RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8536
(186 letters)
>2r5y_A Homeotic protein sex combs reduced; homeodomain; HET: DNA; 2.60A
{Drosophila melanogaster} PDB: 2r5z_A*
Length = 88
Score = 88.4 bits (219), Expect = 1e-23
Identities = 34/59 (57%), Positives = 47/59 (79%)
Query: 7 KYRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERKQLK 65
+ R Y+ Q LELEKEFH++RY+T RR+ E+A++L L+ERQ+KIWFQNRR K +K+ K
Sbjct: 30 RQRTSYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWKKEHK 88
Score = 32.1 bits (73), Expect = 0.020
Identities = 11/20 (55%), Positives = 14/20 (70%)
Query: 167 KYRVVYSDQQRLELEKEFHY 186
+ R Y+ Q LELEKEFH+
Sbjct: 30 RQRTSYTRYQTLELEKEFHF 49
>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 = 88.4 bits (219), Expect = 2e-23
Identities = 28/61 (45%), Positives = 45/61 (73%)
Query: 7 KYRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERKQLKK 66
R ++ +Q ELEKEFH+++Y++ R+ E+A +L L+E QVKIWFQNRR K++K+ ++
Sbjct: 36 GLRTNFTTRQLTELEKEFHFNKYLSRARRVEIAATLELNETQVKIWFQNRRMKQKKRERE 95
Query: 67 R 67
Sbjct: 96 G 96
Score = 31.4 bits (71), Expect = 0.048
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 167 KYRVVYSDQQRLELEKEFHY 186
R ++ +Q ELEKEFH+
Sbjct: 36 GLRTNFTTRQLTELEKEFHF 55
>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 = 87.2 bits (216), Expect = 3e-23
Identities = 32/59 (54%), Positives = 46/59 (77%)
Query: 7 KYRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERKQLK 65
+ R Y+ Q LELEKEFH + Y+T RR+ E+A++L L+ERQ+KIWFQNRR K +K+++
Sbjct: 22 RGRQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALSLTERQIKIWFQNRRMKLKKEIQ 80
Score = 32.1 bits (73), Expect = 0.021
Identities = 11/28 (39%), Positives = 14/28 (50%)
Query: 159 TRKTRTKDKYRVVYSDQQRLELEKEFHY 186
+ + R Y+ Q LELEKEFH
Sbjct: 14 AGTNGLRRRGRQTYTRYQTLELEKEFHT 41
>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 = 85.6 bits (212), Expect = 1e-22
Identities = 26/67 (38%), Positives = 40/67 (59%)
Query: 1 KTRTKDKYRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKE 60
K + + R V+++ Q + LEK F +Y++ + +LA SLGLS+ QVK W+QNRR K
Sbjct: 13 KAKKGRRSRTVFTELQLMGLEKRFEKQKYLSTPDRIDLAESLGLSQLQVKTWYQNRRMKW 72
Query: 61 RKQLKKR 67
+K
Sbjct: 73 KKSGPSS 79
Score = 29.8 bits (67), Expect = 0.12
Identities = 8/29 (27%), Positives = 14/29 (48%)
Query: 158 DTRKTRTKDKYRVVYSDQQRLELEKEFHY 186
K + + R V+++ Q + LEK F
Sbjct: 10 PGTKAKKGRRSRTVFTELQLMGLEKRFEK 38
>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 = 83.6 bits (207), Expect = 5e-22
Identities = 28/61 (45%), Positives = 38/61 (62%)
Query: 7 KYRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERKQLKK 66
+V +S+ Q +ELEK+F +Y++ + LA L LSERQVK WFQNRRAK R+
Sbjct: 9 GGQVRFSNDQTIELEKKFETQKYLSPPERKRLAKMLQLSERQVKTWFQNRRAKWRRSGPS 68
Query: 67 R 67
Sbjct: 69 S 69
Score = 30.1 bits (68), Expect = 0.092
Identities = 8/20 (40%), Positives = 13/20 (65%)
Query: 167 KYRVVYSDQQRLELEKEFHY 186
+V +S+ Q +ELEK+F
Sbjct: 9 GGQVRFSNDQTIELEKKFET 28
>3a01_A Homeodomain-containing protein; homeodomain, protein-DNA complex,
DNA-binding, homeobox, NUC developmental protein; 2.70A
{Drosophila melanogaster}
Length = 93
Score = 83.8 bits (207), Expect = 8e-22
Identities = 27/69 (39%), Positives = 38/69 (55%)
Query: 1 KTRTKDKYRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKE 60
+ K R ++ Q ELEK FH +Y+ +A LA L +++ QVK WFQNRR K
Sbjct: 13 TPPKRKKPRTSFTRIQVAELEKRFHKQKYLASAERAALARGLKMTDAQVKTWFQNRRTKW 72
Query: 61 RKQLKKREE 69
R+Q + E
Sbjct: 73 RRQTAEERE 81
Score = 30.2 bits (68), Expect = 0.13
Identities = 10/28 (35%), Positives = 13/28 (46%)
Query: 159 TRKTRTKDKYRVVYSDQQRLELEKEFHY 186
R + K R ++ Q ELEK FH
Sbjct: 11 NRTPPKRKKPRTSFTRIQVAELEKRFHK 38
>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 = 82.1 bits (203), Expect = 2e-21
Identities = 24/63 (38%), Positives = 37/63 (58%)
Query: 7 KYRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERKQLKK 66
+ R ++ Q ELE+ F RY+T R A+L+ L L QVKIWF+NRR + + Q +
Sbjct: 4 RTRTTFTSSQIAELEQHFLQGRYLTAPRLADLSAKLALGTAQVKIWFKNRRRRHKIQSDQ 63
Query: 67 REE 69
++
Sbjct: 64 HKD 66
Score = 28.5 bits (64), Expect = 0.32
Identities = 6/20 (30%), Positives = 10/20 (50%)
Query: 167 KYRVVYSDQQRLELEKEFHY 186
+ R ++ Q ELE+ F
Sbjct: 4 RTRTTFTSSQIAELEQHFLQ 23
>2djn_A Homeobox protein DLX-5; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 70
Score = 81.7 bits (202), Expect = 3e-21
Identities = 27/67 (40%), Positives = 41/67 (61%)
Query: 1 KTRTKDKYRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKE 60
+ K R +YS Q L++ F ++Y+ + +AELA SLGL++ QVKIWFQN+R+K
Sbjct: 3 SGSSGRKPRTIYSSFQLAALQRRFQKTQYLALPERAELAASLGLTQTQVKIWFQNKRSKI 62
