RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17504
(196 letters)
>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 = 84.4 bits (208), Expect = 2e-21
Identities = 18/88 (20%), Positives = 32/88 (36%), Gaps = 1/88 (1%)
Query: 2 GISSSELVMRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYCRPHYEILRHRDYCGS 61
I + E+ MR +D V+HL CF C +C + GD + + + I C +
Sbjct: 17 RIRAYEMTMRVKDKVYHLECFKCAACQKHFSVGDRYLLINSDIVCEQDIYEWTKINGGSG 76
Query: 62 AEIEQPMSPRPAPWQPTTVQKGRPRKRK 89
+PT + + +
Sbjct: 77 GSGGSGGDVM-VVGEPTLMGGEFGDEDE 103
Score = 26.6 bits (58), Expect = 3.1
Identities = 6/50 (12%), Positives = 11/50 (22%)
Query: 114 LEMLHSGDLSSSMESLSYESGAGNSSPGSGVHSHQRTKRMRTSFKHHQLR 163
E S + G +R+ T ++ Q
Sbjct: 66 YEWTKINGGSGGSGGSGGDVMVVGEPTLMGGEFGDEDERLITRLENTQFD 115
>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 = 81.8 bits (202), Expect = 5e-21
Identities = 24/62 (38%), Positives = 35/62 (56%)
Query: 134 GAGNSSPGSGVHSHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRV 193
G+ SS G+G QR KR+RT+ QL + + ++ NP K L +A + GL KRV
Sbjct: 1 GSSGSSGGTGGEEPQRDKRLRTTITPEQLEILYQKYLLDSNPTRKMLDHIAHEVGLKKRV 60
Query: 194 LQ 195
+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 = 77.8 bits (192), Expect = 1e-19
Identities = 19/50 (38%), Positives = 32/50 (64%)
Query: 146 SHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 195
S KR RT QLR ++ YF+IN +P + +K++A K+GL ++V++
Sbjct: 3 SGSSGKRPRTRITDDQLRVLRQYFDINNSPSEEQIKEMADKSGLPQKVIK 52
>2xjy_A Rhombotin-2; oncoprotein, T-cell leukemia, proto-oncogene,
transcription, developmental protein; 2.40A {Homo
sapiens} PDB: 2xjz_A
Length = 131
Score = 78.6 bits (194), Expect = 3e-19
Identities = 16/50 (32%), Positives = 24/50 (48%)
Query: 2 GISSSELVMRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYCRPHYE 51
I + E+ MR +D V+HL CF C +C GD + + + I C
Sbjct: 75 RIRAYEMTMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVCEQDIY 124
Score = 51.3 bits (123), Expect = 6e-09
Identities = 15/55 (27%), Positives = 20/55 (36%), Gaps = 2/55 (3%)
Query: 9 VMRARDLVFHLHCFTCISCGILLT-KGDLFGMRDEMIYCRPHYEILR-HRDYCGS 61
++A D +H C +C CG L G + CR Y L C S
Sbjct: 17 FLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLFGQDGLCAS 71
>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 = 80.1 bits (197), Expect = 4e-19
Identities = 26/91 (28%), Positives = 38/91 (41%), Gaps = 3/91 (3%)
Query: 2 GISSSELVMRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYCRPHYEIL---RHRDY 58
I +SELVMRA+ V+HL CFTC +C L GD F + ++C H +
Sbjct: 78 SIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPTALINGHLNS 137
Query: 59 CGSAEIEQPMSPRPAPWQPTTVQKGRPRKRK 89
GS +PT + + +
Sbjct: 138 GGSGGSGGSGGDVMVVGEPTLMGGEFGDEDE 168
Score = 46.9 bits (111), Expect = 6e-07
Identities = 15/49 (30%), Positives = 19/49 (38%), Gaps = 1/49 (2%)
Query: 7 ELVMRARDLVFHLHCFTCISCGILLT-KGDLFGMRDEMIYCRPHYEILR 54
++ A D +H C C SC L G + MI CR Y L
Sbjct: 18 RFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLF 66
>2rgt_A Fusion of LIM/homeobox protein LHX3, linker, INSU enhancer protein
ISL-1; protein-protein complex, LIM domain, Zn finger,
activator, D binding; 2.05A {Mus musculus} PDB: 3mmk_A
Length = 169
Score = 79.1 bits (195), Expect = 5e-19
Identities = 30/95 (31%), Positives = 41/95 (43%), Gaps = 10/95 (10%)
Query: 2 GISSSELVMRARDLVFHLHCFTCISCGILLTKGDLFG-MRDEMIYCRPHYEILR--HRDY 58
GI +++V RA+D V+HLHCF C+ C L GD F M D + C+ YE +
Sbjct: 74 GIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETAKQGGSGG 133
Query: 59 CGSAEIEQPMSPRPAPWQ-------PTTVQKGRPR 86
G + PM P VQ +P
Sbjct: 134 SGGSGGGTPMVAASPERHDGGLQANPVEVQSYQPP 168
Score = 46.0 bits (109), Expect = 1e-06
Identities = 11/45 (24%), Positives = 20/45 (44%), Gaps = 2/45 (4%)
Query: 9 VMRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYCRPHYEIL 53
+++A D +H C C C + L + R E +YC+ +
Sbjct: 21 ILKALDRHWHSKCLKCSDCHVPL--AERCFSRGESVYCKDDFFKR 63
>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 = 76.0 bits (187), Expect = 9e-19
Identities = 43/50 (86%), Positives = 44/50 (88%)
Query: 146 SHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 195
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 = 71.6 bits (176), Expect = 3e-17
Identities = 19/47 (40%), Positives = 29/47 (61%)
Query: 149 RTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 195
+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 = 71.2 bits (175), Expect = 3e-17
Identities = 15/50 (30%), Positives = 25/50 (50%)
Query: 146 SHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 195
S + RT F +QLR ++ +F+ N P + +QL+ L RV+
Sbjct: 3 SGSSGRSSRTRFTDYQLRVLQDFFDANAYPKDDEFEQLSNLLNLPTRVIV 52
>2jtn_A LIM domain-binding protein 1, LIM/homeobox protein LHX3;
intramolecular (fusion) protein-protein complex, protein
binding/transcription complex; NMR {Mus musculus}
Length = 182
Score = 72.3 bits (177), Expect = 2e-16
Identities = 23/51 (45%), Positives = 31/51 (60%), Gaps = 1/51 (1%)
Query: 2 GISSSELVMRARDLVFHLHCFTCISCGILLTKGDLFG-MRDEMIYCRPHYE 51
GI +++V RA+D V+HLHCF C+ C L GD F M D + C+ YE
Sbjct: 128 GIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYE 178
Score = 46.8 bits (111), Expect = 5e-07
Identities = 11/43 (25%), Positives = 20/43 (46%), Gaps = 2/43 (4%)
Query: 9 VMRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYCRPHYE 51
+++A D +H C C C + L + R E +YC+ +
Sbjct: 75 ILKALDRHWHSKCLKCSDCHVPL--AERCFSRGESVYCKDDFF 115
>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 = 71.6 bits (175), Expect = 2e-16
Identities = 14/90 (15%), Positives = 42/90 (46%)
Query: 106 VMRIPSTTLEMLHSGDLSSSMESLSYESGAGNSSPGSGVHSHQRTKRMRTSFKHHQLRTM 165
+ R + L ++ L + + E+ + V +++R ++ RT+ +
Sbjct: 43 ICRFENLQLSFKNACKLKAILSKWLEEAEQVGALYNEKVGANERKRKRRTTISIAAKDAL 102
Query: 166 KSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 195
+ +F + P ++++ ++A++ L K V++
Sbjct: 103 ERHFGEHSKPSSQEIMRMAEELNLEKEVVR 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 = 67.1 bits (164), Expect = 2e-15
Identities = 11/52 (21%), Positives = 21/52 (40%), Gaps = 1/52 (1%)
Query: 146 SHQRTKRMRTSFKHHQLRTMKSYF-NINQNPDAKDLKQLAQKTGLSKRVLQN 196
S R RT L ++S+ ++ PD + + L+ + L K +
Sbjct: 3 SGSSGPRSRTKISLEALGILQSFIHDVGLYPDQEAIHTLSAQLDLPKHTIIK 54
>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 = 67.3 bits (164), Expect = 1e-14
