RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9529
(149 letters)
>2cue_A Paired box protein PAX6; homeobox domain, transcription factor,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
a.4.1.1
Length = 80
Score = 116 bits (293), Expect = 2e-35
Identities = 35/75 (46%), Positives = 51/75 (68%)
Query: 11 SKRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWFQNRRAKWRK 70
S +R+RT+F Q+E LE+ F +HYPDVF RE LA ++DL E+R+ VWF NRRAKWR+
Sbjct: 5 SSGQRNRTSFTQEQIEALEKEFERTHYPDVFARERLAAKIDLPEARIQVWFSNRRAKWRR 64
Query: 71 KEHTKKGPGRPAHNA 85
+E + + ++
Sbjct: 65 EEKLRNQRRQSGPSS 79
>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 = 114 bits (286), Expect = 2e-34
Identities = 35/75 (46%), Positives = 51/75 (68%)
Query: 11 SKRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWFQNRRAKWRK 70
S RR RT F QL+ LE F + YPD+FMRE +AL+++L ESRV VWF+NRRAK R+
Sbjct: 5 SSGRRERTTFTRAQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQVWFKNRRAKCRQ 64
Query: 71 KEHTKKGPGRPAHNA 85
++ ++ G+ ++
Sbjct: 65 QQQQQQNGGQSGPSS 79
>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 = 111 bits (279), Expect = 3e-33
Identities = 37/73 (50%), Positives = 51/73 (69%)
Query: 2 DGNLSDDLASKRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWF 61
+ L K+RRSRT F++ QL+ELERAF + YPD++ RE LA R +L E+R+ VWF
Sbjct: 7 ESEPGIALKRKQRRSRTTFSASQLDELERAFERTQYPDIYTREELAQRTNLTEARIQVWF 66
Query: 62 QNRRAKWRKKEHT 74
QNRRA+ RK+ +
Sbjct: 67 QNRRARLRKQHTS 79
>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 = 108 bits (273), Expect = 1e-32
Identities = 37/57 (64%), Positives = 46/57 (80%)
Query: 16 SRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWFQNRRAKWRKKE 72
S F S+QLEELE+AF +HYPDVF RE LA+++ L E+R+ VWFQNRRAKWRK+E
Sbjct: 2 SHMTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQVWFQNRRAKWRKQE 58
>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 = 108 bits (273), Expect = 2e-32
Identities = 33/61 (54%), Positives = 45/61 (73%)
Query: 12 KRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWFQNRRAKWRKK 71
+RR RT+F S QL++LE F + YPD+ RE +A+ +L E+RV VWF+NRRAKWRK+
Sbjct: 2 SQRRQRTHFTSQQLQQLEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRKR 61
Query: 72 E 72
E
Sbjct: 62 E 62
>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 = 107 bits (270), Expect = 7e-32
Identities = 24/75 (32%), Positives = 39/75 (52%)
Query: 11 SKRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWFQNRRAKWRK 70
S +R RT+F QL ++ F +H PD + LA + L + + VWFQN RAK+R+
Sbjct: 5 SSGKRMRTSFKHHQLRTMKSYFAINHNPDAKDLKQLAQKTGLTKRVLQVWFQNARAKFRR 64
Query: 71 KEHTKKGPGRPAHNA 85
++ G ++
Sbjct: 65 NLLRQENGGVSGPSS 79
>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 = 106 bits (267), Expect = 1e-31
Identities = 33/65 (50%), Positives = 41/65 (63%)
Query: 10 ASKRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWFQNRRAKWR 69
S RR RT F QLE LE F + YPDV RE LA ++ L+E +V VWF+NRRAKWR
Sbjct: 4 GSSGRRHRTIFTDEQLEALENLFQETKYPDVGTREQLARKVHLREEKVEVWFKNRRAKWR 63
Query: 70 KKEHT 74
+ +
Sbjct: 64 RSGPS 68
>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 = 103 bits (259), Expect = 2e-30
Identities = 26/63 (41%), Positives = 38/63 (60%)
Query: 14 RRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWFQNRRAKWRKKEH 73
RR RT F Q+E LE F + YP + + E LA +L+L+ R+ +WFQNRRAK ++
Sbjct: 2 RRPRTAFTQNQIEVLENVFRVNCYPGIDILEDLAQKLNLELDRIQIWFQNRRAKLKRSHR 61
Query: 74 TKK 76
+
Sbjct: 62 ESQ 64
>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 = 99.4 bits (248), Expect = 1e-28
Identities = 26/63 (41%), Positives = 32/63 (50%)
Query: 10 ASKRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWFQNRRAKWR 69
S R SRT F +QL L+ F A+ YP E L+ L+L + VWFQN R K R
Sbjct: 4 GSSGRSSRTRFTDYQLRVLQDFFDANAYPKDDEFEQLSNLLNLPTRVIVVWFQNARQKAR 63
Query: 70 KKE 72
K
Sbjct: 64 KSG 66
>1bw5_A ISL-1HD, insulin gene enhancer protein ISL-1; DNA-binding
protein, homeodomain, LIM domain; NMR {Rattus
norvegicus} SCOP: a.4.1.1
Length = 66
Score = 96.7 bits (241), Expect = 1e-27
Identities = 24/65 (36%), Positives = 31/65 (47%)
Query: 12 KRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWFQNRRAKWRKK 71
K R RT N QL L + A+ PD M+E L L + VWFQN+R K +K+
Sbjct: 2 KTTRVRTVLNEKQLHTLRTCYAANPRPDALMKEQLVEMTGLSPRVIRVWFQNKRCKDKKR 61
