RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7434
(91 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 = 88.2 bits (219), Expect = 5e-25
Identities = 27/51 (52%), Positives = 36/51 (70%)
Query: 40 PPPKRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERVE 90
+R+RT FT+EQ+E LE FE+THYPDV RE+LA K+DL E R++
Sbjct: 2 SSGSSGQRNRTSFTQEQIEALEKEFERTHYPDVFARERLAAKIDLPEARIQ 52
>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 = 87.0 bits (216), Expect = 2e-24
Identities = 23/55 (41%), Positives = 36/55 (65%)
Query: 35 SQHSAPPPKRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERV 89
S+ +++RR RT F+ QL++LE FE+T YPD+ RE+LA + +L E R+
Sbjct: 8 SEPGIALKRKQRRSRTTFSASQLDELERAFERTQYPDIYTREELAQRTNLTEARI 62
>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 = 86.2 bits (214), Expect = 2e-24
Identities = 32/51 (62%), Positives = 37/51 (72%)
Query: 40 PPPKRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERVE 90
RRHRTIFT+EQLE LE F++T YPDV REQLA KV L+EE+VE
Sbjct: 2 SSGSSGRRHRTIFTDEQLEALENLFQETKYPDVGTREQLARKVHLREEKVE 52
>2dms_A Homeobox protein OTX2; homeobox domain, three helices with the
DNA binding helix- turn-helix motif, structural
genomics, NPPSFA; NMR {Mus musculus}
Length = 80
Score = 84.0 bits (208), Expect = 2e-23
Identities = 26/50 (52%), Positives = 34/50 (68%)
Query: 41 PPKRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERVE 90
RR RT FT QL+ LEA F KT YPD+ +RE++ALK++L E RV+
Sbjct: 3 SGSSGRRERTTFTRAQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQ 52
>2k40_A Homeobox expressed in ES cells 1; thermostable homeodomain
variant, DNA binding protein, developmental protein,
disease mutation, DNA-binding; NMR {Homo sapiens}
Length = 67
Score = 82.4 bits (204), Expect = 6e-23
Identities = 19/45 (42%), Positives = 29/45 (64%)
Query: 46 RRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERVE 90
RR RT FT+ Q+E LE F YP + + E LA K++L+ +R++
Sbjct: 2 RRPRTAFTQNQIEVLENVFRVNCYPGIDILEDLAQKLNLELDRIQ 46
>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 = 80.8 bits (200), Expect = 3e-22
Identities = 24/47 (51%), Positives = 34/47 (72%)
Query: 44 RKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERVE 90
+RR RT FT +QL+QLEATF++ YPD+ RE++A+ +L E RV
Sbjct: 2 SQRRQRTHFTSQQLQQLEATFQRNRYPDMSTREEIAVWTNLTEARVR 48
>2dmq_A LIM/homeobox protein LHX9; homeobox domain, three helices with
the DNA binding helix- turn-helix motif, structural
genomics, NPPSFA; NMR {Homo sapiens}
Length = 80
Score = 80.6 bits (199), Expect = 4e-22
Identities = 15/48 (31%), Positives = 22/48 (45%)
Query: 42 PKRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERV 89
+R RT F QL +++ F H PD +QLA K L + +
Sbjct: 4 GSSGKRMRTSFKHHQLRTMKSYFAINHNPDAKDLKQLAQKTGLTKRVL 51
>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 = 78.9 bits (195), Expect = 2e-21
Identities = 15/48 (31%), Positives = 22/48 (45%)
Query: 42 PKRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERV 89
R RT FT+ QL L+ F+ YP EQL+ ++L +
Sbjct: 4 GSSGRSSRTRFTDYQLRVLQDFFDANAYPKDDEFEQLSNLLNLPTRVI 51
>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 = 76.4 bits (188), Expect = 2e-20
Identities = 17/49 (34%), Positives = 25/49 (51%)
Query: 41 PPKRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERV 89
P+R +R RT T EQLE L + P + + +A +V LK+ V
Sbjct: 13 EPQRDKRLRTTITPEQLEILYQKYLLDSNPTRKMLDHIAHEVGLKKRVV 61
>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 = 74.7 bits (184), Expect = 6e-20
Identities = 13/47 (27%), Positives = 21/47 (44%)
Query: 44 RKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERVE 90
+ R RT+ E+QL L + PD +++EQL L +
Sbjct: 2 KTTRVRTVLNEKQLHTLRTCYAANPRPDALMKEQLVEMTGLSPRVIR 48
>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 = 74.2 bits (183), Expect = 9e-20
Identities = 22/42 (52%), Positives = 29/42 (69%)
Query: 49 RTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERVE 90
FT QLE+LE F +THYPDV RE+LA+K+ L E R++
Sbjct: 3 HMTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQ 44
>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 = 71.6 bits (176), Expect = 1e-18
Identities = 12/48 (25%), Positives = 23/48 (47%)
Query: 42 PKRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERV 89
+R RT T++QL L F+ + P +++A K L ++ +
Sbjct: 4 GSSGKRPRTRITDDQLRVLRQYFDINNSPSEEQIKEMADKSGLPQKVI 51
>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 = 65.9 bits (161), Expect = 2e-16
Identities = 14/46 (30%), Positives = 22/46 (47%), Gaps = 1/46 (2%)
Query: 46 RRHRTIFTEEQLEQLEATFEKTH-YPDVVLREQLALKVDLKEERVE 90
TE+Q+E LE F K + +PD +A + L EE+ +
Sbjct: 2 SEGAATMTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQ 47