Identities = 18/87 (20%), Positives = 42/87 (48%), Gaps = 2/87 (2%)
Query: 111 STTLEMLHSGDLSSSMESLS--YESGAGNSSPGSGVHSHQRTKRMRTSFKHHQLRTMKSY 168
+ L+ L L+ + +LS + ++ G+ R ++ RTS + + ++
Sbjct: 60 MSKLKPLLEKWLNDAEANLSSDSSLSSPSALNSPGIEGLSRRRKKRTSIETNIRVALEKS 119
Query: 169 FNINQNPDAKDLKQLAQKTGLSKRVLQ 195
F NQ P ++D+ +A++ + K V++
Sbjct: 120 FMENQKPTSEDITLIAEQLNMEKEVIR 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 = 58.6 bits (142), Expect = 3e-12
Identities = 14/50 (28%), Positives = 25/50 (50%)
Query: 146 SHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 195
S +R RT+F QL +++ F + PD +++A K L + +Q
Sbjct: 3 SGSSGRRERTTFTRAQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQ 52
>2xqn_T Testin, TESS; metal-binding protein, cytoskeleton, focal adhesion,
acrosom; 2.62A {Homo sapiens}
Length = 126
Score = 59.7 bits (145), Expect = 4e-12
Identities = 11/52 (21%), Positives = 18/52 (34%), Gaps = 3/52 (5%)
Query: 2 GISSSELVMRARDLVFHLH--CFTCISCGILLTKGDLFGMRDEMIYCRPHYE 51
I + + +H CF C C L G F + M++C +
Sbjct: 72 AIDPEVQRVTYNNFSWHASTECFLCSCCSKCLI-GQKFMPVEGMVFCSVECK 122
Score = 49.3 bits (118), Expect = 3e-08
Identities = 12/45 (26%), Positives = 22/45 (48%), Gaps = 1/45 (2%)
Query: 9 VMRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYCRPHYEIL 53
+A + +HL F C C +L G+++ M ++ C+P Y
Sbjct: 18 YTQAENQNWHLKHFCCFDCDSILA-GEIYVMVNDKPVCKPCYVKN 61
>1x61_A Thyroid receptor interacting protein 6; LIM domain,
OPA-interacting protein 1, zyxin related protein 1
(ZRP-1), structural genomics, NPPSFA; NMR {Homo
sapiens} SCOP: g.39.1.3 g.39.1.3
Length = 72
Score = 58.2 bits (141), Expect = 4e-12
Identities = 16/60 (26%), Positives = 22/60 (36%), Gaps = 2/60 (3%)
Query: 2 GISSSELVMRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYCRPHYEILRHR-DYCG 60
+ + A D VFH+ CF C +C L +G F + YC Y G
Sbjct: 14 DVVGDGAGVVALDRVFHVGCFVCSTCRAQL-RGQHFYAVERRAYCEGCYVATLESGPSSG 72
>1x6a_A LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc finger domain,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
g.39.1.3 g.39.1.3
Length = 81
Score = 58.3 bits (141), Expect = 6e-12
Identities = 12/47 (25%), Positives = 23/47 (48%), Gaps = 1/47 (2%)
Query: 6 SELVMRARDLVFHLHCFTCISCGILLTKGDLFGMRDE-MIYCRPHYE 51
+ M A + +H CF C+SC +++ GD + + +YC +
Sbjct: 26 TGPFMVAGEFKYHPECFACMSCKVIIEDGDAYALVQHATLYCGKCHN 72
>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 = 59.4 bits (143), Expect = 1e-11
Identities = 14/75 (18%), Positives = 31/75 (41%), Gaps = 2/75 (2%)
Query: 121 DLSSSMESLSYESGAGNSSPGSGVHSHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDL 180
L +E S + ++ R RTS ++ ++++ F + P + +
Sbjct: 69 LLEKWVEEADNNENLQEISKSETLVQARK--RKRTSIENRVRWSLETMFLKSPKPSLQQI 126
Query: 181 KQLAQKTGLSKRVLQ 195
+A + GL K V++
Sbjct: 127 THIANQLGLEKDVVR 141
>2xsd_C POU domain, class 3, transcription factor 1; transcription-DNA
complex, SOX; 2.05A {Mus musculus}
Length = 164
Score = 59.3 bits (143), Expect = 1e-11
Identities = 21/95 (22%), Positives = 40/95 (42%), Gaps = 10/95 (10%)
Query: 111 STTLEMLHSGDLS-SSMESLS---------YESGAGNSSPGSGVHSHQRTKRMRTSFKHH 160
TT+ + LS +M L +S +G+ + + + R ++ RTS +
Sbjct: 50 QTTICRFEALQLSFKNMCKLKPLLNKWLEETDSSSGSPTNLDKIAAQGRKRKKRTSIEVG 109
Query: 161 QLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 195
++S+F P A ++ LA L K V++
Sbjct: 110 VKGALESHFLKCPKPSAHEITGLADSLQLEKEVVR 144
>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 = 56.3 bits (136), Expect = 2e-11
Identities = 10/49 (20%), Positives = 22/49 (44%)
Query: 148 QRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVLQN 196
Q+ +K+ F +Q PD ++ +L + TGL++ ++
Sbjct: 2 AHHHHHHRKKTKEQIAHLKASFLQSQFPDDAEVYRLIEVTGLARSEIKK 50
>2dn0_A Zinc fingers and homeoboxes protein 3; triple homeobox 1 protein,
KIAA0395, TIX1, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 76
Score = 56.3 bits (136), Expect = 2e-11
Identities = 18/56 (32%), Positives = 27/56 (48%), Gaps = 2/56 (3%)
Query: 141 GSGVHSHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVLQN 196
GS S + + S H QL +K F NQ P +++ L + TGLS R ++
Sbjct: 1 GSSGSSGASIYKNKKS--HEQLSALKGSFCRNQFPGQSEVEHLTKVTGLSTREVRK 54
>3f6q_B LIM and senescent cell antigen-like-containing domain protein 1;
ILK, integrin-linked kinase, pinch, ankyrin repeat,
ANK, IPP; 1.60A {Homo sapiens} PDB: 2kbx_B 3ixe_B
Length = 72
Score = 55.5 bits (134), Expect = 4e-11
Identities = 12/52 (23%), Positives = 24/52 (46%), Gaps = 1/52 (1%)
Query: 2 GISSSELVMRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYCRPHYEIL 53
G + +E ++ + ++H CF C C +G F + YC +++L
Sbjct: 20 GFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGL-FYEFEGRKYCEHDFQML 70
>1g47_A Pinch protein; LIM domain, Zn finger, cell adhesion; NMR {Homo
sapiens} SCOP: g.39.1.3 g.39.1.3
Length = 77
Score = 54.7 bits (132), Expect = 9e-11
Identities = 11/51 (21%), Positives = 22/51 (43%), Gaps = 1/51 (1%)
Query: 3 ISSSELVMRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYCRPHYEIL 53
+ +E ++ + ++H CF C C LF + YC +++L
Sbjct: 21 FAPAEKIVNSNGELYHEQCFVCAQCFQQFP-EGLFYEFEGRKYCEHDFQML 70
>1v6g_A Actin binding LIM protein 2; LIM domain, zinc binding domain,
ablim2, structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Homo
sapiens} SCOP: g.39.1.3 g.39.1.3
Length = 81
Score = 54.0 bits (130), Expect = 2e-10
Identities = 10/43 (23%), Positives = 15/43 (34%)
Query: 9 VMRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYCRPHYE 51
V+ A +H CF C C + GD + C+
Sbjct: 29 VVSALGKTYHPDCFVCAVCRLPFPPGDRVTFNGKECMCQKCSL 71
>2ehe_A Four and A half LIM domains 3; FHL-3, skeletal muscle LIM-
protein 2, SLIM 2, FHL3, SLIM2, structural genomics,
NPPSFA; NMR {Homo sapiens}
Length = 82
Score = 52.5 bits (126), Expect = 7e-10
Identities = 13/49 (26%), Positives = 17/49 (34%), Gaps = 1/49 (2%)
Query: 3 ISSSELVMRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYCRPHYE 51
I + D FH CF C C L + F +D + C Y
Sbjct: 25 IGHDSRELFYEDRHFHEGCFRCCRCQRSLA-DEPFTCQDSELLCNDCYC 72
>2egq_A FHL1 protein; LIM domain, four and A half LIM domains protein 1,
skeletal muscle LIM- protein 1, SLIM 1, structural
genomics NPPSFA; NMR {Homo sapiens}
Length = 77
Score = 52.1 bits (125), Expect = 1e-09
Identities = 12/51 (23%), Positives = 18/51 (35%), Gaps = 1/51 (1%)
Query: 1 MGISSSELVMRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYCRPHYE 51
G V+ +H +CF C C + L F E +YC +
