RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4349
(80 letters)
>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 = 1e-20
Identities = 24/62 (38%), Positives = 35/62 (56%)
Query: 19 GAGNSSPGSGVHSHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRV 78
G+ SS G+G QR KR+RT+ QL + + ++ NP K L +A + GL KRV
Sbjct: 1 GSSGSSGGTGGEEPQRDKRLRTTITPEQLEILYQKYLLDSNPTRKMLDHIAHEVGLKKRV 60
Query: 79 LQ 80
+Q
Sbjct: 61 VQ 62
>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 = 73.1 bits (180), Expect = 2e-19
Identities = 19/50 (38%), Positives = 32/50 (64%)
Query: 31 SHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 80
S KR RT QLR ++ YF+IN +P + +K++A K+GL ++V++
Sbjct: 3 SGSSGKRPRTRITDDQLRVLRQYFDINNSPSEEQIKEMADKSGLPQKVIK 52
>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 = 71.3 bits (175), Expect = 1e-18
Identities = 43/50 (86%), Positives = 44/50 (88%)
Query: 31 SHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 80
S KRMRTSFKHHQLRTMKSYF IN NPDAKDLKQLAQKTGL+KRVLQ
Sbjct: 3 SGSSGKRMRTSFKHHQLRTMKSYFAINHNPDAKDLKQLAQKTGLTKRVLQ 52
>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 = 69.3 bits (170), Expect = 6e-18
Identities = 19/47 (40%), Positives = 29/47 (61%)
Query: 34 RTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 80
+T R+RT QL T+++ + N PDA +QL + TGLS RV++
Sbjct: 2 KTTRVRTVLNEKQLHTLRTCYAANPRPDALMKEQLVEMTGLSPRVIR 48
>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 = 67.4 bits (165), Expect = 3e-17
Identities = 15/50 (30%), Positives = 25/50 (50%)
Query: 31 SHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 80
S + RT F +QLR ++ +F+ N P + +QL+ L RV+
Sbjct: 3 SGSSGRSSRTRFTDYQLRVLQDFFDANAYPKDDEFEQLSNLLNLPTRVIV 52
>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 = 65.8 bits (160), Expect = 1e-15
Identities = 12/78 (15%), Positives = 38/78 (48%)
Query: 3 HSGDLSSSMESLSYESGAGNSSPGSGVHSHQRTKRMRTSFKHHQLRTMKSYFNINQNPDA 62
++ L + + E+ + V +++R ++ RT+ ++ +F + P +
Sbjct: 55 NACKLKAILSKWLEEAEQVGALYNEKVGANERKRKRRTTISIAAKDALERHFGEHSKPSS 114
Query: 63 KDLKQLAQKTGLSKRVLQ 80
+++ ++A++ L K V++
Sbjct: 115 QEIMRMAEELNLEKEVVR 132
>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 = 60.2 bits (146), Expect = 2e-14
Identities = 11/51 (21%), Positives = 21/51 (41%), Gaps = 1/51 (1%)
Query: 31 SHQRTKRMRTSFKHHQLRTMKSYF-NINQNPDAKDLKQLAQKTGLSKRVLQ 80
S R RT L ++S+ ++ PD + + L+ + L K +
Sbjct: 3 SGSSGPRSRTKISLEALGILQSFIHDVGLYPDQEAIHTLSAQLDLPKHTII 53
>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 = 61.1 bits (148), Expect = 1e-13
Identities = 14/73 (19%), Positives = 35/73 (47%)
Query: 8 SSSMESLSYESGAGNSSPGSGVHSHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQ 67
+ + S + ++ G+ R ++ RTS + + ++ F NQ P ++D+
Sbjct: 74 AEANLSSDSSLSSPSALNSPGIEGLSRRRKKRTSIETNIRVALEKSFMENQKPTSEDITL 133
Query: 68 LAQKTGLSKRVLQ 80
+A++ + K V++
Sbjct: 134 IAEQLNMEKEVIR 146
>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 = 56.3 bits (136), Expect = 1e-12
Identities = 14/50 (28%), Positives = 25/50 (50%)
Query: 31 SHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 80
S +R RT+F QL +++ F + PD +++A K L + +Q
Sbjct: 3 SGSSGRRERTTFTRAQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQ 52
>2xsd_C POU domain, class 3, transcription factor 1; transcription-DNA
complex, SOX; 2.05A {Mus musculus}
Length = 164
Score = 55.4 bits (133), Expect = 1e-11
Identities = 15/64 (23%), Positives = 31/64 (48%)
Query: 17 ESGAGNSSPGSGVHSHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSK 76
+S +G+ + + + R ++ RTS + ++S+F P A ++ LA L K
Sbjct: 81 DSSSGSPTNLDKIAAQGRKRKKRTSIEVGVKGALESHFLKCPKPSAHEITGLADSLQLEK 140
Query: 77 RVLQ 80
V++
Sbjct: 141 EVVR 144
>3l1p_A POU domain, class 5, transcription factor 1; POU, transcription
factor DNA complex, pore, stem cells; HET: DNA; 2.80A
{Mus musculus} PDB: 1ocp_A
Length = 155
Score = 55.1 bits (132), Expect = 2e-11
Identities = 14/75 (18%), Positives = 31/75 (41%), Gaps = 2/75 (2%)
Query: 6 DLSSSMESLSYESGAGNSSPGSGVHSHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDL 65
L +E S + ++ R RTS ++ ++++ F + P + +
Sbjct: 69 LLEKWVEEADNNENLQEISKSETLVQARK--RKRTSIENRVRWSLETMFLKSPKPSLQQI 126
Query: 66 KQLAQKTGLSKRVLQ 80
+A + GL K V++
Sbjct: 127 THIANQLGLEKDVVR 141
