RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16551
(281 letters)
>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 = 140 bits (353), Expect = 2e-41
Identities = 80/183 (43%), Positives = 97/183 (53%), Gaps = 8/183 (4%)
Query: 91 KAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTC 150
GK C C V+ AE+V +GS +H+ CF C C K LDS D+ IYCK+C
Sbjct: 3 NWGGGKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGDE-IYCKSC 61
Query: 151 YGKKWGPHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTS------IMARKGEGCPRC 204
YGKK+GP G G G+G L TD I + T +GCPRC
Sbjct: 62 YGKKYGPKGKGKGMGAGTLSTDKGESLGIKYEEGQSHRPTNPNASRMAQKVGGSDGCPRC 121
Query: 205 GGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFG 264
G AV+AAE+ + G WHK CF C C + L+S D D EIYCK CY KNFGPKGFG
Sbjct: 122 GQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLAD-KDGEIYCKGCYAKNFGPKGFG 180
Query: 265 YGH 267
+G
Sbjct: 181 FGQ 183
Score = 79.3 bits (195), Expect = 4e-18
Identities = 40/99 (40%), Positives = 55/99 (55%), Gaps = 1/99 (1%)
Query: 72 FFCRENNAPRTTVIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKT 131
+ +++ P K GCPRCG V+AAE+V+ G WH+ CF+C C K+
Sbjct: 92 YEEGQSHRPTNPNASRMAQKVGGSDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKS 151
Query: 132 LDSINACDGPDKDIYCKTCYGKKWGPHGYGFAAGSGFLQ 170
L+S D D +IYCK CY K +GP G+GF G+G L
Sbjct: 152 LESTTLAD-KDGEIYCKGCYAKNFGPKGFGFGQGAGALI 189
>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 = 85.5 bits (212), Expect = 1e-21
Identities = 36/79 (45%), Positives = 45/79 (56%), Gaps = 1/79 (1%)
Query: 91 KAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTC 150
G C CG V+ AE+V G +HR CF C C K LDS D ++YCK+C
Sbjct: 3 NWGGGNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIH-DAEVYCKSC 61
Query: 151 YGKKWGPHGYGFAAGSGFL 169
YGKK+GP GYG+ G+G L
Sbjct: 62 YGKKYGPKGYGYGQGAGTL 80
Score = 80.9 bits (200), Expect = 6e-20
Identities = 35/75 (46%), Positives = 45/75 (60%), Gaps = 3/75 (4%)
Query: 194 MARKGEG--CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCK 251
M G G C CG V+ AE+ G +H+ CF C VC++ LDS D E+YCK
Sbjct: 1 MPNWGGGNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIH-DAEVYCK 59
Query: 252 ACYGKNFGPKGFGYG 266
+CYGK +GPKG+GYG
Sbjct: 60 SCYGKKYGPKGYGYG 74
>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 = 82.4 bits (204), Expect = 1e-20
Identities = 26/71 (36%), Positives = 37/71 (52%), Gaps = 2/71 (2%)
Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCK-ACYGKNFG 259
CP+C V+ AE+ + G WH+ C C C + L S + + + YC CY FG
Sbjct: 3 CPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEH-EGKPYCNHPCYSAMFG 61
Query: 260 PKGFGYGHSPT 270
PKGFG G + +
Sbjct: 62 PKGFGRGGAES 72
Score = 81.6 bits (202), Expect = 3e-20
Identities = 27/67 (40%), Positives = 36/67 (53%), Gaps = 2/67 (2%)
Query: 98 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCK-TCYGKKWG 156
CP+C V+ AE+V + G +WHR C KC C KTL S + + YC CY +G
Sbjct: 3 CPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEH-EGKPYCNHPCYSAMFG 61
Query: 157 PHGYGFA 163
P G+G
Sbjct: 62 PKGFGRG 68
>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 = 78.7 bits (194), Expect = 6e-19
Identities = 24/83 (28%), Positives = 34/83 (40%), Gaps = 2/83 (2%)
Query: 86 DTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDI 145
K +A + C C V+ E++LA +H CF+C CN L I
Sbjct: 6 SGMKFQAPARETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGT-YASLHGRI 64
Query: 146 YCKTCYGKKWGPHG-YGFAAGSG 167
YCK + + + G Y GSG
Sbjct: 65 YCKPHFNQLFKSKGNYDEGFGSG 87
Score = 78.4 bits (193), Expect = 7e-19
Identities = 24/87 (27%), Positives = 34/87 (39%), Gaps = 4/87 (4%)
Query: 187 NPNTTSIMARKGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDK 246
+ A E C C V+ E+ LA ++H CF C+ C L
Sbjct: 4 GSSGMKFQAPARETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLG-TYASLHG 62
Query: 247 EIYCKACYGKNFGPKG---FGYGHSPT 270
IYCK + + F KG G+G P+
Sbjct: 63 RIYCKPHFNQLFKSKGNYDEGFGSGPS 89
>2xjy_A Rhombotin-2; oncoprotein, T-cell leukemia, proto-oncogene,
transcription, developmental protein; 2.40A {Homo
sapiens} PDB: 2xjz_A
Length = 131
Score = 72.9 bits (179), Expect = 2e-16
Identities = 28/170 (16%), Positives = 45/170 (26%), Gaps = 48/170 (28%)
Query: 98 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINA-CDGPDKDIYCKTCYGKKWG 156
C C + + A WH C C C L + C+ Y + +G
Sbjct: 5 CGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLFG 64
Query: 157 PHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQL- 215
G C C + A E +
Sbjct: 65 QDGL----------------------------------------CASCDKRIRAYEMTMR 84
Query: 216 AKGTMWHKQCFSCNVCKRPL---DSVLACDGPDKEIYCKACYGKNFGPKG 262
K ++H +CF C C++ D L + +I C+ + G
Sbjct: 85 VKDKVYHLECFKCAACQKHFCVGDRYLLINS---DIVCEQDIYEWTKING 131
Score = 46.7 bits (111), Expect = 7e-07
Identities = 15/60 (25%), Positives = 22/60 (36%), Gaps = 1/60 (1%)
Query: 93 APGKGCPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 151
C C + A E + K +H +CFKC C K + + DI C+
Sbjct: 64 GQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVCEQDI 123
>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 = 74.3 bits (182), Expect = 3e-16
Identities = 37/187 (19%), Positives = 61/187 (32%), Gaps = 42/187 (22%)
Query: 95 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTL-DSINACDGPDKDIYCKTCYGK 153
K C CGG + + A S WH +C KC C L D + I C+ Y +
Sbjct: 5 WKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIR 64
Query: 154 KWGPHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQ 213
+G G C CG ++ A+E
Sbjct: 65 LFGNSGA----------------------------------------CSACGQSIPASEL 84
Query: 214 QL-AKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFGYGHSPTLV 272
+ A+G ++H +CF+C+ C+ L + ++C+ G S
Sbjct: 85 VMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPTALINGHLNSGGSGGSG 144
Query: 273 STSGEST 279
+ G+
Sbjct: 145 GSGGDVM 151
>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 = 69.4 bits (170), Expect = 1e-15
