RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16978
(154 letters)
>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 = 126 bits (318), Expect = 7e-39
Identities = 40/71 (56%), Positives = 44/71 (61%)
Query: 29 KQSGPNGCPRRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQN 88
K S P R +T Q ELEKEFHFN YL+R RR+EIA L L E Q+KIWFQN
Sbjct: 25 KVSEPGLGSPSGLRTNFTTRQLTELEKEFHFNKYLSRARRVEIAATLELNETQVKIWFQN 84
Query: 89 RRMKLKKELRA 99
RRMK KK R
Sbjct: 85 RRMKQKKRERE 95
>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 = 124 bits (314), Expect = 2e-38
Identities = 59/72 (81%), Positives = 65/72 (90%), Gaps = 1/72 (1%)
Query: 28 LKQSGPNGCPRRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQ 87
+ +G NG RRRGRQTYTR+QTLELEKEFH NHYLTRRRRIE+AHAL LTERQIKIWFQ
Sbjct: 11 MAIAGTNG-LRRRGRQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALSLTERQIKIWFQ 69
Query: 88 NRRMKLKKELRA 99
NRRMKLKKE++A
Sbjct: 70 NRRMKLKKEIQA 81
>2r5y_A Homeotic protein sex combs reduced; homeodomain; HET: DNA; 2.60A
{Drosophila melanogaster} PDB: 2r5z_A*
Length = 88
Score = 123 bits (310), Expect = 9e-38
Identities = 51/74 (68%), Positives = 56/74 (75%)
Query: 23 KMLCQLKQSGPNGCPRRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQI 82
K + + +R R +YTR+QTLELEKEFHFN YLTRRRRIEIAHAL LTERQI
Sbjct: 13 KRVHLGTSTVNANGETKRQRTSYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQI 72
Query: 83 KIWFQNRRMKLKKE 96
KIWFQNRRMK KKE
Sbjct: 73 KIWFQNRRMKWKKE 86
>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 = 116 bits (293), Expect = 2e-35
Identities = 55/65 (84%), Positives = 58/65 (89%)
Query: 38 RRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRMKLKKEL 97
R+RGRQTYTR+QTLELEKEFHFN YLTRRRRIEIAHAL LTERQIKIWFQNRRMK KKE
Sbjct: 2 RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWKKEN 61
Query: 98 RAVKE 102
+ E
Sbjct: 62 KTKGE 66
>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 = 115 bits (291), Expect = 4e-35
Identities = 27/68 (39%), Positives = 41/68 (60%)
Query: 32 GPNGCPRRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRM 91
G +G + G+ ++ QT+ELEK+F YL+ R +A L L+ERQ+K WFQNRR
Sbjct: 1 GSSGSSGKGGQVRFSNDQTIELEKKFETQKYLSPPERKRLAKMLQLSERQVKTWFQNRRA 60
Query: 92 KLKKELRA 99
K ++ +
Sbjct: 61 KWRRSGPS 68
>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 = 115 bits (290), Expect = 5e-35
Identities = 41/71 (57%), Positives = 49/71 (69%)
Query: 29 KQSGPNGCPRRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQN 88
+ + R+ R YT+ QTLELEKEF FN YLTR RR E+A L LTERQ+KIWFQN
Sbjct: 4 AANWLHARSTRKKRCPYTKHQTLELEKEFLFNMYLTRDRRYEVARLLNLTERQVKIWFQN 63
Query: 89 RRMKLKKELRA 99
RRMK+KK +
Sbjct: 64 RRMKMKKINKD 74
>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 = 114 bits (286), Expect = 2e-34
Identities = 30/68 (44%), Positives = 45/68 (66%)
Query: 32 GPNGCPRRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRM 91
G +G R+ R Y++ Q ELE+E+ N ++T+ +R +I+ A L+ERQI IWFQNRR+
Sbjct: 1 GSSGSSGRKKRIPYSKGQLRELEREYAANKFITKDKRRKISAATSLSERQITIWFQNRRV 60
Query: 92 KLKKELRA 99
K KK +
Sbjct: 61 KEKKSGPS 68
>2h1k_A IPF-1, pancreatic and duodenal homeobox 1, homeodomain;
protein-DNA complex, transcription/DNA complex; 2.42A
{Mesocricetus auratus}
Length = 63
Score = 112 bits (283), Expect = 5e-34
Identities = 40/60 (66%), Positives = 45/60 (75%)
Query: 37 PRRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRMKLKKE 96
+R R YTR Q LELEKEF FN Y++R RR+E+A L LTER IKIWFQNRRMK KKE
Sbjct: 2 SNKRTRTAYTRAQLLELEKEFLFNKYISRPRRVELAVMLNLTERHIKIWFQNRRMKWKKE 61
>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 = 112 bits (281), Expect = 1e-33
Identities = 26/67 (38%), Positives = 37/67 (55%)
Query: 38 RRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRMKLKKEL 97
RR R T+T Q ELE+ F YLT R +++ L L Q+KIWF+NRR + K +
Sbjct: 2 PRRTRTTFTSSQIAELEQHFLQGRYLTAPRLADLSAKLALGTAQVKIWFKNRRRRHKIQS 61
Query: 98 RAVKEIN 104
K+ +
Sbjct: 62 DQHKDQS 68
>2dmt_A Homeobox protein BARH-like 1; homeobox domain, three helices with
the DNA binding helix- turn-helix motif, structural
genomics, NPPSFA; NMR {Homo sapiens}
Length = 80
Score = 111 bits (280), Expect = 2e-33
Identities = 28/70 (40%), Positives = 40/70 (57%)
Query: 30 QSGPNGCPRRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNR 89
+ G RR R +T Q + LEK F YL+ RI++A +L L++ Q+K W+QNR
Sbjct: 9 EPGTKAKKGRRSRTVFTELQLMGLEKRFEKQKYLSTPDRIDLAESLGLSQLQVKTWYQNR 68
Query: 90 RMKLKKELRA 99
RMK KK +
Sbjct: 69 RMKWKKSGPS 78
>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 = 108 bits (271), Expect = 4e-32
Identities = 27/57 (47%), Positives = 39/57 (68%)
Query: 39 RRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRMKLKK 95
+R R ++ Q L++EF+ N YLT RRR +++ L L E QIKIWF+N+R K+KK
Sbjct: 4 KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFKNKRAKIKK 60
>2l7z_A Homeobox protein HOX-A13; gene regulation; NMR {Homo sapiens} PDB:
2ld5_A*
Length = 73
Score = 108 bits (270), Expect = 6e-32
Identities = 28/71 (39%), Positives = 44/71 (61%)
Query: 34 NGCPRRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRMKL 93
+ R+ R YT+ Q ELE+E+ N ++T+ +R I+ L+ERQ+ IWFQNRR+K
Sbjct: 3 HMLEGRKKRVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQVTIWFQNRRVKE 62
Query: 94 KKELRAVKEIN 104
KK + +K +
Sbjct: 63 KKVINKLKTTS 73
>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 = 107 bits (268), Expect = 8e-32
Identities = 31/58 (53%), Positives = 40/58 (68%)
Query: 39 RRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRMKLKKE 96