>2dn0_A Zinc fingers and homeoboxes protein 3; triple homeobox 1 protein,
KIAA0395, TIX1, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 76
Score = 52.0 bits (125), Expect = 6e-11
Identities = 18/55 (32%), Positives = 27/55 (49%), Gaps = 2/55 (3%)
Query: 26 GSGVHSHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 80
GS S + + S H QL +K F NQ P +++ L + TGLS R ++
Sbjct: 1 GSSGSSGASIYKNKKS--HEQLSALKGSFCRNQFPGQSEVEHLTKVTGLSTREVR 53
>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 = 50.9 bits (122), Expect = 1e-10
Identities = 10/48 (20%), Positives = 22/48 (45%)
Query: 33 QRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 80
Q+ +K+ F +Q PD ++ +L + TGL++ ++
Sbjct: 2 AHHHHHHRKKTKEQIAHLKASFLQSQFPDDAEVYRLIEVTGLARSEIK 49
>3d1n_I POU domain, class 6, transcription factor 1; protein-DNA complex,
helix-turn-helix (HTH), DNA-binding, homeobox, nucleus,
transcription regulation; 2.51A {Homo sapiens}
Length = 151
Score = 50.0 bits (119), Expect = 2e-09
Identities = 11/73 (15%), Positives = 29/73 (39%)
Query: 8 SSSMESLSYESGAGNSSPGSGVHSHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQ 67
E+ + + ++ RTSF + + +YF N P +++ +
Sbjct: 66 KWLNEAELRNQEGQQNLMEFVGGEPSKKRKRRTSFTPQAIEALNAYFEKNPLPTGQEITE 125
Query: 68 LAQKTGLSKRVLQ 80
+A++ + V++
Sbjct: 126 MAKELNYDREVVR 138
>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 = 47.1 bits (111), Expect = 9e-09
Identities = 14/70 (20%), Positives = 27/70 (38%)
Query: 11 MESLSYESGAGNSSPGSGVHSHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQ 70
M + +G G + QL +KS F Q P ++ +LA+
Sbjct: 1 MAHHHHHHSSGLEVLFQGPAPKSGSTGKICKKTPEQLHMLKSAFVRTQWPSPEEYDKLAK 60
Query: 71 KTGLSKRVLQ 80
++GL++ +
Sbjct: 61 ESGLARTDIV 70
>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 = 45.4 bits (107), Expect = 3e-08
Identities = 14/60 (23%), Positives = 30/60 (50%), Gaps = 4/60 (6%)
Query: 21 GNSSPGSGVHSHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 80
G+S + Q+ K +T+ QLR +++ F + ++L +L +T L++R +
Sbjct: 1 GSSGSSGPDFTPQKFKE-KTA---EQLRVLQASFLNSSVLTDEELNRLRAQTKLTRREID 56
>2e19_A Transcription factor 8; homeobox domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 64
Score = 44.6 bits (105), Expect = 3e-08
Identities = 10/36 (27%), Positives = 21/36 (58%)
Query: 45 HQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 80
+ L +K+Y+ +N P A++L ++A L V++
Sbjct: 13 NLLSLLKAYYALNAQPSAEELSKIADSVNLPLDVVK 48
>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 = 44.1 bits (104), Expect = 7e-08
Identities = 14/50 (28%), Positives = 25/50 (50%), Gaps = 2/50 (4%)
Query: 31 SHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 80
S TK + QLR ++S F N P ++L +L +T +++R +
Sbjct: 5 SSGPTKYKERA--PEQLRALESSFAQNPLPLDEELDRLRSETKMTRREID 52
>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 = 44.6 bits (105), Expect = 7e-08
Identities = 12/60 (20%), Positives = 24/60 (40%), Gaps = 2/60 (3%)
Query: 21 GNSSPGSGVHSHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 80
G+S K + Q++ ++ F + P +L +L +T LS+R +
Sbjct: 1 GSSGSSGAYPDFAPQKFKEKT--QGQVKILEDSFLKSSFPTQAELDRLRVETKLSRREID 58
>2hi3_A Homeodomain-only protein; transcription; NMR {Mus musculus} SCOP:
a.4.1.1
Length = 73
Score = 44.0 bits (104), Expect = 8e-08
Identities = 11/47 (23%), Positives = 24/47 (51%), Gaps = 1/47 (2%)
Query: 35 TKRMRTSFKHHQLRTMKSYFN-INQNPDAKDLKQLAQKTGLSKRVLQ 80
+ + + Q+ ++ FN +N++PD L +A + GL++ Q
Sbjct: 2 SAQTVSGPTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQ 48
>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 = 43.2 bits (101), Expect = 1e-07
Identities = 10/50 (20%), Positives = 26/50 (52%), Gaps = 1/50 (2%)
Query: 31 SHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 80
S + +K H + +K+Y+ +N P++ +L +++ GL + ++
Sbjct: 2 SSGSSGSPINPYKDH-MSVLKAYYAMNMEPNSDELLKISIAVGLPQEFVK 50
>2d5v_A Hepatocyte nuclear factor 6; transcription factor,
transcription-DNA complex; 2.00A {Rattus norvegicus}
PDB: 1s7e_A
Length = 164
Score = 39.1 bits (90), Expect = 2e-05
Identities = 14/69 (20%), Positives = 24/69 (34%)
Query: 12 ESLSYESGAGNSSPGSGVHSHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQK 71
S + G K+ R F Q RT+ + F N+ P + ++Q+
Sbjct: 74 MSALRLAACKRKEQEHGKDRGNTPKKPRLVFTDVQRRTLHAIFKENKRPSKELQITISQQ 133
Query: 72 TGLSKRVLQ 80
