RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7107
(76 letters)
>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 = 102 bits (257), Expect = 4e-31
Identities = 36/55 (65%), Positives = 45/55 (81%)
Query: 21 EGVLTEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 75
E + KRKQRR RTTF+++QL ELERAF+ T YPDIYTREE+A + +LTEAR+Q
Sbjct: 9 EPGIALKRKQRRSRTTFSASQLDELERAFERTQYPDIYTREELAQRTNLTEARIQ 63
>2cue_A Paired box protein PAX6; homeobox domain, transcription factor,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
a.4.1.1
Length = 80
Score = 100 bits (252), Expect = 2e-30
Identities = 25/51 (49%), Positives = 36/51 (70%)
Query: 25 TEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 75
+ +R RT+FT Q++ LE+ F+ THYPD++ RE +A KIDL EAR+Q
Sbjct: 2 SSGSSGQRNRTSFTQEQIEALEKEFERTHYPDVFARERLAAKIDLPEARIQ 52
>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 = 99.8 bits (249), Expect = 8e-30
Identities = 29/51 (56%), Positives = 36/51 (70%)
Query: 25 TEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 75
+ RR RTTFT AQL LE F +T YPDI+ REE+A+KI+L E+RVQ
Sbjct: 2 SSGSSGRRERTTFTRAQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQ 52
>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 = 98.9 bits (247), Expect = 9e-30
Identities = 25/51 (49%), Positives = 33/51 (64%)
Query: 25 TEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 75
+ RR RT FT QL+ LE FQET YPD+ TRE++A K+ L E +V+
Sbjct: 2 SSGSSGRRHRTIFTDEQLEALENLFQETKYPDVGTREQLARKVHLREEKVE 52
>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 = 95.1 bits (237), Expect = 4e-28
Identities = 29/47 (61%), Positives = 35/47 (74%)
Query: 29 KQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 75
QRR RT FTS QL++LE FQ YPD+ TREEIA+ +LTEARV+
Sbjct: 2 SQRRQRTHFTSQQLQQLEATFQRNRYPDMSTREEIAVWTNLTEARVR 48
>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 = 94.4 bits (235), Expect = 8e-28
Identities = 15/51 (29%), Positives = 27/51 (52%)
Query: 25 TEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 75
+ +R+RT+F QL+ ++ F H PD +++A K LT+ +Q
Sbjct: 2 SSGSSGKRMRTSFKHHQLRTMKSYFAINHNPDAKDLKQLAQKTGLTKRVLQ 52
>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 = 90.1 bits (224), Expect = 3e-26
Identities = 13/51 (25%), Positives = 22/51 (43%)
Query: 25 TEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 75
+ R RT FT QL+ L+ F YP E+++ ++L +
Sbjct: 2 SSGSSGRSSRTRFTDYQLRVLQDFFDANAYPKDDEFEQLSNLLNLPTRVIV 52
>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 = 89.3 bits (222), Expect = 6e-26
Identities = 19/45 (42%), Positives = 27/45 (60%)
Query: 31 RRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 75
RR RT FT Q++ LE F+ YP I E++A K++L R+Q
Sbjct: 2 RRPRTAFTQNQIEVLENVFRVNCYPGIDILEDLAQKLNLELDRIQ 46
>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 = 88.1 bits (219), Expect = 1e-25
Identities = 30/42 (71%), Positives = 36/42 (85%)
Query: 34 RTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 75
TFTS QL+ELE+AF THYPD++TREE+AMKI LTEAR+Q
Sbjct: 3 HMTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQ 44
>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 = 83.2 bits (206), Expect = 2e-23
Identities = 11/47 (23%), Positives = 19/47 (40%)
Query: 29 KQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 75
K R+RT QL L + PD +E++ L+ ++
Sbjct: 2 KTTRVRTVLNEKQLHTLRTCYAANPRPDALMKEQLVEMTGLSPRVIR 48
