RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15437
(143 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 = 99.4 bits (247), Expect = 4e-28
Identities = 19/109 (17%), Positives = 42/109 (38%), Gaps = 3/109 (2%)
Query: 5 KKCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRLQRGEQFVIKQGQLFCRPDYEKE 64
C C +++ E+ M+ D V+H++CF C C G+++++ + C D +
Sbjct: 9 GLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFSVGDRYLLINSDIVCEQDIYEW 68
Query: 65 VE---MLQGYAQGIPFDLITSSKSHDGRRGPKRPRTILTTQQRRAFKAS 110
+ G ++ + G ++T + F A+
Sbjct: 69 TKINGGSGGSGGSGGDVMVVGEPTLMGGEFGDEDERLITRLENTQFDAA 117
>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 = 88.9 bits (220), Expect = 3e-23
Identities = 27/112 (24%), Positives = 44/112 (39%), Gaps = 7/112 (6%)
Query: 6 KCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRLQRGEQFVIKQGQLFCRPDYEKEV 65
C C + + ELVM+ NV+H++CF C C +RL G++F G LFC D +
Sbjct: 71 ACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPTAL 130
Query: 66 EMLQGYAQGIPFDLITSSK-------SHDGRRGPKRPRTILTTQQRRAFKAS 110
+ G + + G ++T + F A+
Sbjct: 131 INGHLNSGGSGGSGGSGGDVMVVGEPTLMGGEFGDEDERLITRLENTQFDAA 182
Score = 55.4 bits (133), Expect = 1e-10
Identities = 20/63 (31%), Positives = 32/63 (50%), Gaps = 2/63 (3%)
Query: 2 LYVKKCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRL-QRGEQFVIKQGQLFCRPD 60
L K+C GC K+ D ++ +D+ +H +C C C ++L G K G + CR D
Sbjct: 3 LSWKRCAGCGGKIA-DRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRND 61
Query: 61 YEK 63
Y +
Sbjct: 62 YIR 64
>2xjy_A Rhombotin-2; oncoprotein, T-cell leukemia, proto-oncogene,
transcription, developmental protein; 2.40A {Homo
sapiens} PDB: 2xjz_A
Length = 131
Score = 82.1 bits (203), Expect = 3e-21
Identities = 14/63 (22%), Positives = 31/63 (49%)
Query: 5 KKCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRLQRGEQFVIKQGQLFCRPDYEKE 64
C C +++ E+ M+ D V+H++CF C C G+++++ + C D +
Sbjct: 67 GLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVCEQDIYEW 126
Query: 65 VEM 67
++
Sbjct: 127 TKI 129
Score = 57.1 bits (138), Expect = 1e-11
Identities = 21/61 (34%), Positives = 32/61 (52%), Gaps = 2/61 (3%)
Query: 4 VKKCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRL-QRGEQFVIKQGQLFCRPDYE 62
+ C GC + +G D +K +D +H C C +CG RL + G + K G+ CR DY
Sbjct: 2 LLTCGGCQQNIG-DRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYL 60
Query: 63 K 63
+
Sbjct: 61 R 61
>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 = 78.4 bits (193), Expect = 3e-19
Identities = 22/66 (33%), Positives = 38/66 (57%), Gaps = 1/66 (1%)
Query: 2 LYVKKCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRLQRGEQF-VIKQGQLFCRPD 60
+ KC C + P ++V + D V+H+ CF CVVC +L G++F +++ +L C+ D
Sbjct: 117 RFGTKCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKAD 176
Query: 61 YEKEVE 66
YE +
Sbjct: 177 YETAKQ 182
Score = 53.8 bits (129), Expect = 6e-10
Identities = 16/62 (25%), Positives = 29/62 (46%), Gaps = 3/62 (4%)
Query: 2 LYVKKCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRLQRGEQFVIKQGQLFCRPDY 61
+ C GC + + D ++K LD +H +C C C L E+ + ++C+ D+
Sbjct: 58 PEIPMCAGCDQHIL-DRFILKALDRHWHSKCLKCSDCHVPL--AERCFSRGESVYCKDDF 114
Query: 62 EK 63
K
Sbjct: 115 FK 116
>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 = 75.3 bits (185), Expect = 4e-18
Identities = 22/68 (32%), Positives = 38/68 (55%), Gaps = 1/68 (1%)
Query: 2 LYVKKCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRLQRGEQF-VIKQGQLFCRPD 60
+ KC C + P ++V + D V+H+ CF CVVC +L G++F +++ +L C+ D
Sbjct: 63 RFGTKCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKAD 122
Query: 61 YEKEVEML 68
YE +
Sbjct: 123 YETAKQGG 130
Score = 52.9 bits (127), Expect = 1e-09
Identities = 16/60 (26%), Positives = 29/60 (48%), Gaps = 3/60 (5%)
Query: 4 VKKCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRLQRGEQFVIKQGQLFCRPDYEK 63
+ C GC + + D ++K LD +H +C C C L E+ + ++C+ D+ K
Sbjct: 6 IPMCAGCDQHIL-DRFILKALDRHWHSKCLKCSDCHVPL--AERCFSRGESVYCKDDFFK 62
Score = 27.1 bits (60), Expect = 1.6
Identities = 4/40 (10%), Positives = 5/40 (12%), Gaps = 2/40 (5%)
Query: 2 LYVKKCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSR 41
G G M H +
Sbjct: 126 AKQGGSGGSGGSGGGT--PMVAASPERHDGGLQANPVEVQ 163
>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 = 69.4 bits (170), Expect = 8e-17
Identities = 15/57 (26%), Positives = 27/57 (47%)
Query: 81 TSSKSHDGRRGPKRPRTILTTQQRRAFKASFEISPKPCRKVREGLARDTGLSVRIVQ 137
+ + + KR RT +T +Q + + P RK+ + +A + GL R+VQ
Sbjct: 6 SGGTGGEEPQRDKRLRTTITPEQLEILYQKYLLDSNPTRKMLDHIAHEVGLKKRVVQ 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 = 65.1 bits (159), Expect = 3e-15
Identities = 14/50 (28%), Positives = 26/50 (52%)
Query: 88 GRRGPKRPRTILTTQQRRAFKASFEISPKPCRKVREGLARDTGLSVRIVQ 137
KRPRT +T Q R + F+I+ P + + +A +GL ++++
Sbjct: 3 SGSSGKRPRTRITDDQLRVLRQYFDINNSPSEEQIKEMADKSGLPQKVIK 52
>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 = 65.2 bits (159), Expect = 3e-15
Identities = 22/61 (36%), Positives = 32/61 (52%), Gaps = 1/61 (1%)