Query: 72 EHTKK 76
K
Sbjct: 62 SIMMK 66
>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 = 91.0 bits (226), Expect = 3e-25
Identities = 24/71 (33%), Positives = 34/71 (47%)
Query: 2 DGNLSDDLASKRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWF 61
G + + +R RT QLE L + +L P M + +A + LK+ V VWF
Sbjct: 6 SGGTGGEEPQRDKRLRTTITPEQLEILYQKYLLDSNPTRKMLDHIAHEVGLKKRVVQVWF 65
Query: 62 QNRRAKWRKKE 72
QN RA+ RK
Sbjct: 66 QNTRARERKSG 76
>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 = 90.5 bits (225), Expect = 4e-25
Identities = 17/60 (28%), Positives = 25/60 (41%), Gaps = 1/60 (1%)
Query: 14 RRSRTNFNSWQLEELERAFLASH-YPDVFMREALALRLDLKESRVAVWFQNRRAKWRKKE 72
Q+E LE F + +PD +A L E + WF+ R A+WR+ E
Sbjct: 2 SEGAATMTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQKWFKQRLAEWRRSE 61
>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 = 84.3 bits (209), Expect = 1e-22
Identities = 16/62 (25%), Positives = 27/62 (43%)
Query: 11 SKRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWFQNRRAKWRK 70
S +R RT QL L + F ++ P + +A + L + + WF+N K R+
Sbjct: 5 SSGKRPRTRITDDQLRVLRQYFDINNSPSEEQIKEMADKSGLPQKVIKHWFRNTLFKERQ 64
Query: 71 KE 72
Sbjct: 65 SG 66
>2hi3_A Homeodomain-only protein; transcription; NMR {Mus musculus} SCOP:
a.4.1.1
Length = 73
Score = 84.4 bits (209), Expect = 1e-22
Identities = 17/67 (25%), Positives = 28/67 (41%), Gaps = 1/67 (1%)
Query: 14 RRSRTNFNSWQLEELERAFLASH-YPDVFMREALALRLDLKESRVAVWFQNRRAKWRKKE 72
++ + Q+E LE F + +PD +A L E + WF+ R A+WR+ E
Sbjct: 3 AQTVSGPTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQKWFKQRLAEWRRSE 62
Query: 73 HTKKGPG 79
Sbjct: 63 GLPSECR 69
>2dn0_A Zinc fingers and homeoboxes protein 3; triple homeobox 1 protein,
KIAA0395, TIX1, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 76
Score = 80.2 bits (198), Expect = 5e-21
Identities = 17/70 (24%), Positives = 28/70 (40%)
Query: 10 ASKRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWFQNRRAKWR 69
+S + + QL L+ +F + +P E L L V WF +RR R
Sbjct: 5 SSGASIYKNKKSHEQLSALKGSFCRNQFPGQSEVEHLTKVTGLSTREVRKWFSDRRYHCR 64
Query: 70 KKEHTKKGPG 79
+ ++ GP
Sbjct: 65 NLKGSRSGPS 74
>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-19
Identities = 19/77 (24%), Positives = 30/77 (38%), Gaps = 15/77 (19%)
Query: 11 SKRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLD---------------LKES 55
S R SR + L +E F + YPD RE +A + +
Sbjct: 5 SSGRGSRFTWRKECLAVMESYFNENQYPDEAKREEIANACNAVIQKPGKKLSDLERVTSL 64
Query: 56 RVAVWFQNRRAKWRKKE 72
+V WF NRR + +++
Sbjct: 65 KVYNWFANRRKEIKRRA 81
>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 = 77.0 bits (189), Expect = 5e-19
Identities = 19/69 (27%), Positives = 27/69 (39%)
Query: 2 DGNLSDDLASKRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWF 61
SK+R+ RT+F +E L F + P +A L+ V VWF
Sbjct: 82 LMEFVGGEPSKKRKRRTSFTPQAIEALNAYFEKNPLPTGQEITEMAKELNYDREVVRVWF 141
Query: 62 QNRRAKWRK 70
NRR +
Sbjct: 142 SNRRQTLKN 150
>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 = 74.6 bits (183), Expect = 4e-18
Identities = 18/60 (30%), Positives = 30/60 (50%)
Query: 11 SKRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWFQNRRAKWRK 70
++R+ RT + + LER F P +A L+L++ V VWF NRR + ++
Sbjct: 85 ERKRKRRTTISIAAKDALERHFGEHSKPSSQEIMRMAEELNLEKEVVRVWFCNRRQREKR 144
>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 = 74.8 bits (183), Expect = 5e-18
Identities = 23/71 (32%), Positives = 36/71 (50%)
Query: 1 GDGNLSDDLASKRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVW 60
+ + S+ L R+R RT+ + LE FL S P + +A +L L++ V VW
Sbjct: 84 QEISKSETLVQARKRKRTSIENRVRWSLETMFLKSPKPSLQQITHIANQLGLEKDVVRVW 143
Query: 61 FQNRRAKWRKK 71
F NRR K ++
Sbjct: 144 FSNRRQKGKRS 154
>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 = 72.7 bits (178), Expect = 3e-17
Identities = 18/70 (25%), Positives = 37/70 (52%)
Query: 1 GDGNLSDDLASKRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVW 60
+ + S+RR+ RT+ + LE++F+ + P +A +L++++ + VW
Sbjct: 89 ALNSPGIEGLSRRRKKRTSIETNIRVALEKSFMENQKPTSEDITLIAEQLNMEKEVIRVW 148
Query: 61 FQNRRAKWRK 70
F NRR K ++
Sbjct: 149 FSNRRQKEKR 158
>2xsd_C POU domain, class 3, transcription factor 1; transcription-DNA
complex, SOX; 2.05A {Mus musculus}
Length = 164
Score = 72.4 bits (177), Expect = 5e-17
