RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4868
(169 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 = 129 bits (325), Expect = 6e-40
Identities = 60/74 (81%), Positives = 64/74 (86%)
Query: 55 KRKLQRNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWR 114
QRNRTSFT +QI+ LEKEFERTHYPDVFARERLAAKI LPEARIQVWFSNRRAKWR
Sbjct: 4 GSSGQRNRTSFTQEQIEALEKEFERTHYPDVFARERLAAKIDLPEARIQVWFSNRRAKWR 63
Query: 115 REEKLRNQRQRGSA 128
REEKLRNQR++
Sbjct: 64 REEKLRNQRRQSGP 77
>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 = 125 bits (317), Expect = 9e-39
Identities = 37/80 (46%), Positives = 55/80 (68%)
Query: 42 NLEPEDDQARLRLKRKLQRNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEAR 101
++ + + + LKRK +R+RT+F+ Q+D LE+ FERT YPD++ RE LA + L EAR
Sbjct: 2 DISDCESEPGIALKRKQRRSRTTFSASQLDELERAFERTQYPDIYTREELAQRTNLTEAR 61
Query: 102 IQVWFSNRRAKWRREEKLRN 121
IQVWF NRRA+ R++ +
Sbjct: 62 IQVWFQNRRARLRKQHTSVS 81
>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 = 122 bits (309), Expect = 1e-37
Identities = 34/73 (46%), Positives = 48/73 (65%)
Query: 55 KRKLQRNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWR 114
+R RT+FT Q+D LE F +T YPD+F RE +A KI LPE+R+QVWF NRRAK R
Sbjct: 4 GSSGRRERTTFTRAQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQVWFKNRRAKCR 63
Query: 115 REEKLRNQRQRGS 127
++++ + +
Sbjct: 64 QQQQQQQNGGQSG 76
>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 = 120 bits (303), Expect = 1e-36
Identities = 32/64 (50%), Positives = 44/64 (68%)
Query: 55 KRKLQRNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWR 114
+R+RT FT++Q++ LE F+ T YPDV RE+LA K+ L E +++VWF NRRAKWR
Sbjct: 4 GSSGRRHRTIFTDEQLEALENLFQETKYPDVGTREQLARKVHLREEKVEVWFKNRRAKWR 63
Query: 115 REEK 118
R
Sbjct: 64 RSGP 67
>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 = 119 bits (300), Expect = 2e-36
Identities = 40/59 (67%), Positives = 48/59 (81%)
Query: 61 NRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWRREEKL 119
+ +FT+ Q++ LEK F RTHYPDVF RE LA KIGL EARIQVWF NRRAKWR++EK+
Sbjct: 2 SHMTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQVWFQNRRAKWRKQEKV 60
>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 = 118 bits (297), Expect = 8e-36
Identities = 28/65 (43%), Positives = 37/65 (56%)
Query: 59 QRNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWRREEK 118
+R RT+FT +QI+ LE F YP + E LA K+ L RIQ+WF NRRAK +R +
Sbjct: 2 RRPRTAFTQNQIEVLENVFRVNCYPGIDILEDLAQKLNLELDRIQIWFQNRRAKLKRSHR 61
Query: 119 LRNQR 123
Sbjct: 62 ESQFL 66
>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 = 117 bits (296), Expect = 1e-35
Identities = 25/73 (34%), Positives = 36/73 (49%)
Query: 55 KRKLQRNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWR 114
+R RTSF + Q+ ++ F H PD ++LA K GL + +QVWF N RAK+R
Sbjct: 4 GSSGKRMRTSFKHHQLRTMKSYFAINHNPDAKDLKQLAQKTGLTKRVLQVWFQNARAKFR 63
Query: 115 REEKLRNQRQRGS 127
R +
Sbjct: 64 RNLLRQENGGVSG 76
>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 = 115 bits (291), Expect = 6e-35
Identities = 31/66 (46%), Positives = 41/66 (62%)
Query: 57 KLQRNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWRRE 116
+R RT FT+ Q+ LE F+R YPD+ RE +A L EAR++VWF NRRAKWR+
Sbjct: 2 SQRRQRTHFTSQQLQQLEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRKR 61
Query: 117 EKLRNQ 122
E+
Sbjct: 62 EEFIVT 67
>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 = 114 bits (287), Expect = 3e-34
Identities = 23/67 (34%), Positives = 36/67 (53%), Gaps = 1/67 (1%)
Query: 59 QRNRTSFTNDQIDNLEKEFERTH-YPDVFARERLAAKIGLPEARIQVWFSNRRAKWRREE 117
+ T DQ++ LE F + + +PD +AA+ GL E + Q WF R A+WRR E
Sbjct: 2 SEGAATMTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQKWFKQRLAEWRRSE 61
Query: 118 KLRNQRQ 124
L ++ +
Sbjct: 62 GLPSECR 68
>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 = 112 bits (282), Expect = 2e-33
Identities = 21/64 (32%), Positives = 31/64 (48%)
Query: 55 KRKLQRNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWR 114
+ +RT FT+ Q+ L+ F+ YP E+L+ + LP I VWF N R K R
Sbjct: 4 GSSGRSSRTRFTDYQLRVLQDFFDANAYPKDDEFEQLSNLLNLPTRVIVVWFQNARQKAR 63
Query: 115 REEK 118
+
Sbjct: 64 KSGP 67
>2hi3_A Homeodomain-only protein; transcription; NMR {Mus musculus} SCOP:
a.4.1.1
Length = 73
Score = 110 bits (276), Expect = 1e-32
Identities = 23/67 (34%), Positives = 37/67 (55%), Gaps = 1/67 (1%)
Query: 59 QRNRTSFTNDQIDNLEKEFERTH-YPDVFARERLAAKIGLPEARIQVWFSNRRAKWRREE 117
+ + T DQ++ LE F + + +PD +AA+ GL E + Q WF R A+WRR E
Sbjct: 3 AQTVSGPTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQKWFKQRLAEWRRSE 62
Query: 118 KLRNQRQ 124
L ++ +
Sbjct: 63 GLPSECR 69
>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 = 105 bits (264), Expect = 8e-31
Identities = 19/63 (30%), Positives = 28/63 (44%)
Query: 57 KLQRNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWRRE 116