RR R +TR Q LEKEF+ +Y++R RR E+A L L E IK+WFQNRRMK K++
Sbjct: 2 RRYRTAFTRDQLGRLEKEFYKENYVSRPRRCELAAQLNLPESTIKVWFQNRRMKDKRQ 59
>3a01_A Homeodomain-containing protein; homeodomain, protein-DNA complex,
DNA-binding, homeobox, NUC developmental protein; 2.70A
{Drosophila melanogaster}
Length = 93
Score = 106 bits (265), Expect = 5e-31
Identities = 29/77 (37%), Positives = 41/77 (53%)
Query: 33 PNGCPRRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRMK 92
R++ R ++TR Q ELEK FH YL R +A L +T+ Q+K WFQNRR K
Sbjct: 12 RTPPKRKKPRTSFTRIQVAELEKRFHKQKYLASAERAALARGLKMTDAQVKTWFQNRRTK 71
Query: 93 LKKELRAVKEINEQARR 109
+++ +E QA
Sbjct: 72 WRRQTAEEREAERQAAN 88
>2djn_A Homeobox protein DLX-5; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 70
Score = 97.9 bits (244), Expect = 5e-28
Identities = 28/68 (41%), Positives = 40/68 (58%)
Query: 32 GPNGCPRRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRM 91
G +G R+ R Y+ FQ L++ F YL R E+A +L LT+ Q+KIWFQN+R
Sbjct: 1 GSSGSSGRKPRTIYSSFQLAALQRRFQKTQYLALPERAELAASLGLTQTQVKIWFQNKRS 60
Query: 92 KLKKELRA 99
K+KK +
Sbjct: 61 KIKKSGPS 68
>2kt0_A Nanog, homeobox protein nanog; homeodomain, structural genomics,
protein structure initiative, PSI, center for
eukaryotic structural genomics; NMR {Homo sapiens}
Length = 84
Score = 90.3 bits (224), Expect = 8e-25
Identities = 20/70 (28%), Positives = 38/70 (54%)
Query: 29 KQSGPNGCPRRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQN 88
K+ +++ R ++ Q L F YL+ ++ E+++ L L+ +Q+K WFQN
Sbjct: 13 KKEDKVPVKKQKTRTVFSSTQLCVLNDRFQRQKYLSLQQMQELSNILNLSYKQVKTWFQN 72
Query: 89 RRMKLKKELR 98
+RMK K+ +
Sbjct: 73 QRMKSKRWQK 82
>2l9r_A Homeobox protein NKX-3.1; structural genomics, northeast
structural genomics consortiu PSI-biology, protein
structure initiative; NMR {Homo sapiens}
Length = 69
Score = 88.9 bits (221), Expect = 1e-24
Identities = 24/62 (38%), Positives = 34/62 (54%)
Query: 38 RRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRMKLKKEL 97
+ Q +ELE++F YL+ R +A L LTE Q+KIWFQNRR K K++
Sbjct: 4 HHHHHSHMSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRRYKTKRKQ 63
Query: 98 RA 99
+
Sbjct: 64 LS 65
>1ig7_A Homeotic protein MSX-1; helix-turn-helix, transcription/DNA
complex; 2.20A {Mus musculus} SCOP: a.4.1.1
Length = 58
Score = 88.5 bits (220), Expect = 2e-24
Identities = 27/57 (47%), Positives = 36/57 (63%)
Query: 39 RRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRMKLKK 95
R+ R +T Q L LE++F YL+ R E + +L LTE Q+KIWFQNRR K K+
Sbjct: 1 RKPRTPFTTAQLLALERKFRQKQYLSIAERAEFSSSLSLTETQVKIWFQNRRAKAKR 57
>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 = 88.0 bits (219), Expect = 3e-24
Identities = 15/56 (26%), Positives = 29/56 (51%)
Query: 39 RRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRMKLK 94
+G+ + + LE+ F L + + E+A +T Q+++WF N+RM+ K
Sbjct: 6 PKGKSSISPQARAFLEEVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMRSK 61
>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 = 86.7 bits (215), Expect = 1e-23
Identities = 26/69 (37%), Positives = 36/69 (52%)
Query: 31 SGPNGCPRRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRR 90
S +R+ R +T+ QT ELE+ F YL+ R +A + LT Q+KIWFQN R
Sbjct: 2 SDGLPNKKRKRRVLFTKAQTYELERRFRQQRYLSAPEREHLASLIRLTPTQVKIWFQNHR 61
Query: 91 MKLKKELRA 99
K K+
Sbjct: 62 YKTKRAQNE 70
>2vi6_A Homeobox protein nanog; homeodomain, DNA-binding, transcription,
transcription facto developmental protein,
transcription regulation, NUC homeobox; 2.6A {Mus
musculus}
Length = 62
Score = 85.8 bits (213), Expect = 2e-23
Identities = 19/59 (32%), Positives = 36/59 (61%)
Query: 38 RRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRMKLKKE 96
+++ R +++ Q L+ F YL+ ++ E++ L L+ +Q+K WFQN+RMK K+
Sbjct: 3 KQKMRTVFSQAQLCALKDRFQKQKYLSLQQMQELSSILNLSYKQVKTWFQNQRMKCKRW 61
>3a03_A T-cell leukemia homeobox protein 2; homeodomain, developmental
protein, DNA-binding, N gene regulation; 1.54A {Homo
sapiens}
Length = 56
Score = 82.4 bits (204), Expect = 4e-22
Identities = 23/53 (43%), Positives = 34/53 (64%)
Query: 44 TYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRMKLKKE 96
+++R Q LELE+ F YL R +A AL +T+ Q+K WFQNRR K +++
Sbjct: 3 SFSRSQVLELERRFLRQKYLASAERAALAKALRMTDAQVKTWFQNRRTKWRRQ 55
>3rkq_A Homeobox protein NKX-2.5; helix-turn-helix, DNA binding, nucleus,
transcription-DNA CO; 1.70A {Homo sapiens}
Length = 58
Score = 82.3 bits (204), Expect = 6e-22
Identities = 26/57 (45%), Positives = 35/57 (61%)
Query: 38 RRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRMKLK 94
RR+ R +++ Q ELE+ F YL+ R ++A L LT Q+KIWFQNRR K K
Sbjct: 2 RRKPRVLFSQAQVYELERRFKQQRYLSAPERDQLASVLKLTSTQVKIWFQNRRYKSK 58
>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 = 81.2 bits (200), Expect = 2e-20
Identities = 20/63 (31%), Positives = 28/63 (44%)
Query: 33 PNGCPRRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRMK 92
RR+ R + + LEK F N T IA L + + I++WF NRR K
Sbjct: 96 EGLSRRRKKRTSIETNIRVALEKSFMENQKPTSEDITLIAEQLNMEKEVIRVWFSNRRQK 155
Query: 93 LKK 95
K+
Sbjct: 156 EKR 158
>1ftt_A TTF-1 HD, thyroid transcription factor 1 homeodomain; DNA binding
protein; NMR {Rattus norvegicus} SCOP: a.4.1.1
Length = 68
Score = 78.5 bits (194), Expect = 2e-20
Identities = 24/62 (38%), Positives = 37/62 (59%)
Query: 38 RRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRMKLKKEL 97
RR+ R +++ Q ELE+ F YL+ R +A + LT Q+KIWFQN R K+K++
Sbjct: 2 RRKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQVKIWFQNHRYKMKRQA 61
Query: 98 RA 99
+
Sbjct: 62 KD 63