Identities = 23/64 (35%), Positives = 33/64 (51%), Gaps = 2/64 (3%)
Query: 98 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYC-KTCYGKKWG 156
CP+C V+ AE+V + G +WH+ C KC C+KTL + D +C K CY +G
Sbjct: 12 CPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAE-HDGKPFCHKPCYATLFG 70
Query: 157 PHGY 160
Sbjct: 71 SGPS 74
Score = 68.2 bits (167), Expect = 3e-15
Identities = 21/63 (33%), Positives = 28/63 (44%), Gaps = 2/63 (3%)
Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYC-KACYGKNFG 259
CP+C V+ AE+ + G WHK C C C + L D + +C K CY FG
Sbjct: 12 CPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPG-GHAEHDGKPFCHKPCYATLFG 70
Query: 260 PKG 262
Sbjct: 71 SGP 73
>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 = 71.0 bits (174), Expect = 2e-15
Identities = 39/180 (21%), Positives = 54/180 (30%), Gaps = 56/180 (31%)
Query: 98 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGP 157
C C + + A WH KC KC DC+ L C + +YCK + K++G
Sbjct: 9 CAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLA--ERCFSRGESVYCKDDFFKRFGT 66
Query: 158 HGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQL-A 216
C C + + A
Sbjct: 67 K------------------------------------------CAACQLGIPPTQVVRRA 84
Query: 217 KGTMWHKQCFSCNVCKRPLDSVLACDG------PDKEIYCKACYGKNFGPKGFGYGHSPT 270
+ ++H CF+C VCKR L G D + CKA Y G G S
Sbjct: 85 QDFVYHLHCFACVVCKRQL-----ATGDEFYLMEDSRLVCKADYETAKQGGSGGSGGSGG 139
Score = 46.0 bits (109), Expect = 2e-06
Identities = 22/140 (15%), Positives = 33/140 (23%), Gaps = 45/140 (32%)
Query: 95 GKGCPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTLDSINA-CDGPDKDIYCKTCYG 152
G C C + + V A+ +H CF C C + L + + D + CK Y
Sbjct: 65 GTKCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADY- 123
Query: 153 KKWGPHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAE 212
K G GG+
Sbjct: 124 -----------------------------------------ETAKQGGSGGSGGSG-GGT 141
Query: 213 QQLAKGTMWHKQCFSCNVCK 232
+A H N +
Sbjct: 142 PMVAASPERHDGGLQANPVE 161
>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 = 67.7 bits (165), Expect = 5e-15
Identities = 19/76 (25%), Positives = 27/76 (35%), Gaps = 1/76 (1%)
Query: 87 TAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSIN-ACDGPDKDI 145
+A G C CG ++ E++ G +HR CF+C C TL D
Sbjct: 7 GQHQEAGAGDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHF 66
Query: 146 YCKTCYGKKWGPHGYG 161
YC + G
Sbjct: 67 YCLQHLPQTDSGPSSG 82
Score = 63.4 bits (154), Expect = 2e-13
Identities = 16/68 (23%), Positives = 25/68 (36%), Gaps = 1/68 (1%)
Query: 198 GEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSV-LACDGPDKEIYCKACYGK 256
G+ C CG ++ E+ G +H+ CF C+ C+ L D YC +
Sbjct: 15 GDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQHLPQ 74
Query: 257 NFGPKGFG 264
G
Sbjct: 75 TDSGPSSG 82
>2xqn_T Testin, TESS; metal-binding protein, cytoskeleton, focal adhesion,
acrosom; 2.62A {Homo sapiens}
Length = 126
Score = 65.5 bits (160), Expect = 9e-14
Identities = 32/166 (19%), Positives = 48/166 (28%), Gaps = 51/166 (30%)
Query: 98 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGP 157
C C ++F+ E A+ WH K F C DC+ L + CK CY K
Sbjct: 6 CAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAG-EIYVMVNDKPVCKPCYVKNHAV 64
Query: 158 HGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQL-A 216
C C A+ Q++
Sbjct: 65 V------------------------------------------CQGCHNAIDPEVQRVTY 82
Query: 217 KGTMWH--KQCFSCNVCKRPL--DSVLACDGPDKEIYCKACYGKNF 258
WH +CF C+ C + L + +G ++C K
Sbjct: 83 NNFSWHASTECFLCSCCSKCLIGQKFMPVEG---MVFCSVECKKRM 125
Score = 53.2 bits (128), Expect = 3e-09
Identities = 17/61 (27%), Positives = 23/61 (37%), Gaps = 1/61 (1%)
Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGP 260
C C +F+ E A+ WH + F C C L + + CK CY KN
Sbjct: 6 CAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAGE-IYVMVNDKPVCKPCYVKNHAV 64
Query: 261 K 261
Sbjct: 65 V 65
Score = 37.0 bits (86), Expect = 0.001
Identities = 13/67 (19%), Positives = 21/67 (31%), Gaps = 12/67 (17%)
Query: 95 GKGCPRCGGVVFAAEQVL-AKGSEWH--RKCFKCRDCNKTLDSINACDGP----DKDIYC 147
C C + Q + WH +CF C C+K L + ++C
Sbjct: 63 AVVCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLI-----GQKFMPVEGMVFC 117
Query: 148 KTCYGKK 154
K+
Sbjct: 118 SVECKKR 124
>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 = 66.1 bits (161), Expect = 2e-13
Identities = 36/164 (21%), Positives = 51/164 (31%), Gaps = 56/164 (34%)
Query: 98 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGP 157
C C + + A WH KC KC DC+ L C + +YCK + K++G
Sbjct: 63 CAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLA--ERCFSRGESVYCKDDFFKRFGT 120
Query: 158 HGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQL-A 216
C C + + A
Sbjct: 121 K------------------------------------------CAACQLGIPPTQVVRRA 138
Query: 217 KGTMWHKQCFSCNVCKRPLDSVLACDG------PDKEIYCKACY 254
+ ++H CF+C VCKR L G D + CKA Y
Sbjct: 139 QDFVYHLHCFACVVCKRQL-----ATGDEFYLMEDSRLVCKADY 177
Score = 49.5 bits (118), Expect = 2e-07
Identities = 18/61 (29%), Positives = 24/61 (39%), Gaps = 2/61 (3%)
Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGP 260
C C + A WH +C C+ C PL C + +YCK + K FG
Sbjct: 63 CAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAER--CFSRGESVYCKDDFFKRFGT 120
Query: 261 K 261
K
Sbjct: 121 K 121
Score = 44.1 bits (104), Expect = 1e-05
Identities = 16/61 (26%), Positives = 23/61 (37%), Gaps = 6/61 (9%)
Query: 95 GKGCPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTL---DSINACDGPDKDIYCKTC 150
G C C + + V A+ +H CF C C + L D + D + CK
Sbjct: 119 GTKCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLME--DSRLVCKAD 176
Query: 151 Y 151
Y
Sbjct: 177 Y 177
>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 = 62.4 bits (152), Expect = 5e-13
Identities = 20/62 (32%), Positives = 32/62 (51%), Gaps = 2/62 (3%)
Query: 201 CPRCGGAVFAAEQQL-AKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFG 259
C C A+ A +Q + KGT+WHK CF+C+ CK+ + + ++ YC C+ F
