RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10486
(183 letters)
>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 = 98.4 bits (245), Expect = 1e-27
Identities = 45/70 (64%), Positives = 56/70 (80%)
Query: 74 WTGQVTVRKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRM 133
W + RKKR PY+KHQTLELEKEFL+N Y+++ +R+E+AR L LTERQVKIWFQNRRM
Sbjct: 7 WLHARSTRKKRCPYTKHQTLELEKEFLFNMYLTRDRRYEVARLLNLTERQVKIWFQNRRM 66
Query: 134 KNKKNTQRQA 143
K KK + +A
Sbjct: 67 KMKKINKDRA 76
Score = 84.1 bits (208), Expect = 3e-22
Identities = 38/63 (60%), Positives = 49/63 (77%)
Query: 9 SSSTLEWTGQVTVRKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIW 68
++ W + RKKR PY+KHQTLELEKEFL+N Y+++ +R+E+AR L LTERQVKIW
Sbjct: 1 NNPAANWLHARSTRKKRCPYTKHQTLELEKEFLFNMYLTRDRRYEVARLLNLTERQVKIW 60
Query: 69 FQN 71
FQN
Sbjct: 61 FQN 63
>2l7z_A Homeobox protein HOX-A13; gene regulation; NMR {Homo sapiens} PDB:
2ld5_A*
Length = 73
Score = 95.7 bits (238), Expect = 1e-26
Identities = 31/66 (46%), Positives = 44/66 (66%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKKNTQ 140
RKKR PY+K Q ELE+E+ N +++K KR ++ + L+ERQV IWFQNRR+K KK
Sbjct: 8 RKKRVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQVTIWFQNRRVKEKKVIN 67
Query: 141 RQAAQA 146
+ +
Sbjct: 68 KLKTTS 73
Score = 80.7 bits (199), Expect = 7e-21
Identities = 26/50 (52%), Positives = 36/50 (72%)
Query: 22 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
RKKR PY+K Q ELE+E+ N +++K KR ++ + L+ERQV IWFQN
Sbjct: 8 RKKRVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQVTIWFQN 57
>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 = 94.5 bits (235), Expect = 3e-26
Identities = 31/63 (49%), Positives = 44/63 (69%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKKNTQ 140
RKKR PYSK Q ELE+E+ N +++K KR +++ + L+ERQ+ IWFQNRR+K KK+
Sbjct: 8 RKKRIPYSKGQLRELEREYAANKFITKDKRRKISAATSLSERQITIWFQNRRVKEKKSGP 67
Query: 141 RQA 143
Sbjct: 68 SSG 70
Score = 79.9 bits (197), Expect = 1e-20
Identities = 26/50 (52%), Positives = 37/50 (74%)
Query: 22 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
RKKR PYSK Q ELE+E+ N +++K KR +++ + L+ERQ+ IWFQN
Sbjct: 8 RKKRIPYSKGQLRELEREYAANKFITKDKRRKISAATSLSERQITIWFQN 57
>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 = 93.6 bits (233), Expect = 5e-26
Identities = 34/63 (53%), Positives = 51/63 (80%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKKNTQ 140
++ R+ Y+++QTLELEKEF +N Y+++++R E+A +L LTERQ+KIWFQNRRMK KK +
Sbjct: 3 KRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWKKENK 62
Query: 141 RQA 143
+
Sbjct: 63 TKG 65
Score = 79.0 bits (195), Expect = 3e-20
Identities = 28/50 (56%), Positives = 43/50 (86%)
Query: 22 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
++ R+ Y+++QTLELEKEF +N Y+++++R E+A +L LTERQ+KIWFQN
Sbjct: 3 KRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQN 52
>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 = 90.6 bits (225), Expect = 1e-24
Identities = 36/60 (60%), Positives = 49/60 (81%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKKNTQ 140
R+ R+ Y+++QTLELEKEF N Y+++++R E+A +L LTERQ+KIWFQNRRMK KK Q
Sbjct: 21 RRGRQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALSLTERQIKIWFQNRRMKLKKEIQ 80
Score = 76.8 bits (189), Expect = 3e-19
Identities = 29/50 (58%), Positives = 42/50 (84%)
Query: 22 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
R+ R+ Y+++QTLELEKEF N Y+++++R E+A +L LTERQ+KIWFQN
Sbjct: 21 RRGRQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALSLTERQIKIWFQN 70
>2h1k_A IPF-1, pancreatic and duodenal homeobox 1, homeodomain; protein-DNA
complex, transcription/DNA complex; 2.42A {Mesocricetus
auratus}
Length = 63
Score = 87.8 bits (218), Expect = 9e-24
Identities = 35/57 (61%), Positives = 44/57 (77%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKK 137
++ R Y++ Q LELEKEFL+N Y+S+ +R ELA L LTER +KIWFQNRRMK KK
Sbjct: 4 KRTRTAYTRAQLLELEKEFLFNKYISRPRRVELAVMLNLTERHIKIWFQNRRMKWKK 60
Score = 74.7 bits (184), Expect = 1e-18
Identities = 29/50 (58%), Positives = 38/50 (76%)
Query: 22 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
++ R Y++ Q LELEKEFL+N Y+S+ +R ELA L LTER +KIWFQN
Sbjct: 4 KRTRTAYTRAQLLELEKEFLFNKYISRPRRVELAVMLNLTERHIKIWFQN 53
>1jgg_A Segmentation protein EVEN-skipped; homeodomain, protein-DNA
complex, transcription/DNA complex; 2.00A {Drosophila
melanogaster} SCOP: a.4.1.1
Length = 60
Score = 87.4 bits (217), Expect = 1e-23
Identities = 29/58 (50%), Positives = 39/58 (67%)
Query: 80 VRKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKK 137
VR+ R +++ Q LEKEF YVS+ +R ELA L L E +K+WFQNRRMK+K+
Sbjct: 1 VRRYRTAFTRDQLGRLEKEFYKENYVSRPRRCELAAQLNLPESTIKVWFQNRRMKDKR 58
Score = 73.9 bits (182), Expect = 2e-18
Identities = 24/51 (47%), Positives = 32/51 (62%)
Query: 21 VRKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
VR+ R +++ Q LEKEF YVS+ +R ELA L L E +K+WFQN
Sbjct: 1 VRRYRTAFTRDQLGRLEKEFYKENYVSRPRRCELAAQLNLPESTIKVWFQN 51
>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 = 34/67 (50%), Positives = 50/67 (74%)
Query: 74 WTGQVTVRKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRM 133
+++R Y+++QTLELEKEF +N Y+++++R E+A +L LTERQ+KIWFQNRRM
Sbjct: 22 VNANGETKRQRTSYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRM 81
Query: 134 KNKKNTQ 140
K KK +
Sbjct: 82 KWKKEHK 88
Score = 75.7 bits (186), Expect = 1e-18
Identities = 29/64 (45%), Positives = 44/64 (68%)
Query: 8 SSSSTLEWTGQVTVRKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKI 67
T +++R Y+++QTLELEKEF +N Y+++++R E+A +L LTERQ+KI
Sbjct: 15 VHLGTSTVNANGETKRQRTSYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKI 74
Query: 68 WFQN 71
WFQN
Sbjct: 75 WFQN 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 = 88.0 bits (218), Expect = 2e-23
Identities = 32/70 (45%), Positives = 43/70 (61%)
Query: 71 NIEWTGQVTVRKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 130
+ G + R ++ Q ELEKEF +N Y+S+ +R E+A +L L E QVKIWFQN
Sbjct: 25 KVSEPGLGSPSGLRTNFTTRQLTELEKEFHFNKYLSRARRVEIAATLELNETQVKIWFQN 84
Query: 131 RRMKNKKNTQ 140
RRMK KK +
Sbjct: 85 RRMKQKKRER 94
Score = 78.8 bits (194), Expect = 8e-20
Identities = 27/71 (38%), Positives = 39/71 (54%)
Query: 1 MSSMNVNSSSSTLEWTGQVTVRKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLML 60
M ++ + G + R ++ Q ELEKEF +N Y+S+ +R E+A +L L
Sbjct: 14 MKVKRNPPKTAKVSEPGLGSPSGLRTNFTTRQLTELEKEFHFNKYLSRARRVEIAATLEL 73
Query: 61 TERQVKIWFQN 71
E QVKIWFQN
Sbjct: 74 NETQVKIWFQN 84
>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 = 86.3 bits (214), Expect = 4e-23
Identities = 27/60 (45%), Positives = 39/60 (65%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKKNTQ 140
+ + +S QT+ELEK+F Y+S +R LA+ L L+ERQVK WFQNRR K +++
Sbjct: 8 KGGQVRFSNDQTIELEKKFETQKYLSPPERKRLAKMLQLSERQVKTWFQNRRAKWRRSGP 67
Score = 72.8 bits (179), Expect = 7e-18
Identities = 24/50 (48%), Positives = 33/50 (66%)
Query: 22 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
+ + +S QT+ELEK+F Y+S +R LA+ L L+ERQVK WFQN
Sbjct: 8 KGGQVRFSNDQTIELEKKFETQKYLSPPERKRLAKMLQLSERQVKTWFQN 57
>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 = 86.3 bits (214), Expect = 5e-23
Identities = 23/66 (34%), Positives = 38/66 (57%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKKNTQ 140