>2dn0_A Zinc fingers and homeoboxes protein 3; triple homeobox 1 protein,
KIAA0395, TIX1, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 76
Score = 69.8 bits (171), Expect = 6e-17
Identities = 12/65 (18%), Positives = 25/65 (38%), Gaps = 1/65 (1%)
Query: 32 GPNGC-PRRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRR 90
G +G + + Q L+ F N + + + L+ R+++ WF +RR
Sbjct: 1 GSSGSSGASIYKNKKSHEQLSALKGSFCRNQFPGQSEVEHLTKVTGLSTREVRKWFSDRR 60
Query: 91 MKLKK 95
+
Sbjct: 61 YHCRN 65
>2xsd_C POU domain, class 3, transcription factor 1; transcription-DNA
complex, SOX; 2.05A {Mus musculus}
Length = 164
Score = 72.0 bits (176), Expect = 8e-17
Identities = 15/72 (20%), Positives = 26/72 (36%)
Query: 24 MLCQLKQSGPNGCPRRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIK 83
+R+ R + LE F + +A +L L + ++
Sbjct: 85 GSPTNLDKIAAQGRKRKKRTSIEVGVKGALESHFLKCPKPSAHEITGLADSLQLEKEVVR 144
Query: 84 IWFQNRRMKLKK 95
+WF NRR K K+
Sbjct: 145 VWFCNRRQKEKR 156
>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 = 67.8 bits (166), Expect = 3e-16
Identities = 21/68 (30%), Positives = 32/68 (47%)
Query: 32 GPNGCPRRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRM 91
G +G R R +T +Q L+ F N Y ++++ L L R I +WFQN R
Sbjct: 1 GSSGSSGRSSRTRFTDYQLRVLQDFFDANAYPKDDEFEQLSNLLNLPTRVIVVWFQNARQ 60
Query: 92 KLKKELRA 99
K +K +
Sbjct: 61 KARKSGPS 68
>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 = 68.5 bits (167), Expect = 1e-15
Identities = 15/58 (25%), Positives = 30/58 (51%)
Query: 38 RRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRMKLKK 95
+R+ R T + LE+ F + + + + +A L L + +++WF NRR + K+
Sbjct: 87 KRKRRTTISIAAKDALERHFGEHSKPSSQEIMRMAEELNLEKEVVRVWFCNRRQREKR 144
>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 = 63.7 bits (155), Expect = 1e-14
Identities = 19/58 (32%), Positives = 32/58 (55%)
Query: 38 RRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRMKLKK 95
+R R T T Q L +++ + TR+ IAH + L +R +++WFQN R + +K
Sbjct: 17 DKRLRTTITPEQLEILYQKYLLDSNPTRKMLDHIAHEVGLKKRVVQVWFQNTRARERK 74
>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 = 60.8 bits (148), Expect = 1e-13
Identities = 18/64 (28%), Positives = 30/64 (46%)
Query: 32 GPNGCPRRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRM 91
G +G +R R T Q L + F N+ + + E+A L ++ IK WF+N
Sbjct: 1 GSSGSSGKRPRTRITDDQLRVLRQYFDINNSPSEEQIKEMADKSGLPQKVIKHWFRNTLF 60
Query: 92 KLKK 95
K ++
Sbjct: 61 KERQ 64
>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 = 2e-13
Identities = 19/67 (28%), Positives = 34/67 (50%)
Query: 32 GPNGCPRRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRM 91
G +G +R R ++ Q ++ F NH + ++A LT+R +++WFQN R
Sbjct: 1 GSSGSSGKRMRTSFKHHQLRTMKSYFAINHNPDAKDLKQLAQKTGLTKRVLQVWFQNARA 60
Query: 92 KLKKELR 98
K ++ L
Sbjct: 61 KFRRNLL 67
>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 = 62.7 bits (152), Expect = 2e-13
Identities = 18/66 (27%), Positives = 27/66 (40%)
Query: 30 QSGPNGCPRRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNR 89
G +R+ R ++T L F N T + E+A L +++WF NR
Sbjct: 85 FVGGEPSKKRKRRTSFTPQAIEALNAYFEKNPLPTGQEITEMAKELNYDREVVRVWFSNR 144
Query: 90 RMKLKK 95
R LK
Sbjct: 145 RQTLKN 150
>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 = 60.1 bits (146), Expect = 4e-13
Identities = 24/70 (34%), Positives = 38/70 (54%)
Query: 32 GPNGCPRRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRM 91
G +G RR R T+TR Q LE F Y R E+A + L E ++++WF+NRR
Sbjct: 1 GSSGSSGRRERTTFTRAQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQVWFKNRRA 60
Query: 92 KLKKELRAVK 101
K +++ + +
Sbjct: 61 KCRQQQQQQQ 70
>2cue_A Paired box protein PAX6; homeobox domain, transcription factor,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
a.4.1.1
Length = 80
Score = 59.3 bits (144), Expect = 8e-13
Identities = 25/71 (35%), Positives = 39/71 (54%)
Query: 32 GPNGCPRRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRM 91
G +G +R R ++T+ Q LEKEF HY R +A + L E +I++WF NRR
Sbjct: 1 GSSGSSGQRNRTSFTQEQIEALEKEFERTHYPDVFARERLAAKIDLPEARIQVWFSNRRA 60
Query: 92 KLKKELRAVKE 102
K ++E + +
Sbjct: 61 KWRREEKLRNQ 71
>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 = 61.3 bits (148), Expect = 9e-13
Identities = 17/63 (26%), Positives = 29/63 (46%)
Query: 33 PNGCPRRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRMK 92
R+R R + LE F + + ++ IA+ L L + +++WF NRR K
Sbjct: 91 TLVQARKRKRTSIENRVRWSLETMFLKSPKPSLQQITHIANQLGLEKDVVRVWFSNRRQK 150
Query: 93 LKK 95
K+
Sbjct: 151 GKR 153
>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 = 58.5 bits (142), Expect = 1e-12
Identities = 25/61 (40%), Positives = 32/61 (52%)
Query: 39 RRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRMKLKKELR 98
RR R +T+ Q LE F N Y ++A L L +I+IWFQNRR KLK+ R
Sbjct: 2 RRPRTAFTQNQIEVLENVFRVNCYPGIDILEDLAQKLNLELDRIQIWFQNRRAKLKRSHR 61
Query: 99 A 99
Sbjct: 62 E 62
>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 = 58.5 bits (142), Expect = 1e-12
Identities = 26/63 (41%), Positives = 38/63 (60%)
Query: 38 RRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRMKLKKEL 97
+RR R T++ Q ELE+ F Y R E+A LTE +I++WFQNRR +L+K+
Sbjct: 18 QRRSRTTFSASQLDELERAFERTQYPDIYTREELAQRTNLTEARIQVWFQNRRARLRKQH 77
Query: 98 RAV 100
+V
Sbjct: 78 TSV 80
>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 = 57.7 bits (140), Expect = 2e-12
Identities = 21/68 (30%), Positives = 34/68 (50%)
Query: 32 GPNGCPRRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRM 91
G +G RR R +T Q LE F Y R ++A + L E ++++WF+NRR
Sbjct: 1 GSSGSSGRRHRTIFTDEQLEALENLFQETKYPDVGTREQLARKVHLREEKVEVWFKNRRA 60