>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 = 81.8 bits (202), Expect = 8e-23
Identities = 15/51 (29%), Positives = 26/51 (50%)
Query: 25 TEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 75
E ++ +R+RTT T QL+ L + + P + IA ++ L + VQ
Sbjct: 12 EEPQRDKRLRTTITPEQLEILYQKYLLDSNPTRKMLDHIAHEVGLKKRVVQ 62
>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 = 77.4 bits (191), Expect = 4e-21
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 34 RTTFTSAQLKELERAFQETH-YPDIYTREEIAMKIDLTEARVQK 76
T T Q++ LE F + + +PD T IA + LTE + QK
Sbjct: 5 AATMTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQK 48
>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 = 76.6 bits (188), Expect = 2e-20
Identities = 17/66 (25%), Positives = 23/66 (34%), Gaps = 15/66 (22%)
Query: 25 TEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKID---------------L 69
+ R R T+ L +E F E YPD REEIA + +
Sbjct: 2 SSGSSGRGSRFTWRKECLAVMESYFNENQYPDEAKREEIANACNAVIQKPGKKLSDLERV 61
Query: 70 TEARVQ 75
T +V
Sbjct: 62 TSLKVY 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 = 75.5 bits (186), Expect = 2e-20
Identities = 13/50 (26%), Positives = 22/50 (44%)
Query: 26 EKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 75
+R RT T QL+ L + F + P +E+A K L + ++
Sbjct: 3 SGSSGKRPRTRITDDQLRVLRQYFDINNSPSEEQIKEMADKSGLPQKVIK 52
>2hi3_A Homeodomain-only protein; transcription; NMR {Mus musculus} SCOP:
a.4.1.1
Length = 73
Score = 72.1 bits (177), Expect = 5e-19
Identities = 15/47 (31%), Positives = 24/47 (51%), Gaps = 1/47 (2%)
Query: 31 RRIRTTFTSAQLKELERAFQETH-YPDIYTREEIAMKIDLTEARVQK 76
+ + T Q++ LE F + + +PD T IA + LTE + QK
Sbjct: 3 AQTVSGPTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQK 49
>3d1n_I POU domain, class 6, transcription factor 1; protein-DNA complex,
helix-turn-helix (HTH), DNA-binding, homeobox, nucleus,
transcription regulation; 2.51A {Homo sapiens}
Length = 151
Score = 68.9 bits (168), Expect = 7e-17
Identities = 15/58 (25%), Positives = 28/58 (48%)
Query: 18 SGHEGVLTEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 75
+ E V E K+R+ RT+FT ++ L F++ P E+A +++ V+
Sbjct: 81 NLMEFVGGEPSKKRKRRTSFTPQAIEALNAYFEKNPLPTGQEITEMAKELNYDREVVR 138
>2dn0_A Zinc fingers and homeoboxes protein 3; triple homeobox 1 protein,
KIAA0395, TIX1, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 76
Score = 66.3 bits (162), Expect = 9e-17
Identities = 9/50 (18%), Positives = 17/50 (34%)
Query: 27 KRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQK 76
+ + QL L+ +F +P E + L+ V+K
Sbjct: 5 SSGASIYKNKKSHEQLSALKGSFCRNQFPGQSEVEHLTKVTGLSTREVRK 54
>1lfb_A Liver transcription factor (LFB1); transcription regulation;
2.80A {Rattus norvegicus} SCOP: a.4.1.1 PDB: 2lfb_A
Length = 99
Score = 63.3 bits (153), Expect = 3e-15
Identities = 11/55 (20%), Positives = 22/55 (40%)
Query: 22 GVLTEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQK 76
+ +K RR R + A + L +A++ P RE + + + E +
Sbjct: 1 ARIDPTKKGRRNRFKWGPASQQILFQAYERQKNPSKEERETLVEECNRAECIQRG 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 = 64.9 bits (157), Expect = 6e-15
Identities = 12/58 (20%), Positives = 22/58 (37%)
Query: 18 SGHEGVLTEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 75
G +K RR R + A + L +A++ P RE + + + E +
Sbjct: 103 EEPTGDELPTKKGRRNRFKWGPASQQILFQAYERQKNPSKEERETLVEECNRAECIQR 160