Identities = 20/71 (28%), Positives = 28/71 (39%)
Query: 2 DGNLSDDLASKRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWF 61
++R+ RT+ LE FL P LA L L++ V VWF
Sbjct: 88 TNLDKIAAQGRKRKKRTSIEVGVKGALESHFLKCPKPSAHEITGLADSLQLEKEVVRVWF 147
Query: 62 QNRRAKWRKKE 72
NRR K ++
Sbjct: 148 CNRRQKEKRMT 158
>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 = 67.1 bits (164), Expect = 6e-16
Identities = 29/76 (38%), Positives = 40/76 (52%)
Query: 6 SDDLASKRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWFQNRR 65
SD L +K+R+ R F Q ELER F Y RE LA + L ++V +WFQN R
Sbjct: 2 SDGLPNKKRKRRVLFTKAQTYELERRFRQQRYLSAPEREHLASLIRLTPTQVKIWFQNHR 61
Query: 66 AKWRKKEHTKKGPGRP 81
K ++ ++ K G P
Sbjct: 62 YKTKRAQNEKGYEGHP 77
>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 = 66.0 bits (161), Expect = 2e-15
Identities = 31/77 (40%), Positives = 35/77 (45%), Gaps = 1/77 (1%)
Query: 1 GDGNLSDDLASKRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVW 60
G A K RRSRT F QL LE+ F Y R LA L L + +V W
Sbjct: 5 SSGGEPGTKAKKGRRSRTVFTELQLMGLEKRFEKQKYLSTPDRIDLAESLGLSQLQVKTW 64
Query: 61 FQNRRAKWRKKEHTKKG 77
+QNRR KW KK G
Sbjct: 65 YQNRRMKW-KKSGPSSG 80
>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 = 64.4 bits (157), Expect = 5e-15
Identities = 13/60 (21%), Positives = 23/60 (38%)
Query: 11 SKRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWFQNRRAKWRK 70
+ Q+ L+ +FL S +PD L L S + WF + R + ++
Sbjct: 2 AHHHHHHRKKTKEQIAHLKASFLQSQFPDDAEVYRLIEVTGLARSEIKKWFSDHRYRCQR 61
>1wi3_A DNA-binding protein SATB2; homeodomain, helix-turn-helix, riken
structural genomics/proteomics initiative, RSGI,
structural genomics; NMR {Homo sapiens} SCOP: a.4.1.1
Length = 71
Score = 64.5 bits (157), Expect = 5e-15
Identities = 18/62 (29%), Positives = 27/62 (43%), Gaps = 1/62 (1%)
Query: 10 ASKRRRSRTNFNSWQLEELERAFL-ASHYPDVFMREALALRLDLKESRVAVWFQNRRAKW 68
S RSRT + L L+ YPD L+ +LDL + + +FQN+R
Sbjct: 4 GSSGPRSRTKISLEALGILQSFIHDVGLYPDQEAIHTLSAQLDLPKHTIIKFFQNQRYHV 63
Query: 69 RK 70
+
Sbjct: 64 KH 65
>2djn_A Homeobox protein DLX-5; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 70
Score = 64.0 bits (156), Expect = 8e-15
Identities = 26/67 (38%), Positives = 39/67 (58%), Gaps = 1/67 (1%)
Query: 11 SKRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWFQNRRAKWRK 70
S R+ RT ++S+QL L+R F + Y + R LA L L +++V +WFQN+R+K K
Sbjct: 5 SSGRKPRTIYSSFQLAALQRRFQKTQYLALPERAELAASLGLTQTQVKIWFQNKRSKI-K 63
Query: 71 KEHTKKG 77
K G
Sbjct: 64 KSGPSSG 70
>2l9r_A Homeobox protein NKX-3.1; structural genomics, northeast
structural genomics consortiu PSI-biology, protein
structure initiative; NMR {Homo sapiens}
Length = 69
Score = 63.1 bits (154), Expect = 2e-14
Identities = 22/66 (33%), Positives = 34/66 (51%)
Query: 11 SKRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWFQNRRAKWRK 70
++ + Q+ ELER F Y R LA L L E++V +WFQNRR K ++
Sbjct: 2 GHHHHHHSHMSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRRYKTKR 61
Query: 71 KEHTKK 76
K+ + +
Sbjct: 62 KQLSSE 67
>3a01_A Homeodomain-containing protein; homeodomain, protein-DNA complex,
DNA-binding, homeobox, NUC developmental protein; 2.70A
{Drosophila melanogaster}
Length = 93
Score = 63.3 bits (154), Expect = 3e-14
Identities = 29/74 (39%), Positives = 42/74 (56%)
Query: 11 SKRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWFQNRRAKWRK 70
KR++ RT+F Q+ ELE+ F Y R ALA L + +++V WFQNRR KWR+
Sbjct: 15 PKRKKPRTSFTRIQVAELEKRFHKQKYLASAERAALARGLKMTDAQVKTWFQNRRTKWRR 74
Query: 71 KEHTKKGPGRPAHN 84
+ ++ R A N
Sbjct: 75 QTAEEREAERQAAN 88
>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 = 62.2 bits (152), Expect = 3e-14
Identities = 12/59 (20%), Positives = 26/59 (44%)
Query: 11 SKRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWFQNRRAKWR 69
K + +++ + LE F + +E +A + + +V VWF N+R + +
Sbjct: 3 EKSPKGKSSISPQARAFLEEVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMRSK 61
>1ig7_A Homeotic protein MSX-1; helix-turn-helix, transcription/DNA
complex; 2.20A {Mus musculus} SCOP: a.4.1.1
Length = 58
Score = 61.9 bits (151), Expect = 4e-14
Identities = 24/57 (42%), Positives = 33/57 (57%)
Query: 14 RRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWFQNRRAKWRK 70
R+ RT F + QL LER F Y + R + L L E++V +WFQNRRAK ++