Query: 61 RKQLKKR 67
+K
Sbjct: 63 KKSGPSS 69
Score = 27.7 bits (62), Expect = 0.55
Identities = 7/26 (26%), Positives = 11/26 (42%)
Query: 161 KTRTKDKYRVVYSDQQRLELEKEFHY 186
+ K R +YS Q L++ F
Sbjct: 3 SGSSGRKPRTIYSSFQLAALQRRFQK 28
>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 = 1e-20
Identities = 35/63 (55%), Positives = 49/63 (77%)
Query: 7 KYRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERKQLKK 66
+ R Y+ Q LELEKEFH++RY+T RR+ E+A++L L+ERQ+KIWFQNRR K +K+ K
Sbjct: 4 RGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWKKENKT 63
Query: 67 REE 69
+ E
Sbjct: 64 KGE 66
Score = 28.5 bits (64), Expect = 0.28
Identities = 11/20 (55%), Positives = 14/20 (70%)
Query: 167 KYRVVYSDQQRLELEKEFHY 186
+ R Y+ Q LELEKEFH+
Sbjct: 4 RGRQTYTRYQTLELEKEFHF 23
>2l9r_A Homeobox protein NKX-3.1; structural genomics, northeast
structural genomics consortiu PSI-biology, protein
structure initiative; NMR {Homo sapiens}
Length = 69
Score = 79.7 bits (197), Expect = 2e-20
Identities = 25/64 (39%), Positives = 39/64 (60%)
Query: 5 KDKYRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERKQL 64
+ S Q +ELE++F + +Y++ +A LA +L L+E QVKIWFQNRR K +++
Sbjct: 4 HHHHHSHMSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRRYKTKRKQ 63
Query: 65 KKRE 68
E
Sbjct: 64 LSSE 67
Score = 27.3 bits (61), Expect = 0.74
Identities = 6/22 (27%), Positives = 11/22 (50%)
Query: 165 KDKYRVVYSDQQRLELEKEFHY 186
+ S Q +ELE++F +
Sbjct: 4 HHHHHSHMSHTQVIELERKFSH 25
>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 = 79.9 bits (197), Expect = 2e-20
Identities = 35/69 (50%), Positives = 45/69 (65%)
Query: 1 KTRTKDKYRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKE 60
R+ K R Y+ Q LELEKEF ++ Y+T R+ E+A L L+ERQVKIWFQNRR K
Sbjct: 9 HARSTRKKRCPYTKHQTLELEKEFLFNMYLTRDRRYEVARLLNLTERQVKIWFQNRRMKM 68
Query: 61 RKQLKKREE 69
+K K R +
Sbjct: 69 KKINKDRAK 77
Score = 28.3 bits (63), Expect = 0.47
Identities = 12/26 (46%), Positives = 15/26 (57%)
Query: 161 KTRTKDKYRVVYSDQQRLELEKEFHY 186
R+ K R Y+ Q LELEKEF +
Sbjct: 9 HARSTRKKRCPYTKHQTLELEKEFLF 34
>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 = 79.8 bits (197), Expect = 2e-20
Identities = 24/68 (35%), Positives = 38/68 (55%)
Query: 1 KTRTKDKYRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKE 60
K K RV+++ Q ELE+ F RY++ + LA+ + L+ QVKIWFQN R K
Sbjct: 5 LPNKKRKRRVLFTKAQTYELERRFRQQRYLSAPEREHLASLIRLTPTQVKIWFQNHRYKT 64
Query: 61 RKQLKKRE 68
++ ++
Sbjct: 65 KRAQNEKG 72
Score = 27.8 bits (62), Expect = 0.52
Identities = 9/27 (33%), Positives = 13/27 (48%)
Query: 160 RKTRTKDKYRVVYSDQQRLELEKEFHY 186
K K RV+++ Q ELE+ F
Sbjct: 4 GLPNKKRKRRVLFTKAQTYELERRFRQ 30
>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 = 78.5 bits (194), Expect = 5e-20
Identities = 26/54 (48%), Positives = 42/54 (77%)
Query: 9 RVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERK 62
R +S +Q L++EF+ +RY+T RR+ +L++ LGL+E Q+KIWF+N+RAK +K
Sbjct: 7 RTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFKNKRAKIKK 60
Score = 26.1 bits (58), Expect = 1.7
Identities = 6/18 (33%), Positives = 11/18 (61%)
Query: 169 RVVYSDQQRLELEKEFHY 186
R +S +Q L++EF+
Sbjct: 7 RTAFSSEQLARLKREFNE 24
>2h1k_A IPF-1, pancreatic and duodenal homeobox 1, homeodomain;
protein-DNA complex, transcription/DNA complex; 2.42A
{Mesocricetus auratus}
Length = 63
Score = 78.2 bits (193), Expect = 6e-20
Identities = 30/57 (52%), Positives = 41/57 (71%)
Query: 7 KYRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERKQ 63
+ R Y+ Q LELEKEF +++YI+ R+ ELA L L+ER +KIWFQNRR K +K+
Sbjct: 5 RTRTAYTRAQLLELEKEFLFNKYISRPRRVELAVMLNLTERHIKIWFQNRRMKWKKE 61
Score = 28.5 bits (64), Expect = 0.24
Identities = 10/20 (50%), Positives = 13/20 (65%)
Query: 167 KYRVVYSDQQRLELEKEFHY 186
+ R Y+ Q LELEKEF +
Sbjct: 5 RTRTAYTRAQLLELEKEFLF 24
>1ig7_A Homeotic protein MSX-1; helix-turn-helix, transcription/DNA
complex; 2.20A {Mus musculus} SCOP: a.4.1.1
Length = 58
Score = 77.7 bits (192), Expect = 7e-20
Identities = 27/56 (48%), Positives = 40/56 (71%)
Query: 7 KYRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERK 62
K R ++ Q L LE++F +Y++I +AE ++SL L+E QVKIWFQNRRAK ++
Sbjct: 2 KPRTPFTTAQLLALERKFRQKQYLSIAERAEFSSSLSLTETQVKIWFQNRRAKAKR 57
Score = 26.4 bits (59), Expect = 1.3
Identities = 7/20 (35%), Positives = 11/20 (55%)
Query: 167 KYRVVYSDQQRLELEKEFHY 186
K R ++ Q L LE++F
Sbjct: 2 KPRTPFTTAQLLALERKFRQ 21
>2vi6_A Homeobox protein nanog; homeodomain, DNA-binding, transcription,
transcription facto developmental protein,
transcription regulation, NUC homeobox; 2.6A {Mus
musculus}
Length = 62