>2hi3_A Homeodomain-only protein; transcription; NMR {Mus musculus} SCOP:
a.4.1.1
Length = 73
Score = 65.5 bits (160), Expect = 3e-16
Identities = 14/46 (30%), Positives = 24/46 (52%), Gaps = 1/46 (2%)
Query: 46 RRHRTIFTEEQLEQLEATFEKTH-YPDVVLREQLALKVDLKEERVE 90
+ + TE+Q+E LE F K + +PD +A + L EE+ +
Sbjct: 3 AQTVSGPTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQ 48
>2cuf_A FLJ21616 protein; homeobox domain, hepatocyte transcription
factor, structural genomics, loop insertion, NPPSFA;
NMR {Homo sapiens} SCOP: a.4.1.1
Length = 95
Score = 63.5 bits (154), Expect = 4e-15
Identities = 12/48 (25%), Positives = 22/48 (45%)
Query: 41 PPKRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEER 88
R R + +E L +E+ F + YPD RE++A + ++
Sbjct: 3 SGSSGRGSRFTWRKECLAVMESYFNENQYPDEAKREEIANACNAVIQK 50
>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 = 63.1 bits (153), Expect = 2e-14
Identities = 17/55 (30%), Positives = 27/55 (49%)
Query: 35 SQHSAPPPKRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERV 89
+ P +KR+ RT FT + +E L A FEK P ++A +++ E V
Sbjct: 83 MEFVGGEPSKKRKRRTSFTPQAIEALNAYFEKNPLPTGQEITEMAKELNYDREVV 137
>2dn0_A Zinc fingers and homeoboxes protein 3; triple homeobox 1 protein,
KIAA0395, TIX1, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 76
Score = 59.7 bits (145), Expect = 7e-14
Identities = 10/49 (20%), Positives = 17/49 (34%)
Query: 41 PPKRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERV 89
++ + EQL L+ +F + +P E L L V
Sbjct: 4 GSSGASIYKNKKSHEQLSALKGSFCRNQFPGQSEVEHLTKVTGLSTREV 52
>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 = 61.0 bits (147), Expect = 3e-13
Identities = 12/57 (21%), Positives = 20/57 (35%)
Query: 35 SQHSAPPPKRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERVEP 91
P K+ RR+R + + L +E+ P RE L + + E
Sbjct: 105 PTGDELPTKKGRRNRFKWGPASQQILFQAYERQKNPSKEERETLVEECNRAECIQRG 161
>1au7_A Protein PIT-1, GHF-1; complex (DNA-binding protein/DNA), pituitary,
CPHD, POU domain, transcription factor,
transcription/DNA complex; HET: DNA; 2.30A {Rattus
norvegicus} SCOP: a.4.1.1 a.35.1.1
Length = 146
Score = 59.6 bits (144), Expect = 4e-13
Identities = 15/73 (20%), Positives = 27/73 (36%)
Query: 17 LYPGYMTHAAATIAAMAASQHSAPPPKRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLRE 76
L A +RKR+ RT + + LE F + P
Sbjct: 59 LKAILSKWLEEAEQVGALYNEKVGANERKRKRRTTISIAAKDALERHFGEHSKPSSQEIM 118
Query: 77 QLALKVDLKEERV 89
++A +++L++E V
Sbjct: 119 RMAEELNLEKEVV 131
>2xsd_C POU domain, class 3, transcription factor 1; transcription-DNA
complex, SOX; 2.05A {Mus musculus}
Length = 164
Score = 57.7 bits (139), Expect = 3e-12
Identities = 15/54 (27%), Positives = 20/54 (37%)
Query: 36 QHSAPPPKRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERV 89
RKR+ RT LE+ F K P LA + L++E V
Sbjct: 90 LDKIAAQGRKRKKRTSIEVGVKGALESHFLKCPKPSAHEITGLADSLQLEKEVV 143
>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 = 56.3 bits (135), Expect = 8e-12
Identities = 12/55 (21%), Positives = 23/55 (41%)
Query: 35 SQHSAPPPKRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERV 89
S + ++R RT LE F K+ P + +A ++ L+++ V
Sbjct: 86 ISKSETLVQARKRKRTSIENRVRWSLETMFLKSPKPSLQQITHIANQLGLEKDVV 140
>2h8r_A Hepatocyte nuclear factor 1-beta; trasncription factor, POU, homeo,
protein-DNA, human disease; 3.20A {Homo sapiens}
Length = 221
Score = 57.3 bits (137), Expect = 8e-12
Identities = 12/57 (21%), Positives = 21/57 (36%)
Query: 35 SQHSAPPPKRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERVEP 91
S P K+ RR+R + + L +++ P RE L + + E
Sbjct: 132 DACSEPTNKKMRRNRFKWGPASQQILYQAYDRQKNPSKEEREALVEECNRAECLQRG 188
>1lfb_A Liver transcription factor (LFB1); transcription regulation;
2.80A {Rattus norvegicus} SCOP: a.4.1.1 PDB: 2lfb_A
Length = 99
Score = 54.8 bits (131), Expect = 1e-11
Identities = 12/51 (23%), Positives = 20/51 (39%)
Query: 41 PPKRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERVEP 91
P K+ RR+R + + L +E+ P RE L + + E
Sbjct: 5 PTKKGRRNRFKWGPASQQILFQAYERQKNPSKEERETLVEECNRAECIQRG 55
>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 = 55.0 bits (132), Expect = 3e-11
Identities = 10/55 (18%), Positives = 23/55 (41%)
Query: 35 SQHSAPPPKRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERV 89
+ R+R+ RT LE +F + P +A ++++++E +
Sbjct: 91 NSPGIEGLSRRRKKRTSIETNIRVALEKSFMENQKPTSEDITLIAEQLNMEKEVI 145
>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 = 52.5 bits (126), Expect = 4e-11
Identities = 12/47 (25%), Positives = 20/47 (42%), Gaps = 1/47 (2%)
Query: 44 RKRRHRTIFTEEQLEQLEATFEKT-HYPDVVLREQLALKVDLKEERV 89
R RT + E L L++ YPD L+ ++DL + +
