RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15439
(124 letters)
>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 = 77.7 bits (191), Expect = 3e-19
Identities = 21/60 (35%), Positives = 33/60 (55%)
Query: 2 PNMKECGSCGRPITDRYLLRVADISYHENCVACVECGHSLAHSCFTRENKLYCRSDYDSR 61
P + C C + I DR++L+ D +H C+ C +C LA CF+R +YC+ D+ R
Sbjct: 58 PEIPMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCFSRGESVYCKDDFFKR 117
Score = 47.2 bits (112), Expect = 9e-08
Identities = 20/61 (32%), Positives = 32/61 (52%), Gaps = 4/61 (6%)
Query: 7 CGSCGRPITDRYLLRVA-DISYHENCVACVECGHSLA---HSCFTRENKLYCRSDYDSRK 62
C +C I ++R A D YH +C ACV C LA +++L C++DY++ K
Sbjct: 122 CAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETAK 181
Query: 63 K 63
+
Sbjct: 182 Q 182
>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 = 74.0 bits (182), Expect = 5e-19
Identities = 15/55 (27%), Positives = 22/55 (40%)
Query: 7 CGSCGRPITDRYLLRVADISYHENCVACVECGHSLAHSCFTRENKLYCRSDYDSR 61
C C I L D +H +C C C L +++ YC SDY ++
Sbjct: 18 CAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVILTGEYISKDGVPYCESDYHAQ 72
>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 = 76.4 bits (188), Expect = 6e-19
Identities = 21/60 (35%), Positives = 33/60 (55%)
Query: 2 PNMKECGSCGRPITDRYLLRVADISYHENCVACVECGHSLAHSCFTRENKLYCRSDYDSR 61
P + C C + I DR++L+ D +H C+ C +C LA CF+R +YC+ D+ R
Sbjct: 4 PEIPMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCFSRGESVYCKDDFFKR 63
Score = 45.2 bits (107), Expect = 4e-07
Identities = 20/60 (33%), Positives = 31/60 (51%), Gaps = 4/60 (6%)
Query: 7 CGSCGRPITDRYLLRVA-DISYHENCVACVECGHSLA---HSCFTRENKLYCRSDYDSRK 62
C +C I ++R A D YH +C ACV C LA +++L C++DY++ K
Sbjct: 68 CAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETAK 127
Score = 24.4 bits (53), Expect = 9.5
Identities = 4/32 (12%), Positives = 7/32 (21%), Gaps = 1/32 (3%)
Query: 7 CGSCGRPITDRYLLRVADISYHENCVACVECG 38
G G + A H+ +
Sbjct: 131 SGGSGGSGGGTP-MVAASPERHDGGLQANPVE 161
>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 = 75.2 bits (184), Expect = 7e-19
Identities = 21/63 (33%), Positives = 29/63 (46%), Gaps = 3/63 (4%)
Query: 2 PNMKECGSCGRPITDRYLLRVADISYHENCVACVECGHSLAH---SCFTRENKLYCRSDY 58
+ K C CG I DR+LL D +H C+ C C L S +T+ + CR+DY
Sbjct: 59 LSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDY 118
Query: 59 DSR 61
Sbjct: 119 IRL 121
>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 = 74.6 bits (183), Expect = 1e-18
Identities = 21/63 (33%), Positives = 29/63 (46%), Gaps = 3/63 (4%)
Query: 2 PNMKECGSCGRPITDRYLLRVADISYHENCVACVECGHSLAH---SCFTRENKLYCRSDY 58
+ K C CG I DR+LL D +H C+ C C L S +T+ + CR+DY
Sbjct: 3 LSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDY 62
Query: 59 DSR 61
Sbjct: 63 IRL 65
>2xjy_A Rhombotin-2; oncoprotein, T-cell leukemia, proto-oncogene,