Sbjct: 18 CKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFP-KGEDFYCVTCHETKFA 76
Query: 260 PK 261
Sbjct: 77 SG 78
Score = 60.1 bits (146), Expect = 3e-12
Identities = 18/62 (29%), Positives = 31/62 (50%), Gaps = 2/62 (3%)
Query: 98 CPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWG 156
C C + A +Q + KG+ WH+ CF C +C + + + + +D YC TC+ K+
Sbjct: 18 CKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFP-KGEDFYCVTCHETKFA 76
Query: 157 PH 158
Sbjct: 77 SG 78
>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 = 62.0 bits (151), Expect = 6e-13
Identities = 20/62 (32%), Positives = 27/62 (43%), Gaps = 2/62 (3%)
Query: 201 CPRCGGAVFAAEQQL-AKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFG 259
C CG V ++L G WH+ CF C+ C++PL S + YC CY F
Sbjct: 8 CSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSR-SFVPDKGAHYCVPCYENKFA 66
Query: 260 PK 261
Sbjct: 67 SG 68
Score = 59.7 bits (145), Expect = 3e-12
Identities = 19/62 (30%), Positives = 23/62 (37%), Gaps = 2/62 (3%)
Query: 98 CPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWG 156
C CG V + L G WH CF C C + L S + YC CY K+
Sbjct: 8 CSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVP-DKGAHYCVPCYENKFA 66
Query: 157 PH 158
Sbjct: 67 SG 68
>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 = 60.9 bits (148), Expect = 1e-12
Identities = 16/62 (25%), Positives = 30/62 (48%), Gaps = 2/62 (3%)
Query: 201 CPRCGGAVFAAEQQL-AKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFG 259
C C + +++ KG+ WH+ CF C+ C++P+ + + D + +C CY K
Sbjct: 8 CQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTK-SFIPKDNQNFCVPCYEKQHA 66
Query: 260 PK 261
Sbjct: 67 SG 68
Score = 56.2 bits (136), Expect = 6e-11
Identities = 16/61 (26%), Positives = 25/61 (40%), Gaps = 2/61 (3%)
Query: 98 CPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWG 156
C C + + + KGS WH CF C C + + + + D +C CY K+
Sbjct: 8 CQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIP-KDNQNFCVPCYEKQHA 66
Query: 157 P 157
Sbjct: 67 S 67
>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 = 60.1 bits (145), Expect = 1e-11
Identities = 18/81 (22%), Positives = 28/81 (34%), Gaps = 1/81 (1%)
Query: 180 SANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPL-DSV 238
S + + C CGG + A + WH +C C+ C+ L D
Sbjct: 43 SKLGGGGSGGHMGSGGLSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIG 102
Query: 239 LACDGPDKEIYCKACYGKNFG 259
+ I C+ Y + FG
Sbjct: 103 TSSYTKSGMILCRNDYIRLFG 123
Score = 57.1 bits (137), Expect = 1e-10
Identities = 19/67 (28%), Positives = 26/67 (38%), Gaps = 1/67 (1%)
Query: 91 KAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTL-DSINACDGPDKDIYCKT 149
K C CGG + + A S WH +C KC C L D + I C+
Sbjct: 57 GGLSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRN 116
Query: 150 CYGKKWG 156
Y + +G
Sbjct: 117 DYIRLFG 123
>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 = 59.0 bits (143), Expect = 1e-11
Identities = 30/136 (22%), Positives = 41/136 (30%), Gaps = 45/136 (33%)
Query: 98 CPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWG 156
C C + A + + K WH CF+C C L + D I C C ++
Sbjct: 8 CVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLAN-ETFVAKDNKILCNKCTTREDS 66
Query: 157 PHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQL- 215
P C C A+ A +Q +
Sbjct: 67 PK------------------------------------------CKGCFKAIVAGDQNVE 84
Query: 216 AKGTMWHKQCFSCNVC 231
KGT+WHK CFS
Sbjct: 85 YKGTVWHKDCFSGPSS 100
Score = 51.6 bits (124), Expect = 6e-09
Identities = 18/62 (29%), Positives = 25/62 (40%), Gaps = 2/62 (3%)
Query: 201 CPRCGGAVFAAEQQL-AKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFG 259
C C + A +++ K WH CF C C PL + D +I C C +
Sbjct: 8 CVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLAN-ETFVAKDNKILCNKCTTREDS 66
Query: 260 PK 261
PK
Sbjct: 67 PK 68
>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 = 57.8 bits (140), Expect = 2e-11
Identities = 17/61 (27%), Positives = 21/61 (34%), Gaps = 2/61 (3%)
Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGP 260
C C + + LA WH CF C C L D YC++ Y FG
Sbjct: 18 CAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVILTG--EYISKDGVPYCESDYHAQFGS 75
Query: 261 K 261
Sbjct: 76 G 76
Score = 56.3 bits (136), Expect = 8e-11
Identities = 17/60 (28%), Positives = 27/60 (45%), Gaps = 2/60 (3%)
Query: 98 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGP 157
C C + + +LA +WH CFKC+ C+ L D YC++ Y ++G
Sbjct: 18 CAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVILT--GEYISKDGVPYCESDYHAQFGS 75
>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 = 57.4 bits (139), Expect = 3e-11
Identities = 18/61 (29%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 201 CPRCGGAVFAAEQQL-AKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFG 259
C RC G AE+ + + G ++H+QCF C C + L + + YC+ + F
Sbjct: 14 CERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYE-FEGRKYCEHDFQMLFA 72
Query: 260 P 260
P
Sbjct: 73 P 73
Score = 53.6 bits (129), Expect = 6e-10
Identities = 15/61 (24%), Positives = 27/61 (44%), Gaps = 2/61 (3%)
Query: 98 CPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWG 156
C RC G AE+++ + G +H +CF C C + + + YC+ + +
Sbjct: 14 CERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYE-FEGRKYCEHDFQMLFA 72
Query: 157 P 157
P
Sbjct: 73 P 73
>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 = 54.7 bits (132), Expect = 2e-10
Identities = 18/62 (29%), Positives = 28/62 (45%), Gaps = 6/62 (9%)
Query: 201 CPRCGGAVFAAEQQL-AKGTMWHKQCFSCNVCKRPLDSVL--ACDGPDKEIYCKACYGKN 257
C RC G AE+ + + G ++H+QCF C C + L +G YC+ +
Sbjct: 14 CERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEG---RKYCEHDFQML 70
Query: 258 FG 259
F
Sbjct: 71 FA 72
Score = 51.6 bits (124), Expect = 3e-09
Identities = 15/60 (25%), Positives = 25/60 (41%), Gaps = 6/60 (10%)
Query: 98 CPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTLDSIN--ACDGPDKDIYCKTCYGKK 154
C RC G AE+++ + G +H +CF C C + +G YC+ +