Sbjct: 26 TGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLA-NKRFVFHQEQVYCPDCAK 75
>2cup_A Skeletal muscle LIM-protein 1; four and half LIM domains protein
1, LIM domain, structural genomics, NPPSFA; NMR {Homo
sapiens} SCOP: g.39.1.3 g.39.1.3 g.39.1.3
Length = 101
Score = 52.4 bits (126), Expect = 1e-09
Identities = 11/49 (22%), Positives = 18/49 (36%), Gaps = 1/49 (2%)
Query: 3 ISSSELVMRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYCRPHYE 51
I + + ++ +H CF C C L + F +D I C
Sbjct: 15 IGADSKEVHYKNRFWHDTCFRCAKCLHPLA-NETFVAKDNKILCNKCTT 62
Score = 48.2 bits (115), Expect = 5e-08
Identities = 7/27 (25%), Positives = 13/27 (48%)
Query: 2 GISSSELVMRARDLVFHLHCFTCISCG 28
I + + + + V+H CF+ S G
Sbjct: 75 AIVAGDQNVEYKGTVWHKDCFSGPSSG 101
>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 = 51.7 bits (123), Expect = 2e-09
Identities = 14/71 (19%), Positives = 28/71 (39%)
Query: 126 MESLSYESGAGNSSPGSGVHSHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQ 185
M + +G G + QL +KS F Q P ++ +LA+
Sbjct: 1 MAHHHHHHSSGLEVLFQGPAPKSGSTGKICKKTPEQLHMLKSAFVRTQWPSPEEYDKLAK 60
Query: 186 KTGLSKRVLQN 196
++GL++ + +
Sbjct: 61 ESGLARTDIVS 71
>1x63_A Skeletal muscle LIM-protein 1; LIM domain, four and A half LIM
domains protein 1, structural genomics, NPPSFA; NMR
{Homo sapiens} SCOP: g.39.1.3 g.39.1.3
Length = 82
Score = 51.2 bits (123), Expect = 3e-09
Identities = 13/49 (26%), Positives = 23/49 (46%), Gaps = 1/49 (2%)
Query: 3 ISSSELVMRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYCRPHYE 51
I + + + + V+H CFTC +C ++ F + E YC +E
Sbjct: 25 IVAGDQNVEYKGTVWHKDCFTCSNCKQVIG-TGSFFPKGEDFYCVTCHE 72
>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 = 52.7 bits (126), Expect = 3e-09
Identities = 13/99 (13%), Positives = 35/99 (35%), Gaps = 13/99 (13%)
Query: 110 PSTTLEMLHSGDLS-SSMESL------------SYESGAGNSSPGSGVHSHQRTKRMRTS 156
+ + D++ S + L + + ++ RTS
Sbjct: 40 SQSAISRFEKLDITPKSAQKLKPVLEKWLNEAELRNQEGQQNLMEFVGGEPSKKRKRRTS 99
Query: 157 FKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 195
F + + +YF N P +++ ++A++ + V++
Sbjct: 100 FTPQAIEALNAYFEKNPLPTGQEITEMAKELNYDREVVR 138
>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 = 50.4 bits (120), Expect = 5e-09
Identities = 14/61 (22%), Positives = 30/61 (49%), Gaps = 4/61 (6%)
Query: 136 GNSSPGSGVHSHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 195
G+S + Q+ K +T+ QLR +++ F + ++L +L +T L++R +
Sbjct: 1 GSSGSSGPDFTPQKFKE-KTA---EQLRVLQASFLNSSVLTDEELNRLRAQTKLTRREID 56
Query: 196 N 196
Sbjct: 57 A 57
>1x4k_A Skeletal muscle LIM-protein 3; LIM domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens} SCOP: g.39.1.3
g.39.1.3
Length = 72
Score = 49.3 bits (118), Expect = 8e-09
Identities = 13/49 (26%), Positives = 18/49 (36%), Gaps = 1/49 (2%)
Query: 3 ISSSELVMRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYCRPHYE 51
I M + +H CF C C + F +D +C P YE
Sbjct: 15 IMPGTRKMEYKGSSWHETCFICHRCQQPIG-TKSFIPKDNQNFCVPCYE 62
>1wyh_A SLIM 2, skeletal muscle LIM-protein 2; structural genomics, riken
structural genomics/proteomics initiative, RSGI,
NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3
Length = 72
Score = 49.3 bits (118), Expect = 9e-09
Identities = 13/49 (26%), Positives = 16/49 (32%), Gaps = 1/49 (2%)
Query: 3 ISSSELVMRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYCRPHYE 51
+ + +H HCF C C L F YC P YE
Sbjct: 15 VMPGSRKLEYGGQTWHEHCFLCSGCEQPLG-SRSFVPDKGAHYCVPCYE 62
>2cuq_A Four and A half LIM domains 3; structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3
Length = 80
Score = 49.3 bits (118), Expect = 1e-08
Identities = 16/53 (30%), Positives = 19/53 (35%), Gaps = 2/53 (3%)
Query: 9 VMRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYCRPHYEILRHRDYCGS 61
+ RD +H C C C L G F RDE YC + L S
Sbjct: 29 GVTYRDQPWHRECLVCTGCQTPLA-GQQFTSRDEDPYCVACFGEL-FASGPSS 79
>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 = 49.1 bits (117), Expect = 1e-08
Identities = 14/51 (27%), Positives = 26/51 (50%), Gaps = 2/51 (3%)
Query: 146 SHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVLQN 196
S TK + QLR ++S F N P ++L +L +T +++R + +
Sbjct: 5 SSGPTKYKERA--PEQLRALESSFAQNPLPLDEELDRLRSETKMTRREIDS 53
>2e19_A Transcription factor 8; homeobox domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 64
Score = 48.9 bits (116), Expect = 1e-08
Identities = 10/36 (27%), Positives = 21/36 (58%)
Query: 160 HQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 195
+ L +K+Y+ +N P A++L ++A L V++
Sbjct: 13 NLLSLLKAYYALNAQPSAEELSKIADSVNLPLDVVK 48
>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-08
Identities = 12/61 (19%), Positives = 25/61 (40%), Gaps = 2/61 (3%)
Query: 136 GNSSPGSGVHSHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 195
G+S K + Q++ ++ F + P +L +L +T LS+R +
Sbjct: 1 GSSGSSGAYPDFAPQKFKEKT--QGQVKILEDSFLKSSFPTQAELDRLRVETKLSRREID 58
Query: 196 N 196
+
Sbjct: 59 S 59
>2cur_A Skeletal muscle LIM-protein 1; four and A half LIM domains
protein 1, structural genomics, NPPSFA; NMR {Homo
sapiens} SCOP: g.39.1.3 g.39.1.3
Length = 69
Score = 47.8 bits (114), Expect = 3e-08
Identities = 12/43 (27%), Positives = 20/43 (46%), Gaps = 1/43 (2%)
Query: 9 VMRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYCRPHYE 51
+ +D +H CF C++C L G F ++ YC Y+
Sbjct: 19 GITYQDQPWHADCFVCVTCSKKLA-GQRFTAVEDQYYCVDCYK 60
>2d8y_A Eplin protein; LIM domain, epithelial protein LOST in neoplasm,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
g.39.1.3 g.39.1.3
Length = 91
Score = 48.3 bits (115), Expect = 3e-08
Identities = 16/44 (36%), Positives = 22/44 (50%), Gaps = 1/44 (2%)
Query: 10 MRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYCRPHYEIL 53
+ A VFH+ CF C C L+ G + IYC+PH+ L
Sbjct: 31 LLANQQVFHISCFRCSYCNNKLSLGT-YASLHGRIYCKPHFNQL 73
>2d8z_A Four and A half LIM domains 2; skeletal muscle LIM-protein 3,
LIM-domain protein DRAL, structural genomics, NPPSFA;
NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3
Length = 70
Score = 47.3 bits (113), Expect = 4e-08
Identities = 15/53 (28%), Positives = 23/53 (43%), Gaps = 2/53 (3%)
Query: 9 VMRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYCRPHYEILRHRDYCGS 61
+ R+ +H CF C +C L+ G F RD+ YC + L + S
Sbjct: 19 GVTYREQPWHKECFVCTACRKQLS-GQRFTARDDFAYCLNCFCDL-YASGPSS 69
>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 = 47.5 bits (112), Expect = 5e-08
