RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1901
(205 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 = 142 bits (360), Expect = 9e-45
Identities = 62/75 (82%), Positives = 68/75 (90%)
Query: 19 DESDTESEPGIPLKRKQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEAR 78
D SD ESEPGI LKRKQRRSRTTF+ QL+ELERAF+RTQYPD+YTREELAQ+T LTEAR
Sbjct: 2 DISDCESEPGIALKRKQRRSRTTFSASQLDELERAFERTQYPDIYTREELAQRTNLTEAR 61
Query: 79 VQVWFSNRRARLRKQ 93
+QVWF NRRARLRKQ
Sbjct: 62 IQVWFQNRRARLRKQ 76
>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 = 129 bits (325), Expect = 2e-39
Identities = 38/75 (50%), Positives = 48/75 (64%)
Query: 32 KRKQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWFSNRRARLR 91
RR RTTFT QL+ LE F +T+YPD++ REE+A K L E+RVQVWF NRRA+ R
Sbjct: 4 GSSGRRERTTFTRAQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQVWFKNRRAKCR 63
Query: 92 KQLNSQQLNAFNSMS 106
+Q QQ + S
Sbjct: 64 QQQQQQQNGGQSGPS 78
>2cue_A Paired box protein PAX6; homeobox domain, transcription factor,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
a.4.1.1
Length = 80
Score = 128 bits (324), Expect = 2e-39
Identities = 36/77 (46%), Positives = 50/77 (64%)
Query: 30 PLKRKQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWFSNRRAR 89
+R+RT+FT +Q+E LE+ F+RT YPDV+ RE LA K L EAR+QVWFSNRRA+
Sbjct: 2 SSGSSGQRNRTSFTQEQIEALEKEFERTHYPDVFARERLAAKIDLPEARIQVWFSNRRAK 61
Query: 90 LRKQLNSQQLNAFNSMS 106
R++ + + S
Sbjct: 62 WRREEKLRNQRRQSGPS 78
>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 = 127 bits (320), Expect = 8e-39
Identities = 35/62 (56%), Positives = 43/62 (69%)
Query: 32 KRKQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWFSNRRARLR 91
RR RT FT +QLE LE FQ T+YPDV TRE+LA+K L E +V+VWF NRRA+ R
Sbjct: 4 GSSGRRHRTIFTDEQLEALENLFQETKYPDVGTREQLARKVHLREEKVEVWFKNRRAKWR 63
Query: 92 KQ 93
+
Sbjct: 64 RS 65
>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 = 125 bits (316), Expect = 3e-38
Identities = 29/64 (45%), Positives = 39/64 (60%)
Query: 36 RRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWFSNRRARLRKQLN 95
RR RT FT +Q+E LE F+ YP + E+LAQK L R+Q+WF NRRA+L++
Sbjct: 2 RRPRTAFTQNQIEVLENVFRVNCYPGIDILEDLAQKLNLELDRIQIWFQNRRAKLKRSHR 61
Query: 96 SQQL 99
Q
Sbjct: 62 ESQF 65
>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 = 125 bits (316), Expect = 4e-38
Identities = 38/67 (56%), Positives = 47/67 (70%)
Query: 34 KQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWFSNRRARLRKQ 93
QRR RT FT QL++LE FQR +YPD+ TREE+A T LTEARV+VWF NRRA+ RK+
Sbjct: 2 SQRRQRTHFTSQQLQQLEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRKR 61
Query: 94 LNSQQLN 100
+
Sbjct: 62 EEFIVTD 68
>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 = 123 bits (311), Expect = 3e-37
Identities = 27/75 (36%), Positives = 39/75 (52%)
Query: 32 KRKQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWFSNRRARLR 91
+R RT+F QL ++ F PD ++LAQKT LT+ +QVWF N RA+ R
Sbjct: 4 GSSGKRMRTSFKHHQLRTMKSYFAINHNPDAKDLKQLAQKTGLTKRVLQVWFQNARAKFR 63
Query: 92 KQLNSQQLNAFNSMS 106
+ L Q+ + S
Sbjct: 64 RNLLRQENGGVSGPS 78
>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 = 118 bits (299), Expect = 1e-35
Identities = 41/56 (73%), Positives = 45/56 (80%)
Query: 38 SRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWFSNRRARLRKQ 93
S TFT QLEELE+AF RT YPDV+TREELA K LTEAR+QVWF NRRA+ RKQ
Sbjct: 2 SHMTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQVWFQNRRAKWRKQ 57
>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 = 115 bits (290), Expect = 3e-34
Identities = 22/62 (35%), Positives = 27/62 (43%)
Query: 32 KRKQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWFSNRRARLR 91
R SRT FT QL L+ F YP E+L+ L + VWF N R + R
Sbjct: 4 GSSGRSSRTRFTDYQLRVLQDFFDANAYPKDDEFEQLSNLLNLPTRVIVVWFQNARQKAR 63
Query: 92 KQ 93
K
Sbjct: 64 KS 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 = 115 bits (290), Expect = 3e-34
Identities = 19/65 (29%), Positives = 31/65 (47%)
Query: 34 KQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWFSNRRARLRKQ 93
K R RT QL L + PD +E+L + T L+ ++VWF N+R + +K+
Sbjct: 2 KTTRVRTVLNEKQLHTLRTCYAANPRPDALMKEQLVEMTGLSPRVIRVWFQNKRCKDKKR 61
Query: 94 LNSQQ 98
+
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 = 106 bits (266), Expect = 1e-30
Identities = 25/73 (34%), Positives = 36/73 (49%)
Query: 21 SDTESEPGIPLKRKQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQ 80
S + G ++ +R RTT T +QLE L + + P + +A + L + VQ
Sbjct: 3 SGSSGGTGGEEPQRDKRLRTTITPEQLEILYQKYLLDSNPTRKMLDHIAHEVGLKKRVVQ 62
Query: 81 VWFSNRRARLRKQ 93
VWF N RAR RK
Sbjct: 63 VWFQNTRARERKS 75
>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 = 104 bits (262), Expect = 6e-30
Identities = 21/59 (35%), Positives = 29/59 (49%), Gaps = 1/59 (1%)
Query: 36 RRSRTTFTGDQLEELERAFQRT-QYPDVYTREELAQKTKLTEARVQVWFSNRRARLRKQ 93
T T DQ+E LE F + ++PD T +A + LTE + Q WF R A R+
Sbjct: 2 SEGAATMTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQKWFKQRLAEWRRS 60
>2hi3_A Homeodomain-only protein; transcription; NMR {Mus musculus} SCOP:
a.4.1.1
Length = 73
Score = 100 bits (252), Expect = 1e-28
Identities = 20/59 (33%), Positives = 31/59 (52%), Gaps = 1/59 (1%)
Query: 36 RRSRTTFTGDQLEELERAFQRT-QYPDVYTREELAQKTKLTEARVQVWFSNRRARLRKQ 93
++ + T DQ+E LE F + ++PD T +A + LTE + Q WF R A R+
Sbjct: 3 AQTVSGPTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQKWFKQRLAEWRRS 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 = 100 bits (251), Expect = 2e-28
Identities = 18/62 (29%), Positives = 28/62 (45%)
Query: 32 KRKQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWFSNRRARLR 91
+R RT T DQL L + F P +E+A K+ L + ++ WF N + R
Sbjct: 4 GSSGKRPRTRITDDQLRVLRQYFDINNSPSEEQIKEMADKSGLPQKVIKHWFRNTLFKER 63
Query: 92 KQ 93
+
Sbjct: 64 QS 65
>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 = 98.2 bits (244), Expect = 4e-27
Identities = 24/90 (26%), Positives = 38/90 (42%), Gaps = 15/90 (16%)
Query: 32 KRKQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELA---------------QKTKLTE 76
R SR T+ + L +E F QYPD REE+A ++T
Sbjct: 4 GSSGRGSRFTWRKECLAVMESYFNENQYPDEAKREEIANACNAVIQKPGKKLSDLERVTS 63
Query: 77 ARVQVWFSNRRARLRKQLNSQQLNAFNSMS 106
+V WF+NRR ++++ N + + S
Sbjct: 64 LKVYNWFANRRKEIKRRANIAAILESSGPS 93
>2dn0_A Zinc fingers and homeoboxes protein 3; triple homeobox 1 protein,
KIAA0395, TIX1, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 76