Query: 6 KCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRLQRGEQFVIKQGQLFCRPDYEKEV 65
C GC E + D + LD VFHV CFVC C ++L+ G+ F + + +C Y +
Sbjct: 7 GCGGCGEDVVGDGAGVVALDRVFHVGCFVCSTCRAQLR-GQHFYAVERRAYCEGCYVATL 65
Query: 66 E 66
E
Sbjct: 66 E 66
>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 = 63.7 bits (155), Expect = 1e-14
Identities = 17/63 (26%), Positives = 23/63 (36%), Gaps = 1/63 (1%)
Query: 2 LYVKKCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRLQRGEQFVIKQGQLFCRPDY 61
+ C C + +G D + D FH CF C C L E F + +L C Y
Sbjct: 13 TFANTCAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSLA-DEPFTCQDSELLCNDCY 71
Query: 62 EKE 64
Sbjct: 72 CSA 74
>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 = 63.2 bits (154), Expect = 1e-14
Identities = 15/62 (24%), Positives = 26/62 (41%), Gaps = 1/62 (1%)
Query: 2 LYVKKCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRLQRGEQFVIKQGQLFCRPDY 61
C C P E ++ + ++H QCFVC C + F +G+ +C D+
Sbjct: 9 SASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFP-EGLFYEFEGRKYCEHDF 67
Query: 62 EK 63
+
Sbjct: 68 QM 69
>2xqn_T Testin, TESS; metal-binding protein, cytoskeleton, focal adhesion,
acrosom; 2.62A {Homo sapiens}
Length = 126
Score = 64.7 bits (158), Expect = 1e-14
Identities = 16/64 (25%), Positives = 31/64 (48%), Gaps = 3/64 (4%)
Query: 2 LYVKKCLGCSEKLGPDELVMKTLDNVFH--VQCFVCVVCGSRLQRGEQFVIKQGQLFCRP 59
+ C GC + P+ + + +H +CF+C C L G++F+ +G +FC
Sbjct: 61 NHAVVCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLI-GQKFMPVEGMVFCSV 119
Query: 60 DYEK 63
+ +K
Sbjct: 120 ECKK 123
Score = 54.7 bits (132), Expect = 9e-11
Identities = 18/58 (31%), Positives = 30/58 (51%), Gaps = 2/58 (3%)
Query: 6 KCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRLQRGEQFVIKQGQLFCRPDYEK 63
+C GC E + +E + + +H++ F C C S L GE +V+ + C+P Y K
Sbjct: 5 RCAGCDELIFSNE-YTQAENQNWHLKHFCCFDCDSILA-GEIYVMVNDKPVCKPCYVK 60
>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 = 62.4 bits (152), Expect = 3e-14
Identities = 16/62 (25%), Positives = 27/62 (43%), Gaps = 1/62 (1%)
Query: 2 LYVKKCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRLQRGEQFVIKQGQLFCRPDY 61
L C C P E ++ + ++H QCFVC C + F +G+ +C D+
Sbjct: 9 LASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFP-EGLFYEFEGRKYCEHDF 67
Query: 62 EK 63
+
Sbjct: 68 QM 69
>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 = 60.8 bits (148), Expect = 2e-13
Identities = 14/62 (22%), Positives = 23/62 (37%), Gaps = 1/62 (1%)
Query: 2 LYVKKCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRLQRGEQFVIKQGQLFCRPDY 61
KC GC + + + ++ V+H CF C C + F K +C +
Sbjct: 13 EDSPKCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIG-TGSFFPKGEDFYCVTCH 71
Query: 62 EK 63
E
Sbjct: 72 ET 73
>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 = 60.5 bits (147), Expect = 2e-13
Identities = 18/60 (30%), Positives = 28/60 (46%), Gaps = 1/60 (1%)
Query: 5 KKCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRLQRGEQFVIKQGQLFCRPDYEKE 64
C C + + P M+ + +H CF+C C + + F+ K Q FC P YEK+
Sbjct: 6 SGCQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPI-GTKSFIPKDNQNFCVPCYEKQ 64
>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 = 60.1 bits (146), Expect = 3e-13
Identities = 17/59 (28%), Positives = 24/59 (40%), Gaps = 1/59 (1%)
Query: 5 KKCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRLQRGEQFVIKQGQLFCRPDYEK 63
C C E + P ++ +H CF+C C L FV +G +C P YE
Sbjct: 6 SGCSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPL-GSRSFVPDKGAHYCVPCYEN 63
>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 = 60.5 bits (147), Expect = 3e-13
Identities = 16/59 (27%), Positives = 25/59 (42%), Gaps = 1/59 (1%)
Query: 6 KCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRLQRGEQFVIKQGQLFCRPDYEKE 64
C+ C + +G D + + +H CF C C L E FV K ++ C +E
Sbjct: 7 GCVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLA-NETFVAKDNKILCNKCTTRE 64
Score = 51.6 bits (124), Expect = 8e-10
Identities = 9/38 (23%), Positives = 15/38 (39%)
Query: 2 LYVKKCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCG 39
KC GC + + + ++ V+H CF G
Sbjct: 64 EDSPKCKGCFKAIVAGDQNVEYKGTVWHKDCFSGPSSG 101
>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 = 59.4 bits (144), Expect = 5e-13
Identities = 14/64 (21%), Positives = 29/64 (45%), Gaps = 3/64 (4%)
Query: 1 MLYVKKCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRLQRGEQFVIKQG-QLFCRP 59
+ + C GCS + M + +H +CF C+ C ++ G+ + + Q L+C
Sbjct: 12 GKFGEFCHGCSLLMTG--PFMVAGEFKYHPECFACMSCKVIIEDGDAYALVQHATLYCGK 69
Query: 60 DYEK 63
+ +
Sbjct: 70 CHNE 73
>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 = 57.5 bits (139), Expect = 3e-12
Identities = 19/65 (29%), Positives = 26/65 (40%), Gaps = 4/65 (6%)
Query: 2 LYVKKCLGCSE---KLGPDELVMKTLDNVFHVQCFVCVVCGSRLQRGEQFVIKQGQLFCR 58
KKC GC G V+ +H CF C C L ++FV Q Q++C
Sbjct: 13 FVAKKCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLA-NKRFVFHQEQVYCP 71
Query: 59 PDYEK 63
+K
Sbjct: 72 DCAKK 76
>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 = 57.5 bits (139), Expect = 3e-12