Sbjct: 14 CERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEG---RKYCEHDFQML 70
>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 = 54.7 bits (132), Expect = 3e-10
Identities = 17/62 (27%), Positives = 27/62 (43%), Gaps = 3/62 (4%)
Query: 201 CPRCGGAVFAAEQQL-AKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFG 259
C C + ++ L A G +H CF+C VC R LD + +I+C + + F
Sbjct: 18 CATCSQPI--LDRILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIEDFHRKFA 75
Query: 260 PK 261
Sbjct: 76 SG 77
Score = 51.6 bits (124), Expect = 4e-09
Identities = 16/61 (26%), Positives = 27/61 (44%), Gaps = 3/61 (4%)
Query: 98 CPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWG 156
C C + +++L A G +H CF C C++ LD I I+C + +K+
Sbjct: 18 CATCSQPI--LDRILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIEDFHRKFA 75
Query: 157 P 157
Sbjct: 76 S 76
>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 = 53.3 bits (128), Expect = 1e-09
Identities = 16/62 (25%), Positives = 24/62 (38%), Gaps = 2/62 (3%)
Query: 201 CPRCGGAVFAAEQQL-AKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFG 259
C C + ++L + +H+ CF C C+R L D E+ C CY F
Sbjct: 18 CAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSLADE-PFTCQDSELLCNDCYCSAFS 76
Query: 260 PK 261
Sbjct: 77 SG 78
Score = 48.6 bits (116), Expect = 5e-08
Identities = 13/61 (21%), Positives = 24/61 (39%), Gaps = 2/61 (3%)
Query: 98 CPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWG 156
C C ++ + L + +H CF+C C ++L D ++ C CY +
Sbjct: 18 CAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSLAD-EPFTCQDSELLCNDCYCSAFS 76
Query: 157 P 157
Sbjct: 77 S 77
>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 = 51.2 bits (123), Expect = 3e-09
Identities = 15/64 (23%), Positives = 22/64 (34%), Gaps = 2/64 (3%)
Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGP 260
C +C A+ + + WH CF C C + L + + YC CY
Sbjct: 8 CVKCNKAITS-GGITYQDQPWHADCFVCVTCSKKLAGQ-RFTAVEDQYYCVDCYKNFVSG 65
Query: 261 KGFG 264
G
Sbjct: 66 PSSG 69
Score = 50.1 bits (120), Expect = 1e-08
Identities = 15/64 (23%), Positives = 22/64 (34%), Gaps = 2/64 (3%)
Query: 98 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGP 157
C +C + + + + WH CF C C+K L + YC CY
Sbjct: 8 CVKCNKAITS-GGITYQDQPWHADCFVCVTCSKKLAG-QRFTAVEDQYYCVDCYKNFVSG 65
Query: 158 HGYG 161
G
Sbjct: 66 PSSG 69
>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 = 50.8 bits (122), Expect = 5e-09
Identities = 14/61 (22%), Positives = 22/61 (36%), Gaps = 2/61 (3%)
Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGP 260
C +C + + WHK+CF C C++ L D YC C+ +
Sbjct: 8 CVQCKKPITTGGVT-YREQPWHKECFVCTACRKQLSGQ-RFTARDDFAYCLNCFCDLYAS 65
Query: 261 K 261
Sbjct: 66 G 66
Score = 49.3 bits (118), Expect = 2e-08
Identities = 15/60 (25%), Positives = 22/60 (36%), Gaps = 2/60 (3%)
Query: 98 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGP 157
C +C + V + WH++CF C C K L D YC C+ +
Sbjct: 8 CVQCKKPITT-GGVTYREQPWHKECFVCTACRKQLSG-QRFTARDDFAYCLNCFCDLYAS 65
>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 = 51.2 bits (122), Expect = 1e-08
Identities = 15/60 (25%), Positives = 22/60 (36%), Gaps = 1/60 (1%)
Query: 93 APGKGCPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 151
C C + A E + K +H +CFKC C K + + DI C+
Sbjct: 6 GQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFSVGDRYLLINSDIVCEQDI 65
Score = 49.7 bits (118), Expect = 5e-08
Identities = 12/55 (21%), Positives = 22/55 (40%), Gaps = 1/55 (1%)
Query: 201 CPRCGGAVFAAEQQL-AKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACY 254
C C + A E + K ++H +CF C C++ + +I C+
Sbjct: 11 CASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFSVGDRYLLINSDIVCEQDI 65
>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 = 50.8 bits (121), Expect = 2e-08
Identities = 19/71 (26%), Positives = 28/71 (39%), Gaps = 1/71 (1%)
Query: 198 GEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPL-DSVLACDGPDKEIYCKACYGK 256
+ C CGG + A + WH +C C+ C+ L D + I C+ Y +
Sbjct: 5 WKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIR 64
Query: 257 NFGPKGFGYGH 267
FG G G
Sbjct: 65 LFGNSGAGGSG 75
Score = 49.2 bits (117), Expect = 7e-08
Identities = 21/68 (30%), Positives = 28/68 (41%), Gaps = 1/68 (1%)
Query: 95 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTL-DSINACDGPDKDIYCKTCYGK 153
K C CGG + + A S WH +C KC C L D + I C+ Y +
Sbjct: 5 WKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIR 64
Query: 154 KWGPHGYG 161
+G G G
Sbjct: 65 LFGNSGAG 72
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 53.1 bits (127), Expect = 4e-08
Identities = 45/272 (16%), Positives = 75/272 (27%), Gaps = 114/272 (41%)
Query: 8 SFNQYADRIYSVRFILGLK-----PSGNV--------IYRN----SPRSVVKDLRSG--- 47
SF + +V F +G++ P+ ++ + N SP + +L
Sbjct: 291 SFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQ 350
Query: 48 DRVSRVNIRKKRPPDEGV-ISLIYIFFCRENNAPRTTVI----------DTA--KIKAAP 94
D V++ N P + V ISL+ N + V+ + K KA
Sbjct: 351 DYVNKTN--SHLPAGKQVEISLV--------NGAKNLVVSGPPQSLYGLNLTLRKAKAPS 400
Query: 95 G-----------KGCPRCGGVVF--------------AAEQVLA----KGSEWHRKCFKC 125
G K + F A++ + ++ K +
Sbjct: 401 GLDQSRIPFSERK--LK-FSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQI 457
Query: 126 -----------RDCNKTLDSINACDGPDKDIYCKTCYGKKW--------------GPHGY 160
R + ++ D I W GP
Sbjct: 458 PVYDTFDGSDLRVLSGSISE-RIVD----CIIRLPVK---WETTTQFKATHILDFGP--- 506
Query: 161 GFAAGSGFL---QTDGLTEDEISANRPFYNPN 189
G A+G G L DG I A NP+
Sbjct: 507 GGASGLGVLTHRNKDGTGVRVIVAGTLDINPD 538
>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 = 48.2 bits (115), Expect = 5e-08
Identities = 15/59 (25%), Positives = 23/59 (38%), Gaps = 2/59 (3%)
Query: 201 CPRCGGAVFAAEQQL-AKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNF 258
C CG V + A ++H CF C+ C+ L ++ YC+ CY
Sbjct: 8 CGGCGEDVVGDGAGVVALDRVFHVGCFVCSTCRAQLRGQ-HFYAVERRAYCEGCYVATL 65
Score = 47.1 bits (112), Expect = 1e-07
Identities = 16/64 (25%), Positives = 22/64 (34%), Gaps = 3/64 (4%)