Sbjct: 1 RKPRTPFTTAQLLALERKFRQKQYLSIAERAEFSSSLSLTETQVKIWFQNRRAKAKR 57
>3rkq_A Homeobox protein NKX-2.5; helix-turn-helix, DNA binding, nucleus,
transcription-DNA CO; 1.70A {Homo sapiens}
Length = 58
Score = 61.9 bits (151), Expect = 4e-14
Identities = 24/57 (42%), Positives = 32/57 (56%)
Query: 13 RRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWFQNRRAKWR 69
RR+ R F+ Q+ ELER F Y R+ LA L L ++V +WFQNRR K +
Sbjct: 2 RRKPRVLFSQAQVYELERRFKQQRYLSAPERDQLASVLKLTSTQVKIWFQNRRYKSK 58
>2vi6_A Homeobox protein nanog; homeodomain, DNA-binding, transcription,
transcription facto developmental protein,
transcription regulation, NUC homeobox; 2.6A {Mus
musculus}
Length = 62
Score = 61.9 bits (151), Expect = 4e-14
Identities = 18/61 (29%), Positives = 32/61 (52%)
Query: 12 KRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWFQNRRAKWRKK 71
+++ RT F+ QL L+ F Y + + L+ L+L +V WFQN+R K ++
Sbjct: 2 TKQKMRTVFSQAQLCALKDRFQKQKYLSLQQMQELSSILNLSYKQVKTWFQNQRMKCKRW 61
Query: 72 E 72
+
Sbjct: 62 Q 62
>2e1o_A Homeobox protein PRH; DNA binding protein, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens} SCOP: a.4.1.1
Length = 70
Score = 62.1 bits (151), Expect = 5e-14
Identities = 25/68 (36%), Positives = 34/68 (50%), Gaps = 1/68 (1%)
Query: 10 ASKRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWFQNRRAKWR 69
S + + F++ Q ELE+ F Y R+ LA L L E +V WFQNRRAKW
Sbjct: 4 GSSGKGGQVRFSNDQTIELEKKFETQKYLSPPERKRLAKMLQLSERQVKTWFQNRRAKW- 62
Query: 70 KKEHTKKG 77
++ G
Sbjct: 63 RRSGPSSG 70
>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 = 62.2 bits (151), Expect = 7e-14
Identities = 28/75 (37%), Positives = 39/75 (52%), Gaps = 1/75 (1%)
Query: 3 GNLSDDLASKRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWFQ 62
+S+ RTNF + QL ELE+ F + Y R +A L+L E++V +WFQ
Sbjct: 24 AKVSEPGLGSPSGLRTNFTTRQLTELEKEFHFNKYLSRARRVEIAATLELNETQVKIWFQ 83
Query: 63 NRRAKWRKKEHTKKG 77
NRR K KK + G
Sbjct: 84 NRRMKQ-KKREREGG 97
>1ftt_A TTF-1 HD, thyroid transcription factor 1 homeodomain; DNA binding
protein; NMR {Rattus norvegicus} SCOP: a.4.1.1
Length = 68
Score = 59.7 bits (145), Expect = 3e-13
Identities = 24/65 (36%), Positives = 34/65 (52%)
Query: 13 RRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWFQNRRAKWRKKE 72
RR+ R F+ Q+ ELER F Y RE LA + L ++V +WFQN R K +++
Sbjct: 2 RRKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQVKIWFQNHRYKMKRQA 61
Query: 73 HTKKG 77
K
Sbjct: 62 KDKAA 66
>2kt0_A Nanog, homeobox protein nanog; homeodomain, structural genomics,
protein structure initiative, PSI, center for
eukaryotic structural genomics; NMR {Homo sapiens}
Length = 84
Score = 60.2 bits (146), Expect = 4e-13
Identities = 21/71 (29%), Positives = 35/71 (49%)
Query: 1 GDGNLSDDLASKRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVW 60
D + K++++RT F+S QL L F Y + + L+ L+L +V W
Sbjct: 10 SVAKKEDKVPVKKQKTRTVFSSTQLCVLNDRFQRQKYLSLQQMQELSNILNLSYKQVKTW 69
Query: 61 FQNRRAKWRKK 71
FQN+R K ++
Sbjct: 70 FQNQRMKSKRW 80
>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 = 59.6 bits (144), Expect = 7e-13
Identities = 18/79 (22%), Positives = 29/79 (36%), Gaps = 3/79 (3%)
Query: 1 GDGNLSDDLASKRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVW 60
G D A ++ + +T Q++ LE +FL S +P + L + L + W
Sbjct: 4 GSSGAYPDFAPQKFKEKT---QGQVKILEDSFLKSSFPTQAELDRLRVETKLSRREIDSW 60
Query: 61 FQNRRAKWRKKEHTKKGPG 79
F RR E
Sbjct: 61 FSERRKLRDSMEQAVLDSM 79
>3a03_A T-cell leukemia homeobox protein 2; homeodomain, developmental
protein, DNA-binding, N gene regulation; 1.54A {Homo
sapiens}
Length = 56
Score = 58.5 bits (142), Expect = 8e-13
Identities = 25/54 (46%), Positives = 34/54 (62%)
Query: 18 TNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWFQNRRAKWRKK 71
T+F+ Q+ ELER FL Y R ALA L + +++V WFQNRR KWR++
Sbjct: 2 TSFSRSQVLELERRFLRQKYLASAERAALAKALRMTDAQVKTWFQNRRTKWRRQ 55
>2d5v_A Hepatocyte nuclear factor 6; transcription factor,
transcription-DNA complex; 2.00A {Rattus norvegicus}
PDB: 1s7e_A
Length = 164
Score = 61.0 bits (147), Expect = 1e-12
Identities = 14/66 (21%), Positives = 27/66 (40%)
Query: 11 SKRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWFQNRRAKWRK 70
+ ++ R F Q L F + P ++ ++ +L L+ S V+ +F N R +
Sbjct: 95 NTPKKPRLVFTDVQRRTLHAIFKENKRPSKELQITISQQLGLELSTVSNFFMNARRRSLD 154