transcription, developmental protein; 2.40A {Homo
sapiens} PDB: 2xjz_A
Length = 131
Score = 70.2 bits (172), Expect = 7e-17
Identities = 20/62 (32%), Positives = 31/62 (50%), Gaps = 3/62 (4%)
Query: 3 NMKECGSCGRPITDRYLLRVADISYHENCVACVECGHSLAH---SCFTRENKLYCRSDYD 59
++ CG C + I DRY L+ D +HE+C++C CG L + + + CR DY
Sbjct: 1 SLLTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYL 60
Query: 60 SR 61
Sbjct: 61 RL 62
Score = 45.5 bits (108), Expect = 2e-07
Identities = 14/55 (25%), Positives = 19/55 (34%), Gaps = 3/55 (5%)
Query: 7 CGSCGRPITDRYL-LRVADISYHENCVACVECGHSLAH--SCFTRENKLYCRSDY 58
C SC + I + +RV D YH C C C + + C D
Sbjct: 69 CASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVCEQDI 123
>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 = 68.2 bits (166), Expect = 3e-16
Identities = 20/63 (31%), Positives = 31/63 (49%), Gaps = 3/63 (4%)
Query: 3 NMKECGSCGRPITDRYLLRVADISYHENCVACVECGHSLAH---SCFTRENKLYCRSDYD 59
++ CG C + I DRY L+ D +HE+C++C CG L + + + CR DY
Sbjct: 2 SLLTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYL 61
Query: 60 SRK 62
Sbjct: 62 RLG 64
>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 = 67.7 bits (165), Expect = 2e-15
Identities = 22/67 (32%), Positives = 30/67 (44%), Gaps = 3/67 (4%)
Query: 2 PNMKECGSCGRPITDRYLLRVADISYHENCVACVECGHSLAH---SCFTRENKLYCRSDY 58
+ K C CG I DR+LL D +H C+ C C L S +T+ + CR+DY
Sbjct: 3 LSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDY 62
Query: 59 DSRKKGS 65
S
Sbjct: 63 IRLFGNS 69
Score = 45.0 bits (106), Expect = 8e-07
Identities = 16/64 (25%), Positives = 22/64 (34%), Gaps = 3/64 (4%)
Query: 7 CGSCGRPITDRYLLRVA-DISYHENCVACVECGHSLAH--SCFTRENKLYCRSDYDSRKK 63
C +CG+ I L+ A YH C C C + L L+C D +
Sbjct: 72 CSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPTALI 131
Query: 64 GSQL 67
L
Sbjct: 132 NGHL 135
>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 = 61.6 bits (150), Expect = 5e-14
Identities = 19/57 (33%), Positives = 28/57 (49%), Gaps = 3/57 (5%)
Query: 7 CGSCGRPITDRYLLRVADISYHENCVACVECGHSLAHSCFT--RENKLYCRSDYDSR 61
C +C +PI DR L R +YH C CV C L FT ++++C D+ +
Sbjct: 18 CATCSQPILDRIL-RAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIEDFHRK 73
>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 = 60.9 bits (148), Expect = 1e-13
Identities = 16/57 (28%), Positives = 26/57 (45%), Gaps = 2/57 (3%)
Query: 7 CGSCGRPIT-DRYLLRVADISYHENCVACVECGHSLAHSCFT-RENKLYCRSDYDSR 61
C C +PI D + + +H+ C C +C H LA+ F ++NK+ C
Sbjct: 8 CVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLANETFVAKDNKILCNKCTTRE 64
Score = 32.8 bits (75), Expect = 0.006
Identities = 7/34 (20%), Positives = 14/34 (41%), Gaps = 3/34 (8%)
Query: 7 CGSCGRPIT--DRYLLRVADISYHENCVACVECG 38
C C + I D+ + +H++C + G
Sbjct: 69 CKGCFKAIVAGDQNV-EYKGTVWHKDCFSGPSSG 101
