# /hgtech/tools/solaris8/bin/fasta34_t -T 8 -b50 -d10 -E0.01 -H -Ohg00555.fasta.nr -Q hg00555.ptfa /cdna2/lib/nr/nr 2 FASTA searches a protein or DNA sequence data bank version 34.26.5 April 26, 2007 Please cite: W.R. Pearson & D.J. Lipman PNAS (1988) 85:2444-2448 hg00555, 247 aa vs /cdna2/lib/nr/nr library 2362217958 residues in 6843189 sequences statistics sampled from 60000 to 6838020 sequences Expectation_n fit: rho(ln(x))= 4.9675+/-0.00019; mu= 10.5109+/- 0.011 mean_var=82.0719+/-15.764, 0's: 37 Z-trim: 56 B-trim: 594 in 2/66 Lambda= 0.141572 FASTA (3.5 Sept 2006) function [optimized, BL50 matrix (15:-5)] ktup: 2 join: 36, opt: 24, open/ext: -10/-2, width: 16 The best scores are: opt bits E(6843189) gi|48428992|sp|P61968|LMO4_HUMAN LIM domain transc ( 165) 1202 254.3 7.7e-66 gi|22347822|gb|AAM95988.1| LIM domain only 4 prote ( 165) 1193 252.5 2.8e-65 gi|123995901|gb|ABM85552.1| LIM domain only 4 [syn ( 165) 1189 251.7 4.9e-65 gi|149410634|ref|XP_001506631.1| PREDICTED: simila ( 351) 1192 252.6 5.4e-65 gi|82183496|sp|Q6DJ06.1|LMO42_XENTR LIM domain tra ( 165) 1185 250.9 8.5e-65 gi|158258593|dbj|BAF85267.1| unnamed protein produ ( 165) 1184 250.6 9.8e-65 gi|49900550|gb|AAH76053.1| LIM domain only 4, like ( 165) 1171 248.0 6.2e-64 gi|126306116|ref|XP_001364235.1| PREDICTED: simila ( 204) 1169 247.7 9.6e-64 gi|22652064|gb|AAN03596.1|AF398515_1 LIM-only 4 [D ( 165) 1163 246.4 1.9e-63 gi|47210680|emb|CAF90424.1| unnamed protein produc ( 166) 1128 239.2 2.7e-61 gi|82211818|sp|Q8AW92.1|LMO4A_XENLA LIM domain tra ( 171) 983 209.6 2.3e-52 gi|82210060|sp|Q801P0.1|LMO4B_XENLA LIM domain tra ( 171) 980 209.0 3.5e-52 gi|56553691|pdb|1RUT|X Chain X, Complex Of Lmo4 Li ( 188) 977 208.4 5.8e-52 gi|82194932|sp|Q5FVB2.1|LMO41_XENTR LIM domain tra ( 167) 969 206.7 1.6e-51 gi|118137504|pdb|2DFY|X Chain X, Crystal Structure ( 195) 964 205.8 3.7e-51 gi|19879278|gb|AAK26166.1| LIM only 4 protein [Dan ( 167) 940 200.8 1e-49 gi|29124458|gb|AAH49054.1| Zgc:56628 [Danio rerio] ( 172) 783 168.8 4.6e-40 gi|47206717|emb|CAG12297.1| unnamed protein produc ( 137) 758 163.6 1.3e-38 gi|156216378|gb|EDO37316.1| predicted protein [Nem ( 153) 694 150.5 1.3e-34 gi|115780883|ref|XP_787486.2| PREDICTED: similar t ( 195) 668 145.3 5.9e-33 gi|115929885|ref|XP_001190674.1| PREDICTED: simila ( 201) 668 145.3 6e-33 gi|110761615|ref|XP_396576.3| PREDICTED: similar t ( 418) 605 132.8 7.5e-29 gi|149026131|gb|EDL82374.1| LIM domain only 4, iso ( 81) 587 128.4 3e-28 gi|51950036|gb|AAH82433.1| MGC83364 protein [Xenop ( 96) 567 124.4 5.8e-27 gi|108876328|gb|EAT40553.1| rhombotin [Aedes aegyp ( 218) 569 125.2 7.8e-27 gi|157018403|gb|EAA07238.4| AGAP010391-PA [Anophel ( 204) 568 124.9 8.6e-27 gi|167871437|gb|EDS34820.1| rhombotin [Culex quinq ( 255) 568 125.0 1e-26 gi|156549266|ref|XP_001599629.1| PREDICTED: simila ( 281) 567 124.9 1.2e-26 gi|156549700|ref|XP_001605397.1| PREDICTED: simila ( 176) 564 124.0 1.4e-26 gi|47220587|emb|CAG05613.1| unnamed protein produc ( 317) 565 124.5 