Query: 71 KEHTKK 76
K
Sbjct: 155 KWLEHH 160
>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 = 58.1 bits (141), Expect = 1e-12
Identities = 23/57 (40%), Positives = 36/57 (63%)
Query: 14 RRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWFQNRRAKWRK 70
+R RT F+S QL L+R F + Y R+ L+ L L E+++ +WF+N+RAK +K
Sbjct: 4 KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFKNKRAKIKK 60
>1zq3_P PRD-4, homeotic bicoid protein; protein-DNA complex, double
helix, helix-turn-helix; NMR {Drosophila melanogaster}
SCOP: a.4.1.1
Length = 68
Score = 58.2 bits (141), Expect = 2e-12
Identities = 23/64 (35%), Positives = 35/64 (54%)
Query: 13 RRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWFQNRRAKWRKKE 72
RR+RT F S Q+ ELE+ FL Y L+ +L L ++V +WF+NRR + + +
Sbjct: 2 PRRTRTTFTSSQIAELEQHFLQGRYLTAPRLADLSAKLALGTAQVKIWFKNRRRRHKIQS 61
Query: 73 HTKK 76
K
Sbjct: 62 DQHK 65
>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 = 57.0 bits (138), Expect = 3e-12
Identities = 27/67 (40%), Positives = 38/67 (56%)
Query: 13 RRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWFQNRRAKWRKKE 72
R+R R + +Q ELE+ F + Y R +A L L E ++ +WFQNRR KW+K+
Sbjct: 2 RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWKKEN 61
Query: 73 HTKKGPG 79
TK PG
Sbjct: 62 KTKGEPG 68
>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 = 57.3 bits (138), Expect = 5e-12
Identities = 15/77 (19%), Positives = 28/77 (36%), Gaps = 3/77 (3%)
Query: 2 DGNLSDDLASKRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWF 61
G+ D ++ + +T + QL L+ +FL S L + L + WF
Sbjct: 3 SGSSGPDFTPQKFKEKT---AEQLRVLQASFLNSSVLTDEELNRLRAQTKLTRREIDAWF 59
Query: 62 QNRRAKWRKKEHTKKGP 78
++ KE +
Sbjct: 60 TEKKKSKALKEEKMEID 76
>1lfb_A Liver transcription factor (LFB1); transcription regulation;
2.80A {Rattus norvegicus} SCOP: a.4.1.1 PDB: 2lfb_A
Length = 99
Score = 57.5 bits (138), Expect = 7e-12
Identities = 19/86 (22%), Positives = 28/86 (32%), Gaps = 21/86 (24%)
Query: 8 DLASKRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLD---------------- 51
D K RR+R + + L +A+ P RE L +
Sbjct: 4 DPTKKGRRNRFKWGPASQQILFQAYERQKNPSKEERETLVEECNRAECIQRGVSPSQAQG 63
Query: 52 -----LKESRVAVWFQNRRAKWRKKE 72
+ E RV WF NRR + +
Sbjct: 64 LGSNLVTEVRVYNWFANRRKEEAFRH 89
>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 = 56.1 bits (135), Expect = 1e-11
Identities = 18/74 (24%), Positives = 26/74 (35%), Gaps = 3/74 (4%)
Query: 6 SDDLASKRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWFQNRR 65
S + + R QL LE +F + P + L + + WF RR
Sbjct: 3 SGSSGPTKYKERAPE---QLRALESSFAQNPLPLDEELDRLRSETKMTRREIDSWFSERR 59
Query: 66 AKWRKKEHTKKGPG 79
K +E K GP
Sbjct: 60 KKVNAEETKKSGPS 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 = 55.4 bits (134), Expect = 1e-11
Identities = 26/57 (45%), Positives = 33/57 (57%)
Query: 14 RRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWFQNRRAKWRK 70
RR RT F QL LE+ F +Y R LA +L+L ES + VWFQNRR K ++
Sbjct: 2 RRYRTAFTRDQLGRLEKEFYKENYVSRPRRCELAAQLNLPESTIKVWFQNRRMKDKR 58
>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 = 57.6 bits (138), Expect = 3e-11
Identities = 18/91 (19%), Positives = 29/91 (31%), Gaps = 21/91 (23%)
Query: 2 DGNLSDDLASKRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLD---------- 51
+ + K RR+R + + L +A+ P RE L +
Sbjct: 104 EPTGDELPTKKGRRNRFKWGPASQQILFQAYERQKNPSKEERETLVEECNRAECIQRGVS 163
Query: 52 -----------LKESRVAVWFQNRRAKWRKK 71
+ E RV WF NRR + +
Sbjct: 164 PSQAQGLGSNLVTEVRVYNWFANRRKEEAFR 194
>2h8r_A Hepatocyte nuclear factor 1-beta; trasncription factor, POU, homeo,
protein-DNA, human disease; 3.20A {Homo sapiens}
Length = 221
Score = 57.7 bits (138), Expect = 4e-11
Identities = 21/91 (23%), Positives = 31/91 (34%), Gaps = 21/91 (23%)
Query: 2 DGNLSDDLASKRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLD---------- 51
D S+ K RR+R + + L +A+ P REAL +
Sbjct: 131 DDACSEPTNKKMRRNRFKWGPASQQILYQAYDRQKNPSKEEREALVEECNRAECLQRGVS 190
Query: 52 -----------LKESRVAVWFQNRRAKWRKK 71
+ E RV WF NRR + +
Sbjct: 191 PSKAHGLGSNLVTEVRVYNWFANRRKEEAFR 221
>2h1k_A IPF-1, pancreatic and duodenal homeobox 1, homeodomain;
protein-DNA complex, transcription/DNA complex; 2.42A
{Mesocricetus auratus}
Length = 63