R+ R ++ Q ELE+ FL Y++ + +L+ L L QVKIWF+NRR ++K +
Sbjct: 3 RRTRTTFTSSQIAELEQHFLQGRYLTAPRLADLSAKLALGTAQVKIWFKNRRRRHKIQSD 62
Query: 141 RQAAQA 146
+ Q+
Sbjct: 63 QHKDQS 68
Score = 71.3 bits (175), Expect = 3e-17
Identities = 19/50 (38%), Positives = 29/50 (58%)
Query: 22 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
R+ R ++ Q ELE+ FL Y++ + +L+ L L QVKIWF+N
Sbjct: 3 RRTRTTFTSSQIAELEQHFLQGRYLTAPRLADLSAKLALGTAQVKIWFKN 52
>1ig7_A Homeotic protein MSX-1; helix-turn-helix, transcription/DNA
complex; 2.20A {Mus musculus} SCOP: a.4.1.1
Length = 58
Score = 85.0 bits (211), Expect = 9e-23
Identities = 30/57 (52%), Positives = 38/57 (66%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKK 137
RK R P++ Q L LE++F Y+S +R E + SL LTE QVKIWFQNRR K K+
Sbjct: 1 RKPRTPFTTAQLLALERKFRQKQYLSIAERAEFSSSLSLTETQVKIWFQNRRAKAKR 57
Score = 71.9 bits (177), Expect = 1e-17
Identities = 26/50 (52%), Positives = 33/50 (66%)
Query: 22 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
RK R P++ Q L LE++F Y+S +R E + SL LTE QVKIWFQN
Sbjct: 1 RKPRTPFTTAQLLALERKFRQKQYLSIAERAEFSSSLSLTETQVKIWFQN 50
>3a01_A Homeodomain-containing protein; homeodomain, protein-DNA complex,
DNA-binding, homeobox, NUC developmental protein; 2.70A
{Drosophila melanogaster}
Length = 93
Score = 86.1 bits (213), Expect = 1e-22
Identities = 27/71 (38%), Positives = 39/71 (54%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKKNTQ 140
+K R +++ Q ELEK F Y++ +R LAR L +T+ QVK WFQNRR K ++ T
Sbjct: 18 KKPRTSFTRIQVAELEKRFHKQKYLASAERAALARGLKMTDAQVKTWFQNRRTKWRRQTA 77
Query: 141 RQAAQASNNNN 151
+ N
Sbjct: 78 EEREAERQAAN 88
Score = 71.8 bits (176), Expect = 3e-17
Identities = 22/50 (44%), Positives = 31/50 (62%)
Query: 22 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
+K R +++ Q ELEK F Y++ +R LAR L +T+ QVK WFQN
Sbjct: 18 KKPRTSFTRIQVAELEKRFHKQKYLASAERAALARGLKMTDAQVKTWFQN 67
>2l9r_A Homeobox protein NKX-3.1; structural genomics, northeast structural
genomics consortiu PSI-biology, protein structure
initiative; NMR {Homo sapiens}
Length = 69
Score = 84.7 bits (210), Expect = 2e-22
Identities = 27/62 (43%), Positives = 36/62 (58%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKKNTQ 140
S Q +ELE++F + Y+S +R LA++L LTE QVKIWFQNRR K K+
Sbjct: 5 HHHHSHMSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRRYKTKRKQL 64
Query: 141 RQ 142
Sbjct: 65 SS 66
Score = 70.8 bits (174), Expect = 4e-17
Identities = 23/50 (46%), Positives = 31/50 (62%)
Query: 22 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
S Q +ELE++F + Y+S +R LA++L LTE QVKIWFQN
Sbjct: 5 HHHHSHMSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQN 54
>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 = 85.2 bits (211), Expect = 2e-22
Identities = 27/60 (45%), Positives = 38/60 (63%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKKNTQ 140
R+ R +++ Q + LEK F Y+S R +LA SL L++ QVK W+QNRRMK KK+
Sbjct: 18 RRSRTVFTELQLMGLEKRFEKQKYLSTPDRIDLAESLGLSQLQVKTWYQNRRMKWKKSGP 77
Score = 72.5 bits (178), Expect = 1e-17
Identities = 24/65 (36%), Positives = 35/65 (53%)
Query: 7 NSSSSTLEWTGQVTVRKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVK 66
+ SS T R+ R +++ Q + LEK F Y+S R +LA SL L++ QVK
Sbjct: 3 SGSSGGEPGTKAKKGRRSRTVFTELQLMGLEKRFEKQKYLSTPDRIDLAESLGLSQLQVK 62
Query: 67 IWFQN 71
W+QN
Sbjct: 63 TWYQN 67
>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 = 84.8 bits (210), Expect = 2e-22
Identities = 28/67 (41%), Positives = 38/67 (56%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKKNTQ 140
RK+R ++K QT ELE+ F Y+S +R LA + LT QVKIWFQN R K K+
Sbjct: 10 RKRRVLFTKAQTYELERRFRQQRYLSAPEREHLASLIRLTPTQVKIWFQNHRYKTKRAQN 69
Query: 141 RQAAQAS 147
+ +
Sbjct: 70 EKGYEGH 76
Score = 69.8 bits (171), Expect = 1e-16
Identities = 25/50 (50%), Positives = 32/50 (64%)
Query: 22 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
RK+R ++K QT ELE+ F Y+S +R LA + LT QVKIWFQN
Sbjct: 10 RKRRVLFTKAQTYELERRFRQQRYLSAPEREHLASLIRLTPTQVKIWFQN 59
>2djn_A Homeobox protein DLX-5; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 70
Score = 84.4 bits (209), Expect = 2e-22
Identities = 29/62 (46%), Positives = 37/62 (59%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKKNTQ 140
RK R YS Q L++ F Y++ +R ELA SL LT+ QVKIWFQN+R K KK+
Sbjct: 8 RKPRTIYSSFQLAALQRRFQKTQYLALPERAELAASLGLTQTQVKIWFQNKRSKIKKSGP 67
Query: 141 RQ 142
Sbjct: 68 SS 69
Score = 70.5 bits (173), Expect = 6e-17
Identities = 25/50 (50%), Positives = 31/50 (62%)
Query: 22 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
RK R YS Q L++ F Y++ +R ELA SL LT+ QVKIWFQN
Sbjct: 8 RKPRTIYSSFQLAALQRRFQKTQYLALPERAELAASLGLTQTQVKIWFQN 57
>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 = 83.9 bits (208), Expect = 3e-22
Identities = 23/58 (39%), Positives = 39/58 (67%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKKN 138
++ R +S Q L++EF N Y+++++R +L+ L L E Q+KIWF+N+R K KK+
Sbjct: 4 KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFKNKRAKIKKS 61
Score = 70.1 bits (172), Expect = 6e-17
Identities = 19/50 (38%), Positives = 33/50 (66%)
Query: 22 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
++ R +S Q L++EF N Y+++++R +L+ L L E Q+KIWF+N
Sbjct: 4 KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFKN 53
>1ftt_A TTF-1 HD, thyroid transcription factor 1 homeodomain; DNA binding
protein; NMR {Rattus norvegicus} SCOP: a.4.1.1
Length = 68
Score = 83.6 bits (207), Expect = 4e-22
Identities = 30/65 (46%), Positives = 40/65 (61%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKKNTQ 140
RK+R +S+ Q ELE+ F Y+S +R LA + LT QVKIWFQN R K K+ +
Sbjct: 3 RKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQVKIWFQNHRYKMKRQAK 62
Query: 141 RQAAQ 145
+AAQ
Sbjct: 63 DKAAQ 67
Score = 68.5 bits (168), Expect = 4e-16
Identities = 24/50 (48%), Positives = 31/50 (62%)
Query: 22 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
RK+R +S+ Q ELE+ F Y+S +R LA + LT QVKIWFQN
Sbjct: 3 RKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQVKIWFQN 52
>3rkq_A Homeobox protein NKX-2.5; helix-turn-helix, DNA binding, nucleus,
transcription-DNA CO; 1.70A {Homo sapiens}
Length = 58
Score = 83.0 bits (206), Expect = 6e-22
Identities = 29/56 (51%), Positives = 36/56 (64%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNK 136
RK R +S+ Q ELE+ F Y+S +R +LA L LT QVKIWFQNRR K+K
Sbjct: 3 RKPRVLFSQAQVYELERRFKQQRYLSAPERDQLASVLKLTSTQVKIWFQNRRYKSK 58
Score = 71.5 bits (176), Expect = 2e-17
Identities = 25/50 (50%), Positives = 31/50 (62%)
Query: 22 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
RK R +S+ Q ELE+ F Y+S +R +LA L LT QVKIWFQN
Sbjct: 3 RKPRVLFSQAQVYELERRFKQQRYLSAPERDQLASVLKLTSTQVKIWFQN 52
>2vi6_A Homeobox protein nanog; homeodomain, DNA-binding, transcription,
transcription facto developmental protein, transcription
regulation, NUC homeobox; 2.6A {Mus musculus}
Length = 62
Score = 82.7 bits (205), Expect = 9e-22
Identities = 24/57 (42%), Positives = 35/57 (61%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKK 137
+K R +S+ Q L+ F Y+S Q+ EL+ L L+ +QVK WFQN+RMK K+
Sbjct: 4 QKMRTVFSQAQLCALKDRFQKQKYLSLQQMQELSSILNLSYKQVKTWFQNQRMKCKR 60
Score = 69.6 bits (171), Expect = 9e-17
Identities = 20/50 (40%), Positives = 29/50 (58%)
Query: 22 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