Query: 92 AAPGKG-CPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKT 149
+ G C CG V + A +H CF C C L ++ YC+
Sbjct: 1 GSSGSSGCGGCGEDVVGDGAGVVALDRVFHVGCFVCSTCRAQLRG-QHFYAVERRAYCEG 59
Query: 150 CYGK 153
CY
Sbjct: 60 CYVA 63
>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 = 47.7 bits (114), Expect = 6e-08
Identities = 15/60 (25%), Positives = 21/60 (35%), Gaps = 2/60 (3%)
Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGP 260
C C + A G WH + F C C++P YC+ Y + FG
Sbjct: 8 CGACRRPI-EGRVVNAMGKQWHVEHFVCAKCEKPFLGH-RHYERKGLAYCETHYNQLFGD 65
Score = 46.5 bits (111), Expect = 2e-07
Identities = 16/60 (26%), Positives = 23/60 (38%), Gaps = 2/60 (3%)
Query: 98 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGP 157
C C + V A G +WH + F C C K + YC+T Y + +G
Sbjct: 8 CGACRRPI-EGRVVNAMGKQWHVEHFVCAKCEKPFLGHRHYE-RKGLAYCETHYNQLFGD 65
>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 = 47.9 bits (114), Expect = 8e-08
Identities = 16/66 (24%), Positives = 24/66 (36%), Gaps = 4/66 (6%)
Query: 95 GKGCPRCG---GVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 151
GC C + + + + +WH CF C+ C+ +L DI C C
Sbjct: 5 SSGCAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVG-RGFLTERDDILCPDCG 63
Query: 152 GKKWGP 157
GP
Sbjct: 64 KDISGP 69
Score = 47.5 bits (113), Expect = 1e-07
Identities = 14/64 (21%), Positives = 18/64 (28%), Gaps = 4/64 (6%)
Query: 201 CPRCGGAVFAAEQQ---LAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKN 257
C C + + WH CF+C C L +I C C
Sbjct: 8 CAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVGR-GFLTERDDILCPDCGKDI 66
Query: 258 FGPK 261
GP
Sbjct: 67 SGPS 70
>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 = 47.7 bits (114), Expect = 8e-08
Identities = 17/65 (26%), Positives = 26/65 (40%), Gaps = 10/65 (15%)
Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGP----DKEIYCKACYGK 256
C RC + + WH++C C C+ PL D++ YC AC+G+
Sbjct: 18 CARCSKTLTQGGVT-YRDQPWHRECLVCTGCQTPLA-----GQQFTSRDEDPYCVACFGE 71
Query: 257 NFGPK 261
F
Sbjct: 72 LFASG 76
Score = 46.2 bits (110), Expect = 3e-07
Identities = 17/60 (28%), Positives = 24/60 (40%), Gaps = 2/60 (3%)
Query: 98 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGP 157
C RC + V + WHR+C C C L D+D YC C+G+ +
Sbjct: 18 CARCSKTLTQ-GGVTYRDQPWHRECLVCTGCQTPLAG-QQFTSRDEDPYCVACFGELFAS 75
>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 = 47.1 bits (112), Expect = 2e-07
Identities = 17/88 (19%), Positives = 29/88 (32%), Gaps = 8/88 (9%)
Query: 180 SANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQL-AKGTMWHKQCFSCNVCKRPLDSV 238
P + + A++ C +CG + + A+ H +CF C C L
Sbjct: 7 GVRAPVTKVHGGAGSAQRMPLCDKCGSGI--VGAVVKARDKYRHPECFVCADCNLNLKQK 64
Query: 239 --LACDGPDKEIYCKACYGKNFGPKGFG 264
+G E+YC+ G
Sbjct: 65 GYFFVEG---ELYCETHARARTSGPSSG 89
Score = 44.8 bits (106), Expect = 1e-06
Identities = 16/60 (26%), Positives = 24/60 (40%), Gaps = 2/60 (3%)
Query: 98 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGP 157
C +CG + V A+ H +CF C DCN L + +YC+T +
Sbjct: 28 CDKCGSGI-VGAVVKARDKYRHPECFVCADCNLNLKQKGYFFVEGE-LYCETHARARTSG 85
>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 = 46.3 bits (110), Expect = 2e-07
Identities = 13/61 (21%), Positives = 23/61 (37%), Gaps = 2/61 (3%)
Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGP 260
C +CG + A WH +CF C++C+ L + C+ C+ +
Sbjct: 8 CHQCGEFIIG-RVIKAMNNSWHPECFRCDLCQEVLADIGFVK-NAGRHLCRPCHNREKAS 65
Query: 261 K 261
Sbjct: 66 G 66
Score = 44.7 bits (106), Expect = 7e-07
Identities = 14/59 (23%), Positives = 25/59 (42%), Gaps = 2/59 (3%)
Query: 98 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWG 156
C +CG + + A + WH +CF+C C + L I C+ C+ ++
Sbjct: 8 CHQCGEFIIG-RVIKAMNNSWHPECFRCDLCQEVLADIGFVK-NAGRHLCRPCHNREKA 64
>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 = 47.0 bits (111), Expect = 3e-07
Identities = 13/65 (20%), Positives = 19/65 (29%), Gaps = 1/65 (1%)
Query: 98 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINA-CDGPDKDIYCKTCYGKKWG 156
C C + + A WH C C C L + C+ Y + G
Sbjct: 6 CGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLGG 65
Query: 157 PHGYG 161
G+
Sbjct: 66 SGGHM 70
Score = 44.7 bits (105), Expect = 2e-06
Identities = 16/75 (21%), Positives = 23/75 (30%), Gaps = 1/75 (1%)
Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLA-CDGPDKEIYCKACYGKNFG 259
C C + A WH+ C SC++C L V C+ Y + G
Sbjct: 6 CGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLGG 65
Query: 260 PKGFGYGHSPTLVST 274
G +V
Sbjct: 66 SGGHMGSGGDVMVVG 80
Score = 26.9 bits (59), Expect = 3.7
Identities = 11/70 (15%), Positives = 16/70 (22%), Gaps = 4/70 (5%)
Query: 72 FFCRENNAPRTTVIDTAKIKAAPGKGCPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNK 130
+ + R G G V+ E L + R N
Sbjct: 47 LYYKLG---RKLCRRDYLRLGGSGGHMGSGGDVMVVGEPTLMGGEFGDEDERLITRLENT 103
Query: 131 TLDSINACDG 140
D+ N D
Sbjct: 104 QFDAANGIDD 113
>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 = 45.9 bits (109), Expect = 4e-07
Identities = 17/63 (26%), Positives = 24/63 (38%), Gaps = 5/63 (7%)
Query: 95 GKGCPRCG----GVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTC 150
K C C G + V +G WH CF C+ C+ L + + +YC C
Sbjct: 15 AKKCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLAN-KRFVFHQEQVYCPDC 73
Query: 151 YGK 153
K
Sbjct: 74 AKK 76
Score = 42.9 bits (101), Expect = 5e-06
Identities = 14/60 (23%), Positives = 21/60 (35%), Gaps = 5/60 (8%)
Query: 201 CPRCGGAVFAAEQQL----AKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGK 256
C C + + +G WH CF C C L + +++YC C K
Sbjct: 18 CAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANK-RFVFHQEQVYCPDCAKK 76
>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 = 45.9 bits (109), Expect = 4e-07
Identities = 17/60 (28%), Positives = 26/60 (43%), Gaps = 2/60 (3%)
Query: 98 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGP 157
C C V+ ++A G WH + F C C T+ I + +YC+ CY K +
Sbjct: 28 CAHCNQVI-RGPFLVALGKSWHPEEFNCAHCKNTMAYIGFVE-EKGALYCELCYEKFFAS 85