Score = 94.4 bits (235), Expect = 6e-26
Identities = 19/67 (28%), Positives = 30/67 (44%)
Query: 32 KRKQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWFSNRRARLR 91
+ + +QL L+ +F R Q+P E L + T L+ V+ WFS+RR R
Sbjct: 5 SSGASIYKNKKSHEQLSALKGSFCRNQFPGQSEVEHLTKVTGLSTREVRKWFSDRRYHCR 64
Query: 92 KQLNSQQ 98
S+
Sbjct: 65 NLKGSRS 71
>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 = 88.7 bits (220), Expect = 7e-24
Identities = 15/60 (25%), Positives = 29/60 (48%)
Query: 34 KQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWFSNRRARLRKQ 93
T +Q+ L+ +F ++Q+PD L + T L + ++ WFS+ R R ++
Sbjct: 3 HHHHHHRKKTKEQIAHLKASFLQSQFPDDAEVYRLIEVTGLARSEIKKWFSDHRYRCQRG 62
>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 = 90.9 bits (225), Expect = 1e-23
Identities = 22/79 (27%), Positives = 35/79 (44%)
Query: 14 RPSSGDESDTESEPGIPLKRKQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTK 73
+ + E K+R+ RT+FT +E L F++ P E+A++
Sbjct: 72 ELRNQEGQQNLMEFVGGEPSKKRKRRTSFTPQAIEALNAYFEKNPLPTGQEITEMAKELN 131
Query: 74 LTEARVQVWFSNRRARLRK 92
V+VWFSNRR L+
Sbjct: 132 YDREVVRVWFSNRRQTLKN 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 = 90.4 bits (224), Expect = 2e-23
Identities = 19/80 (23%), Positives = 34/80 (42%)
Query: 13 GRPSSGDESDTESEPGIPLKRKQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKT 72
++ + ++R+ RTT + + LER F P +A++
Sbjct: 65 KWLEEAEQVGALYNEKVGANERKRKRRTTISIAAKDALERHFGEHSKPSSQEIMRMAEEL 124
Query: 73 KLTEARVQVWFSNRRARLRK 92
L + V+VWF NRR R ++
Sbjct: 125 NLEKEVVRVWFCNRRQREKR 144
>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 = 87.2 bits (215), Expect = 1e-21
Identities = 21/95 (22%), Positives = 34/95 (35%), Gaps = 21/95 (22%)
Query: 16 SSGDESDTESEPGIPLKRKQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQK---- 71
+ E +K RR+R + + L +A++R + P RE L ++
Sbjct: 96 AGQGGLIEEPTGDELPTKKGRRNRFKWGPASQQILFQAYERQKNPSKEERETLVEECNRA 155
Query: 72 -----------------TKLTEARVQVWFSNRRAR 89
+TE RV WF+NRR
Sbjct: 156 ECIQRGVSPSQAQGLGSNLVTEVRVYNWFANRRKE 190
>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 = 84.0 bits (207), Expect = 7e-21
Identities = 20/78 (25%), Positives = 37/78 (47%)
Query: 15 PSSGDESDTESEPGIPLKRKQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKL 74
+ +E+ E L + ++R RT+ LE F ++ P + +A + L
Sbjct: 76 EADNNENLQEISKSETLVQARKRKRTSIENRVRWSLETMFLKSPKPSLQQITHIANQLGL 135
Query: 75 TEARVQVWFSNRRARLRK 92
+ V+VWFSNRR + ++
Sbjct: 136 EKDVVRVWFSNRRQKGKR 153
>1lfb_A Liver transcription factor (LFB1); transcription regulation;
2.80A {Rattus norvegicus} SCOP: a.4.1.1 PDB: 2lfb_A
Length = 99
Score = 81.0 bits (199), Expect = 2e-20
Identities = 20/88 (22%), Positives = 33/88 (37%), Gaps = 21/88 (23%)
Query: 32 KRKQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQK-------------------- 71
+K RR+R + + L +A++R + P RE L ++
Sbjct: 6 TKKGRRNRFKWGPASQQILFQAYERQKNPSKEERETLVEECNRAECIQRGVSPSQAQGLG 65
Query: 72 -TKLTEARVQVWFSNRRARLRKQLNSQQ 98
+TE RV WF+NRR +
Sbjct: 66 SNLVTEVRVYNWFANRRKEEAFRHKLAM 93
>2xsd_C POU domain, class 3, transcription factor 1; transcription-DNA
complex, SOX; 2.05A {Mus musculus}
Length = 164
Score = 82.8 bits (204), Expect = 2e-20
Identities = 18/73 (24%), Positives = 33/73 (45%)
Query: 24 ESEPGIPLKRKQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWF 83
+ I + ++R+ RT+ LE F + P + LA +L + V+VWF
Sbjct: 88 TNLDKIAAQGRKRKKRTSIEVGVKGALESHFLKCPKPSAHEITGLADSLQLEKEVVRVWF 147
Query: 84 SNRRARLRKQLNS 96
NRR + ++ +
Sbjct: 148 CNRRQKEKRMTPA 160
>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 = 81.5 bits (201), Expect = 5e-20
Identities = 19/74 (25%), Positives = 37/74 (50%)
Query: 19 DESDTESEPGIPLKRKQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEAR 78
+ PGI ++R+ RT+ + LE++F Q P +A++ + +
Sbjct: 85 SSPSALNSPGIEGLSRRRKKRTSIETNIRVALEKSFMENQKPTSEDITLIAEQLNMEKEV 144
Query: 79 VQVWFSNRRARLRK 92
++VWFSNRR + ++
Sbjct: 145 IRVWFSNRRQKEKR 158
>2h8r_A Hepatocyte nuclear factor 1-beta; trasncription factor, POU, homeo,
protein-DNA, human disease; 3.20A {Homo sapiens}
Length = 221
Score = 81.6 bits (200), Expect = 2e-19
Identities = 22/101 (21%), Positives = 36/101 (35%), Gaps = 21/101 (20%)
Query: 14 RPSSGDESDTESEPGIPLKRKQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQK-- 71
S ++ P +K RR+R + + L +A+ R + P RE L ++
Sbjct: 121 SQQSHGPGQSDDACSEPTNKKMRRNRFKWGPASQQILYQAYDRQKNPSKEEREALVEECN 180
Query: 72 -------------------TKLTEARVQVWFSNRRARLRKQ 93
+TE RV WF+NRR +
Sbjct: 181 RAECLQRGVSPSKAHGLGSNLVTEVRVYNWFANRRKEEAFR 221
>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 = 77.3 bits (190), Expect = 4e-19
Identities = 20/89 (22%), Positives = 39/89 (43%), Gaps = 6/89 (6%)
Query: 18 GDESDTESEPGIPLKRKQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEA 77
G + + P ++ + + T Q++ LE +F ++ +P + L +TKL+
Sbjct: 1 GSSGSSGAYPDFAPQKFKEK-----TQGQVKILEDSFLKSSFPTQAELDRLRVETKLSRR 55
Query: 78 RVQVWFSNRRARLRKQLNSQQLNAFNSMS 106
+ WFS RR R + L++ S
Sbjct: 56 EIDSWFSERRKL-RDSMEQAVLDSMGSGK 83
>2kt0_A Nanog, homeobox protein nanog; homeodomain, structural genomics,
protein structure initiative, PSI, center for
eukaryotic structural genomics; NMR {Homo sapiens}
Length = 84
Score = 76.4 bits (188), Expect = 7e-19
Identities = 24/80 (30%), Positives = 45/80 (56%), Gaps = 2/80 (2%)
Query: 14 RPSSGDESDTESEPGIPLKRKQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTK 73
+P+S + S + E +P K++++RT F+ QL L FQR +Y + +EL+
Sbjct: 3 QPTSAENSVAKKEDKVP--VKKQKTRTVFSSTQLCVLNDRFQRQKYLSLQQMQELSNILN 60
Query: 74 LTEARVQVWFSNRRARLRKQ 93
L+ +V+ WF N+R + ++
Sbjct: 61 LSYKQVKTWFQNQRMKSKRW 80
>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 = 74.9 bits (185), Expect = 2e-18
Identities = 19/58 (32%), Positives = 33/58 (56%)
Query: 32 KRKQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWFSNRRAR 89
K K + +++ + LE F+R Q + +EE+A+K +T +V+VWF N+R R
Sbjct: 2 KEKSPKGKSSISPQARAFLEEVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMR 59
>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 = 75.2 bits (185), Expect = 2e-18
Identities = 14/61 (22%), Positives = 25/61 (40%), Gaps = 1/61 (1%)
Query: 34 KQRRSRTTFTGDQLEELERAFQRTQ-YPDVYTREELAQKTKLTEARVQVWFSNRRARLRK 92
RSRT + + L L+ YPD L+ + L + + +F N+R ++
Sbjct: 6 SGPRSRTKISLEALGILQSFIHDVGLYPDQEAIHTLSAQLDLPKHTIIKFFQNQRYHVKH 65
Query: 93 Q 93
Sbjct: 66 S 66