Sbjct: 6 SGPRSRTKISLEALGILQSFIHDVGLYPDQEAIHTLSAQLDLPKHTI 52
>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 = 50.2 bits (120), Expect = 3e-10
Identities = 11/44 (25%), Positives = 20/44 (45%)
Query: 46 RRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERV 89
H T+EQ+ L+A+F ++ +PD +L L +
Sbjct: 5 HHHHRKKTKEQIAHLKASFLQSQFPDDAEVYRLIEVTGLARSEI 48
>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 = 49.4 bits (118), Expect = 8e-10
Identities = 21/57 (36%), Positives = 28/57 (49%)
Query: 33 AASQHSAPPPKRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERV 89
++ K+ RR RT+FTE QL LE FEK Y R LA + L + +V
Sbjct: 5 SSGGEPGTKAKKGRRSRTVFTELQLMGLEKRFEKQKYLSTPDRIDLAESLGLSQLQV 61
>2dmp_A Zinc fingers and homeoboxes protein 2; homeobox domain, three
helices with the DNA binding helix- turn-helix motif,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 89
Score = 49.2 bits (117), Expect = 1e-09
Identities = 11/57 (19%), Positives = 26/57 (45%), Gaps = 2/57 (3%)
Query: 33 AASQHSAPPPKRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERV 89
+ S + P ++ T+ Q++ LE +F K+ +P ++L ++ L +
Sbjct: 3 SGSSGAYPDFAPQKFKEK--TQGQVKILEDSFLKSSFPTQAELDRLRVETKLSRREI 57
>2kt0_A Nanog, homeobox protein nanog; homeodomain, structural genomics,
protein structure initiative, PSI, center for
eukaryotic structural genomics; NMR {Homo sapiens}
Length = 84
Score = 49.0 bits (117), Expect = 1e-09
Identities = 13/57 (22%), Positives = 31/57 (54%)
Query: 33 AASQHSAPPPKRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERV 89
+ ++ P +K++ RT+F+ QL L F++ Y + ++L+ ++L ++V
Sbjct: 10 SVAKKEDKVPVKKQKTRTVFSSTQLCVLNDRFQRQKYLSLQQMQELSNILNLSYKQV 66
>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 = 48.4 bits (115), Expect = 2e-09
Identities = 14/56 (25%), Positives = 24/56 (42%), Gaps = 5/56 (8%)
Query: 35 SQHSAPPPKRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERVE 90
S S+ P K K R EQL LE++F + P ++L + + ++
Sbjct: 2 SSGSSGPTKYKER-----APEQLRALESSFAQNPLPLDEELDRLRSETKMTRREID 52
>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 = 48.5 bits (115), Expect = 2e-09
Identities = 12/57 (21%), Positives = 21/57 (36%), Gaps = 2/57 (3%)
Query: 33 AASQHSAPPPKRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERV 89
+S S P ++ T EQL L+A+F + +L + L +
Sbjct: 1 GSSGSSGPDFTPQKFKEK--TAEQLRVLQASFLNSSVLTDEELNRLRAQTKLTRREI 55
>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 = 47.1 bits (112), Expect = 6e-09
Identities = 18/52 (34%), Positives = 26/52 (50%)
Query: 38 SAPPPKRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERV 89
S P +KR+ R +FT+ Q +LE F + Y RE LA + L +V
Sbjct: 2 SDGLPNKKRKRRVLFTKAQTYELERRFRQQRYLSAPEREHLASLIRLTPTQV 53
>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 = 46.4 bits (111), Expect = 7e-09
Identities = 7/48 (14%), Positives = 21/48 (43%)
Query: 43 KRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERVE 90
++ + ++ + + LE F + + +E++A K + +V
Sbjct: 3 EKSPKGKSSISPQARAFLEEVFRRKQSLNSKEKEEVAKKCGITPLQVR 50
>2djn_A Homeobox protein DLX-5; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 70
Score = 45.9 bits (109), Expect = 2e-08
Identities = 16/49 (32%), Positives = 26/49 (53%)
Query: 41 PPKRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERV 89
R+ RTI++ QL L+ F+KT Y + R +LA + L + +V
Sbjct: 3 SGSSGRKPRTIYSSFQLAALQRRFQKTQYLALPERAELAASLGLTQTQV 51
>3rkq_A Homeobox protein NKX-2.5; helix-turn-helix, DNA binding, nucleus,
transcription-DNA CO; 1.70A {Homo sapiens}
Length = 58
Score = 44.5 bits (106), Expect = 4e-08
Identities = 14/45 (31%), Positives = 26/45 (57%)
Query: 45 KRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERV 89
+R+ R +F++ Q+ +LE F++ Y R+QLA + L +V
Sbjct: 2 RRKPRVLFSQAQVYELERRFKQQRYLSAPERDQLASVLKLTSTQV 46
>2vi6_A Homeobox protein nanog; homeodomain, DNA-binding, transcription,
transcription facto developmental protein,
transcription regulation, NUC homeobox; 2.6A {Mus
musculus}
Length = 62
Score = 44.2 bits (105), Expect = 6e-08
Identities = 13/46 (28%), Positives = 28/46 (60%)
Query: 44 RKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERV 89
K++ RT+F++ QL L+ F+K Y + ++L+ ++L ++V
Sbjct: 2 TKQKMRTVFSQAQLCALKDRFQKQKYLSLQQMQELSSILNLSYKQV 47
>3a01_A Homeodomain-containing protein; homeodomain, protein-DNA complex,
DNA-binding, homeobox, NUC developmental protein; 2.70A
{Drosophila melanogaster}
Length = 93
Score = 44.1 bits (104), Expect = 1e-07
Identities = 15/55 (27%), Positives = 26/55 (47%)
Query: 35 SQHSAPPPKRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERV 89
+ P ++++ RT FT Q+ +LE F K Y R LA + + + +V