Identities = 15/62 (24%), Positives = 25/62 (40%), Gaps = 2/62 (3%)
Query: 2 LYVKKCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRLQRGEQFVIKQGQLFCRPDY 61
LY +C C + + + V+ L +H CFVC VC G++ + C+
Sbjct: 13 LYGTRCFSCDQFI--EGEVVSALGKTYHPDCFVCAVCRLPFPPGDRVTFNGKECMCQKCS 70
Query: 62 EK 63
Sbjct: 71 LP 72
>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 = 56.6 bits (137), Expect = 5e-12
Identities = 14/46 (30%), Positives = 25/46 (54%)
Query: 92 PKRPRTILTTQQRRAFKASFEISPKPCRKVREGLARDTGLSVRIVQ 137
R RT+L +Q + + +P+P ++E L TGLS R+++
Sbjct: 3 TTRVRTVLNEKQLHTLRTCYAANPRPDALMKEQLVEMTGLSPRVIR 48
>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 = 58.1 bits (140), Expect = 7e-12
Identities = 10/71 (14%), Positives = 26/71 (36%)
Query: 67 MLQGYAQGIPFDLITSSKSHDGRRGPKRPRTILTTQQRRAFKASFEISPKPCRKVREGLA 126
+L + + ++ ++ RT ++ + A + F KP + +A
Sbjct: 62 ILSKWLEEAEQVGALYNEKVGANERKRKRRTTISIAAKDALERHFGEHSKPSSQEIMRMA 121
Query: 127 RDTGLSVRIVQ 137
+ L +V+
Sbjct: 122 EELNLEKEVVR 132
>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 = 55.6 bits (134), Expect = 1e-11
Identities = 16/75 (21%), Positives = 31/75 (41%), Gaps = 3/75 (4%)
Query: 2 LYVKKCLGCSEKLGPDEL--VMKTLDNVFHVQCFVCVVCGSRLQRGEQFVIKQGQLFCRP 59
C+ CS+ + + D+ +H +CF C C L G+ F+ + ++FC+
Sbjct: 3 SGSSGCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLV-GKGFLTQNKEIFCQK 61
Query: 60 DYEKEVEMLQGYAQG 74
+ G + G
Sbjct: 62 CGSGMDTDISGPSSG 76
>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 = 54.8 bits (132), Expect = 3e-11
Identities = 18/50 (36%), Positives = 25/50 (50%)
Query: 88 GRRGPKRPRTILTTQQRRAFKASFEISPKPCRKVREGLARDTGLSVRIVQ 137
KR RT Q R K+ F I+ P K + LA+ TGL+ R++Q
Sbjct: 3 SGSSGKRMRTSFKHHQLRTMKSYFAINHNPDAKDLKQLAQKTGLTKRVLQ 52
>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 = 55.9 bits (134), Expect = 3e-11
Identities = 19/61 (31%), Positives = 31/61 (50%), Gaps = 2/61 (3%)
Query: 4 VKKCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRL-QRGEQFVIKQGQLFCRPDYE 62
K+C GC K+ D ++ +D+ +H +C C C ++L G K G + CR DY
Sbjct: 61 WKRCAGCGGKIA-DRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYI 119
Query: 63 K 63
+
Sbjct: 120 R 120
>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 = 54.4 bits (131), Expect = 4e-11
Identities = 12/64 (18%), Positives = 22/64 (34%), Gaps = 3/64 (4%)
Query: 2 LYVKKCLGCSEKL--GPDELVMKTLDNVFHVQCFVCVVCGSRLQRGEQFVIKQGQLFCRP 59
C GC+ + + + +H CF C C L G F+ ++ + C
Sbjct: 3 SGSSGCAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSL-VGRGFLTERDDILCPD 61
Query: 60 DYEK 63
+
Sbjct: 62 CGKD 65
>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 = 53.8 bits (130), Expect = 6e-11
Identities = 14/62 (22%), Positives = 26/62 (41%), Gaps = 3/62 (4%)
Query: 2 LYVKKCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRLQRGEQFVIKQGQLFCRPDY 61
+ V C C + + V+ + +HV+ FVC C G + ++G +C Y
Sbjct: 3 MGVPICGACRRPI--EGRVVNAMGKQWHVEHFVCAKCEKPFL-GHRHYERKGLAYCETHY 59
Query: 62 EK 63
+
Sbjct: 60 NQ 61
>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 = 53.5 bits (129), Expect = 8e-11
Identities = 16/59 (27%), Positives = 28/59 (47%), Gaps = 3/59 (5%)
Query: 5 KKCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRLQRGEQFVIKQGQLFCRPDYEK 63
C+ C++ + + D +H CFVCV C +L G++F + Q +C Y+
Sbjct: 6 SGCVKCNKAITSGGIT--YQDQPWHADCFVCVTCSKKLA-GQRFTAVEDQYYCVDCYKN 61
>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 = 54.6 bits (131), Expect = 1e-10
Identities = 20/63 (31%), Positives = 32/63 (50%), Gaps = 2/63 (3%)
Query: 2 LYVKKCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRL-QRGEQFVIKQGQLFCRPD 60
L K+C GC K+ D ++ +D+ +H +C C C ++L G K G + CR D
Sbjct: 3 LSWKRCAGCGGKIA-DRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRND 61
Query: 61 YEK 63
Y +
Sbjct: 62 YIR 64
Score = 37.7 bits (87), Expect = 2e-04
Identities = 6/36 (16%), Positives = 12/36 (33%)
Query: 28 FHVQCFVCVVCGSRLQRGEQFVIKQGQLFCRPDYEK 63
+V G G +F + +L R + +
Sbjct: 77 HMGSGGDVMVVGEPTLMGGEFGDEDERLITRLENTQ 112
>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 = 53.2 bits (128), Expect = 1e-10
Identities = 18/61 (29%), Positives = 27/61 (44%), Gaps = 3/61 (4%)
Query: 3 YVKKCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRLQRGEQFVIKQGQLFCRPDYE 62
C GC E++ + + LD +HV CF C C L +++ K G +C DY
Sbjct: 14 GPSHCAGCKEEIKHGQ-SLLALDKQWHVSCFKCQTCSVIL--TGEYISKDGVPYCESDYH 70
Query: 63 K 63
Sbjct: 71 A 71
>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 = 53.1 bits (128), Expect = 2e-10
Identities = 15/62 (24%), Positives = 27/62 (43%), Gaps = 3/62 (4%)
Query: 2 LYVKKCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRLQRGEQFVIKQGQLFCRPDY 61
+ +C CS+ L + D +H +C VC C + L G+QF + +C +
Sbjct: 13 KFAPRCARCSKTLTQG--GVTYRDQPWHRECLVCTGCQTPL-AGQQFTSRDEDPYCVACF 69
Query: 62 EK 63
+
Sbjct: 70 GE 71
>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 = 53.1 bits (128), Expect = 2e-10
Identities = 16/61 (26%), Positives = 28/61 (45%), Gaps = 2/61 (3%)
Query: 3 YVKKCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRLQRGEQFVIKQGQLFCRPDYE 62