>2l9r_A Homeobox protein NKX-3.1; structural genomics, northeast
structural genomics consortiu PSI-biology, protein
structure initiative; NMR {Homo sapiens}
Length = 69
Score = 73.2 bits (180), Expect = 1e-17
Identities = 22/66 (33%), Positives = 35/66 (53%)
Query: 34 KQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWFSNRRARLRKQ 93
+ + Q+ ELER F +Y R LA+ KLTE +V++WF NRR + +++
Sbjct: 3 HHHHHHSHMSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRRYKTKRK 62
Query: 94 LNSQQL 99
S +L
Sbjct: 63 QLSSEL 68
>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 = 72.9 bits (179), Expect = 1e-17
Identities = 26/75 (34%), Positives = 41/75 (54%), Gaps = 2/75 (2%)
Query: 25 SEPGIPLKRKQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWFS 84
+ G+P K+R+ R FT Q ELER F++ +Y RE LA +LT +V++WF
Sbjct: 1 ASDGLP--NKKRKRRVLFTKAQTYELERRFRQQRYLSAPEREHLASLIRLTPTQVKIWFQ 58
Query: 85 NRRARLRKQLNSQQL 99
N R + ++ N +
Sbjct: 59 NHRYKTKRAQNEKGY 73
>1ftt_A TTF-1 HD, thyroid transcription factor 1 homeodomain; DNA binding
protein; NMR {Rattus norvegicus} SCOP: a.4.1.1
Length = 68
Score = 72.0 bits (177), Expect = 2e-17
Identities = 22/65 (33%), Positives = 37/65 (56%)
Query: 35 QRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWFSNRRARLRKQL 94
+R+ R F+ Q+ ELER F++ +Y RE LA LT +V++WF N R ++++Q
Sbjct: 2 RRKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQVKIWFQNHRYKMKRQA 61
Query: 95 NSQQL 99
+
Sbjct: 62 KDKAA 66
>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 = 72.1 bits (177), Expect = 3e-17
Identities = 28/76 (36%), Positives = 43/76 (56%), Gaps = 1/76 (1%)
Query: 18 GDESDTESEPGIPLKRKQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEA 77
G + EPG +K RRSRT FT QL LE+ F++ +Y R +LA+ L++
Sbjct: 1 GSSGSSGGEPG-TKAKKGRRSRTVFTELQLMGLEKRFEKQKYLSTPDRIDLAESLGLSQL 59
Query: 78 RVQVWFSNRRARLRKQ 93
+V+ W+ NRR + +K
Sbjct: 60 QVKTWYQNRRMKWKKS 75
>2djn_A Homeobox protein DLX-5; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 70
Score = 71.7 bits (176), Expect = 3e-17
Identities = 25/65 (38%), Positives = 40/65 (61%)
Query: 33 RKQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWFSNRRARLRK 92
R+ RT ++ QL L+R FQ+TQY + R ELA LT+ +V++WF N+R++++K
Sbjct: 5 SSGRKPRTIYSSFQLAALQRRFQKTQYLALPERAELAASLGLTQTQVKIWFQNKRSKIKK 64
Query: 93 QLNSQ 97
S
Sbjct: 65 SGPSS 69
>2vi6_A Homeobox protein nanog; homeodomain, DNA-binding, transcription,
transcription facto developmental protein,
transcription regulation, NUC homeobox; 2.6A {Mus
musculus}
Length = 62
Score = 71.2 bits (175), Expect = 5e-17
Identities = 17/60 (28%), Positives = 34/60 (56%)
Query: 34 KQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWFSNRRARLRKQ 93
+++ RT F+ QL L+ FQ+ +Y + +EL+ L+ +V+ WF N+R + ++
Sbjct: 2 TKQKMRTVFSQAQLCALKDRFQKQKYLSLQQMQELSSILNLSYKQVKTWFQNQRMKCKRW 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 = 70.4 bits (173), Expect = 7e-17
Identities = 25/57 (43%), Positives = 36/57 (63%)
Query: 36 RRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWFSNRRARLRK 92
R+ RT FT QL LER F++ QY + R E + LTE +V++WF NRRA+ ++
Sbjct: 1 RKPRTPFTTAQLLALERKFRQKQYLSIAERAEFSSSLSLTETQVKIWFQNRRAKAKR 57
>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 = 70.4 bits (172), Expect = 2e-16
Identities = 16/86 (18%), Positives = 35/86 (40%), Gaps = 5/86 (5%)
Query: 21 SDTESEPGIPLKRKQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQ 80
S S P ++ + ++ +QL L+ +F + L +TKLT +
Sbjct: 2 SSGSSGPDFTPQKFKEKTA-----EQLRVLQASFLNSSVLTDEELNRLRAQTKLTRREID 56
Query: 81 VWFSNRRARLRKQLNSQQLNAFNSMS 106
WF+ ++ + +++ N+ S
Sbjct: 57 AWFTEKKKSKALKEEKMEIDESNAGS 82
>3rkq_A Homeobox protein NKX-2.5; helix-turn-helix, DNA binding, nucleus,
transcription-DNA CO; 1.70A {Homo sapiens}
Length = 58
Score = 69.2 bits (170), Expect = 2e-16
Identities = 22/57 (38%), Positives = 36/57 (63%)
Query: 35 QRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWFSNRRARLR 91
+R+ R F+ Q+ ELER F++ +Y R++LA KLT +V++WF NRR + +
Sbjct: 2 RRKPRVLFSQAQVYELERRFKQQRYLSAPERDQLASVLKLTSTQVKIWFQNRRYKSK 58
>3a01_A Homeodomain-containing protein; homeodomain, protein-DNA complex,
DNA-binding, homeobox, NUC developmental protein; 2.70A
{Drosophila melanogaster}
Length = 93
Score = 69.9 bits (171), Expect = 3e-16
Identities = 25/66 (37%), Positives = 42/66 (63%)
Query: 33 RKQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWFSNRRARLRK 92
K+++ RT+FT Q+ ELE+ F + +Y R LA+ K+T+A+V+ WF NRR + R+
Sbjct: 15 PKRKKPRTSFTRIQVAELEKRFHKQKYLASAERAALARGLKMTDAQVKTWFQNRRTKWRR 74
Query: 93 QLNSQQ 98
Q ++
Sbjct: 75 QTAEER 80
>2d5v_A Hepatocyte nuclear factor 6; transcription factor,
transcription-DNA complex; 2.00A {Rattus norvegicus}
PDB: 1s7e_A
Length = 164
Score = 71.1 bits (173), Expect = 7e-16
Identities = 17/82 (20%), Positives = 29/82 (35%)
Query: 19 DESDTESEPGIPLKRKQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEAR 78
E E G ++ R FT Q L F+ + P + ++Q+ L +
Sbjct: 81 ACKRKEQEHGKDRGNTPKKPRLVFTDVQRRTLHAIFKENKRPSKELQITISQQLGLELST 140
Query: 79 VQVWFSNRRARLRKQLNSQQLN 100
V +F N R R + +
Sbjct: 141 VSNFFMNARRRSLDKWLEHHHH 162
>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 = 68.0 bits (166), Expect = 1e-15
Identities = 17/74 (22%), Positives = 31/74 (41%), Gaps = 5/74 (6%)
Query: 25 SEPGIPLKRKQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWFS 84
S + + R+ +QL LE +F + P + L +TK+T + WFS
Sbjct: 2 SSGSSGPTKYKERAP-----EQLRALESSFAQNPLPLDEELDRLRSETKMTRREIDSWFS 56
Query: 85 NRRARLRKQLNSQQ 98
RR ++ + +
Sbjct: 57 ERRKKVNAEETKKS 70
>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 = 67.1 bits (164), Expect = 2e-15
Identities = 21/61 (34%), Positives = 35/61 (57%)
Query: 33 RKQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWFSNRRARLRK 92
+ + F+ DQ ELE+ F+ +Y R+ LA+ +L+E +V+ WF NRRA+ R+
Sbjct: 5 SSGKGGQVRFSNDQTIELEKKFETQKYLSPPERKRLAKMLQLSERQVKTWFQNRRAKWRR 64
Query: 93 Q 93
Sbjct: 65 S 65
>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 = 65.0 bits (159), Expect = 1e-14
Identities = 21/58 (36%), Positives = 39/58 (67%)
Query: 35 QRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWFSNRRARLRK 92
++R RT F+ +QL L+R F +Y R++L+ + L EA++++WF N+RA+++K
Sbjct: 3 EKRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFKNKRAKIKK 60
>3a03_A T-cell leukemia homeobox protein 2; homeodomain, developmental