>2xqn_T Testin, TESS; metal-binding protein, cytoskeleton, focal
adhesion, acrosom; 2.62A {Homo sapiens}
Length = 126
Score = 60.9 bits (148), Expect = 2e-13
Identities = 11/56 (19%), Positives = 19/56 (33%), Gaps = 1/56 (1%)
Query: 7 CGSCGRPITDRYLLRVADISYHENCVACVECGHSLAHSCFT-RENKLYCRSDYDSR 61
C C I + + ++H C +C LA + +K C+ Y
Sbjct: 6 CAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAGEIYVMVNDKPVCKPCYVKN 61
Score = 45.5 bits (108), Expect = 2e-07
Identities = 12/59 (20%), Positives = 18/59 (30%), Gaps = 4/59 (6%)
Query: 7 CGSCGRPITDRYLLRVA-DISYHEN--CVACVECGHSLA-HSCFTRENKLYCRSDYDSR 61
C C I + S+H + C C C L E ++C + R
Sbjct: 66 CQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSVECKKR 124
>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 = 59.4 bits (144), Expect = 3e-13
Identities = 16/56 (28%), Positives = 25/56 (44%), Gaps = 2/56 (3%)
Query: 7 CGSCGRPITDRYLLRVADISYHENCVACVECGHSLAHSC-FTRENKLYCRSDYDSR 61
C CG I ++ ++ D H C C +CG +L F E+++YC R
Sbjct: 18 CDKCGTGIVGVFV-KLRDRHRHPECYVCTDCGTNLKQKGHFFVEDQIYCEKHARER 72
>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 = 57.5 bits (139), Expect = 2e-12
Identities = 15/56 (26%), Positives = 23/56 (41%), Gaps = 2/56 (3%)
Query: 7 CGSCGRPITDRYLLRVADISYHENCVACVECGHSLAHSCF-TRENKLYCRSDYDSR 61
C CG I + + D H C C +C +L + E +LYC + +R
Sbjct: 28 CDKCGSGIVGAVV-KARDKYRHPECFVCADCNLNLKQKGYFFVEGELYCETHARAR 82
>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 = 54.8 bits (132), Expect = 2e-11
Identities = 20/57 (35%), Positives = 26/57 (45%), Gaps = 2/57 (3%)
Query: 7 CGSCGRPIT-DRYLLRVADISYHENCVACVECGHSLAHSCFT-RENKLYCRSDYDSR 61
C C + I D L D +HE C C C SLA FT ++++L C Y S
Sbjct: 18 CAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSLADEPFTCQDSELLCNDCYCSA 74
>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 = 54.3 bits (131), Expect = 3e-11
Identities = 17/56 (30%), Positives = 25/56 (44%), Gaps = 2/56 (3%)
Query: 7 CGSCGRPITDRYLLRVADISYHENCVACVECGHSLAHSCFT-RENKLYCRSDYDSR 61
CG C RP+ + YL D +H C C +C S + F + + +C Y R
Sbjct: 18 CGGCNRPVLENYL-SAMDTVWHPECFVCGDCFTSFSTGSFFELDGRPFCELHYHHR 72
>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 = 54.0 bits (130), Expect = 6e-11
Identities = 14/56 (25%), Positives = 23/56 (41%), Gaps = 2/56 (3%)
Query: 7 CGSCGRPITDRYLLRVADISYHENCVACVECGHSLAHSCF-TRENKLYCRSDYDSR 61
C C + I +L S+H C C +++A+ F + LYC Y+
Sbjct: 28 CAHCNQVIRGPFL-VALGKSWHPEEFNCAHCKNTMAYIGFVEEKGALYCELCYEKF 82
>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 = 52.7 bits (127), Expect = 8e-11
Identities = 15/56 (26%), Positives = 25/56 (44%), Gaps = 2/56 (3%)
Query: 7 CGSCGRPITDRYLLRVADISYHENCVACVECGHSLAHSCFT-RENKLYCRSDYDSR 61
C C +PIT + + +H+ C C C L+ FT R++ YC + +
Sbjct: 8 CVQCKKPITTGGV-TYREQPWHKECFVCTACRKQLSGQRFTARDDFAYCLNCFCDL 62
>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 = 53.9 bits (129), Expect = 1e-10