Identities = 10/50 (20%), Positives = 26/50 (52%), Gaps = 1/50 (2%)
Query: 146 SHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 195
S + +K H + +K+Y+ +N P++ +L +++ GL + ++
Sbjct: 2 SSGSSGSPINPYKDH-MSVLKAYYAMNMEPNSDELLKISIAVGLPQEFVK 50
>1a7i_A QCRP2 (LIM1); LIM domain containing proteins, metal-binding
protein, zinc finger; NMR {Coturnix japonica} SCOP:
g.39.1.3 g.39.1.3 PDB: 2o10_A
Length = 81
Score = 47.4 bits (113), Expect = 5e-08
Identities = 11/41 (26%), Positives = 17/41 (41%), Gaps = 1/41 (2%)
Query: 10 MRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYCRPHY 50
++ FH CF C+ C L + D +YC+ Y
Sbjct: 23 VQCDGRSFHRCCFLCMVCRKNLDSTT-VAIHDAEVYCKSCY 62
>1m3v_A FLIN4, fusion of the LIM interacting domain of LDB1 and the
N-terminal LIM domain of LMO4...; fusion protein, LMO
proteins, metal binding protein; NMR {Mus musculus}
SCOP: g.39.1.3 g.39.1.3
Length = 122
Score = 48.1 bits (114), Expect = 8e-08
Identities = 16/54 (29%), Positives = 20/54 (37%), Gaps = 1/54 (1%)
Query: 9 VMRARDLVFHLHCFTCISCGILLT-KGDLFGMRDEMIYCRPHYEILRHRDYCGS 61
++ A D +H C C SC L G + MI CR Y L G
Sbjct: 20 LLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGAGG 73
Score = 40.0 bits (93), Expect = 8e-05
Identities = 7/37 (18%), Positives = 9/37 (24%)
Query: 17 FHLHCFTCISCGILLTKGDLFGMRDEMIYCRPHYEIL 53
+ G G FG DE + R
Sbjct: 77 HMGSGGDVMVVGEPTLMGGEFGDEDERLITRLENTQF 113
>2dj7_A Actin-binding LIM protein 3; LIM domain, Zn binding protein,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
g.39.1.3 g.39.1.3
Length = 80
Score = 46.3 bits (110), Expect = 1e-07
Identities = 13/43 (30%), Positives = 22/43 (51%), Gaps = 2/43 (4%)
Query: 9 VMRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYCRPHYE 51
+ A D +H+ CF C +C ++LT + +D + YC Y
Sbjct: 30 SLLALDKQWHVSCFKCQTCSVILTGE--YISKDGVPYCESDYH 70
>1nyp_A Pinch protein; LIM domain, protein recognition, cell adhesion;
NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 PDB: 1u5s_B
Length = 66
Score = 46.1 bits (110), Expect = 1e-07
Identities = 13/45 (28%), Positives = 17/45 (37%), Gaps = 1/45 (2%)
Query: 9 VMRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYCRPHYEIL 53
V+ A +H+ F C C G R + YC HY L
Sbjct: 19 VVNAMGKQWHVEHFVCAKCEKPFL-GHRHYERKGLAYCETHYNQL 62
>2dar_A PDZ and LIM domain protein 5; enigma homolog protein, structural
genomics, NPPSFA, national project on protein
structural and functional analyses; NMR {Homo sapiens}
SCOP: g.39.1.3 g.39.1.3
Length = 90
Score = 46.3 bits (110), Expect = 2e-07
Identities = 10/43 (23%), Positives = 14/43 (32%), Gaps = 1/43 (2%)
Query: 9 VMRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYCRPHYE 51
+ A +H F C C + F +YC YE
Sbjct: 39 FLVALGKSWHPEEFNCAHCKNTMA-YIGFVEEKGALYCELCYE 80
>1x64_A Alpha-actinin-2 associated LIM protein; LIM domain, PDZ and LIM
domain 3, structural genomics, NPPSFA; NMR {Mus
musculus} SCOP: g.39.1.3 g.39.1.3
Length = 89
Score = 45.6 bits (108), Expect = 3e-07
Identities = 14/43 (32%), Positives = 20/43 (46%), Gaps = 1/43 (2%)
Query: 9 VMRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYCRPHYE 51
V++ARD H CF C C + L + F + +YC H
Sbjct: 39 VVKARDKYRHPECFVCADCNLNLKQKGYF-FVEGELYCETHAR 80
>2dlo_A Thyroid receptor-interacting protein 6; LIM domain,
OPA-interacting protein 1, zyxin related protein 1
(ZRP-1), structural genomics, NPPSFA; NMR {Homo
sapiens} SCOP: g.39.1.3 g.39.1.3
Length = 81
Score = 45.4 bits (108), Expect = 3e-07
Identities = 11/43 (25%), Positives = 17/43 (39%)
Query: 9 VMRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYCRPHYE 51
++RA +H CFTC+ C L I+C +
Sbjct: 29 ILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIEDFH 71
>2hi3_A Homeodomain-only protein; transcription; NMR {Mus musculus} SCOP:
a.4.1.1
Length = 73
Score = 45.1 bits (107), Expect = 3e-07
Identities = 11/47 (23%), Positives = 24/47 (51%), Gaps = 1/47 (2%)
Query: 150 TKRMRTSFKHHQLRTMKSYFN-INQNPDAKDLKQLAQKTGLSKRVLQ 195
+ + + Q+ ++ FN +N++PD L +A + GL++ Q
Sbjct: 2 SAQTVSGPTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQ 48
>2d8x_A Protein pinch; LIM domain, pinch protein, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens} SCOP: g.39.1.3
g.39.1.3
Length = 70
Score = 44.7 bits (106), Expect = 4e-07
Identities = 12/43 (27%), Positives = 18/43 (41%), Gaps = 1/43 (2%)
Query: 9 VMRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYCRPHYE 51
V++A + +H CF C C +L F CRP +
Sbjct: 19 VIKAMNNSWHPECFRCDLCQEVLADIG-FVKNAGRHLCRPCHN 60
>1x62_A C-terminal LIM domain protein 1; PDZ and LIM domain protein 1,
LIM domain protein CLP-36, contractIle protein,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
g.39.1.3 g.39.1.3
Length = 79
Score = 44.7 bits (106), Expect = 5e-07
Identities = 13/43 (30%), Positives = 19/43 (44%), Gaps = 1/43 (2%)
Query: 9 VMRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYCRPHYE 51
++ RD H C+ C CG L + F ++ IYC H
Sbjct: 29 FVKLRDRHRHPECYVCTDCGTNLKQKGHF-FVEDQIYCEKHAR 70
>1j2o_A FLIN2, fusion of rhombotin-2 and LIM domain-binding protein 1;
LIM-interaction-domain (LID), metal binding protein;
NMR {Mus musculus} SCOP: g.39.1.3 g.39.1.3
Length = 114
Score = 45.8 bits (108), Expect = 5e-07
Identities = 14/63 (22%), Positives = 19/63 (30%), Gaps = 2/63 (3%)
Query: 9 VMRARDLVFHLHCFTCISCGILLT-KGDLFGMRDEMIYCRPHYEILRHRDYCGSAEIEQP 67
++A D +H C +C CG L G + CR Y L
Sbjct: 18 FLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRL-GGSGGHMGSGGDV 76
Query: 68 MSP 70
M
Sbjct: 77 MVV 79
Score = 34.3 bits (78), Expect = 0.007
Identities = 7/32 (21%), Positives = 9/32 (28%)
Query: 20 HCFTCISCGILLTKGDLFGMRDEMIYCRPHYE 51
+ G G FG DE + R
Sbjct: 72 SGGDVMVVGEPTLMGGEFGDEDERLITRLENT 103
Score = 29.3 bits (65), Expect = 0.36
Identities = 1/27 (3%), Positives = 4/27 (14%)
Query: 1 MGISSSELVMRARDLVFHLHCFTCISC 27
+ E + +
Sbjct: 75 DVMVVGEPTLMGGEFGDEDERLITRLE 101
>1x3h_A Leupaxin; paxillin family, protein-protein interaction, LIM
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
SCOP: g.39.1.3 g.39.1.3
Length = 80
Score = 44.6 bits (106), Expect = 5e-07
Identities = 15/46 (32%), Positives = 19/46 (41%), Gaps = 1/46 (2%)
Query: 9 VMRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYCRPHYEILR 54
+ A D V+H CF C C + G F D +C HY R
Sbjct: 29 YLSAMDTVWHPECFVCGDCFTSFSTGS-FFELDGRPFCELHYHHRR 73