Score = 53.5 bits (129), Expect = 7e-11
Identities = 27/61 (44%), Positives = 38/61 (62%)
Query: 12 KRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWFQNRRAKWRKK 71
+R+RT + QL ELE+ FL + Y R LA+ L+L E + +WFQNRR KW+K+
Sbjct: 2 SNKRTRTAYTRAQLLELEKEFLFNKYISRPRRVELAVMLNLTERHIKIWFQNRRMKWKKE 61
Query: 72 E 72
E
Sbjct: 62 E 62
>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 = 53.7 bits (129), Expect = 9e-11
Identities = 23/68 (33%), Positives = 34/68 (50%), Gaps = 1/68 (1%)
Query: 10 ASKRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWFQNRRAKWR 69
S R+ R ++ QL ELER + A+ + R ++ L E ++ +WFQNRR K
Sbjct: 4 GSSGRKKRIPYSKGQLRELEREYAANKFITKDKRRKISAATSLSERQITIWFQNRRVKE- 62
Query: 70 KKEHTKKG 77
KK G
Sbjct: 63 KKSGPSSG 70
>2r5y_A Homeotic protein sex combs reduced; homeodomain; HET: DNA; 2.60A
{Drosophila melanogaster} PDB: 2r5z_A*
Length = 88
Score = 53.7 bits (129), Expect = 1e-10
Identities = 23/63 (36%), Positives = 36/63 (57%)
Query: 10 ASKRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWFQNRRAKWR 69
+ +R RT++ +Q ELE+ F + Y R +A L L E ++ +WFQNRR KW+
Sbjct: 25 NGETKRQRTSYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWK 84
Query: 70 KKE 72
K+
Sbjct: 85 KEH 87
>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 = 53.3 bits (128), Expect = 2e-10
Identities = 24/61 (39%), Positives = 33/61 (54%)
Query: 10 ASKRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWFQNRRAKWR 69
RRR R + +Q ELE+ F +HY R +A L L E ++ +WFQNRR K +
Sbjct: 17 NGLRRRGRQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALSLTERQIKIWFQNRRMKLK 76
Query: 70 K 70
K
Sbjct: 77 K 77
>2l7z_A Homeobox protein HOX-A13; gene regulation; NMR {Homo sapiens}
PDB: 2ld5_A*
Length = 73
Score = 51.8 bits (124), Expect = 5e-10
Identities = 21/69 (30%), Positives = 35/69 (50%)
Query: 10 ASKRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWFQNRRAKWR 69
+ R+ R + QL+ELER + + + R ++ +L E +V +WFQNRR K +
Sbjct: 4 MLEGRKKRVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQVTIWFQNRRVKEK 63
Query: 70 KKEHTKKGP 78
K + K
Sbjct: 64 KVINKLKTT 72
>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 = 51.8 bits (124), Expect = 5e-10
Identities = 25/68 (36%), Positives = 35/68 (51%), Gaps = 1/68 (1%)
Query: 10 ASKRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWFQNRRAKWR 69
A R+ R + Q ELE+ FL + Y R +A L+L E +V +WFQNRR K
Sbjct: 10 ARSTRKKRCPYTKHQTLELEKEFLFNMYLTRDRRYEVARLLNLTERQVKIWFQNRRMKM- 68
Query: 70 KKEHTKKG 77
KK + +
Sbjct: 69 KKINKDRA 76
>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 = 44.8 bits (105), Expect = 3e-07
Identities = 14/60 (23%), Positives = 23/60 (38%)
Query: 11 SKRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWFQNRRAKWRK 70
S QL L+ AF+ + +P + LA L + + WF + R W+
Sbjct: 23 SGSTGKICKKTPEQLHMLKSAFVRTQWPSPEEYDKLAKESGLARTDIVSWFGDTRYAWKN 82
>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 = 42.1 bits (99), Expect = 2e-06
Identities = 13/48 (27%), Positives = 27/48 (56%), Gaps = 1/48 (2%)
Query: 24 QLEELERAFLA-SHYPDVFMREALALRLDLKESRVAVWFQNRRAKWRK 70
+ LE+ F++ + YPD + L+ +LD ++ WF++RR + +
Sbjct: 19 PNDTLEKVFVSVTKYPDEKRLKGLSKQLDWSVRKIQCWFRHRRNQDKP 66
>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 = 40.0 bits (93), Expect = 1e-05
Identities = 11/56 (19%), Positives = 17/56 (30%)
Query: 15 RSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWFQNRRAKWRK 70
S QL L+ FL + + L L + WF + R +
Sbjct: 5 SSGKRKTKEQLAILKSFFLQCQWARREDYQKLEQITGLPRPEIIQWFGDTRYALKH 60
>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 = 37.5 bits (87), Expect = 1e-04
Identities = 15/63 (23%), Positives = 26/63 (41%), Gaps = 7/63 (11%)
Query: 9 LASKRRRSRTNFNSWQLEELERAFLASH-YPDVFMREALALRLDLKESRVAVWFQNRRAK 67
+ ++ N LE+ F A +PD E L+ +LD + WF+ RR +
Sbjct: 2 SSGSSGTAQPN------AILEKVFTAITKHPDEKRLEGLSKQLDWDVRSIQRWFRQRRNQ 55
Query: 68 WRK 70
+
Sbjct: 56 EKP 58
>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 = 35.7 bits (81), Expect = 7e-04
Identities = 19/72 (26%), Positives = 29/72 (40%), Gaps = 4/72 (5%)
Query: 11 SKRRRSRTNFNSWQLEELERAF----LASHYPDVFMREALALRLDLKESRVAVWFQNRRA 66
S + RT F+ L L++ + + EA+A L++ V W NRR
Sbjct: 6 SGALQDRTQFSDRDLATLKKYWDNGMTSLGSVCREKIEAVATELNVDCEIVRTWIGNRRR 65
Query: 67 KWRKKEHTKKGP 78
K+R GP
Sbjct: 66 KYRLMGIEVSGP 77
