKQKTRTVFSSTQLCVLNDRFQRQKYLSLQQMQELSNILNLSYKQVK 67
Query: 323 IWFQNRRMKLKKEK 336
WFQN+RMK K+ +
Sbjct: 68 TWFQNQRMKSKRWQ 81
>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 (251), Expect = 5e-27
Identities = 24/64 (37%), Positives = 37/64 (57%)
Query: 273 TGGGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKL 332
++ R +++ QT ELE+ F +YLS R +A ++LT Q+KIWFQN R K
Sbjct: 5 LPNKKRKRRVLFTKAQTYELERRFRQQRYLSAPEREHLASLIRLTPTQVKIWFQNHRYKT 64
Query: 333 KKEK 336
K+ +
Sbjct: 65 KRAQ 68
>3rkq_A Homeobox protein NKX-2.5; helix-turn-helix, DNA binding, nucleus,
transcription-DNA CO; 1.70A {Homo sapiens}
Length = 58
Score = 99.2 bits (248), Expect = 1e-26
Identities = 27/58 (46%), Positives = 37/58 (63%)
Query: 276 GNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLK 333
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 = 95.8 bits (239), Expect = 2e-25
Identities = 24/53 (45%), Positives = 36/53 (67%)
Query: 283 TYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKE 335
++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 = 96.3 bits (240), Expect = 2e-25
Identities = 25/59 (42%), Positives = 36/59 (61%)
Query: 278 KRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKEK 336
++ R +S+ Q ELE+ F KYLS R +A + LT Q+KIWFQN R K+K++
Sbjct: 3 RKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQVKIWFQNHRYKMKRQA 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 = 87.7 bits (217), Expect = 3e-21
Identities = 18/74 (24%), Positives = 33/74 (44%)
Query: 261 MKSNQDASYSCKTGGGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQ 320
+ S + ++ R + + LEK F N+ + + IA +L + +
Sbjct: 85 SSPSALNSPGIEGLSRRRKKRTSIETNIRVALEKSFMENQKPTSEDITLIAEQLNMEKEV 144
Query: 321 IKIWFQNRRMKLKK 334
I++WF NRR K K+
Sbjct: 145 IRVWFSNRRQKEKR 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 = 84.7 bits (209), Expect = 3e-20
Identities = 21/84 (25%), Positives = 37/84 (44%), Gaps = 4/84 (4%)
Query: 257 LYPWMKSNQDASYSCKTGGGN----KRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAH 312
L W++ + G ++ R T S LE+ F + S + + +A
Sbjct: 63 LSKWLEEAEQVGALYNEKVGANERKRKRRTTISIAAKDALERHFGEHSKPSSQEIMRMAE 122
Query: 313 ELQLTERQIKIWFQNRRMKLKKEK 336
EL L + +++WF NRR + K+ K
Sbjct: 123 ELNLEKEVVRVWFCNRRQREKRVK 146
>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 = 1e-18
Identities = 13/63 (20%), Positives = 25/63 (39%)
Query: 274 GGGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLK 333
G + S Q L+ F N++ + + L+ R+++ WF +RR +
Sbjct: 5 SSGASIYKNKKSHEQLSALKGSFCRNQFPGQSEVEHLTKVTGLSTREVRKWFSDRRYHCR 64
Query: 334 KEK 336
K
Sbjct: 65 NLK 67
>2xsd_C POU domain, class 3, transcription factor 1; transcription-DNA
complex, SOX; 2.05A {Mus musculus}
Length = 164
Score = 80.4 bits (198), Expect = 2e-18
Identities = 17/62 (27%), Positives = 26/62 (41%)
Query: 275 GGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKK 334
G ++ R + LE F S +A LQL + +++WF NRR K K+
Sbjct: 97 GRKRKKRTSIEVGVKGALESHFLKCPKPSAHEITGLADSLQLEKEVVRVWFCNRRQKEKR 156
Query: 335 EK 336
Sbjct: 157 MT 158
>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 = 76.0 bits (187), Expect = 1e-17
Identities = 21/74 (28%), Positives = 36/74 (48%)
Query: 263 SNQDASYSCKTGGGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIK 322
S + +KR R T + Q L +++ + +RK IAHE+ L +R ++