>2l4z_A DNA endonuclease RBBP8, LIM domain transcription LMO4;
protein-protein interaction, LIM-interaction DOM LMO4,
RBBP8/CTIP, LIM-only protein; HET: DNA; NMR {Homo
sapiens}
Length = 123
Score = 45.9 bits (108), Expect = 5e-07
Identities = 14/44 (31%), Positives = 18/44 (40%), Gaps = 1/44 (2%)
Query: 9 VMRARDLVFHLHCFTCISCGILLT-KGDLFGMRDEMIYCRPHYE 51
++ A D +H C C SC L G + MI CR Y
Sbjct: 76 LLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYI 119
>1x4l_A Skeletal muscle LIM-protein 3; LIM domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens} SCOP: g.39.1.3
g.39.1.3
Length = 72
Score = 44.4 bits (105), Expect = 6e-07
Identities = 10/47 (21%), Positives = 17/47 (36%), Gaps = 1/47 (2%)
Query: 9 VMRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYCRPHYEILRH 55
+ + +H CF C C + L G F + I C + +
Sbjct: 23 YISFEERQWHNDCFNCKKCSLSLV-GRGFLTERDDILCPDCGKDISG 68
>2co8_A NEDD9 interacting protein with calponin homology and LIM domains;
zinc finger protein, structural genomics, NPPSFA; NMR
{Homo sapiens} SCOP: g.39.1.3 g.39.1.3
Length = 82
Score = 44.6 bits (105), Expect = 7e-07
Identities = 12/47 (25%), Positives = 14/47 (29%), Gaps = 1/47 (2%)
Query: 10 MRARDLVFHLHCFTCISCGILLTKGDL-FGMRDEMIYCRPHYEILRH 55
+ FH CF C +C L G D YC H
Sbjct: 31 LCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQHLPQTDS 77
>1iml_A CRIP, cysteine rich intestinal protein; metal-binding protein,
LIM domain protein; NMR {Rattus rattus} SCOP: g.39.1.3
g.39.1.3
Length = 76
Score = 43.5 bits (103), Expect = 2e-06
Identities = 12/45 (26%), Positives = 17/45 (37%), Gaps = 2/45 (4%)
Query: 10 MRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYC-RPHYEIL 53
+ + +H C C CG LT G + YC P Y +
Sbjct: 16 VTSLGKDWHRPCLKCEKCGKTLTSGG-HAEHEGKPYCNHPCYSAM 59
>1b8t_A Protein (CRP1); LIM domain, muscle differentiation, contractIle;
NMR {Gallus gallus} SCOP: g.39.1.3 g.39.1.3 g.39.1.3
g.39.1.3 PDB: 1ibi_A 1qli_A 1cxx_A 1ctl_A 2o13_A
Length = 192
Score = 45.4 bits (107), Expect = 2e-06
Identities = 12/44 (27%), Positives = 16/44 (36%), Gaps = 1/44 (2%)
Query: 10 MRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYCRPHYEIL 53
+ +H CF C CG L +D IYC+ Y
Sbjct: 131 VIGAGKSWHKSCFRCAKCGKSLESTT-LADKDGEIYCKGCYAKN 173
Score = 41.9 bits (98), Expect = 3e-05
Identities = 11/45 (24%), Positives = 17/45 (37%), Gaps = 1/45 (2%)
Query: 9 VMRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYCRPHYEIL 53
++ FH CF C+ C L + + IYC+ Y
Sbjct: 22 EVQCEGSSFHKSCFLCMVCKKNLD-STTVAVHGDEIYCKSCYGKK 65
>1x68_A FHL5 protein; four-and-A-half LIM protein 5, zinc finger domain,
AN actin- interacting protein, structural genomics,
NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3
Length = 76
Score = 42.9 bits (101), Expect = 2e-06
Identities = 11/46 (23%), Positives = 21/46 (45%), Gaps = 1/46 (2%)
Query: 9 VMRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYCRPHYEILR 54
+ +D +H CF C C + L G F +++ I+C+ +
Sbjct: 23 FICFQDSQWHSECFNCGKCSVSLV-GKGFLTQNKEIFCQKCGSGMD 67
>2cu8_A Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein, zinc-binding,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
g.39.1.3 g.39.1.3
Length = 76
Score = 42.8 bits (101), Expect = 3e-06
Identities = 12/45 (26%), Positives = 17/45 (37%), Gaps = 2/45 (4%)
Query: 10 MRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYC-RPHYEIL 53
+ + +H C C C LT G D +C +P Y L
Sbjct: 25 VSSLGKDWHKFCLKCERCSKTLTPGG-HAEHDGKPFCHKPCYATL 68
>2d5v_A Hepatocyte nuclear factor 6; transcription factor,
transcription-DNA complex; 2.00A {Rattus norvegicus}
PDB: 1s7e_A
Length = 164
Score = 42.9 bits (100), Expect = 1e-05
Identities = 15/70 (21%), Positives = 25/70 (35%)
Query: 127 ESLSYESGAGNSSPGSGVHSHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQK 186
S + G K+ R F Q RT+ + F N+ P + ++Q+
Sbjct: 74 MSALRLAACKRKEQEHGKDRGNTPKKPRLVFTDVQRRTLHAIFKENKRPSKELQITISQQ 133
Query: 187 TGLSKRVLQN 196
GL + N
Sbjct: 134 LGLELSTVSN 143
>1wig_A KIAA1808 protein; LIM domain, zinc finger, metal-binding protein,
structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Homo
sapiens} SCOP: g.39.1.3 g.39.1.3
Length = 73
Score = 38.9 bits (90), Expect = 7e-05
Identities = 9/38 (23%), Positives = 19/38 (50%)
Query: 9 VMRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYC 46
V+ A + +H C C+ CG + +G+ ++ I+
Sbjct: 19 VLEAGEKHYHPSCALCVRCGQMFAEGEEMYLQGSSIWH 56
>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 = 38.4 bits (89), Expect = 1e-04
Identities = 12/47 (25%), Positives = 20/47 (42%)
Query: 150 TKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVLQN 196
+ QL +KS+F Q +D ++L Q TGL + +
Sbjct: 3 SGSSGKRKTKEQLAILKSFFLQCQWARREDYQKLEQITGLPRPEIIQ 49
>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 = 38.3 bits (89), Expect = 1e-04
Identities = 16/76 (21%), Positives = 32/76 (42%), Gaps = 4/76 (5%)
Query: 124 SSMESLSYESGAGNSSPGSGVHSHQRTKRMRTSFKHHQLRTMKSYFNINQN---PDAKDL 180
+ ++ S + N ++ + R F +R ++S+F N D K L
Sbjct: 2 LTQKNKSADGLVFNVVTQDMINKSTKPYR-GHRFTKENVRILESWFAKNIENPYLDTKGL 60
Query: 181 KQLAQKTGLSKRVLQN 196
+ L + T LS+ ++N
Sbjct: 61 ENLMKNTSLSRIQIKN 76
>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 = 37.7 bits (88), Expect = 2e-04
Identities = 14/40 (35%), Positives = 23/40 (57%)
Query: 151 KRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLS 190
+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 = 37.3 bits (87), Expect = 2e-04
Identities = 20/59 (33%), Positives = 29/59 (49%), Gaps = 2/59 (3%)
Query: 132 ESGAGNSSPGSGVHSHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLS 190
+ S PG + QR R RT+F QL ++ F Q PD ++LAQ+T L+
Sbjct: 2 DISDCESEPGIALKRKQR--RSRTTFSASQLDELERAFERTQYPDIYTREELAQRTNLT 58
>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 = 36.8 bits (86), Expect = 3e-04
Identities = 7/45 (15%), Positives = 25/45 (55%)
Query: 148 QRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKR 192
+++ + ++S ++ F Q+ ++K+ +++A+K G++
Sbjct: 3 EKSPKGKSSISPQARAFLEEVFRRKQSLNSKEKEEVAKKCGITPL 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 = 37.3 bits (86), Expect = 3e-04
Identities = 18/66 (27%), Positives = 29/66 (43%), Gaps = 4/66 (6%)
Query: 134 GAGNSSPGSGVHSHQRTKRMRTSFKHHQLRTMKSYFNIN----QNPDAKDLKQLAQKTGL 189
G+ SS S KR RT F Q M + Q D + +++ Q+TG+
Sbjct: 1 GSSGSSGSSAEAGGGIRKRHRTKFTAEQKERMLALAERIGWRIQRQDDEVIQRFCQETGV 60
Query: 190 SKRVLQ 195