GL +
Sbjct: 134 LGLELSTVS 142
>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 = 37.3 bits (87), Expect = 3e-05
Identities = 14/40 (35%), Positives = 23/40 (57%)
Query: 36 KRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLS 75
+R RT+F +Q+ +++ F +N P L+ LAQK L
Sbjct: 2 RRPRTAFTQNQIEVLENVFRVNCYPGIDILEDLAQKLNLE 41
>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 = 36.6 bits (85), Expect = 5e-05
Identities = 20/59 (33%), Positives = 29/59 (49%), Gaps = 2/59 (3%)
Query: 17 ESGAGNSSPGSGVHSHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLS 75
+ S PG + QR R RT+F QL ++ F Q PD ++LAQ+T L+
Sbjct: 2 DISDCESEPGIALKRKQR--RSRTTFSASQLDELERAFERTQYPDIYTREELAQRTNLT 58
>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 = 36.2 bits (84), Expect = 7e-05
Identities = 10/38 (26%), Positives = 20/38 (52%), Gaps = 1/38 (2%)
Query: 39 RTSFKHHQLRTMKSYFN-INQNPDAKDLKQLAQKTGLS 75
+ Q+ ++ FN +N++PD L +A + GL+
Sbjct: 5 AATMTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLT 42
>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 = 34.9 bits (81), Expect = 2e-04
Identities = 7/45 (15%), Positives = 25/45 (55%)
Query: 33 QRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKR 77
+++ + ++S ++ F Q+ ++K+ +++A+K G++
Sbjct: 3 EKSPKGKSSISPQARAFLEEVFRRKQSLNSKEKEEVAKKCGITPL 47
>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 = 34.6 bits (79), Expect = 3e-04
Identities = 12/46 (26%), Positives = 20/46 (43%)
Query: 35 TKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 80
+ QL +KS+F Q +D ++L Q TGL + +
Sbjct: 3 SGSSGKRKTKEQLAILKSFFLQCQWARREDYQKLEQITGLPRPEII 48
>2h8r_A Hepatocyte nuclear factor 1-beta; trasncription factor, POU, homeo,
protein-DNA, human disease; 3.20A {Homo sapiens}
Length = 221
Score = 36.1 bits (82), Expect = 3e-04
Identities = 9/70 (12%), Positives = 24/70 (34%), Gaps = 2/70 (2%)
Query: 3 HSGDLSSSMESLSYESGAGNSSPGSGVHSHQRTKRMRTSFKHHQLRTMKSYFNINQNPDA 62
L S+ G + + + R R R + + + ++ +NP
Sbjct: 112 QLLFLFPEFSQQSHGPGQSDDACSEPTNKKMR--RNRFKWGPASQQILYQAYDRQKNPSK 169
Query: 63 KDLKQLAQKT 72
++ + L ++
Sbjct: 170 EEREALVEEC 179
>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 = 36.0 bits (82), Expect = 4e-04
Identities = 6/52 (11%), Positives = 19/52 (36%)
Query: 21 GNSSPGSGVHSHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKT 72
P ++ +R R + + + + +NP ++ + L ++
Sbjct: 101 LIEEPTGDELPTKKGRRNRFKWGPASQQILFQAYERQKNPSKEERETLVEEC 152
>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 = 34.2 bits (79), Expect = 4e-04
Identities = 13/40 (32%), Positives = 23/40 (57%)
Query: 36 KRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLS 75
+R RT F QL+ +++ F N+ PD +++A T L+
Sbjct: 4 RRQRTHFTSQQLQQLEATFQRNRYPDMSTREEIAVWTNLT 43
>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 = 34.2 bits (78), Expect = 5e-04
Identities = 18/66 (27%), Positives = 29/66 (43%), Gaps = 4/66 (6%)
Query: 19 GAGNSSPGSGVHSHQRTKRMRTSFKHHQLRTMKSYFNIN----QNPDAKDLKQLAQKTGL 74
G+ SS S KR RT F Q M + Q D + +++ Q+TG+
Sbjct: 1 GSSGSSGSSAEAGGGIRKRHRTKFTAEQKERMLALAERIGWRIQRQDDEVIQRFCQETGV 60
Query: 75 SKRVLQ 80
++VL+
Sbjct: 61 PRQVLK 66
>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 = 34.2 bits (79), Expect = 5e-04
Identities = 15/45 (33%), Positives = 22/45 (48%)
Query: 31 SHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLS 75
S +R RT F QL +++ F + PD +QLA+K L
Sbjct: 3 SGSSGRRHRTIFTDEQLEALENLFQETKYPDVGTREQLARKVHLR 47
>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 = 34.1 bits (78), Expect = 7e-04
Identities = 15/71 (21%), Positives = 29/71 (40%), Gaps = 4/71 (5%)
Query: 9 SSMESLSYESGAGNSSPGSGVHSHQRTKRMRTSFKHHQLRTMKSYFNINQN---PDAKDL 65
+ ++ S + N ++ + R F +R ++S+F N D K L
Sbjct: 2 LTQKNKSADGLVFNVVTQDMINKSTKPYR-GHRFTKENVRILESWFAKNIENPYLDTKGL 60
Query: 66 KQLAQKTGLSK 76
+ L + T LS+
Sbjct: 61 ENLMKNTSLSR 71
>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 = 33.6 bits (77), Expect = 9e-04
Identities = 17/59 (28%), Positives = 26/59 (44%)
Query: 19 GAGNSSPGSGVHSHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKR 77
G+ SS G ++ +R RT F QL ++ F + D LA+ GLS+
Sbjct: 1 GSSGSSGGEPGTKAKKGRRSRTVFTELQLMGLEKRFEKQKYLSTPDRIDLAESLGLSQL 59
>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 = 33.8 bits (77), Expect = 0.001