++KC CS+ + +++ + +H CF CVVC L V Q+ C D+
Sbjct: 14 TLEKCATCSQPILDR--ILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIEDFH 71
Query: 63 K 63
+
Sbjct: 72 R 72
>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 = 52.7 bits (127), Expect = 2e-10
Identities = 18/63 (28%), Positives = 28/63 (44%), Gaps = 3/63 (4%)
Query: 1 MLYVKKCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRLQRGEQFVIKQGQLFCRPD 60
++ KC GC+ + E + +D V+H +CFVC C + F G+ FC
Sbjct: 12 AMFSPKCGGCNRPV--LENYLSAMDTVWHPECFVCGDCFTSFS-TGSFFELDGRPFCELH 68
Query: 61 YEK 63
Y
Sbjct: 69 YHH 71
>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 = 52.3 bits (126), Expect = 2e-10
Identities = 12/61 (19%), Positives = 25/61 (40%), Gaps = 3/61 (4%)
Query: 3 YVKKCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRLQRGEQFVIKQGQLFCRPDYE 62
C+ C + + + + +H +CFVC C +L G++F + +C +
Sbjct: 4 GSSGCVQCKKPITTGGVT--YREQPWHKECFVCTACRKQL-SGQRFTARDDFAYCLNCFC 60
Query: 63 K 63
Sbjct: 61 D 61
>2d5v_A Hepatocyte nuclear factor 6; transcription factor,
transcription-DNA complex; 2.00A {Rattus norvegicus}
PDB: 1s7e_A
Length = 164
Score = 54.5 bits (130), Expect = 3e-10
Identities = 19/98 (19%), Positives = 43/98 (43%), Gaps = 5/98 (5%)
Query: 40 SRLQRGEQFVIKQGQLFCRPDYEKEVEMLQGYAQGIPFDLITSSKSHDGRRGPKRPRTIL 99
S+L+ G + + + P++++ + + D PK+PR +
Sbjct: 50 SKLKSGRETFRRMWKWLQEPEFQRMSALRLAACKRKE-----QEHGKDRGNTPKKPRLVF 104
Query: 100 TTQQRRAFKASFEISPKPCRKVREGLARDTGLSVRIVQ 137
T QRR A F+ + +P ++++ +++ GL + V
Sbjct: 105 TDVQRRTLHAIFKENKRPSKELQITISQQLGLELSTVS 142
>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 = 52.4 bits (126), Expect = 4e-10
Identities = 15/58 (25%), Positives = 26/58 (44%), Gaps = 3/58 (5%)
Query: 6 KCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRLQRGEQFVIKQGQLFCRPDYEK 63
C C++ + + L +H + F C C + + FV ++G L+C YEK
Sbjct: 27 MCAHCNQVI--RGPFLVALGKSWHPEEFNCAHCKNTMA-YIGFVEEKGALYCELCYEK 81
>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 = 51.4 bits (123), Expect = 4e-10
Identities = 16/65 (24%), Positives = 32/65 (49%), Gaps = 3/65 (4%)
Query: 3 YVKKCLGCSEKLGPDELVMKTLDNVFHV--QCFVCVVCGSRLQRGEQFVIKQGQLFCRPD 60
+ C GC + P+ + + +H +CF+C C L G++F+ +G +FC +
Sbjct: 1 HAVVCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLI-GQKFMPVEGMVFCSVE 59
Query: 61 YEKEV 65
+K +
Sbjct: 60 CKKRM 64
>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 = 51.7 bits (124), Expect = 5e-10
Identities = 19/61 (31%), Positives = 29/61 (47%), Gaps = 3/61 (4%)
Query: 4 VKKCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRLQRGEQFVIKQGQLFCRPDYEK 63
C C E + V+K ++N +H +CF C +C L FV G+ CRP + +
Sbjct: 5 SSGCHQCGEFIIGR--VIKAMNNSWHPECFRCDLCQEVLA-DIGFVKNAGRHLCRPCHNR 61
Query: 64 E 64
E
Sbjct: 62 E 62
>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 = 51.7 bits (124), Expect = 7e-10
Identities = 15/58 (25%), Positives = 24/58 (41%), Gaps = 3/58 (5%)
Query: 6 KCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRLQRGEQFVIKQGQLFCRPDYEK 63
C C + V+K D H +CFVC C L + + + +G+L+C
Sbjct: 27 LCDKCGSGI--VGAVVKARDKYRHPECFVCADCNLNL-KQKGYFFVEGELYCETHARA 81
>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 = 53.1 bits (127), Expect = 1e-09
Identities = 16/61 (26%), Positives = 25/61 (40%), Gaps = 2/61 (3%)
Query: 3 YVKKCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRLQRGEQFVIKQGQLFCRPDYE 62
C C + + E V+ +H CF C CG L+ K G+++C+ Y
Sbjct: 114 GSDGCPRCGQAVYAAEKVI-GAGKSWHKSCFRCAKCGKSLE-STTLADKDGEIYCKGCYA 171
Query: 63 K 63
K
Sbjct: 172 K 172
Score = 49.6 bits (118), Expect = 2e-08
Identities = 16/59 (27%), Positives = 28/59 (47%), Gaps = 2/59 (3%)
Query: 6 KCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRLQRGEQFVIKQGQLFCRPDYEKE 64
KC C + + E V + + FH CF+C+VC L + +++C+ Y K+
Sbjct: 9 KCGVCQKAVYFAEEV-QCEGSSFHKSCFLCMVCKKNLD-STTVAVHGDEIYCKSCYGKK 65
>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 = 50.1 bits (120), Expect = 2e-09
Identities = 17/58 (29%), Positives = 24/58 (41%), Gaps = 2/58 (3%)
Query: 6 KCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRLQRGEQFVIKQGQLFCRPDYEK 63
KC C + E V FH CF+C+VC L I +++C+ Y K
Sbjct: 9 KCGACGRTVYHAEEVQ-CDGRSFHRCCFLCMVCRKNLDSTT-VAIHDAEVYCKSCYGK 64
>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 = 50.1 bits (120), Expect = 2e-09
Identities = 13/58 (22%), Positives = 25/58 (43%), Gaps = 3/58 (5%)
Query: 6 KCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRLQRGEQFVIKQGQLFCRPDYEK 63
C C + + +K D H +C+VC CG+ L + + + Q++C +
Sbjct: 17 MCDKCGTGI--VGVFVKLRDRHRHPECYVCTDCGTNL-KQKGHFFVEDQIYCEKHARE 71
>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 = 51.7 bits (123), Expect = 2e-09
Identities = 17/56 (30%), Positives = 26/56 (46%)
Query: 82 SSKSHDGRRGPKRPRTILTTQQRRAFKASFEISPKPCRKVREGLARDTGLSVRIVQ 137
SKS + KR RT + + R + + F SPKP + +A GL +V+
Sbjct: 86 ISKSETLVQARKRKRTSIENRVRWSLETMFLKSPKPSLQQITHIANQLGLEKDVVR 141
>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 = 50.2 bits (120), Expect = 2e-09
Identities = 16/59 (27%), Positives = 32/59 (54%), Gaps = 2/59 (3%)