Sbjct: 3 SGSSGGTGGEEPQRDKRLRTTITPEQLEILYQKYLLDSNPTRKMLDHIAHEVGLKKRVVQ 62
Query: 323 IWFQNRRMKLKKEK 336
+WFQN R + +K
Sbjct: 63 VWFQNTRARERKSG 76
>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 = 73.5 bits (181), Expect = 5e-17
Identities = 20/63 (31%), Positives = 31/63 (49%)
Query: 273 TGGGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKL 332
+G + SR ++ YQ L+ F N Y ++++ L L R I +WFQN R K
Sbjct: 3 SGSSGRSSRTRFTDYQLRVLQDFFDANAYPKDDEFEQLSNLLNLPTRVIVVWFQNARQKA 62
Query: 333 KKE 335
+K
Sbjct: 63 RKS 65
>2hi3_A Homeodomain-only protein; transcription; NMR {Mus musculus} SCOP:
a.4.1.1
Length = 73
Score = 70.2 bits (172), Expect = 9e-16
Identities = 16/61 (26%), Positives = 28/61 (45%), Gaps = 1/61 (1%)
Query: 277 NKRSRQTYSRYQTLELEKEFH-YNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKE 335
+ ++ + Q LE F+ NK+ IA E LTE Q + WF+ R + ++
Sbjct: 2 SAQTVSGPTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQKWFKQRLAEWRRS 61
Query: 336 K 336
+
Sbjct: 62 E 62
>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 = 18/63 (28%), Positives = 29/63 (46%)
Query: 274 GGGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLK 333
G KR R + Q L + F N S ++ E+A + L ++ IK WF+N K +
Sbjct: 4 GSSGKRPRTRITDDQLRVLRQYFDINNSPSEEQIKEMADKSGLPQKVIKHWFRNTLFKER 63
Query: 334 KEK 336
+
Sbjct: 64 QSG 66
>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 = 1e-14
Identities = 23/119 (19%), Positives = 44/119 (36%), Gaps = 10/119 (8%)
Query: 226 RADSNGVGSPDVQDSCSVSSQQDHEGEDGATLYPWMKSNQDASYSCKTGG---------- 275
G Q + S ++ + L P ++ + + + +
Sbjct: 35 LTLGVLFGKVFSQTTISRFEALQLSLKNMSKLRPLLEKWVEEADNNENLQEISKSETLVQ 94
Query: 276 GNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKK 334
KR R + LE F + S ++ IA++L L + +++WF NRR K K+
Sbjct: 95 ARKRKRTSIENRVRWSLETMFLKSPKPSLQQITHIANQLGLEKDVVRVWFSNRRQKGKR 153
>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 = 65.5 bits (160), Expect = 3e-14
Identities = 18/63 (28%), Positives = 28/63 (44%)
Query: 277 NKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKEK 336
R R + Q L + N + ++ L+ R I++WFQN+R K KK
Sbjct: 3 TTRVRTVLNEKQLHTLRTCYAANPRPDALMKEQLVEMTGLSPRVIRVWFQNKRCKDKKRS 62
Query: 337 IVM 339
I+M
Sbjct: 63 IMM 65
>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 = 67.7 bits (165), Expect = 5e-14
Identities = 17/86 (19%), Positives = 31/86 (36%)
Query: 249 HEGEDGATLYPWMKSNQDASYSCKTGGGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRI 308
+ + A L + ++ R +++ L F N + +
Sbjct: 65 EKWLNEAELRNQEGQQNLMEFVGGEPSKKRKRRTSFTPQAIEALNAYFEKNPLPTGQEIT 124
Query: 309 EIAHELQLTERQIKIWFQNRRMKLKK 334
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 = 64.5 bits (157), Expect = 1e-13
Identities = 16/64 (25%), Positives = 27/64 (42%), Gaps = 1/64 (1%)
Query: 272 KTGGGNKRSRQTYSRYQTLELEKEFH-YNKYLSRKRRIEIAHELQLTERQIKIWFQNRRM 330
+G RSR S L+ H Y ++ ++ +L L + I +FQN+R
Sbjct: 2 SSGSSGPRSRTKISLEALGILQSFIHDVGLYPDQEAIHTLSAQLDLPKHTIIKFFQNQRY 61
Query: 331 KLKK 334
+K
Sbjct: 62 HVKH 65
>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 = 64.4 bits (157), Expect = 1e-13
Identities = 17/60 (28%), Positives = 31/60 (51%)
Query: 277 NKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKEK 336
KR R ++ +Q ++ F N K ++A + LT+R +++WFQN R K ++
Sbjct: 7 GKRMRTSFKHHQLRTMKSYFAINHNPDAKDLKQLAQKTGLTKRVLQVWFQNARAKFRRNL 66