+K R +S+ Q L+ F Y+S Q+ EL+ L L+ +QVK WFQN
Sbjct: 4 QKMRTVFSQAQLCALKDRFQKQKYLSLQQMQELSSILNLSYKQVKTWFQN 53
>2kt0_A Nanog, homeobox protein nanog; homeodomain, structural genomics,
protein structure initiative, PSI, center for eukaryotic
structural genomics; NMR {Homo sapiens}
Length = 84
Score = 82.5 bits (204), Expect = 2e-21
Identities = 24/60 (40%), Positives = 35/60 (58%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKKNTQ 140
+K R +S Q L F Y+S Q+ EL+ L L+ +QVK WFQN+RMK+K+ +
Sbjct: 23 QKTRTVFSSTQLCVLNDRFQRQKYLSLQQMQELSNILNLSYKQVKTWFQNQRMKSKRWQK 82
Score = 71.0 bits (174), Expect = 6e-17
Identities = 23/65 (35%), Positives = 32/65 (49%)
Query: 7 NSSSSTLEWTGQVTVRKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVK 66
+S + E V +K R +S Q L F Y+S Q+ EL+ L L+ +QVK
Sbjct: 8 ENSVAKKEDKVPVKKQKTRTVFSSTQLCVLNDRFQRQKYLSLQQMQELSNILNLSYKQVK 67
Query: 67 IWFQN 71
WFQN
Sbjct: 68 TWFQN 72
>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 = 81.1 bits (201), Expect = 4e-21
Identities = 16/56 (28%), Positives = 31/56 (55%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNK 136
K + S LE+ F ++ +++ E+A+ +T QV++WF N+RM++K
Sbjct: 6 PKGKSSISPQARAFLEEVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMRSK 61
Score = 69.9 bits (172), Expect = 8e-17
Identities = 13/50 (26%), Positives = 25/50 (50%)
Query: 22 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
K + S LE+ F ++ +++ E+A+ +T QV++WF N
Sbjct: 6 PKGKSSISPQARAFLEEVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFIN 55
>3a03_A T-cell leukemia homeobox protein 2; homeodomain, developmental
protein, DNA-binding, N gene regulation; 1.54A {Homo
sapiens}
Length = 56
Score = 78.5 bits (194), Expect = 3e-20
Identities = 25/53 (47%), Positives = 37/53 (69%)
Query: 87 YSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKKNT 139
+S+ Q LELE+ FL Y++ +R LA++L +T+ QVK WFQNRR K ++ T
Sbjct: 4 FSRSQVLELERRFLRQKYLASAERAALAKALRMTDAQVKTWFQNRRTKWRRQT 56
Score = 64.6 bits (158), Expect = 8e-15
Identities = 21/44 (47%), Positives = 31/44 (70%)
Query: 28 YSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
+S+ Q LELE+ FL Y++ +R LA++L +T+ QVK WFQN
Sbjct: 4 FSRSQVLELERRFLRQKYLASAERAALAKALRMTDAQVKTWFQN 47
>1e3o_C Octamer-binding transcription factor 1; transcription factor, POU
domain, dimer, DNA binding; 1.9A {Homo sapiens} SCOP:
a.4.1.1 a.35.1.1 PDB: 1gt0_C 1hf0_A* 1cqt_A* 1o4x_A
1oct_C* 1pou_A 1pog_A 1hdp_A
Length = 160
Score = 76.5 bits (188), Expect = 2e-18
Identities = 18/57 (31%), Positives = 30/57 (52%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKK 137
RKKR + + LEK F+ N + + +A L + + +++WF NRR K K+
Sbjct: 102 RKKRTSIETNIRVALEKSFMENQKPTSEDITLIAEQLNMEKEVIRVWFSNRRQKEKR 158
Score = 66.9 bits (163), Expect = 1e-14
Identities = 18/71 (25%), Positives = 34/71 (47%)
Query: 1 MSSMNVNSSSSTLEWTGQVTVRKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLML 60
SS++ S+ ++ G RKKR + + LEK F+ N + + +A L +
Sbjct: 81 DSSLSSPSALNSPGIEGLSRRRKKRTSIETNIRVALEKSFMENQKPTSEDITLIAEQLNM 140
Query: 61 TERQVKIWFQN 71
+ +++WF N
Sbjct: 141 EKEVIRVWFSN 151
>2xsd_C POU domain, class 3, transcription factor 1; transcription-DNA
complex, SOX; 2.05A {Mus musculus}
Length = 164
Score = 73.5 bits (180), Expect = 4e-17
Identities = 28/92 (30%), Positives = 36/92 (39%)
Query: 53 ELARSLMLTERQVKIWFQNIEWTGQVTVRKKRKPYSKHQTLELEKEFLYNAYVSKQKRWE 112
L + L T+ + Q RKKR LE FL S +
Sbjct: 72 LLNKWLEETDSSSGSPTNLDKIAAQGRKRKKRTSIEVGVKGALESHFLKCPKPSAHEITG 131
Query: 113 LARSLMLTERQVKIWFQNRRMKNKKNTQRQAA 144
LA SL L + V++WF NRR K K+ T A
Sbjct: 132 LADSLQLEKEVVRVWFCNRRQKEKRMTPAAGA 163
Score = 58.1 bits (140), Expect = 3e-11
Identities = 19/55 (34%), Positives = 23/55 (41%)
Query: 17 GQVTVRKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
Q RKKR LE FL S + LA SL L + V++WF N
Sbjct: 95 AQGRKRKKRTSIEVGVKGALESHFLKCPKPSAHEITGLADSLQLEKEVVRVWFCN 149
>2dn0_A Zinc fingers and homeoboxes protein 3; triple homeobox 1 protein,
KIAA0395, TIX1, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 76
Score = 67.8 bits (166), Expect = 6e-16
Identities = 15/73 (20%), Positives = 30/73 (41%)
Query: 75 TGQVTVRKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMK 134
+G + S Q L+ F N + + + L + L+ R+V+ WF +RR
Sbjct: 3 SGSSGASIYKNKKSHEQLSALKGSFCRNQFPGQSEVEHLTKVTGLSTREVRKWFSDRRYH 62
Query: 135 NKKNTQRQAAQAS 147
+ ++ +S
Sbjct: 63 CRNLKGSRSGPSS 75
Score = 54.7 bits (132), Expect = 7e-11
Identities = 12/56 (21%), Positives = 23/56 (41%)
Query: 16 TGQVTVRKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
+G + S Q L+ F N + + + L + L+ R+V+ WF +
Sbjct: 3 SGSSGASIYKNKKSHEQLSALKGSFCRNQFPGQSEVEHLTKVTGLSTREVRKWFSD 58
>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 = 66.2 bits (161), Expect = 2e-14
Identities = 19/57 (33%), Positives = 30/57 (52%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKK 137
RK+R S LE+ F ++ S Q+ +A L L + V++WF NRR + K+
Sbjct: 88 RKRRTTISIAAKDALERHFGEHSKPSSQEIMRMAEELNLEKEVVRVWFCNRRQREKR 144
Score = 55.8 bits (134), Expect = 2e-10
Identities = 16/50 (32%), Positives = 25/50 (50%)
Query: 22 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
RK+R S LE+ F ++ S Q+ +A L L + V++WF N
Sbjct: 88 RKRRTTISIAAKDALERHFGEHSKPSSQEIMRMAEELNLEKEVVRVWFCN 137
>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 = 60.4 bits (146), Expect = 7e-13
Identities = 15/76 (19%), Positives = 34/76 (44%)
Query: 82 KKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKKNTQR 141
+K K + Q L+ FL ++ ++ ++ L LT R++ WF ++ ++
Sbjct: 13 QKFKEKTAEQLRVLQASFLNSSVLTDEELNRLRAQTKLTRREIDAWFTEKKKSKALKEEK 72
Query: 142 QAAQASNNNNTSNTNN 157
SN ++S ++
Sbjct: 73 MEIDESNAGSSSGPSS 88
Score = 48.1 bits (114), Expect = 3e-08
Identities = 12/49 (24%), Positives = 23/49 (46%)
Query: 23 KKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
+K K + Q L+ FL ++ ++ ++ L LT R++ WF
Sbjct: 13 QKFKEKTAEQLRVLQASFLNSSVLTDEELNRLRAQTKLTRREIDAWFTE 61
>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 = 61.6 bits (149), Expect = 1e-12
Identities = 17/57 (29%), Positives = 26/57 (45%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKK 137
RK+R ++ L F N + Q+ E+A+ L V++WF NRR K
Sbjct: 94 RKRRTSFTPQAIEALNAYFEKNPLPTGQEITEMAKELNYDREVVRVWFSNRRQTLKN 150
Score = 52.0 bits (124), Expect = 4e-09
Identities = 14/50 (28%), Positives = 23/50 (46%)
Query: 22 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
RK+R ++ L F N + Q+ E+A+ L V++WF N
Sbjct: 94 RKRRTSFTPQAIEALNAYFEKNPLPTGQEITEMAKELNYDREVVRVWFSN 143
>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 = 59.3 bits (144), Expect = 1e-12
Identities = 19/58 (32%), Positives = 30/58 (51%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKKN 138
R R ++ +Q L+ F NAY + +L+ L L R + +WFQN R K +K+
Sbjct: 8 RSSRTRFTDYQLRVLQDFFDANAYPKDDEFEQLSNLLNLPTRVIVVWFQNARQKARKS 65
Score = 50.8 bits (122), Expect = 2e-09
Identities = 16/50 (32%), Positives = 25/50 (50%)
Query: 22 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
R R ++ +Q L+ F NAY + +L+ L L R + +WFQN
Sbjct: 8 RSSRTRFTDYQLRVLQDFFDANAYPKDDEFEQLSNLLNLPTRVIVVWFQN 57
>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 = 60.9 bits (147), Expect = 2e-12
Identities = 21/86 (24%), Positives = 37/86 (43%)