++VL+
Sbjct: 61 PRQVLK 66
>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 = 37.0 bits (86), Expect = 3e-04
Identities = 10/42 (23%), Positives = 22/42 (52%), Gaps = 2/42 (4%)
Query: 154 RTSFKHHQLRTMKSYFN-INQNPDAKDLKQLAQKTGLS-KRV 193
+ Q+ ++ FN +N++PD L +A + GL+ ++
Sbjct: 5 AATMTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQT 46
>2h8r_A Hepatocyte nuclear factor 1-beta; trasncription factor, POU, homeo,
protein-DNA, human disease; 3.20A {Homo sapiens}
Length = 221
Score = 38.8 bits (89), Expect = 4e-04
Identities = 13/91 (14%), Positives = 31/91 (34%)
Query: 97 PPSEDINANVMRIPSTTLEMLHSGDLSSSMESLSYESGAGNSSPGSGVHSHQRTKRMRTS 156
N V + T + L E G G S ++++ +R R
Sbjct: 89 EILRQFNQTVQSSGNMTDKSSQDQLLFLFPEFSQQSHGPGQSDDACSEPTNKKMRRNRFK 148
Query: 157 FKHHQLRTMKSYFNINQNPDAKDLKQLAQKT 187
+ + + ++ +NP ++ + L ++
Sbjct: 149 WGPASQQILYQAYDRQKNPSKEEREALVEEC 179
>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 = 36.9 bits (84), Expect = 5e-04
Identities = 9/58 (15%), Positives = 22/58 (37%), Gaps = 4/58 (6%)
Query: 143 GVHSHQRTKRMRTSFKHHQLRTMKSYFNINQN----PDAKDLKQLAQKTGLSKRVLQN 196
G + RT F L T+K Y++ + ++ +A + + +++
Sbjct: 1 GSSGSSGALQDRTQFSDRDLATLKKYWDNGMTSLGSVCREKIEAVATELNVDCEIVRT 58
>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 = 39.1 bits (90), Expect = 6e-04
Identities = 22/172 (12%), Positives = 46/172 (26%), Gaps = 43/172 (25%)
Query: 62 AEIEQPMSPRPAPWQPTTVQKGRPRKRKLSVDSPTPP------------SEDINANVMRI 109
AE + W+ K + S++ P + I
Sbjct: 334 AESIRDGLATWDNWKHVNCDKLT-TIIESSLNVLEPAEYRKMFDRLSVFPPSAH-----I 387
Query: 110 PSTTLEML----HSGDLSSSMESLSYESGA-GNSSPGS-GVHSHQ---RTKRMRTSFKHH 160
P+ L ++ D+ + L S + + S + K H
Sbjct: 388 PTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHR 447
Query: 161 QL----RTMKSYFNINQNPDAKD----------LK--QLAQKTGLSKRVLQN 196
+ K++ + + P D LK + ++ L + V +
Sbjct: 448 SIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLD 499
>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 = 36.3 bits (84), Expect = 6e-04
Identities = 17/59 (28%), Positives = 26/59 (44%)
Query: 134 GAGNSSPGSGVHSHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKR 192
G+ SS G ++ +R RT F QL ++ F + D LA+ GLS+
Sbjct: 1 GSSGSSGGEPGTKAKKGRRSRTVFTELQLMGLEKRFEKQKYLSTPDRIDLAESLGLSQL 59
>2cor_A Pinch protein; LIM domain, particularly interesting NEW Cys- His
protein, LIM and senescent cell antigen-like domains 1,
structural genomics; NMR {Homo sapiens} SCOP: g.39.1.3
g.39.1.3
Length = 79
Score = 36.3 bits (84), Expect = 7e-04
Identities = 10/43 (23%), Positives = 18/43 (41%), Gaps = 2/43 (4%)
Query: 9 VMRARDLVFHLHCFTCISCGILLTKGDLFGMRDEMIYCRPHYE 51
+ ++ +H F C +CG LT +YC P ++
Sbjct: 29 PLIFKNDPYHPDHFNCANCGKELT--ADARELKGELYCLPCHD 69
>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 = 35.0 bits (81), Expect = 0.002
Identities = 15/44 (34%), Positives = 26/44 (59%), Gaps = 1/44 (2%)
Query: 151 KRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSK-RV 193
+R RT F QL+ +++ F N+ PD +++A T L++ RV
Sbjct: 4 RRQRTHFTSQQLQQLEATFQRNRYPDMSTREEIAVWTNLTEARV 47
>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 = 35.0 bits (81), Expect = 0.002
Identities = 16/49 (32%), Positives = 25/49 (51%), Gaps = 1/49 (2%)
Query: 146 SHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSK-RV 193
S +R RT F QL +++ F + PD +QLA+K L + +V
Sbjct: 3 SGSSGRRHRTIFTDEQLEALENLFQETKYPDVGTREQLARKVHLREEKV 51
>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 = 36.4 bits (83), Expect = 0.002
Identities = 6/58 (10%), Positives = 17/58 (29%), Gaps = 2/58 (3%)
Query: 130 SYESGAGNSSPGSGVHSHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKT 187
+ R R R + + + + +NP ++ + L ++
Sbjct: 97 GQGGLIEEPTGDELPTKKGR--RNRFKWGPASQQILFQAYERQKNPSKEERETLVEEC 152
>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 = 35.0 bits (80), Expect = 0.003
Identities = 13/42 (30%), Positives = 21/42 (50%)
Query: 146 SHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKT 187
S + R +++ L M+SYFN NQ PD +++A
Sbjct: 3 SGSSGRGSRFTWRKECLAVMESYFNENQYPDEAKREEIANAC 44
>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 = 34.2 bits (78), Expect = 0.004
Identities = 19/66 (28%), Positives = 30/66 (45%), Gaps = 4/66 (6%)
Query: 134 GAGNSSPGSGVHSHQRTKRMRTSFKHHQLRTMKSYFNIN----QNPDAKDLKQLAQKTGL 189
G+ SS + S TKR RT F Q M ++ Q D ++Q +TG+
Sbjct: 1 GSSGSSGSNPSSSGGTTKRFRTKFTAEQKEKMLAFAERLGWRIQKHDDVAVEQFCAETGV 60
Query: 190 SKRVLQ 195
++VL+
Sbjct: 61 RRQVLK 66
>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 = 0.005
Identities = 14/47 (29%), Positives = 23/47 (48%), Gaps = 4/47 (8%)
Query: 154 RTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSK-RV---LQN 196
+F QL ++ F+ PD ++LA K GL++ R+ QN
Sbjct: 3 HMTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQVWFQN 49
>2iyb_E Testin, TESS, TES; LIM domain, SH3-binding, tumour supressor LIM
domain EVH1 DO cell motility, phosphorylation,
cytoskeleton; 2.35A {Homo sapiens}
Length = 65
Score = 32.9 bits (75), Expect = 0.007
Identities = 11/48 (22%), Positives = 17/48 (35%), Gaps = 3/48 (6%)
Query: 3 ISSSELVMRARDLVFHLH--CFTCISCGILLTKGDLFGMRDEMIYCRP 48
I + + +H CF C C L G F + M++C
Sbjct: 12 IDPEVQRVTYNNFSWHASTECFLCSCCSKCL-IGQKFMPVEGMVFCSV 58
>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 = 32.8 bits (75), Expect = 0.009
Identities = 10/30 (33%), Positives = 18/30 (60%)
Query: 166 KSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 195
K + ++ + PD K LK L+++ S R +Q
Sbjct: 25 KVFVSVTKYPDEKRLKGLSKQLDWSVRKIQ 54
>2kt0_A Nanog, homeobox protein nanog; homeodomain, structural genomics,
protein structure initiative, PSI, center for eukaryotic
structural genomics; NMR {Homo sapiens}
Length = 84
Score = 33.2 bits (76), Expect = 0.009
Identities = 12/61 (19%), Positives = 24/61 (39%)
Query: 132 ESGAGNSSPGSGVHSHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSK 191
+ A NS + ++ RT F QL + F + + +++L+ LS
Sbjct: 4 PTSAENSVAKKEDKVPVKKQKTRTVFSSTQLCVLNDRFQRQKYLSLQQMQELSNILNLSY 63
Query: 192 R 192
+
Sbjct: 64 K 64
>2cue_A Paired box protein PAX6; homeobox domain, transcription factor,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
a.4.1.1
Length = 80
Score = 32.8 bits (75), Expect = 0.012
Identities = 14/46 (30%), Positives = 20/46 (43%), Gaps = 1/46 (2%)
Query: 146 SHQRTK-RMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLS 190