>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 = 22/59 (37%), Positives = 32/59 (54%)
Query: 278 KRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKEK 336
+R R +++ Q LE F N Y ++A +L L +I+IWFQNRR KLK+
Sbjct: 2 RRPRTAFTQNQIEVLENVFRVNCYPGIDILEDLAQKLNLELDRIQIWFQNRRAKLKRSH 60
>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 = 63.7 bits (155), Expect = 2e-13
Identities = 9/60 (15%), Positives = 23/60 (38%)
Query: 275 GGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKK 334
+ + ++ Q L+ F +++ + L +IK WF + R + ++
Sbjct: 2 AHHHHHHRKKTKEQIAHLKASFLQSQFPDDAEVYRLIEVTGLARSEIKKWFSDHRYRCQR 61
>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 = 4e-13
Identities = 20/59 (33%), Positives = 36/59 (61%)
Query: 278 KRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKEK 336
+R R T++R Q LE F +Y R E+A ++ L E ++++WF+NRR K ++++
Sbjct: 8 RRERTTFTRAQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQVWFKNRRAKCRQQQ 66
>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 = 62.7 bits (153), Expect = 4e-13
Identities = 24/66 (36%), Positives = 38/66 (57%), Gaps = 1/66 (1%)
Query: 275 GGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKL-K 333
G +R R ++ Q +LE F N+Y R EIA LTE ++++WF+NRR K K
Sbjct: 1 GSQRRQRTHFTSQQLQQLEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRK 60
Query: 334 KEKIVM 339
+E+ ++
Sbjct: 61 REEFIV 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 = 62.0 bits (151), Expect = 8e-13
Identities = 18/59 (30%), Positives = 32/59 (54%)
Query: 278 KRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKEK 336
+R R ++ Q LE F KY R ++A ++ L E ++++WF+NRR K ++
Sbjct: 8 RRHRTIFTDEQLEALENLFQETKYPDVGTREQLARKVHLREEKVEVWFKNRRAKWRRSG 66
>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 = 61.8 bits (150), Expect = 9e-13
Identities = 16/64 (25%), Positives = 26/64 (40%)
Query: 273 TGGGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKL 332
+G + + Q LE F N + + E ++T R+I WF RR K+
Sbjct: 3 SGSSGPTKYKERAPEQLRALESSFAQNPLPLDEELDRLRSETKMTRREIDSWFSERRKKV 62
Query: 333 KKEK 336
E+
Sbjct: 63 NAEE 66
>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 = 60.3 bits (147), Expect = 3e-12
Identities = 26/59 (44%), Positives = 37/59 (62%), Gaps = 1/59 (1%)
Query: 280 SRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKL-KKEKI 337
S T++ +Q ELEK F Y R E+A ++ LTE +I++WFQNRR K K+EK+
Sbjct: 2 SHMTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQVWFQNRRAKWRKQEKV 60
>2d5v_A Hepatocyte nuclear factor 6; transcription factor,
transcription-DNA complex; 2.00A {Rattus norvegicus}
PDB: 1s7e_A
Length = 164
Score = 63.4 bits (153), Expect = 3e-12
Identities = 16/68 (23%), Positives = 29/68 (42%)
Query: 269 YSCKTGGGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNR 328
+ G K+ R ++ Q L F NK S++ +I I+ +L L + +F N
Sbjct: 89 HGKDRGNTPKKPRLVFTDVQRRTLHAIFKENKRPSKELQITISQQLGLELSTVSNFFMNA 148
Query: 329 RMKLKKEK 336
R + +
Sbjct: 149 RRRSLDKW 156
>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 = 60.8 bits (148), Expect = 3e-12
Identities = 27/75 (36%), Positives = 41/75 (54%)
Query: 262 KSNQDASYSCKTGGGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQI 321
S+ ++ +RSR T+S Q ELE+ F +Y R E+A LTE +I
Sbjct: 3 ISDCESEPGIALKRKQRRSRTTFSASQLDELERAFERTQYPDIYTREELAQRTNLTEARI 62
Query: 322 KIWFQNRRMKLKKEK 336
++WFQNRR +L+K+