Query: 5 KKCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRLQRGEQFVIKQGQLFCRPDYEK 63
+ C+ C + + P E ++ VFH+ CF C C ++L G + G+++C+P + +
Sbjct: 16 ETCVECQKTVYPMERLL-ANQQVFHISCFRCSYCNNKLSLGT-YASLHGRIYCKPHFNQ 72
>2xsd_C POU domain, class 3, transcription factor 1; transcription-DNA
complex, SOX; 2.05A {Mus musculus}
Length = 164
Score = 51.6 bits (123), Expect = 3e-09
Identities = 13/57 (22%), Positives = 23/57 (40%)
Query: 81 TSSKSHDGRRGPKRPRTILTTQQRRAFKASFEISPKPCRKVREGLARDTGLSVRIVQ 137
T+ + ++ RT + + A ++ F PKP GLA L +V+
Sbjct: 88 TNLDKIAAQGRKRKKRTSIEVGVKGALESHFLKCPKPSAHEITGLADSLQLEKEVVR 144
>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 = 50.4 bits (120), Expect = 3e-09
Identities = 21/61 (34%), Positives = 32/61 (52%), Gaps = 2/61 (3%)
Query: 4 VKKCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRL-QRGEQFVIKQGQLFCRPDYE 62
+ C GC + +G D +K +D +H C C +CG RL + G + K G+ CR DY
Sbjct: 3 LLTCGGCQQNIG-DRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYL 61
Query: 63 K 63
+
Sbjct: 62 R 62
Score = 26.6 bits (58), Expect = 2.3
Identities = 3/49 (6%), Positives = 12/49 (24%), Gaps = 2/49 (4%)
Query: 1 MLYVKKCLGCS--EKLGPDELVMKTLDNVFHVQCFVCVVCGSRLQRGEQ 47
L S + + E + + + + + ++
Sbjct: 62 RLGGSGGHMGSGGDVMVVGEPTLMGGEFGDEDERLITRLENTQFDAANG 110
>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 = 49.2 bits (117), Expect = 2e-08
Identities = 12/56 (21%), Positives = 25/56 (44%)
Query: 82 SSKSHDGRRGPKRPRTILTTQQRRAFKASFEISPKPCRKVREGLARDTGLSVRIVQ 137
+S +G ++ RT + T R A + SF + KP + +A + +++
Sbjct: 91 NSPGIEGLSRRRKKRTSIETNIRVALEKSFMENQKPTSEDITLIAEQLNMEKEVIR 146
>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 = 45.9 bits (108), Expect = 8e-08
Identities = 11/52 (21%), Positives = 23/52 (44%), Gaps = 2/52 (3%)
Query: 6 KCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRLQRGEQFVIKQGQLFC 57
C C + + V++ + +H C +CV CG GE+ ++ ++
Sbjct: 7 GCDSCEKYI--TGRVLEAGEKHYHPSCALCVRCGQMFAEGEEMYLQGSSIWH 56
>2dn0_A Zinc fingers and homeoboxes protein 3; triple homeobox 1 protein,
KIAA0395, TIX1, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 76
Score = 45.5 bits (108), Expect = 1e-07
Identities = 16/51 (31%), Positives = 23/51 (45%)
Query: 87 DGRRGPKRPRTILTTQQRRAFKASFEISPKPCRKVREGLARDTGLSVRIVQ 137
G G + + +Q A K SF + P + E L + TGLS R V+
Sbjct: 3 SGSSGASIYKNKKSHEQLSALKGSFCRNQFPGQSEVEHLTKVTGLSTREVR 53
>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 = 45.4 bits (108), Expect = 1e-07
Identities = 16/59 (27%), Positives = 24/59 (40%), Gaps = 3/59 (5%)
Query: 6 KCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRLQRGEQFVIKQGQLFC-RPDYEK 63
KC C +++ E V +L +H C C CG L +G+ +C P Y
Sbjct: 2 KCPKCDKEVYFAERVT-SLGKDWHRPCLKCEKCGKTL-TSGGHAEHEGKPYCNHPCYSA 58
>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 = 44.7 bits (106), Expect = 2e-07
Identities = 11/48 (22%), Positives = 18/48 (37%)
Query: 90 RGPKRPRTILTTQQRRAFKASFEISPKPCRKVREGLARDTGLSVRIVQ 137
+ RT T Q R + F+ + P E L+ L R++
Sbjct: 5 SSGRSSRTRFTDYQLRVLQDFFDANAYPKDDEFEQLSNLLNLPTRVIV 52
>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 = 44.8 bits (106), Expect = 2e-07
Identities = 6/47 (12%), Positives = 17/47 (36%), Gaps = 1/47 (2%)
Query: 92 PKRPRTILTTQQRRAFKASF-EISPKPCRKVREGLARDTGLSVRIVQ 137
R RT ++ + ++ ++ P ++ L+ L +
Sbjct: 7 GPRSRTKISLEALGILQSFIHDVGLYPDQEAIHTLSAQLDLPKHTII 53
>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 = 3e-07
Identities = 15/60 (25%), Positives = 21/60 (35%), Gaps = 2/60 (3%)
Query: 6 KCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRLQRGE-QFVIKQGQLFCRPDYEKE 64
C C E L E + + FH CF C C + L G + G +C +
Sbjct: 17 LCALCGEHLYVLERLC-VNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQHLPQT 75
>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 = 44.3 bits (105), Expect = 3e-07
Identities = 17/59 (28%), Positives = 23/59 (38%), Gaps = 3/59 (5%)
Query: 6 KCLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRLQRGEQFVIKQGQLFC-RPDYEK 63
KC C + + E V +L +H C C C L G G+ FC +P Y
Sbjct: 11 KCPKCDKTVYFAEKVS-SLGKDWHKFCLKCERCSKTLTPGG-HAEHDGKPFCHKPCYAT 67
>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 = 43.2 bits (102), Expect = 8e-07
Identities = 15/57 (26%), Positives = 25/57 (43%), Gaps = 4/57 (7%)
Query: 7 CLGCSEKLGPDELVMKTLDNVFHVQCFVCVVCGSRLQRGEQFVIKQGQLFCRPDYEK 63
C C + DE + ++ +H F C CG L +G+L+C P ++K
Sbjct: 18 CQKCHAII--DEQPLIFKNDPYHPDHFNCANCGKEL--TADARELKGELYCLPCHDK 70
>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 = 42.7 bits (100), Expect = 2e-06
Identities = 14/58 (24%), Positives = 24/58 (41%), Gaps = 1/58 (1%)
Query: 81 TSSKSHDGRRGPKRPRTILTTQQRRAFKASFEISPKPCRKVREGLARDTGLSVRIVQS 138
+ S P++ + T Q + + SF S P + + L +T LS R + S
Sbjct: 3 SGSSGAYPDFAPQKFKE-KTQGQVKILEDSFLKSSFPTQAELDRLRVETKLSRREIDS 59
>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 = 40.6 bits (95), Expect = 8e-06
Identities = 14/52 (26%), Positives = 26/52 (50%), Gaps = 1/52 (1%)
Query: 87 DGRRGPKRPRTILTTQQRRAFKASFEISPKPCRKVREGLARDTGLSVRIVQS 138
G GP + + +Q RA ++SF +P P + + L +T ++ R + S