Identities = 13/42 (30%), Positives = 21/42 (50%)
Query: 31 SHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKT 72
S + R +++ L M+SYFN NQ PD +++A
Sbjct: 3 SGSSGRGSRFTWRKECLAVMESYFNENQYPDEAKREEIANAC 44
>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 = 33.0 bits (76), Expect = 0.001
Identities = 12/41 (29%), Positives = 21/41 (51%), Gaps = 1/41 (2%)
Query: 39 RTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSK-RV 78
+F QL ++ F+ PD ++LA K GL++ R+
Sbjct: 3 HMTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARI 43
>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 = 31.7 bits (72), Expect = 0.004
Identities = 10/30 (33%), Positives = 18/30 (60%)
Query: 51 KSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 80
K + ++ + PD K LK L+++ S R +Q
Sbjct: 25 KVFVSVTKYPDEKRLKGLSKQLDWSVRKIQ 54
>2cue_A Paired box protein PAX6; homeobox domain, transcription factor,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
a.4.1.1
Length = 80
Score = 31.6 bits (72), Expect = 0.004
Identities = 14/45 (31%), Positives = 20/45 (44%)
Query: 31 SHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLS 75
S +R RTSF Q+ ++ F PD ++LA K L
Sbjct: 3 SGSSGQRNRTSFTQEQIEALEKEFERTHYPDVFARERLAAKIDLP 47
>1lfb_A Liver transcription factor (LFB1); transcription regulation;
2.80A {Rattus norvegicus} SCOP: a.4.1.1 PDB: 2lfb_A
Length = 99
Score = 32.1 bits (72), Expect = 0.005
Identities = 5/39 (12%), Positives = 17/39 (43%)
Query: 34 RTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKT 72
+ +R R + + + + +NP ++ + L ++
Sbjct: 8 KGRRNRFKWGPASQQILFQAYERQKNPSKEERETLVEEC 46
>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 = 31.5 bits (70), Expect = 0.006
Identities = 9/57 (15%), Positives = 22/57 (38%), Gaps = 4/57 (7%)
Query: 28 GVHSHQRTKRMRTSFKHHQLRTMKSYFNINQN----PDAKDLKQLAQKTGLSKRVLQ 80
G + RT F L T+K Y++ + ++ +A + + +++
Sbjct: 1 GSSGSSGALQDRTQFSDRDLATLKKYWDNGMTSLGSVCREKIEAVATELNVDCEIVR 57
>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 = 0.007
Identities = 19/66 (28%), Positives = 30/66 (45%), Gaps = 4/66 (6%)
Query: 19 GAGNSSPGSGVHSHQRTKRMRTSFKHHQLRTMKSYFNIN----QNPDAKDLKQLAQKTGL 74
G+ SS + S TKR RT F Q M ++ Q D ++Q +TG+
Sbjct: 1 GSSGSSGSNPSSSGGTTKRFRTKFTAEQKEKMLAFAERLGWRIQKHDDVAVEQFCAETGV 60
Query: 75 SKRVLQ 80
++VL+
Sbjct: 61 RRQVLK 66
>2kt0_A Nanog, homeobox protein nanog; homeodomain, structural genomics,
protein structure initiative, PSI, center for
eukaryotic structural genomics; NMR {Homo sapiens}
Length = 84
Score = 30.5 bits (69), Expect = 0.015
Identities = 12/61 (19%), Positives = 24/61 (39%)
Query: 17 ESGAGNSSPGSGVHSHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSK 76
+ A NS + ++ RT F QL + F + + +++L+ LS
Sbjct: 4 PTSAENSVAKKEDKVPVKKQKTRTVFSSTQLCVLNDRFQRQKYLSLQQMQELSNILNLSY 63
Query: 77 R 77
+
Sbjct: 64 K 64
>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 = 29.0 bits (65), Expect = 0.034
Identities = 9/30 (30%), Positives = 17/30 (56%)
Query: 51 KSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 80
K + I ++PD K L+ L+++ R +Q
Sbjct: 17 KVFTAITKHPDEKRLEGLSKQLDWDVRSIQ 46
>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 = 28.1 bits (63), Expect = 0.071
Identities = 15/43 (34%), Positives = 24/43 (55%)
Query: 35 TKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKR 77
KR RT+F QL +K FN N+ + +QL+ + GL++
Sbjct: 3 EKRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEA 45
>2djn_A Homeobox protein DLX-5; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 70
Score = 28.5 bits (64), Expect = 0.072
Identities = 11/47 (23%), Positives = 20/47 (42%)
Query: 31 SHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKR 77
S ++ RT + QL ++ F Q + +LA GL++
Sbjct: 3 SGSSGRKPRTIYSSFQLAALQRRFQKTQYLALPERAELAASLGLTQT 49
>1le8_B Mating-type protein alpha-2; matalpha2, isothermal titration
calorimetry, protein-DNA complex, transcription/DNA
complex; 2.30A {Saccharomyces cerevisiae} SCOP: a.4.1.1
PDB: 1akh_B* 1apl_C* 1yrn_B*
Length = 83
Score = 28.2 bits (63), Expect = 0.094
Identities = 13/46 (28%), Positives = 21/46 (45%), Gaps = 4/46 (8%)
Query: 34 RTKRMRTSFKHHQLRTMKSYFNINQN---PDAKDLKQLAQKTGLSK 76
+ R F +R ++S+F N D K L+ L + T LS+