K R RT Q+ L + PD +E+L GL I+VWF N+R K ++
Sbjct: 2 KTTRVRTVLNEKQLHTLRTCYAANPRPDALMKEQLVEMTGLSPRVIRVWFQNKRCKDKKR 61
Query: 117 EKL 119
+
Sbjct: 62 SIM 64
>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 = 99.5 bits (248), Expect = 3e-28
Identities = 18/64 (28%), Positives = 36/64 (56%)
Query: 55 KRKLQRNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWR 114
++ +R RT+ T +Q++ L +++ P + +A ++GL + +QVWF N RA+ R
Sbjct: 14 PQRDKRLRTTITPEQLEILYQKYLLDSNPTRKMLDHIAHEVGLKKRVVQVWFQNTRARER 73
Query: 115 REEK 118
+
Sbjct: 74 KSGP 77
>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 = 94.3 bits (235), Expect = 2e-26
Identities = 20/64 (31%), Positives = 31/64 (48%)
Query: 55 KRKLQRNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWR 114
+R RT T+DQ+ L + F+ + P + +A K GLP+ I+ WF N K R
Sbjct: 4 GSSGKRPRTRITDDQLRVLRQYFDINNSPSEEQIKEMADKSGLPQKVIKHWFRNTLFKER 63
Query: 115 REEK 118
+
Sbjct: 64 QSGP 67
>2dn0_A Zinc fingers and homeoboxes protein 3; triple homeobox 1 protein,
KIAA0395, TIX1, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 76
Score = 91.7 bits (228), Expect = 3e-25
Identities = 16/62 (25%), Positives = 28/62 (45%)
Query: 60 RNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWRREEKL 119
+ +++Q+ L+ F R +P E L GL ++ WFS+RR R +
Sbjct: 10 IYKNKKSHEQLSALKGSFCRNQFPGQSEVEHLTKVTGLSTREVRKWFSDRRYHCRNLKGS 69
Query: 120 RN 121
R+
Sbjct: 70 RS 71
>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 = 88.2 bits (218), Expect = 6e-23
Identities = 19/81 (23%), Positives = 32/81 (39%)
Query: 35 DNSNPGSNLEPEDDQARLRLKRKLQRNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAK 94
+ + + K ++ RTSFT I+ L FE+ P +A +
Sbjct: 70 EAELRNQEGQQNLMEFVGGEPSKKRKRRTSFTPQAIEALNAYFEKNPLPTGQEITEMAKE 129
Query: 95 IGLPEARIQVWFSNRRAKWRR 115
+ ++VWFSNRR +
Sbjct: 130 LNYDREVVRVWFSNRRQTLKN 150
>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 = 81.6 bits (201), Expect = 4e-21
Identities = 15/80 (18%), Positives = 30/80 (37%), Gaps = 15/80 (18%)
Query: 55 KRKLQRNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIG---------------LPE 99
+ +R ++ + + +E F YPD RE +A +
Sbjct: 4 GSSGRGSRFTWRKECLAVMESYFNENQYPDEAKREEIANACNAVIQKPGKKLSDLERVTS 63
Query: 100 ARIQVWFSNRRAKWRREEKL 119
++ WF+NRR + +R +
Sbjct: 64 LKVYNWFANRRKEIKRRANI 83
>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 = 79.8 bits (197), Expect = 1e-20
Identities = 17/57 (29%), Positives = 29/57 (50%)
Query: 59 QRNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWRR 115
+ T +QI +L+ F ++ +PD RL GL + I+ WFS+ R + +R
Sbjct: 5 HHHHRKKTKEQIAHLKASFLQSQFPDDAEVYRLIEVTGLARSEIKKWFSDHRYRCQR 61
>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 = 81.3 bits (200), Expect = 2e-20
Identities = 21/56 (37%), Positives = 32/56 (57%)
Query: 60 RNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWRR 115
R RTS N +LE F ++ P + +A ++GL + ++VWFSNRR K +R
Sbjct: 98 RKRTSIENRVRWSLETMFLKSPKPSLQQITHIANQLGLEKDVVRVWFSNRRQKGKR 153
>2xsd_C POU domain, class 3, transcription factor 1; transcription-DNA
complex, SOX; 2.05A {Mus musculus}
Length = 164
Score = 81.2 bits (200), Expect = 3e-20
Identities = 18/64 (28%), Positives = 28/64 (43%)
Query: 55 KRKLQRNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWR 114
+ + ++ RTS LE F + P LA + L + ++VWF NRR K +
Sbjct: 96 QGRKRKKRTSIEVGVKGALESHFLKCPKPSAHEITGLADSLQLEKEVVRVWFCNRRQKEK 155
Query: 115 REEK 118
R
Sbjct: 156 RMTP 159
>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 = 80.8 bits (199), Expect = 3e-20
Identities = 17/56 (30%), Positives = 29/56 (51%)
Query: 60 RNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWRR 115
+ RT+ + D LE+ F P R+A ++ L + ++VWF NRR + +R
Sbjct: 89 KRRTTISIAAKDALERHFGEHSKPSSQEIMRMAEELNLEKEVVRVWFCNRRQREKR 144
>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 = 72.9 bits (179), Expect = 6e-18
Identities = 16/60 (26%), Positives = 28/60 (46%), Gaps = 1/60 (1%)
Query: 60 RNRTSFTNDQIDNLEKEFERT-HYPDVFARERLAAKIGLPEARIQVWFSNRRAKWRREEK 118
R+RT + + + L+ YPD A L+A++ LP+ I +F N+R +
Sbjct: 9 RSRTKISLEALGILQSFIHDVGLYPDQEAIHTLSAQLDLPKHTIIKFFQNQRYHVKHSGP 68
>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 = 73.5 bits (180), Expect = 2e-17
Identities = 20/81 (24%), Positives = 36/81 (44%)
Query: 35 DNSNPGSNLEPEDDQARLRLKRKLQRNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAK 94
+S+ + + + + ++ RTS + LEK F P +A +
Sbjct: 78 LSSDSSLSSPSALNSPGIEGLSRRRKKRTSIETNIRVALEKSFMENQKPTSEDITLIAEQ 137
Query: 95 IGLPEARIQVWFSNRRAKWRR 115
+ + + I+VWFSNRR K +R
Sbjct: 138 LNMEKEVIRVWFSNRRQKEKR 158
>3a01_A Homeodomain-containing protein; homeodomain, protein-DNA complex,
DNA-binding, homeobox, NUC developmental protein; 2.70A
{Drosophila melanogaster}
Length = 93
Score = 70.3 bits (172), Expect = 1e-16
Identities = 28/78 (35%), Positives = 43/78 (55%)