Identities = 15/63 (23%), Positives = 21/63 (33%), Gaps = 3/63 (4%)
Query: 7 CGSCGRPIT-DRYLLRVADISYHENCVACVECGHSLAH--SCFTRENKLYCRSDYDSRKK 63
C SC + I +RV D YH C C C + + + C D K
Sbjct: 11 CASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFSVGDRYLLINSDIVCEQDIYEWTK 70
Query: 64 GSQ 66
+
Sbjct: 71 ING 73
>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 = 51.6 bits (124), Expect = 3e-10
Identities = 15/56 (26%), Positives = 23/56 (41%), Gaps = 2/56 (3%)
Query: 7 CGSCGRPITDRYLLRVADISYHENCVACVECGHSLAHSCFT-RENKLYCRSDYDSR 61
C C + +T + D +H C+ C C LA FT R+ YC + +
Sbjct: 18 CARCSKTLTQGGV-TYRDQPWHRECLVCTGCQTPLAGQQFTSRDEDPYCVACFGEL 72
>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 = 50.5 bits (121), Expect = 6e-10
Identities = 16/57 (28%), Positives = 23/57 (40%), Gaps = 2/57 (3%)
Query: 7 CGSCGRPITDRYLLRVADISYHENCVACVECGHSLAHSCF-TRENKLYCRSDYDSRK 62
C CG I R + + + S+H C C C LA F + CR ++ K
Sbjct: 8 CHQCGEFIIGRVI-KAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHLCRPCHNREK 63
>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 = 50.5 bits (121), Expect = 1e-09
Identities = 18/62 (29%), Positives = 30/62 (48%), Gaps = 4/62 (6%)
Query: 1 MPNMKE---CGSCGRPITDRYLLRVADISYHENCVACVECGHSLAHSCFT-RENKLYCRS 56
MPN CG+CGR + ++ S+H C C+ C +L + + ++YC+S
Sbjct: 1 MPNWGGGNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCKS 60
Query: 57 DY 58
Y
Sbjct: 61 CY 62
>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 = 49.2 bits (118), Expect = 2e-09
Identities = 15/56 (26%), Positives = 23/56 (41%), Gaps = 2/56 (3%)
Query: 7 CGSCGRPITDRYLLRVADISYHENCVACVECGHSLA-HSCFTRENKLYCRSDYDSR 61
CG+C RPI R + +H C +C H + R+ YC + Y+
Sbjct: 8 CGACRRPIEGRV-VNAMGKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCETHYNQL 62
>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 = 48.9 bits (117), Expect = 3e-09
Identities = 13/57 (22%), Positives = 23/57 (40%), Gaps = 2/57 (3%)
Query: 7 CGSCGRPIT-DRYLLRVADISYHENCVACVECGHSLAHSCFT-RENKLYCRSDYDSR 61
C C + I + S+HE C C C + F ++N+ +C Y+ +
Sbjct: 8 CQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFCVPCYEKQ 64
>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 = 48.5 bits (116), Expect = 3e-09
Identities = 18/56 (32%), Positives = 25/56 (44%), Gaps = 2/56 (3%)
Query: 7 CGSCGRPITDRYLLRVADISYHENCVACVECGHSLAHSCFT-RENKLYCRSDYDSR 61
C C + IT + D +H +C CV C LA FT E++ YC Y +
Sbjct: 8 CVKCNKAITSGGI-TYQDQPWHADCFVCVTCSKKLAGQRFTAVEDQYYCVDCYKNF 62
>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 = 49.0 bits (117), Expect = 4e-09
Identities = 14/53 (26%), Positives = 21/53 (39%), Gaps = 1/53 (1%)
Query: 7 CGSCGRPITDRYLLRVADISYHENCVACVECGHSLAHSCFTRENKLYCRSDYD 59
C C I ++ L + YH + C CG L + +LYC +D
Sbjct: 18 CQKCHAIIDEQPL-IFKNDPYHPDHFNCANCGKELTADARELKGELYCLPCHD 69