Query: 54 LARSLMLTERQVKIWFQNIEWTGQVTVRKKRKPYSKHQTLELEKEFLYNAYVSKQKRWEL 113
L + + + + + T ++KR LE FL + S Q+ +
Sbjct: 70 LEKWVEEADNNENLQEISKSETLVQARKRKRTSIENRVRWSLETMFLKSPKPSLQQITHI 129
Query: 114 ARSLMLTERQVKIWFQNRRMKNKKNT 139
A L L + V++WF NRR K K+++
Sbjct: 130 ANQLGLEKDVVRVWFSNRRQKGKRSS 155
Score = 49.3 bits (117), Expect = 4e-08
Identities = 18/69 (26%), Positives = 27/69 (39%)
Query: 3 SMNVNSSSSTLEWTGQVTVRKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTE 62
N N + T ++KR LE FL + S Q+ +A L L +
Sbjct: 78 DNNENLQEISKSETLVQARKRKRTSIENRVRWSLETMFLKSPKPSLQQITHIANQLGLEK 137
Query: 63 RQVKIWFQN 71
V++WF N
Sbjct: 138 DVVRVWFSN 146
>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 = 58.8 bits (142), Expect = 2e-12
Identities = 16/67 (23%), Positives = 26/67 (38%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKKNTQ 140
K K + Q LE F N ++ L +T R++ WF RR K
Sbjct: 8 PTKYKERAPEQLRALESSFAQNPLPLDEELDRLRSETKMTRREIDSWFSERRKKVNAEET 67
Query: 141 RQAAQAS 147
+++ +S
Sbjct: 68 KKSGPSS 74
Score = 47.6 bits (113), Expect = 4e-08
Identities = 12/50 (24%), Positives = 18/50 (36%)
Query: 22 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
K K + Q LE F N ++ L +T R++ WF
Sbjct: 8 PTKYKERAPEQLRALESSFAQNPLPLDEELDRLRSETKMTRREIDSWFSE 57
>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 = 56.9 bits (137), Expect = 1e-11
Identities = 18/76 (23%), Positives = 32/76 (42%), Gaps = 2/76 (2%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKKNTQ 140
+K K ++ Q LE FL +++ ++ + L L+ R++ WF RR
Sbjct: 14 PQKFKEKTQGQVKILEDSFLKSSFPTQAELDRLRVETKLSRREIDSWFSERRKLRDS--M 71
Query: 141 RQAAQASNNNNTSNTN 156
QA S + S +
Sbjct: 72 EQAVLDSMGSGKSGPS 87
Score = 48.1 bits (114), Expect = 4e-08
Identities = 12/50 (24%), Positives = 24/50 (48%)
Query: 22 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
+K K ++ Q LE FL +++ ++ + L L+ R++ WF
Sbjct: 14 PQKFKEKTQGQVKILEDSFLKSSFPTQAELDRLRVETKLSRREIDSWFSE 63
>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 = 52.9 bits (127), Expect = 5e-10
Identities = 14/60 (23%), Positives = 33/60 (55%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKKNTQ 140
++ R + Q L +++L ++ +++ +A + L +R V++WFQN R + +K+
Sbjct: 18 KRLRTTITPEQLEILYQKYLLDSNPTRKMLDHIAHEVGLKKRVVQVWFQNTRARERKSGP 77
Score = 41.7 bits (98), Expect = 5e-06
Identities = 15/66 (22%), Positives = 34/66 (51%), Gaps = 3/66 (4%)
Query: 9 SSSTLEWTGQVTVRKKRKP---YSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQV 65
SS + TG ++ ++ + Q L +++L ++ +++ +A + L +R V
Sbjct: 2 SSGSSGGTGGEEPQRDKRLRTTITPEQLEILYQKYLLDSNPTRKMLDHIAHEVGLKKRVV 61
Query: 66 KIWFQN 71
++WFQN
Sbjct: 62 QVWFQN 67
>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 = 52.0 bits (125), Expect = 8e-10
Identities = 14/60 (23%), Positives = 29/60 (48%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKKNTQ 140
++ R + Q L + F N S+++ E+A L ++ +K WF+N K +++
Sbjct: 8 KRPRTRITDDQLRVLRQYFDINNSPSEEQIKEMADKSGLPQKVIKHWFRNTLFKERQSGP 67
Score = 42.7 bits (101), Expect = 2e-06
Identities = 13/50 (26%), Positives = 25/50 (50%)
Query: 22 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
++ R + Q L + F N S+++ E+A L ++ +K WF+N
Sbjct: 8 KRPRTRITDDQLRVLRQYFDINNSPSEEQIKEMADKSGLPQKVIKHWFRN 57
>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 = 51.7 bits (124), Expect = 9e-10
Identities = 11/60 (18%), Positives = 24/60 (40%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKKNTQ 140
+ +K Q L+ FL + + + + L L ++K WF + R + ++
Sbjct: 5 HHHHRKKTKEQIAHLKASFLQSQFPDDAEVYRLIEVTGLARSEIKKWFSDHRYRCQRGIV 64
Score = 42.5 bits (100), Expect = 2e-06
Identities = 10/50 (20%), Positives = 20/50 (40%)
Query: 22 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
+ +K Q L+ FL + + + + L L ++K WF +
Sbjct: 5 HHHHRKKTKEQIAHLKASFLQSQFPDDAEVYRLIEVTGLARSEIKKWFSD 54
>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 = 51.7 bits (124), Expect = 1e-09
Identities = 19/72 (26%), Positives = 36/72 (50%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKKNTQ 140
++ R + HQ ++ F N + +LA+ LT+R +++WFQN R K ++N
Sbjct: 8 KRMRTSFKHHQLRTMKSYFAINHNPDAKDLKQLAQKTGLTKRVLQVWFQNARAKFRRNLL 67
Query: 141 RQAAQASNNNNT 152
RQ + ++
Sbjct: 68 RQENGGVSGPSS 79
Score = 39.7 bits (93), Expect = 3e-05
Identities = 14/50 (28%), Positives = 26/50 (52%)
Query: 22 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
++ R + HQ ++ F N + +LA+ LT+R +++WFQN
Sbjct: 8 KRMRTSFKHHQLRTMKSYFAINHNPDAKDLKQLAQKTGLTKRVLQVWFQN 57
>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 = 50.2 bits (120), Expect = 3e-09
Identities = 14/60 (23%), Positives = 29/60 (48%), Gaps = 1/60 (1%)
Query: 82 KKRKPYSKHQTLELEKEFLYNA-YVSKQKRWELARSLMLTERQVKIWFQNRRMKNKKNTQ 140
K LEK F+ Y +++ L++ L + R+++ WF++RR ++K +
Sbjct: 10 KDSPVNKVEPNDTLEKVFVSVTKYPDEKRLKGLSKQLDWSVRKIQCWFRHRRNQDKPSGP 69
Score = 40.2 bits (94), Expect = 2e-05
Identities = 11/50 (22%), Positives = 23/50 (46%), Gaps = 1/50 (2%)
Query: 23 KKRKPYSKHQTLELEKEFLYNA-YVSKQKRWELARSLMLTERQVKIWFQN 71
K LEK F+ Y +++ L++ L + R+++ WF++
Sbjct: 10 KDSPVNKVEPNDTLEKVFVSVTKYPDEKRLKGLSKQLDWSVRKIQCWFRH 59
>2hi3_A Homeodomain-only protein; transcription; NMR {Mus musculus} SCOP:
a.4.1.1
Length = 73
Score = 49.7 bits (119), Expect = 5e-09
Identities = 13/59 (22%), Positives = 24/59 (40%), Gaps = 1/59 (1%)
Query: 81 RKKRKPYSKHQTLELEKEFL-YNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKKN 138
+ ++ Q LE F N + +A LTE Q + WF+ R + +++
Sbjct: 3 AQTVSGPTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQKWFKQRLAEWRRS 61
Score = 42.4 bits (100), Expect = 3e-06
Identities = 12/51 (23%), Positives = 19/51 (37%), Gaps = 1/51 (1%)
Query: 22 RKKRKPYSKHQTLELEKEFL-YNAYVSKQKRWELARSLMLTERQVKIWFQN 71
+ ++ Q LE F N + +A LTE Q + WF+
Sbjct: 3 AQTVSGPTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQKWFKQ 53
>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 = 49.7 bits (119), Expect = 5e-09
Identities = 21/72 (29%), Positives = 38/72 (52%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKKNTQ 140
R++R +++ Q LE F Y R E+A + L E +V++WF+NRR K ++ Q
Sbjct: 8 RRERTTFTRAQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQVWFKNRRAKCRQQQQ 67
Query: 141 RQAAQASNNNNT 152
+Q + ++
Sbjct: 68 QQQNGGQSGPSS 79
Score = 40.1 bits (94), Expect = 2e-05
Identities = 16/50 (32%), Positives = 27/50 (54%)
Query: 22 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
R++R +++ Q LE F Y R E+A + L E +V++WF+N
Sbjct: 8 RRERTTFTRAQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQVWFKN 57
>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 = 49.0 bits (117), Expect = 1e-08
Identities = 12/59 (20%), Positives = 22/59 (37%), Gaps = 1/59 (1%)
Query: 81 RKKRKPYSKHQTLELEKEFL-YNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKKN 138
+ R S L+ Y ++ L+ L L + + +FQN+R K +
Sbjct: 8 PRSRTKISLEALGILQSFIHDVGLYPDQEAIHTLSAQLDLPKHTIIKFFQNQRYHVKHS 66
Score = 40.6 bits (95), Expect = 2e-05
Identities = 10/51 (19%), Positives = 18/51 (35%), Gaps = 1/51 (1%)
Query: 22 RKKRKPYSKHQTLELEKEFL-YNAYVSKQKRWELARSLMLTERQVKIWFQN 71
+ R S L+ Y ++ L+ L L + + +FQN
Sbjct: 8 PRSRTKISLEALGILQSFIHDVGLYPDQEAIHTLSAQLDLPKHTIIKFFQN 58
>2d5v_A Hepatocyte nuclear factor 6; transcription factor,
transcription-DNA complex; 2.00A {Rattus norvegicus}
PDB: 1s7e_A
Length = 164
Score = 50.6 bits (120), Expect = 1e-08