Score = 77.3 bits (191), Expect = 1e-19
Identities = 24/60 (40%), Positives = 38/60 (63%)
Query: 4 TKDKYRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERKQ 63
TK K R V+S Q L+ F +Y+++++ EL++ L LS +QVK WFQN+R K ++
Sbjct: 2 TKQKMRTVFSQAQLCALKDRFQKQKYLSLQQMQELSSILNLSYKQVKTWFQNQRMKCKRW 61
Score = 26.9 bits (60), Expect = 0.83
Identities = 9/23 (39%), Positives = 11/23 (47%)
Query: 164 TKDKYRVVYSDQQRLELEKEFHY 186
TK K R V+S Q L+ F
Sbjct: 2 TKQKMRTVFSQAQLCALKDRFQK 24
>2kt0_A Nanog, homeobox protein nanog; homeodomain, structural genomics,
protein structure initiative, PSI, center for
eukaryotic structural genomics; NMR {Homo sapiens}
Length = 84
Score = 77.5 bits (191), Expect = 2e-19
Identities = 25/65 (38%), Positives = 37/65 (56%)
Query: 1 KTRTKDKYRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKE 60
K K R V+S Q L F +Y+++++ EL+N L LS +QVK WFQN+R K
Sbjct: 18 VPVKKQKTRTVFSSTQLCVLNDRFQRQKYLSLQQMQELSNILNLSYKQVKTWFQNQRMKS 77
Query: 61 RKQLK 65
++ K
Sbjct: 78 KRWQK 82
Score = 27.8 bits (62), Expect = 0.67
Identities = 10/41 (24%), Positives = 16/41 (39%)
Query: 146 SETTATSYILDIDTRKTRTKDKYRVVYSDQQRLELEKEFHY 186
T+A + + + + K K R V+S Q L F
Sbjct: 3 QPTSAENSVAKKEDKVPVKKQKTRTVFSSTQLCVLNDRFQR 43
>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 = 76.8 bits (189), Expect = 2e-19
Identities = 26/61 (42%), Positives = 40/61 (65%)
Query: 7 KYRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERKQLKK 66
K R+ YS Q ELE+E+ +++IT ++ +++ + LSERQ+ IWFQNRR KE+K
Sbjct: 9 KKRIPYSKGQLRELEREYAANKFITKDKRRKISAATSLSERQITIWFQNRRVKEKKSGPS 68
Query: 67 R 67
Sbjct: 69 S 69
Score = 27.5 bits (61), Expect = 0.67
Identities = 9/20 (45%), Positives = 12/20 (60%)
Query: 167 KYRVVYSDQQRLELEKEFHY 186
K R+ YS Q ELE+E+
Sbjct: 9 KKRIPYSKGQLRELEREYAA 28
>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 = 76.6 bits (189), Expect = 2e-19
Identities = 25/57 (43%), Positives = 37/57 (64%)
Query: 7 KYRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERKQ 63
+YR ++ Q LEKEF+ Y++ R+ ELA L L E +K+WFQNRR K+++Q
Sbjct: 3 RYRTAFTRDQLGRLEKEFYKENYVSRPRRCELAAQLNLPESTIKVWFQNRRMKDKRQ 59
Score = 28.1 bits (63), Expect = 0.38
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 167 KYRVVYSDQQRLELEKEFHY 186
+YR ++ Q LEKEF+
Sbjct: 3 RYRTAFTRDQLGRLEKEFYK 22
>3rkq_A Homeobox protein NKX-2.5; helix-turn-helix, DNA binding, nucleus,
transcription-DNA CO; 1.70A {Homo sapiens}
Length = 58
Score = 75.0 bits (185), Expect = 9e-19
Identities = 26/55 (47%), Positives = 36/55 (65%)
Query: 5 KDKYRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAK 59
+ K RV++S Q ELE+ F RY++ + +LA+ L L+ QVKIWFQNRR K
Sbjct: 2 RRKPRVLFSQAQVYELERRFKQQRYLSAPERDQLASVLKLTSTQVKIWFQNRRYK 56
Score = 26.4 bits (59), Expect = 1.3
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 165 KDKYRVVYSDQQRLELEKEFHY 186
+ K RV++S Q ELE+ F
Sbjct: 2 RRKPRVLFSQAQVYELERRFKQ 23
>1ftt_A TTF-1 HD, thyroid transcription factor 1 homeodomain; DNA binding
protein; NMR {Rattus norvegicus} SCOP: a.4.1.1
Length = 68
Score = 75.1 bits (185), Expect = 9e-19
Identities = 25/65 (38%), Positives = 39/65 (60%)
Query: 5 KDKYRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERKQL 64
+ K RV++S Q ELE+ F +Y++ + LA+ + L+ QVKIWFQN R K ++Q
Sbjct: 2 RRKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQVKIWFQNHRYKMKRQA 61
Query: 65 KKREE 69
K +
Sbjct: 62 KDKAA 66
Score = 25.8 bits (57), Expect = 2.6
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 165 KDKYRVVYSDQQRLELEKEFHY 186
+ K RV++S Q ELE+ F
Sbjct: 2 RRKRRVLFSQAQVYELERRFKQ 23
>3a03_A T-cell leukemia homeobox protein 2; homeodomain, developmental
protein, DNA-binding, N gene regulation; 1.54A {Homo
sapiens}
Length = 56
Score = 74.3 bits (183), Expect = 1e-18
Identities = 24/53 (45%), Positives = 34/53 (64%)
Query: 11 VYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERKQ 63
+S Q LELE+ F +Y+ +A LA +L +++ QVK WFQNRR K R+Q
Sbjct: 3 SFSRSQVLELERRFLRQKYLASAERAALAKALRMTDAQVKTWFQNRRTKWRRQ 55
>2l7z_A Homeobox protein HOX-A13; gene regulation; NMR {Homo sapiens}
PDB: 2ld5_A*
Length = 73
Score = 74.1 bits (182), Expect = 3e-18
Identities = 28/62 (45%), Positives = 42/62 (67%)
Query: 7 KYRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERKQLKK 66
K RV Y+ Q ELE+E+ +++IT ++ ++ + LSERQV IWFQNRR KE+K + K
Sbjct: 9 KKRVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQVTIWFQNRRVKEKKVINK 68
Query: 67 RE 68
+
Sbjct: 69 LK 70
Score = 26.4 bits (58), Expect = 2.1
Identities = 9/20 (45%), Positives = 12/20 (60%)
Query: 167 KYRVVYSDQQRLELEKEFHY 186
K RV Y+ Q ELE+E+
Sbjct: 9 KKRVPYTKVQLKELEREYAT 28