Sbjct: 63 QVWFQNRRARLRKQH 77
>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 = 21/59 (35%), Positives = 36/59 (61%)
Query: 278 KRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKEK 336
+R+R ++++ Q LEKEF Y R +A ++ L E +I++WF NRR K ++E+
Sbjct: 8 QRNRTSFTQEQIEALEKEFERTHYPDVFARERLAAKIDLPEARIQVWFSNRRAKWRREE 66
>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 = 60.8 bits (147), Expect = 4e-12
Identities = 12/59 (20%), Positives = 25/59 (42%)
Query: 278 KRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKEK 336
+ + ++ Q LE F + + ++ + E +L+ R+I WF RR +
Sbjct: 14 PQKFKEKTQGQVKILEDSFLKSSFPTQAELDRLRVETKLSRREIDSWFSERRKLRDSME 72
>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 = 58.5 bits (142), Expect = 1e-11
Identities = 17/59 (28%), Positives = 26/59 (44%), Gaps = 1/59 (1%)
Query: 279 RSRQTYSRYQTLELEKEFH-YNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKEK 336
T + Q LE F+ NK+ IA E LTE Q + WF+ R + ++ +
Sbjct: 3 EGAATMTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQKWFKQRLAEWRRSE 61
>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 = 58.5 bits (141), Expect = 2e-11
Identities = 18/73 (24%), Positives = 32/73 (43%), Gaps = 15/73 (20%)
Query: 279 RSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHEL---------------QLTERQIKI 323
SR T+ + +E F+ N+Y +R EIA+ ++T ++
Sbjct: 9 GSRFTWRKECLAVMESYFNENQYPDEAKREEIANACNAVIQKPGKKLSDLERVTSLKVYN 68
Query: 324 WFQNRRMKLKKEK 336
WF NRR ++K+
Sbjct: 69 WFANRRKEIKRRA 81
>2ecb_A Zinc fingers and homeoboxes protein 1; homeobox domain,
transcription factor, structural genomics, NPPSFA; NMR
{Homo sapiens} SCOP: a.4.1.1
Length = 89
Score = 58.1 bits (140), Expect = 3e-11
Identities = 10/56 (17%), Positives = 24/56 (42%)
Query: 281 RQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKEK 336
+ + Q L+ F + L+ + + + +LT R+I WF ++ ++
Sbjct: 15 FKEKTAEQLRVLQASFLNSSVLTDEELNRLRAQTKLTRREIDAWFTEKKKSKALKE 70
>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 = 52.9 bits (127), Expect = 1e-09
Identities = 16/58 (27%), Positives = 26/58 (44%), Gaps = 1/58 (1%)
Query: 279 RSRQTYSRYQTLELEKEF-HYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKE 335
+ LEK F KY KR ++ +L + R+I+ WF++RR + K
Sbjct: 10 KDSPVNKVEPNDTLEKVFVSVTKYPDEKRLKGLSKQLDWSVRKIQCWFRHRRNQDKPS 67
>2h8r_A Hepatocyte nuclear factor 1-beta; trasncription factor, POU, homeo,
protein-DNA, human disease; 3.20A {Homo sapiens}
Length = 221
Score = 51.2 bits (121), Expect = 1e-07
Identities = 20/127 (15%), Positives = 35/127 (27%), Gaps = 21/127 (16%)
Query: 228 DSNGVGSPDVQDSCSVSSQQDHEGEDGATLYPWMKSNQDASYSCKTGGGNKRSRQTYSRY 287
N + S Q + D + S T +R+R +
Sbjct: 93 QFNQTVQSSGNMTDKSSQDQLLFLFPEFSQQSHGPGQSDDACSEPTNKKMRRNRFKWGPA 152
Query: 288 QTLELEKEFHYNKYLSRKRRIEIAHEL---------------------QLTERQIKIWFQ 326
L + + K S++ R + E +TE ++ WF
Sbjct: 153 SQQILYQAYDRQKNPSKEEREALVEECNRAECLQRGVSPSKAHGLGSNLVTEVRVYNWFA 212
Query: 327 NRRMKLK 333
NRR +
Sbjct: 213 NRRKEEA 219
>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 = 49.5 bits (117), Expect = 3e-07
Identities = 16/109 (14%), Positives = 33/109 (30%), Gaps = 21/109 (19%)
Query: 246 QQDHEGEDGATLYPWMKSNQDASYSCKTGGGNKRSRQTYSRYQTLELEKEFHYNKYLSRK 305
++ E T ++ + +R+R + L + + K S++
Sbjct: 84 RKQREVAQQFTHAGQGGLIEEPTGDELPTKKGRRNRFKWGPASQQILFQAYERQKNPSKE 143