>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 = 48.7 bits (116), Expect = 4e-09
Identities = 13/58 (22%), Positives = 21/58 (36%), Gaps = 4/58 (6%)
Query: 5 KECGSCGRPITDRYLLRV---ADISYHENCVACVECGHSLAHSCF-TRENKLYCRSDY 58
C C PI+ + + +H +C C +C SL F T + + C
Sbjct: 6 SGCAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGFLTERDDILCPDCG 63
>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 = 46.7 bits (111), Expect = 2e-08
Identities = 17/57 (29%), Positives = 21/57 (36%), Gaps = 2/57 (3%)
Query: 7 CGSCGRPITDRYLLRVA-DISYHENCVACVECGHSLAHSCFT-RENKLYCRSDYDSR 61
CG CG + VA D +H C C C L F E + YC Y +
Sbjct: 8 CGGCGEDVVGDGAGVVALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAYCEGCYVAT 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 = 46.6 bits (111), Expect = 2e-08
Identities = 14/57 (24%), Positives = 23/57 (40%), Gaps = 2/57 (3%)
Query: 7 CGSCGRPIT-DRYLLRVADISYHENCVACVECGHSLAHSCFT-RENKLYCRSDYDSR 61
C +CG + L ++HE+C C C L F + YC Y+++
Sbjct: 8 CSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCYENK 64
>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 = 46.4 bits (110), Expect = 3e-08
Identities = 14/58 (24%), Positives = 25/58 (43%), Gaps = 4/58 (6%)
Query: 5 KECGSCGRPITDRYLLRV---ADISYHENCVACVECGHSLAHSCF-TRENKLYCRSDY 58
C +C +PI+ + D +H C C +C SL F T+ +++C+
Sbjct: 6 SGCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVGKGFLTQNKEIFCQKCG 63
>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 = 48.9 bits (116), Expect = 3e-08
Identities = 13/58 (22%), Positives = 28/58 (48%), Gaps = 1/58 (1%)
Query: 7 CGSCGRPITDRYLLRVADISYHENCVACVECGHSLAHSCFT-RENKLYCRSDYDSRKK 63
CG C + + ++ S+H++C C+ C +L + +++YC+S Y +
Sbjct: 10 CGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGDEIYCKSCYGKKYG 67
Score = 45.8 bits (108), Expect = 4e-07
Identities = 15/53 (28%), Positives = 28/53 (52%), Gaps = 1/53 (1%)
Query: 7 CGSCGRPITDRYLLRVADISYHENCVACVECGHSLA-HSCFTRENKLYCRSDY 58
C CG+ + + A S+H++C C +CG SL + ++ ++YC+ Y
Sbjct: 118 CPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGCY 170
>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 = 45.4 bits (108), Expect = 7e-08
Identities = 11/57 (19%), Positives = 23/57 (40%), Gaps = 2/57 (3%)
Query: 7 CGSCGRPIT-DRYLLRVADISYHENCVACVECGHSLA-HSCFTRENKLYCRSDYDSR 61
C C + I + +H++C C C + S F + YC + ++++
Sbjct: 18 CKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFPKGEDFYCVTCHETK 74
>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 = 45.5 bits (108), Expect = 7e-08
Identities = 12/58 (20%), Positives = 21/58 (36%), Gaps = 4/58 (6%)
Query: 7 CGSCGRPITDRYLLRVADISYHENCVACVECGHSLA---HSCFTRENKLYCRSDYDSR 61
C C +T ++ + YH C AC+ C + + LYC ++
Sbjct: 18 CHGCSLLMTGPFM-VAGEFKYHPECFACMSCKVIIEDGDAYALVQHATLYCGKCHNEV 74
>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 = 45.2 bits (107), Expect = 1e-07