Sbjct: 7 HPYQNRTPPKRKKPRTSFTRIQVAELEKRFHKQKYLASAERAALARGLKMTDAQV 61
>2d5v_A Hepatocyte nuclear factor 6; transcription factor,
transcription-DNA complex; 2.00A {Rattus norvegicus}
PDB: 1s7e_A
Length = 164
Score = 45.2 bits (106), Expect = 1e-07
Identities = 12/56 (21%), Positives = 25/56 (44%)
Query: 35 SQHSAPPPKRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERVE 90
+H ++ R +FT+ Q L A F++ P L+ ++ ++ L+ V
Sbjct: 87 QEHGKDRGNTPKKPRLVFTDVQRRTLHAIFKENKRPSKELQITISQQLGLELSTVS 142
>1ig7_A Homeotic protein MSX-1; helix-turn-helix, transcription/DNA
complex; 2.20A {Mus musculus} SCOP: a.4.1.1
Length = 58
Score = 43.0 bits (102), Expect = 2e-07
Identities = 15/44 (34%), Positives = 22/44 (50%)
Query: 46 RRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERV 89
R+ RT FT QL LE F + Y + R + + + L E +V
Sbjct: 1 RKPRTPFTTAQLLALERKFRQKQYLSIAERAEFSSSLSLTETQV 44
>2l9r_A Homeobox protein NKX-3.1; structural genomics, northeast
structural genomics consortiu PSI-biology, protein
structure initiative; NMR {Homo sapiens}
Length = 69
Score = 42.7 bits (101), Expect = 3e-07
Identities = 12/46 (26%), Positives = 18/46 (39%)
Query: 44 RKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERV 89
H + + Q+ +LE F Y R LA + L E +V
Sbjct: 3 HHHHHHSHMSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQV 48
>1ftt_A TTF-1 HD, thyroid transcription factor 1 homeodomain; DNA binding
protein; NMR {Rattus norvegicus} SCOP: a.4.1.1
Length = 68
Score = 42.0 bits (99), Expect = 5e-07
Identities = 14/45 (31%), Positives = 25/45 (55%)
Query: 45 KRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERV 89
+R+ R +F++ Q+ +LE F++ Y RE LA + L +V
Sbjct: 2 RRKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQV 46
>3nar_A ZHX1, zinc fingers and homeoboxes protein 1; corepressor,
homeodomain, structural genomics, oxford production
facility, OPPF, transcription; 2.60A {Homo sapiens}
Length = 96
Score = 40.9 bits (95), Expect = 3e-06
Identities = 12/60 (20%), Positives = 22/60 (36%)
Query: 30 AAMAASQHSAPPPKRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERV 89
+ + P T EQL L++ F +T +P ++LA + L +
Sbjct: 10 SGLEVLFQGPAPKSGSTGKICKKTPEQLHMLKSAFVRTQWPSPEEYDKLAKESGLARTDI 69
>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 = 40.1 bits (94), Expect = 3e-06
Identities = 13/51 (25%), Positives = 22/51 (43%)
Query: 39 APPPKRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERV 89
+ + F+ +Q +LE FE Y R++LA + L E +V
Sbjct: 1 GSSGSSGKGGQVRFSNDQTIELEKKFETQKYLSPPERKRLAKMLQLSERQV 51
>3a03_A T-cell leukemia homeobox protein 2; homeodomain, developmental
protein, DNA-binding, N gene regulation; 1.54A {Homo
sapiens}
Length = 56
Score = 38.8 bits (91), Expect = 8e-06
Identities = 11/40 (27%), Positives = 19/40 (47%)
Query: 50 TIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERV 89
T F+ Q+ +LE F + Y R LA + + + +V
Sbjct: 2 TSFSRSQVLELERRFLRQKYLASAERAALAKALRMTDAQV 41
>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 = 38.4 bits (89), Expect = 2e-05
Identities = 10/40 (25%), Positives = 21/40 (52%)
Query: 30 AAMAASQHSAPPPKRKRRHRTIFTEEQLEQLEATFEKTHY 69
++ ++ + + +R RT FT EQ E++ A E+ +
Sbjct: 2 SSGSSGSNPSSSGGTTKRFRTKFTAEQKEKMLAFAERLGW 41
>2ecc_A Homeobox and leucine zipper protein homez; homeobox domain,
transcription factor, leucine zipper- containing
factor, structural genomics, NPPSFA; NMR {Homo sapiens}
SCOP: a.4.1.1
Length = 76
Score = 36.1 bits (83), Expect = 1e-04
Identities = 10/51 (19%), Positives = 20/51 (39%), Gaps = 5/51 (9%)
Query: 39 APPPKRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERV 89
+ KR+ T+EQL L++ F + + ++L L +
Sbjct: 2 SSGSSGKRK-----TKEQLAILKSFFLQCQWARREDYQKLEQITGLPRPEI 47
>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 = 36.1 bits (83), Expect = 2e-04
Identities = 11/37 (29%), Positives = 21/37 (56%)
Query: 30 AAMAASQHSAPPPKRKRRHRTIFTEEQLEQLEATFEK 66
++ ++ + ++RHRT FT EQ E++ A E+
Sbjct: 2 SSGSSGSSAEAGGGIRKRHRTKFTAEQKERMLALAER 38
>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 = 34.8 bits (80), Expect = 4e-04
Identities = 11/49 (22%), Positives = 21/49 (42%), Gaps = 5/49 (10%)
Query: 43 KRKRRHRTIFTEEQLEQLEATFEK-THYPDVVLREQLALKVDLKEERVE 90
K ++ E + LE F T YPD + L+ ++D +++
Sbjct: 10 KDSPVNKV----EPNDTLEKVFVSVTKYPDEKRLKGLSKQLDWSVRKIQ 54
>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 = 33.5 bits (77), Expect = 9e-04
Identities = 15/45 (33%), Positives = 27/45 (60%)
Query: 45 KRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERV 89
++R RT F+ EQL +L+ F + Y R+QL+ ++ L E ++
Sbjct: 3 EKRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQI 47