Identities = 14/65 (21%), Positives = 25/65 (38%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKKNTQ 140
+K R ++ Q L F N SK+ + +++ L L V +F N R ++
Sbjct: 98 KKPRLVFTDVQRRTLHAIFKENKRPSKELQITISQQLGLELSTVSNFFMNARRRSLDKWL 157
Query: 141 RQAAQ 145
Sbjct: 158 EHHHH 162
Score = 42.2 bits (98), Expect = 2e-05
Identities = 13/50 (26%), Positives = 22/50 (44%)
Query: 22 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
+K R ++ Q L F N SK+ + +++ L L V +F N
Sbjct: 98 KKPRLVFTDVQRRTLHAIFKENKRPSKELQITISQQLGLELSTVSNFFMN 147
>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 = 48.1 bits (115), Expect = 2e-08
Identities = 21/58 (36%), Positives = 33/58 (56%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKKN 138
R+ R ++++Q LE F N Y +LA+ L L +++IWFQNRR K K++
Sbjct: 2 RRPRTAFTQNQIEVLENVFRVNCYPGIDILEDLAQKLNLELDRIQIWFQNRRAKLKRS 59
Score = 40.4 bits (95), Expect = 1e-05
Identities = 17/50 (34%), Positives = 27/50 (54%)
Query: 22 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
R+ R ++++Q LE F N Y +LA+ L L +++IWFQN
Sbjct: 2 RRPRTAFTQNQIEVLENVFRVNCYPGIDILEDLAQKLNLELDRIQIWFQN 51
>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 = 47.3 bits (113), Expect = 3e-08
Identities = 15/62 (24%), Positives = 28/62 (45%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKKNTQ 140
+ R ++ Q L + N + +L L+ R +++WFQN+R K+KK +
Sbjct: 4 TRVRTVLNEKQLHTLRTCYAANPRPDALMKEQLVEMTGLSPRVIRVWFQNKRCKDKKRSI 63
Query: 141 RQ 142
Sbjct: 64 MM 65
Score = 38.1 bits (89), Expect = 9e-05
Identities = 11/50 (22%), Positives = 21/50 (42%)
Query: 22 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
+ R ++ Q L + N + +L L+ R +++WFQN
Sbjct: 4 TRVRTVLNEKQLHTLRTCYAANPRPDALMKEQLVEMTGLSPRVIRVWFQN 53
>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 = 47.7 bits (113), Expect = 5e-08
Identities = 22/88 (25%), Positives = 34/88 (38%), Gaps = 16/88 (18%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSL---------------MLTERQVK 125
R R + K +E F N Y + KR E+A + +T +V
Sbjct: 8 RGSRFTWRKECLAVMESYFNENQYPDEAKREEIANACNAVIQKPGKKLSDLERVTSLKVY 67
Query: 126 IWFQNRRMKNKKNTQRQAAQASNNNNTS 153
WF NRR + K+ AA ++ +S
Sbjct: 68 NWFANRRKEIKRR-ANIAAILESSGPSS 94
Score = 37.7 bits (87), Expect = 3e-04
Identities = 16/65 (24%), Positives = 23/65 (35%), Gaps = 15/65 (23%)
Query: 22 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSL---------------MLTERQVK 66
R R + K +E F N Y + KR E+A + +T +V
Sbjct: 8 RGSRFTWRKECLAVMESYFNENQYPDEAKREEIANACNAVIQKPGKKLSDLERVTSLKVY 67
Query: 67 IWFQN 71
WF N
Sbjct: 68 NWFAN 72
>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 = 46.9 bits (112), Expect = 5e-08
Identities = 22/58 (37%), Positives = 33/58 (56%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKKN 138
R++R ++ Q +LE F N Y R E+A LTE +V++WF+NRR K +K
Sbjct: 4 RRQRTHFTSQQLQQLEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRKR 61
Score = 40.0 bits (94), Expect = 2e-05
Identities = 18/50 (36%), Positives = 28/50 (56%)
Query: 22 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
R++R ++ Q +LE F N Y R E+A LTE +V++WF+N
Sbjct: 4 RRQRTHFTSQQLQQLEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKN 53
>2cue_A Paired box protein PAX6; homeobox domain, transcription factor,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
a.4.1.1
Length = 80
Score = 46.6 bits (111), Expect = 8e-08
Identities = 19/72 (26%), Positives = 37/72 (51%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKKNTQ 140
++ R +++ Q LEKEF Y R LA + L E ++++WF NRR K ++ +
Sbjct: 8 QRNRTSFTQEQIEALEKEFERTHYPDVFARERLAAKIDLPEARIQVWFSNRRAKWRREEK 67
Query: 141 RQAAQASNNNNT 152
+ + + ++
Sbjct: 68 LRNQRRQSGPSS 79
Score = 38.1 bits (89), Expect = 1e-04
Identities = 16/50 (32%), Positives = 26/50 (52%)
Query: 22 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
++ R +++ Q LEKEF Y R LA + L E ++++WF N
Sbjct: 8 QRNRTSFTQEQIEALEKEFERTHYPDVFARERLAAKIDLPEARIQVWFSN 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 = 46.2 bits (110), Expect = 1e-07
Identities = 23/57 (40%), Positives = 33/57 (57%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKK 137
R+ R +S Q ELE+ F Y R ELA+ LTE ++++WFQNRR + +K
Sbjct: 19 RRSRTTFSASQLDELERAFERTQYPDIYTREELAQRTNLTEARIQVWFQNRRARLRK 75
Score = 39.3 bits (92), Expect = 5e-05
Identities = 20/50 (40%), Positives = 28/50 (56%)
Query: 22 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
R+ R +S Q ELE+ F Y R ELA+ LTE ++++WFQN
Sbjct: 19 RRSRTTFSASQLDELERAFERTQYPDIYTREELAQRTNLTEARIQVWFQN 68
>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 = 45.7 bits (109), Expect = 1e-07
Identities = 22/55 (40%), Positives = 30/55 (54%)
Query: 84 RKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKKN 138
++ Q ELEK F Y R ELA + LTE ++++WFQNRR K +K
Sbjct: 3 HMTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQVWFQNRRAKWRKQ 57
Score = 38.4 bits (90), Expect = 6e-05
Identities = 18/47 (38%), Positives = 25/47 (53%)
Query: 25 RKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
++ Q ELEK F Y R ELA + LTE ++++WFQN
Sbjct: 3 HMTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQVWFQN 49
>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 = 45.8 bits (109), Expect = 2e-07
Identities = 20/58 (34%), Positives = 32/58 (55%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKKN 138
R+ R ++ Q LE F Y R +LAR + L E +V++WF+NRR K +++
Sbjct: 8 RRHRTIFTDEQLEALENLFQETKYPDVGTREQLARKVHLREEKVEVWFKNRRAKWRRS 65
Score = 38.9 bits (91), Expect = 6e-05
Identities = 17/50 (34%), Positives = 26/50 (52%)
Query: 22 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
R+ R ++ Q LE F Y R +LAR + L E +V++WF+N
Sbjct: 8 RRHRTIFTDEQLEALENLFQETKYPDVGTREQLARKVHLREEKVEVWFKN 57
>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 = 42.4 bits (100), Expect = 3e-06
Identities = 13/72 (18%), Positives = 29/72 (40%), Gaps = 2/72 (2%)
Query: 81 RKKRKPYSKHQTLELEKEFL-YNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKKNT 139
+ ++ Q LE F N + +A LTE Q + WF+ R + +++
Sbjct: 2 SEGAATMTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQKWFKQRLAEWRRS- 60
Query: 140 QRQAAQASNNNN 151
+ ++ + +
Sbjct: 61 EGLPSECRSVTD 72
Score = 36.2 bits (84), Expect = 5e-04
Identities = 12/51 (23%), Positives = 19/51 (37%), Gaps = 1/51 (1%)
Query: 22 RKKRKPYSKHQTLELEKEFL-YNAYVSKQKRWELARSLMLTERQVKIWFQN 71
+ ++ Q LE F N + +A LTE Q + WF+
Sbjct: 2 SEGAATMTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQKWFKQ 52
>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 = 40.6 bits (95), Expect = 1e-05
Identities = 12/59 (20%), Positives = 24/59 (40%), Gaps = 1/59 (1%)
Query: 83 KRKPYSKHQTLELEKEFLYNA-YVSKQKRWELARSLMLTERQVKIWFQNRRMKNKKNTQ 140
+ LEK F + +++ L++ L R ++ WF+ RR + K +
Sbjct: 3 SGSSGTAQPNAILEKVFTAITKHPDEKRLEGLSKQLDWDVRSIQRWFRQRRNQEKPSGP 61
Score = 32.1 bits (73), Expect = 0.014
Identities = 9/49 (18%), Positives = 19/49 (38%), Gaps = 1/49 (2%)
Query: 24 KRKPYSKHQTLELEKEFLYNA-YVSKQKRWELARSLMLTERQVKIWFQN 71
+ LEK F + +++ L++ L R ++ WF+
Sbjct: 3 SGSSGTAQPNAILEKVFTAITKHPDEKRLEGLSKQLDWDVRSIQRWFRQ 51
>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 = 40.2 bits (93), Expect = 4e-05
Identities = 12/61 (19%), Positives = 23/61 (37%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKKNTQ 140
K + Q L+ F+ + S ++ +LA+ L + WF + R K