Identities = 10/54 (18%), Positives = 23/54 (42%), Gaps = 1/54 (1%)
Query: 7 CGSCGRPITDRYLLRVADISYHENCVACVECGHSLAH-SCFTRENKLYCRSDYD 59
C C + + L +H +C C C + L+ + + ++YC+ ++
Sbjct: 18 CVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFN 71
>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 = 2e-07
Identities = 13/63 (20%), Positives = 19/63 (30%), Gaps = 3/63 (4%)
Query: 7 CGSCGRPITDRYLLRVADISYHENCVACVECGHSLA---HSCFTRENKLYCRSDYDSRKK 63
C CG + L V +H +C C C +L + + YC
Sbjct: 18 CALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQHLPQTDS 77
Query: 64 GSQ 66
G
Sbjct: 78 GPS 80
>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 = 43.9 bits (104), Expect = 3e-07
Identities = 13/55 (23%), Positives = 18/55 (32%), Gaps = 2/55 (3%)
Query: 7 CGSCGRPIT-DRYLLRVADISYHENCVACVECGHSLAHSCFT-RENKLYCRSDYD 59
C C ++ YHE C C +C F E + YC D+
Sbjct: 14 CERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQ 68
>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 = 44.0 bits (104), Expect = 3e-07
Identities = 14/57 (24%), Positives = 23/57 (40%), Gaps = 5/57 (8%)
Query: 7 CGSCGRPIT----DRYLLRVADISYHENCVACVECGHSLA-HSCFTRENKLYCRSDY 58
C C PIT ++ S+H+ C C +C +LA + ++YC
Sbjct: 18 CAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANKRFVFHQEQVYCPDCA 74
>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 = 41.6 bits (98), Expect = 2e-06
Identities = 13/55 (23%), Positives = 18/55 (32%), Gaps = 2/55 (3%)
Query: 7 CGSCGRPIT-DRYLLRVADISYHENCVACVECGHSLAHSCFT-RENKLYCRSDYD 59
C C ++ YHE C C +C F E + YC D+
Sbjct: 14 CERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQ 68
>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 = 41.3 bits (97), Expect = 3e-06
Identities = 10/54 (18%), Positives = 16/54 (29%), Gaps = 3/54 (5%)
Query: 7 CGSCGRPITDRYLLRVADISYHENCVACVECGHSLAHSCF--TRENKLYCRSDY 58
C SC + I + +YH +C C C + C+
Sbjct: 18 CFSCDQFIEGEVV-SALGKTYHPDCFVCAVCRLPFPPGDRVTFNGKECMCQKCS 70
>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 = 40.8 bits (96), Expect = 5e-06
Identities = 9/53 (16%), Positives = 18/53 (33%), Gaps = 1/53 (1%)
Query: 7 CGSCGRPITDRYLLRVADISYHENCVACVECGHSLA-HSCFTRENKLYCRSDY 58
C C + + + +H+ C+ C C +L + K +C
Sbjct: 12 CPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPC 64
>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 = 40.4 bits (95), Expect = 6e-06
Identities = 12/53 (22%), Positives = 19/53 (35%), Gaps = 1/53 (1%)
Query: 7 CGSCGRPITDRYLLRVADISYHENCVACVECGHSLAHSCFT-RENKLYCRSDY 58
C C + + + +H C+ C +CG +L E K YC
Sbjct: 3 CPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPC 55
>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 = 33.5 bits (76), Expect = 0.002
Identities = 15/58 (25%), Positives = 26/58 (44%), Gaps = 3/58 (5%)
Query: 7 CGSCGRPITDRYLLRVADISYHENCVACVECGHSLA--HSCFTRENKLYCRSDYDSRK 62