Score = 45.9 bits (109), Expect = 5e-07
Identities = 16/61 (26%), Positives = 25/61 (40%), Gaps = 2/61 (3%)
Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGP 260
C C + +A G WH + F+C CK + + + +YC+ CY K F
Sbjct: 28 CAHCNQVI-RGPFLVALGKSWHPEEFNCAHCKNTMAYIGFVE-EKGALYCELCYEKFFAS 85
Query: 261 K 261
Sbjct: 86 G 86
>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 = 1e-06
Identities = 16/65 (24%), Positives = 20/65 (30%), Gaps = 10/65 (15%)
Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGP----DKEIYCKACYGK 256
C C V A T+WH +CF C C G D +C+ Y
Sbjct: 18 CGGCNRPVLE-NYLSAMDTVWHPECFVCGDCFTSFS-----TGSFFELDGRPFCELHYHH 71
Query: 257 NFGPK 261
G
Sbjct: 72 RRGSG 76
Score = 43.1 bits (102), Expect = 5e-06
Identities = 16/67 (23%), Positives = 23/67 (34%), Gaps = 10/67 (14%)
Query: 95 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGP----DKDIYCKTC 150
C C V + A + WH +CF C DC + G D +C+
Sbjct: 15 SPKCGGCNRPVLE-NYLSAMDTVWHPECFVCGDCFTSFS-----TGSFFELDGRPFCELH 68
Query: 151 YGKKWGP 157
Y + G
Sbjct: 69 YHHRRGS 75
>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 = 44.8 bits (106), Expect = 1e-06
Identities = 15/57 (26%), Positives = 20/57 (35%), Gaps = 1/57 (1%)
Query: 95 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 151
G C C + E V A G +H CF C C + K+ C+ C
Sbjct: 15 GTRCFSCDQFI-EGEVVSALGKTYHPDCFVCAVCRLPFPPGDRVTFNGKECMCQKCS 70
Score = 41.7 bits (98), Expect = 1e-05
Identities = 16/54 (29%), Positives = 20/54 (37%), Gaps = 1/54 (1%)
Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACY 254
C C + E A G +H CF C VC+ P KE C+ C
Sbjct: 18 CFSCDQFI-EGEVVSALGKTYHPDCFVCAVCRLPFPPGDRVTFNGKECMCQKCS 70
>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 = 43.6 bits (103), Expect = 2e-06
Identities = 14/69 (20%), Positives = 22/69 (31%), Gaps = 3/69 (4%)
Query: 91 KAAPGKGCPRCG--GVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCK 148
+ P C G V + H +C+ C DC L D+ IYC+
Sbjct: 8 SIGNAQKLPMCDKCGTGIVGVFVKLRDRHRHPECYVCTDCGTNLKQKGHFFVEDQ-IYCE 66
Query: 149 TCYGKKWGP 157
++
Sbjct: 67 KHARERVSG 75
Score = 42.0 bits (99), Expect = 1e-05
Identities = 11/62 (17%), Positives = 21/62 (33%), Gaps = 4/62 (6%)
Query: 201 CPRCGGAVFAAEQQL-AKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFG 259
C +CG + + + H +C+ C C L + +IYC+ +
Sbjct: 18 CDKCGTGI--VGVFVKLRDRHRHPECYVCTDCGTNLKQKGHFFV-EDQIYCEKHARERVS 74
Query: 260 PK 261
Sbjct: 75 GP 76
>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 = 5e-06
Identities = 16/62 (25%), Positives = 28/62 (45%), Gaps = 4/62 (6%)
Query: 95 GKGCPRCG---GVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 151
GC C + A+ + + S+WH +CF C C+ +L +K+I+C+ C
Sbjct: 5 SSGCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVG-KGFLTQNKEIFCQKCG 63
Query: 152 GK 153
Sbjct: 64 SG 65
Score = 40.2 bits (94), Expect = 4e-05
Identities = 14/59 (23%), Positives = 22/59 (37%), Gaps = 4/59 (6%)
Query: 201 CPRCGGAVFAAEQQL---AKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGK 256
C C + + + WH +CF+C C L +KEI+C+ C
Sbjct: 8 CVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVGK-GFLTQNKEIFCQKCGSG 65
>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 = 42.5 bits (100), Expect = 7e-06
Identities = 15/67 (22%), Positives = 25/67 (37%), Gaps = 2/67 (2%)
Query: 196 RKGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPL-DSVLACDGPDKEIYCKACY 254
+ GE C C + +A +H +CF+C CK + D +YC C+
Sbjct: 13 KFGEFCHGCSLLM-TGPFMVAGEFKYHPECFACMSCKVIIEDGDAYALVQHATLYCGKCH 71
Query: 255 GKNFGPK 261
+
Sbjct: 72 NEVVSGP 78
Score = 40.9 bits (96), Expect = 2e-05
Identities = 14/68 (20%), Positives = 28/68 (41%), Gaps = 2/68 (2%)
Query: 95 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINA-CDGPDKDIYCKTCYGK 153
G+ C C ++ ++A ++H +CF C C ++ +A +YC C+ +
Sbjct: 15 GEFCHGCSLLM-TGPFMVAGEFKYHPECFACMSCKVIIEDGDAYALVQHATLYCGKCHNE 73
Query: 154 KWGPHGYG 161
G
Sbjct: 74 VVSGPSSG 81
>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 = 41.3 bits (97), Expect = 2e-05
Identities = 13/56 (23%), Positives = 25/56 (44%), Gaps = 3/56 (5%)
Query: 98 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGK 153
C +C ++ + ++ K +H F C +C K L + ++YC C+ K
Sbjct: 18 CQKCHAII-DEQPLIFKNDPYHPDHFNCANCGKELTAD--ARELKGELYCLPCHDK 70
Score = 40.9 bits (96), Expect = 2e-05
Identities = 15/65 (23%), Positives = 25/65 (38%), Gaps = 4/65 (6%)
Query: 196 RKGEGCPRCGG--AVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKAC 253
+G G C A+ + + K +H F+C C + L + E+YC C
Sbjct: 10 ARGLGKYICQKCHAIIDEQPLIFKNDPYHPDHFNCANCGKELTAD--ARELKGELYCLPC 67
Query: 254 YGKNF 258
+ K
Sbjct: 68 HDKMG 72
>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 = 35.5 bits (81), Expect = 0.002
Identities = 10/63 (15%), Positives = 17/63 (26%), Gaps = 1/63 (1%)
Query: 92 AAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 151
++ GC C + + A +H C C C + I+ C
Sbjct: 2 SSGSSGCDSCEKYI-TGRVLEAGEKHYHPSCALCVRCGQMFAEGEEMYLQGSSIWHPACR 60
Query: 152 GKK 154
Sbjct: 61 QAA 63
Score = 31.2 bits (70), Expect = 0.062
Identities = 11/57 (19%), Positives = 15/57 (26%), Gaps = 1/57 (1%)
Query: 198 GEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACY 254
GC C + A +H C C C + I+ AC
Sbjct: 5 SSGCDSCEKYI-TGRVLEAGEKHYHPSCALCVRCGQMFAEGEEMYLQGSSIWHPACR 60
>1zfo_A LAsp-1; LIM domain, zinc-finger, metal-binding protein; NMR {Sus
scrofa} SCOP: g.39.1.4
Length = 31
Score = 32.3 bits (73), Expect = 0.011
Identities = 11/26 (42%), Positives = 13/26 (50%)
Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCF 226
C RCG V+ E+ WHK CF
Sbjct: 6 CARCGKIVYPTEKVNCLDKFWHKACF 31
Score = 31.9 bits (72), Expect = 0.012
Identities = 11/28 (39%), Positives = 15/28 (53%)
Query: 96 KGCPRCGGVVFAAEQVLAKGSEWHRKCF 123
C RCG +V+ E+V WH+ CF
Sbjct: 4 PNCARCGKIVYPTEKVNCLDKFWHKACF 31
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 35.0 bits (80), Expect = 0.014
Identities = 15/74 (20%), Positives = 30/74 (40%), Gaps = 15/74 (20%)