>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 = 33.1 bits (76), Expect = 0.001
Identities = 18/44 (40%), Positives = 27/44 (61%)
Query: 46 RRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERV 89
RR+RT FT +QL +LE F K +Y R +LA +++L E +
Sbjct: 2 RRYRTAFTRDQLGRLEKEFYKENYVSRPRRCELAAQLNLPESTI 45
>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 = 31.6 bits (72), Expect = 0.006
Identities = 15/44 (34%), Positives = 21/44 (47%)
Query: 46 RRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERV 89
RR RT FT Q+ +LE F + Y L+ K+ L +V
Sbjct: 3 RRTRTTFTSSQIAELEQHFLQGRYLTAPRLADLSAKLALGTAQV 46
>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 = 32.2 bits (72), Expect = 0.008
Identities = 7/38 (18%), Positives = 13/38 (34%)
Query: 42 PKRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLA 79
R+R + + L +++ P RE L
Sbjct: 3 SGSSGRNRFKWGPASQQILYQAYDRQKNPSKEEREALV 40
>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 = 32.2 bits (72), Expect = 0.011
Identities = 10/33 (30%), Positives = 19/33 (57%), Gaps = 4/33 (12%)
Query: 54 EEQ-LEQLEATFEKTHYPDVVLREQLALKVDLK 85
E+Q L++L+A+ K + D LA+K ++
Sbjct: 18 EKQALKKLQASL-KLYADDSA--PALAIKATME 47
>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 = 30.6 bits (69), Expect = 0.020
Identities = 17/56 (30%), Positives = 25/56 (44%)
Query: 34 ASQHSAPPPKRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERV 89
++ S P RT FT QL +LE F Y R ++A ++L E +V
Sbjct: 23 TAKVSEPGLGSPSGLRTNFTTRQLTELEKEFHFNKYLSRARRVEIAATLELNETQV 78
>2da4_A Hypothetical protein DKFZP686K21156; homeobox domain, three
helices with the DNA binding helix- turn-helix motif,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 80
Score = 29.9 bits (66), Expect = 0.034
Identities = 9/52 (17%), Positives = 20/52 (38%), Gaps = 4/52 (7%)
Query: 43 KRKRRHRTIFTEEQLEQLEATFEK----THYPDVVLREQLALKVDLKEERVE 90
+ RT F++ L L+ ++ E +A ++++ E V
Sbjct: 6 SGALQDRTQFSDRDLATLKKYWDNGMTSLGSVCREKIEAVATELNVDCEIVR 57
>2cra_A Homeobox protein HOX-B13; DNA-binding, transcription regulation,
helix-turn-helix, structural genomics, NPPSFA; NMR
{Homo sapiens} SCOP: a.4.1.1
Length = 70
Score = 29.4 bits (66), Expect = 0.039
Identities = 9/51 (17%), Positives = 21/51 (41%)
Query: 39 APPPKRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERV 89
R+ R +++ QL +LE + + R +++ L E ++
Sbjct: 1 GSSGSSGRKKRIPYSKGQLRELEREYAANKFITKDKRRKISAATSLSERQI 51
>2h1k_A IPF-1, pancreatic and duodenal homeobox 1, homeodomain;
protein-DNA complex, transcription/DNA complex; 2.42A
{Mesocricetus auratus}
Length = 63
Score = 28.1 bits (63), Expect = 0.096
Identities = 15/44 (34%), Positives = 23/44 (52%)
Query: 46 RRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERV 89
+R RT +T QL +LE F Y R +LA+ ++L E +
Sbjct: 4 KRTRTAYTRAQLLELEKEFLFNKYISRPRRVELAVMLNLTERHI 47
>1vsy_5 Proteasome activator BLM10; 20S proteasome BLM10, hydrolase,
nucleus, phosphoprotein, PR proteasome, threonine
protease; 3.00A {Saccharomyces cerevisiae} PDB: 3l5q_6
Length = 997
Score = 29.7 bits (66), Expect = 0.11
Identities = 14/80 (17%), Positives = 29/80 (36%), Gaps = 13/80 (16%)
Query: 3 IATGASMVAVAYPNLYPGYMTHAAATIAAMAASQHSAPPPKRK-------------RRHR 49
+ GA + A Y P ++ + +++ A + + + R
Sbjct: 917 LGLGAIISAFPYVFPLPPWIPKNLSNLSSWARTSGMTGNAAKNTISEFKKVRADTWKFDR 976
Query: 50 TIFTEEQLEQLEATFEKTHY 69
F E+LE LE +++Y
Sbjct: 977 ASFNTEELEDLEGVLWRSYY 996
>1rut_X Flinc4, fusion protein of LMO4 protein and LIM domain- binding
protein 1; B-tandem zipper, protein binding; 1.30A {Mus
musculus} SCOP: g.39.1.3 g.39.1.3 g.39.1.3 g.39.1.3 PDB:
2dfy_X 2xjz_I 2xjy_B
Length = 188
Score = 29.2 bits (65), Expect = 0.14
Identities = 3/24 (12%), Positives = 5/24 (20%)
Query: 35 SQHSAPPPKRKRRHRTIFTEEQLE 58
+ R T Q +
Sbjct: 157 TLMGGEFGDEDERLITRLENTQFD 180
>2r5y_A Homeotic protein sex combs reduced; homeodomain; HET: DNA; 2.60A
{Drosophila melanogaster} PDB: 2r5z_A*
Length = 88
Score = 27.9 bits (62), Expect = 0.22
Identities = 13/56 (23%), Positives = 22/56 (39%)
Query: 34 ASQHSAPPPKRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERV 89
+ +R RT +T Q +LE F Y R ++A + L E ++
Sbjct: 17 LGTSTVNANGETKRQRTSYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQI 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 = 27.5 bits (61), Expect = 0.29
Identities = 13/50 (26%), Positives = 23/50 (46%)
Query: 40 PPPKRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERV 89
+ R+ R +T+ Q +LE F Y R ++A ++L E +V
Sbjct: 8 LHARSTRKKRCPYTKHQTLELEKEFLFNMYLTRDRRYEVARLLNLTERQV 57
>2l7z_A Homeobox protein HOX-A13; gene regulation; NMR {Homo sapiens}
PDB: 2ld5_A*
Length = 73
Score = 27.1 bits (60), Expect = 0.29