>2h8r_A Hepatocyte nuclear factor 1-beta; trasncription factor, POU, homeo,
protein-DNA, human disease; 3.20A {Homo sapiens}
Length = 221
Score = 64.7 bits (156), Expect = 1e-14
Identities = 11/47 (23%), Positives = 19/47 (40%)
Query: 27 KRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEAR 73
+K RR R + A + L +A+ P RE + + + E
Sbjct: 139 NKKMRRNRFKWGPASQQILYQAYDRQKNPSKEEREALVEECNRAECL 185
>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 = 1e-13
Identities = 11/49 (22%), Positives = 23/49 (46%)
Query: 27 KRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 75
+ ++R RT+ + LE F ++ P + IA ++ L + V+
Sbjct: 93 VQARKRKRTSIENRVRWSLETMFLKSPKPSLQQITHIANQLGLEKDVVR 141
>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 = 59.2 bits (143), Expect = 3e-13
Identities = 14/58 (24%), Positives = 27/58 (46%)
Query: 18 SGHEGVLTEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 75
+ + + ++R+ RTT + A LER F E P +A +++L + V+
Sbjct: 75 ALYNEKVGANERKRKRRTTISIAAKDALERHFGEHSKPSSQEIMRMAEELNLEKEVVR 132
>2xsd_C POU domain, class 3, transcription factor 1; transcription-DNA
complex, SOX; 2.05A {Mus musculus}
Length = 164
Score = 59.6 bits (144), Expect = 3e-13
Identities = 10/49 (20%), Positives = 21/49 (42%)
Query: 27 KRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 75
+ ++R+ RT+ LE F + P + +A + L + V+
Sbjct: 96 QGRKRKKRTSIEVGVKGALESHFLKCPKPSAHEITGLADSLQLEKEVVR 144
>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 = 57.1 bits (138), Expect = 3e-13
Identities = 8/48 (16%), Positives = 18/48 (37%)
Query: 29 KQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQK 76
T Q+ L+ +F ++ +PD + L + ++K
Sbjct: 3 HHHHHHRKKTKEQIAHLKASFLQSQFPDDAEVYRLIEVTGLARSEIKK 50
>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 = 58.1 bits (140), Expect = 1e-12
Identities = 10/48 (20%), Positives = 24/48 (50%)
Query: 28 RKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 75
++R+ RT+ + LE++F E P IA ++++ + ++
Sbjct: 99 SRRRKKRTSIETNIRVALEKSFMENQKPTSEDITLIAEQLNMEKEVIR 146
>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 = 54.4 bits (131), Expect = 4e-12
Identities = 11/49 (22%), Positives = 20/49 (40%), Gaps = 1/49 (2%)
Query: 29 KQRRIRTTFTSAQLKELERAFQET-HYPDIYTREEIAMKIDLTEARVQK 76
R RT + L L+ + YPD ++ ++DL + + K
Sbjct: 6 SGPRSRTKISLEALGILQSFIHDVGLYPDQEAIHTLSAQLDLPKHTIIK 54
>2kt0_A Nanog, homeobox protein nanog; homeodomain, structural genomics,
protein structure initiative, PSI, center for
eukaryotic structural genomics; NMR {Homo sapiens}
Length = 84
Score = 52.9 bits (127), Expect = 3e-11
Identities = 15/57 (26%), Positives = 28/57 (49%)
Query: 18 SGHEGVLTEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 74
S + K+++ RT F+S QL L FQ Y + +E++ ++L+ +V
Sbjct: 10 SVAKKEDKVPVKKQKTRTVFSSTQLCVLNDRFQRQKYLSLQQMQELSNILNLSYKQV 66
>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 = 51.8 bits (125), Expect = 4e-11
Identities = 11/50 (22%), Positives = 24/50 (48%)
Query: 26 EKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 75
+K K + +++ + LE F+ + +EE+A K +T +V+
Sbjct: 1 KKEKSPKGKSSISPQARAFLEEVFRRKQSLNSKEKEEVAKKCGITPLQVR 50
>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 = 52.1 bits (125), Expect = 5e-11
Identities = 18/50 (36%), Positives = 29/50 (58%)
Query: 25 TEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 74