Query: 53 RLKRKLQRNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAK 112
R K ++ RTSFT Q+ LEK F + Y R LA + + +A+++ WF NRR K
Sbjct: 12 RTPPKRKKPRTSFTRIQVAELEKRFHKQKYLASAERAALARGLKMTDAQVKTWFQNRRTK 71
Query: 113 WRREEKLRNQRQRGSADP 130
WRR+ + +R +A+
Sbjct: 72 WRRQTAEEREAERQAANR 89
>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 = 67.6 bits (166), Expect = 5e-16
Identities = 16/60 (26%), Positives = 31/60 (51%)
Query: 55 KRKLQRNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWR 114
K K + ++S + LE+ F R + +E +A K G+ +++VWF N+R + +
Sbjct: 2 KEKSPKGKSSISPQARAFLEEVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMRSK 61
>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 = 67.5 bits (165), Expect = 8e-16
Identities = 24/64 (37%), Positives = 37/64 (57%)
Query: 55 KRKLQRNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWR 114
+K +R+RT FT Q+ LEK FE+ Y R LA +GL + +++ W+ NRR KW+
Sbjct: 14 AKKGRRSRTVFTELQLMGLEKRFEKQKYLSTPDRIDLAESLGLSQLQVKTWYQNRRMKWK 73
Query: 115 REEK 118
+
Sbjct: 74 KSGP 77
>2ecb_A Zinc fingers and homeoboxes protein 1; homeobox domain,
transcription factor, structural genomics, NPPSFA; NMR
{Homo sapiens} SCOP: a.4.1.1
Length = 89
Score = 67.7 bits (165), Expect = 9e-16
Identities = 17/96 (17%), Positives = 33/96 (34%), Gaps = 8/96 (8%)
Query: 40 GSNLEPEDDQARLRLKRKLQRNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPE 99
GS+ D + K K T +Q+ L+ F + RL A+ L
Sbjct: 1 GSSGSSGPDFTPQKFKEK--------TAEQLRVLQASFLNSSVLTDEELNRLRAQTKLTR 52
Query: 100 ARIQVWFSNRRAKWRREEKLRNQRQRGSADPTQAPN 135
I WF+ ++ +E+ + + + +
Sbjct: 53 REIDAWFTEKKKSKALKEEKMEIDESNAGSSSGPSS 88
>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 = 67.3 bits (164), Expect = 1e-15
Identities = 22/90 (24%), Positives = 33/90 (36%), Gaps = 9/90 (10%)
Query: 45 PEDDQARLRLKRKLQRNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQV 104
D A + K K T Q+ LE F ++ +P +RL + L I
Sbjct: 8 AYPDFAPQKFKEK--------TQGQVKILEDSFLKSSFPTQAELDRLRVETKLSRREIDS 59
Query: 105 WFSNRRAKWRREE-KLRNQRQRGSADPTQA 133
WFS RR E + + G + P+
Sbjct: 60 WFSERRKLRDSMEQAVLDSMGSGKSGPSSG 89
>2djn_A Homeobox protein DLX-5; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 70
Score = 65.9 bits (161), Expect = 2e-15
Identities = 18/63 (28%), Positives = 39/63 (61%)
Query: 56 RKLQRNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWRR 115
++ RT +++ Q+ L++ F++T Y + R LAA +GL + ++++WF N+R+K ++
Sbjct: 5 SSGRKPRTIYSSFQLAALQRRFQKTQYLALPERAELAASLGLTQTQVKIWFQNKRSKIKK 64
Query: 116 EEK 118
Sbjct: 65 SGP 67
>1lfb_A Liver transcription factor (LFB1); transcription regulation; 2.80A
{Rattus norvegicus} SCOP: a.4.1.1 PDB: 2lfb_A
Length = 99
Score = 66.8 bits (162), Expect = 2e-15
Identities = 22/94 (23%), Positives = 33/94 (35%), Gaps = 21/94 (22%)
Query: 50 ARLRLKRKLQRNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKI-------------- 95
AR+ +K +RNR + L + +ER P RE L +
Sbjct: 1 ARIDPTKKGRRNRFKWGPASQQILFQAYERQKNPSKEERETLVEECNRAECIQRGVSPSQ 60
Query: 96 -------GLPEARIQVWFSNRRAKWRREEKLRNQ 122
+ E R+ WF+NRR + KL
Sbjct: 61 AQGLGSNLVTEVRVYNWFANRRKEEAFRHKLAMD 94
>3a03_A T-cell leukemia homeobox protein 2; homeodomain, developmental
protein, DNA-binding, N gene regulation; 1.54A {Homo
sapiens}
Length = 56
Score = 65.4 bits (160), Expect = 3e-15
Identities = 22/54 (40%), Positives = 32/54 (59%)
Query: 63 TSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWRRE 116
TSF+ Q+ LE+ F R Y R LA + + +A+++ WF NRR KWRR+
Sbjct: 2 TSFSRSQVLELERRFLRQKYLASAERAALAKALRMTDAQVKTWFQNRRTKWRRQ 55
>2kt0_A Nanog, homeobox protein nanog; homeodomain, structural genomics,
protein structure initiative, PSI, center for eukaryotic
structural genomics; NMR {Homo sapiens}
Length = 84
Score = 66.0 bits (161), Expect = 3e-15
Identities = 21/82 (25%), Positives = 41/82 (50%)
Query: 37 SNPGSNLEPEDDQARLRLKRKLQRNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIG 96
S ++ E + ++ K Q+ RT F++ Q+ L F+R Y + + L+ +
Sbjct: 1 SKQPTSAENSVAKKEDKVPVKKQKTRTVFSSTQLCVLNDRFQRQKYLSLQQMQELSNILN 60
Query: 97 LPEARIQVWFSNRRAKWRREEK 118
L +++ WF N+R K +R +K
Sbjct: 61 LSYKQVKTWFQNQRMKSKRWQK 82
>2l9r_A Homeobox protein NKX-3.1; structural genomics, northeast structural
genomics consortiu PSI-biology, protein structure
initiative; NMR {Homo sapiens}
Length = 69
Score = 65.1 bits (159), Expect = 4e-15
Identities = 17/62 (27%), Positives = 32/62 (51%)
Query: 57 KLQRNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWRRE 116
+ + ++ Q+ LE++F Y R LA + L E ++++WF NRR K +R+
Sbjct: 3 HHHHHHSHMSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRRYKTKRK 62
Query: 117 EK 118
+
Sbjct: 63 QL 64
>1ftt_A TTF-1 HD, thyroid transcription factor 1 homeodomain; DNA binding
protein; NMR {Rattus norvegicus} SCOP: a.4.1.1
Length = 68
Score = 65.1 bits (159), Expect = 5e-15