>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 = 73.4 bits (181), Expect = 3e-18
Identities = 16/51 (31%), Positives = 28/51 (54%)
Query: 9 RVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAK 59
+ S Q R LE+ F + + + K E+A G++ QV++WF N+R +
Sbjct: 9 KSSISPQARAFLEEVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMR 59
>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 = 73.1 bits (179), Expect = 5e-17
Identities = 17/61 (27%), Positives = 29/61 (47%)
Query: 2 TRTKDKYRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKER 61
+ K R R+ LEK F ++ T +A L + + +++WF NRR KE+
Sbjct: 98 LSRRRKKRTSIETNIRVALEKSFMENQKPTSEDITLIAEQLNMEKEVIRVWFSNRRQKEK 157
Query: 62 K 62
+
Sbjct: 158 R 158
>2xsd_C POU domain, class 3, transcription factor 1; transcription-DNA
complex, SOX; 2.05A {Mus musculus}
Length = 164
Score = 69.7 bits (170), Expect = 2e-15
Identities = 18/60 (30%), Positives = 26/60 (43%)
Query: 7 KYRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERKQLKK 66
K R + LE F + LA+SL L + V++WF NRR KE++
Sbjct: 101 KKRTSIEVGVKGALESHFLKCPKPSAHEITGLADSLQLEKEVVRVWFCNRRQKEKRMTPA 160
>2dn0_A Zinc fingers and homeoboxes protein 3; triple homeobox 1 protein,
KIAA0395, TIX1, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 76
Score = 65.9 bits (161), Expect = 4e-15
Identities = 17/61 (27%), Positives = 26/61 (42%)
Query: 7 KYRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERKQLKK 66
Y+ S +Q L+ F +++ L GLS R+V+ WF +RR R
Sbjct: 10 IYKNKKSHEQLSALKGSFCRNQFPGQSEVEHLTKVTGLSTREVRKWFSDRRYHCRNLKGS 69
Query: 67 R 67
R
Sbjct: 70 R 70
>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 = 63.5 bits (155), Expect = 2e-14
Identities = 19/63 (30%), Positives = 28/63 (44%)
Query: 3 RTKDKYRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERK 62
+ R ++D Q L+ F + Y +L+N L L R + +WFQN R K RK
Sbjct: 5 SSGRSSRTRFTDYQLRVLQDFFDANAYPKDDEFEQLSNLLNLPTRVIVVWFQNARQKARK 64
Query: 63 QLK 65
Sbjct: 65 SGP 67
>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 = 61.7 bits (150), Expect = 2e-13
Identities = 18/66 (27%), Positives = 34/66 (51%)
Query: 1 KTRTKDKYRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKE 60
+ + + R + +Q L +++ T + +A+ +GL +R V++WFQN RA+E
Sbjct: 13 EPQRDKRLRTTITPEQLEILYQKYLLDSNPTRKMLDHIAHEVGLKKRVVQVWFQNTRARE 72
Query: 61 RKQLKK 66
RK
Sbjct: 73 RKSGPS 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 = 63.5 bits (154), Expect = 2e-13
Identities = 17/58 (29%), Positives = 28/58 (48%)
Query: 5 KDKYRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERK 62
K K R S + LE+ F + + +A L L + V++WF NRR +E++
Sbjct: 87 KRKRRTTISIAAKDALERHFGEHSKPSSQEIMRMAEELNLEKEVVRVWFCNRRQREKR 144
>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 = 60.9 bits (148), Expect = 3e-13
Identities = 20/69 (28%), Positives = 35/69 (50%)
Query: 8 YRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERKQLKKR 67
R + Q ++ F + + +LA GL++R +++WFQN RAK R+ L ++
Sbjct: 10 MRTSFKHHQLRTMKSYFAINHNPDAKDLKQLAQKTGLTKRVLQVWFQNARAKFRRNLLRQ 69
Query: 68 EEVVIKDPS 76
E + PS
Sbjct: 70 ENGGVSGPS 78
>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 = 59.3 bits (144), Expect = 1e-12
Identities = 16/57 (28%), Positives = 28/57 (49%)
Query: 9 RVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERKQLK 65
R +D Q L + F + + + E+A+ GL ++ +K WF+N KER+
Sbjct: 11 RTRITDDQLRVLRQYFDINNSPSEEQIKEMADKSGLPQKVIKHWFRNTLFKERQSGP 67
>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 = 59.4 bits (144), Expect = 1e-12
Identities = 24/76 (31%), Positives = 41/76 (53%)
Query: 1 KTRTKDKYRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKE 60
+ + R ++ Q LE F +RY I + E+A + L E +V++WF+NRRAK
Sbjct: 3 SGSSGRRERTTFTRAQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQVWFKNRRAKC 62
Query: 61 RKQLKKREEVVIKDPS 76
R+Q ++++ PS
Sbjct: 63 RQQQQQQQNGGQSGPS 78
>2hi3_A Homeodomain-only protein; transcription; NMR {Mus musculus} SCOP:
a.4.1.1
Length = 73
Score = 59.4 bits (144), Expect = 1e-12
Identities = 15/62 (24%), Positives = 27/62 (43%), Gaps = 1/62 (1%)
Query: 9 RVVYSDQQRLELEKEFH-YSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERKQLKKR 67
++ Q LE F+ +++ +A GL+E Q + WF+ R A+ R+
Sbjct: 6 VSGPTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQKWFKQRLAEWRRSEGLP 65
Query: 68 EE 69
E
Sbjct: 66 SE 67
>2cue_A Paired box protein PAX6; homeobox domain, transcription factor,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
a.4.1.1
Length = 80
Score = 58.9 bits (143), Expect = 2e-12
Identities = 24/74 (32%), Positives = 40/74 (54%)
Query: 3 RTKDKYRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERK 62