Query: 50 VSRVNIRKKRPPDEGVISLIYIFFCRE-NNAPRTTVIDTAKIKAAPGKG---CPRCGGVV 105
++R +I K+ ++++ C E P V +G C CG V+
Sbjct: 2 MTRESIDKRAGRRGPNLNIVLT--CPECKVYPPKIVER-------FSEGDVVCALCGLVL 52
Query: 106 FAAEQVLAKGSEWH 119
+++++ SEW
Sbjct: 53 --SDKLVDTRSEWR 64
>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 = 32.1 bits (73), Expect = 0.023
Identities = 11/38 (28%), Positives = 17/38 (44%), Gaps = 3/38 (7%)
Query: 201 CPRCGGAVFAAEQQLA-KGTMWHK--QCFSCNVCKRPL 235
C C A+ Q++ WH +CF C+ C + L
Sbjct: 5 CQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCL 42
Score = 29.8 bits (67), Expect = 0.16
Identities = 11/40 (27%), Positives = 15/40 (37%), Gaps = 3/40 (7%)
Query: 96 KGCPRCGGVVFAAEQVLA-KGSEWH--RKCFKCRDCNKTL 132
C C + Q + WH +CF C C+K L
Sbjct: 3 VVCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCL 42
>3n71_A Histone lysine methyltransferase SMYD1; heart development,
transcription; HET: SFG MES; 2.30A {Mus musculus}
Length = 490
Score = 31.8 bits (71), Expect = 0.23
Identities = 19/85 (22%), Positives = 30/85 (35%), Gaps = 13/85 (15%)
Query: 86 DTAKIKAAPGKGCPRC---------GGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSIN 136
+ ++ + GKG R V+FA E+ + F C C K + ++
Sbjct: 7 ENVEVFTSEGKG--RGLKATKEFWAADVIFA-ERAYSAVVFDSLINFVCHTCFKRQEKLH 63
Query: 137 ACDGPDKDIYC-KTCYGKKWGPHGY 160
C YC +TC W H
Sbjct: 64 RCGQCKFAHYCDRTCQKDAWLNHKN 88
Score = 30.3 bits (67), Expect = 0.70
Identities = 9/45 (20%), Positives = 15/45 (33%)
Query: 206 GAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYC 250
V AE+ + F C+ C + + + C YC
Sbjct: 30 ADVIFAERAYSAVVFDSLINFVCHTCFKRQEKLHRCGQCKFAHYC 74
>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90,
transferase-transferase inhibitor; HET: SFG; 1.80A {Mus
musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A*
3tg4_A* 3tg5_A* 3rib_A*
Length = 433
Score = 31.4 bits (70), Expect = 0.29
Identities = 7/48 (14%), Positives = 14/48 (29%)
Query: 206 GAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKAC 253
G + + A ++ C C + + C + YC
Sbjct: 30 GDLLFSCPAYACVLTVGERGHHCECCFARKEGLSKCGRCKQAFYCDVE 77
Score = 28.3 bits (62), Expect = 3.0
Identities = 10/57 (17%), Positives = 18/57 (31%), Gaps = 1/57 (1%)
Query: 103 GVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYC-KTCYGKKWGPH 158
G + + A + C C + ++ C + YC C + W H
Sbjct: 30 GDLLFSCPAYACVLTVGERGHHCECCFARKEGLSKCGRCKQAFYCDVECQKEDWPLH 86
>3g8r_A Probable spore coat polysaccharide biosynthesis P; structural
genomics, protein structure initiative; 2.49A
{Chromobacterium violaceum atcc 12472}
Length = 350
Score = 30.7 bits (70), Expect = 0.49
Identities = 8/32 (25%), Positives = 17/32 (53%), Gaps = 2/32 (6%)
Query: 38 RSVV--KDLRSGDRVSRVNIRKKRPPDEGVIS 67
R V + + +G+ ++ N+ PP EG ++
Sbjct: 280 RGVFATRPVAAGEALTADNVSFAFPPVEGQLT 311
>2wqp_A Polysialic acid capsule biosynthesis protein SIAC; NEUB, inhibitor,
TIM barrel, sialic acid synthase, transfera; HET: WQP;
1.75A {Neisseria meningitidis} PDB: 2zdr_A 1xuz_A*
1xuu_A 3cm4_A
Length = 349
Score = 30.6 bits (70), Expect = 0.52
Identities = 12/44 (27%), Positives = 17/44 (38%), Gaps = 12/44 (27%)
Query: 29 GNVIYRNSP----------RSVV--KDLRSGDRVSRVNIRKKRP 60
G SVV KD++ G+ +S N+ KRP
Sbjct: 272 GGKKDTIIAGEKPTKDFAFASVVADKDIKKGELLSGDNLWVKRP 315
>1vli_A Spore coat polysaccharide biosynthesis protein SP; 2636322, JCSG,
protein structure initiative, BS SPSE, PSI; 2.38A
{Bacillus subtilis} SCOP: b.85.1.1 c.1.10.6
Length = 385
Score = 30.3 bits (69), Expect = 0.71
Identities = 7/25 (28%), Positives = 11/25 (44%), Gaps = 2/25 (8%)
Query: 38 RSVV--KDLRSGDRVSRVNIRKKRP 60
R + ++ G+ S NI RP
Sbjct: 316 RGIFTTAPIQKGEAFSEDNIAVLRP 340
>2k53_A A3DK08 protein; NESG, CMR9, structural genomics, PSI-2, protein
structure initiative; NMR {Clostridium thermocellum atcc
27405}
Length = 76
Score = 27.0 bits (60), Expect = 1.6
Identities = 6/37 (16%), Positives = 11/37 (29%), Gaps = 3/37 (8%)
Query: 187 NPNTTSIMARKGEGCPRCGGAVFAAEQQLAKGTMWHK 223
+ T I G C C ++ + + H
Sbjct: 16 DRGTAPIFINNGMHCLGCPSSMG---ESIEDACAVHG 49
>2d8v_A Zinc finger FYVE domain-containing protein 19; zfyve19, ZF- B_BOX,
structural genomics, NPPSFA; NMR {Mus musculus} SCOP:
g.43.1.1
Length = 67
Score = 26.9 bits (59), Expect = 1.7
Identities = 10/27 (37%), Positives = 15/27 (55%), Gaps = 2/27 (7%)
Query: 228 CNVCKRPLDSVLACDGPDKEIYCKACY 254
C +C D+ L C G D ++YC C+
Sbjct: 11 CCICNE--DATLRCAGCDGDLYCARCF 35
>2xzm_9 RPS31E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB:
2xzn_9
Length = 189
Score = 28.5 bits (63), Expect = 1.8
Identities = 12/52 (23%), Positives = 19/52 (36%), Gaps = 9/52 (17%)
Query: 180 SANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVC 231
FY ++ + +GCP+CG +F A+ H C C
Sbjct: 95 LGALAFYKLENNGKVSLQQKGCPKCGPGIFMAK---------HYDRHYCGKC 137
>1i7d_A DNA topoisomerase III; decatenating enzyme, protein-DNA complex,
single-stranded DNA, isomerase/DNA complex; HET: DNA;
2.05A {Escherichia coli} SCOP: e.10.1.1 PDB: 2o5c_A*
2o54_A* 2o59_A* 2o19_A* 2o5e_A* 1d6m_A*
Length = 659
Score = 29.1 bits (66), Expect = 1.9
Identities = 7/46 (15%), Positives = 12/46 (26%), Gaps = 2/46 (4%)
Query: 85 IDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNK 130
++ G P GG + K S +K +
Sbjct: 606 AKRTPVRQFRGIVAPGSGGSADKKKAAPRKRSA--KKSPPADEVGS 649
>1k3x_A Endonuclease VIII; hydrolase/DNA, hydrolase-DNA complex; HET: BRU
PED; 1.25A {Escherichia coli} SCOP: a.156.1.2 b.113.1.1
g.39.1.8 PDB: 1k3w_A* 1q39_A 2ea0_A* 2oq4_A* 1q3c_A
2opf_A* 1q3b_A*
Length = 262
Score = 28.3 bits (64), Expect = 2.3
Identities = 7/13 (53%), Positives = 8/13 (61%)
Query: 196 RKGEGCPRCGGAV 208
R GE C RCG +
Sbjct: 232 RDGEPCERCGSII 244
>3u6p_A Formamidopyrimidine-DNA glycosylase; DNA glycosylase, DNA repair,
sequence context; HET: DNA 08Q; 1.60A {Geobacillus
stearothermophilus} PDB: 3u6d_A* 3u6c_A* 3u6l_A* 3u6m_A*
3u6o_A* 3u6e_A* 3u6q_A* 3u6s_A* 3gp1_A* 3sbj_A* 2f5q_A*
2f5s_A* 3gq4_A* 3gpy_A* 2f5n_A 2f5o_A 2f5p_A 3sau_A*
3sar_A* 3sav_A* ...