Sbjct: 2 KPYR-GHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSR 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 = 28.0 bits (63), Expect = 0.100
Identities = 11/44 (25%), Positives = 21/44 (47%)
Query: 34 RTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKR 77
++MRT F QL +K F + + +++L+ LS +
Sbjct: 2 TKQKMRTVFSQAQLCALKDRFQKQKYLSLQQMQELSSILNLSYK 45
>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 = 26.9 bits (60), Expect = 0.21
Identities = 12/38 (31%), Positives = 19/38 (50%), Gaps = 3/38 (7%)
Query: 42 FKHHQLRTMKSYFNINQN---PDAKDLKQLAQKTGLSK 76
F +R ++S+F N D K L+ L + T LS+
Sbjct: 5 FTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSR 42
>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 = 27.7 bits (61), Expect = 0.25
Identities = 5/48 (10%), Positives = 10/48 (20%)
Query: 1 MLHSGDLSSSMESLSYESGAGNSSPGSGVHSHQRTKRMRTSFKHHQLR 48
S + G +R+ T ++ Q
Sbjct: 68 WTKINGGSGGSGGSGGDVMVVGEPTLMGGEFGDEDERLITRLENTQFD 115
>3a01_A Homeodomain-containing protein; homeodomain, protein-DNA complex,
DNA-binding, homeobox, NUC developmental protein; 2.70A
{Drosophila melanogaster}
Length = 93
Score = 27.1 bits (60), Expect = 0.27
Identities = 9/47 (19%), Positives = 22/47 (46%)
Query: 31 SHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKR 77
+ + K+ RTSF Q+ ++ F+ + + + LA+ ++
Sbjct: 13 TPPKRKKPRTSFTRIQVAELEKRFHKQKYLASAERAALARGLKMTDA 59
>1u8b_A ADA polyprotein; protein-DNA complex, methylation, zinc,
helix-turn-helix, metal binding protein/DNA complex;
2.10A {Escherichia coli} PDB: 1zgw_A* 1wpk_A* 1adn_A
1eyf_A
Length = 133
Score = 27.4 bits (60), Expect = 0.36
Identities = 9/54 (16%), Positives = 22/54 (40%)
Query: 27 SGVHSHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 80
+G +R + + + + H+L + + + L+ LA + +S L
Sbjct: 58 AGFRPCKRCQPDKANPRQHRLDKITHACRLLEQETPVTLEALADQVAMSPFHLH 111
>2d3a_A Glutamine synthetase; ligase; HET: P3S ADP; 2.63A {Zea mays} PDB:
2d3b_A* 2d3c_A*
Length = 356
Score = 27.4 bits (61), Expect = 0.38
Identities = 6/16 (37%), Positives = 10/16 (62%)
Query: 25 PGSGVHSHQRTKRMRT 40
G+G H++ T+ MR
Sbjct: 244 NGAGAHTNYSTESMRK 259
>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 = 27.2 bits (59), Expect = 0.39
Identities = 6/30 (20%), Positives = 11/30 (36%), Gaps = 13/30 (43%)
Query: 33 QRTKRMRTSFKHHQLRTMKSYFNINQNPDA 62
Q K+++ S +K Y D+
Sbjct: 20 QALKKLQAS--------LKLY-----ADDS 36
>3fky_A Glutamine synthetase; beta-grAsp, catalytic domain, acetylation,
cytoplasm, ligase, UBL conjugation; HET: FLC; 2.95A
{Saccharomyces cerevisiae}
Length = 370
Score = 27.4 bits (61), Expect = 0.42
Identities = 7/29 (24%), Positives = 11/29 (37%)
Query: 26 GSGVHSHQRTKRMRTSFKHHQLRTMKSYF 54
G+G H++ TK MR +
Sbjct: 246 GAGCHANVSTKEMRQPGGTKYIEQAIEKL 274
>2da6_A Hepatocyte nuclear factor 1-beta; homeobox domain, three helices
with the DNA binding helix- turn-helix motif,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 102
Score = 26.8 bits (58), Expect = 0.49
Identities = 6/40 (15%), Positives = 17/40 (42%)
Query: 31 SHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQ 70
S + R R + + + ++ +NP ++ + L +
Sbjct: 2 SSGSSGRNRFKWGPASQQILYQAYDRQKNPSKEEREALVE 41
>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 = 26.3 bits (58), Expect = 0.59
Identities = 8/47 (17%), Positives = 17/47 (36%)
Query: 31 SHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKR 77
+ ++ R F Q ++ F + A + + LA L+
Sbjct: 5 LPNKKRKRRVLFTKAQTYELERRFRQQRYLSAPEREHLASLIRLTPT 51
>2l9r_A Homeobox protein NKX-3.1; structural genomics, northeast
structural genomics consortiu PSI-biology, protein
structure initiative; NMR {Homo sapiens}
Length = 69
Score = 25.8 bits (57), Expect = 0.63
Identities = 7/44 (15%), Positives = 17/44 (38%)
Query: 34 RTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKR 77
+ H Q+ ++ F+ + A + LA+ L++
Sbjct: 3 HHHHHHSHMSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTET 46
>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 = 25.8 bits (57), Expect = 0.66
Identities = 11/47 (23%), Positives = 20/47 (42%)
Query: 31 SHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKR 77
S K + F + Q ++ F + + K+LA+ LS+R
Sbjct: 3 SGSSGKGGQVRFSNDQTIELEKKFETQKYLSPPERKRLAKMLQLSER 49
>3rkq_A Homeobox protein NKX-2.5; helix-turn-helix, DNA binding, nucleus,