+ + R ++ +Q LEKEF + Y + + LA + L E ++++WF NRRAK R+
Sbjct: 5 SSGQRNRTSFTQEQIEALEKEFERTHYPDVFARERLAAKIDLPEARIQVWFSNRRAKWRR 64
Query: 63 QLKKREEVVIKDPS 76
+ K R + PS
Sbjct: 65 EEKLRNQRRQSGPS 78
>2d5v_A Hepatocyte nuclear factor 6; transcription factor,
transcription-DNA complex; 2.00A {Rattus norvegicus}
PDB: 1s7e_A
Length = 164
Score = 59.9 bits (144), Expect = 6e-12
Identities = 16/67 (23%), Positives = 29/67 (43%)
Query: 3 RTKDKYRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERK 62
T K R+V++D QR L F ++ + + ++ LGL V +F N R +
Sbjct: 95 NTPKKPRLVFTDVQRRTLHAIFKENKRPSKELQITISQQLGLELSTVSNFFMNARRRSLD 154
Query: 63 QLKKREE 69
+ +
Sbjct: 155 KWLEHHH 161
>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 = 56.9 bits (138), Expect = 8e-12
Identities = 25/57 (43%), Positives = 37/57 (64%)
Query: 9 RVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERKQLK 65
+ ++ Q ELEK F + Y + + ELA +GL+E ++++WFQNRRAK RKQ K
Sbjct: 3 HMTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQVWFQNRRAKWRKQEK 59
>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 = 59.3 bits (143), Expect = 9e-12
Identities = 16/60 (26%), Positives = 24/60 (40%)
Query: 3 RTKDKYRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERK 62
K K R ++ Q L F + T + E+A L V++WF NRR +
Sbjct: 91 SKKRKRRTSFTPQAIEALNAYFEKNPLPTGQEITEMAKELNYDREVVRVWFSNRRQTLKN 150
>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 = 56.2 bits (136), Expect = 2e-11
Identities = 20/61 (32%), Positives = 32/61 (52%)
Query: 8 YRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERKQLKKR 67
R ++ Q LE F + Y I +LA L L +++IWFQNRRAK ++ ++
Sbjct: 4 PRTAFTQNQIEVLENVFRVNCYPGIDILEDLAQKLNLELDRIQIWFQNRRAKLKRSHRES 63
Query: 68 E 68
+
Sbjct: 64 Q 64
>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 = 55.9 bits (135), Expect = 3e-11
Identities = 15/64 (23%), Positives = 28/64 (43%), Gaps = 1/64 (1%)
Query: 7 KYRVVYSDQQRLELEKEFH-YSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERKQLK 65
+ ++ Q LE F+ +++ +A GL+E Q + WF+ R A+ R+
Sbjct: 3 EGAATMTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQKWFKQRLAEWRRSEG 62
Query: 66 KREE 69
E
Sbjct: 63 LPSE 66
>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 = 55.4 bits (134), Expect = 4e-11
Identities = 17/59 (28%), Positives = 30/59 (50%)
Query: 8 YRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERKQLKK 66
R V +++Q L + + K +L GLS R +++WFQN+R K++K+
Sbjct: 6 VRTVLNEKQLHTLRTCYAANPRPDALMKEQLVEMTGLSPRVIRVWFQNKRCKDKKRSIM 64
>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 = 55.4 bits (134), Expect = 4e-11
Identities = 20/63 (31%), Positives = 38/63 (60%)
Query: 3 RTKDKYRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERK 62
+ ++R +++D+Q LE F ++Y + + +LA + L E +V++WF+NRRAK R+
Sbjct: 5 SSGRRHRTIFTDEQLEALENLFQETKYPDVGTREQLARKVHLREEKVEVWFKNRRAKWRR 64
Query: 63 QLK 65
Sbjct: 65 SGP 67
>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 = 55.0 bits (133), Expect = 5e-11
Identities = 22/59 (37%), Positives = 37/59 (62%)
Query: 7 KYRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERKQLK 65
+ R ++ QQ +LE F +RY + + E+A L+E +V++WF+NRRAK RK+ +
Sbjct: 5 RQRTHFTSQQLQQLEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRKREE 63
>3l1p_A POU domain, class 5, transcription factor 1; POU, transcription
factor DNA complex, pore, stem cells; HET: DNA; 2.80A
{Mus musculus} PDB: 1ocp_A
Length = 155
Score = 57.0 bits (137), Expect = 6e-11
Identities = 18/56 (32%), Positives = 31/56 (55%)
Query: 7 KYRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERK 62
+ R ++ R LE F S ++++ +AN LGL + V++WF NRR K ++
Sbjct: 98 RKRTSIENRVRWSLETMFLKSPKPSLQQITHIANQLGLEKDVVRVWFSNRRQKGKR 153
>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 = 54.7 bits (132), Expect = 9e-11
Identities = 25/63 (39%), Positives = 38/63 (60%)
Query: 3 RTKDKYRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERK 62
R + + R +S Q ELE+ F ++Y I + ELA L+E ++++WFQNRRA+ RK
Sbjct: 16 RKQRRSRTTFSASQLDELERAFERTQYPDIYTREELAQRTNLTEARIQVWFQNRRARLRK 75
Query: 63 QLK 65
Q
Sbjct: 76 QHT 78
>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 = 54.2 bits (130), Expect = 2e-10
Identities = 14/57 (24%), Positives = 20/57 (35%)
Query: 13 SDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERKQLKKREE 69
+ Q LE F S + T L LS R++ WF RR + +
Sbjct: 21 TQGQVKILEDSFLKSSFPTQAELDRLRVETKLSRREIDSWFSERRKLRDSMEQAVLD 77
>2da5_A Zinc fingers and homeoboxes protein 3; homeobox domain, three
helices with the DNA binding helix- turn-helix motif,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 75
Score = 52.2 bits (125), Expect = 6e-10