Identities = 11/47 (23%), Positives = 23/47 (48%)
Query: 43 KRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERV 89
R+ R +T+ QL++LE + + R +++ +L E +V
Sbjct: 5 LEGRKKRVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQV 51
>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 = 28.1 bits (62), Expect = 0.35
Identities = 13/49 (26%), Positives = 17/49 (34%), Gaps = 3/49 (6%)
Query: 6 GASMVAVA-YPN-LYPGYMTHAAATIAAMAASQHSAPPPKRKRRHRTIF 52
GA + V+ P LY G A Q P +RK + F
Sbjct: 373 GAKNLVVSGPPQSLY-GLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRF 420
>1p2x_A RNG2 protein, RAS GTPase-activating-like protein; helices, bundle,
protein binding; 2.21A {Schizosaccharomyces pombe} SCOP:
a.40.1.1
Length = 159
Score = 27.5 bits (61), Expect = 0.43
Identities = 9/42 (21%), Positives = 16/42 (38%), Gaps = 2/42 (4%)
Query: 28 TIAAMA--ASQHSAPPPKRKRRHRTIFTEEQLEQLEATFEKT 67
I A++ S PP K FT+E + + ++
Sbjct: 108 CIHALSYFLSMQDLAPPLIKSDENLSFTDEDVSIIVRRLRQS 149
>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 = 26.6 bits (59), Expect = 0.50
Identities = 12/45 (26%), Positives = 21/45 (46%)
Query: 45 KRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERV 89
++R R +T Q +LE F Y R ++A + L E ++
Sbjct: 2 RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQI 46
>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 = 27.5 bits (62), Expect = 0.51
Identities = 6/31 (19%), Positives = 16/31 (51%)
Query: 35 SQHSAPPPKRKRRHRTIFTEEQLEQLEATFE 65
++ + +++ R TEEQ +++ F+
Sbjct: 5 AKTVVSARRDQKKGRVGLTEEQKQEIREAFD 35
>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 = 25.9 bits (57), Expect = 0.69
Identities = 9/37 (24%), Positives = 16/37 (43%), Gaps = 1/37 (2%)
Query: 55 EQLEQLEATF-EKTHYPDVVLREQLALKVDLKEERVE 90
+ LE F T +PD E L+ ++D ++
Sbjct: 10 QPNAILEKVFTAITKHPDEKRLEGLSKQLDWDVRSIQ 46
>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 = 26.3 bits (58), Expect = 0.71
Identities = 15/53 (28%), Positives = 23/53 (43%)
Query: 37 HSAPPPKRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERV 89
A +RR R +T Q +LE F HY R ++A + L E ++
Sbjct: 12 AIAGTNGLRRRGRQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALSLTERQI 64
>2bec_A Calcineurin B homologous protein 2; calcineurin-homologous
protein, calcium-binding protein, NHE1 regulating
protein; 2.70A {Homo sapiens}
Length = 202
Score = 26.6 bits (59), Expect = 0.99
Identities = 8/34 (23%), Positives = 13/34 (38%)
Query: 33 AASQHSAPPPKRKRRHRTIFTEEQLEQLEATFEK 66
+S + P R T F++ L +L F
Sbjct: 4 RSSHAAVIPDGDSIRRETGFSQASLLRLHHRFRA 37
>1y1x_A Leishmania major homolog of programmed cell death protein; SGPP,
structural genomics, PSI; 1.95A {Leishmania major}
SCOP: a.39.1.8
Length = 191
Score = 26.5 bits (59), Expect = 1.0
Identities = 6/35 (17%), Positives = 9/35 (25%)
Query: 32 MAASQHSAPPPKRKRRHRTIFTEEQLEQLEATFEK 66
MA H P + ++L F
Sbjct: 1 MAHHHHHHMPTSTGVYAPSARHMNDNQELMEWFRA 35
>1p5s_A RAS GTPase-activating-like protein RNG2; alpha-helical bundle,
cytokine; 2.22A {Schizosaccharomyces pombe} SCOP:
a.40.1.1
Length = 203
Score = 26.5 bits (58), Expect = 1.2
Identities = 9/42 (21%), Positives = 16/42 (38%), Gaps = 2/42 (4%)
Query: 28 TIAAMA--ASQHSAPPPKRKRRHRTIFTEEQLEQLEATFEKT 67
I A++ S PP K FT+E + + ++
Sbjct: 152 CIHALSYFLSMQDLAPPLIKSDENLSFTDEDVSIIVRRLRQS 193
>2d8n_A Recoverin; structural genomics, NPPSFA, national project on
protein STR and functional analyses, riken structural
genomics/proteomi initiative; 2.20A {Homo sapiens} PDB:
2i94_A 1iku_A* 1jsa_A* 1omr_A 1rec_A 1la3_A* 1omv_A
2het_A
Length = 207
Score = 26.5 bits (58), Expect = 1.2
Identities = 10/45 (22%), Positives = 20/45 (44%), Gaps = 2/45 (4%)
Query: 25 AAATIAAMAASQHSAPPPK--RKRRHRTIFTEEQLEQLEATFEKT 67
++ + M S+ A + + + T F+EE+L +F K
Sbjct: 1 GSSGSSGMGNSKSGALSKEILEELQLNTKFSEEELCSWYQSFLKD 45
>2kld_A Polycystin-2; PC2, PKD2, calcium binding domain, EF hand,
cytosolic, calcium, coiled coil, disease mutation,
glycoprotein, ION transport; NMR {Homo sapiens} PDB:
2kle_A 2kq6_A 2y4q_A
Length = 123
Score = 26.2 bits (57), Expect = 1.3
Identities = 7/39 (17%), Positives = 21/39 (53%)
Query: 52 FTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERVE 90
T+ ++E + +++ ++ E ++ DL++ER +
Sbjct: 77 HTDAEIEAIFTKYDQDGDQELTEHEHQQMRDDLEKERED 115
>3quf_A Extracellular solute-binding protein, family 1; structural
genomics, PSI-biology, midwest center for structu
genomics, MCSG; HET: MSE; 1.70A {Bifidobacterium longum
subsp}
Length = 414
Score = 26.3 bits (58), Expect = 1.6
Identities = 7/21 (33%), Positives = 13/21 (61%), Gaps = 1/21 (4%)
Query: 52 FTEEQLEQLEATFEKTHYPDV 72