Identities = 23/71 (32%), Positives = 39/71 (54%), Gaps = 3/71 (4%)
Query: 54 LKRKLQRNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKW 113
++RK R F+ Q+ LE+ F++ Y RE LA+ I L ++++WF N R K
Sbjct: 1 MRRKR---RVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQVKIWFQNHRYKM 57
Query: 114 RREEKLRNQRQ 124
+R+ K + +Q
Sbjct: 58 KRQAKDKAAQQ 68
>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 = 64.7 bits (158), Expect = 6e-15
Identities = 26/63 (41%), Positives = 35/63 (55%)
Query: 56 RKLQRNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWRR 115
+ + F+NDQ LEK+FE Y R+RLA + L E +++ WF NRRAKWRR
Sbjct: 5 SSGKGGQVRFSNDQTIELEKKFETQKYLSPPERKRLAKMLQLSERQVKTWFQNRRAKWRR 64
Query: 116 EEK 118
Sbjct: 65 SGP 67
>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 = 65.2 bits (159), Expect = 7e-15
Identities = 21/63 (33%), Positives = 32/63 (50%)
Query: 56 RKLQRNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWRR 115
K ++ R FT Q LE+ F + Y RE LA+ I L ++++WF N R K +R
Sbjct: 7 NKKRKRRVLFTKAQTYELERRFRQQRYLSAPEREHLASLIRLTPTQVKIWFQNHRYKTKR 66
Query: 116 EEK 118
+
Sbjct: 67 AQN 69
>1ig7_A Homeotic protein MSX-1; helix-turn-helix, transcription/DNA
complex; 2.20A {Mus musculus} SCOP: a.4.1.1
Length = 58
Score = 64.2 bits (157), Expect = 8e-15
Identities = 20/56 (35%), Positives = 34/56 (60%)
Query: 60 RNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWRR 115
+ RT FT Q+ LE++F + Y + R ++ + L E ++++WF NRRAK +R
Sbjct: 2 KPRTPFTTAQLLALERKFRQKQYLSIAERAEFSSSLSLTETQVKIWFQNRRAKAKR 57
>2vi6_A Homeobox protein nanog; homeodomain, DNA-binding, transcription,
transcription facto developmental protein, transcription
regulation, NUC homeobox; 2.6A {Mus musculus}
Length = 62
Score = 64.2 bits (157), Expect = 8e-15
Identities = 16/61 (26%), Positives = 33/61 (54%)
Query: 57 KLQRNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWRRE 116
Q+ RT F+ Q+ L+ F++ Y + + L++ + L +++ WF N+R K +R
Sbjct: 2 TKQKMRTVFSQAQLCALKDRFQKQKYLSLQQMQELSSILNLSYKQVKTWFQNQRMKCKRW 61
Query: 117 E 117
+
Sbjct: 62 Q 62
>3rkq_A Homeobox protein NKX-2.5; helix-turn-helix, DNA binding, nucleus,
transcription-DNA CO; 1.70A {Homo sapiens}
Length = 58
Score = 62.6 bits (153), Expect = 4e-14
Identities = 17/55 (30%), Positives = 32/55 (58%)
Query: 60 RNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWR 114
+ R F+ Q+ LE+ F++ Y R++LA+ + L ++++WF NRR K +
Sbjct: 4 KPRVLFSQAQVYELERRFKQQRYLSAPERDQLASVLKLTSTQVKIWFQNRRYKSK 58
>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 = 61.6 bits (150), Expect = 9e-14
Identities = 29/60 (48%), Positives = 41/60 (68%)
Query: 58 LQRNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWRREE 117
++R RT+FT DQ+ LEKEF + +Y R LAA++ LPE+ I+VWF NRR K +R+
Sbjct: 1 VRRYRTAFTRDQLGRLEKEFYKENYVSRPRRCELAAQLNLPESTIKVWFQNRRMKDKRQR 60
>1ic8_A Hepatocyte nuclear factor 1-alpha; transcription regulation,
DNA-binding, POU domain, diabetes, disease mutation,
MODY3, transcription/DNA comple; 2.60A {Homo sapiens}
SCOP: a.4.1.1 a.35.1.1
Length = 194
Score = 64.9 bits (157), Expect = 1e-13
Identities = 20/100 (20%), Positives = 33/100 (33%), Gaps = 21/100 (21%)
Query: 37 SNPGSNLEPEDDQARLRLKRKLQRNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKI- 95
++ G E+ +K +RNR + L + +ER P RE L +
Sbjct: 94 THAGQGGLIEEPTGDELPTKKGRRNRFKWGPASQQILFQAYERQKNPSKEERETLVEECN 153
Query: 96 --------------------GLPEARIQVWFSNRRAKWRR 115
+ E R+ WF+NRR +
Sbjct: 154 RAECIQRGVSPSQAQGLGSNLVTEVRVYNWFANRRKEEAF 193
>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 = 61.4 bits (149), Expect = 1e-13
Identities = 16/57 (28%), Positives = 23/57 (40%)
Query: 62 RTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWRREEK 118
+Q+ LE F + P +RL ++ + I WFS RR K EE
Sbjct: 11 YKERAPEQLRALESSFAQNPLPLDEELDRLRSETKMTRREIDSWFSERRKKVNAEET 67
>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 = 61.3 bits (149), Expect = 2e-13
Identities = 21/64 (32%), Positives = 35/64 (54%)
Query: 60 RNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWRREEKL 119
R RT+FT+ QI LE+ F + Y L+AK+ L A++++WF NRR + + +
Sbjct: 4 RTRTTFTSSQIAELEQHFLQGRYLTAPRLADLSAKLALGTAQVKIWFKNRRRRHKIQSDQ 63
Query: 120 RNQR 123
+
Sbjct: 64 HKDQ 67
>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 = 60.0 bits (146), Expect = 4e-13
Identities = 22/56 (39%), Positives = 41/56 (73%)
Query: 60 RNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWRR 115
R RT+F+++Q+ L++EF Y R++L++++GL EA+I++WF N+RAK ++
Sbjct: 5 RPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFKNKRAKIKK 60
>2h8r_A Hepatocyte nuclear factor 1-beta; trasncription factor, POU, homeo,
protein-DNA, human disease; 3.20A {Homo sapiens}
Length = 221
Score = 62.7 bits (151), Expect = 9e-13
Identities = 24/116 (20%), Positives = 38/116 (32%), Gaps = 25/116 (21%)
Query: 26 SDETCTTIGDNSNPGSNLEPEDDQARLRLKRKLQRNRTSFTNDQIDNLEKEFERTHYPDV 85