Query: 92 KLKKELRA 99
K ++ +
Sbjct: 61 KWRRSGPS 68
>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 = 57.3 bits (139), Expect = 3e-12
Identities = 24/63 (38%), Positives = 34/63 (53%)
Query: 38 RRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRMKLKKEL 97
+RR R +T Q +LE F N Y R EIA LTE ++++WF+NRR K +K
Sbjct: 3 QRRQRTHFTSQQLQQLEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRKRE 62
Query: 98 RAV 100
+
Sbjct: 63 EFI 65
>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 = 57.1 bits (138), Expect = 5e-12
Identities = 15/65 (23%), Positives = 25/65 (38%), Gaps = 1/65 (1%)
Query: 32 GPNGCPRRRGRQTYTRFQTLELEKEFH-FNHYLTRRRRIEIAHALCLTERQIKIWFQNRR 90
G +G R R + L+ H Y + ++ L L + I +FQN+R
Sbjct: 1 GSSGSSGPRSRTKISLEALGILQSFIHDVGLYPDQEAIHTLSAQLDLPKHTIIKFFQNQR 60
Query: 91 MKLKK 95
+K
Sbjct: 61 YHVKH 65
>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 = 56.2 bits (136), Expect = 8e-12
Identities = 17/64 (26%), Positives = 26/64 (40%)
Query: 38 RRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRMKLKKEL 97
R R Q L + N + ++ L+ R I++WFQN+R K KK
Sbjct: 3 TTRVRTVLNEKQLHTLRTCYAANPRPDALMKEQLVEMTGLSPRVIRVWFQNKRCKDKKRS 62
Query: 98 RAVK 101
+K
Sbjct: 63 IMMK 66
>2hi3_A Homeodomain-only protein; transcription; NMR {Mus musculus} SCOP:
a.4.1.1
Length = 73
Score = 55.5 bits (134), Expect = 2e-11
Identities = 15/59 (25%), Positives = 23/59 (38%), Gaps = 1/59 (1%)
Query: 39 RRGRQTYTRFQTLELEKEFH-FNHYLTRRRRIEIAHALCLTERQIKIWFQNRRMKLKKE 96
+ T Q LE F+ N + IA LTE Q + WF+ R + ++
Sbjct: 3 AQTVSGPTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQKWFKQRLAEWRRS 61
>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 = 55.3 bits (133), Expect = 2e-11
Identities = 16/66 (24%), Positives = 23/66 (34%), Gaps = 2/66 (3%)
Query: 31 SGPNGCPRRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRR 90
S + P + + Q LE F N + +T R+I WF RR
Sbjct: 2 SSGSSGPTKYKERA--PEQLRALESSFAQNPLPLDEELDRLRSETKMTRREIDSWFSERR 59
Query: 91 MKLKKE 96
K+ E
Sbjct: 60 KKVNAE 65
>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 = 54.9 bits (133), Expect = 3e-11
Identities = 26/57 (45%), Positives = 35/57 (61%)
Query: 42 RQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRMKLKKELR 98
T+T FQ ELEK F HY R E+A + LTE +I++WFQNRR K +K+ +
Sbjct: 3 HMTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQVWFQNRRAKWRKQEK 59
>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 = 55.0 bits (132), Expect = 5e-11
Identities = 21/82 (25%), Positives = 34/82 (41%), Gaps = 15/82 (18%)
Query: 32 GPNGCPRRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALC--------------- 76
G +G R R T+ + +E F+ N Y +R EIA+A
Sbjct: 1 GSSGSSGRGSRFTWRKECLAVMESYFNENQYPDEAKREEIANACNAVIQKPGKKLSDLER 60
Query: 77 LTERQIKIWFQNRRMKLKKELR 98
+T ++ WF NRR ++K+
Sbjct: 61 VTSLKVYNWFANRRKEIKRRAN 82
>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 = 54.0 bits (130), Expect = 6e-11
Identities = 10/58 (17%), Positives = 21/58 (36%)
Query: 38 RRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRMKLKK 95
+ T+ Q L+ F + + + L +IK WF + R + ++
Sbjct: 4 HHHHHRKKTKEQIAHLKASFLQSQFPDDAEVYRLIEVTGLARSEIKKWFSDHRYRCQR 61
>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 = 1e-10
Identities = 17/70 (24%), Positives = 30/70 (42%), Gaps = 2/70 (2%)
Query: 33 PNGCPRRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRMK 92
P+ P++ +T + Q LE F + + T+ + L+ R+I WF RR
Sbjct: 10 PDFAPQKFKEKT--QGQVKILEDSFLKSSFPTQAELDRLRVETKLSRREIDSWFSERRKL 67
Query: 93 LKKELRAVKE 102
+AV +
Sbjct: 68 RDSMEQAVLD 77
>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 = 53.5 bits (128), Expect = 2e-10
Identities = 17/77 (22%), Positives = 30/77 (38%), Gaps = 2/77 (2%)
Query: 31 SGPNGCPRRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRR 90
SGP+ P++ +T Q L+ F + LT + LT R+I WF ++
Sbjct: 6 SGPDFTPQKFKEKT--AEQLRVLQASFLNSSVLTDEELNRLRAQTKLTRREIDAWFTEKK 63
Query: 91 MKLKKELRAVKEINEQA 107
+ ++ A
Sbjct: 64 KSKALKEEKMEIDESNA 80
>2d5v_A Hepatocyte nuclear factor 6; transcription factor,
transcription-DNA complex; 2.00A {Rattus norvegicus}
PDB: 1s7e_A
Length = 164
Score = 53.7 bits (128), Expect = 7e-10
Identities = 15/79 (18%), Positives = 28/79 (35%)
Query: 20 HFAKMLCQLKQSGPNGCPRRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTE 79
A + + G ++ R +T Q L F N ++ +I I+ L L
Sbjct: 79 LAACKRKEQEHGKDRGNTPKKPRLVFTDVQRRTLHAIFKENKRPSKELQITISQQLGLEL 138
Query: 80 RQIKIWFQNRRMKLKKELR 98
+ +F N R + +
Sbjct: 139 STVSNFFMNARRRSLDKWL 157
>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 = 47.4 bits (113), Expect = 3e-08
Identities = 16/59 (27%), Positives = 24/59 (40%), Gaps = 1/59 (1%)
Query: 39 RRGRQTYTRFQTLELEKEFHFNH-YLTRRRRIEIAHALCLTERQIKIWFQNRRMKLKKE 96
G T T Q LE F+ + + IA LTE Q + WF+ R + ++
Sbjct: 2 SEGAATMTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQKWFKQRLAEWRRS 60
>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 = 42.5 bits (100), Expect = 2e-06
Identities = 14/58 (24%), Positives = 24/58 (41%), Gaps = 1/58 (1%)
Query: 40 RGRQTYTRFQTLELEKEF-HFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRMKLKKE 96
+ LEK F Y +R ++ L + R+I+ WF++RR + K
Sbjct: 10 KDSPVNKVEPNDTLEKVFVSVTKYPDEKRLKGLSKQLDWSVRKIQCWFRHRRNQDKPS 67
>2h8r_A Hepatocyte nuclear factor 1-beta; trasncription factor, POU, homeo,
protein-DNA, human disease; 3.20A {Homo sapiens}
Length = 221
Score = 45.0 bits (105), Expect = 2e-06
Identities = 14/85 (16%), Positives = 24/85 (28%), Gaps = 21/85 (24%)