Identities = 12/57 (21%), Positives = 22/57 (38%)
Query: 13 SDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERKQLKKREE 69
+ +Q LE F + L + ++ R++ WF RR K + K+
Sbjct: 15 APEQLRALESSFAQNPLPLDEELDRLRSETKMTRREIDSWFSERRKKVNAEETKKSG 71
Score = 31.4 bits (71), Expect = 0.031
Identities = 6/22 (27%), Positives = 10/22 (45%)
Query: 93 QVKIWFQNRRAKERKQLKKREE 114
++ WF RR K + K+
Sbjct: 50 EIDSWFSERRKKVNAEETKKSG 71
>2ecb_A Zinc fingers and homeoboxes protein 1; homeobox domain,
transcription factor, structural genomics, NPPSFA; NMR
{Homo sapiens} SCOP: a.4.1.1
Length = 89
Score = 52.3 bits (125), Expect = 9e-10
Identities = 12/56 (21%), Positives = 24/56 (42%)
Query: 13 SDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERKQLKKRE 68
+ +Q L+ F S +T L L+ R++ WF ++ + + +K E
Sbjct: 19 TAEQLRVLQASFLNSSVLTDEELNRLRAQTKLTRREIDAWFTEKKKSKALKEEKME 74
>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 = 51.0 bits (122), Expect = 2e-09
Identities = 12/56 (21%), Positives = 20/56 (35%), Gaps = 1/56 (1%)
Query: 9 RVVYSDQQRLELEKEFH-YSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERKQ 63
R S + L+ H Y L+ L L + + +FQN+R +
Sbjct: 11 RTKISLEALGILQSFIHDVGLYPDQEAIHTLSAQLDLPKHTIIKFFQNQRYHVKHS 66
Score = 31.3 bits (71), Expect = 0.031
Identities = 4/16 (25%), Positives = 8/16 (50%)
Query: 93 QVKIWFQNRRAKERKQ 108
+ +FQN+R +
Sbjct: 51 TIIKFFQNQRYHVKHS 66
>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 = 49.8 bits (119), Expect = 4e-09
Identities = 11/60 (18%), Positives = 25/60 (41%)
Query: 7 KYRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERKQLKK 66
+ + +Q L+ F S++ L GL+ ++K WF + R + ++ +
Sbjct: 6 HHHRKKTKEQIAHLKASFLQSQFPDDAEVYRLIEVTGLARSEIKKWFSDHRYRCQRGIVH 65
>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 = 1e-08
Identities = 16/59 (27%), Positives = 29/59 (49%), Gaps = 3/59 (5%)
Query: 5 KDKYRVVYSDQQRLELEKEF-HYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERK 62
KD + LEK F ++Y +R L+ L S R+++ WF++RR +++
Sbjct: 10 KDSPVN--KVEPNDTLEKVFVSVTKYPDEKRLKGLSKQLDWSVRKIQCWFRHRRNQDKP 66
Score = 29.0 bits (65), Expect = 0.19
Identities = 4/15 (26%), Positives = 12/15 (80%)
Query: 93 QVKIWFQNRRAKERK 107
+++ WF++RR +++
Sbjct: 52 KIQCWFRHRRNQDKP 66
>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 = 48.1 bits (114), Expect = 4e-08
Identities = 15/91 (16%), Positives = 34/91 (37%), Gaps = 15/91 (16%)
Query: 1 KTRTKDKYRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLG---------------LS 45
+ R + + +E F+ ++Y ++ E+AN+ ++
Sbjct: 3 SGSSGRGSRFTWRKECLAVMESYFNENQYPDEAKREEIANACNAVIQKPGKKLSDLERVT 62
Query: 46 ERQVKIWFQNRRAKERKQLKKREEVVIKDPS 76
+V WF NRR + +++ + PS
Sbjct: 63 SLKVYNWFANRRKEIKRRANIAAILESSGPS 93
>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 = 2e-06
Identities = 13/44 (29%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 20 LEKEF-HYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERK 62
LEK F +++ +R L+ L R ++ WF+ RR +E+
Sbjct: 15 LEKVFTAITKHPDEKRLEGLSKQLDWDVRSIQRWFRQRRNQEKP 58
Score = 25.9 bits (57), Expect = 2.2
Identities = 5/15 (33%), Positives = 10/15 (66%)
Query: 93 QVKIWFQNRRAKERK 107
++ WF+ RR +E+
Sbjct: 44 SIQRWFRQRRNQEKP 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 = 39.4 bits (91), Expect = 6e-05
Identities = 11/60 (18%), Positives = 23/60 (38%)
Query: 7 KYRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERKQLKK 66
+ +Q L+ F +++ + +LA GL+ + WF + R + K
Sbjct: 27 GKICKKTPEQLHMLKSAFVRTQWPSPEEYDKLAKESGLARTDIVSWFGDTRYAWKNGNLK 86
>2ys9_A Homeobox and leucine zipper protein homez; homeodomain,
structural genomics, NPPSFA, national project on
protein structural and functional analyses; NMR {Homo
sapiens}
Length = 70
Score = 36.7 bits (84), Expect = 4e-04
Identities = 10/53 (18%), Positives = 22/53 (41%)
Query: 10 VVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERK 62
+ LE+ + + + +L+ + LS +QV WF +R + +
Sbjct: 11 IPPPPPDIQPLERYWAAHQQLRETDIPQLSQASRLSTQQVLDWFDSRLPQPAE 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 = 34.6 bits (79), Expect = 0.002
Identities = 8/27 (29%), Positives = 16/27 (59%)
Query: 36 AELANSLGLSERQVKIWFQNRRAKERK 62
+++A+S+ L VK WF+ +A +
Sbjct: 34 SKIADSVNLPLDVVKKWFEKMQAGQIS 60
Score = 26.5 bits (58), Expect = 1.6
Identities = 5/14 (35%), Positives = 8/14 (57%)
Query: 94 VKIWFQNRRAKERK 107
VK WF+ +A +
Sbjct: 47 VKKWFEKMQAGQIS 60
>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 = 0.006
Identities = 13/40 (32%), Positives = 18/40 (45%)
Query: 29 YITIRRKAELANSLGLSERQVKIWFQNRRAKERKQLKKRE 68
Y+ + L + LS Q+K W RRAKE+ E
Sbjct: 29 YLDTKGLENLMKNTSLSRIQIKNWVAARRAKEKTITIAPE 68