T+ +K RR RT FT QL LE+ F++ Y R ++A + L++ +V
Sbjct: 12 TKAKKGRRSRTVFTELQLMGLEKRFEKQKYLSTPDRIDLAESLGLSQLQV 61
>3a01_A Homeodomain-containing protein; homeodomain, protein-DNA complex,
DNA-binding, homeobox, NUC developmental protein; 2.70A
{Drosophila melanogaster}
Length = 93
Score = 52.2 bits (125), Expect = 6e-11
Identities = 18/58 (31%), Positives = 30/58 (51%)
Query: 17 YSGHEGVLTEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 74
GH K+++ RT+FT Q+ ELE+ F + Y R +A + +T+A+V
Sbjct: 4 RIGHPYQNRTPPKRKKPRTSFTRIQVAELEKRFHKQKYLASAERAALARGLKMTDAQV 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 = 51.3 bits (123), Expect = 9e-11
Identities = 20/47 (42%), Positives = 26/47 (55%)
Query: 28 RKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 74
K+R+ R FT AQ ELER F++ Y RE +A I LT +V
Sbjct: 7 NKKRKRRVLFTKAQTYELERRFRQQRYLSAPEREHLASLIRLTPTQV 53
>2djn_A Homeobox protein DLX-5; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 70
Score = 50.5 bits (121), Expect = 1e-10
Identities = 18/50 (36%), Positives = 29/50 (58%)
Query: 25 TEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 74
+ R+ RT ++S QL L+R FQ+T Y + R E+A + LT+ +V
Sbjct: 2 SSGSSGRKPRTIYSSFQLAALQRRFQKTQYLALPERAELAASLGLTQTQV 51
>3rkq_A Homeobox protein NKX-2.5; helix-turn-helix, DNA binding, nucleus,
transcription-DNA CO; 1.70A {Homo sapiens}
Length = 58
Score = 49.9 bits (120), Expect = 2e-10
Identities = 16/45 (35%), Positives = 27/45 (60%)
Query: 30 QRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 74
+R+ R F+ AQ+ ELER F++ Y R+++A + LT +V
Sbjct: 2 RRKPRVLFSQAQVYELERRFKQQRYLSAPERDQLASVLKLTSTQV 46
>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 = 50.4 bits (120), Expect = 3e-10
Identities = 10/58 (17%), Positives = 25/58 (43%), Gaps = 5/58 (8%)
Query: 18 SGHEGVLTEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 75
SG ++ + + T Q+K LE +F ++ +P + + ++ L+ +
Sbjct: 6 SGAYPDFAPQKFKEK-----TQGQVKILEDSFLKSSFPTQAELDRLRVETKLSRREID 58
>1ig7_A Homeotic protein MSX-1; helix-turn-helix, transcription/DNA
complex; 2.20A {Mus musculus} SCOP: a.4.1.1
Length = 58
Score = 49.6 bits (119), Expect = 3e-10
Identities = 20/44 (45%), Positives = 27/44 (61%)
Query: 31 RRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 74
R+ RT FT+AQL LER F++ Y I R E + + LTE +V
Sbjct: 1 RKPRTPFTTAQLLALERKFRQKQYLSIAERAEFSSSLSLTETQV 44
>2l9r_A Homeobox protein NKX-3.1; structural genomics, northeast
structural genomics consortiu PSI-biology, protein
structure initiative; NMR {Homo sapiens}
Length = 69
Score = 49.7 bits (119), Expect = 3e-10
Identities = 13/46 (28%), Positives = 19/46 (41%)
Query: 29 KQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 74
+ + Q+ ELER F Y R +A + LTE +V
Sbjct: 3 HHHHHHSHMSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQV 48
>2vi6_A Homeobox protein nanog; homeodomain, DNA-binding, transcription,
transcription facto developmental protein,
transcription regulation, NUC homeobox; 2.6A {Mus
musculus}
Length = 62
Score = 49.2 bits (118), Expect = 4e-10
Identities = 13/46 (28%), Positives = 28/46 (60%)
Query: 29 KQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 74
++++RT F+ AQL L+ FQ+ Y + +E++ ++L+ +V
Sbjct: 2 TKQKMRTVFSQAQLCALKDRFQKQKYLSLQQMQELSSILNLSYKQV 47
>1ftt_A TTF-1 HD, thyroid transcription factor 1 homeodomain; DNA binding