Query: 306 RRIEIAHEL---------------------QLTERQIKIWFQNRRMKLK 333
R + E +TE ++ WF NRR +
Sbjct: 144 ERETLVEECNRAECIQRGVSPSQAQGLGSNLVTEVRVYNWFANRRKEEA 192
>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: 292 LEKEF-HYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKK 334
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 = 43.2 bits (101), Expect = 6e-06
Identities = 13/59 (22%), Positives = 22/59 (37%)
Query: 276 GNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKK 334
G+ + Q L+ F ++ S + ++A E L I WF + R K
Sbjct: 24 GSTGKICKKTPEQLHMLKSAFVRTQWPSPEEYDKLAKESGLARTDIVSWFGDTRYAWKN 82
>1lfb_A Liver transcription factor (LFB1); transcription regulation; 2.80A
{Rattus norvegicus} SCOP: a.4.1.1 PDB: 2lfb_A
Length = 99
Score = 42.5 bits (99), Expect = 1e-05
Identities = 14/80 (17%), Positives = 26/80 (32%), Gaps = 21/80 (26%)
Query: 278 KRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHEL---------------------QL 316
+R+R + L + + K S++ R + E +
Sbjct: 10 RRNRFKWGPASQQILFQAYERQKNPSKEERETLVEECNRAECIQRGVSPSQAQGLGSNLV 69
Query: 317 TERQIKIWFQNRRMKLKKEK 336
TE ++ WF NRR +
Sbjct: 70 TEVRVYNWFANRRKEEAFRH 89
>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 = 1e-04
Identities = 13/63 (20%), Positives = 27/63 (42%)
Query: 275 GGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKK 334
G + S + ++ Q L+ F ++ R+ ++ L +I WF + R LK
Sbjct: 1 GSSGSSGKRKTKEQLAILKSFFLQCQWARREDYQKLEQITGLPRPEIIQWFGDTRYALKH 60
Query: 335 EKI 337
++
Sbjct: 61 GQL 63
>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 = 1e-04
Identities = 15/67 (22%), Positives = 27/67 (40%), Gaps = 4/67 (5%)
Query: 275 GGNKRSRQTYSRYQTLELEKEFH----YNKYLSRKRRIEIAHELQLTERQIKIWFQNRRM 330
G + R +S L+K + + R++ +A EL + ++ W NRR
Sbjct: 6 SGALQDRTQFSDRDLATLKKYWDNGMTSLGSVCREKIEAVATELNVDCEIVRTWIGNRRR 65
Query: 331 KLKKEKI 337
K + I
Sbjct: 66 KYRLMGI 72
>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 = 36.7 bits (84), Expect = 7e-04
Identities = 8/53 (15%), Positives = 22/53 (41%)
Query: 284 YSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKEK 336
LE+ + ++ L +++ +L+ +Q+ WF +R + +
Sbjct: 13 PPPPDIQPLERYWAAHQQLRETDIPQLSQASRLSTQQVLDWFDSRLPQPAEVS 65
>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 = 0.003
Identities = 12/62 (19%), Positives = 23/62 (37%)
Query: 275 GGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKK 334
G + S Q + L+ + N S + +IA + L +K WF+ +
Sbjct: 1 GSSGSSGQPPLKNLLSLLKAYYALNAQPSAEELSKIADSVNLPLDVVKKWFEKMQAGQIS 60
Query: 335 EK 336
+
Sbjct: 61 VQ 62
>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 = 0.011
Identities = 14/41 (34%), Positives = 16/41 (39%)
Query: 297 HYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKEKI 337
N YL K + L+ QIK W RR K K I
Sbjct: 25 IENPYLDTKGLENLMKNTSLSRIQIKNWVAARRAKEKTITI 65
>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 = 32.3 bits (73), Expect = 0.011
Identities = 15/16 (93%), Positives = 15/16 (93%)
Query: 319 RQIKIWFQNRRMKLKK 334
RQIKIWFQNRRMK KK
Sbjct: 1 RQIKIWFQNRRMKWKK 16
>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 = 32.7 bits (75), Expect = 0.017
Identities = 14/38 (36%), Positives = 16/38 (42%)
Query: 297 HYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKK 334
N YL K + L+ QIK W NRR K K
Sbjct: 21 IENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKT 58