transcription-DNA CO; 1.70A {Homo sapiens}
Length = 58
Score = 25.3 bits (56), Expect = 0.81
Identities = 9/40 (22%), Positives = 17/40 (42%)
Query: 36 KRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLS 75
++ R F Q+ ++ F + A + QLA L+
Sbjct: 3 RKPRVLFSQAQVYELERRFKQQRYLSAPERDQLASVLKLT 42
>3qhp_A Type 1 capsular polysaccharide biosynthesis prote (CAPJ);
rossmann fold, glycosyltransferase, transferase; 1.50A
{Helicobacter pylori}
Length = 166
Score = 26.3 bits (59), Expect = 0.91
Identities = 9/19 (47%), Positives = 11/19 (57%)
Query: 60 PDAKDLKQLAQKTGLSKRV 78
PD K +K LAQK G+
Sbjct: 42 PDEKKIKLLAQKLGVKAEF 60
>1ig7_A Homeotic protein MSX-1; helix-turn-helix, transcription/DNA
complex; 2.20A {Mus musculus} SCOP: a.4.1.1
Length = 58
Score = 25.3 bits (56), Expect = 1.0
Identities = 8/42 (19%), Positives = 17/42 (40%)
Query: 36 KRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKR 77
++ RT F QL ++ F Q + + + L++
Sbjct: 1 RKPRTPFTTAQLLALERKFRQKQYLSIAERAEFSSSLSLTET 42
>1ta9_A Glycerol dehydrogenase; oxidoredu; 1.90A {Schizosaccharomyces
pombe}
Length = 450
Score = 26.3 bits (58), Expect = 1.2
Identities = 6/22 (27%), Positives = 11/22 (50%), Gaps = 1/22 (4%)
Query: 11 MESLSYESGAGNSSPGSG-VHS 31
+E+ + SG G + G H+
Sbjct: 295 VEANTLMSGLGFENGGLAAAHA 316
>1d5y_A ROB transcription factor; protein-DNA complex, DNA,
transcription/DNA complex; HET: DNA; 2.70A {Escherichia
coli} SCOP: a.4.1.8 a.4.1.8 d.60.1.2
Length = 292
Score = 25.9 bits (57), Expect = 1.4
Identities = 9/26 (34%), Positives = 12/26 (46%), Gaps = 1/26 (3%)
Query: 56 INQNPDAK-DLKQLAQKTGLSKRVLQ 80
+ + D L +A K G SK LQ
Sbjct: 12 LEGHLDQPLSLDNVAAKAGYSKWHLQ 37
>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 = 24.7 bits (54), Expect = 1.6
Identities = 11/42 (26%), Positives = 19/42 (45%)
Query: 36 KRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKR 77
+R RT+F Q+ ++ +F + A L L+ K L
Sbjct: 3 RRTRTTFTSSQIAELEQHFLQGRYLTAPRLADLSAKLALGTA 44
>1pov_0 Poliovirus native empty capsid (type 1); picornavirus,
icosahedral virus; HET: MYR SPH; 2.80A {Human
poliovirus 1} SCOP: b.121.4.1
Length = 340
Score = 25.7 bits (56), Expect = 1.7
Identities = 10/47 (21%), Positives = 14/47 (29%), Gaps = 9/47 (19%)
Query: 19 GAGNSSPGSGVHSHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDL 65
GA SS G H + ++ Y IN D+
Sbjct: 1 GAQVSSQKVGAHENSNRAYGGSTIN---------YTTINYYRDSASN 38
>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 = 1.8
Identities = 7/46 (15%), Positives = 16/46 (34%), Gaps = 3/46 (6%)
Query: 34 RTKRMRTSFKHHQLRTMKSYFNINQN---PDAKDLKQLAQKTGLSK 76
+ YF + + P + ++LA+K G++
Sbjct: 2 SGHIEGRHMNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITV 47
>2d1p_A TUSD, hypothetical UPF0163 protein YHEN; tRNA modification,
sulfur transfer, structural genomics, translation;
2.15A {Escherichia coli} SCOP: c.114.1.1
Length = 140
Score = 25.3 bits (55), Expect = 1.8
Identities = 7/34 (20%), Positives = 11/34 (32%)
Query: 38 MRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQK 71
MR S HH +M+ + A +
Sbjct: 1 MRGSHHHHHHGSMRFAIVVTGPAYGTQQASSAFQ 34
>2l7z_A Homeobox protein HOX-A13; gene regulation; NMR {Homo sapiens}
PDB: 2ld5_A*
Length = 73
Score = 24.8 bits (54), Expect = 2.0
Identities = 8/49 (16%), Positives = 22/49 (44%)
Query: 29 VHSHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKR 77
+ ++ R + QL+ ++ + N+ ++++ T LS+R
Sbjct: 1 MSHMLEGRKKRVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSER 49
>2ojw_A Glutamine synthetase; amino-acid biosynthesis, ligase, structural
GENO structural genomics consortium, SGC; HET: ADP;
2.05A {Homo sapiens} PDB: 2qc8_A* 2uu7_A
Length = 384
Score = 25.5 bits (56), Expect = 2.0
Identities = 7/15 (46%), Positives = 10/15 (66%)
Query: 26 GSGVHSHQRTKRMRT 40
G+G H++ TK MR
Sbjct: 268 GAGCHTNFSTKAMRE 282
>1jq5_A Glycerol dehydrogenase; oxidoreductase, NAD, glycerol metabolism;
HET: NAD; 1.70A {Geobacillus stearothermophilus} SCOP:
e.22.1.2 PDB: 1jpu_A* 1jqa_A*
Length = 370
Score = 25.4 bits (56), Expect = 2.1
Identities = 7/22 (31%), Positives = 11/22 (50%), Gaps = 1/22 (4%)
Query: 11 MESLSYESGAGNSSPGSG-VHS 31
+E+ + SG G S G H+
Sbjct: 236 VEANTLLSGLGFESGGLAAAHA 257