Query: 31 SGPNGCPRRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALC-------------- 76
S P RR R + L + + ++ R +
Sbjct: 135 SEPTNKKMRRNRFKWGPASQQILYQAYDRQKNPSKEEREALVEECNRAECLQRGVSPSKA 194
Query: 77 -------LTERQIKIWFQNRRMKLK 94
+TE ++ WF NRR +
Sbjct: 195 HGLGSNLVTEVRVYNWFANRRKEEA 219
>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 = 40.6 bits (94), Expect = 1e-05
Identities = 11/59 (18%), Positives = 17/59 (28%)
Query: 37 PRRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRMKLKK 95
T Q L+ F + + ++A L I WF + R K
Sbjct: 24 GSTGKICKKTPEQLHMLKSAFVRTQWPSPEEYDKLAKESGLARTDIVSWFGDTRYAWKN 82
>1lfb_A Liver transcription factor (LFB1); transcription regulation; 2.80A
{Rattus norvegicus} SCOP: a.4.1.1 PDB: 2lfb_A
Length = 99
Score = 40.2 bits (93), Expect = 2e-05
Identities = 12/89 (13%), Positives = 25/89 (28%), Gaps = 21/89 (23%)
Query: 38 RRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALC--------------------- 76
RR R + L + + ++ R +
Sbjct: 9 GRRNRFKWGPASQQILFQAYERQKNPSKEERETLVEECNRAECIQRGVSPSQAQGLGSNL 68
Query: 77 LTERQIKIWFQNRRMKLKKELRAVKEINE 105
+TE ++ WF NRR + + + +
Sbjct: 69 VTEVRVYNWFANRRKEEAFRHKLAMDTYK 97
>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 = 41.0 bits (95), Expect = 3e-05
Identities = 12/98 (12%), Positives = 26/98 (26%), Gaps = 21/98 (21%)
Query: 18 NVHFAKMLCQLKQSGPNGCPRRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALC- 76
+ ++ + RR R + L + + ++ R +
Sbjct: 95 HAGQGGLIEEPTGDELPTKKGRRNRFKWGPASQQILFQAYERQKNPSKEERETLVEECNR 154
Query: 77 --------------------LTERQIKIWFQNRRMKLK 94
+TE ++ WF NRR +
Sbjct: 155 AECIQRGVSPSQAQGLGSNLVTEVRVYNWFANRRKEEA 192
>1x2m_A LAG1 longevity assurance homolog 6; homeobox domain, structural
genomics, NPPSFA, national project on protein
structural and functional analyses; NMR {Mus musculus}
SCOP: a.4.1.1
Length = 64
Score = 38.2 bits (89), Expect = 6e-05
Identities = 13/44 (29%), Positives = 20/44 (45%), Gaps = 1/44 (2%)
Query: 53 LEKEF-HFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRMKLKK 95
LEK F + +R ++ L R I+ WF+ RR + K
Sbjct: 15 LEKVFTAITKHPDEKRLEGLSKQLDWDVRSIQRWFRQRRNQEKP 58
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 37.8 bits (87), Expect = 5e-04
Identities = 16/60 (26%), Positives = 32/60 (53%), Gaps = 6/60 (10%)
Query: 71 IAHALCLTE--RQIKIWFQNRRMKLKK----ELRAVKEINEQARREREEQDRLKQEKHAK 124
IA A LT+ I+ W + +R +L++ +E E+A+++ EE ++ + E+ K
Sbjct: 74 IAQADRLTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEK 133
Score = 30.5 bits (68), Expect = 0.15
Identities = 3/35 (8%), Positives = 17/35 (48%)
Query: 79 ERQIKIWFQNRRMKLKKELRAVKEINEQARREREE 113
++ ++ W Q + +++K + ++ ++ +
Sbjct: 117 KKDLEEWNQRQSEQVEKNKINNRIADKAFYQQPDA 151
>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 = 34.8 bits (79), Expect = 0.001
Identities = 9/56 (16%), Positives = 21/56 (37%)
Query: 40 RGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRMKLKK 95
LE+ + + L +++ A L+ +Q+ WF +R + +
Sbjct: 8 PLPIPPPPPDIQPLERYWAAHQQLRETDIPQLSQASRLSTQQVLDWFDSRLPQPAE 63
>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 = 35.0 bits (80), Expect = 0.001
Identities = 13/59 (22%), Positives = 21/59 (35%), Gaps = 2/59 (3%)
Query: 37 PRRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRMKLKK 95
R+T + Q L+ F + R ++ L +I WF + R LK
Sbjct: 4 GSSGKRKT--KEQLAILKSFFLQCQWARREDYQKLEQITGLPRPEIIQWFGDTRYALKH 60
>2e19_A Transcription factor 8; homeobox domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 64
Score = 34.2 bits (78), Expect = 0.002
Identities = 8/43 (18%), Positives = 17/43 (39%)
Query: 53 LEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRMKLKK 95
L+ + N + +IA ++ L +K WF+ +
Sbjct: 18 LKAYYALNAQPSAEELSKIADSVNLPLDVVKKWFEKMQAGQIS 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 = 32.9 bits (75), Expect = 0.009
Identities = 18/63 (28%), Positives = 25/63 (39%), Gaps = 5/63 (7%)
Query: 37 PRRRGRQTYTRFQTLELEKEF--HFNH-YLTRRRRIEIAHALCLTERQIKIWFQNRRMKL 93
P R R +T+ LE F + + YL + + L+ QIK W RR K
Sbjct: 3 PYRGHR--FTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVAARRAKE 60
Query: 94 KKE 96
K
Sbjct: 61 KTI 63
>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 = 32.1 bits (72), Expect = 0.012
Identities = 9/52 (17%), Positives = 21/52 (40%)
Query: 41 GRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRMK 92
+ L+ + N ++I+ A+ L + +K WF+ R++
Sbjct: 8 SPINPYKDHMSVLKAYYAMNMEPNSDELLKISIAVGLPQEFVKEWFEQRKVY 59
>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 = 31.1 bits (71), Expect = 0.020
Identities = 12/39 (30%), Positives = 17/39 (43%), Gaps = 1/39 (2%)
Query: 58 HFNH-YLTRRRRIEIAHALCLTERQIKIWFQNRRMKLKK 95
+ + YL + + L+ QIK W NRR K K
Sbjct: 20 NIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKT 58
>1mnm_C Protein (MAT alpha-2 transcriptional repressor); transcription
regulation, transcriptional repression, DNA- binding
protein; HET: DNA; 2.25A {Saccharomyces cerevisiae}
SCOP: a.4.1.1
Length = 87
Score = 31.8 bits (72), Expect = 0.024
Identities = 18/68 (26%), Positives = 26/68 (38%), Gaps = 3/68 (4%)
Query: 30 QSGPNGCPRRRGRQTYTRFQTLELEKEF--HFNH-YLTRRRRIEIAHALCLTERQIKIWF 86
Q N + +T+ LE F + + YL + + L+ QIK W
Sbjct: 19 QDMINKSTKPYRGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWV 78
Query: 87 QNRRMKLK 94
NRR K K
Sbjct: 79 SNRRRKEK 86
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 33.1 bits (75), Expect = 0.029
Identities = 24/124 (19%), Positives = 41/124 (33%), Gaps = 47/124 (37%)
Query: 52 ELEKE-FHFNHYLTRRRRIEIAHALCLTERQIKIWFQN-RRM-----------KLKKELR 98