protein; NMR {Rattus norvegicus} SCOP: a.4.1.1
Length = 68
Score = 48.1 bits (115), Expect = 1e-09
Identities = 18/45 (40%), Positives = 26/45 (57%)
Query: 30 QRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 74
+R+ R F+ AQ+ ELER F++ Y RE +A I LT +V
Sbjct: 2 RRKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQV 46
>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 = 47.7 bits (113), Expect = 4e-09
Identities = 8/52 (15%), Positives = 20/52 (38%), Gaps = 5/52 (9%)
Query: 24 LTEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 75
T ++ + + T+ QL+ L+ +F + + + LT +
Sbjct: 10 FTPQKFKEK-----TAEQLRVLQASFLNSSVLTDEELNRLRAQTKLTRREID 56
>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 = 46.8 bits (111), Expect = 6e-09
Identities = 10/57 (17%), Positives = 20/57 (35%), Gaps = 5/57 (8%)
Query: 19 GHEGVLTEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 75
G G + + R QL+ LE +F + P + + + +T +
Sbjct: 1 GSSGSSGPTKYKER-----APEQLRALESSFAQNPLPLDEELDRLRSETKMTRREID 52
>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 = 45.9 bits (109), Expect = 9e-09
Identities = 12/50 (24%), Positives = 24/50 (48%)
Query: 25 TEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 74
+ + + F++ Q ELE+ F+ Y R+ +A + L+E +V
Sbjct: 2 SSGSSGKGGQVRFSNDQTIELEKKFETQKYLSPPERKRLAKMLQLSERQV 51
>2d5v_A Hepatocyte nuclear factor 6; transcription factor,
transcription-DNA complex; 2.00A {Rattus norvegicus}
PDB: 1s7e_A
Length = 164
Score = 46.8 bits (110), Expect = 2e-08
Identities = 14/69 (20%), Positives = 24/69 (34%)
Query: 7 LSCGGLPYKVYSGHEGVLTEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMK 66
+S L E ++ R FT Q + L F+E P + I+ +
Sbjct: 74 MSALRLAACKRKEQEHGKDRGNTPKKPRLVFTDVQRRTLHAIFKENKRPSKELQITISQQ 133
Query: 67 IDLTEARVQ 75
+ L + V
Sbjct: 134 LGLELSTVS 142
>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 = 43.9 bits (104), Expect = 5e-08
Identities = 16/45 (35%), Positives = 28/45 (62%)
Query: 30 QRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 74
++R RT F+S QL L+R F E Y R++++ ++ L EA++
Sbjct: 3 EKRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQI 47
>3a03_A T-cell leukemia homeobox protein 2; homeodomain, developmental
protein, DNA-binding, N gene regulation; 1.54A {Homo
sapiens}
Length = 56
Score = 42.7 bits (101), Expect = 1e-07
Identities = 14/40 (35%), Positives = 23/40 (57%)
Query: 35 TTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 74
T+F+ +Q+ ELER F Y R +A + +T+A+V
Sbjct: 2 TSFSRSQVLELERRFLRQKYLASAERAALAKALRMTDAQV 41
>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 = 42.8 bits (101), Expect = 2e-07
Identities = 18/45 (40%), Positives = 27/45 (60%)
Query: 30 QRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 74
RR RTTFTS+Q+ ELE+ F + Y +++ K+ L A+V
Sbjct: 2 PRRTRTTFTSSQIAELEQHFLQGRYLTAPRLADLSAKLALGTAQV 46
>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 = 43.0 bits (101), Expect = 2e-07
Identities = 18/46 (39%), Positives = 24/46 (52%)
Query: 29 KQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 74
+RT FT+ QL ELE+ F Y R EIA ++L E +V
Sbjct: 33 SPSGLRTNFTTRQLTELEKEFHFNKYLSRARRVEIAATLELNETQV 78
>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 = 40.8 bits (96), Expect = 7e-07
Identities = 17/44 (38%), Positives = 26/44 (59%)
Query: 31 RRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 74