>2e19_A Transcription factor 8; homeobox domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 64
Score = 31.9 bits (72), Expect = 0.010
Identities = 9/51 (17%), Positives = 19/51 (37%)
Query: 24 QLEELERAFLASHYPDVFMREALALRLDLKESRVAVWFQNRRAKWRKKEHT 74
L L+ + + P +A ++L V WF+ +A + +
Sbjct: 14 LLSLLKAYYALNAQPSAEELSKIADSVNLPLDVVKKWFEKMQAGQISVQSS 64
>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 = 28.2 bits (63), Expect = 0.37
Identities = 15/80 (18%), Positives = 26/80 (32%), Gaps = 7/80 (8%)
Query: 13 RRRSRTNFNSWQLEELERAFLASH----YPDVFMREALALRLDLKESRVAVWFQNRRAKW 68
+ F + L ++ A + Y D E L L ++ W RRA
Sbjct: 2 KPYRGHRFTKENVRIL-ESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVAARRA-- 58
Query: 69 RKKEHTKKGPGRPAHNAHPV 88
++K T + P+
Sbjct: 59 KEKTITIAPELADLLSGEPL 78
>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 = 27.1 bits (60), Expect = 0.83
Identities = 14/63 (22%), Positives = 22/63 (34%), Gaps = 5/63 (7%)
Query: 11 SKRRRSRTNFNSWQLEELERAFLASH----YPDVFMREALALRLDLKESRVAVWFQNRRA 66
S + F + L ++ A + Y D E L L ++ W NRR
Sbjct: 25 STKPYRGHRFTKENVRIL-ESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRR 83
Query: 67 KWR 69
K +
Sbjct: 84 KEK 86
>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 = 27.1 bits (59), Expect = 0.90
Identities = 10/65 (15%), Positives = 24/65 (36%)
Query: 10 ASKRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWFQNRRAKWR 69
+S S N + L+ + + P+ +++ + L + V WF+ R+
Sbjct: 2 SSGSSGSPINPYKDHMSVLKAYYAMNMEPNSDELLKISIAVGLPQEFVKEWFEQRKVYQY 61
Query: 70 KKEHT 74
+
Sbjct: 62 SNSRS 66
>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 = 1.5
Identities = 18/64 (28%), Positives = 29/64 (45%), Gaps = 5/64 (7%)
Query: 11 SKRRRSRTNFNSWQLEELERAFLASH----YPDVFMREALALRLDLKESRVAVWFQNRRA 66
S + N E L + SH YP +E LA + + S+V+ WF N+R
Sbjct: 1 SSGHIEGRHMNKQATEIL-NEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRI 59
Query: 67 KWRK 70
+++K
Sbjct: 60 RYKK 63
>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 = 27.7 bits (61), Expect = 1.6
Identities = 12/68 (17%), Positives = 22/68 (32%), Gaps = 18/68 (26%)
Query: 25 LEELERAFLAS---HYPDVFMREALALRL----DLKESRVAVWFQNRRAKWRKKEHTKKG 77
L E E +L H ALA +L D + + + K+
Sbjct: 88 LTEFENCYLEGNDIH--------ALAAKLLQENDTTLVKTKELI---KNYITARIMAKRP 136
Query: 78 PGRPAHNA 85
+ +++A
Sbjct: 137 FDKKSNSA 144
>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 = 26.4 bits (57), Expect = 2.5
Identities = 19/96 (19%), Positives = 29/96 (30%), Gaps = 23/96 (23%)
Query: 12 KRRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLD-------------------- 51
R+R + + L +A+ P REAL +
Sbjct: 5 SSGRNRFKWGPASQQILYQAYDRQKNPSKEEREALVEECNRAECLQRGVSPSKAHGLGSN 64
Query: 52 -LKESRVAVWFQNRR--AKWRKKEHTKKGPGRPAHN 84
+ E RV WF NRR +R+K +
Sbjct: 65 LVTEVRVYNWFANRRKEEAFRQKLAMDAYSSNSGPS 100
>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 = 25.7 bits (56), Expect = 2.9
Identities = 13/74 (17%), Positives = 23/74 (31%), Gaps = 4/74 (5%)
Query: 1 GDGNLSDDLASKRRRSRTNFNSWQLEEL----ERAFLASHYPDVFMREALALRLDLKESR 56
G+ +R RT F + Q E++ ER D E ++
Sbjct: 5 SSGSNPSSSGGTTKRFRTKFTAEQKEKMLAFAERLGWRIQKHDDVAVEQFCAETGVRRQV 64
Query: 57 VAVWFQNRRAKWRK 70
+ +W N +
Sbjct: 65 LKIWMHNNKNSGPS 78
>2vbi_A Pyruvate decarboxylase; thiamine pyrophosphate, lyase, pyruv
flavoprotein, THDP-dependent enzyme; HET: TPP; 2.75A
{Acetobacter pasteurianus}
Length = 566
Score = 26.7 bits (60), Expect = 3.0
Identities = 5/47 (10%), Positives = 12/47 (25%)
Query: 37 YPDVFMREALALRLDLKESRVAVWFQNRRAKWRKKEHTKKGPGRPAH 83
Y +R L + +R A ++ + +
Sbjct: 319 YDGFTLRAFLQALAEKAPARPASAQKSSVPTCSLTATSDEAGLTNDE 365
>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 = 25.0 bits (55), Expect = 3.7
Identities = 11/45 (24%), Positives = 17/45 (37%), Gaps = 4/45 (8%)
Query: 30 RAFLASH----YPDVFMREALALRLDLKESRVAVWFQNRRAKWRK 70
++ A + Y D E L L ++ W NRR K +
Sbjct: 14 ESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKT 58
>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 = 24.2 bits (52), Expect = 3.7
Identities = 9/16 (56%), Positives = 14/16 (87%)
Query: 56 RVAVWFQNRRAKWRKK 71
++ +WFQNRR KW+K+
Sbjct: 2 QIKIWFQNRRMKWKKR 17
>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase,
transferase; NMR {Streptococcus pneumoniae} SCOP:
c.37.1.1
Length = 236
Score = 26.3 bits (59), Expect = 4.0
Identities = 15/36 (41%), Positives = 19/36 (52%), Gaps = 10/36 (27%)
Query: 103 KERARRQKKLMKSLERQQRKLAAKGVTVDLETLKRE 138
ERA R R ++ AKG+ DLETLK+E
Sbjct: 164 DERAER---------RY-KENIAKGIETDLETLKKE 189
>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide
monophosphate kinase,, transferase; 1.75A {Escherichia
coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A*
1kdt_A* 2cmk_A* 2fem_A 2feo_A*
Length = 227
Score = 26.3 bits (59), Expect = 4.1
Identities = 12/36 (33%), Positives = 16/36 (44%), Gaps = 10/36 (27%)
Query: 103 KERARRQKKLMKSLERQQRKLAAKGVTVDLETLKRE 138
+ERA R R +L KG +V+ E L E
Sbjct: 152 EERAHR---------RM-LQLQVKGFSVNFERLLAE 177
>1bf2_A Isoamylase; hydrolase, glycosidase, debranching enzyme; 2.00A
{Pseudomonas amyloderamosa} SCOP: b.1.18.2 b.71.1.1
c.1.8.1
Length = 750
Score = 26.2 bits (58), Expect = 4.7
Identities = 9/57 (15%), Positives = 18/57 (31%), Gaps = 6/57 (10%)
Query: 13 RRRSRTNFNSWQLEELERAFLASHYPDVFMREALALRLDLKESRVAVWFQNRRAKWR 69
S N+ ++ + F F + +A R R + W+ + W
Sbjct: 596 NLDSSANWLTYSWTTDQSNFYT------FAQRLIAFRKAHPALRPSSWYSGSQLTWY 646
>1fft_A Ubiquinol oxidase; electron transport, cytochrome oxidase, membrane
protein, oxidoreductase; HET: HEM HEO; 3.50A
{Escherichia coli} SCOP: f.24.1.1
Length = 663
Score = 26.2 bits (58), Expect = 5.3
Identities = 3/16 (18%), Positives = 8/16 (50%)
Query: 95 IPAEELKRKERARRQK 110
+P E+++ E +
Sbjct: 638 VPVAEIEKLENQHFDE 653
>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics
center for infectious disease, ssgcid, ADP, DCMP, D
transferase; 2.00A {Mycobacterium smegmatis} PDB: 3r8c_A
4die_A*
Length = 233
Score = 25.9 bits (58), Expect = 5.6
Identities = 10/36 (27%), Positives = 15/36 (41%), Gaps = 10/36 (27%)
Query: 103 KERARRQKKLMKSLERQQRKLAAKGVTVDLETLKRE 138
+ERARR R + A G+ D T+ +
Sbjct: 157 EERARR---------RN-AQNVANGLPDDYATVLAD 182
>2wvg_A PDC, pyruvate decarboxylase; thiamine diphosphate, lyase,
flavoprotein, metal-binding, alcohol fermentation; HET:
TPU; 1.75A {Zymomonas mobilis} PDB: 2wva_A* 2wvh_A
3oe1_A* 1zpd_A*
Length = 568
Score = 26.0 bits (58), Expect = 5.7
Identities = 9/46 (19%), Positives = 17/46 (36%), Gaps = 1/46 (2%)
Query: 37 YPDVFMREAL-ALRLDLKESRVAVWFQNRRAKWRKKEHTKKGPGRP 81
+P V +++ L L + + A+ F K+ P P
Sbjct: 319 FPSVHLKDYLTRLAQKVSKKTGALDFFKSLNAGELKKAAPADPSAP 364
>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A
{Staphylococcus aureus}
Length = 219
Score = 25.9 bits (58), Expect = 5.9
Identities = 10/36 (27%), Positives = 16/36 (44%), Gaps = 10/36 (27%)
Query: 103 KERARRQKKLMKSLERQQRKLAAKGVTVDLETLKRE 138
+ERA R R + +G+ + E LKR+
Sbjct: 147 EERAER---------RYK-DNQLRGIESNFEDLKRD 172
>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 = 24.9 bits (53), Expect = 8.8
Identities = 6/30 (20%), Positives = 13/30 (43%), Gaps = 5/30 (16%)
Query: 109 QKKLMKSLERQQRKLA-----AKGVTVDLE 133
+K+ +K L+ + A A + +E
Sbjct: 18 EKQALKKLQASLKLYADDSAPALAIKATME 47
>2qag_C Septin-7; cell cycle, cell division, GTP-binding,
nucleotide-binding, phosphorylation, acetylation,
alternative splicing, coiled coil; HET: GDP GTP; 4.00A
{Homo sapiens}
Length = 418
Score = 25.6 bits (55), Expect = 9.3
Identities = 21/103 (20%), Positives = 39/103 (37%), Gaps = 8/103 (7%)
Query: 49 RLDLKESRVAVWFQNRRAKWRKKEHTKKGPGRPAHNAHPVTCSGDPIPAE------ELKR 102
DLK+ V ++N R++ + T G + + E ++K+
Sbjct: 275 MQDLKDVTNNVHYENYRSR-KLAAVTYNGVDNNKNKGQLTKSPLAQMEEERREHVAKMKK 333
Query: 103 KERARRQKKLMKSLERQQR-KLAAKGVTVDLETLKREWESQQA 144
E Q MK E+ Q+ K + + E +K+ E+Q
Sbjct: 334 MEMEMEQVFEMKVKEKVQKLKDSEAELQRRHEQMKKNLEAQHK 376
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
0.315 0.129 0.379
Gapped
Lambda K H
0.267 0.0586 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,395,085
Number of extensions: 136768
Number of successful extensions: 562
Number of sequences better than 10.0: 1
Number of HSP's gapped: 533
Number of HSP's successfully gapped: 112
Length of query: 149
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 64
Effective length of database: 4,328,508
Effective search space: 277024512
Effective search space used: 277024512
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (24.5 bits)