protein, DNA-binding, N gene regulation; 1.54A {Homo
sapiens}
Length = 56
Score = 64.6 bits (158), Expect = 1e-14
Identities = 23/54 (42%), Positives = 35/54 (64%)
Query: 40 TTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWFSNRRARLRKQ 93
T+F+ Q+ ELER F R +Y R LA+ ++T+A+V+ WF NRR + R+Q
Sbjct: 2 TSFSRSQVLELERRFLRQKYLASAERAALAKALRMTDAQVKTWFQNRRTKWRRQ 55
>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 = 64.4 bits (157), Expect = 2e-14
Identities = 25/64 (39%), Positives = 38/64 (59%)
Query: 35 QRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWFSNRRARLRKQL 94
RR+RTTFT Q+ ELE+ F + +Y +L+ K L A+V++WF NRR R + Q
Sbjct: 2 PRRTRTTFTSSQIAELEQHFLQGRYLTAPRLADLSAKLALGTAQVKIWFKNRRRRHKIQS 61
Query: 95 NSQQ 98
+ +
Sbjct: 62 DQHK 65
>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 = 62.8 bits (153), Expect = 8e-14
Identities = 26/58 (44%), Positives = 35/58 (60%)
Query: 36 RRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWFSNRRARLRKQ 93
RR RT FT DQL LE+ F + Y R ELA + L E+ ++VWF NRR + ++Q
Sbjct: 2 RRYRTAFTRDQLGRLEKEFYKENYVSRPRRCELAAQLNLPESTIKVWFQNRRMKDKRQ 59
>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 = 62.1 bits (150), Expect = 4e-13
Identities = 18/74 (24%), Positives = 29/74 (39%)
Query: 19 DESDTESEPGIPLKRKQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEAR 78
G K T +QL L+ AF RTQ+P ++LA+++ L
Sbjct: 9 SSGLEVLFQGPAPKSGSTGKICKKTPEQLHMLKSAFVRTQWPSPEEYDKLAKESGLARTD 68
Query: 79 VQVWFSNRRARLRK 92
+ WF + R +
Sbjct: 69 IVSWFGDTRYAWKN 82
>2h1k_A IPF-1, pancreatic and duodenal homeobox 1, homeodomain;
protein-DNA complex, transcription/DNA complex; 2.42A
{Mesocricetus auratus}
Length = 63
Score = 58.9 bits (143), Expect = 2e-12
Identities = 24/62 (38%), Positives = 36/62 (58%)
Query: 34 KQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWFSNRRARLRKQ 93
+R+RT +T QL ELE+ F +Y R ELA LTE +++WF NRR + +K+
Sbjct: 2 SNKRTRTAYTRAQLLELEKEFLFNKYISRPRRVELAVMLNLTERHIKIWFQNRRMKWKKE 61
Query: 94 LN 95
+
Sbjct: 62 ED 63
>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 = 59.1 bits (143), Expect = 4e-12
Identities = 24/73 (32%), Positives = 36/73 (49%)
Query: 21 SDTESEPGIPLKRKQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQ 80
++ P RT FT QL ELE+ F +Y R E+A +L E +V+
Sbjct: 20 PPKTAKVSEPGLGSPSGLRTNFTTRQLTELEKEFHFNKYLSRARRVEIAATLELNETQVK 79
Query: 81 VWFSNRRARLRKQ 93
+WF NRR + +K+
Sbjct: 80 IWFQNRRMKQKKR 92
>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 = 58.2 bits (141), Expect = 4e-12
Identities = 22/64 (34%), Positives = 37/64 (57%)
Query: 35 QRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWFSNRRARLRKQL 94
++R R T+T Q ELE+ F +Y R E+A LTE ++++WF NRR + +K+
Sbjct: 2 RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWKKEN 61
Query: 95 NSQQ 98
++
Sbjct: 62 KTKG 65
>2l7z_A Homeobox protein HOX-A13; gene regulation; NMR {Homo sapiens} PDB:
2ld5_A*
Length = 73
Score = 57.9 bits (140), Expect = 6e-12
Identities = 21/69 (30%), Positives = 38/69 (55%)
Query: 33 RKQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWFSNRRARLRK 92
+ R+ R +T QL+ELER + ++ R ++ T L+E +V +WF NRR + +K
Sbjct: 5 LEGRKKRVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQVTIWFQNRRVKEKK 64
Query: 93 QLNSQQLNA 101
+N + +
Sbjct: 65 VINKLKTTS 73
>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 = 56.4 bits (136), Expect = 2e-11
Identities = 18/61 (29%), Positives = 33/61 (54%)
Query: 33 RKQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWFSNRRARLRK 92
R+ R ++ QL ELER + ++ R +++ T L+E ++ +WF NRR + +K
Sbjct: 5 SSGRKKRIPYSKGQLRELEREYAANKFITKDKRRKISAATSLSERQITIWFQNRRVKEKK 64
Query: 93 Q 93
Sbjct: 65 S 65
>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 = 56.2 bits (135), Expect = 3e-11
Identities = 15/56 (26%), Positives = 24/56 (42%)
Query: 37 RSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWFSNRRARLRK 92
S T +QL L+ F + Q+ ++L Q T L + WF + R L+
Sbjct: 5 SSGKRKTKEQLAILKSFFLQCQWARREDYQKLEQITGLPRPEIIQWFGDTRYALKH 60
>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 = 56.4 bits (136), Expect = 4e-11
Identities = 24/61 (39%), Positives = 35/61 (57%)
Query: 33 RKQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWFSNRRARLRK 92
+RR R T+T Q ELE+ F Y R E+A LTE ++++WF NRR +L+K
Sbjct: 18 GLRRRGRQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALSLTERQIKIWFQNRRMKLKK 77
Query: 93 Q 93
+
Sbjct: 78 E 78
>2r5y_A Homeotic protein sex combs reduced; homeodomain; HET: DNA; 2.60A
{Drosophila melanogaster} PDB: 2r5z_A*
Length = 88
Score = 55.2 bits (133), Expect = 8e-11
Identities = 22/60 (36%), Positives = 36/60 (60%)
Query: 34 KQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWFSNRRARLRKQ 93
+ +R RT++T Q ELE+ F +Y R E+A LTE ++++WF NRR + +K+
Sbjct: 27 ETKRQRTSYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWKKE 86
>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 = 53.7 bits (129), Expect = 3e-10
Identities = 23/66 (34%), Positives = 35/66 (53%)
Query: 33 RKQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWFSNRRARLRK 92
R R+ R +T Q ELE+ F Y R E+A+ LTE +V++WF NRR +++K
Sbjct: 11 RSTRKKRCPYTKHQTLELEKEFLFNMYLTRDRRYEVARLLNLTERQVKIWFQNRRMKMKK 70
Query: 93 QLNSQQ 98
+
Sbjct: 71 INKDRA 76
>2cqx_A LAG1 longevity assurance homolog 5; homeodomain, DNA binding
domain, transcription, structural genomics, NPPSFA; NMR
{Mus musculus} SCOP: a.4.1.1
Length = 72
Score = 48.3 bits (115), Expect = 3e-08
Identities = 14/63 (22%), Positives = 28/63 (44%), Gaps = 6/63 (9%)
Query: 31 LKRKQRRSRTTFTGDQLEELERAFQR-TQYPDVYTREELAQKTKLTEARVQVWFSNRRAR 89
+K + LE+ F T+YPD + L+++ + ++Q WF +RR +
Sbjct: 9 IKDSPVNKVE-----PNDTLEKVFVSVTKYPDEKRLKGLSKQLDWSVRKIQCWFRHRRNQ 63
Query: 90 LRK 92
+
Sbjct: 64 DKP 66
>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 = 43.0 bits (100), Expect = 3e-06
Identities = 14/70 (20%), Positives = 24/70 (34%), Gaps = 4/70 (5%)
Query: 28 GIPLKRKQRRSRTTFTGDQLEELERAFQR----TQYPDVYTREELAQKTKLTEARVQVWF 83
G + RT F+ L L++ + E +A + + V+ W
Sbjct: 1 GSSGSSGALQDRTQFSDRDLATLKKYWDNGMTSLGSVCREKIEAVATELNVDCEIVRTWI 60
Query: 84 SNRRARLRKQ 93
NRR + R
Sbjct: 61 GNRRRKYRLM 70
>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 = 41.8 bits (97), Expect = 1e-05
Identities = 18/76 (23%), Positives = 28/76 (36%), Gaps = 21/76 (27%)
Query: 33 RKQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQK--------------------- 71