RR RT FT QL LE+ F + +Y R E+A +++L E+ +
Sbjct: 2 RRYRTAFTRDQLGRLEKEFYKENYVSRPRRCELAAQLNLPESTI 45
>2h1k_A IPF-1, pancreatic and duodenal homeobox 1, homeodomain;
protein-DNA complex, transcription/DNA complex; 2.42A
{Mesocricetus auratus}
Length = 63
Score = 40.1 bits (94), Expect = 2e-06
Identities = 18/46 (39%), Positives = 26/46 (56%)
Query: 29 KQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 74
+R RT +T AQL ELE+ F Y R E+A+ ++LTE +
Sbjct: 2 SNKRTRTAYTRAQLLELEKEFLFNKYISRPRRVELAVMLNLTERHI 47
>2r5y_A Homeotic protein sex combs reduced; homeodomain; HET: DNA; 2.60A
{Drosophila melanogaster} PDB: 2r5z_A*
Length = 88
Score = 39.8 bits (93), Expect = 4e-06
Identities = 18/60 (30%), Positives = 27/60 (45%)
Query: 15 KVYSGHEGVLTEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 74
K + + +R RT++T Q ELE+ F Y R EIA + LTE ++
Sbjct: 13 KRVHLGTSTVNANGETKRQRTSYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQI 72
>3nar_A ZHX1, zinc fingers and homeoboxes protein 1; corepressor,
homeodomain, structural genomics, oxford production
facility, OPPF, transcription; 2.60A {Homo sapiens}
Length = 96
Score = 39.8 bits (92), Expect = 5e-06
Identities = 11/50 (22%), Positives = 18/50 (36%)
Query: 27 KRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQK 76
K T QL L+ AF T +P +++A + L +
Sbjct: 22 KSGSTGKICKKTPEQLHMLKSAFVRTQWPSPEEYDKLAKESGLARTDIVS 71
>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 = 38.6 bits (90), Expect = 1e-05
Identities = 18/47 (38%), Positives = 25/47 (53%)
Query: 28 RKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 74
+RR R T+T Q ELE+ F HY R E+A + LTE ++
Sbjct: 18 GLRRRGRQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALSLTERQI 64
>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 = 37.8 bits (88), Expect = 1e-05
Identities = 17/45 (37%), Positives = 24/45 (53%)
Query: 30 QRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 74
++R R T+T Q ELE+ F Y R EIA + LTE ++
Sbjct: 2 RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQI 46
>2l7z_A Homeobox protein HOX-A13; gene regulation; NMR {Homo sapiens}
PDB: 2ld5_A*
Length = 73
Score = 37.9 bits (88), Expect = 1e-05
Identities = 15/51 (29%), Positives = 26/51 (50%)
Query: 24 LTEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 74
++ + R+ R +T QLKELER + + R I+ +L+E +V
Sbjct: 1 MSHMLEGRKKRVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQV 51
>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 = 37.5 bits (87), Expect = 2e-05
Identities = 12/47 (25%), Positives = 23/47 (48%)
Query: 28 RKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 74
R+ R ++ QL+ELER + + R +I+ L+E ++
Sbjct: 5 SSGRKKRIPYSKGQLRELEREYAANKFITKDKRRKISAATSLSERQI 51
>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 = 36.8 bits (85), Expect = 5e-05
Identities = 17/47 (36%), Positives = 24/47 (51%)
Query: 28 RKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 74
R R+ R +T Q ELE+ F Y R E+A ++LTE +V
Sbjct: 11 RSTRKKRCPYTKHQTLELEKEFLFNMYLTRDRRYEVARLLNLTERQV 57
>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 = 35.6 bits (81), Expect = 2e-04
Identities = 8/37 (21%), Positives = 13/37 (35%)
Query: 28 RKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIA 64
R R + A + L +A+ P RE +
Sbjct: 4 GSSGRNRFKWGPASQQILYQAYDRQKNPSKEEREALV 40