D+ + S DD +K++RNR + L + ++R P
Sbjct: 110 QDQLLFLFPEFSQQSHGPGQSDDACSEPTNKKMRRNRFKWGPASQQILYQAYDRQKNPSK 169
Query: 86 FARERLAAKI---------------------GLPEARIQVWFSNRRAKWRREEKLR 120
RE L + + E R+ WF+NR R+EE R
Sbjct: 170 EEREALVEECNRAECLQRGVSPSKAHGLGSNLVTEVRVYNWFANR----RKEEAFR 221
>2d5v_A Hepatocyte nuclear factor 6; transcription factor,
transcription-DNA complex; 2.00A {Rattus norvegicus}
PDB: 1s7e_A
Length = 164
Score = 61.4 bits (148), Expect = 1e-12
Identities = 12/71 (16%), Positives = 28/71 (39%), Gaps = 1/71 (1%)
Query: 55 KRKLQRNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWR 114
++ R FT+ Q L F+ P + ++ ++GL + + +F N R +
Sbjct: 94 GNTPKKPRLVFTDVQRRTLHAIFKENKRPSKELQITISQQLGLELSTVSNFFMNARRRSL 153
Query: 115 -REEKLRNQRQ 124
+ + +
Sbjct: 154 DKWLEHHHHHH 164
>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 = 59.4 bits (143), Expect = 1e-12
Identities = 18/71 (25%), Positives = 29/71 (40%), Gaps = 1/71 (1%)
Query: 59 QRNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWRREE- 117
T +Q+ L+ F RT +P ++LA + GL I WF + R W+
Sbjct: 26 TGKICKKTPEQLHMLKSAFVRTQWPSPEEYDKLAKESGLARTDIVSWFGDTRYAWKNGNL 85
Query: 118 KLRNQRQRGSA 128
K Q ++
Sbjct: 86 KWYYYYQSANS 96
>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 = 57.6 bits (139), Expect = 9e-12
Identities = 23/60 (38%), Positives = 34/60 (56%)
Query: 59 QRNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWRREEK 118
RT+FT Q+ LEKEF Y R +AA + L E ++++WF NRR K ++ E+
Sbjct: 35 SGLRTNFTTRQLTELEKEFHFNKYLSRARRVEIAATLELNETQVKIWFQNRRMKQKKRER 94
>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 = 56.6 bits (136), Expect = 1e-11
Identities = 14/71 (19%), Positives = 26/71 (36%), Gaps = 1/71 (1%)
Query: 60 RNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWRREE-K 118
+ T +Q+ L+ F + + ++L GLP I WF + R + + K
Sbjct: 5 SSGKRKTKEQLAILKSFFLQCQWARREDYQKLEQITGLPRPEIIQWFGDTRYALKHGQLK 64
Query: 119 LRNQRQRGSAD 129
G +
Sbjct: 65 WFRDNASGPSS 75
>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 = 55.5 bits (134), Expect = 2e-11
Identities = 24/64 (37%), Positives = 36/64 (56%)
Query: 59 QRNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWRREEK 118
+R R ++T Q LEKEF Y R +A + L E +I++WF NRR KW++E K
Sbjct: 3 KRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWKKENK 62
Query: 119 LRNQ 122
+ +
Sbjct: 63 TKGE 66
>2r5y_A Homeotic protein sex combs reduced; homeodomain; HET: DNA; 2.60A
{Drosophila melanogaster} PDB: 2r5z_A*
Length = 88
Score = 56.4 bits (136), Expect = 2e-11
Identities = 26/59 (44%), Positives = 34/59 (57%)
Query: 60 RNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWRREEK 118
R RTS+T Q LEKEF Y R +A + L E +I++WF NRR KW++E K
Sbjct: 30 RQRTSYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWKKEHK 88
>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 = 55.6 bits (134), Expect = 3e-11
Identities = 24/63 (38%), Positives = 35/63 (55%), Gaps = 6/63 (9%)
Query: 59 QRNRTSFTNDQIDNLEKEFERTHYPDVFARER---LAAKIGLPEARIQVWFSNRRAKWRR 115
+R R ++T Q LEKEF HY R R +A + L E +I++WF NRR K ++
Sbjct: 21 RRGRQTYTRYQTLELEKEFHTNHY---LTRRRRIEMAHALSLTERQIKIWFQNRRMKLKK 77
Query: 116 EEK 118
E +
Sbjct: 78 EIQ 80
>2h1k_A IPF-1, pancreatic and duodenal homeobox 1, homeodomain; protein-DNA
complex, transcription/DNA complex; 2.42A {Mesocricetus
auratus}
Length = 63
Score = 54.7 bits (132), Expect = 5e-11
Identities = 26/59 (44%), Positives = 35/59 (59%)
Query: 59 QRNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWRREE 117
+R RT++T Q+ LEKEF Y R LA + L E I++WF NRR KW++EE
Sbjct: 4 KRTRTAYTRAQLLELEKEFLFNKYISRPRRVELAVMLNLTERHIKIWFQNRRMKWKKEE 62
>2cra_A Homeobox protein HOX-B13; DNA-binding, transcription regulation,
helix-turn-helix, structural genomics, NPPSFA; NMR {Homo
sapiens} SCOP: a.4.1.1
Length = 70
Score = 54.1 bits (130), Expect = 9e-11
Identities = 16/62 (25%), Positives = 31/62 (50%)
Query: 59 QRNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWRREEK 118
++ R ++ Q+ LE+E+ + R +++A L E +I +WF NRR K ++
Sbjct: 8 RKKRIPYSKGQLRELEREYAANKFITKDKRRKISAATSLSERQITIWFQNRRVKEKKSGP 67
Query: 119 LR 120
Sbjct: 68 SS 69
>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 = 53.3 bits (128), Expect = 2e-10
Identities = 21/64 (32%), Positives = 33/64 (51%)
Query: 59 QRNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWRREEK 118
++ R +T Q LEKEF Y R +A + L E ++++WF NRR K ++ K
Sbjct: 14 RKKRCPYTKHQTLELEKEFLFNMYLTRDRRYEVARLLNLTERQVKIWFQNRRMKMKKINK 73
Query: 119 LRNQ 122
R +
Sbjct: 74 DRAK 77
>2l7z_A Homeobox protein HOX-A13; gene regulation; NMR {Homo sapiens} PDB:
2ld5_A*
Length = 73
Score = 51.0 bits (122), Expect = 2e-09
Identities = 17/66 (25%), Positives = 32/66 (48%)
Query: 56 RKLQRNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWRR 115
+ ++ R +T Q+ LE+E+ + R R++A L E ++ +WF NRR K ++