>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 = 33.4 bits (76), Expect = 0.007
Identities = 10/54 (18%), Positives = 20/54 (37%)
Query: 13 SDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERKQLKK 66
+ +Q L+ F ++ +L GL ++ WF + R + K
Sbjct: 11 TKEQLAILKSFFLQCQWARREDYQKLEQITGLPRPEIIQWFGDTRYALKHGQLK 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 = 35.2 bits (81), Expect = 0.008
Identities = 16/49 (32%), Positives = 28/49 (57%)
Query: 13 SDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKER 61
S Q R LE+ F + + + K E+A G++ QV++WF N+R + +
Sbjct: 373 SPQARAFLEQVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMRSK 421
>2h8r_A Hepatocyte nuclear factor 1-beta; trasncription factor, POU, homeo,
protein-DNA, human disease; 3.20A {Homo sapiens}
Length = 221
Score = 34.6 bits (78), Expect = 0.010
Identities = 12/76 (15%), Positives = 24/76 (31%), Gaps = 21/76 (27%)
Query: 9 RVVYSDQQRLELEKEFHYSRYITIRRKAELAN---------------------SLGLSER 47
R + + L + + + + + L S ++E
Sbjct: 146 RFKWGPASQQILYQAYDRQKNPSKEEREALVEECNRAECLQRGVSPSKAHGLGSNLVTEV 205
Query: 48 QVKIWFQNRRAKERKQ 63
+V WF NRR +E +
Sbjct: 206 RVYNWFANRRKEEAFR 221
>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 = 31.9 bits (73), Expect = 0.014
Identities = 12/34 (35%), Positives = 17/34 (50%)
Query: 29 YITIRRKAELANSLGLSERQVKIWFQNRRAKERK 62
Y+ + L + LS Q+K W NRR KE+
Sbjct: 25 YLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKT 58
>1lfb_A Liver transcription factor (LFB1); transcription regulation;
2.80A {Rattus norvegicus} SCOP: a.4.1.1 PDB: 2lfb_A
Length = 99
Score = 32.9 bits (74), Expect = 0.014
Identities = 14/85 (16%), Positives = 28/85 (32%), Gaps = 21/85 (24%)
Query: 2 TRTKDKYRVVYSDQQRLELEKEFHYSRYITIRRKAELAN--------------------- 40
T+ + R + + L + + + + + L
Sbjct: 6 TKKGRRNRFKWGPASQQILFQAYERQKNPSKEERETLVEECNRAECIQRGVSPSQAQGLG 65
Query: 41 SLGLSERQVKIWFQNRRAKERKQLK 65
S ++E +V WF NRR +E + K
Sbjct: 66 SNLVTEVRVYNWFANRRKEEAFRHK 90
>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 = 31.9 bits (71), Expect = 0.025
Identities = 14/59 (23%), Positives = 23/59 (38%), Gaps = 4/59 (6%)
Query: 9 RVVYSDQQRLELEKEFHYS----RYITIRRKAELANSLGLSERQVKIWFQNRRAKERKQ 63
R +SD+ L+K + + + +A L + V+ W NRR K R
Sbjct: 12 RTQFSDRDLATLKKYWDNGMTSLGSVCREKIEAVATELNVDCEIVRTWIGNRRRKYRLM 70
>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 = 31.3 bits (70), Expect = 0.028
Identities = 7/27 (25%), Positives = 16/27 (59%)
Query: 36 AELANSLGLSERQVKIWFQNRRAKERK 62
+++ ++GL + VK WF+ R+ +
Sbjct: 36 LKISIAVGLPQEFVKEWFEQRKVYQYS 62
>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 = 32.9 bits (74), Expect = 0.031
Identities = 13/84 (15%), Positives = 27/84 (32%), Gaps = 21/84 (25%)
Query: 1 KTRTKDKYRVVYSDQQRLELEKEFHYSRYITIRRKAELAN-------------------- 40
T+ + R + + L + + + + + L
Sbjct: 111 PTKKGRRNRFKWGPASQQILFQAYERQKNPSKEERETLVEECNRAECIQRGVSPSQAQGL 170
Query: 41 -SLGLSERQVKIWFQNRRAKERKQ 63
S ++E +V WF NRR +E +
Sbjct: 171 GSNLVTEVRVYNWFANRRKEEAFR 194
>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 = 31.7 bits (72), Expect = 0.035
Identities = 14/35 (40%), Positives = 21/35 (60%)
Query: 35 KAELANSLGLSERQVKIWFQNRRAKERKQLKKREE 69
K ELA G++ QV WF N+R + +K + K +E
Sbjct: 34 KEELAKKCGITVSQVSNWFGNKRIRYKKNIGKFQE 68
>3k2a_A Homeobox protein MEIS2; homeobox domain, DNA-binding,
transcription, nucleus, phosphoprotein, DNA bindi
protein; 1.95A {Homo sapiens}
Length = 67
Score = 30.4 bits (69), Expect = 0.054
Identities = 13/46 (28%), Positives = 22/46 (47%), Gaps = 1/46 (2%)
Query: 25 HYSR-YITIRRKAELANSLGLSERQVKIWFQNRRAKERKQLKKREE 69
H + Y + +K +LA GL+ QV WF N R + + + +
Sbjct: 20 HLTHPYPSEEQKKQLAQDTGLTILQVNNWFINARRRIVQPMIDQSN 65
>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 = 30.6 bits (69), Expect = 0.069
Identities = 12/33 (36%), Positives = 17/33 (51%)
Query: 29 YITIRRKAELANSLGLSERQVKIWFQNRRAKER 61
Y+ + L + LS Q+K W NRR KE+
Sbjct: 54 YLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEK 86
>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 = 29.6 bits (67), Expect = 0.11
Identities = 14/35 (40%), Positives = 21/35 (60%)
Query: 35 KAELANSLGLSERQVKIWFQNRRAKERKQLKKREE 69
K ELA G++ QV WF N+R + +K + K +E
Sbjct: 34 KEELAKKCGITVSQVSNWFGNKRIRYKKNIGKFQE 68
>2dmn_A Homeobox protein TGIF2LX; TGFB-induced factor 2-like protein,
X-linked TGF(beta) induced transcription factor 2-like
protein, TGIF-like on the X; NMR {Homo sapiens}
Length = 83
Score = 30.1 bits (68), Expect = 0.12
Identities = 15/50 (30%), Positives = 20/50 (40%), Gaps = 3/50 (6%)
Query: 29 YITIRRKAELANSLGLSERQVKIWFQNRRAKERKQLKKREEVVIKDPSKD 78
Y + K L+ LS Q+ WF N R R+ L + DPS