>1ftt_A TTF-1 HD, thyroid transcription factor 1 homeodomain; DNA binding
protein; NMR {Rattus norvegicus} SCOP: a.4.1.1
Length = 68
Score = 24.6 bits (54), Expect = 2.1
Identities = 8/40 (20%), Positives = 17/40 (42%)
Query: 36 KRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLS 75
++ R F Q+ ++ F + A + + LA L+
Sbjct: 3 RKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLT 42
>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 = 24.2 bits (53), Expect = 2.3
Identities = 10/42 (23%), Positives = 17/42 (40%)
Query: 36 KRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKR 77
+R RT+F QL ++ F +LA + L +
Sbjct: 2 RRYRTAFTRDQLGRLEKEFYKENYVSRPRRCELAAQLNLPES 43
>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 = 24.3 bits (53), Expect = 2.6
Identities = 12/49 (24%), Positives = 19/49 (38%), Gaps = 3/49 (6%)
Query: 31 SHQRTKRMRTSFKHHQLRTMKSYFNINQN---PDAKDLKQLAQKTGLSK 76
S K R H M+S+ + P + KQ+A +T L+
Sbjct: 3 SGSSGKNKRGVLPKHATNVMRSWLFQHIGHPYPTEDEKKQIAAQTNLTL 51
>2iw1_A Lipopolysaccharide core biosynthesis protein RFAG; transferase,
lipopolysaccharide biosynthesis, family GT-4,
glycosyltransferase, LPS; HET: U2F; 1.5A {Escherichia
coli} SCOP: c.87.1.8 PDB: 2iv7_A*
Length = 374
Score = 25.0 bits (55), Expect = 3.0
Identities = 5/19 (26%), Positives = 9/19 (47%)
Query: 60 PDAKDLKQLAQKTGLSKRV 78
+ + LA+K G+ V
Sbjct: 237 DKPRKFEALAEKLGVRSNV 255
>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 = 24.4 bits (53), Expect = 3.0
Identities = 10/55 (18%), Positives = 24/55 (43%)
Query: 23 SSPGSGVHSHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKR 77
++P + + T++ R + HQ ++ F N ++A+ L++R
Sbjct: 1 NNPAANWLHARSTRKKRCPYTKHQTLELEKEFLFNMYLTRDRRYEVARLLNLTER 55
>1o98_A 2,3-bisphosphoglycerate-independent phosphoglycerate mutase;
isomerase, alpha/beta-type structure; HET: 2PG; 1.4A
{Bacillus stearothermophilus} SCOP: c.105.1.1 c.76.1.3
PDB: 1ejj_A* 1eqj_A* 1o99_A* 2ify_A
Length = 511
Score = 24.8 bits (55), Expect = 3.4
Identities = 7/11 (63%), Positives = 7/11 (63%), Gaps = 1/11 (9%)
Query: 24 SPGSGVHSHQR 34
S G GVHSH
Sbjct: 118 SDG-GVHSHIH 127
>3igz_B Cofactor-independent phosphoglycerate mutase; glycolysis, cobalt,
isomerase; HET: 3PG 2PG; 1.90A {Leishmania mexicana}
PDB: 3igy_B* 3nvl_A
Length = 561
Score = 24.5 bits (54), Expect = 4.4
Identities = 6/10 (60%), Positives = 6/10 (60%), Gaps = 1/10 (10%)
Query: 24 SPGSGVHSHQ 33
S G GVHS
Sbjct: 131 SDG-GVHSRD 139
>2af4_C Phosphate acetyltransferase; PTA dimer with one COA ligand bound
PER monomer, acyltransferase; HET: COA; 2.15A
{Methanosarcina thermophila} SCOP: c.77.1.5 PDB: 1qzt_A*
2af3_C*
Length = 333
Score = 24.4 bits (54), Expect = 4.4
Identities = 4/24 (16%), Positives = 12/24 (50%)
Query: 56 INQNPDAKDLKQLAQKTGLSKRVL 79
+ + P +D+ +A + + +L
Sbjct: 174 MVEMPSVEDVANIAVISAKTFELL 197
>1r5j_A Putative phosphotransacetylase; lactate dehydrogenase-like
nucleotide-binding fold, structural genomics, BSGC
structure funded by NIH; 2.70A {Streptococcus pyogenes}
SCOP: c.77.1.5
Length = 337
Score = 24.4 bits (54), Expect = 4.6
Identities = 7/24 (29%), Positives = 15/24 (62%)
Query: 56 INQNPDAKDLKQLAQKTGLSKRVL 79
IN +P A++L ++A T + ++
Sbjct: 179 INIDPTAQELAEIAVNTAETAKIF 202
>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 = 23.6 bits (51), Expect = 4.6
Identities = 10/47 (21%), Positives = 22/47 (46%)
Query: 31 SHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKR 77
S ++ R + QLR ++ + N+ ++++ T LS+R
Sbjct: 3 SGSSGRKKRIPYSKGQLRELEREYAANKFITKDKRRKISAATSLSER 49
>1s3c_A Arsenate reductase; ARSC, arsenite, oxidoreductase; 1.25A
{Escherichia coli} PDB: 1sd9_A 1i9d_A 1j9b_A 1sd8_A
1jzw_A* 1sk1_A* 1sjz_A* 1sk0_A* 1sk2_A 1s3d_A
Length = 141
Score = 24.3 bits (53), Expect = 4.7
Identities = 7/24 (29%), Positives = 11/24 (45%)
Query: 56 INQNPDAKDLKQLAQKTGLSKRVL 79
+ P +L +L G+S R L
Sbjct: 35 LENPPSRDELVKLIADMGISVRAL 58
>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 = 23.5 bits (51), Expect = 5.2
Identities = 10/44 (22%), Positives = 21/44 (47%), Gaps = 3/44 (6%)
Query: 36 KRMRTSFKHHQLRTMKSYFNINQN---PDAKDLKQLAQKTGLSK 76
+R R +F + YF + + P + ++LA+K G++
Sbjct: 2 RRKRRNFNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITV 45
>1vmi_A Putative phosphate acetyltransferase; NP_416953.1, structura