S + R RTSF Q+ ++ F PD ++LA K L
Sbjct: 2 SSGSSGQRNRTSFTQEQIEALEKEFERTHYPDVFARERLAAKIDLP 47
>1lfb_A Liver transcription factor (LFB1); transcription regulation; 2.80A
{Rattus norvegicus} SCOP: a.4.1.1 PDB: 2lfb_A
Length = 99
Score = 32.5 bits (73), Expect = 0.019
Identities = 5/39 (12%), Positives = 17/39 (43%)
Query: 149 RTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKT 187
+ +R R + + + + +NP ++ + L ++
Sbjct: 8 KGRRNRFKWGPASQQILFQAYERQKNPSKEERETLVEEC 46
>2djn_A Homeobox protein DLX-5; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 70
Score = 30.4 bits (69), Expect = 0.058
Identities = 11/47 (23%), Positives = 20/47 (42%)
Query: 146 SHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKR 192
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 = 30.9 bits (70), Expect = 0.062
Identities = 14/51 (27%), Positives = 24/51 (47%), Gaps = 4/51 (7%)
Query: 149 RTKRMRTSFKHHQLRTMKSYFNINQN---PDAKDLKQLAQKTGLSKRVLQN 196
+ R F +R ++S+F N D K L+ L + T LS+ ++N
Sbjct: 2 KPYR-GHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKN 51
>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 = 29.8 bits (67), Expect = 0.092
Identities = 9/30 (30%), Positives = 17/30 (56%)
Query: 166 KSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 195
K + I ++PD K L+ L+++ R +Q
Sbjct: 17 KVFTAITKHPDEKRLEGLSKQLDWDVRSIQ 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 = 29.6 bits (67), Expect = 0.11
Identities = 11/44 (25%), Positives = 21/44 (47%)
Query: 149 RTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKR 192
++MRT F QL +K F + + +++L+ LS +
Sbjct: 2 TKQKMRTVFSQAQLCALKDRFQKQKYLSLQQMQELSSILNLSYK 45
>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 = 29.6 bits (67), Expect = 0.12
Identities = 15/43 (34%), Positives = 24/43 (55%)
Query: 150 TKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKR 192
KR RT+F QL +K FN N+ + +QL+ + GL++
Sbjct: 3 EKRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEA 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 = 29.2 bits (66), Expect = 0.15
Identities = 13/43 (30%), Positives = 22/43 (51%), Gaps = 3/43 (6%)
Query: 157 FKHHQLRTMKSYFNINQN---PDAKDLKQLAQKTGLSKRVLQN 196
F +R ++S+F N D K L+ L + T LS+ ++N
Sbjct: 5 FTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKN 47
>3a01_A Homeodomain-containing protein; homeodomain, protein-DNA complex,
DNA-binding, homeobox, NUC developmental protein; 2.70A
{Drosophila melanogaster}
Length = 93
Score = 29.1 bits (65), Expect = 0.28
Identities = 9/47 (19%), Positives = 22/47 (46%)
Query: 146 SHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKR 192
+ + K+ RTSF Q+ ++ F+ + + + LA+ ++
Sbjct: 13 TPPKRKKPRTSFTRIQVAELEKRFHKQKYLASAERAALARGLKMTDA 59
>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 = 27.8 bits (62), Expect = 0.57
Identities = 8/47 (17%), Positives = 17/47 (36%)
Query: 146 SHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKR 192
+ ++ 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 = 27.7 bits (62), Expect = 0.70
Identities = 7/44 (15%), Positives = 17/44 (38%)
Query: 149 RTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKR 192
+ 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 = 27.4 bits (61), Expect = 0.71
Identities = 11/47 (23%), Positives = 20/47 (42%)
Query: 146 SHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKR 192
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 = 26.8 bits (60), Expect = 1.0
Identities = 9/40 (22%), Positives = 17/40 (42%)
Query: 151 KRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLS 190
++ R F Q+ ++ F + A + QLA L+
Sbjct: 3 RKPRVLFSQAQVYELERRFKQQRYLSAPERDQLASVLKLT 42
>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 = 27.5 bits (60), Expect = 1.3
Identities = 6/40 (15%), Positives = 17/40 (42%)
Query: 146 SHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQ 185
S + R R + + + ++ +NP ++ + L +
Sbjct: 2 SSGSSGRNRFKWGPASQQILYQAYDRQKNPSKEEREALVE 41
>1ig7_A Homeotic protein MSX-1; helix-turn-helix, transcription/DNA
complex; 2.20A {Mus musculus} SCOP: a.4.1.1
Length = 58
Score = 26.4 bits (59), Expect = 1.5
Identities = 8/42 (19%), Positives = 17/42 (40%)
Query: 151 KRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKR 192
++ RT F QL ++ F Q + + + L++
Sbjct: 1 RKPRTPFTTAQLLALERKFRQKQYLSIAERAEFSSSLSLTET 42
>1du6_A PBX1, homeobox protein PBX1; homeodomain, gene regulation; NMR {Mus
musculus} SCOP: a.4.1.1
Length = 64
Score = 26.1 bits (58), Expect = 1.9
Identities = 8/51 (15%), Positives = 18/51 (35%), Gaps = 3/51 (5%)
Query: 149 RTKRMRTSFKHHQLRTMKSYFNINQN---PDAKDLKQLAQKTGLSKRVLQN 196
+ YF + + P + ++LA+K G++ + N
Sbjct: 2 SGHIEGRHMNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSN 52
>1ftt_A TTF-1 HD, thyroid transcription factor 1 homeodomain; DNA binding
protein; NMR {Rattus norvegicus} SCOP: a.4.1.1
Length = 68
Score = 26.2 bits (58), Expect = 2.3
Identities = 8/40 (20%), Positives = 17/40 (42%)
Query: 151 KRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLS 190
++ R F Q+ ++ F + A + + LA L+
Sbjct: 3 RKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLT 42
>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 = 26.2 bits (58), Expect = 2.3
Identities = 11/42 (26%), Positives = 19/42 (45%)
Query: 151 KRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKR 192
+R RT+F Q+ ++ +F + A L L+ K L
Sbjct: 3 RRTRTTFTSSQIAELEQHFLQGRYLTAPRLADLSAKLALGTA 44
>2l7z_A Homeobox protein HOX-A13; gene regulation; NMR {Homo sapiens} PDB:
2ld5_A*
Length = 73
Score = 26.4 bits (58), Expect = 2.3
Identities = 8/49 (16%), Positives = 22/49 (44%)
Query: 144 VHSHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKR 192
+ ++ R + QL+ ++ + N+ ++++ T LS+R
Sbjct: 1 MSHMLEGRKKRVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSER 49
>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate
hydrolases fold, S genomics, joint center for structural
genomics, JCSG; HET: MSE; 1.70A {Chloroflexus
aurantiacus}
Length = 193
Score = 27.2 bits (60), Expect = 2.6
Identities = 12/69 (17%), Positives = 19/69 (27%), Gaps = 8/69 (11%)
Query: 44 IYCRPHYEILRHRDYCGSAEIEQPMSPRPAPWQPTTVQKGRPRKRK--------LSVDSP 95
I C ++L R A+ + L+VD+
Sbjct: 109 IRCVASGDVLVERILSRIAQGARHPGHCDDRSPADLELVRSRGDIPPLPLGGPLLTVDTT 168
Query: 96 TPPSEDINA 104
P D+NA
Sbjct: 169 FPEQIDMNA 177