>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 = 35.6 bits (81), Expect = 0.025
Identities = 32/221 (14%), Positives = 62/221 (28%), Gaps = 57/221 (25%)
Query: 31 HPN--QYYEAYNNNGPTKP--------EPNPCQYENRDARYFDKDAKYFDKDAKYFDKDP 80
++ N + T EP E R + FD+ + F A P
Sbjct: 340 GLATWDNWKHVNCDKLTTIIESSLNVLEPA----EYR--KMFDRLS-VFPPSAHI----P 388
Query: 81 AKYYDNFLDHNTINYNHMNAFNQFHMKS----NPN---------HTDYLRTNSDKETLNA 127
+ + I + M N+ H S P + + ++ L+
Sbjct: 389 TILLS-LIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHR 447
Query: 128 TNFMKPSFDKDAKYFDKDPAK-----YYDNFLNHNAMNYNQMNAFNQFHM---------- 172
+ + ++ + D Y+ + + H+ N F M
Sbjct: 448 S--IVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQ 505
Query: 173 KLNPNHTDYLRTNSDKETLNATNF-----VPKDEAISEMVD 208
K+ + T + + S TL F D +V+
Sbjct: 506 KIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVN 546
Score = 31.0 bits (69), Expect = 0.69
Identities = 23/134 (17%), Positives = 44/134 (32%), Gaps = 23/134 (17%)
Query: 48 EPNPCQYENRD-ARYFDKDAKYFDKDAKYFD-KDPAKYYDNFLDHNTINYNHMNAFNQFH 105
E QY+ +D F+ F + FD KD + L + +H+
Sbjct: 10 ETGEHQYQYKDILSVFEDA---FVDN---FDCKDVQDMPKSIL--SKEEIDHI-----IM 56
Query: 106 MKSNPNHTDYL-RTNSDKETLNATNFMKPSFDKDAKYF-------DKDPAKYYDNFLNHN 157
K + T L T K+ F++ + K+ + P+ ++
Sbjct: 57 SKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQR 116
Query: 158 AMNYNQMNAFNQFH 171
YN F +++
Sbjct: 117 DRLYNDNQVFAKYN 130
>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 = 31.4 bits (71), Expect = 0.074
Identities = 14/37 (37%), Positives = 16/37 (43%)
Query: 297 HYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLK 333
N YL K + L+ QIK W NRR K K
Sbjct: 50 IENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEK 86
>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 = 33.9 bits (77), Expect = 0.079
Identities = 18/97 (18%), Positives = 34/97 (35%), Gaps = 16/97 (16%)
Query: 116 LRTNSD--KETLN-ATNFMKPSFDKD-AKYFDKDPAKYYDNFL---------NHNAMNYN 162
L S ++ N A N K ++ +P +F N++AM +
Sbjct: 1635 LYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFE 1694
Query: 163 QMNAFNQFHMKLNPNHTDYLRT---NSDKETLNATNF 196
+ K+ ++ + S+K L+AT F
Sbjct: 1695 TIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQF 1731
Score = 27.7 bits (61), Expect = 7.5
Identities = 22/101 (21%), Positives = 36/101 (35%), Gaps = 23/101 (22%)
Query: 54 YENRD-AR-YFDKDAKYFDKDAKYFD------KDPAKYYDNFLDHN----TINYNHM--N 99
Y+ A+ +++ A KD F +P +F NY+ M
Sbjct: 1636 YKTSKAAQDVWNR-ADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFE 1694
Query: 100 AFNQFHMKS-------NPNHTDYLRTNSDKETLNATNFMKP 133
+K+ N + T Y S+K L+AT F +P
Sbjct: 1695 TIVDGKLKTEKIFKEINEHSTSYT-FRSEKGLLSATQFTQP 1734
>4dgw_C PRE-mRNA-splicing factor PRP11; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 231
Score = 32.8 bits (74), Expect = 0.11
Identities = 11/74 (14%), Positives = 22/74 (29%), Gaps = 15/74 (20%)
Query: 15 HNVMQSFNNWYQNQTFHPN-QY----YEAYNNNG---PTK----PEPNPCQYENRDARYF 62
++ + T ++ YE + N P E N N
Sbjct: 145 IRIVSGLE---LSDTKQKGKKFLVIAYEPFENIAIELPPNEILFSENNDMDNNNDGVDEL 201
Query: 63 DKDAKYFDKDAKYF 76
+K ++D +K +
Sbjct: 202 NKKCTFWDAISKLY 215
>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 = 30.5 bits (68), Expect = 0.12
Identities = 10/61 (16%), Positives = 24/61 (39%)
Query: 276 GNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKE 335