Sbjct: 26 TGKICKKTPEQLHMLKSAFVRTQWPSPEEYDKLAKESGLARTDIVSWFGDTRYAWKNGNL 85
Query: 141 R 141
+
Sbjct: 86 K 86
Score = 34.0 bits (77), Expect = 0.005
Identities = 10/50 (20%), Positives = 20/50 (40%)
Query: 22 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
K + Q L+ F+ + S ++ +LA+ L + WF +
Sbjct: 26 TGKICKKTPEQLHMLKSAFVRTQWPSPEEYDKLAKESGLARTDIVSWFGD 75
>2h8r_A Hepatocyte nuclear factor 1-beta; trasncription factor, POU, homeo,
protein-DNA, human disease; 3.20A {Homo sapiens}
Length = 221
Score = 40.8 bits (94), Expect = 7e-05
Identities = 16/77 (20%), Positives = 26/77 (33%), Gaps = 21/77 (27%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELAR---------------------SLML 119
R+ R + L + + SK++R L S ++
Sbjct: 143 RRNRFKWGPASQQILYQAYDRQKNPSKEEREALVEECNRAECLQRGVSPSKAHGLGSNLV 202
Query: 120 TERQVKIWFQNRRMKNK 136
TE +V WF NRR +
Sbjct: 203 TEVRVYNWFANRRKEEA 219
Score = 35.0 bits (79), Expect = 0.008
Identities = 14/71 (19%), Positives = 23/71 (32%), Gaps = 21/71 (29%)
Query: 22 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELAR---------------------SLML 60
R+ R + L + + SK++R L S ++
Sbjct: 143 RRNRFKWGPASQQILYQAYDRQKNPSKEEREALVEECNRAECLQRGVSPSKAHGLGSNLV 202
Query: 61 TERQVKIWFQN 71
TE +V WF N
Sbjct: 203 TEVRVYNWFAN 213
>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 = 4e-04
Identities = 17/76 (22%), Positives = 28/76 (36%), Gaps = 3/76 (3%)
Query: 79 TVRKKRKPYSKHQTLELEKEF---LYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKN 135
T + ++K LE F + N Y+ + L ++ L+ Q+K W RR K
Sbjct: 1 TKPYRGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVAARRAKE 60
Query: 136 KKNTQRQAAQASNNNN 151
K T +
Sbjct: 61 KTITIAPELADLLSGE 76
Score = 27.1 bits (60), Expect = 1.2
Identities = 12/55 (21%), Positives = 22/55 (40%), Gaps = 3/55 (5%)
Query: 20 TVRKKRKPYSKHQTLELEKEF---LYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
T + ++K LE F + N Y+ + L ++ L+ Q+K W
Sbjct: 1 TKPYRGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVAA 55
>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 = 37.9 bits (87), Expect = 6e-04
Identities = 16/77 (20%), Positives = 26/77 (33%), Gaps = 21/77 (27%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELAR---------------------SLML 119
R+ R + L + + SK++R L S ++
Sbjct: 116 RRNRFKWGPASQQILFQAYERQKNPSKEERETLVEECNRAECIQRGVSPSQAQGLGSNLV 175
Query: 120 TERQVKIWFQNRRMKNK 136
TE +V WF NRR +
Sbjct: 176 TEVRVYNWFANRRKEEA 192
>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 = 36.1 bits (83), Expect = 6e-04
Identities = 12/69 (17%), Positives = 25/69 (36%)
Query: 82 KKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKKNTQR 141
K +K Q L+ FL + ++ +L + L ++ WF + R K +
Sbjct: 5 SSGKRKTKEQLAILKSFFLQCQWARREDYQKLEQITGLPRPEIIQWFGDTRYALKHGQLK 64
Query: 142 QAAQASNNN 150
++
Sbjct: 65 WFRDNASGP 73
>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 = 36.0 bits (82), Expect = 7e-04
Identities = 10/52 (19%), Positives = 24/52 (46%)
Query: 86 PYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKK 137
P LE+ + + + + +L+++ L+ +QV WF +R + +
Sbjct: 12 PPPPPDIQPLERYWAAHQQLRETDIPQLSQASRLSTQQVLDWFDSRLPQPAE 63
Score = 32.5 bits (73), Expect = 0.012
Identities = 9/45 (20%), Positives = 21/45 (46%)
Query: 27 PYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
P LE+ + + + + +L+++ L+ +QV WF +
Sbjct: 12 PPPPPDIQPLERYWAAHQQLRETDIPQLSQASRLSTQQVLDWFDS 56
>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 = 13/53 (24%), Positives = 24/53 (45%)
Query: 85 KPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKK 137
+P K+ L+ + NA S ++ ++A S+ L VK WF+ +
Sbjct: 8 QPPLKNLLSLLKAYYALNAQPSAEELSKIADSVNLPLDVVKKWFEKMQAGQIS 60
Score = 29.2 bits (65), Expect = 0.16
Identities = 13/46 (28%), Positives = 23/46 (50%)
Query: 26 KPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
+P K+ L+ + NA S ++ ++A S+ L VK WF+
Sbjct: 8 QPPLKNLLSLLKAYYALNAQPSAEELSKIADSVNLPLDVVKKWFEK 53
>1lfb_A Liver transcription factor (LFB1); transcription regulation; 2.80A
{Rattus norvegicus} SCOP: a.4.1.1 PDB: 2lfb_A
Length = 99
Score = 34.8 bits (79), Expect = 0.003
Identities = 17/90 (18%), Positives = 28/90 (31%), Gaps = 21/90 (23%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELAR---------------------SLML 119
R+ R + L + + SK++R L S ++
Sbjct: 10 RRNRFKWGPASQQILFQAYERQKNPSKEERETLVEECNRAECIQRGVSPSQAQGLGSNLV 69
Query: 120 TERQVKIWFQNRRMKNKKNTQRQAAQASNN 149
TE +V WF NRR + + N
Sbjct: 70 TEVRVYNWFANRRKEEAFRHKLAMDTYKLN 99
>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 = 34.4 bits (79), Expect = 0.003
Identities = 29/86 (33%), Positives = 46/86 (53%), Gaps = 4/86 (4%)
Query: 81 RKKRKPYSKHQTLELEK---EFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKK 137
R+KR+ ++K T L + L N Y S++ + ELA+ +T QV WF N+R++ KK
Sbjct: 2 RRKRRNFNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKK 61
Query: 138 NTQRQAAQASN-NNNTSNTNNNTSHH 162
N + +A+ T+ T N S H
Sbjct: 62 NIGKFQEEANIYAAKTAVTATNVSAH 87
Score = 26.7 bits (59), Expect = 1.8
Identities = 19/53 (35%), Positives = 29/53 (54%), Gaps = 3/53 (5%)
Query: 22 RKKRKPYSKHQTLELEK---EFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
R+KR+ ++K T L + L N Y S++ + ELA+ +T QV WF N
Sbjct: 2 RRKRRNFNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGN 54
>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 = 33.2 bits (75), Expect = 0.007
Identities = 10/59 (16%), Positives = 25/59 (42%)
Query: 82 KKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKKNTQ 140
K L+ + N + + +++ ++ L + VK WF+ R++ N++
Sbjct: 7 GSPINPYKDHMSVLKAYYAMNMEPNSDELLKISIAVGLPQEFVKEWFEQRKVYQYSNSR 65
Score = 27.8 bits (61), Expect = 0.53
Identities = 8/49 (16%), Positives = 19/49 (38%)
Query: 23 KKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
K L+ + N + + +++ ++ L + VK WF+
Sbjct: 7 GSPINPYKDHMSVLKAYYAMNMEPNSDELLKISIAVGLPQEFVKEWFEQ 55
>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 = 32.3 bits (74), Expect = 0.012
Identities = 17/60 (28%), Positives = 27/60 (45%), Gaps = 3/60 (5%)
Query: 83 KRKPYSKHQTLELEKEF---LYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKKNT 139
+ ++K LE F + N Y+ + L ++ L+ Q+K W NRR K K T
Sbjct: 1 RGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKTIT 60
Score = 24.2 bits (53), Expect = 8.3
Identities = 12/51 (23%), Positives = 22/51 (43%), Gaps = 3/51 (5%)
Query: 24 KRKPYSKHQTLELEKEF---LYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
+ ++K LE F + N Y+ + L ++ L+ Q+K W N
Sbjct: 1 RGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSN 51
>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 = 32.5 bits (74), Expect = 0.014
Identities = 16/59 (27%), Positives = 26/59 (44%), Gaps = 3/59 (5%)
Query: 81 RKKRKPYSKHQTLELEKEF---LYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNK 136
+ ++K LE F + N Y+ + L ++ L+ Q+K W NRR K K
Sbjct: 28 PYRGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEK 86
Score = 28.7 bits (64), Expect = 0.32
Identities = 15/73 (20%), Positives = 30/73 (41%), Gaps = 3/73 (4%)
Query: 2 SSMNVNSSSSTLEWTGQVTVRKKRKPYSKHQTLELEKEF---LYNAYVSKQKRWELARSL 58
S+ + + T + + T + ++K LE F + N Y+ + L ++
Sbjct: 8 SADGLVFNVVTQDMINKSTKPYRGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNT 67
Query: 59 MLTERQVKIWFQN 71
L+ Q+K W N