Length = 273
Score = 28.2 bits (64), Expect = 2.4
Identities = 6/13 (46%), Positives = 8/13 (61%)
Query: 196 RKGEGCPRCGGAV 208
R+G C RCG +
Sbjct: 243 RQGNPCKRCGTPI 255
>1ee8_A MUTM (FPG) protein; beta sandwich, zinc finger, helix two-turns
helix, riken STR genomics/proteomics initiative, RSGI,
structural genomics; 1.90A {Thermus thermophilus} SCOP:
a.156.1.2 b.113.1.1 g.39.1.8
Length = 266
Score = 27.9 bits (63), Expect = 3.1
Identities = 7/13 (53%), Positives = 8/13 (61%)
Query: 196 RKGEGCPRCGGAV 208
R+G CP CG V
Sbjct: 233 REGLPCPACGRPV 245
>2k4x_A 30S ribosomal protein S27AE; metal-binding, ribonucleoprotein,
zinc, zinc-finger, structural genomics, PSI-2; NMR
{Thermoplasma acidophilum} SCOP: g.41.8.8
Length = 55
Score = 25.6 bits (56), Expect = 3.5
Identities = 15/36 (41%), Positives = 16/36 (44%), Gaps = 9/36 (25%)
Query: 196 RKGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVC 231
RK CPRCG VF AE H +SC C
Sbjct: 16 RKHRFCPRCGPGVFLAE---------HADRYSCGRC 42
>3oue_A Cytochrome C family protein; multiheme cytochrome-C, electron
transfer, Fe reduction, GEO sulfurreducens, cytochrome
C7 (C3) fold; HET: HEM; 2.15A {Geobacter sulfurreducens}
Length = 158
Score = 27.6 bits (60), Expect = 3.5
Identities = 24/120 (20%), Positives = 35/120 (29%), Gaps = 14/120 (11%)
Query: 119 HRKCFKCRDCNKTLDSINACDGP------DKDIYCKTCYGKKWGPHGYGFAAGSGFLQTD 172
H +KC +C+ L + A DK C C+ K +A
Sbjct: 24 HLGMYKCNECHTKLFAYKAGAKRFTMADMDKGKSCGACHNGKDAFS----SASDCGKCHP 79
Query: 173 GLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQLAKGTMWH----KQCFSC 228
GL +++ + C C VF + A TM K C C
Sbjct: 80 GLKPAKLTYKTSVGEAYFDHDIHLSMFKCADCHTKVFKYRKGSAPATMADMEKGKSCGVC 139
>2xzf_A Formamidopyrimidine-DNA glycosylase; hydrolase-DNA complex; HET:
VET; 1.80A {Lactococcus lactis subsp} PDB: 1pm5_A*
1xc8_A* 1pji_A* 2xzu_A* 3c58_A* 1tdz_A* 1nnj_A 1kfv_A
1pjj_A*
Length = 271
Score = 27.8 bits (63), Expect = 4.1
Identities = 6/13 (46%), Positives = 8/13 (61%)
Query: 196 RKGEGCPRCGGAV 208
+ GE C RCG +
Sbjct: 240 KTGEKCSRCGAEI 252
>1k82_A Formamidopyrimidine-DNA glycosylase; protein-DNA complex, DNA
repair, beta sandwich, zinc finger, helix two-turns
helix, hydrolase/DNA complex; HET: PED; 2.10A
{Escherichia coli} SCOP: a.156.1.2 b.113.1.1 g.39.1.8
Length = 268
Score = 27.4 bits (62), Expect = 4.7
Identities = 7/13 (53%), Positives = 8/13 (61%)
Query: 196 RKGEGCPRCGGAV 208
RKGE C CG +
Sbjct: 238 RKGEPCRVCGTPI 250
>3og6_B Interleukin 28 receptor, alpha (interferon, lambd receptor);
helical bundle, fibronectin type III domain,
beta-sandwich, signaling, membrane; HET: BMA NAG; 2.10A
{Homo sapiens} PDB: 3og4_B*
Length = 226
Score = 27.3 bits (60), Expect = 4.7
Identities = 8/43 (18%), Positives = 14/43 (32%)
Query: 43 DLRSGDRVSRVNIRKKRPPDEGVISLIYIFFCRENNAPRTTVI 85
L + + N + PP + L Y + A T+
Sbjct: 113 VLTQTEEILSANATYQLPPCMPPLDLKYEVAFWKEGAGNKTLF 155
>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND
domain, zinc finger MYND domain-containin 1, structural
genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A*
3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*
Length = 429
Score = 27.5 bits (60), Expect = 4.9
Identities = 8/45 (17%), Positives = 14/45 (31%)
Query: 206 GAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYC 250
G + LA + C+ C + ++ C YC
Sbjct: 28 GELLFRSDPLAYTVCKGSRGVVCDRCLLGKEKLMRCSQCRVAKYC 72
>3lyc_A Putative pectinase; structural genomics, joint center for
structural genomics, J protein structure initiative,
PSI-2, lipoprotein; HET: MSE; 2.30A {Parabacteroides
distasonis}
Length = 241
Score = 27.4 bits (60), Expect = 5.2
Identities = 7/26 (26%), Positives = 15/26 (57%)
Query: 28 SGNVIYRNSPRSVVKDLRSGDRVSRV 53
SG+V Y+ P+ + K + ++ +V
Sbjct: 215 SGSVKYKGDPQDIQKKVMGSGKIEKV 240
>3eqt_A ATP-dependent RNA helicase DHX58; innate immunity, RIG-I-like
helicases, viral RNA detection, LGP2/dsRNA complex,
ATP-binding, coiled coil; 2.00A {Homo sapiens} PDB:
2w4r_A 2rqa_A
Length = 145
Score = 26.6 bits (58), Expect = 6.3
Identities = 7/39 (17%), Positives = 13/39 (33%), Gaps = 1/39 (2%)
Query: 120 RKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPH 158
+ ++ + P I C+ C G+ WG
Sbjct: 45 SNYYNVSRDPVVINKVFKDWKPGGVISCRNC-GEVWGLQ 82
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
0.320 0.138 0.446
Gapped
Lambda K H
0.267 0.0498 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,354,792
Number of extensions: 262422
Number of successful extensions: 1117
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1012
Number of HSP's successfully gapped: 161
Length of query: 281
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 189
Effective length of database: 4,133,061
Effective search space: 781148529
Effective search space used: 781148529
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 57 (26.3 bits)