Sbjct: 5 LEGRKKRVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQVTIWFQNRRVKEKK 64
Query: 116 EEKLRN 121
Sbjct: 65 VINKLK 70
>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 = 47.1 bits (112), Expect = 4e-08
Identities = 16/58 (27%), Positives = 27/58 (46%), Gaps = 1/58 (1%)
Query: 60 RNRTSFTNDQIDNLEKEFER-THYPDVFARERLAAKIGLPEARIQVWFSNRRAKWRRE 116
++ + D LEK F T YPD + L+ ++ +IQ WF +RR + +
Sbjct: 10 KDSPVNKVEPNDTLEKVFVSVTKYPDEKRLKGLSKQLDWSVRKIQCWFRHRRNQDKPS 67
>2e19_A Transcription factor 8; homeobox domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 64
Score = 40.8 bits (95), Expect = 8e-06
Identities = 8/48 (16%), Positives = 18/48 (37%)
Query: 68 DQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWRR 115
+ + L+ + P ++A + LP ++ WF +A
Sbjct: 13 NLLSLLKAYYALNAQPSAEELSKIADSVNLPLDVVKKWFEKMQAGQIS 60
>1x2m_A LAG1 longevity assurance homolog 6; homeobox domain, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Mus musculus} SCOP:
a.4.1.1
Length = 64
Score = 39.8 bits (93), Expect = 2e-05
Identities = 15/47 (31%), Positives = 21/47 (44%), Gaps = 1/47 (2%)
Query: 69 QIDNLEKEF-ERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWR 114
LEK F T +PD E L+ ++ IQ WF RR + +
Sbjct: 11 PNAILEKVFTAITKHPDEKRLEGLSKQLDWDVRSIQRWFRQRRNQEK 57
>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 = 38.4 bits (88), Expect = 9e-05
Identities = 13/69 (18%), Positives = 28/69 (40%), Gaps = 4/69 (5%)
Query: 54 LKRKLQRNRTSFTNDQIDNLEKEFER----THYPDVFARERLAAKIGLPEARIQVWFSNR 109
++RT F++ + L+K ++ E +A ++ + ++ W NR
Sbjct: 4 GSSGALQDRTQFSDRDLATLKKYWDNGMTSLGSVCREKIEAVATELNVDCEIVRTWIGNR 63
Query: 110 RAKWRREEK 118
R K+R
Sbjct: 64 RRKYRLMGI 72
>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 = 34.8 bits (79), Expect = 0.001
Identities = 9/53 (16%), Positives = 22/53 (41%)
Query: 66 TNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQVWFSNRRAKWRREEK 118
D + L+ + P+ +++ +GLP+ ++ WF R+ +
Sbjct: 13 YKDHMSVLKAYYAMNMEPNSDELLKISIAVGLPQEFVKEWFEQRKVYQYSNSR 65
>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 = 31.1 bits (70), Expect = 0.036
Identities = 15/60 (25%), Positives = 26/60 (43%), Gaps = 4/60 (6%)
Query: 60 RNRTSFTNDQIDNLEKEFERTHY----PDVFARERLAAKIGLPEARIQVWFSNRRAKWRR 115
R RT FT +Q + + ER + D A E+ A+ G+ +++W N +
Sbjct: 19 RFRTKFTAEQKEKMLAFAERLGWRIQKHDDVAVEQFCAETGVRRQVLKIWMHNNKNSGPS 78
>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 = 30.9 bits (70), Expect = 0.043
Identities = 13/49 (26%), Positives = 18/49 (36%)
Query: 82 YPDVFARERLAAKIGLPEARIQVWFSNRRAKWRREEKLRNQRQRGSADP 130
Y D E L L +I+ W + RRAK + S +P
Sbjct: 29 YLDTKGLENLMKNTSLSRIQIKNWVAARRAKEKTITIAPELADLLSGEP 77
>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 = 28.4 bits (64), Expect = 0.20
Identities = 13/38 (34%), Positives = 18/38 (47%), Gaps = 3/38 (7%)
Query: 82 YPDVFARERLAAKIGLPEARIQVWFSNRRAKWRREEKL 119
Y D E L L +I+ W SNRR R+E+ +
Sbjct: 25 YLDTKGLENLMKNTSLSRIQIKNWVSNRR---RKEKTI 59
>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 = 29.5 bits (65), Expect = 0.22
Identities = 20/102 (19%), Positives = 32/102 (31%), Gaps = 25/102 (24%)
Query: 56 RKLQRNRTSFTNDQIDNLEKEFERTHYPDVFARERLA---------------------AK 94
RNR + L + ++R P RE L
Sbjct: 4 GSSGRNRFKWGPASQQILYQAYDRQKNPSKEEREALVEECNRAECLQRGVSPSKAHGLGS 63
Query: 95 IGLPEARIQVWFSNRRAKWRREEKLRNQRQRGSADPTQAPNN 136
+ E R+ WF+NR R+EE R + + P++
Sbjct: 64 NLVTEVRVYNWFANR----RKEEAFRQKLAMDAYSSNSGPSS 101
>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 = 28.8 bits (64), Expect = 0.23
Identities = 19/75 (25%), Positives = 31/75 (41%), Gaps = 6/75 (8%)
Query: 40 GSNLEPEDDQARLRLKRKLQRNRTSFTNDQIDNLEKEFERTHY----PDVFARERLAAKI 95
GS+ RK R+RT FT +Q + + ER + D +R +
Sbjct: 1 GSSGSSGSSAEAGGGIRK--RHRTKFTAEQKERMLALAERIGWRIQRQDDEVIQRFCQET 58
Query: 96 GLPEARIQVWFSNRR 110
G+P ++VW N +
Sbjct: 59 GVPRQVLKVWLHNNK 73
>1b72_B Protein (PBX1); homeodomain, DNA, complex, DNA-binding protein,
protein/DNA complex; HET: DNA; 2.35A {Homo sapiens}
SCOP: a.4.1.1 PDB: 1lfu_P
Length = 87
Score = 27.8 bits (62), Expect = 0.57
Identities = 15/60 (25%), Positives = 26/60 (43%), Gaps = 1/60 (1%)
Query: 82 YPDVFARERLAAKIGLPEARIQVWFSN-RRAKWRREEKLRNQRQRGSADPTQAPNNNNNN 140
YP A+E LA K G+ +++ WF N R + K + + +A N + +
Sbjct: 28 YPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKKNIGKFQEEANIYAAKTAVTATNVSAH 87
>1lc5_A COBD, L-threonine-O-3-phosphate decarboxylase; PLP-dependent
decarboxylase cobalamin, lyase; 1.46A {Salmonella
enterica} SCOP: c.67.1.1 PDB: 1lc7_A* 1lc8_A* 1lkc_A*
Length = 364
Score = 28.6 bits (65), Expect = 0.90
Identities = 7/26 (26%), Positives = 10/26 (38%), Gaps = 3/26 (11%)
Query: 80 THYPDVFA---RERLAAKIGLPEARI 102
YPD + LA +P + I
Sbjct: 54 ERYPDADYFHLHQALARHHQVPASWI 79
>1mnm_C Protein (MAT alpha-2 transcriptional repressor); transcription