R+R + + L +A+ R + P RE L ++
Sbjct: 4 GSSGRNRFKWGPASQQILYQAYDRQKNPSKEEREALVEECNRAECLQRGVSPSKAHGLGS 63
Query: 72 TKLTEARVQVWFSNRR 87
+TE RV WF+NRR
Sbjct: 64 NLVTEVRVYNWFANRR 79
>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 = 39.8 bits (93), Expect = 3e-05
Identities = 13/48 (27%), Positives = 22/48 (45%), Gaps = 1/48 (2%)
Query: 46 QLEELERAFQR-TQYPDVYTREELAQKTKLTEARVQVWFSNRRARLRK 92
LE+ F T++PD E L+++ +Q WF RR + +
Sbjct: 11 PNAILEKVFTAITKHPDEKRLEGLSKQLDWDVRSIQRWFRQRRNQEKP 58
>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 = 40.2 bits (94), Expect = 3e-05
Identities = 19/77 (24%), Positives = 33/77 (42%), Gaps = 5/77 (6%)
Query: 33 RKQRRSRTTFTGDQLEELERAFQRTQ---YPDVYTREELAQKTKLTEARVQVWFSNRRAR 89
+ R R FT + + LE F + Y D E L + T L+ +++ W + RRA+
Sbjct: 2 KPYRGHR--FTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVAARRAK 59
Query: 90 LRKQLNSQQLNAFNSMS 106
+ + +L S
Sbjct: 60 EKTITIAPELADLLSGE 76
>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 = 38.4 bits (90), Expect = 8e-05
Identities = 11/34 (32%), Positives = 18/34 (52%)
Query: 59 YPDVYTREELAQKTKLTEARVQVWFSNRRARLRK 92
Y D E L + T L+ +++ W SNRR + +
Sbjct: 25 YLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKT 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 = 39.1 bits (91), Expect = 9e-05
Identities = 20/79 (25%), Positives = 34/79 (43%), Gaps = 4/79 (5%)
Query: 16 SSGDESDTESEPGIPLKRKQRRSRTTFTGDQLEELERAFQRTQ---YPDVYTREELAQKT 72
+ G + ++ I K R FT + + LE F + Y D E L + T
Sbjct: 9 ADGLVFNVVTQDMINKSTKPYR-GHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNT 67
Query: 73 KLTEARVQVWFSNRRARLR 91
L+ +++ W SNRR + +
Sbjct: 68 SLSRIQIKNWVSNRRRKEK 86
>2e19_A Transcription factor 8; homeobox domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 64
Score = 37.3 bits (86), Expect = 2e-04
Identities = 10/52 (19%), Positives = 18/52 (34%)
Query: 45 DQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWFSNRRARLRKQLNS 96
+ L L+ + P ++A L V+ WF +A +S
Sbjct: 13 NLLSLLKAYYALNAQPSAEELSKIADSVNLPLDVVKKWFEKMQAGQISVQSS 64
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 39.4 bits (91), Expect = 2e-04
Identities = 19/91 (20%), Positives = 33/91 (36%), Gaps = 24/91 (26%)
Query: 16 SSGDESDTESEPGIPLKRKQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTK-- 73
+ D E E RK R + +L+EL+ A + +E +K K
Sbjct: 75 AQADRLTQEPES----IRKWREEQRK----RLQELDAASKVM-------EQEWREKAKKD 119
Query: 74 LTEARVQVWFSNRRARLRKQLNSQQLN--AF 102
L E W + ++ K + ++ AF
Sbjct: 120 LEE-----WNQRQSEQVEKNKINNRIADKAF 145
>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 = 36.2 bits (84), Expect = 5e-04
Identities = 16/40 (40%), Positives = 24/40 (60%)
Query: 59 YPDVYTREELAQKTKLTEARVQVWFSNRRARLRKQLNSQQ 98
YP +EELA+K +T ++V WF N+R R +K + Q
Sbjct: 28 YPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKKNIGKFQ 67
>1du6_A PBX1, homeobox protein PBX1; homeodomain, gene regulation; NMR
{Mus musculus} SCOP: a.4.1.1
Length = 64
Score = 35.0 bits (81), Expect = 0.001
Identities = 15/34 (44%), Positives = 22/34 (64%)
Query: 59 YPDVYTREELAQKTKLTEARVQVWFSNRRARLRK 92
YP +EELA+K +T ++V WF N+R R +K
Sbjct: 30 YPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKK 63
>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 = 35.6 bits (82), Expect = 0.001
Identities = 20/66 (30%), Positives = 30/66 (45%), Gaps = 7/66 (10%)
Query: 59 YPDVYTREELAQKTKLTEARVQVWFSNRRARLRKQLNSQQLNAFNSMSLHHQYADSAANF 118
YP +EELA+K +T ++V WF N+R R +K + Q A + YA A
Sbjct: 28 YPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKKNIGKFQEEA-------NIYAAKTAVT 80
Query: 119 SHQSHP 124
+
Sbjct: 81 ATNVSA 86
>3k2a_A Homeobox protein MEIS2; homeobox domain, DNA-binding,
transcription, nucleus, phosphoprotein, DNA bindi
protein; 1.95A {Homo sapiens}
Length = 67
Score = 34.6 bits (80), Expect = 0.002
Identities = 15/40 (37%), Positives = 22/40 (55%)
Query: 59 YPDVYTREELAQKTKLTEARVQVWFSNRRARLRKQLNSQQ 98
YP +++LAQ T LT +V WF N R R+ + + Q
Sbjct: 25 YPSEEQKKQLAQDTGLTILQVNNWFINARRRIVQPMIDQS 64
>2lk2_A Homeobox protein TGIF1; NESG, structural genomics, northeast
structural genomics CON PSI-biology, transcription; NMR
{Homo sapiens}
Length = 89
Score = 33.6 bits (77), Expect = 0.008
Identities = 14/48 (29%), Positives = 22/48 (45%)
Query: 59 YPDVYTREELAQKTKLTEARVQVWFSNRRARLRKQLNSQQLNAFNSMS 106
YP + L+Q+T L+ +V WF N R RL + + N +
Sbjct: 32 YPSEQEKALLSQQTHLSTLQVCNWFINARRRLLPDMLRKDGKDPNQFT 79
>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 = 32.8 bits (75), Expect = 0.012
Identities = 13/39 (33%), Positives = 21/39 (53%)
Query: 59 YPDVYTREELAQKTKLTEARVQVWFSNRRARLRKQLNSQ 97
YP ++++A +T LT +V WF N R R+ + S
Sbjct: 34 YPTEDEKKQIAAQTNLTLLQVNNWFINARRRILQSGPSS 72
>1wh5_A ZF-HD homeobox family protein; structural genomics, zinc finger
homeobox family protein, riken structural
genomics/proteomics initiative; NMR {Arabidopsis
thaliana} SCOP: a.4.1.1
Length = 80
Score = 32.7 bits (74), Expect = 0.012
Identities = 19/79 (24%), Positives = 30/79 (37%), Gaps = 5/79 (6%)
Query: 18 GDESDTESEPGIPLKRKQRRSRTTFTGDQLEEL----ERAFQRTQYPDVYTREELAQKTK 73
G + S + +R RT FT +Q E + ER R Q D + Q+T
Sbjct: 1 GSSGSSGSSAEAGGGIR-KRHRTKFTAEQKERMLALAERIGWRIQRQDDEVIQRFCQETG 59
Query: 74 LTEARVQVWFSNRRARLRK 92
+ ++VW N +
Sbjct: 60 VPRQVLKVWLHNNKHSGPS 78
>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 = 32.8 bits (75), Expect = 0.013
Identities = 14/48 (29%), Positives = 25/48 (52%)
Query: 59 YPDVYTREELAQKTKLTEARVQVWFSNRRARLRKQLNSQQLNAFNSMS 106
YP ++ L++KT L+ ++ WF N R R+ + Q+ N + S
Sbjct: 34 YPSEEEKQMLSEKTNLSLLQISNWFINARRRILPDMLQQRRNDPSGPS 81
>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 = 32.3 bits (73), Expect = 0.020
Identities = 19/79 (24%), Positives = 31/79 (39%), Gaps = 5/79 (6%)
Query: 18 GDESDTESEPGIPLKRKQRRSRTTFTGDQLEEL----ERAFQRTQYPDVYTREELAQKTK 73
G + S P +R RT FT +Q E++ ER R Q D E+ +T
Sbjct: 1 GSSGSSGSNPSSSGGTT-KRFRTKFTAEQKEKMLAFAERLGWRIQKHDDVAVEQFCAETG 59
Query: 74 LTEARVQVWFSNRRARLRK 92
+ +++W N +
Sbjct: 60 VRRQVLKIWMHNNKNSGPS 78
>1twf_A B220, DNA-directed RNA polymerase II largest subunit; transcription,
mRNA, multiprotein complex; HET: UTP; 2.30A
{Saccharomyces cerevisiae} SCOP: e.29.1.2 PDB: 1i3q_A
1i6h_A 1k83_A* 1nik_A 1nt9_A 1pqv_A 1r5u_A 1r9s_A*
1r9t_A* 1sfo_A* 1twa_A* 1twc_A* 1i50_A* 1twg_A* 1twh_A*
1wcm_A 1y1v_A 1y1w_A 1y1y_A 1y77_A* ...