Sbjct: 3 SGSSGPTKYKE-RAPEQLRALESSFAQNPLPLDEELDRLRSETKMTRREIDS 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 = 40.2 bits (94), Expect = 1e-05
Identities = 12/46 (26%), Positives = 16/46 (34%)
Query: 92 PKRPRTILTTQQRRAFKASFEISPKPCRKVREGLARDTGLSVRIVQ 137
T +Q KASF S P L TGL+ ++
Sbjct: 4 HHHHHRKKTKEQIAHLKASFLQSQFPDDAEVYRLIEVTGLARSEIK 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 = 41.6 bits (97), Expect = 1e-05
Identities = 12/56 (21%), Positives = 21/56 (37%)
Query: 82 SSKSHDGRRGPKRPRTILTTQQRRAFKASFEISPKPCRKVREGLARDTGLSVRIVQ 137
++ RT T Q A A FE +P P + +A++ +V+
Sbjct: 83 MEFVGGEPSKKRKRRTSFTPQAIEALNAYFEKNPLPTGQEITEMAKELNYDREVVR 138
>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 = 37.8 bits (88), Expect = 1e-04
Identities = 14/50 (28%), Positives = 19/50 (38%)
Query: 88 GRRGPKRPRTILTTQQRRAFKASFEISPKPCRKVREGLARDTGLSVRIVQ 137
+R RT T Q +A F + P +RE +A L VQ
Sbjct: 3 SGSSGRRERTTFTRAQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQ 52
>2ecb_A Zinc fingers and homeoboxes protein 1; homeobox domain,
transcription factor, structural genomics, NPPSFA; NMR
{Homo sapiens} SCOP: a.4.1.1
Length = 89
Score = 37.7 bits (87), Expect = 1e-04
Identities = 11/39 (28%), Positives = 17/39 (43%)
Query: 100 TTQQRRAFKASFEISPKPCRKVREGLARDTGLSVRIVQS 138
T +Q R +ASF S + L T L+ R + +
Sbjct: 19 TAEQLRVLQASFLNSSVLTDEELNRLRAQTKLTRREIDA 57
>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 = 1e-04
Identities = 8/49 (16%), Positives = 21/49 (42%)
Query: 89 RRGPKRPRTILTTQQRRAFKASFEISPKPCRKVREGLARDTGLSVRIVQ 137
+ + ++ ++ Q R + F K +E +A+ G++ V+
Sbjct: 2 KEKSPKGKSSISPQARAFLEEVFRRKQSLNSKEKEEVAKKCGITPLQVR 50
>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 = 37.1 bits (85), Expect = 2e-04
Identities = 10/48 (20%), Positives = 21/48 (43%)
Query: 90 RGPKRPRTILTTQQRRAFKASFEISPKPCRKVREGLARDTGLSVRIVQ 137
G T +Q K++F + P + + LA+++GL+ +
Sbjct: 23 SGSTGKICKKTPEQLHMLKSAFVRTQWPSPEEYDKLAKESGLARTDIV 70
>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 = 35.0 bits (81), Expect = 8e-04
Identities = 13/45 (28%), Positives = 21/45 (46%)
Query: 93 KRPRTILTTQQRRAFKASFEISPKPCRKVREGLARDTGLSVRIVQ 137
+RPRT T Q + F ++ P + E LA+ L + +Q
Sbjct: 2 RRPRTAFTQNQIEVLENVFRVNCYPGIDILEDLAQKLNLELDRIQ 46
>2hi3_A Homeodomain-only protein; transcription; NMR {Mus musculus} SCOP:
a.4.1.1
Length = 73
Score = 35.1 bits (81), Expect = 0.001
Identities = 9/46 (19%), Positives = 16/46 (34%), Gaps = 1/46 (2%)
Query: 93 KRPRTILTTQQRRAFKASFEISPK-PCRKVREGLARDTGLSVRIVQ 137
+ + T Q + +F K P +A + GL+ Q
Sbjct: 3 AQTVSGPTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQ 48
>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 = 34.3 bits (79), Expect = 0.002
Identities = 15/51 (29%), Positives = 23/51 (45%)
Query: 82 SSKSHDGRRGPKRPRTILTTQQRRAFKASFEISPKPCRKVREGLARDTGLS 132
S +R +R RT + Q + +FE + P RE LA+ T L+
Sbjct: 8 SEPGIALKRKQRRSRTTFSASQLDELERAFERTQYPDIYTREELAQRTNLT 58
>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 = 33.1 bits (76), Expect = 0.004
Identities = 16/50 (32%), Positives = 22/50 (44%)
Query: 88 GRRGPKRPRTILTTQQRRAFKASFEISPKPCRKVREGLARDTGLSVRIVQ 137
+R RTI T +Q A + F+ + P RE LAR L V+
Sbjct: 3 SGSSGRRHRTIFTDEQLEALENLFQETKYPDVGTREQLARKVHLREEKVE 52
>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 = 32.7 bits (74), Expect = 0.006
Identities = 9/47 (19%), Positives = 15/47 (31%)
Query: 92 PKRPRTILTTQQRRAFKASFEISPKPCRKVREGLARDTGLSVRIVQS 138
T +Q K+ F R+ + L + TGL +
Sbjct: 3 SGSSGKRKTKEQLAILKSFFLQCQWARREDYQKLEQITGLPRPEIIQ 49
>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 = 31.9 bits (73), Expect = 0.010
Identities = 15/46 (32%), Positives = 25/46 (54%)
Query: 92 PKRPRTILTTQQRRAFKASFEISPKPCRKVREGLARDTGLSVRIVQ 137
+R RT T+QQ + +A+F+ + P RE +A T L+ V+
Sbjct: 3 QRRQRTHFTSQQLQQLEATFQRNRYPDMSTREEIAVWTNLTEARVR 48
>2h8r_A Hepatocyte nuclear factor 1-beta; trasncription factor, POU, homeo,
protein-DNA, human disease; 3.20A {Homo sapiens}
Length = 221
Score = 33.8 bits (76), Expect = 0.012
Identities = 7/47 (14%), Positives = 17/47 (36%)
Query: 81 TSSKSHDGRRGPKRPRTILTTQQRRAFKASFEISPKPCRKVREGLAR 127
+ S + +R R ++ +++ P ++ RE L
Sbjct: 131 DDACSEPTNKKMRRNRFKWGPASQQILYQAYDRQKNPSKEEREALVE 177
>2cue_A Paired box protein PAX6; homeobox domain, transcription factor,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
a.4.1.1
Length = 80
Score = 32.0 bits (73), Expect = 0.014
Identities = 15/49 (30%), Positives = 20/49 (40%)
Query: 89 RRGPKRPRTILTTQQRRAFKASFEISPKPCRKVREGLARDTGLSVRIVQ 137
+R RT T +Q A + FE + P RE LA L +Q
Sbjct: 4 GSSGQRNRTSFTQEQIEALEKEFERTHYPDVFARERLAAKIDLPEARIQ 52
>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 = 30.7 bits (70), Expect = 0.029
Identities = 11/42 (26%), Positives = 17/42 (40%)
Query: 96 RTILTTQQRRAFKASFEISPKPCRKVREGLARDTGLSVRIVQ 137
T+ Q + +F + P RE LA GL+ +Q
Sbjct: 3 HMTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQ 44
>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 = 32.2 bits (72), Expect = 0.033
Identities = 11/77 (14%), Positives = 25/77 (32%)