C SC + IT R L + YH +C CV CG A + + + ++ + + +
Sbjct: 8 CDSCEKYITGRVL-EAGEKHYHPSCALCVRCGQMFAEGEEMYLQGSSIWHPACRQAAR 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 = 33.3 bits (76), Expect = 0.002
Identities = 11/54 (20%), Positives = 17/54 (31%), Gaps = 4/54 (7%)
Query: 5 KECGSCGRPI-TDRYLLRVADISYH--ENCVACVECGHSLA-HSCFTRENKLYC 54
C C I + + + S+H C C C L E ++C
Sbjct: 3 VVCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFC 56
>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 = 33.9 bits (77), Expect = 0.009
Identities = 23/109 (21%), Positives = 29/109 (26%), Gaps = 46/109 (42%)
Query: 35 VECGH--SLAHSCFT-RENKLYCRSDYD-SRKKGSQLVTVLFYSMYVHSVMKFHTITLPL 90
V G SL T R+ K S D SR S+ + +F + P
Sbjct: 378 VVSGPPQSLYGLNLTLRKAK--APSGLDQSRIPFSE--------RKLKFSNRFLPVASPF 427
Query: 91 HTITIRIQVTIIIIRNLSSLLAQPCTD---------------SSRPIPV 124
H S LL P +D IPV
Sbjct: 428 H----------------SHLLV-PASDLINKDLVKNNVSFNAKDIQIPV 459
Score = 26.2 bits (57), Expect = 4.5
Identities = 13/41 (31%), Positives = 15/41 (36%), Gaps = 16/41 (39%)
Query: 37 CGHSL----AHSCFTRENKLYCRSDYDSRKKGSQLVTVLFY 73
GHSL A L +D S LV V+FY
Sbjct: 1760 AGHSLGEYAA---------LASLADVMS---IESLVEVVFY 1788
>1u5k_A Hypothetical protein; OBD-fold, Zn-binding,
recombination,replication; 2.00A {Deinococcus
radiodurans} SCOP: b.40.4.13 g.45.1.2 PDB: 1w3s_A 2v1c_C
Length = 244
Score = 28.7 bits (64), Expect = 0.38
Identities = 7/44 (15%), Positives = 12/44 (27%), Gaps = 7/44 (15%)
Query: 1 MPNMKECGSCGRPITDRYLLRVADISYHENCVACVECGHSLAHS 44
+P C CG P + + C +C +
Sbjct: 147 IPQTARCARCGAPDPEHP-------DPLGGQLLCSKCAALPPYP 183
>1d4u_A Nucleotide excision repair protein XPA (XPA-MBD); DNA repair,
loop-rich domain, relaxation, DNA binding protein; NMR
{Homo sapiens} SCOP: a.6.1.2 g.39.1.5 PDB: 1xpa_A
Length = 111
Score = 27.7 bits (61), Expect = 0.65
Identities = 15/66 (22%), Positives = 22/66 (33%), Gaps = 3/66 (4%)
Query: 2 PNMKECGSCGRPITDRYLLRVADISYHENCVACVECGHSLAHSCFTRENKLYCRSDYDSR 61
+ C CG+ D YL+ D+ C C + T + Y D D
Sbjct: 3 FDYVICEECGKEFMDSYLMDHFDLPT---CDDCRDADDKHKLITKTEAKQEYLLKDCDLE 59
Query: 62 KKGSQL 67
K+ L
Sbjct: 60 KREPPL 65
>1weo_A Cellulose synthase, catalytic subunit (IRX3); structure genomics,
ring-finger, riken structural genomics/proteomics
initiative, RSGI; NMR {Arabidopsis thaliana} SCOP:
g.44.1.1
Length = 93
Score = 27.0 bits (59), Expect = 0.93
Identities = 10/44 (22%), Positives = 17/44 (38%), Gaps = 6/44 (13%)
Query: 32 VACVECGHSLAHSCFTRENK------LYCRSDYDSRKKGSQLVT 69
VAC ECG C+ E + C++ Y + ++
Sbjct: 36 VACNECGFPACRPCYEYERREGTQNCPQCKTRYKRLRGSPRVEG 79
>2qr4_A Peptidase M3B, oligoendopeptidase F; structural genomics, PSI-2,
protein ST initiative; 2.50A {Enterococcus faecium}
Length = 587
Score = 27.3 bits (61), Expect = 1.3
Identities = 13/23 (56%), Positives = 15/23 (65%), Gaps = 1/23 (4%)