regulation, transcriptional repression, DNA- binding
protein; HET: DNA; 2.25A {Saccharomyces cerevisiae}
SCOP: a.4.1.1
Length = 87
Score = 27.5 bits (61), Expect = 0.90
Identities = 12/33 (36%), Positives = 15/33 (45%)
Query: 82 YPDVFARERLAAKIGLPEARIQVWFSNRRAKWR 114
Y D E L L +I+ W SNRR K +
Sbjct: 54 YLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEK 86
>3fkd_A L-threonine-O-3-phosphate decarboxylase; structural genomic, ,
structural genomics, PSI-2, protein structure
initiative; 2.50A {Porphyromonas gingivalis}
Length = 350
Score = 28.7 bits (65), Expect = 1.0
Identities = 8/26 (30%), Positives = 12/26 (46%), Gaps = 3/26 (11%)
Query: 80 THYPDVFA---RERLAAKIGLPEARI 102
HYP+ A R+ LA + + I
Sbjct: 45 RHYPEPDAGTLRQMLAKRNSVDNNAI 70
>2nzz_A Penetratin conjugated GAS (374-394) peptide; conformational
analysis, G protein, GAS subunit, A2A adenosine
receptor, cell-penetrating peptides; NMR {Synthetic}
PDB: 2o00_A
Length = 37
Score = 26.2 bits (57), Expect = 1.1
Identities = 8/15 (53%), Positives = 13/15 (86%)
Query: 101 RIQVWFSNRRAKWRR 115
+I++WF NRR KW++
Sbjct: 2 QIKIWFQNRRMKWKK 16
>1q06_A Transcriptional regulator CUER; MERR family transcriptional
regulator, copper efflux regulator; 2.07A {Escherichia
coli} SCOP: a.6.1.3 PDB: 1q05_A 1q07_A
Length = 135
Score = 27.3 bits (61), Expect = 1.6
Identities = 10/59 (16%), Positives = 19/59 (32%), Gaps = 2/59 (3%)
Query: 45 PEDDQARLRLKRKLQRNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQ 103
+ L L R+ ++ F ++ L F + R K+ E I+
Sbjct: 40 TQQHLNELTLLRQARQ--VGFNLEESGELVNLFNDPQRHSADVKRRTLEKVAEIERHIE 96
>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 = 27.8 bits (62), Expect = 1.8
Identities = 11/51 (21%), Positives = 24/51 (47%), Gaps = 5/51 (9%)
Query: 67 NDQIDNLEKEFERTHY---PDVFARER--LAAKIGLPEARIQVWFSNRRAK 112
I + F + + ++E+ +A K G+ +++VWF N+R +
Sbjct: 369 AAAISPQARAFLEQVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMR 419
>2nx9_A Oxaloacetate decarboxylase 2, subunit alpha; carboxyltransferase
structure, B enzymes, Zn2+ binding site, TIM-barrel
fold, lyase; 1.70A {Vibrio cholerae}
Length = 464
Score = 27.5 bits (62), Expect = 2.3
Identities = 6/48 (12%), Positives = 17/48 (35%), Gaps = 3/48 (6%)
Query: 39 PGSNLEPEDDQARLRLKRKLQRNRTSFTNDQIDNLEKEFERTHYPDVF 86
P + E + R+ ++ + + + ID++ + V
Sbjct: 403 PADLIAAEMPTLQDRVLQQAKEQHITLAENAIDDV---LTIALFDQVG 447
>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 = 27.5 bits (60), Expect = 2.4
Identities = 11/103 (10%), Positives = 27/103 (26%), Gaps = 24/103 (23%)
Query: 2 DYLEKPLETKRFNTTDKIELDGLGSDET------CTTIGDNSN-PGSNL----------E 44
D + + + T + L+ L E + +++ P L +
Sbjct: 345 DNWKH-VNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSD 403
Query: 45 PEDDQARLRLKRKLQRNRTSFT---ND-QIDNLEKEFERT--H 81
+L +++ T ++ K H
Sbjct: 404 VMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALH 446
>3k2a_A Homeobox protein MEIS2; homeobox domain, DNA-binding,
transcription, nucleus, phosphoprotein, DNA bindi
protein; 1.95A {Homo sapiens}
Length = 67
Score = 25.4 bits (56), Expect = 3.3
Identities = 12/42 (28%), Positives = 19/42 (45%), Gaps = 1/42 (2%)
Query: 82 YPDVFARERLAAKIGLPEARIQVWFSN-RRAKWRREEKLRNQ 122
YP +++LA GL ++ WF N RR + N+
Sbjct: 25 YPSEEQKKQLAQDTGLTILQVNNWFINARRRIVQPMIDQSNR 66
>3ftb_A Histidinol-phosphate aminotransferase; structural genomics, PSI,
MCSG, protein structure initiative; 2.00A {Clostridium
acetobutylicum}
Length = 361
Score = 26.7 bits (60), Expect = 3.7
Identities = 6/26 (23%), Positives = 10/26 (38%), Gaps = 3/26 (11%)
Query: 80 THYPDVFA---RERLAAKIGLPEARI 102
YPDV + + + L + I
Sbjct: 56 GVYPDVNYRRLNKSIENYLKLKDIGI 81
>2lk2_A Homeobox protein TGIF1; NESG, structural genomics, northeast
structural genomics CON PSI-biology, transcription; NMR
{Homo sapiens}
Length = 89
Score = 25.5 bits (56), Expect = 3.8
Identities = 14/58 (24%), Positives = 23/58 (39%), Gaps = 5/58 (8%)
Query: 82 YPDVFARERLAAKIGLPEARIQVWFSNRRAKWRREEKLRNQRQRGSADPTQAPNNNNN 139
YP + L+ + L ++ WF N R RR L + ++ DP Q +
Sbjct: 32 YPSEQEKALLSQQTHLSTLQVCNWFINAR---RR--LLPDMLRKDGKDPNQFTISRRG 84
>3p1t_A Putative histidinol-phosphate aminotransferase; PLP-dependent
transferase-like, structural genomics, joint C
structural genomics, JCSG; HET: TLA; 2.60A {Burkholderia
pseudomallei}
Length = 337
Score = 26.7 bits (60), Expect = 3.9
Identities = 6/26 (23%), Positives = 9/26 (34%), Gaps = 3/26 (11%)
Query: 82 YPDVFA---RERLAAKIGLPEARIQV 104
YP +LA PE + +
Sbjct: 48 YPFDAEPRVMRKLAEHFSCPEDNLML 73
>1puf_B PRE-B-cell leukemia transcription factor-1; homeodomian,
protein-DNA complex, HOX hexapeptide, TALE homeodomain,
homeodomain interaction; 1.90A {Homo sapiens} SCOP:
a.4.1.1 PDB: 1b8i_B* 2r5y_B* 2r5z_B*
Length = 73
Score = 25.4 bits (56), Expect = 4.0
Identities = 13/42 (30%), Positives = 21/42 (50%), Gaps = 1/42 (2%)