>3v4v_B Integrin beta-7; cell adhesion, madcam-1, membrane; HET: NAG BMA
MAN 0DU; 3.10A {Homo sapiens} PDB: 3v4p_B*
Length = 503
Score = 27.6 bits (60), Expect = 2.8
Identities = 16/89 (17%), Positives = 31/89 (34%), Gaps = 8/89 (8%)
Query: 46 CRPHYEILRHRDYCGSAEIEQPMSPRPAPWQPTTVQKGRPRK------RKLSVDSPTPPS 99
C E+L C E+E+P + Q R +++ V
Sbjct: 61 CARREELLAR--GCPLEELEEPRGQQEVLQDQPLSQGARGEGATQLAPQRVRVTLRPGEP 118
Query: 100 EDINANVMRIPSTTLEMLHSGDLSSSMES 128
+ + +R +++ + DLS SM+
Sbjct: 119 QQLQVRFLRAEGYPVDLYYLMDLSYSMKD 147
>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 = 25.8 bits (57), Expect = 3.4
Identities = 13/54 (24%), Positives = 21/54 (38%), Gaps = 3/54 (5%)
Query: 146 SHQRTKRMRTSFKHHQLRTMKSYFNINQN---PDAKDLKQLAQKTGLSKRVLQN 196
S K R H M+S+ + P + KQ+A +T L+ + N
Sbjct: 3 SGSSGKNKRGVLPKHATNVMRSWLFQHIGHPYPTEDEKKQIAAQTNLTLLQVNN 56
>3tht_A Alkylated DNA repair protein ALKB homolog 8; structural genomics,
PSI-biology, northeast structural genom consortium,
NESG; HET: AKG; 3.01A {Homo sapiens} PDB: 3thp_A*
Length = 345
Score = 27.0 bits (59), Expect = 4.6
Identities = 13/69 (18%), Positives = 22/69 (31%)
Query: 16 VFHLHCFTCISCGILLTKGDLFGMRDEMIYCRPHYEILRHRDYCGSAEIEQPMSPRPAPW 75
V I+ ++L + L M E Y H R D ++E +
Sbjct: 235 VMDFKHPDGIAVPVMLPRRSLLVMTGESRYLWTHGITCRKFDTVQASESLKSGIITSDVG 294
Query: 76 QPTTVQKGR 84
T ++G
Sbjct: 295 DLTLSKRGL 303
>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 = 26.5 bits (57), Expect = 5.1
Identities = 6/29 (20%), Positives = 13/29 (44%), Gaps = 3/29 (10%)
Query: 81 QKGRPRK--RKLSVDSP-TPPSEDINANV 106
+K +K L + + + P+ I A +
Sbjct: 18 EKQALKKLQASLKLYADDSAPALAIKATM 46
Score = 25.7 bits (55), Expect = 7.4
Identities = 6/30 (20%), Positives = 11/30 (36%), Gaps = 13/30 (43%)
Query: 148 QRTKRMRTSFKHHQLRTMKSYFNINQNPDA 177
Q K+++ S +K Y D+
Sbjct: 20 QALKKLQAS--------LKLY-----ADDS 36
>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 = 25.0 bits (55), Expect = 5.2
Identities = 10/42 (23%), Positives = 17/42 (40%)
Query: 151 KRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKR 192
+R RT+F QL ++ F +LA + L +
Sbjct: 2 RRYRTAFTRDQLGRLEKEFYKENYVSRPRRCELAAQLNLPES 43
>3fky_A Glutamine synthetase; beta-grAsp, catalytic domain, acetylation,
cytoplasm, ligase, UBL conjugation; HET: FLC; 2.95A
{Saccharomyces cerevisiae}
Length = 370
Score = 26.6 bits (59), Expect = 5.2
Identities = 7/29 (24%), Positives = 11/29 (37%)
Query: 141 GSGVHSHQRTKRMRTSFKHHQLRTMKSYF 169
G+G H++ TK MR +
Sbjct: 246 GAGCHANVSTKEMRQPGGTKYIEQAIEKL 274
>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 = 25.2 bits (55), Expect = 5.3
Identities = 10/55 (18%), Positives = 24/55 (43%)
Query: 138 SSPGSGVHSHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKR 192
++P + + T++ R + HQ ++ F N ++A+ L++R
Sbjct: 1 NNPAANWLHARSTRKKRCPYTKHQTLELEKEFLFNMYLTRDRRYEVARLLNLTER 55
>2d3a_A Glutamine synthetase; ligase; HET: P3S ADP; 2.63A {Zea mays} PDB:
2d3b_A* 2d3c_A*
Length = 356
Score = 26.6 bits (59), Expect = 5.4
Identities = 6/16 (37%), Positives = 10/16 (62%)
Query: 140 PGSGVHSHQRTKRMRT 155
G+G H++ T+ MR
Sbjct: 244 NGAGAHTNYSTESMRK 259
>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 = 26.2 bits (57), Expect = 5.5
Identities = 9/54 (16%), Positives = 22/54 (40%)
Query: 142 SGVHSHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVLQ 195
+G +R + + + + H+L + + + L+ LA + +S L
Sbjct: 58 AGFRPCKRCQPDKANPRQHRLDKITHACRLLEQETPVTLEALADQVAMSPFHLH 111
>1ash_A Hemoglobin (OXY); oxygen storage; HET: HEM; 2.15A {Ascaris suum}
SCOP: a.1.1.2
Length = 150
Score = 26.3 bits (57), Expect = 5.6
Identities = 6/38 (15%), Positives = 18/38 (47%), Gaps = 2/38 (5%)
Query: 157 FKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKRVL 194
F+++ ++ YF + A+D++ +++L
Sbjct: 35 FENYP--PLRKYFKSREEYTAEDVQNDPFFAKQGQKIL 70
>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 = 24.8 bits (54), Expect = 5.9
Identities = 10/47 (21%), Positives = 22/47 (46%)
Query: 146 SHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQKTGLSKR 192
S ++ R + QLR ++ + N+ ++++ T LS+R
Sbjct: 3 SGSSGRKKRIPYSKGQLRELEREYAANKFITKDKRRKISAATSLSER 49
>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 = 26.0 bits (57), Expect = 6.4
Identities = 7/34 (20%), Positives = 11/34 (32%)
Query: 153 MRTSFKHHQLRTMKSYFNINQNPDAKDLKQLAQK 186
MR S HH +M+ + A +
Sbjct: 1 MRGSHHHHHHGSMRFAIVVTGPAYGTQQASSAFQ 34
>1tdh_A NEI endonuclease VIII-like 1; helix two turns helix, zinc-LESS
finger, hydrolase; 2.10A {Homo sapiens} SCOP: a.156.1.2
b.113.1.1 g.39.1.8
Length = 364
Score = 26.5 bits (58), Expect = 6.4
Identities = 7/48 (14%), Positives = 17/48 (35%)
Query: 58 YCGSAEIEQPMSPRPAPWQPTTVQKGRPRKRKLSVDSPTPPSEDINAN 105
+E + P AP + ++ P+++ S + A+
Sbjct: 305 LSPEDRVEDALPPSKAPSRTRRAKRDLPKRKGRQAASGHCRPRKVKAD 352
>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 = 26.4 bits (58), Expect = 6.8
Identities = 10/47 (21%), Positives = 14/47 (29%), Gaps = 9/47 (19%)
Query: 134 GAGNSSPGSGVHSHQRTKRMRTSFKHHQLRTMKSYFNINQNPDAKDL 180
GA SS G H + ++ Y IN D+
Sbjct: 1 GAQVSSQKVGAHENSNRAYGGSTIN---------YTTINYYRDSASN 38
>3qhp_A Type 1 capsular polysaccharide biosynthesis prote (CAPJ); rossmann
fold, glycosyltransferase, transferase; 1.50A
{Helicobacter pylori}
Length = 166
Score = 25.6 bits (57), Expect = 9.1
Identities = 9/19 (47%), Positives = 11/19 (57%)
Query: 175 PDAKDLKQLAQKTGLSKRV 193
PD K +K LAQK G+
Sbjct: 42 PDEKKIKLLAQKLGVKAEF 60
>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 = 24.2 bits (53), Expect = 9.6
Identities = 10/44 (22%), Positives = 21/44 (47%), Gaps = 3/44 (6%)
Query: 151 KRMRTSFKHHQLRTMKSYFNINQN---PDAKDLKQLAQKTGLSK 191
+R R +F + YF + + P + ++LA+K G++
Sbjct: 2 RRKRRNFNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITV 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
0.318 0.131 0.394
Gapped
Lambda K H
0.267 0.0450 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,941,082
Number of extensions: 162708
Number of successful extensions: 543
Number of sequences better than 10.0: 1
Number of HSP's gapped: 500
Number of HSP's successfully gapped: 137
Length of query: 196
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 107
Effective length of database: 4,216,824
Effective search space: 451200168
Effective search space used: 451200168
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: 55 (25.7 bits)