Length = 1733
Score = 33.9 bits (77), Expect = 0.031
Identities = 22/100 (22%), Positives = 44/100 (44%), Gaps = 5/100 (5%)
Query: 110 QYADSAANFSHQS---HPTSWAQQAASYATAGAALTAGYNSHAYSSATPEFPVSGPGYHQ 166
Y+ ++ ++S S PTS + S + + + + S +YS +P + + P Y
Sbjct: 1555 AYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSP 1614
Query: 167 TNQHCADSTAAWSR--HHSSSTKSPVDVPSPWTSTTADNY 204
T+ + ++ ++S S T SP S T+ +Y
Sbjct: 1615 TSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSY 1654
Score = 33.9 bits (77), Expect = 0.036
Identities = 27/114 (23%), Positives = 42/114 (36%), Gaps = 8/114 (7%)
Query: 93 QLNSQQLNAFNSMSLHHQYA-DSAANFSHQSHPTSWAQQAASYATAGAALTAGYNSHAYS 151
S +++ S + S + S PTS + S + + + + S AYS
Sbjct: 1603 PSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPAYS 1662
Query: 152 SATPEFPVSGPGYHQTNQHCADSTAAWSRHHSSSTKSPVDVP-SPWTSTTADNY 204
+P + + P Y T S + S S SP P SP S T+ Y
Sbjct: 1663 PTSPSYSPTSPSYSPT------SPSYSPTSPSYSPTSPNYSPTSPSYSPTSPGY 1710
Score = 32.0 bits (72), Expect = 0.16
Identities = 26/112 (23%), Positives = 48/112 (42%), Gaps = 3/112 (2%)
Query: 96 SQQLNAFNSMSLHHQYADSAAN-FSHQSHPTSWAQQAASYATAGAALTAGYNSHAYSSAT 154
S +++ S + + + S PTS + S + + + + S +YS +
Sbjct: 1578 SPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTS 1637
Query: 155 PEFPVSGPGYHQTNQHCADSTAAWSRH-HSSSTKSPVDVP-SPWTSTTADNY 204
P + + P Y T+ + ++ A+S S S SP P SP S T+ +Y
Sbjct: 1638 PSYSPTSPSYSPTSPSYSPTSPAYSPTSPSYSPTSPSYSPTSPSYSPTSPSY 1689
Score = 30.8 bits (69), Expect = 0.31
Identities = 13/80 (16%), Positives = 33/80 (41%), Gaps = 4/80 (5%)
Query: 108 HHQYADSAANFSHQSHPTSWAQQAASYATAGAALTAGYNSHAYSSATPEFPVSGPGYHQT 167
Y+ ++ ++S PTS + S + + + + S YS +P + + PGY
Sbjct: 1658 SPAYSPTSPSYS----PTSPSYSPTSPSYSPTSPSYSPTSPNYSPTSPSYSPTSPGYSPG 1713
Query: 168 NQHCADSTAAWSRHHSSSTK 187
+ + + + +++
Sbjct: 1714 SPAYSPKQDEQKHNENENSR 1733
Score = 29.7 bits (66), Expect = 0.72
Identities = 23/103 (22%), Positives = 39/103 (37%), Gaps = 2/103 (1%)
Query: 104 SMSLHHQYADSAANFSHQSHPTSWAQQAASYATAGAALTAGYNSHAYSSATPEFPVSGPG 163
+ A A S +S S + + S +YS +P + + P
Sbjct: 1517 GEATSPFGAYGEAPTSPGFGVSSPGFSPTSPTYSPTSPAYSPTSPSYSPTSPSYSPTSPS 1576
Query: 164 YHQTNQHCADSTAAWSRHHSS-STKSPVDVP-SPWTSTTADNY 204
Y T+ + ++ ++S S S SP P SP S T+ +Y
Sbjct: 1577 YSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSY 1619
Score = 27.0 bits (59), Expect = 5.1
Identities = 14/71 (19%), Positives = 28/71 (39%)
Query: 119 SHQSHPTSWAQQAASYATAGAALTAGYNSHAYSSATPEFPVSGPGYHQTNQHCADSTAAW 178
S PTS + S + + + + S +YS +P + + P Y T+ + + A+
Sbjct: 1658 SPAYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPNYSPTSPSYSPTSPGYSPGSPAY 1717
Query: 179 SRHHSSSTKSP 189
S +
Sbjct: 1718 SPKQDEQKHNE 1728
>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 = 30.9 bits (69), Expect = 0.053
Identities = 10/59 (16%), Positives = 20/59 (33%)
Query: 38 SRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWFSNRRARLRKQLNS 96
S D + L+ + P+ +++ L + V+ WF R+ S
Sbjct: 8 SPINPYKDHMSVLKAYYAMNMEPNSDELLKISIAVGLPQEFVKEWFEQRKVYQYSNSRS 66
>3h0g_A DNA-directed RNA polymerase II subunit RPB1; transcription,
multi-protein complex, DNA- binding, magnesium; 3.65A
{Schizosaccharomyces pombe}
Length = 1752
Score = 31.6 bits (71), Expect = 0.17
Identities = 20/95 (21%), Positives = 37/95 (38%), Gaps = 9/95 (9%)
Query: 119 SHQSHPTSWAQQAASYATAGAALTAGYNSHAYSSATPEFPVSGPGYHQTNQHCADSTAAW 178
S PTS + S + + + + S +YS +P + + P Y T+ + ++ ++
Sbjct: 1617 SPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSY 1676
Query: 179 SRHHS---------SSTKSPVDVPSPWTSTTADNY 204
S S T SP S T+ +Y
Sbjct: 1677 SPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSY 1711
Score = 30.4 bits (68), Expect = 0.47
Identities = 21/102 (20%), Positives = 35/102 (34%), Gaps = 1/102 (0%)
Query: 104 SMSLHHQYADSAANFSHQSHPTSWAQQAASYATAGAALTAGYNSHAYSSATPEFPVSGPG 163
+ + AA FS S ++ A + + +P PG
Sbjct: 1491 MVDSGFVGSPDAAAFSPLVQGGSEGREGFGDYGLLGAASPYKGVQSPGYTSPFSSAMSPG 1550
Query: 164 YHQTNQHCADSTAAWSRHHSSSTKSPVDVP-SPWTSTTADNY 204
Y T+ + S+ +S + SP P SP S T+ +Y
Sbjct: 1551 YGLTSPSYSPSSPGYSTSPAYMPSSPSYSPTSPSYSPTSPSY 1592
Score = 28.5 bits (63), Expect = 1.8
Identities = 18/84 (21%), Positives = 40/84 (47%), Gaps = 5/84 (5%)
Query: 109 HQYADSAANFSHQS---HPTSWAQQAASYATAGAALTAGYNSHAYSSATPEFPVSGPGYH 165
Y+ ++ ++S S PTS + S + + + + S +YS +P + + P Y
Sbjct: 1667 PSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYS 1726
Query: 166 QTNQHCADSTAAWSRHHSSSTKSP 189
T+ + ++ ++S +S + SP
Sbjct: 1727 PTSPSYSPTSPSYS--PTSPSYSP 1748
Score = 28.1 bits (62), Expect = 2.6
Identities = 23/93 (24%), Positives = 43/93 (46%), Gaps = 4/93 (4%)
Query: 114 SAANFSHQSHPTSWAQQAASYATAGAALTAGYNSHAYSSATPEFPVSGPGYHQTNQHCAD 173
S + S+ S++ + SY+ + + S +YS +P + + P Y T+ +
Sbjct: 1656 SPTSPSYSPTSPSYSPTSPSYSPTSPSYSP--TSPSYSPTSPSYSPTSPSYSPTSPSYSP 1713
Query: 174 STAAWSRHHSS-STKSPVDVP-SPWTSTTADNY 204
++ ++S S S SP P SP S T+ +Y
Sbjct: 1714 TSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSY 1746