Sbjct: 34 YPSEEEKQMLSEKTNLSLLQISNWFINAR---RRILPDMLQQRRNDPSGP 80
>2lk2_A Homeobox protein TGIF1; NESG, structural genomics, northeast
structural genomics CON PSI-biology, transcription; NMR
{Homo sapiens}
Length = 89
Score = 28.6 bits (64), Expect = 0.36
Identities = 17/49 (34%), Positives = 23/49 (46%), Gaps = 3/49 (6%)
Query: 29 YITIRRKAELANSLGLSERQVKIWFQNRRAKERKQLKKREEVVIKDPSK 77
Y + + KA L+ LS QV WF N R R+ L KDP++
Sbjct: 32 YPSEQEKALLSQQTHLSTLQVCNWFINAR---RRLLPDMLRKDGKDPNQ 77
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 29.4 bits (65), Expect = 0.53
Identities = 11/80 (13%), Positives = 30/80 (37%), Gaps = 15/80 (18%)
Query: 48 QVKIWFQNRRAKERKQLKKREEVVIKDPSKDLFLSNKVMYTYLVFQVKIWFQNRR---AK 104
++ W R ++RK+L++ + + + K ++ W Q + K
Sbjct: 86 SIRKW----REEQRKRLQELDAASKVMEQEWREKAKK--------DLEEWNQRQSEQVEK 133
Query: 105 ERKQLKKREEVVIKDPSKDL 124
+ + ++ + P D+
Sbjct: 134 NKINNRIADKAFYQQPDADI 153
Score = 28.6 bits (63), Expect = 1.0
Identities = 10/68 (14%), Positives = 27/68 (39%), Gaps = 10/68 (14%)
Query: 15 QQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRR---AKERKQLKKREEVV 71
+QR L++ S+ + E +++ ++ W Q + K + + ++
Sbjct: 93 EQRKRLQELDAASK----VMEQEWREK---AKKDLEEWNQRQSEQVEKNKINNRIADKAF 145
Query: 72 IKDPSKDL 79
+ P D+
Sbjct: 146 YQQPDADI 153
>1du6_A PBX1, homeobox protein PBX1; homeodomain, gene regulation; NMR
{Mus musculus} SCOP: a.4.1.1
Length = 64
Score = 27.7 bits (62), Expect = 0.59
Identities = 13/34 (38%), Positives = 19/34 (55%)
Query: 29 YITIRRKAELANSLGLSERQVKIWFQNRRAKERK 62
Y + K ELA G++ QV WF N+R + +K
Sbjct: 30 YPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKK 63
>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 = 27.0 bits (60), Expect = 0.96
Identities = 9/23 (39%), Positives = 12/23 (52%)
Query: 35 KAELANSLGLSERQVKIWFQNRR 57
K ++A L+ QV WF N R
Sbjct: 40 KKQIAAQTNLTLLQVNNWFINAR 62
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 27.2 bits (59), Expect = 2.1
Identities = 7/42 (16%), Positives = 17/42 (40%), Gaps = 14/42 (33%)
Query: 105 ERKQLKKREEVVIKDPSKDLFLSNKVMIRKISVSPPFSFRSS 146
E++ LKK + S L+ + +P + +++
Sbjct: 18 EKQALKKLQA------SLKLYADDS--------APALAIKAT 45
Score = 26.1 bits (56), Expect = 5.6
Identities = 4/9 (44%), Positives = 7/9 (77%)
Query: 60 ERKQLKKRE 68
E++ LKK +
Sbjct: 18 EKQALKKLQ 26
>2vug_A PAB1020; RNA, ligase, AMPPNP, nucleotidyl- transferase; HET: ANP;
2.9A {Pyrococcus abyssi GE5}
Length = 389
Score = 28.0 bits (62), Expect = 2.2
Identities = 11/55 (20%), Positives = 24/55 (43%), Gaps = 6/55 (10%)
Query: 28 RYITIRRKAELANSLGLSERQVKIWFQNRRAKERKQL------KKREEVVIKDPS 76
R + + + ++A G++ +V + E QL + RE +++K P
Sbjct: 188 RSLPVEERLKIAEEYGINHVEVFGKYTKDDVDELYQLIERLSKEGREGIIMKSPD 242
>2o0m_A Transcriptional regulator, SORC family; structural genomics,
protein structure initiative, midwest center for
structural genomics, MCSG; 1.60A {Enterococcus
faecalis} SCOP: c.124.1.8
Length = 345
Score = 26.8 bits (59), Expect = 4.6
Identities = 9/46 (19%), Positives = 25/46 (54%), Gaps = 5/46 (10%)
Query: 15 QQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKE 60
Q+R ++ + ++ + I R L+ ++G++ER ++ + K+
Sbjct: 20 QERFQILRNIYWMQPIGRR---SLSETMGITERVLRT--ETDVLKQ 60
>3mzy_A RNA polymerase sigma-H factor; PSI, MCSG, structural genomics,
midwest center for structura genomics, protein structure
initiative; 2.50A {Fusobacterium nucleatum subsp}
Length = 164
Score = 26.0 bits (57), Expect = 7.2
Identities = 8/34 (23%), Positives = 16/34 (47%)
Query: 37 ELANSLGLSERQVKIWFQNRRAKERKQLKKREEV 70
E+A L + + + Q R K + +K+ E +
Sbjct: 129 EIATILSKNLKSIDNTIQRIRKKSEEWIKEEENI 162
>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 = 24.6 bits (53), Expect = 9.7
Identities = 8/63 (12%), Positives = 23/63 (36%), Gaps = 4/63 (6%)
Query: 4 TKDKYRVVYSDQQRLELEKEFHYSRYITIRRK----AELANSLGLSERQVKIWFQNRRAK 59
T ++R ++ +Q+ ++ + + + G+ + +KIW N +
Sbjct: 16 TTKRFRTKFTAEQKEKMLAFAERLGWRIQKHDDVAVEQFCAETGVRRQVLKIWMHNNKNS 75
Query: 60 ERK 62
Sbjct: 76 GPS 78
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
0.319 0.132 0.364
Gapped
Lambda K H
0.267 0.0592 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,728,247
Number of extensions: 152455
Number of successful extensions: 577
Number of sequences better than 10.0: 1
Number of HSP's gapped: 560
Number of HSP's successfully gapped: 189
Length of query: 186
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 98
Effective length of database: 4,244,745
Effective search space: 415985010
Effective search space used: 415985010
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 54 (24.9 bits)