Sbjct: 68 SLSRIQIKNWVSN 80
>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 = 32.0 bits (73), Expect = 0.019
Identities = 25/71 (35%), Positives = 41/71 (57%), Gaps = 5/71 (7%)
Query: 81 RKKRKPYSKHQTLELEKEFLY----NAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNK 136
R+KR+ ++K T L E+ Y N Y S++ + ELA+ +T QV WF N+R++ K
Sbjct: 2 RRKRRNFNKQATEIL-NEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYK 60
Query: 137 KNTQRQAAQAS 147
KN + +A+
Sbjct: 61 KNIGKFQEEAN 71
Score = 25.8 bits (57), Expect = 2.8
Identities = 20/54 (37%), Positives = 30/54 (55%), Gaps = 5/54 (9%)
Query: 22 RKKRKPYSKHQTLELEKEFLY----NAYVSKQKRWELARSLMLTERQVKIWFQN 71
R+KR+ ++K T L E+ Y N Y S++ + ELA+ +T QV WF N
Sbjct: 2 RRKRRNFNKQATEIL-NEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGN 54
>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 = 31.6 bits (72), Expect = 0.026
Identities = 15/66 (22%), Positives = 29/66 (43%), Gaps = 3/66 (4%)
Query: 81 RKKRKPYSKHQTLELEK---EFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKK 137
+ KR KH T + + + + Y ++ ++ ++A LT QV WF N R + +
Sbjct: 8 KNKRGVLPKHATNVMRSWLFQHIGHPYPTEDEKKQIAAQTNLTLLQVNNWFINARRRILQ 67
Query: 138 NTQRQA 143
+
Sbjct: 68 SGPSSG 73
Score = 26.6 bits (59), Expect = 1.3
Identities = 14/53 (26%), Positives = 25/53 (47%), Gaps = 3/53 (5%)
Query: 22 RKKRKPYSKHQTLELEK---EFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
+ KR KH T + + + + Y ++ ++ ++A LT QV WF N
Sbjct: 8 KNKRGVLPKHATNVMRSWLFQHIGHPYPTEDEKKQIAAQTNLTLLQVNNWFIN 60
>2lk2_A Homeobox protein TGIF1; NESG, structural genomics, northeast
structural genomics CON PSI-biology, transcription; NMR
{Homo sapiens}
Length = 89
Score = 31.7 bits (72), Expect = 0.030
Identities = 21/83 (25%), Positives = 31/83 (37%), Gaps = 3/83 (3%)
Query: 81 RKKRKPYSKHQTLELEK---EFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKK 137
K L E YNAY S+Q++ L++ L+ QV WF N R +
Sbjct: 6 HHHSHMLPKESVQILRDWLYEHRYNAYPSEQEKALLSQQTHLSTLQVCNWFINARRRLLP 65
Query: 138 NTQRQAAQASNNNNTSNTNNNTS 160
+ R+ + N S S
Sbjct: 66 DMLRKDGKDPNQFTISRRGAKIS 88
>1du6_A PBX1, homeobox protein PBX1; homeodomain, gene regulation; NMR {Mus
musculus} SCOP: a.4.1.1
Length = 64
Score = 31.1 bits (71), Expect = 0.033
Identities = 21/62 (33%), Positives = 33/62 (53%), Gaps = 5/62 (8%)
Query: 81 RKKRKPYSKHQTLELEKEFLY----NAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNK 136
+ + +K T L E+ Y N Y S++ + ELA+ +T QV WF N+R++ K
Sbjct: 4 HIEGRHMNKQATEIL-NEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYK 62
Query: 137 KN 138
KN
Sbjct: 63 KN 64
Score = 25.0 bits (55), Expect = 4.7
Identities = 17/54 (31%), Positives = 26/54 (48%), Gaps = 5/54 (9%)
Query: 22 RKKRKPYSKHQTLELEKEFLY----NAYVSKQKRWELARSLMLTERQVKIWFQN 71
+ + +K T L E+ Y N Y S++ + ELA+ +T QV WF N
Sbjct: 4 HIEGRHMNKQATEIL-NEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGN 56
>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 = 0.060
Identities = 19/76 (25%), Positives = 35/76 (46%), Gaps = 9/76 (11%)
Query: 69 FQNIEWTGQVTV--------RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELARSLMLT 120
N +G+ TV S LE+ F ++ +++ E+A+ +T
Sbjct: 347 VINA-ASGRQTVDAALAAAQTAAAAAISPQARAFLEQVFRRKQSLNSKEKEEVAKKCGIT 405
Query: 121 ERQVKIWFQNRRMKNK 136
QV++WF N+RM++K
Sbjct: 406 PLQVRVWFINKRMRSK 421
>3k2a_A Homeobox protein MEIS2; homeobox domain, DNA-binding,
transcription, nucleus, phosphoprotein, DNA bindi
protein; 1.95A {Homo sapiens}
Length = 67
Score = 30.0 bits (68), Expect = 0.075
Identities = 15/47 (31%), Positives = 26/47 (55%)
Query: 100 LYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKKNTQRQAAQA 146
L + Y S++++ +LA+ LT QV WF N R + + Q+ +A
Sbjct: 21 LTHPYPSEEQKKQLAQDTGLTILQVNNWFINARRRIVQPMIDQSNRA 67
>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 = 29.7 bits (67), Expect = 0.15
Identities = 13/66 (19%), Positives = 28/66 (42%), Gaps = 3/66 (4%)
Query: 81 RKKRKPYSKHQTLELEK---EFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKK 137
+K++ L + + AY S++++ L+ L+ Q+ WF N R +
Sbjct: 8 KKRKGNLPAESVKILRDWMYKHRFKAYPSEEEKQMLSEKTNLSLLQISNWFINARRRILP 67
Query: 138 NTQRQA 143
+ +Q
Sbjct: 68 DMLQQR 73
Score = 26.3 bits (58), Expect = 2.7
Identities = 11/53 (20%), Positives = 23/53 (43%), Gaps = 3/53 (5%)
Query: 22 RKKRKPYSKHQTLELEK---EFLYNAYVSKQKRWELARSLMLTERQVKIWFQN 71
+K++ L + + AY S++++ L+ L+ Q+ WF N
Sbjct: 8 KKRKGNLPAESVKILRDWMYKHRFKAYPSEEEKQMLSEKTNLSLLQISNWFIN 60
>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 = 26.9 bits (59), Expect = 0.57
Identities = 14/16 (87%), Positives = 15/16 (93%)
Query: 122 RQVKIWFQNRRMKNKK 137
RQ+KIWFQNRRMK KK
Sbjct: 1 RQIKIWFQNRRMKWKK 16
>1o13_A Probable NIFB protein; ribonuclease H-like motif fold, structural
genomics, joint C structural genomics, JCSG, protein
structure initiative; 1.83A {Thermotoga maritima} SCOP:
c.55.5.1 PDB: 1t3v_A
Length = 136
Score = 28.8 bits (64), Expect = 0.66
Identities = 6/30 (20%), Positives = 11/30 (36%)
Query: 139 TQRQAAQASNNNNTSNTNNNTSHHGHHHHH 168
T + + +++ H HH HH
Sbjct: 107 TVEEVVNQYLSGQLKDSDYEVHDHHHHEHH 136
>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 = 27.6 bits (60), Expect = 0.69
Identities = 14/61 (22%), Positives = 24/61 (39%), Gaps = 4/61 (6%)
Query: 81 RKKRKPYSKHQTLELEKEF----LYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNK 136
+ R +S L+K + V ++K +A L + V+ W NRR K +
Sbjct: 9 LQDRTQFSDRDLATLKKYWDNGMTSLGSVCREKIEAVATELNVDCEIVRTWIGNRRRKYR 68
Query: 137 K 137
Sbjct: 69 L 69
>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 = 29.6 bits (66), Expect = 0.70
Identities = 27/148 (18%), Positives = 41/148 (27%), Gaps = 44/148 (29%)
Query: 41 LYNAYVSKQKRWELA-RSLMLTE--RQVKIWFQN-----IEWTGQVTVRKKRKPYSKHQ- 91
LY + Q W A T + I N I + G+ ++ R+ YS
Sbjct: 1635 LYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGE-KGKRIRENYSAMIF 1693
Query: 92 ------TLELEKEFLYNAYVSKQKRWELARS-LMLTER-Q-------VKIWFQNRRMKNK 136
L+ EK F S + + L T+ Q + +K+K
Sbjct: 1694 ETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAF---EDLKSK 1750
Query: 137 KNTQRQAAQASNNNNTSNTNNNTSHHGH 164
A A GH
Sbjct: 1751 GLIPADATFA----------------GH 1762
>2g23_A PHS, phenoxazinone synthase; copper, metalloprotein, laccase,
multicopper oxidase, hexamer; 2.30A {Streptomyces
antibioticus} PDB: 3gyr_A
Length = 612
Score = 29.1 bits (64), Expect = 0.98
Identities = 5/16 (31%), Positives = 8/16 (50%)
Query: 155 TNNNTSHHGHHHHHIG 170
++ +H GH H G
Sbjct: 597 FDHGGAHGGHGEGHTG 612
>1za4_A Thrombospondin 1; TSP-1, NTSP-1, HBD, arixtra, cell adhesion; HET:
SGN; 1.90A {Homo sapiens} SCOP: b.29.1.4 PDB: 2ouh_A
2ouj_A
Length = 251
Score = 28.6 bits (63), Expect = 1.00
Identities = 8/29 (27%), Positives = 12/29 (41%)
Query: 140 QRQAAQASNNNNTSNTNNNTSHHGHHHHH 168
NN ++ ++ GHHHHH
Sbjct: 222 TSVLLTLDNNVVNGSSPAIRTNTGHHHHH 250
>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 = 28.7 bits (63), Expect = 1.4
Identities = 7/19 (36%), Positives = 8/19 (42%), Gaps = 2/19 (10%)
Query: 164 HHHHHIGHAVTNGGLKHHH 182
HHHHH H G +
Sbjct: 1 HHHHH--HMDFETGEHQYQ 17
Score = 27.9 bits (61), Expect = 2.5
Identities = 6/20 (30%), Positives = 11/20 (55%), Gaps = 2/20 (10%)
Query: 164 HHHHHIGHAVTNGGLKHHHQ 183
HHHHH+ G ++ ++
Sbjct: 2 HHHHHMDFET--GEHQYQYK 19
>1elj_A Maltodextrin-binding protein; protein-carbohydrate complex, maltose