Score = 27.7 bits (61), Expect = 3.4
Identities = 21/103 (20%), Positives = 36/103 (34%), Gaps = 2/103 (1%)
Query: 104 SMS-LHHQYADSAANFSHQSHPTSWAQQAASYATAGAALTAGYNSHAYSSATPEFPVSGP 162
+ S L ++ F + + + + + S Y +P + S P
Sbjct: 1504 AFSPLVQGGSEGREGFGDYGLLGAASPYKGVQSPGYTSPFSSAMSPGYGLTSPSYSPSSP 1563
Query: 163 GYHQTNQHCADSTAAWSRHHSSSTKSPVDVP-SPWTSTTADNY 204
GY + + S + S S SP P SP S T+ +Y
Sbjct: 1564 GYSTSPAYMPSSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSY 1606
Score = 27.3 bits (60), Expect = 4.8
Identities = 20/85 (23%), Positives = 39/85 (45%), Gaps = 6/85 (7%)
Query: 124 PTSWAQQAASYATAGAALTAGYNSHAYSSATPEFPVSGPGYHQTNQHCADSTAAWSRHHS 183
PTS + S + + + + S +YS +P + + P Y T+ + ++ ++S +
Sbjct: 1594 PTSPSYSPTSPSYSATSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYS--PT 1651
Query: 184 SSTKSPVDV----PSPWTSTTADNY 204
S + SP SP S T+ +Y
Sbjct: 1652 SPSYSPTSPSYSPTSPSYSPTSPSY 1676
Score = 27.0 bits (59), Expect = 5.6
Identities = 22/88 (25%), Positives = 39/88 (44%), Gaps = 2/88 (2%)
Query: 119 SHQSHPTSWAQQAASYATAGAALTAGYNSHAYSSATPEFPVSGPGYHQTNQHCADSTAAW 178
S TS + S + + + + S +YS +P + + P Y T+ + ++ ++
Sbjct: 1603 SPSYSATSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSY 1662
Query: 179 S-RHHSSSTKSPVDVP-SPWTSTTADNY 204
S S S SP P SP S T+ +Y
Sbjct: 1663 SPTSPSYSPTSPSYSPTSPSYSPTSPSY 1690
>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 = 30.4 bits (68), Expect = 0.30
Identities = 13/64 (20%), Positives = 25/64 (39%), Gaps = 4/64 (6%)
Query: 9 LWVVGRPSSGDESDTESEPGIPLKRKQR----RSRTTFTGDQLEELERAFQRTQYPDVYT 64
+ P D SD+E E + + +++T FT +L+ L R F+ +
Sbjct: 51 ILSSAAPQGSDSSDSELELSTVRHQPEGLDQLQAQTKFTKKELQSLYRGFKNECPTGLVD 110
Query: 65 REEL 68
+
Sbjct: 111 EDTF 114
>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 = 30.2 bits (68), Expect = 0.53
Identities = 19/59 (32%), Positives = 31/59 (52%)
Query: 31 LKRKQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWFSNRRAR 89
L Q + + LE+ F+R Q + +EE+A+K +T +V+VWF N+R R
Sbjct: 361 LAAAQTAAAAAISPQARAFLEQVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMR 419
>1quu_A Human skeletal muscle alpha-actinin 2; triple-helix coiled coil,
contractIle protein; 2.50A {Homo sapiens} SCOP: a.7.1.1
a.7.1.1
Length = 250
Score = 29.6 bits (66), Expect = 0.63
Identities = 8/67 (11%), Positives = 23/67 (34%)
Query: 34 KQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWFSNRRARLRKQ 93
R +++E++ +++ + + +V+ R L+++
Sbjct: 182 DGERQSIMAIQNEVEKVIQSYNIRISSSNPYSTVTMDELRTKWDKVKQLVPIRDQSLQEE 241
Query: 94 LNSQQLN 100
L Q N
Sbjct: 242 LARQHAN 248
>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 = 29.2 bits (65), Expect = 0.75
Identities = 16/61 (26%), Positives = 25/61 (40%), Gaps = 4/61 (6%)
Query: 14 RPSSGDESDTESEPGIPLKRKQR----RSRTTFTGDQLEELERAFQRTQYPDVYTREELA 69
R S D+ + E E + R + ++T FT +L+ L R F+ V E
Sbjct: 16 RRPSKDKIEDELEMTMVCHRPEGLEQLEAQTNFTKRELQVLYRGFKNECPSGVVNEETFK 75
Query: 70 Q 70
Q
Sbjct: 76 Q 76
>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 = 29.1 bits (64), Expect = 1.2
Identities = 15/137 (10%), Positives = 35/137 (25%), Gaps = 30/137 (21%)
Query: 1 MDQDYQ------DDLW---------------VVGRPSSGDESDTESEPGIPLKR-KQRRS 38
+ Y+ ++ + R + T+
Sbjct: 239 KSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTR----FKQVTDFLSAATTTHISLDHH 294
Query: 39 RTTFTGDQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWFSNRRARLR--KQLNS 96
T T D+++ L + + D+ E+ + + + A K +N
Sbjct: 295 SMTLTPDEVKSLLLKYLDCRPQDL--PREVLTTNPRRLSIIAESIRDGLATWDNWKHVNC 352
Query: 97 QQLNAFNSMSLHHQYAD 113
+L SL+
Sbjct: 353 DKLTTIIESSLNVLEPA 369
Score = 26.4 bits (57), Expect = 8.2
Identities = 22/123 (17%), Positives = 31/123 (25%), Gaps = 27/123 (21%)
Query: 6 QDDLWVVGRPSSGDESDTESEPGIPLKRKQRRSRTTFTGDQLEELERAFQRTQYP----- 60
L P+ SD I L+ EL R + Y
Sbjct: 202 LQKLLYQIDPNWTSRSD--HSSNIKLR----------IHSIQAELRRLLKSKPYENCLLV 249
Query: 61 --DVYTREELAQ-----KTKLTEARVQVWF---SNRRARLRKQLNSQQLNAFNSMSLHHQ 110
+V + K LT QV + + +S L SL +
Sbjct: 250 LLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLK 309
Query: 111 YAD 113
Y D
Sbjct: 310 YLD 312
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 29.2 bits (65), Expect = 1.2
Identities = 10/74 (13%), Positives = 19/74 (25%), Gaps = 15/74 (20%)
Query: 112 ADSAANFSHQSHPT----SW----AQQAASYATAGAALTAGYNSHAYSSATPEFPVSGPG 163
DS +F + +A + ++ + +P +S
Sbjct: 286 TDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLT 345
Query: 164 YHQ-------TNQH 170
Q TN H
Sbjct: 346 QEQVQDYVNKTNSH 359
Score = 26.2 bits (57), Expect = 9.8
Identities = 38/251 (15%), Positives = 55/251 (21%), Gaps = 95/251 (37%)
Query: 3 QDYQDDLWVVGRPSSGDESDTESEPGIPLKRKQRRSRTTFT--GDQ------LEELERAF 54
++Y + RP + + + G Q EEL
Sbjct: 124 KNYITARIMAKRPF------DKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEEL---- 173
Query: 55 QRTQYPDVYTREELAQKTKLTEARVQVWFSNRRARLRKQLNSQQLNA-------FNSMS- 106
R Y Y V L +L L+A N +
Sbjct: 174 -RDLY-QTY------------HVLVGDLIKFSAETL-SELIRTTLDAEKVFTQGLNILEW 218