F + Q+ ++ FEK + PD+
Sbjct: 38 FKDNQIGEVVKGFEKKN-PDI 57
>4fld_A Regulation of nuclear PRE-mRNA domain-containing 1B; structural
genomics consortium, SGC, protein binding; 2.00A {Homo
sapiens}
Length = 135
Score = 25.7 bits (56), Expect = 1.8
Identities = 9/48 (18%), Positives = 20/48 (41%), Gaps = 8/48 (16%)
Query: 31 AMAASQHSAPPPKRKR--------RHRTIFTEEQLEQLEATFEKTHYP 70
A + A +K + R+++ E ++QL+ + E + P
Sbjct: 88 AFSHVAREADEGCKKPLERLLNIWQERSVYGGEFIQQLKLSMEDSKSP 135
>1ity_A TRF1; helix-turn-helix, telomeres, DNA binding, MYB domain, riken
structural genomics/proteomics initiative, RSGI,
structural genomics; NMR {Homo sapiens} SCOP: a.4.1.4
PDB: 1iv6_A
Length = 69
Score = 25.1 bits (55), Expect = 1.8
Identities = 6/20 (30%), Positives = 10/20 (50%)
Query: 41 PPKRKRRHRTIFTEEQLEQL 60
P K + R R + E+ + L
Sbjct: 2 PEKHRARKRQAWLWEEDKNL 21
>2h1r_A Dimethyladenosine transferase, putative; SGC toronto
dimethyladenosine transferase, structural genomics,
structural genomics consortium; 1.89A {Plasmodium
falciparum}
Length = 299
Score = 25.8 bits (57), Expect = 2.2
Identities = 4/30 (13%), Positives = 13/30 (43%)
Query: 57 LEQLEATFEKTHYPDVVLREQLALKVDLKE 86
+ +++ Y ++ + E A+K +
Sbjct: 77 ISEVKKRCLYEGYNNLEVYEGDAIKTVFPK 106
>2ghp_A U4/U6 snRNA-associated splicing factor PRP24; RNA chaperone, RNA
binding domain, RNA recognition motif, SP factor,
snRNP, spliceosome; 2.70A {Saccharomyces cerevisiae}
SCOP: d.58.7.1 d.58.7.1 d.58.7.1 PDB: 2go9_A 2kh9_A
Length = 292
Score = 25.7 bits (57), Expect = 2.3
Identities = 6/40 (15%), Positives = 13/40 (32%), Gaps = 8/40 (20%)
Query: 29 IAAMAASQHSAPPPKRKRRHRTIF--------TEEQLEQL 60
AA S+ + R R T+ + ++ +
Sbjct: 22 AAAGLTSKKANEALTRNRELTTVLVKNLPKSYNQNKVYKY 61
>1r6v_A Subtilisin-like serine protease; sandwich domain, propeptide,
hydrolase; 1.70A {Fervidobacterium pennivorans} SCOP:
c.41.1.1
Length = 671
Score = 25.8 bits (56), Expect = 2.4
Identities = 8/36 (22%), Positives = 10/36 (27%), Gaps = 6/36 (16%)
Query: 2 RIATGASMVAVAYPNLYPGYM------THAAATIAA 31
++ G TH A TIAA
Sbjct: 175 QVIAGYRPAFDEELPAGTDSSYGGSAGTHVAGTIAA 210
>4flb_A Regulation of nuclear PRE-mRNA domain-containing; structural
genomics consortium, SGC, protein binding; 1.80A {Homo
sapiens}
Length = 132
Score = 25.3 bits (55), Expect = 3.0
Identities = 8/44 (18%), Positives = 12/44 (27%), Gaps = 8/44 (18%)
Query: 32 MAASQHSAPPPKRKR--------RHRTIFTEEQLEQLEATFEKT 67
A+ P K R ++ EE + L T
Sbjct: 88 PEAAALVKDPSVSKSVERIFKIWEDRNVYPEEMIVALREALSTT 131
>2l3k_A Rhombotin-2, linker, LIM domain-binding protein 1;
LMO2(LIM2)-LDB1(LID), chimera, fusion protein,
oncoprotein; NMR {Mus musculus} PDB: 2l6y_B 2l6z_C
Length = 123
Score = 25.0 bits (54), Expect = 3.0
Identities = 4/50 (8%), Positives = 6/50 (12%), Gaps = 6/50 (12%)
Query: 14 YPNLYPGYMTHAAATIAAMAASQHSAPPP------KRKRRHRTIFTEEQL 57
+ + P R T Q
Sbjct: 65 IYEWTKINGGSGGSGGSGGDVMVVGEPTLMGGEFGDEDERLITRLENTQF 114
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 25.1 bits (54), Expect = 3.9
Identities = 16/56 (28%), Positives = 24/56 (42%), Gaps = 8/56 (14%)
Query: 31 AMAASQHSAPPPKRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKE 86
A A P RK R ++L++L+A + RE+ A K DL+E
Sbjct: 75 AQADRLTQEPESIRKWREEQ---RKRLQELDAASKVME---QEWREK-AKK-DLEE 122
>2juh_A Telomere binding protein TBP1; helix, nucleus, nuclear protein;
NMR {Nicotiana glutinosa}
Length = 121
Score = 24.8 bits (53), Expect = 4.5
Identities = 9/33 (27%), Positives = 14/33 (42%)
Query: 34 ASQHSAPPPKRKRRHRTIFTEEQLEQLEATFEK 66
+Q S +RR R F+ ++E L E
Sbjct: 2 VNQKSKRSELSQRRIRRPFSVAEVEALVEAVEH 34
>3get_A Histidinol-phosphate aminotransferase; NP_281508.1, structural
genomics, joint center for structural genomics; HET:
LLP MSE; 2.01A {Campylobacter jejuni subsp}
Length = 365
Score = 24.8 bits (55), Expect = 4.5
Identities = 12/37 (32%), Positives = 18/37 (48%), Gaps = 4/37 (10%)
Query: 57 LEQLEATFEKTH-YPD---VVLREQLALKVDLKEERV 89
+E L K H YPD + L+ LA K ++ E +
Sbjct: 49 IECLRQNANKAHLYPDDSMIELKSTLAQKYKVQNENI 85
>3cta_A Riboflavin kinase; structural genomics, transferase, PSI-2, protein
structure initiative; 2.20A {Thermoplasma acidophilum
dsm 1728} SCOP: a.4.5.28 b.43.5.2
Length = 230
Score = 24.7 bits (53), Expect = 5.3
Identities = 9/24 (37%), Positives = 13/24 (54%), Gaps = 7/24 (29%)
Query: 65 EKTHYPDVV-------LREQLALK 81
E+T Y DV+ LRE++ L
Sbjct: 188 ERTVYTDVIEIISDKYLREEINLH 211
>3i6x_A P195, RAS GTPase-activating-like protein iqgap1; all helical,
calmodulin-binding, cell membrane, membrane,
phosphoprotein, protein binding; 2.50A {Homo sapiens}
Length = 193
Score = 24.6 bits (53), Expect = 6.0