Query: 36 ECGHSLAHSCFTRENKLYCRSDY 58
E GHS+ HS FTR N+ Y DY
Sbjct: 370 EMGHSV-HSYFTRSNQPYVYGDY 391
>4ask_A Lysine-specific demethylase 6B; oxidoreductase, KDM6B, GSK-J1,
inhibitor, lysine specific HI demethylase; HET: K0I;
1.86A {Homo sapiens} PDB: 2xue_A*
Length = 510
Score = 27.1 bits (59), Expect = 1.6
Identities = 8/54 (14%), Positives = 14/54 (25%), Gaps = 4/54 (7%)
Query: 6 ECGSCGRPITDRYLLRVADISYHENCVACVECGHSLAHSCFTRENKLYCRSDYD 59
C C + + + + S + V C C A + Y
Sbjct: 435 YCNECDVEVFNILFVTSENGSRNTYLVHCEGC----ARRRSAGLQGVVVLEQYR 484
>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 = 26.9 bits (59), Expect = 1.7
Identities = 10/40 (25%), Positives = 12/40 (30%), Gaps = 9/40 (22%)
Query: 2 PNMKE---CGSCGRPITDRYLLRVADISYHENCVACVECG 38
PN+ C C V S + V C CG
Sbjct: 16 PNLNIVLTCPECKVYPPKI----VERFSEGD--VVCALCG 49
Score = 24.6 bits (53), Expect = 9.2
Identities = 4/12 (33%), Positives = 7/12 (58%)
Query: 7 CGSCGRPITDRY 18
C CG ++D+
Sbjct: 45 CALCGLVLSDKL 56
>3u31_A SIR2A, transcriptional regulatory protein SIR2 homologue;
Zn-binding domain, rossmann fold domain; HET: MYK NAD;
2.20A {Plasmodium falciparum} PDB: 3u3d_A* 3jwp_A*
Length = 290
Score = 25.7 bits (57), Expect = 4.2
Identities = 4/35 (11%), Positives = 10/35 (28%)
Query: 7 CGSCGRPITDRYLLRVADISYHENCVACVECGHSL 41
C +C + + ++ + CG
Sbjct: 157 CCTCNKIVKLNKIMLQKTSHFMHQLPPECPCGGIF 191
>3cng_A Nudix hydrolase; structural genomics, APC7497, PSI-2, protei
structure initiative; 2.00A {Nitrosomonas europaea atcc
19718}
Length = 189
Score = 25.5 bits (56), Expect = 4.5
Identities = 9/37 (24%), Positives = 15/37 (40%), Gaps = 5/37 (13%)
Query: 3 NMKECGSCGRPITDRYLLRVADISYHENCVACVECGH 39
+MK C CG + LR+ + + C +C
Sbjct: 2 HMKFCSQCGGEVI----LRIPEGDTLPRYI-CPKCHT 33
>3nqh_A Glycosyl hydrolase; structural genomics, joint center for
structural genomics, J protein structure initiative,
PSI-2; 2.11A {Bacteroides thetaiotaomicron}
Length = 441
Score = 25.8 bits (56), Expect = 4.6
Identities = 12/45 (26%), Positives = 18/45 (40%)
Query: 56 SDYDSRKKGSQLVTVLFYSMYVHSVMKFHTITLPLHTITIRIQVT 100
+ D + + V FYS +F T L T+ I+VT
Sbjct: 368 NILDKKGEKIYSSLVDFYSKANDHATRFKTPQLAEGEYTLVIEVT 412
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
0.327 0.137 0.431
Gapped
Lambda K H
0.267 0.0478 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,819,994
Number of extensions: 90908
Number of successful extensions: 468
Number of sequences better than 10.0: 1
Number of HSP's gapped: 384
Number of HSP's successfully gapped: 86
Length of query: 124
Length of database: 6,701,793
Length adjustment: 82
Effective length of query: 42
Effective length of database: 4,412,271
Effective search space: 185315382
Effective search space used: 185315382
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 51 (24.0 bits)