binding protein, MBP fold, ABC transporter fold,
thermophilic protein; HET: CME GLC; 1.85A {Pyrococcus
furiosus} SCOP: c.94.1.1
Length = 381
Score = 27.8 bits (62), Expect = 2.0
Identities = 11/46 (23%), Positives = 17/46 (36%), Gaps = 6/46 (13%)
Query: 40 FLYNAYVSKQKR--WELARSLMLTERQVKIWFQNIEWTGQVTVRKK 83
+ A K K W+ A+ L +E +K G + V K
Sbjct: 268 IYFAAG-IKNKDAAWKFAKWLTTSEESIKTLALE---LGYIPVLTK 309
>3rki_A Fusion glycoprotein F0; fusion protein, viral protein; HET: NAG;
3.20A {Human respiratory syncytial virus}
Length = 528
Score = 28.0 bits (61), Expect = 2.1
Identities = 17/83 (20%), Positives = 28/83 (33%), Gaps = 8/83 (9%)
Query: 92 TLELEKEFLYNAYVSKQKRWELARSLMLTERQVKIWFQNRRMKNKKNTQRQAAQASN--- 148
+ K+ + YV + L+ + + K N + S+
Sbjct: 447 LYYVNKQEGKSLYVKGEPIINFYDPLVFPSDEFDASISQ--VNEKINQSLAFIRKSDELL 504
Query: 149 ---NNNTSNTNNNTSHHGHHHHH 168
N S TN ++ GHHHHH
Sbjct: 505 HNVNAGKSTTNGGSAGSGHHHHH 527
>2jer_A Agmatine deiminase; hydrolase, tetramer, AGDI, 5- fold
pseudosymmetric structure, agmatine degradation pathway,
covalent amidino adduct; HET: AGT; 1.65A {Enterococcus
faecalis} SCOP: d.126.1.6
Length = 389
Score = 27.7 bits (61), Expect = 2.4
Identities = 9/30 (30%), Positives = 16/30 (53%)
Query: 139 TQRQAAQASNNNNTSNTNNNTSHHGHHHHH 168
TQ++ + N+S+ + + HHHHH
Sbjct: 359 TQQEPKRVGGKQNSSSVDKLAAALEHHHHH 388
>3m62_B UV excision repair protein RAD23; armadillo-like repeats, UBL
conjugation pathway, DNA damage, nucleus,
phosphoprotein; HET: 1PE; 2.40A {Saccharomyces
cerevisiae}
Length = 106
Score = 26.2 bits (58), Expect = 3.0
Identities = 9/36 (25%), Positives = 17/36 (47%)
Query: 133 MKNKKNTQRQAAQASNNNNTSNTNNNTSHHGHHHHH 168
M ++K + + + N++S + HHHHH
Sbjct: 71 MVSQKKSTKTKVTERDPNSSSVDKLAAALEHHHHHH 106
>3k8w_A Flagellin homolog; flagellum, structural protein, bacterial
flagellu; 1.70A {Sphingomonas SP} PDB: 2zbi_A 3k8v_A
Length = 326
Score = 26.9 bits (59), Expect = 3.7
Identities = 8/21 (38%), Positives = 9/21 (42%), Gaps = 2/21 (9%)
Query: 150 NNTSNTNNNTS--HHGHHHHH 168
N + N S HHHHH
Sbjct: 306 ANLQSMTENLSSALEHHHHHH 326
>2ehz_A 1,2-dihydroxynaphthalene dioxygenase; extradiol dioxygenase,
protein substrate complex, oxidoreduc; 1.35A
{Pseudomonas SP} PDB: 2ei0_A* 2ei1_A* 2ei3_A* 2ei2_A
Length = 302
Score = 26.9 bits (59), Expect = 4.1
Identities = 4/22 (18%), Positives = 6/22 (27%)
Query: 161 HHGHHHHHIGHAVTNGGLKHHH 182
H H I + +H
Sbjct: 194 HCNARDHSIAFGAMPAAKRLNH 215
>2da6_A Hepatocyte nuclear factor 1-beta; homeobox domain, three helices
with the DNA binding helix- turn-helix motif, structural
genomics, NPPSFA; NMR {Homo sapiens}
Length = 102
Score = 26.0 bits (56), Expect = 4.5
Identities = 20/96 (20%), Positives = 36/96 (37%), Gaps = 22/96 (22%)
Query: 81 RKKRKPYSKHQTLELEKEFLYNAYVSKQKRWELAR---------------------SLML 119
+ R + L + + SK++R L S ++
Sbjct: 7 GRNRFKWGPASQQILYQAYDRQKNPSKEEREALVEECNRAECLQRGVSPSKAHGLGSNLV 66
Query: 120 TERQVKIWFQNRRMKNKKNTQRQAAQASNNNNTSNT 155
TE +V WF NRR K + Q+ A A ++N+ ++
Sbjct: 67 TEVRVYNWFANRR-KEEAFRQKLAMDAYSSNSGPSS 101
>1pq4_A Periplasmic binding protein component of AN ABC T uptake
transporter; ZNUA, loop, metal-binding, metal binding
protein; 1.90A {Synechocystis SP} SCOP: c.92.2.2 PDB:
2ov3_A 2ov1_A
Length = 291
Score = 26.6 bits (59), Expect = 4.7
Identities = 5/22 (22%), Positives = 5/22 (22%)
Query: 161 HHGHHHHHIGHAVTNGGLKHHH 182
H H H G K
Sbjct: 106 DHSHDGHDHGSESEKEKAKGAL 127
Score = 26.6 bits (59), Expect = 4.9
Identities = 5/22 (22%), Positives = 6/22 (27%)
Query: 161 HHGHHHHHIGHAVTNGGLKHHH 182
H H GH + K
Sbjct: 102 EGHDDHSHDGHDHGSESEKEKA 123
Score = 26.2 bits (58), Expect = 6.5
Identities = 5/22 (22%), Positives = 6/22 (27%)
Query: 161 HHGHHHHHIGHAVTNGGLKHHH 182
H H H H + K
Sbjct: 104 HDDHSHDGHDHGSESEKEKAKG 125
>4ev1_A Anabena TIC22; TIC22 fold, chaperon, protein transport, TIC22-like
family, thylakoids, chaperone; HET: NHE; 1.95A {Anabaena
SP}
Length = 252
Score = 26.7 bits (58), Expect = 4.8
Identities = 10/33 (30%), Positives = 12/33 (36%)
Query: 134 KNKKNTQRQAAQASNNNNTSNTNNNTSHHGHHH 166
+ A + NNN S HH HHH
Sbjct: 220 RTLPKPPNTPAAPNRNNNNSRPGAKLEHHHHHH 252
>2w3t_A Peptide deformylase; protein biosynthesis, iron, nickel, hydrolase,
metal-binding; 1.69A {Escherichia coli} PDB: 2w3u_A
Length = 188
Score = 26.3 bits (59), Expect = 5.0
Identities = 10/38 (26%), Positives = 17/38 (44%), Gaps = 2/38 (5%)
Query: 131 RRMKNKK--NTQRQAAQASNNNNTSNTNNNTSHHGHHH 166
++ +K R A+A N+++ HH HHH
Sbjct: 151 QQRIRQKVEKLDRLKARAPNSSSVDKLAAALEHHHHHH 188
>2p0u_A Stilbenecarboxylate synthase 2; polyketide synthase, PKS type
transferase; 1.90A {Marchantia polymorpha}
Length = 413
Score = 26.5 bits (58), Expect = 5.4
Identities = 10/16 (62%), Positives = 10/16 (62%), Gaps = 1/16 (6%)
Query: 161 HHGHHHHHIGHAVTNG 176
HH HHHHH G V G
Sbjct: 3 HHHHHHHH-GGLVPRG 17
>3cgb_A Pyridine nucleotide-disulfide oxidoreductase, CLA; coenzyme A,
flavin adenine dinucleotide, selenomethionine, F
flavoprotein; HET: COA FAD; 1.90A {Bacillus anthracis
str} PDB: 3cgc_A* 3cgd_A* 3cge_A*
Length = 480
Score = 26.3 bits (59), Expect = 7.2
Identities = 9/14 (64%), Positives = 9/14 (64%)
Query: 164 HHHHHIGHAVTNGG 177
HHHHH G A GG
Sbjct: 5 HHHHHHGMASMTGG 18
>3oc3_A Helicase MOT1, MOT1; regulation of transcription, hydrolase-transc
complex; HET: MES; 3.10A {Encephalitozoon cuniculi}
Length = 800
Score = 26.4 bits (57), Expect = 7.8
Identities = 9/15 (60%), Positives = 9/15 (60%)
Query: 161 HHGHHHHHIGHAVTN 175
HH HHHHH G N
Sbjct: 5 HHHHHHHHAGAGARN 19
>2i68_A Protein EMRE; transmembrane protein, small-multidrug resistance,
transporter, homodimer, dual topology, transport
protein; NMR {Escherichia coli}
Length = 137
Score = 25.5 bits (56), Expect = 8.5
Identities = 8/32 (25%), Positives = 14/32 (43%)
Query: 137 KNTQRQAAQASNNNNTSNTNNNTSHHGHHHHH 168
++T + S + N++ HHHHH
Sbjct: 106 RSTPHEFEAYVEQKLISEEDLNSAVDHHHHHH 137
>2p4s_A Purine nucleoside phosphorylase; transferase; HET: DIH; 2.20A
{Anopheles gambiae}
Length = 373
Score = 25.8 bits (57), Expect = 9.5
Identities = 8/38 (21%), Positives = 15/38 (39%)
Query: 144 AQASNNNNTSNTNNNTSHHGHHHHHIGHAVTNGGLKHH 181
++ S N + N H HH + +NG ++
Sbjct: 22 SKFSYLQNGKASTNGVPHANGHHQQHQNGHSNGVARNG 59
>2f95_B Sensory rhodopsin II transducer; membrane protein complex, signal
transduction, photocycle ST membrane protein; HET: BOG
RET; 2.20A {Natronomonas pharaonis} SCOP: f.17.4.1
Length = 163
Score = 25.4 bits (55), Expect = 9.8
Identities = 9/28 (32%), Positives = 11/28 (39%)
Query: 140 QRQAAQASNNNNTSNTNNNTSHHGHHHH 167
+ A + N SHH HHHH
Sbjct: 136 KNAREDAEQAQKRAEEINTNSHHHHHHH 163
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 0.123 0.368
Gapped
Lambda K H
0.267 0.0500 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,786,384
Number of extensions: 149152
Number of successful extensions: 2196
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2121
Number of HSP's successfully gapped: 226
Length of query: 183
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 95
Effective length of database: 4,244,745
Effective search space: 403250775
Effective search space used: 403250775
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: 41 (21.6 bits)
S2: 54 (25.1 bits)