Identities = 10/47 (21%), Positives = 19/47 (40%), Gaps = 2/47 (4%)
Query: 22 MTHAAATIAAMA--ASQHSAPPPKRKRRHRTIFTEEQLEQLEATFEK 66
M I A++ + P + + FTEE++ ++ EK
Sbjct: 147 MPRCIYCIHALSLYLFKLGLAPQIQDLYGKVDFTEEEINNMKTELEK 193
>2gwh_A Sulfotransferase 1C2; sulfate conjugation, pentachlorophenol, PA
pesticide, structural genomics, structural genomics
consort transferase; HET: A3P PCI; 1.80A {Homo sapiens}
PDB: 2ad1_A*
Length = 298
Score = 24.4 bits (53), Expect = 6.4
Identities = 7/26 (26%), Positives = 12/26 (46%), Gaps = 3/26 (11%)
Query: 44 RKRR---HRTIFTEEQLEQLEATFEK 66
RK + FT Q E+ + ++K
Sbjct: 260 RKGAVGDWKKHFTVAQNERFDEDYKK 285
>2aus_C Pseudouridine synthase; isomerase, structural protein,
isomerase-structural protein; 2.10A {Pyrococcus abyssi}
PDB: 3lwr_A 3lwo_A* 3lwq_A* 3lwp_A 3lwv_A 3hax_A*
2hvy_A* 3hay_A* 2ey4_A 2rfk_A 3mqk_A 3hjw_A* 3hjy_A
Length = 334
Score = 24.2 bits (53), Expect = 7.4
Identities = 9/23 (39%), Positives = 12/23 (52%), Gaps = 5/23 (21%)
Query: 41 PP-----KRKRRHRTIFTEEQLE 58
PP KR+ R R ++ E LE
Sbjct: 140 PPLRSAVKRRLRTRKVYYIEILE 162
>2oq2_A Phosphoadenosine phosphosulfate reductase; sulfate reduction,
PAPS reductase, oxidoreductase; HET: A3P; 2.10A
{Saccharomyces cerevisiae}
Length = 261
Score = 24.1 bits (52), Expect = 8.0
Identities = 7/31 (22%), Positives = 12/31 (38%)
Query: 49 RTIFTEEQLEQLEATFEKTHYPDVVLREQLA 79
I T+EQL+ K P ++ +
Sbjct: 9 DIIVTQEQLDHWNEQLIKLETPQEIIAWSIV 39
>3ffh_A Histidinol-phosphate aminotransferase; APC88260, listeria in
CLIP11262, structural genomics, PSI-2; 2.31A {Listeria
innocua}
Length = 363
Score = 24.1 bits (53), Expect = 8.0
Identities = 10/37 (27%), Positives = 17/37 (45%), Gaps = 4/37 (10%)
Query: 57 LEQLEATFEKTH-YPD---VVLREQLALKVDLKEERV 89
+ +T YPD LR+++A L+EE +
Sbjct: 51 AAIQANSSVETEIYPDGWASSLRKEVADFYQLEEEEL 87
>2roh_A RTBP1, telomere binding protein-1; plant, nucleus, DNA binding
protein; NMR {Oryza sativa}
Length = 122
Score = 23.9 bits (51), Expect = 8.5
Identities = 11/36 (30%), Positives = 14/36 (38%)
Query: 31 AMAASQHSAPPPKRKRRHRTIFTEEQLEQLEATFEK 66
A S P +RR R FT ++E L E
Sbjct: 13 ANVPLSRSKRPDFGQRRIRRPFTVAEVELLVEAVEH 48
>2km4_A Regulator of TY1 transposition protein 103; CTD-interacting domain,
RNA polymerase II binding protein, phosphoprotein; NMR
{Saccharomyces cerevisiae} PDB: 2l0i_A*
Length = 142
Score = 23.8 bits (51), Expect = 8.7
Identities = 6/45 (13%), Positives = 16/45 (35%), Gaps = 8/45 (17%)
Query: 31 AMAASQHSAPPPKRKR--------RHRTIFTEEQLEQLEATFEKT 67
+ P +K+ + R IF+++ + +E +
Sbjct: 90 VLGRINQEFPRDLKKKLSRVVNILKERNIFSKQVVNDIERSLAAA 134
>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 = 23.7 bits (52), Expect = 8.7
Identities = 6/27 (22%), Positives = 13/27 (48%)
Query: 39 APPPKRKRRHRTIFTEEQLEQLEATFE 65
A ++ R +EE + + +A F+
Sbjct: 1 ASMTDQQAEARAFLSEEMIAEFKAAFD 27
>2qi9_A Vitamin B12 import system permease protein BTUC; inner membrane,
membrane, transmembrane, transport, ATP- binding,
hydrolase, nucleotide-binding, periplasm; HET: 1PE;
2.60A {Escherichia coli} PDB: 4dbl_A 1l7v_A*
Length = 326
Score = 24.1 bits (53), Expect = 8.9
Identities = 4/32 (12%), Positives = 9/32 (28%)
Query: 4 ATGASMVAVAYPNLYPGYMTHAAATIAAMAAS 35
G + P + +A A+ +
Sbjct: 98 GVGLIAAVLLGQGQLPNWALGLSAIAGALIIT 129
>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 = 23.8 bits (52), Expect = 9.3
Identities = 10/39 (25%), Positives = 20/39 (51%), Gaps = 6/39 (15%)
Query: 33 AASQHSAPPPKRKRRHRTI------FTEEQLEQLEATFE 65
AA PP +++R R+ FT+ Q+++ + F+
Sbjct: 26 AAPPAPKPPSQKRRAQRSGSNVFAMFTQHQVQEFKEAFQ 64
>3ckl_A Sulfotransferase family cytosolic 1B member 1; SULT1B1, human
cytosolic sulfotransferase, resveratrol, SGC, cytoplasm,
lipid metabolism; HET: STL A3P; 2.00A {Homo sapiens}
PDB: 2z5f_A*
Length = 298
Score = 24.0 bits (52), Expect = 9.3
Identities = 8/26 (30%), Positives = 12/26 (46%), Gaps = 3/26 (11%)
Query: 44 RKRR---HRTIFTEEQLEQLEATFEK 66
RK + FT Q E+ +A +E
Sbjct: 260 RKGTAGDWKNYFTVAQNEKFDAIYET 285
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
0.317 0.128 0.359
Gapped
Lambda K H
0.267 0.0570 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,463,003
Number of extensions: 77357
Number of successful extensions: 527
Number of sequences better than 10.0: 1
Number of HSP's gapped: 523
Number of HSP's successfully gapped: 136
Length of query: 91
Length of database: 6,701,793
Length adjustment: 58
Effective length of query: 33
Effective length of database: 5,082,375
Effective search space: 167718375
Effective search space used: 167718375
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 (21.7 bits)
S2: 51 (23.8 bits)