>2ecc_A Homeobox and leucine zipper protein homez; homeobox domain,
transcription factor, leucine zipper- containing
factor, structural genomics, NPPSFA; NMR {Homo sapiens}
SCOP: a.4.1.1
Length = 76
Score = 33.1 bits (75), Expect = 0.001
Identities = 6/45 (13%), Positives = 14/45 (31%)
Query: 32 RIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQK 76
T QL L+ F + + +++ L + +
Sbjct: 5 SSGKRKTKEQLAILKSFFLQCQWARREDYQKLEQITGLPRPEIIQ 49
>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 = 32.1 bits (73), Expect = 0.003
Identities = 10/51 (19%), Positives = 19/51 (37%), Gaps = 6/51 (11%)
Query: 27 KRKQRRIRTTFTSAQLKELERAFQ-ETHYPDIYTREEIAMKIDLTEARVQK 76
K LE+ F T YPD + ++ ++D + ++Q
Sbjct: 10 KDSPVN-----KVEPNDTLEKVFVSVTKYPDEKRLKGLSKQLDWSVRKIQC 55
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 29.9 bits (66), Expect = 0.041
Identities = 10/48 (20%), Positives = 19/48 (39%), Gaps = 20/48 (41%)
Query: 29 KQRRIRTTFTSAQLKELERAFQETHY-PDIYTREEIAMKIDLTEARVQ 75
KQ LK+L+ + + Y D + +A+K A ++
Sbjct: 19 KQ----------ALKKLQASLKL--YADD--SAPALAIK-----ATME 47
>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 = 26.7 bits (59), Expect = 0.28
Identities = 9/51 (17%), Positives = 17/51 (33%), Gaps = 7/51 (13%)
Query: 27 KRKQRRIRTTFTSAQLKELERAF-QETHYPDIYTREEIAMKIDLTEARVQK 76
LE+ F T +PD E ++ ++D +Q+
Sbjct: 3 SGSSGTA------QPNAILEKVFTAITKHPDEKRLEGLSKQLDWDVRSIQR 47
>2w48_A Sorbitol operon regulator; SORC, activator, repressor,
DNA-binding, transcription, transcription regulator,
transcription regulation; 3.20A {Klebsiella pneumoniae}
Length = 315
Score = 26.7 bits (59), Expect = 0.70
Identities = 4/24 (16%), Positives = 12/24 (50%)
Query: 53 HYPDIYTREEIAMKIDLTEARVQK 76
+Y T+ +IA ++ + + +
Sbjct: 17 YYEQDMTQAQIARELGIYRTTISR 40
>2jul_A Calsenilin; EF-hand, calcium, LXXLL, DNA binding protein, dimer,
alternative splicing, apoptosis, cytoplasm, endoplasmic
reticulum, golgi apparatus; NMR {Mus musculus}
Length = 256
Score = 25.4 bits (55), Expect = 2.1
Identities = 9/38 (23%), Positives = 16/38 (42%)
Query: 25 TEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREE 62
E Q + +T FT +L+ L R F+ + +
Sbjct: 76 PEGLDQLQAQTKFTKKELQSLYRGFKNECPTGLVDEDT 113
>2e19_A Transcription factor 8; homeobox domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 64
Score = 24.2 bits (52), Expect = 2.6
Identities = 8/36 (22%), Positives = 14/36 (38%)
Query: 41 QLKELERAFQETHYPDIYTREEIAMKIDLTEARVQK 76
L L+ + P +IA ++L V+K
Sbjct: 14 LLSLLKAYYALNAQPSAEELSKIADSVNLPLDVVKK 49
>1s1e_A KV channel interacting protein 1; kchip, calcium-binding protein,
EF-finger, transport protein; 2.30A {Homo sapiens}
SCOP: a.39.1.5
Length = 224
Score = 24.9 bits (54), Expect = 3.1
Identities = 10/38 (26%), Positives = 16/38 (42%)
Query: 25 TEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREE 62
E +Q +T FT +L+ L R F+ + E
Sbjct: 36 PEGLEQLEAQTNFTKRELQVLYRGFKNECPSGVVNEET 73
>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller,
endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP:
i.23.1.1 PDB: 1xi5_A 3iyv_A
Length = 1630
Score = 24.6 bits (53), Expect = 3.7
Identities = 10/41 (24%), Positives = 20/41 (48%)
Query: 33 IRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEAR 73
I+ + Q+KE+ER +E++ D + + LT+
Sbjct: 732 IQAACKTGQIKEVERICRESNCYDPERVKNFLKEAKLTDQL 772
>3m6j_A Uncharacterized protein; MCSG, PSI-2, structural genomics, protein