Query: 51 KQGQLFCRPDYEKEVEMLQGYAQGIPFDLITSSKSHDGRRGPKRPRTILTTQQRRAFKAS 110
K+ L+ ++ Q G + + + +R R ++ +
Sbjct: 74 KRAALYTWYVRKQREVAQQFTHAGQGGLIEEPTGDELPTKKGRRNRFKWGPASQQILFQA 133
Query: 111 FEISPKPCRKVREGLAR 127
+E P ++ RE L
Sbjct: 134 YERQKNPSKEERETLVE 150
>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 = 30.0 bits (68), Expect = 0.063
Identities = 9/45 (20%), Positives = 15/45 (33%), Gaps = 1/45 (2%)
Query: 94 RPRTILTTQQRRAFKASFEISPK-PCRKVREGLARDTGLSVRIVQ 137
+T Q + +F K P +A + GL+ Q
Sbjct: 3 EGAATMTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQ 47
>2e19_A Transcription factor 8; homeobox domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 64
Score = 29.6 bits (66), Expect = 0.086
Identities = 6/35 (17%), Positives = 15/35 (42%)
Query: 103 QRRAFKASFEISPKPCRKVREGLARDTGLSVRIVQ 137
KA + ++ +P + +A L + +V+
Sbjct: 14 LLSLLKAYYALNAQPSAEELSKIADSVNLPLDVVK 48
>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 = 28.8 bits (65), Expect = 0.12
Identities = 12/44 (27%), Positives = 21/44 (47%)
Query: 91 GPKRPRTILTTQQRRAFKASFEISPKPCRKVREGLARDTGLSVR 134
KRPRT +++Q K F + + R+ L+ + GL+
Sbjct: 2 AEKRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEA 45
>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 = 29.4 bits (66), Expect = 0.14
Identities = 14/56 (25%), Positives = 20/56 (35%)
Query: 81 TSSKSHDGRRGPKRPRTILTTQQRRAFKASFEISPKPCRKVREGLARDTGLSVRIV 136
+ + + +R RT+ T Q + FE R LA GLS V
Sbjct: 6 SGGEPGTKAKKGRRSRTVFTELQLMGLEKRFEKQKYLSTPDRIDLAESLGLSQLQV 61
>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 = 29.6 bits (66), Expect = 0.15
Identities = 6/53 (11%), Positives = 15/53 (28%)
Query: 90 RGPKRPRTILTTQQRRAFKASFEISPKPCRKVREGLARDTGLSVRIVQSRPIP 142
+ R + ++ F + P RE +A ++ +
Sbjct: 5 SSGRGSRFTWRKECLAVMESYFNENQYPDEAKREEIANACNAVIQKPGKKLSD 57
>2djn_A Homeobox protein DLX-5; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 70
Score = 28.9 bits (65), Expect = 0.16
Identities = 12/41 (29%), Positives = 20/41 (48%)
Query: 92 PKRPRTILTTQQRRAFKASFEISPKPCRKVREGLARDTGLS 132
++PRTI ++ Q A + F+ + R LA GL+
Sbjct: 7 GRKPRTIYSSFQLAALQRRFQKTQYLALPERAELAASLGLT 47
>2kt0_A Nanog, homeobox protein nanog; homeodomain, structural genomics,
protein structure initiative, PSI, center for eukaryotic
structural genomics; NMR {Homo sapiens}
Length = 84
Score = 29.0 bits (65), Expect = 0.18
Identities = 8/52 (15%), Positives = 18/52 (34%)
Query: 81 TSSKSHDGRRGPKRPRTILTTQQRRAFKASFEISPKPCRKVREGLARDTGLS 132
+ K ++ RT+ ++ Q F+ + + L+ LS
Sbjct: 11 VAKKEDKVPVKKQKTRTVFSSTQLCVLNDRFQRQKYLSLQQMQELSNILNLS 62
>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 = 27.1 bits (60), Expect = 0.70
Identities = 11/51 (21%), Positives = 21/51 (41%), Gaps = 1/51 (1%)
Query: 88 GRRGPKRPRTILTTQQRRAFKASF-EISPKPCRKVREGLARDTGLSVRIVQ 137
G G + + + + F ++ P K +GL++ SVR +Q
Sbjct: 4 GSSGGIKDSPVNKVEPNDTLEKVFVSVTKYPDEKRLKGLSKQLDWSVRKIQ 54
>1lfb_A Liver transcription factor (LFB1); transcription regulation; 2.80A
{Rattus norvegicus} SCOP: a.4.1.1 PDB: 2lfb_A
Length = 99
Score = 27.5 bits (60), Expect = 0.79
Identities = 7/38 (18%), Positives = 15/38 (39%)
Query: 90 RGPKRPRTILTTQQRRAFKASFEISPKPCRKVREGLAR 127
+ +R R ++ ++E P ++ RE L
Sbjct: 7 KKGRRNRFKWGPASQQILFQAYERQKNPSKEERETLVE 44
>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 = 26.6 bits (59), Expect = 0.99
Identities = 10/44 (22%), Positives = 14/44 (31%)
Query: 91 GPKRPRTILTTQQRRAFKASFEISPKPCRKVREGLARDTGLSVR 134
GP+R RT T+ Q + F L+ L
Sbjct: 1 GPRRTRTTFTSSQIAELEQHFLQGRYLTAPRLADLSAKLALGTA 44
>1b72_A Protein (homeobox protein HOX-B1); homeodomain, DNA, complex,
DNA-binding protein, protein/DNA complex; HET: DNA;
2.35A {Homo sapiens} SCOP: a.4.1.1
Length = 97
Score = 26.8 bits (59), Expect = 1.4
Identities = 14/54 (25%), Positives = 20/54 (37%)
Query: 81 TSSKSHDGRRGPKRPRTILTTQQRRAFKASFEISPKPCRKVREGLARDTGLSVR 134
T+ S G P RT TT+Q + F + R R +A L+
Sbjct: 23 TAKVSEPGLGSPSGLRTNFTTRQLTELEKEFHFNKYLSRARRVEIAATLELNET 76
>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 = 2.7
Identities = 14/56 (25%), Positives = 18/56 (32%), Gaps = 31/56 (55%)
Query: 62 EK-EVEMLQG----YAQGIPFDLITSSKSHDGRRGPKRPRTILTTQQRRAFKASFE 112
EK ++ LQ YA D S+ P L A KA+ E
Sbjct: 18 EKQALKKLQASLKLYA---D-D---SA--------PA-----L------AIKATME 47
>1x2m_A LAG1 longevity assurance homolog 6; homeobox domain, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Mus musculus} SCOP:
a.4.1.1
Length = 64
Score = 25.2 bits (55), Expect = 3.1
Identities = 10/30 (33%), Positives = 14/30 (46%)
Query: 108 KASFEISPKPCRKVREGLARDTGLSVRIVQ 137
K I+ P K EGL++ VR +Q
Sbjct: 17 KVFTAITKHPDEKRLEGLSKQLDWDVRSIQ 46
>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 = 25.6 bits (56), Expect = 3.4
Identities = 10/56 (17%), Positives = 19/56 (33%), Gaps = 3/56 (5%)
Query: 81 TSSKSHDGRRGPKRPRTILTTQQRRAFKASF---EISPKPCRKVREGLARDTGLSV 133
++ + T + R ++ F +P K E L ++T LS
Sbjct: 16 VVTQDMINKSTKPYRGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSR 71
>3dlc_A Putative S-adenosyl-L-methionine-dependent methyltransferase;