Query: 107 LHH-------QYADSAANFSHQSHPTSW----AQQAASYATAGAALTAGYN--------- 146
L + Y S P S Q A Y L G+
Sbjct: 219 LENPSNTPDKDYLLSI--------PISCPLIGVIQLAHYVVTAKLL--GFTPGELRSYLK 268
Query: 147 -----------SHAYSSAT--PEFPVSGP---------GYHQTNQHCADSTAAWSRHHSS 184
+ A + F VS G +T+
Sbjct: 269 GATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVR--CYEAYPNTSLPPSILED 326
Query: 185 STKSPVDVPSP 195
S ++ VPSP
Sbjct: 327 SLENNEGVPSP 337
>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 = 26.3 bits (57), Expect = 1.9
Identities = 11/42 (26%), Positives = 21/42 (50%)
Query: 46 QLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWFSNRR 87
++ LER + Q +L+Q ++L+ +V WF +R
Sbjct: 17 DIQPLERYWAAHQQLRETDIPQLSQASRLSTQQVLDWFDSRL 58
>1avs_A Troponin C; muscle contraction, calcium-activated, E-F hand
calcium-binding protein; 1.75A {Gallus gallus} SCOP:
a.39.1.5 PDB: 1blq_A 1skt_A 1tnp_A 1tnq_A 1zac_A 1smg_A
1npq_A 1trf_A
Length = 90
Score = 26.8 bits (60), Expect = 2.1
Identities = 5/24 (20%), Positives = 12/24 (50%)
Query: 31 LKRKQRRSRTTFTGDQLEELERAF 54
+ +Q +R + + + E + AF
Sbjct: 3 MTDQQAEARAFLSEEMIAEFKAAF 26
>1top_A Troponin C; contractIle system protein; 1.78A {Gallus gallus}
SCOP: a.39.1.5 PDB: 1ncy_A 1ncz_A 1ncx_A 1ytz_C* 1yv0_C
1tnw_A 1tnx_A 5tnc_A 2w49_0 2w4u_0 4tnc_A 1a2x_A 1tcf_A
1tn4_A 2tn4_A 1aj4_A 1jc2_A 1fi5_A 1sbj_A 1scv_A ...
Length = 162
Score = 27.5 bits (62), Expect = 2.3
Identities = 5/26 (19%), Positives = 12/26 (46%)
Query: 30 PLKRKQRRSRTTFTGDQLEELERAFQ 55
+ +Q +R + + + E + AF
Sbjct: 2 SMTDQQAEARAFLSEEMIAEFKAAFD 27
>3dtp_E RLC, myosin regulatory light chain; muscle protein, smooth
muscle, myosin subfragment 2, heavy meromyosin,
essential light chain; 20.00A {Avicularia avicularia}
Length = 196
Score = 27.7 bits (62), Expect = 2.5
Identities = 12/47 (25%), Positives = 20/47 (42%), Gaps = 6/47 (12%)
Query: 15 PSSGDESDTESEPGIPLKRKQRRSRTT------FTGDQLEELERAFQ 55
G ++ P +K+R R+ FT Q++E + AFQ
Sbjct: 18 EEEGGDAPAAPPAPKPPSQKRRAQRSGSNVFAMFTQHQVQEFKEAFQ 64
>3qrx_A Centrin; calcium-binding, EF-hand, cell division, calcium
binding, ME binding protein-toxin complex; 2.20A
{Chlamydomonas reinhardtii} PDB: 2ggm_A 2ami_A 1zmz_A
Length = 169
Score = 27.2 bits (61), Expect = 2.6
Identities = 8/24 (33%), Positives = 14/24 (58%)
Query: 32 KRKQRRSRTTFTGDQLEELERAFQ 55
+R Q++ R T +Q +E+ AF
Sbjct: 12 RRDQKKGRVGLTEEQKQEIREAFD 35
>1s6c_A KV4 potassium channel-interacting protein kchip1B; EF-hand,
transport protein; 2.00A {Rattus norvegicus} SCOP:
a.39.1.5 PDB: 2nz0_A 2i2r_E
Length = 183
Score = 27.1 bits (60), Expect = 3.2
Identities = 11/37 (29%), Positives = 17/37 (45%)
Query: 34 KQRRSRTTFTGDQLEELERAFQRTQYPDVYTREELAQ 70
+Q ++T FT +L+ L R F+ V E Q
Sbjct: 7 EQLEAQTNFTKRELQVLYRGFKNEXPSGVVNEETFKQ 43
>3il0_A Aminopeptidase P; XAA-Pro aminopeptidase; structural genomics MCSG,
protein structure initiative, midwest center for STRU
genomics; HET: GOL; 2.20A {Streptococcus thermophilus}
Length = 131
Score = 26.5 bits (59), Expect = 3.6
Identities = 5/20 (25%), Positives = 7/20 (35%)
Query: 83 FSNRRARLRKQLNSQQLNAF 102
R R +L L+A
Sbjct: 4 MQRRLERFDAKLVQSGLDAL 23
>3qoc_A Putative metallopeptidase; MCSG, PSI-2, structural genomics,
midwest center for structu genomics, hydrolase; HET:
MSE; 2.15A {Corynebacterium diphtheriae}
Length = 135
Score = 26.6 bits (59), Expect = 3.8
Identities = 7/20 (35%), Positives = 12/20 (60%)
Query: 83 FSNRRARLRKQLNSQQLNAF 102
F RR L QL +++++A
Sbjct: 10 FLQRRRALSAQLAAKRIDAM 29
>3ovk_A Aminopeptidase P, XAA-Pro dipeptidase; structural genomics, PSI-2,
protein structure initiative, MI center for structural
genomics, MCSG; 2.00A {Streptococcus pyogenes}
Length = 132
Score = 26.6 bits (59), Expect = 4.0
Identities = 4/20 (20%), Positives = 7/20 (35%)
Query: 83 FSNRRARLRKQLNSQQLNAF 102
R +Q+ + L A
Sbjct: 8 LEQRLGHCLRQMAEKGLEAL 27
>3mzy_A RNA polymerase sigma-H factor; PSI, MCSG, structural genomics,
midwest center for structura genomics, protein structure
initiative; 2.50A {Fusobacterium nucleatum subsp}
Length = 164
Score = 26.7 bits (59), Expect = 4.1
Identities = 5/54 (9%), Positives = 16/54 (29%), Gaps = 1/54 (1%)
Query: 45 DQLEELERAFQRTQYPDVYTREELAQKTKLTEARVQVWFSNRRARLRKQLNSQQ 98
+ + E+ Y+ E+A + R + + + ++
Sbjct: 108 NNFSKFEKEVLT-YLIRGYSYREIATILSKNLKSIDNTIQRIRKKSEEWIKEEE 160
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
0.311 0.121 0.363
Gapped
Lambda K H
0.267 0.0588 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,042,224
Number of extensions: 158132
Number of successful extensions: 554
Number of sequences better than 10.0: 1
Number of HSP's gapped: 509
Number of HSP's successfully gapped: 112
Length of query: 205
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 116
Effective length of database: 4,216,824
Effective search space: 489151584
Effective search space used: 489151584
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 55 (25.3 bits)