G+ S + L+ + N + ++I+ + L + +K WF+ R++
Sbjct: 4 GSSGSPINPYKDHMSVLKAYYAMNMEPNSDELLKISIAVGLPQEFVKEWFEQRKVYQYSN 63
Query: 336 K 336
Sbjct: 64 S 64
>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 = 32.5 bits (74), Expect = 0.21
Identities = 16/57 (28%), Positives = 29/57 (50%)
Query: 277 NKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLK 333
+ S LE+ F + L+ K + E+A + +T Q+++WF N+RM+ K
Sbjct: 365 QTAAAAAISPQARAFLEQVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMRSK 421
>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 = 1.7
Identities = 14/76 (18%), Positives = 26/76 (34%), Gaps = 4/76 (5%)
Query: 263 SNQDASYSCKTGGGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRR----IEIAHELQLTE 318
S S +GG KR R ++ Q ++ + +K + E +
Sbjct: 3 SGSSGSNPSSSGGTTKRFRTKFTAEQKEKMLAFAERLGWRIQKHDDVAVEQFCAETGVRR 62
Query: 319 RQIKIWFQNRRMKLKK 334
+ +KIW N +
Sbjct: 63 QVLKIWMHNNKNSGPS 78
>1du6_A PBX1, homeobox protein PBX1; homeodomain, gene regulation; NMR {Mus
musculus} SCOP: a.4.1.1
Length = 64
Score = 26.9 bits (60), Expect = 1.9
Identities = 13/38 (34%), Positives = 22/38 (57%)
Query: 297 HYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKK 334
N Y S + + E+A + +T Q+ WF N+R++ KK
Sbjct: 26 LSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKK 63
>3k2a_A Homeobox protein MEIS2; homeobox domain, DNA-binding,
transcription, nucleus, phosphoprotein, DNA bindi
protein; 1.95A {Homo sapiens}
Length = 67
Score = 26.5 bits (59), Expect = 3.1
Identities = 10/39 (25%), Positives = 21/39 (53%)
Query: 297 HYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKE 335
+ Y S +++ ++A + LT Q+ WF N R ++ +
Sbjct: 21 LTHPYPSEEQKKQLAQDTGLTILQVNNWFINARRRIVQP 59
>1qhu_A Protein (hemopexin); beta propeller, HAEM binding and transport,
iron metabolism, binding protein; HET: HEM; 2.30A
{Oryctolagus cuniculus} SCOP: b.66.1.1 b.66.1.1 PDB:
1qjs_A*
Length = 460
Score = 28.6 bits (63), Expect = 3.2
Identities = 15/116 (12%), Positives = 36/116 (31%), Gaps = 2/116 (1%)
Query: 30 FHPNQYYEAYNNNGPTKPEPNPCQYENRDARYFDKDAKYFDKDAKYFDKDPAKYYDNFLD 89
F N+ + ++ TK E + N + Y + ++ +P
Sbjct: 164 FQGNRKWF-WDLTTGTKKERSWPAVGNCTSALRWLGRYYCFQGNQFLRFNPVSGEVPPGY 222
Query: 90 HNTINYNHMNAFNQFHMKSNPNHTDYLRTNSDKETLNATNFMKPSFDKDAKYFDKD 145
+ ++ + H S+ N T + ++ + + S + A Y
Sbjct: 223 PLDVRDYFLSCPGRGHRSSHRNSTQHGHESTRCDP-DLVLSAMVSDNHGATYVFSG 277
>2w59_A IGY FCU3-4; immunoglobulin, avian, immune system; HET: NAG MAN;
1.75A {Gallus gallus}
Length = 231
Score = 28.1 bits (62), Expect = 3.7
Identities = 15/80 (18%), Positives = 24/80 (30%), Gaps = 11/80 (13%)
Query: 193 ATNFVPKDEAISEMVDGKPPGFNMDRNGNPVGLRADSNGVGSPDVQDSCSVSSQQDHEGE 252
F P+D I + D + + +NG G D+ V S+ E
Sbjct: 142 VRGFRPRDIEIRWLRDHRAVPATEFVTTAVLPEERTANGAGGDG--DTFFVYSKMSVETA 199
Query: 253 DGATLYPWMKSNQDASYSCK 272
W N ++C
Sbjct: 200 K------W---NGGTVFACM 210
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 27.4 bits (60), Expect = 4.7
Identities = 6/34 (17%), Positives = 16/34 (47%), Gaps = 3/34 (8%)
Query: 303 SRKRRIEIAHELQLTERQIKIWFQNRRMKLKKEK 336
S+ E + ++ ++ W Q + +++K K
Sbjct: 105 SKVMEQEWREK---AKKDLEEWNQRQSEQVEKNK 135
>3l8d_A Methyltransferase; structural genomics, PSI, nysgrc, protein
structure initiative, NEW YORK SGX research center for
structural genomics; 1.70A {Bacillus thuringiensis}
Length = 242