structural genomics, joint center for structural
genomics; HET: MSE SAM; 1.15A {Methanococcus
maripaludis}
Length = 219
Score = 26.3 bits (58), Expect = 3.5
Identities = 8/47 (17%), Positives = 15/47 (31%), Gaps = 12/47 (25%)
Query: 42 LQRGEQFVIKQGQLFCRPDYEKEVEMLQGYAQGIP-----FDLITSS 83
+ + + ++++QG IP DLI S
Sbjct: 79 NEIALKNIADAN-------LNDRIQIVQGDVHNIPIEDNYADLIVSR 118
>1ig7_A Homeotic protein MSX-1; helix-turn-helix, transcription/DNA
complex; 2.20A {Mus musculus} SCOP: a.4.1.1
Length = 58
Score = 24.9 bits (55), Expect = 3.6
Identities = 10/40 (25%), Positives = 15/40 (37%)
Query: 93 KRPRTILTTQQRRAFKASFEISPKPCRKVREGLARDTGLS 132
++PRT TT Q A + F R + L+
Sbjct: 1 RKPRTPFTTAQLLALERKFRQKQYLSIAERAEFSSSLSLT 40
>3rkq_A Homeobox protein NKX-2.5; helix-turn-helix, DNA binding, nucleus,
transcription-DNA CO; 1.70A {Homo sapiens}
Length = 58
Score = 24.5 bits (54), Expect = 4.3
Identities = 9/42 (21%), Positives = 17/42 (40%)
Query: 91 GPKRPRTILTTQQRRAFKASFEISPKPCRKVREGLARDTGLS 132
G ++PR + + Q + F+ R+ LA L+
Sbjct: 1 GRRKPRVLFSQAQVYELERRFKQQRYLSAPERDQLASVLKLT 42
>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 = 24.7 bits (54), Expect = 5.2
Identities = 9/43 (20%), Positives = 14/43 (32%)
Query: 90 RGPKRPRTILTTQQRRAFKASFEISPKPCRKVREGLARDTGLS 132
++ R + T Q + F RE LA L+
Sbjct: 7 NKKRKRRVLFTKAQTYELERRFRQQRYLSAPEREHLASLIRLT 49
>3m1r_A Formimidoylglutamase; structural genomics, PSI-2, protein
structure initiative, midwest center for structural
genomics, MCSG; HET: CAC; 2.20A {Bacillus subtilis}
Length = 322
Score = 25.7 bits (57), Expect = 6.3
Identities = 12/59 (20%), Positives = 20/59 (33%), Gaps = 12/59 (20%)
Query: 48 FVIKQGQLFCRPDYEKEVEMLQGYAQ---------GIPFDLITSSKSHDGRR-GPKRPR 96
F+ + G F D K +++ + G+P + S S G P R
Sbjct: 9 FLREAGSSFKDRDVTKMSDLIATWDGQDIKGPALIGVPLSKSSISHS--GASFAPGTIR 65
>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 = 25.5 bits (56), Expect = 7.1
Identities = 12/49 (24%), Positives = 16/49 (32%), Gaps = 10/49 (20%)
Query: 105 RAFKASFEISPKPCRKVREG----------LARDTGLSVRIVQSRPIPV 143
RAFK F +P R+ E L T + V P+
Sbjct: 88 RAFKKQFAQTPALYRRSPEWSAFGIRPPLRLGEFTMPEHKFVTLEDTPL 136
>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 = 24.3 bits (53), Expect = 7.3
Identities = 11/45 (24%), Positives = 16/45 (35%)
Query: 92 PKRPRTILTTQQRRAFKASFEISPKPCRKVREGLARDTGLSVRIV 136
K + + Q + FE R+ LA+ LS R V
Sbjct: 7 GKGGQVRFSNDQTIELEKKFETQKYLSPPERKRLAKMLQLSERQV 51
>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*TP
*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 = 24.9 bits (55), Expect = 8.0
Identities = 6/16 (37%), Positives = 8/16 (50%)
Query: 105 RAFKASFEISPKPCRK 120
R FK F++ P R
Sbjct: 96 RTFKNYFDVPPHKYRM 111
>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 = 24.4 bits (53), Expect = 8.5
Identities = 14/51 (27%), Positives = 21/51 (41%), Gaps = 5/51 (9%)
Query: 83 SKSHDGRRGPKRPRTILTTQQRRAFKASFEISPKPCRKVREGLARDTGLSV 133
+K + G R K IL ++ A +P K E L ++T LS
Sbjct: 1 TKPYRGHRFTKENVRIL-----ESWFAKNIENPYLDTKGLENLMKNTSLSR 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 = 23.8 bits (52), Expect = 8.5
Identities = 9/40 (22%), Positives = 17/40 (42%)
Query: 93 KRPRTILTTQQRRAFKASFEISPKPCRKVREGLARDTGLS 132
++ RT+ + Q A K F+ + + L+ LS
Sbjct: 4 QKMRTVFSQAQLCALKDRFQKQKYLSLQQMQELSSILNLS 43
>1zfo_A LAsp-1; LIM domain, zinc-finger, metal-binding protein; NMR {Sus
scrofa} SCOP: g.39.1.4
Length = 31
Score = 23.1 bits (49), Expect = 9.1
Identities = 10/29 (34%), Positives = 13/29 (44%), Gaps = 1/29 (3%)
Query: 5 KKCLGCSEKLGPDELVMKTLDNVFHVQCF 33
C C + + P E V LD +H CF
Sbjct: 4 PNCARCGKIVYPTEKV-NCLDKFWHKACF 31
>1ftt_A TTF-1 HD, thyroid transcription factor 1 homeodomain; DNA binding
protein; NMR {Rattus norvegicus} SCOP: a.4.1.1
Length = 68
Score = 23.8 bits (52), Expect = 9.7
Identities = 8/40 (20%), Positives = 15/40 (37%)
Query: 93 KRPRTILTTQQRRAFKASFEISPKPCRKVREGLARDTGLS 132
++ R + + Q + F+ RE LA L+
Sbjct: 3 RKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLT 42
>2l9r_A Homeobox protein NKX-3.1; structural genomics, northeast structural
genomics consortiu PSI-biology, protein structure
initiative; NMR {Homo sapiens}
Length = 69
Score = 23.9 bits (52), Expect = 9.9
Identities = 6/41 (14%), Positives = 13/41 (31%)
Query: 92 PKRPRTILTTQQRRAFKASFEISPKPCRKVREGLARDTGLS 132
+ ++ Q + F R LA++ L+
Sbjct: 4 HHHHHSHMSHTQVIELERKFSHQKYLSAPERAHLAKNLKLT 44
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
0.325 0.140 0.429
Gapped
Lambda K H
0.267 0.0668 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,120,359
Number of extensions: 113965
Number of successful extensions: 523
Number of sequences better than 10.0: 1
Number of HSP's gapped: 470
Number of HSP's successfully gapped: 123
Length of query: 143
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 59
Effective length of database: 4,356,429
Effective search space: 257029311
Effective search space used: 257029311
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 52 (23.9 bits)