Query: 82 YPDVFARERLAAKIGLPEARIQVWFSN-RRAKWRREEKLRNQ 122
YP A+E LA K G+ +++ WF N R + K + +
Sbjct: 28 YPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKKNIGKFQEE 69
>3ly1_A Putative histidinol-phosphate aminotransferase; structural G joint
center for structural genomics, JCSG; HET: MSE PLP CIT;
1.80A {Erwinia carotovora atroseptica}
Length = 354
Score = 26.4 bits (59), Expect = 5.1
Identities = 5/24 (20%), Positives = 7/24 (29%), Gaps = 3/24 (12%)
Query: 82 YPDVFA---RERLAAKIGLPEARI 102
Y +LAA + I
Sbjct: 48 YAKNEILMLGNKLAAHHQVEAPSI 71
>1du6_A PBX1, homeobox protein PBX1; homeodomain, gene regulation; NMR {Mus
musculus} SCOP: a.4.1.1
Length = 64
Score = 24.6 bits (54), Expect = 5.6
Identities = 12/34 (35%), Positives = 18/34 (52%), Gaps = 1/34 (2%)
Query: 82 YPDVFARERLAAKIGLPEARIQVWFSN-RRAKWR 114
YP A+E LA K G+ +++ WF N R +
Sbjct: 30 YPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKK 63
>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 = 26.0 bits (58), Expect = 6.5
Identities = 9/34 (26%), Positives = 13/34 (38%), Gaps = 4/34 (11%)
Query: 73 LEKEFERTH-YPDVFA---RERLAAKIGLPEARI 102
L + + H YPD + LA K + I
Sbjct: 52 LRQNANKAHLYPDDSMIELKSTLAQKYKVQNENI 85
>3hdo_A Histidinol-phosphate aminotransferase; PSI-II, histidinol-phosphate
aminotrans structural genomics, protein structure
initiative; 1.61A {Geobacter metallireducens gs-15}
Length = 360
Score = 26.0 bits (58), Expect = 7.0
Identities = 6/30 (20%), Positives = 10/30 (33%), Gaps = 5/30 (16%)
Query: 82 YPDVFA---RERLAAKIGLPEARIQVWFSN 108
YP + RE G + + +N
Sbjct: 62 YPSASSQKLREVAGELYGFDPS--WIIMAN 89
>2in3_A Hypothetical protein; DSBA family, FRNE-like subfamily, disulfide
isomerase, struc genomics, PSI-2, protein structure
initiative; 1.85A {Nitrosomonas europaea}
Length = 216
Score = 25.7 bits (56), Expect = 7.1
Identities = 12/37 (32%), Positives = 18/37 (48%)
Query: 90 RLAAKIGLPEARIQVWFSNRRAKWRREEKLRNQRQRG 126
+LA +G+PE+R F + AK R + Q G
Sbjct: 137 KLAVDLGIPESRFTPVFQSDEAKQRTLAGFQRVAQWG 173
>2fhf_A Pullulanase; multiple domain, beta-alpha-barrel,
alpha-amylase-family, complex with maltotetraose,
hydrolase; HET: GLC; 1.65A {Klebsiella aerogenes} SCOP:
b.1.18.2 b.1.18.2 b.3.1.3 b.71.1.1 c.1.8.1 PDB: 2fh6_A*
2fh8_A* 2fhb_A* 2fhc_A* 2fgz_A*
Length = 1083
Score = 26.2 bits (57), Expect = 7.2
Identities = 6/40 (15%), Positives = 14/40 (35%)
Query: 25 GSDETCTTIGDNSNPGSNLEPEDDQARLRLKRKLQRNRTS 64
+ + D + PG ++ QA + L ++
Sbjct: 29 DPQDVVVRLPDVAVPGEAVQASARQAVIHLVDIAGITSST 68
>2zk9_X Protein-glutaminase; deamidation glutaminase, hydrolase; 1.15A
{Chryseobacterium proteolyticum} PDB: 2ksv_A 2z8t_X
Length = 185
Score = 25.7 bits (55), Expect = 7.3
Identities = 15/37 (40%), Positives = 19/37 (51%), Gaps = 2/37 (5%)
Query: 127 SADPTQAPNNN--NNNIVNNNNNSSDGCTPSPAPQVS 161
S + +NN N N V + GC+PSPAP VS
Sbjct: 145 SPSNSYLYDNNLINTNCVLTKFSLLSGCSPSPAPDVS 181
>3ffh_A Histidinol-phosphate aminotransferase; APC88260, listeria in
CLIP11262, structural genomics, PSI-2; 2.31A {Listeria
innocua}
Length = 363
Score = 26.0 bits (58), Expect = 7.6
Identities = 8/24 (33%), Positives = 12/24 (50%), Gaps = 3/24 (12%)
Query: 82 YPDVFA---RERLAAKIGLPEARI 102
YPD +A R+ +A L E +
Sbjct: 64 YPDGWASSLRKEVADFYQLEEEEL 87
>1fg7_A Histidinol phosphate aminotransferase; HISC, histidine
biosynthesis, pyridoxal PH montreal-kingston bacterial
structural genomics initiative; HET: PMP; 1.50A
{Escherichia coli} SCOP: c.67.1.1 PDB: 1fg3_A* 1gew_A*
1gex_A* 1gey_A* 1iji_A*
Length = 356
Score = 25.6 bits (57), Expect = 9.0
Identities = 8/30 (26%), Positives = 10/30 (33%), Gaps = 5/30 (16%)
Query: 82 YPDVFA---RERLAAKIGLPEARIQVWFSN 108
YP+ E A G+ QV S
Sbjct: 55 YPECQPKAVIENYAQYAGVKPE--QVLVSR 82
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 25.5 bits (55), Expect = 9.8
Identities = 16/88 (18%), Positives = 26/88 (29%), Gaps = 29/88 (32%)
Query: 44 EPEDDQARLRLKRKLQRNRTSFTNDQIDNLEKEFERTHYPDVFARERLAAKIGLPEARIQ 103
EPE +R R+ QR R + L+ + R AK L E
Sbjct: 83 EPE----SIRKWREEQRKR-------LQELDAASKVME-----QEWREKAKKDLEE---- 122
Query: 104 VWFSNRRAKWRR--------EEKLRNQR 123
W + + + ++ Q
Sbjct: 123 -WNQRQSEQVEKNKINNRIADKAFYQQP 149
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 0.129 0.378
Gapped
Lambda K H
0.267 0.0582 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,559,239
Number of extensions: 139942
Number of successful extensions: 372
Number of sequences better than 10.0: 1
Number of HSP's gapped: 350
Number of HSP's successfully gapped: 99
Length of query: 169
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 82
Effective length of database: 4,272,666
Effective search space: 350358612
Effective search space used: 350358612
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 (21.8 bits)
S2: 54 (24.9 bits)