genomics, JCSG, protein structure initiative, PSI, joint
CE structural genomics; 2.32A {Escherichia coli} SCOP:
c.77.1.5
Length = 355
Score = 24.1 bits (53), Expect = 5.5
Identities = 5/24 (20%), Positives = 10/24 (41%)
Query: 56 INQNPDAKDLKQLAQKTGLSKRVL 79
+ P A L +A + + R +
Sbjct: 181 VVPQPTAAQLADIALASAETWRAI 204
>4e4r_A Phosphate acetyltransferase; structural genomics, EUTD, center for
structural genomics of infectious diseases, csgid; HET:
TRS; 1.44A {Staphylococcus aureus subsp}
Length = 331
Score = 24.1 bits (53), Expect = 5.5
Identities = 6/24 (25%), Positives = 12/24 (50%)
Query: 56 INQNPDAKDLKQLAQKTGLSKRVL 79
IN D++ L ++A ++ S
Sbjct: 172 INPELDSQGLAEIAVESAKSALSF 195
>1td9_A Phosphate acetyltransferase; structural genomics, BSGC structure
funded by NIH, protein structure initiative, PSI; 2.75A
{Bacillus subtilis} SCOP: c.77.1.5 PDB: 1xco_A
Length = 329
Score = 24.0 bits (53), Expect = 5.7
Identities = 7/24 (29%), Positives = 16/24 (66%)
Query: 56 INQNPDAKDLKQLAQKTGLSKRVL 79
IN PD++DL ++A ++ + ++
Sbjct: 175 INIAPDSQDLAEIAIESANTAKMF 198
>3kwp_A Predicted methyltransferase; putative methyltransferase, MCSG, STRU
genomics, PSI-2, protein structure initiative; 2.29A
{Lactobacillus brevis atcc 367}
Length = 296
Score = 24.1 bits (53), Expect = 6.3
Identities = 4/14 (28%), Positives = 9/14 (64%)
Query: 66 KQLAQKTGLSKRVL 79
K++A+ G K+ +
Sbjct: 273 KEVAKLRGAKKQEI 286
>1ash_A Hemoglobin (OXY); oxygen storage; HET: HEM; 2.15A {Ascaris suum}
SCOP: a.1.1.2
Length = 150
Score = 24.0 bits (51), Expect = 6.5
Identities = 6/38 (15%), Positives = 18/38 (47%), Gaps = 2/38 (5%)
Query: 42 FKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVL 79
F+++ ++ YF + A+D++ +++L
Sbjct: 35 FENYP--PLRKYFKSREEYTAEDVQNDPFFAKQGQKIL 70
>2jjm_A Glycosyl transferase, group 1 family protein; anthrax, nucleotide,
carbohydrate; 3.10A {Bacillus anthracis} PDB: 3mbo_A*
Length = 394
Score = 24.2 bits (53), Expect = 6.7
Identities = 6/20 (30%), Positives = 10/20 (50%)
Query: 60 PDAKDLKQLAQKTGLSKRVL 79
P+ + QL + + RVL
Sbjct: 251 PEFCTILQLVKNLHIEDRVL 270
>1y9q_A Transcriptional regulator, HTH_3 family; transcriptional
regulaator, strucutral genomics, protein structure
initiative, PSI; 1.90A {Vibrio cholerae} SCOP: a.35.1.8
b.82.1.15
Length = 192
Score = 23.8 bits (52), Expect = 6.8
Identities = 8/15 (53%), Positives = 10/15 (66%)
Query: 65 LKQLAQKTGLSKRVL 79
L AQ TG+SK +L
Sbjct: 27 LDATAQLTGVSKAML 41
>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 = 24.2 bits (52), Expect = 7.3
Identities = 7/20 (35%), Positives = 9/20 (45%)
Query: 6 DLSSSMESLSYESGAGNSSP 25
L S+ S E+ G SP
Sbjct: 318 SLPPSILEDSLENNEGVPSP 337
>2h1k_A IPF-1, pancreatic and duodenal homeobox 1, homeodomain;
protein-DNA complex, transcription/DNA complex; 2.42A
{Mesocricetus auratus}
Length = 63
Score = 22.7 bits (49), Expect = 9.1
Identities = 12/43 (27%), Positives = 20/43 (46%)
Query: 35 TKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKR 77
KR RT++ QL ++ F N+ +LA L++R
Sbjct: 3 NKRTRTAYTRAQLLELEKEFLFNKYISRPRRVELAVMLNLTER 45
>1bl0_A Protein (multiple antibiotic resistance protein), DNA (5'-
D(*CP*CP*GP*AP*TP*GP*CP*CP*AP*CP*GP*TP*TP*TP*TP*GP*CP*T
P*AP *AP*AP*TP* CP*C)-3')...; transcriptional
activator; HET: DNA; 2.30A {Escherichia coli} SCOP:
a.4.1.8 a.4.1.8 PDB: 1xs9_A
Length = 129
Score = 23.4 bits (51), Expect = 9.2
Identities = 12/45 (26%), Positives = 25/45 (55%), Gaps = 2/45 (4%)
Query: 38 MRTSFKHHQLRTMKSYFN-INQNPDAK-DLKQLAQKTGLSKRVLQ 80
M S ++ T+ S + I N ++ L+++++++G SK LQ
Sbjct: 1 MTMSRRNTDAITIHSILDWIEDNLESPLSLEKVSERSGYSKWHLQ 45
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
0.310 0.122 0.334
Gapped
Lambda K H
0.267 0.0797 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,108,440
Number of extensions: 48523
Number of successful extensions: 208
Number of sequences better than 10.0: 1
Number of HSP's gapped: 206
Number of HSP's successfully gapped: 103
Length of query: 80
Length of database: 6,701,793
Length adjustment: 49
Effective length of query: 31
Effective length of database: 5,333,664
Effective search space: 165343584
Effective search space used: 165343584
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: 51 (23.3 bits)