+++ N +L +++EI+ L N + L LR
Sbjct: 348 QVQDYVNKTNSHLPAGKQVEIS----LV---------NGAKNLVVSGPPQSLYGLNLTLR 394
Query: 99 AVKEINEQARREREEQDRLK--QEKHAKMDH---------HSHHQSMMGGLDK-NSDLLK 146
K A +Q R+ + K K + HSH ++ D N DL+K
Sbjct: 395 KAK-----APSG-LDQSRIPFSERK-LKFSNRFLPVASPFHSHL--LVPASDLINKDLVK 445
Query: 147 AVVT 150
V+
Sbjct: 446 NNVS 449
>1x8b_A WEE1HU, WEE1-like protein kinase; cell cycle, transferase; HET:
824; 1.81A {Homo sapiens} PDB: 3bi6_A* 3biz_A* 3cqe_A*
3cr0_A* 2in6_A* 2io6_A* 2z2w_A*
Length = 289
Score = 32.3 bits (74), Expect = 0.041
Identities = 11/40 (27%), Positives = 20/40 (50%), Gaps = 1/40 (2%)
Query: 92 KLKKELRAVKEINEQARREREEQDRLKQEK-HAKMDHHSH 130
+L + A+K + +EQ+ L++ HA + HSH
Sbjct: 33 RLDGCIYAIKRSKKPLAGSVDEQNALREVYAHAVLGQHSH 72
>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 = 0.045
Identities = 13/41 (31%), Positives = 23/41 (56%)
Query: 54 EKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRMKLK 94
E+ F L + + E+A +T Q+++WF N+RM+ K
Sbjct: 381 EQVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMRSK 421
>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 = 31.1 bits (70), Expect = 0.072
Identities = 10/38 (26%), Positives = 18/38 (47%)
Query: 95 KELRAVKEINEQARREREEQDRLKQEKHAKMDHHSHHQ 132
+ +R E + AR + E+ + +E + HH HH
Sbjct: 126 QSVRTSLEDAKNAREDAEQAQKRAEEINTNSHHHHHHH 163
>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 = 29.2 bits (64), Expect = 0.17
Identities = 11/63 (17%), Positives = 23/63 (36%), Gaps = 4/63 (6%)
Query: 38 RRRGRQTYTRFQTLELEKEFH----FNHYLTRRRRIEIAHALCLTERQIKIWFQNRRMKL 93
+ R ++ L+K + + R + +A L + ++ W NRR K
Sbjct: 8 ALQDRTQFSDRDLATLKKYWDNGMTSLGSVCREKIEAVATELNVDCEIVRTWIGNRRRKY 67
Query: 94 KKE 96
+
Sbjct: 68 RLM 70
>2j8a_A Histone-lysine N-methyltransferase, H3 lysine-4 specific; histone
methyltransferase, RRM fold, telomere, nuclear protein;
3.0A {Saccharomyces cerevisiae}
Length = 136
Score = 29.7 bits (66), Expect = 0.20
Identities = 13/44 (29%), Positives = 22/44 (50%)
Query: 88 NRRMKLKKELRAVKEINEQARREREEQDRLKQEKHAKMDHHSHH 131
N+ L + EIN + ++ +E + +EK A+ HH HH
Sbjct: 93 NKHSILNNIISKFVEINVKKLQKLQENLKKAKEKEAENHHHHHH 136
>3k2a_A Homeobox protein MEIS2; homeobox domain, DNA-binding,
transcription, nucleus, phosphoprotein, DNA bindi
protein; 1.95A {Homo sapiens}
Length = 67
Score = 27.7 bits (62), Expect = 0.43
Identities = 11/41 (26%), Positives = 21/41 (51%), Gaps = 1/41 (2%)
Query: 58 HFNH-YLTRRRRIEIAHALCLTERQIKIWFQNRRMKLKKEL 97
H H Y + ++ ++A LT Q+ WF N R ++ + +
Sbjct: 20 HLTHPYPSEEQKKQLAQDTGLTILQVNNWFINARRRIVQPM 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 = 0.55
Identities = 15/18 (83%), Positives = 16/18 (88%)
Query: 80 RQIKIWFQNRRMKLKKEL 97
RQIKIWFQNRRMK KK +
Sbjct: 1 RQIKIWFQNRRMKWKKRV 18
>2jjd_A Receptor-type tyrosine-protein phosphatase epsilo; transmembrane,
phosphoprotein, consorti structural, glycoprotein, SGC,
PTPRE, membrane genomics; 3.20A {Homo sapiens}
Length = 599
Score = 28.9 bits (65), Expect = 0.67
Identities = 12/91 (13%), Positives = 31/91 (34%), Gaps = 26/91 (28%)
Query: 14 VIVLNVHFAKMLCQLKQSGPNGCPR---RRGRQTYTRFQTLELEKEFHFNHYLTRRRRIE 70
IV ML ++++ + C + G T+ T+E++ +
Sbjct: 416 TIV-------MLTEVQEREQDKCYQYWPTEGSVTHGEI-TIEIKNDTLSEAI-------- 459
Query: 71 IAHALCLTERQIKIWFQNRRMKLKKELRAVK 101
+ R + + + +++R V+
Sbjct: 460 -------SIRDFLVTLNQPQARQGEQVRVVR 483
>1ygr_A CD45 protein tyrosine phosphatase; protein tyrosine phosphatase,
RPTP, LCA, lymphocyte activation, hydrolase; HET: PTR;
2.90A {Homo sapiens} PDB: 1ygu_A*
Length = 610
Score = 28.9 bits (65), Expect = 0.68
Identities = 18/72 (25%), Positives = 28/72 (38%), Gaps = 12/72 (16%)
Query: 14 VIVLNVHFAKMLCQLKQSGPNGCPR--RRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEI 71
VIV ML +LK C + G+QTY ++L+ + Y R E+
Sbjct: 434 VIV-------MLTELKHGDQEICAQYWGEGKQTYGDI-EVDLKDTDKSSTYTL--RVFEL 483
Query: 72 AHALCLTERQIK 83
H+ R +
Sbjct: 484 RHSKRKDSRTVY 495
>1wh7_A ZF-HD homeobox family protein; homeobox domain, structural
genomics, riken structural genomics/proteomics
initiative, RSGI; NMR {Arabidopsis thaliana} SCOP:
a.4.1.1
Length = 80
Score = 27.3 bits (60), Expect = 0.75
Identities = 10/70 (14%), Positives = 22/70 (31%), Gaps = 4/70 (5%)
Query: 30 QSGPNGCPRRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALC----LTERQIKIW 85
+G +R R +T Q ++ + ++ C + + +KIW
Sbjct: 9 NPSSSGGTTKRFRTKFTAEQKEKMLAFAERLGWRIQKHDDVAVEQFCAETGVRRQVLKIW 68
Query: 86 FQNRRMKLKK 95
N +
Sbjct: 69 MHNNKNSGPS 78
>1b72_B Protein (PBX1); homeodomain, DNA, complex, DNA-binding protein,
protein/DNA complex; HET: DNA; 2.35A {Homo sapiens}
SCOP: a.4.1.1 PDB: 1lfu_P
Length = 87
Score = 27.5 bits (61), Expect = 0.83
Identities = 12/41 (29%), Positives = 23/41 (56%), Gaps = 1/41 (2%)
Query: 58 HFNH-YLTRRRRIEIAHALCLTERQIKIWFQNRRMKLKKEL 97
H ++ Y + + E+A +T Q+ WF N+R++ KK +
Sbjct: 23 HLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKKNI 63
>2xdw_A Prolyl endopeptidase; alpha/beta-hydrolase, amnesia,
beta-propeller, hydrolase, in; HET: PHQ TAM; 1.35A {Sus
scrofa} PDB: 1qfm_A 1qfs_A* 1h2w_A* 3eq7_A* 3eq8_A*
3eq9_A* 1e8m_A* 1e8n_A 1h2z_A 1uoo_A 1uop_A 1uoq_A
1o6f_A 1h2x_A 1h2y_A* 1o6g_A 1vz3_A 1e5t_A 1vz2_A
3ddu_A*
Length = 710
Score = 28.3 bits (64), Expect = 1.1
Identities = 6/48 (12%), Positives = 19/48 (39%), Gaps = 6/48 (12%)
Query: 21 FAKMLCQLKQSGPNGCPRRRGRQTYTRFQTLELEKEFHFNHYLTRRRR 68
+ + + +L C ++G++ + + T L+ N + +
Sbjct: 63 YKERMTELYDYPKYSCHFKKGKRYFYFYNT-GLQ-----NQRVLYVQD 104
>3mb8_A Purine nucleoside phosphorylase; PNP, immucillin H, IMMH, TR; HET:
IMH; 1.90A {Toxoplasma gondii}
Length = 279
Score = 28.0 bits (62), Expect = 1.3
Identities = 13/40 (32%), Positives = 21/40 (52%), Gaps = 4/40 (10%)
Query: 97 LRAVKEINEQARRERE---EQDRLKQEK-HAKMDHHSHHQ 132
L+A + Q + E E EQ + +E ++ +DHH HH
Sbjct: 240 LKACANLRRQYKGEFEAYVEQKLISEEDLNSAVDHHHHHH 279
>2dmn_A Homeobox protein TGIF2LX; TGFB-induced factor 2-like protein,
X-linked TGF(beta) induced transcription factor 2-like
protein, TGIF-like on the X; NMR {Homo sapiens}
Length = 83
Score = 26.3 bits (58), Expect = 1.6
Identities = 13/69 (18%), Positives = 26/69 (37%), Gaps = 1/69 (1%)
Query: 31 SGPNGCPRRRGRQTYTRFQTLELEKEFHFNH-YLTRRRRIEIAHALCLTERQIKIWFQNR 89
S + +R+G + L H Y + + ++ L+ QI WF N
Sbjct: 2 SSGSSGKKRKGNLPAESVKILRDWMYKHRFKAYPSEEEKQMLSEKTNLSLLQISNWFINA 61
Query: 90 RMKLKKELR 98
R ++ ++
Sbjct: 62 RRRILPDML 70
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp
contractIle protein-transport protein complex; 24.00A
{Gallus gallus}
Length = 1080
Score = 27.8 bits (62), Expect = 1.7
Identities = 16/86 (18%), Positives = 34/86 (39%), Gaps = 5/86 (5%)
Query: 38 RRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQN--RRMKLKK 95
RG ++Q + E + + + + R +A + ++ Q RRM K+
Sbjct: 848 LLRGYLVRNKYQMMLREHK---SIIIQKHVRGWLARVHYHRTLKAIVYLQCCYRRMMAKR 904
Query: 96 ELRAVKEINEQARREREEQDRLKQEK 121
EL+ +K R ++ L+ +
Sbjct: 905 ELKKLKIEARSVERYKKLHIGLENKI 930
Score = 26.6 bits (59), Expect = 3.8
Identities = 15/86 (17%), Positives = 29/86 (33%), Gaps = 2/86 (2%)
Query: 37 PRRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNRRMKLKKE 96
R+ Y + + + YL R + + Q + R+ +
Sbjct: 827 RMYVVRKRYQCMRDATIALQALLRGYLVRNKYQMMLREHKSIIIQKHVRGWLARVHYHRT 886
Query: 97 LRAVKEINEQARRE--REEQDRLKQE 120
L+A+ + RR + E +LK E
Sbjct: 887 LKAIVYLQCCYRRMMAKRELKKLKIE 912
>1du6_A PBX1, homeobox protein PBX1; homeodomain, gene regulation; NMR
{Mus musculus} SCOP: a.4.1.1
Length = 64
Score = 26.1 bits (58), Expect = 1.7
Identities = 12/39 (30%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 58 HFNH-YLTRRRRIEIAHALCLTERQIKIWFQNRRMKLKK 95
H ++ Y + + E+A +T Q+ WF N+R++ KK
Sbjct: 25 HLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKK 63
>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 = 27.1 bits (60), Expect = 1.8
Identities = 9/36 (25%), Positives = 15/36 (41%)
Query: 70 EIAHALCLTERQIKIWFQNRRMKLKKELRAVKEINE 105
EIA L + I Q R K ++ ++ + I
Sbjct: 129 EIATILSKNLKSIDNTIQRIRKKSEEWIKEEENIKR 164
>2j5u_A MREC protein; bacterial cell shape determining protein MREC, cell
shape regulation; 2.5A {Listeria monocytogenes}
Length = 255
Score = 27.4 bits (61), Expect = 1.8
Identities = 7/33 (21%), Positives = 17/33 (51%), Gaps = 2/33 (6%)
Query: 87 QNRRMKLKKELRAVKEINEQARREREEQDRLKQ 119
+N+ LK+ L + ++ + ++E LK+
Sbjct: 27 ENQH--LKERLEELAQLESEVADLKKENKDLKE 57
>2qtf_A Protein HFLX, GTP-binding protein; beta-alpha-barrels,
nucleotide-binding, nucleotide binding protein; 2.00A
{Sulfolobus solfataricus P2} PDB: 2qth_A* 3kxi_A* 3kxl_A
3kxk_A
Length = 364
Score = 27.2 bits (61), Expect = 2.4
Identities = 9/28 (32%), Positives = 16/28 (57%), Gaps = 1/28 (3%)
Query: 89 RRM-KLKKELRAVKEINEQARREREEQD 115
RR+ KL KEL ++K E++ + +
Sbjct: 151 RRINKLMKELESIKIFKEKSIESNKRNN 178
>3t2c_A Fructose-1,6-bisphosphate aldolase/phosphatase; (beta/alpha)8 TIM
barrel, FBP, F6P, DHAP, GAP, phosphorylati lyase,
hydrolase; HET: 13P; 1.30A {Thermoproteus neutrophilus}
PDB: 3t2b_A* 3t2d_A* 3t2e_A* 3t2f_A 3t2g_A*
Length = 407
Score = 27.3 bits (60), Expect = 2.7
Identities = 9/41 (21%), Positives = 16/41 (39%)
Query: 92 KLKKELRAVKEINEQARREREEQDRLKQEKHAKMDHHSHHQ 132
K+K E + + E + +E ++HH HH
Sbjct: 367 KVKPYPADQYEKDRKKYIEAVVKGAKVEESQHDLEHHHHHH 407
>1yub_A Ermam, rRNA methyltransferase; MLS antibiotics; NMR {Streptococcus
pneumoniae} SCOP: c.66.1.24
Length = 245
Score = 26.7 bits (60), Expect = 2.9
Identities = 8/57 (14%), Positives = 16/57 (28%), Gaps = 1/57 (1%)
Query: 63 LTRRRRIEIAHALCLTERQIKIWFQNRRMKLKKELRAVKEINEQARREREEQDRLKQ 119
LTR L + W +L + + + + A+ +Q
Sbjct: 175 LTRHTTDVPDKYWKLYTYFVSKWVNREYRQLFTKNQ-FHQAMKHAKVNNLSTITYEQ 230
>1puf_B PRE-B-cell leukemia transcription factor-1; homeodomian,
protein-DNA complex, HOX hexapeptide, TALE homeodomain,
homeodomain interaction; 1.90A {Homo sapiens} SCOP:
a.4.1.1 PDB: 1b8i_B* 2r5y_B* 2r5z_B*
Length = 73
Score = 25.4 bits (56), Expect = 3.0
Identities = 12/41 (29%), Positives = 23/41 (56%), Gaps = 1/41 (2%)
Query: 58 HFNH-YLTRRRRIEIAHALCLTERQIKIWFQNRRMKLKKEL 97
H ++ Y + + E+A +T Q+ WF N+R++ KK +
Sbjct: 23 HLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKKNI 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 = 25.0 bits (55), Expect = 3.8
Identities = 13/40 (32%), Positives = 19/40 (47%), Gaps = 1/40 (2%)
Query: 58 HFNH-YLTRRRRIEIAHALCLTERQIKIWFQNRRMKLKKE 96
H H Y T + +IA LT Q+ WF N R ++ +
Sbjct: 29 HIGHPYPTEDEKKQIAAQTNLTLLQVNNWFINARRRILQS 68
>2jro_A Uncharacterized protein; solution structure, structural genomics,
PSI-2, protein initiative, northeast structural genomics
consortium; NMR {Shewanella oneidensis}
Length = 78
Score = 25.2 bits (55), Expect = 3.8
Identities = 11/43 (25%), Positives = 18/43 (41%), Gaps = 7/43 (16%)
Query: 90 RMKLKKELRAVKEINEQARREREEQDRLKQEKHAKMDHHSHHQ 132
R L K +A+ E+NE + + ++HH HH
Sbjct: 43 RKSLPKVKQAILELNELI-------EAQNHQTKTALEHHHHHH 78
>2vsq_A Surfactin synthetase subunit 3; ligase, peptidyl carrier protein,
ligase phosphoprotein, TER module, phosphopantetheine;
2.60A {Bacillus subtilis}
Length = 1304