structure initiati midwest center for structural
genomics; 1.90A {Leptospirillum rubarum}
Length = 145
Score = 24.1 bits (51), Expect = 5.2
Identities = 12/66 (18%), Positives = 23/66 (34%), Gaps = 3/66 (4%)
Query: 14 YKVYSGHEGVLTEKRKQRRIRTTFTSAQLKELERAFQET---HYPDIYTREEIAMKIDLT 70
+Y +I T +LK L R +T +YP E + + +D
Sbjct: 66 RNLYFPVLDAQPAHAGSGKIETISECDRLKNLVRNVTDTLVENYPQGLESEALLIALDGV 125
Query: 71 EARVQK 76
+ + +
Sbjct: 126 KLELAR 131
>2zfd_A Calcineurin B-like protein 2; calcium binding protein,
protein-protein complex, ATP-bindin kinase,
nucleotide-binding; 1.20A {Arabidopsis thaliana} SCOP:
a.39.1.5 PDB: 1uhn_A
Length = 226
Score = 24.0 bits (52), Expect = 5.3
Identities = 10/50 (20%), Positives = 21/50 (42%), Gaps = 4/50 (8%)
Query: 2 VFLVVLSCGGLPYKVYSGHEGVLTEKRKQRRIRTTFTSAQLKELERAFQE 51
+ VL C L +Y G+ + T F+ ++++ L F++
Sbjct: 11 LCTSVLGCFDL--DLYKQSGGL--GDPELLARDTVFSVSEIEALYELFKK 56
>3n5b_B ASR0485 protein; PII, PIPX, transcription regulator, signal
transducer; HET: ADP; 1.90A {Nostoc}
Length = 112
Score = 23.5 bits (50), Expect = 6.6
Identities = 11/52 (21%), Positives = 22/52 (42%)
Query: 1 MVFLVVLSCGGLPYKVYSGHEGVLTEKRKQRRIRTTFTSAQLKELERAFQET 52
+ FLV + ++ E + + + R +R S + +L+ FQ T
Sbjct: 59 LFFLVGNDIKAIKFQPIGRTEARMLLENRLRNLRRNGQSQEYDQLQSVFQRT 110
>3pe8_A Enoyl-COA hydratase; emerald biostructures, structural genomics,
seattle structur genomics center for infectious disease,
ssgcid, lyase; 1.60A {Mycobacterium smegmatis} PDB:
3p85_A* 3qyr_A
Length = 256
Score = 23.7 bits (52), Expect = 6.7
Identities = 3/31 (9%), Positives = 9/31 (29%)
Query: 21 EGVLTEKRKQRRIRTTFTSAQLKELERAFQE 51
+ E R+ + + + + E
Sbjct: 219 GALWAEAEAARQWMRSTSGDDIAASRASVIE 249
>2jlq_A Serine protease subunit NS3; ribonucleoprotein, nucleotide-binding,
viral nucleoprotein, endoplasmic reticulum, helicase,
hydrolase; 1.67A {Dengue virus 4} PDB: 2jly_A* 2jls_A*
2jlu_A 2jlv_A* 2jlw_A 2jlx_A* 2jlz_A* 2jlr_A* 2bmf_A
2bhr_A
Length = 451
Score = 24.0 bits (52), Expect = 7.0
Identities = 7/46 (15%), Positives = 16/46 (34%)
Query: 22 GVLTEKRKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKI 67
G ++ + + F +A F +++ P EI +
Sbjct: 131 GYISTRVEMGEAAAIFMTATPPGSTDPFPQSNSPIEDIEREIPERS 176
>2xko_C PIPX, global nitrogen regulator; transcription, nitrogen
assimilation, CRP/FNR superfamily, 2-oxoglutarate,
global nitrogen controller; HET: AKG; 2.25A
{Synechococcus elongatus} PDB: 2xg8_D*
Length = 89
Score = 23.3 bits (50), Expect = 8.3
Identities = 10/52 (19%), Positives = 25/52 (48%)
Query: 1 MVFLVVLSCGGLPYKVYSGHEGVLTEKRKQRRIRTTFTSAQLKELERAFQET 52
+ FLV G ++ +E + + R++R + + +L++ F++T
Sbjct: 36 LFFLVAFDARGTRFEPIGRNEARMLVDNRLRQLRRDASLQEYNQLQQVFKQT 87
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
0.321 0.135 0.379
Gapped
Lambda K H
0.267 0.0770 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,170,599
Number of extensions: 55092
Number of successful extensions: 252
Number of sequences better than 10.0: 1
Number of HSP's gapped: 246
Number of HSP's successfully gapped: 81
Length of query: 76
Length of database: 6,701,793
Length adjustment: 45
Effective length of query: 31
Effective length of database: 5,445,348
Effective search space: 168805788
Effective search space used: 168805788
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (23.3 bits)