Score = 27.5 bits (61), Expect = 5.5
Identities = 4/25 (16%), Positives = 15/25 (60%)
Query: 61 YFDKDAKYFDKDAKYFDKDPAKYYD 85
+ + K +D A++++++ + +D
Sbjct: 12 WHESAEKKWDSSAEFWNQNSQEMWD 36
>2lk2_A Homeobox protein TGIF1; NESG, structural genomics, northeast
structural genomics CON PSI-biology, transcription; NMR
{Homo sapiens}
Length = 89
Score = 26.3 bits (58), Expect = 5.8
Identities = 11/39 (28%), Positives = 20/39 (51%)
Query: 297 HYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKE 335
YN Y S + + ++ + L+ Q+ WF N R +L +
Sbjct: 28 RYNAYPSEQEKALLSQQTHLSTLQVCNWFINARRRLLPD 66
>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 = 25.9 bits (57), Expect = 7.3
Identities = 18/61 (29%), Positives = 34/61 (55%), Gaps = 3/61 (4%)
Query: 278 KRSRQTYSRYQTLELEKEFH---YNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKK 334
+R R+ +++ T L + F+ N Y S + + E+A + +T Q+ WF N+R++ KK
Sbjct: 2 RRKRRNFNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKK 61
Query: 335 E 335
Sbjct: 62 N 62
>3lwb_A D-alanine--D-alanine ligase; DDL, D-alanyl--D-alanine ligase
RV2981C, structural genomics, TB structural GENO
consortium, TBSGC; 2.10A {Mycobacterium tuberculosis}
Length = 373
Score = 27.2 bits (61), Expect = 8.1
Identities = 7/30 (23%), Positives = 11/30 (36%)
Query: 47 PEPNPCQYENRDARYFDKDAKYFDKDAKYF 76
E R+ ++D KY D A+
Sbjct: 256 GEIRVAGVRGREDSFYDFATKYLDDAAELD 285
>3zvr_A Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mitochondrial
fission, GT stalk, PH, BSE, membrane fission; HET: 1PE;
3.10A {Rattus norvegicus} PDB: 3snh_A
Length = 772
Score = 27.5 bits (60), Expect = 8.3
Identities = 20/182 (10%), Positives = 53/182 (29%), Gaps = 5/182 (2%)
Query: 151 DNFLNHNAMNYNQM--NAFNQFHMKLNPNHTDYLRTNSDKETLNATNFVPKDEAISEMVD 208
+ + + +N NH D++ + ++ N N E++
Sbjct: 481 TTHIREREGRTKEQVMLLIDIELAYMNTNHEDFIGFANAQQRSNQMNKKKTSGNQDEILV 540
Query: 209 GKPPGFNMDRNGNPVGLRADSNGVGSPDVQDSCSVSSQQDHE---GEDGATLYPWMKSNQ 265
+ ++ G G + V + + +++ + D L K
Sbjct: 541 IRKGWLTINNIGIMKGGSKEYWFVLTAENLSWYKDDEEKEKKYMLSVDNLKLRDVEKGFM 600
Query: 266 DASYSCKTGGGNKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWF 325
+ + +R+ R L E + + + + R + E + +
Sbjct: 601 SSKHIFALFNTEQRNVYKDYRQLELACETQEEVDSWKASFLRAGVYPERVGDKEKASETE 660
Query: 326 QN 327
+N
Sbjct: 661 EN 662
>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 = 25.0 bits (55), Expect = 9.7
Identities = 18/61 (29%), Positives = 34/61 (55%), Gaps = 3/61 (4%)
Query: 278 KRSRQTYSRYQTLELEKEFH---YNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKK 334
+R R+ +++ T L + F+ N Y S + + E+A + +T Q+ WF N+R++ KK
Sbjct: 2 RRKRRNFNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKK 61
Query: 335 E 335
Sbjct: 62 N 62
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
0.314 0.130 0.395
Gapped
Lambda K H
0.267 0.0463 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,199,110
Number of extensions: 298577
Number of successful extensions: 797
Number of sequences better than 10.0: 1
Number of HSP's gapped: 779
Number of HSP's successfully gapped: 126
Length of query: 339
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 245
Effective length of database: 4,077,219
Effective search space: 998918655
Effective search space used: 998918655
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 58 (26.8 bits)