Score = 26.8 bits (60), Expect = 3.8
Identities = 10/42 (23%), Positives = 18/42 (42%), Gaps = 2/42 (4%)
Query: 93 LKKELRAVKEINEQARREREEQDRLKQEK--HAKMDHHSHHQ 132
L + L + E + +L E+ ++ +DHH HH
Sbjct: 1263 LLEFLNTQTVTVSKGEFEAYVEQKLISEEDLNSAVDHHHHHH 1304
>2lk2_A Homeobox protein TGIF1; NESG, structural genomics, northeast
structural genomics CON PSI-biology, transcription; NMR
{Homo sapiens}
Length = 89
Score = 25.5 bits (56), Expect = 3.9
Identities = 9/41 (21%), Positives = 20/41 (48%), Gaps = 1/41 (2%)
Query: 58 HFNH-YLTRRRRIEIAHALCLTERQIKIWFQNRRMKLKKEL 97
H + Y + + + ++ L+ Q+ WF N R +L ++
Sbjct: 27 HRYNAYPSEQEKALLSQQTHLSTLQVCNWFINARRRLLPDM 67
>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 = 26.7 bits (58), Expect = 3.9
Identities = 24/158 (15%), Positives = 35/158 (22%), Gaps = 49/158 (31%)
Query: 17 LNVHFAKMLCQLKQSGPNGCPRRRGRQTYTRFQTLELEKEF-----------------HF 59
L N + R + L K + F
Sbjct: 205 LLYQIDPNWTSRSDHSSN--IKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAF 262
Query: 60 NH-----YLTR------------RRRIEIAHALC-LTERQIK----IWFQNRRMKLKKEL 97
N TR I + H LT ++K + R L +E
Sbjct: 263 NLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPRE- 321
Query: 98 RAVKEINEQ-----ARREREEQDRLKQEKHAKMDHHSH 130
V N + A R+ KH D +
Sbjct: 322 --VLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTT 357
Score = 25.6 bits (55), Expect = 8.5
Identities = 12/81 (14%), Positives = 32/81 (39%), Gaps = 12/81 (14%)
Query: 35 GCPRRRGRQTYTRFQTLELEKEFHF--NHYLTRRRRIEIAHALCLTERQIKIWFQNR--- 89
+ + +F L + F + T +R+ + + + +R +++ N+
Sbjct: 69 WTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRD-RLYNDNQVFA 127
Query: 90 -----RMKLKKELR-AVKEIN 104
R++ +LR A+ E+
Sbjct: 128 KYNVSRLQPYLKLRQALLELR 148
>1lar_A Protein (LAR); tyrosine phosphatease, LAR protein, hydrolase; 2.00A
{Homo sapiens} SCOP: c.45.1.2 c.45.1.2 PDB: 2fh7_A
2nv5_A
Length = 575
Score = 26.5 bits (59), Expect = 4.9
Identities = 12/60 (20%), Positives = 24/60 (40%), Gaps = 11/60 (18%)
Query: 14 VIVLNVHFAKMLCQLKQSGPNGCPR---RRGRQTYTRFQTLELEKEFHFNHYLTRRRRIE 70
+IV ML +L++ G C + Y F ++ E++ Y+ R ++
Sbjct: 402 IIV-------MLTKLREMGREKCHQYWPAERSARYQYF-VVDPMAEYNMPQYILREFKVT 453
>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin
subfragment 2, heavy meromyosin, essential light chain,
motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP:
i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A
Length = 1184
Score = 26.3 bits (58), Expect = 5.4
Identities = 7/78 (8%), Positives = 27/78 (34%), Gaps = 4/78 (5%)
Query: 47 RFQTLELEKEFHFNHYLTRRRRIEIAHALCLTERQIKIWFQNR----RMKLKKELRAVKE 102
+ L EK A + + K + ++++E ++
Sbjct: 886 KHTQLCEEKNLLQEKLQAETELYAEAEEMRVRLAAKKQELEEILHEMEARIEEEEERSQQ 945
Query: 103 INEQARREREEQDRLKQE 120
+ + ++ +++ L+++
Sbjct: 946 LQAEKKKMQQQMLDLEEQ 963
>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 = 25.2 bits (54), Expect = 6.3
Identities = 11/75 (14%), Positives = 20/75 (26%), Gaps = 21/75 (28%)
Query: 37 PRRRGRQTYTRFQTLELEKEFHFNHYLTRRRRIEIAHALC-------------------- 76
R R + L + + ++ R +
Sbjct: 5 SSGRNRFKWGPASQQILYQAYDRQKNPSKEEREALVEECNRAECLQRGVSPSKAHGLGSN 64
Query: 77 -LTERQIKIWFQNRR 90
+TE ++ WF NRR
Sbjct: 65 LVTEVRVYNWFANRR 79
>2jn6_A Protein CGL2762, transposase; GFT PSI-2, protein structure,
structural genomics, protein structure initiative; NMR
{Corynebacterium glutamicum} SCOP: a.4.1.19
Length = 97
Score = 24.7 bits (54), Expect = 7.6
Identities = 8/38 (21%), Positives = 17/38 (44%), Gaps = 6/38 (15%)
Query: 95 KELRAVKEINEQARREREEQDRLKQEKHAKMDHHSHHQ 132
+++R +K+ N R + + ++HH HH
Sbjct: 66 EQIRQLKKENALQRARTR---HPAE---SCLEHHHHHH 97
>2oxn_A Beta-hexosaminidase; TIM-barrel, hydrolase; HET: OAN; 1.70A {Vibrio
cholerae} PDB: 3gs6_A* 3gsm_A* 1y65_A* 1tr9_A
Length = 340
Score = 25.7 bits (57), Expect = 7.9
Identities = 8/44 (18%), Positives = 18/44 (40%)
Query: 89 RRMKLKKELRAVKEINEQARREREEQDRLKQEKHAKMDHHSHHQ 132
+K ++ + + E+ ++ RL ++ HH HH
Sbjct: 296 ALLKKQQFSYSELKRLERWQQASANMQRLIEQFSEHHHHHHHHH 339
>3lfk_A MSCTV, MARR like protein, TVG0766549; multiple antibiotic
resistance regulator, transcriptional regulator, winged
helix-turn-helix motif; HET: CIT; 1.60A {Thermoplasma
volcanium}
Length = 129
Score = 25.1 bits (54), Expect = 8.1
Identities = 15/44 (34%), Positives = 21/44 (47%)
Query: 90 RMKLKKELRAVKEINEQARREREEQDRLKQEKHAKMDHHSHHQS 133
R+ K L + E QA R R+E+ RLK+ K K + S
Sbjct: 85 RLGEKIVLTSEGEFVAQAIRVRDEELRLKEMKQKKNVNRSSAPP 128
>1zy4_A Serine/threonine-protein kinase GCN2; translation regulator, signal
transduction, acid starvation, starvation stress
response; 1.95A {Saccharomyces cerevisiae} PDB: 1zy5_A*
1zyd_A* 1zyc_A* 1zxe_A
Length = 303
Score = 25.4 bits (56), Expect = 8.7
Identities = 10/40 (25%), Positives = 16/40 (40%), Gaps = 6/40 (15%)
Query: 90 RMKLKKELRAVKEINEQARREREEQDRLKQEKH--AKMDH 127
R L A+K+I R E+ + E A ++H
Sbjct: 26 RNALDSRYYAIKKI----RHTEEKLSTILSEVMLLASLNH 61
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
0.325 0.135 0.403
Gapped
Lambda K H
0.267 0.0439 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,400,622
Number of extensions: 139154
Number of successful extensions: 960
Number of sequences better than 10.0: 1
Number of HSP's gapped: 922
Number of HSP's successfully gapped: 182
Length of query: 154
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 69
Effective length of database: 4,328,508
Effective search space: 298667052
Effective search space used: 298667052
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 53 (24.9 bits)