1.8e-26 gi|167880615|gb|EDS43998.1| beadex [Culex quinquef ( 278) 563 124.0 2.2e-26 gi|126332439|ref|XP_001379124.1| PREDICTED: simila ( 214) 561 123.5 2.4e-26 gi|123899828|sp|Q3B8H4.1|RBTN1_XENLA Rhombotin-1 ( ( 156) 559 123.0 2.5e-26 gi|189236731|ref|XP_974987.2| PREDICTED: similar t ( 231) 558 122.9 3.8e-26 gi|119361442|sp|Q0P5B3|RBTN1_BOVIN Rhombotin-1 (LI ( 156) 556 122.4 3.9e-26 gi|116130255|gb|EAA06846.3| AGAP000731-PA [Anophel ( 219) 557 122.7 4.3e-26 gi|120974283|gb|ABM46668.1| LMO1 [Gorilla gorilla] ( 147) 554 121.9 4.9e-26 gi|132532|sp|P25800|RBTN1_HUMAN Rhombotin-1 (LIM d ( 156) 554 121.9 5.1e-26 gi|109107392|ref|XP_001105198.1| PREDICTED: LIM do ( 480) 559 123.5 5.6e-26 gi|149068371|gb|EDM17923.1| rCG40540, isoform CRA_ ( 145) 553 121.7 5.6e-26 gi|24659990|gb|AAH39512.1| LIM domain only 1 (rhom ( 217) 555 122.3 5.6e-26 gi|149068369|gb|EDM17921.1| rCG40540, isoform CRA_ ( 155) 553 121.7 5.9e-26 gi|149068370|gb|EDM17922.1| rCG40540, isoform CRA_ ( 156) 553 121.7 5.9e-26 gi|193605870|ref|XP_001945042.1| PREDICTED: simila ( 445) 558 123.2 6.1e-26 gi|82213250|sp|Q8JFQ2.1|RBTN1_DANRE Rhombotin-1 (L ( 155) 552 121.5 6.8e-26 gi|114636612|ref|XP_001165367.1| PREDICTED: simila ( 322) 555 122.5 7.4e-26 gi|148684981|gb|EDL16928.1| LIM domain only 1, iso ( 145) 550 121.1 8.6e-26 gi|2133743|pir||S61522 LMO protein - fruit fly (Dr ( 266) 553 122.0 8.6e-26 gi|148684980|gb|EDL16927.1| LIM domain only 1, iso ( 155) 550 121.1 9e-26 gi|50401115|sp|Q924W9|RBTN1_MOUSE Rhombotin-1 (LIM ( 156) 550 121.1 9.1e-26 >>gi|48428992|sp|P61968|LMO4_HUMAN LIM domain transcript (165 aa) initn: 1202 init1: 1202 opt: 1202 Z-score: 1337.2 bits: 254.3 E(): 7.7e-66 Smith-Waterman score: 1202; 100.000% identity (100.000% similar) in 165 aa overlap (83-247:1-165) 60 70 80 90 100 110 hg0055 RRPFPGSRAASLAFHRRRLSQYCNIGEKQTMVNPGSSSQPPPVTAGSLSWKRCAGCGGKI :::::::::::::::::::::::::::::: gi|484 MVNPGSSSQPPPVTAGSLSWKRCAGCGGKI 10 20 30 120 130 140 150 160 170 hg0055 ADRFLLYAMDSYWHSRCLKCSCCQAQLGDIGTSCYTKSGMILCRNDYIRLFGNSGACSAC :::::::::::::::::::::::::::::::::::::::::::::::::::::::::::: gi|484 ADRFLLYAMDSYWHSRCLKCSCCQAQLGDIGTSCYTKSGMILCRNDYIRLFGNSGACSAC 40 50 60 70 80 90 180 190 200 210 220 230 hg0055 GQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPTALINGHL :::::::::::::::::::::::::::::::::::::::::::::::::::::::::::: gi|484 GQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPTALINGHL 100 110 120 130 140 150 240 hg0055 NSLQSNPLLPDQKVC ::::::::::::::: gi|484 NSLQSNPLLPDQKVC 160 >>gi|22347822|gb|AAM95988.1| LIM domain only 4 protein [ (165 aa) initn: 1193 init1: 1193 opt: 1193 Z-score: 1327.3 bits: 252.5 E(): 2.8e-65 Smith-Waterman score: 1193; 98.788% identity (100.000% similar) in 165 aa overlap (83-247:1-165) 60 70 80 90 100 110 hg0055 RRPFPGSRAASLAFHRRRLSQYCNIGEKQTMVNPGSSSQPPPVTAGSLSWKRCAGCGGKI :::::.:.:::::::::::::::::::::: gi|223 MVNPGGSAQPPPVTAGSLSWKRCAGCGGKI 10 20 30 120 130 140 150 160 170 hg0055 ADRFLLYAMDSYWHSRCLKCSCCQAQLGDIGTSCYTKSGMILCRNDYIRLFGNSGACSAC :::::::::::::::::::::::::::::::::::::::::::::::::::::::::::: gi|223 ADRFLLYAMDSYWHSRCLKCSCCQAQLGDIGTSCYTKSGMILCRNDYIRLFGNSGACSAC 40 50 60 70 80 90 180 190 200 210 220 230 hg0055 GQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPTALINGHL :::::::::::::::::::::::::::::::::::::::::::::::::::::::::::: gi|223 GQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPTALINGHL 100 110 120 130 140 150 240 hg0055 NSLQSNPLLPDQKVC ::::::::::::::: gi|223 NSLQSNPLLPDQKVC 160 >>gi|123995901|gb|ABM85552.1| LIM domain only 4 [synthet (165 aa) initn: 1189 init1: 1189 opt: 1189 Z-score: 1322.9 bits: 251.7 E(): 4.9e-65 Smith-Waterman score: 1189; 100.000% identity (100.000% similar) in 164 aa overlap (83-246:1-164) 60 70 80 90 100 110 hg0055 RRPFPGSRAASLAFHRRRLSQYCNIGEKQTMVNPGSSSQPPPVTAGSLSWKRCAGCGGKI :::::::::::::::::::::::::::::: gi|123 MVNPGSSSQPPPVTAGSLSWKRCAGCGGKI 10 20 30 120 130 140 150 160 170 hg0055 ADRFLLYAMDSYWHSRCLKCSCCQAQLGDIGTSCYTKSGMILCRNDYIRLFGNSGACSAC :::::::::::::::::::::::::::::::::::::::::::::::::::::::::::: gi|123 ADRFLLYAMDSYWHSRCLKCSCCQAQLGDIGTSCYTKSGMILCRNDYIRLFGNSGACSAC 40 50 60 70 80 90 180 190 200 210 220 230 hg0055 GQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPTALINGHL :::::::::::::::::::::::::::::::::::::::::::::::::::::::::::: gi|123 GQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPTALINGHL 100 110 120 130 140 150 240 hg0055 NSLQSNPLLPDQKVC :::::::::::::: gi|123 NSLQSNPLLPDQKVR 160 >>gi|149410634|ref|XP_001506631.1| PREDICTED: similar to (351 aa) initn: 1189 init1: 1189 opt: 1192 Z-score: 1322.0 bits: 252.6 E(): 5.4e-65 Smith-Waterman score: 1192; 88.482% identity (92.670% similar) in 191 aa overlap (57-245:87-276) 30 40 50 60 70 80 hg0055 KKPPLAPSSPFLLLRELPPSLQLRQPRRPFPGSRAASLAFHRRRLSQYCNIGE--KQTMV ::.: . :. : . . : ..::: gi|149 RNWKCGRLQAGKLGMWESPSREIGNVGDSKPGNRECG-RFQAGNLETWESPPEARRRTMV 60 70 80 90 100 110 90 100 110 120 130 140 hg0055 NPGSSSQPPPVTAGSLSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSCCQAQLGDIGT :::::.:::::::::::::::::::::::::::::::::::::::::::::::::::::: gi|149 NPGSSAQPPPVTAGSLSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSCCQAQLGDIGT 120 130 140 150 160 170 150 160 170 180 190 200 hg0055 SCYTKSGMILCRNDYIRLFGNSGACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRL :::::::::::::::::::::::::::::::::::::::::::::::::::::::::::: gi|149 SCYTKSGMILCRNDYIRLFGNSGACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRL 180 190 200 210 220 230 210 220 230 240 hg0055 VPGDRFHYINGSLFCEHDRPTALINGHLNSLQSNPLLPDQKVC ::::::::::::::::::::::::::::::::::::::::: gi|149 VPGDRFHYINGSLFCEHDRPTALINGHLNSLQSNPLLPDQKFKSLGRPIFRAGGGAGEEE 240 250 260 270 280 290 gi|149 VGLSVKRGKKERRWISGVGIVHWGAHPCFPPLSWLVSFGSTEGKAEPLPSLSPLPP 300 310 320 330 340 350 >>gi|82183496|sp|Q6DJ06.1|LMO42_XENTR LIM domain transcr (165 aa) initn: 1185 init1: 1185 opt: 1185 Z-score: 1318.4 bits: 250.9 E(): 8.5e-65 Smith-Waterman score: 1185; 98.182% identity (100.000% similar) in 165 aa overlap (83-247:1-165) 60 70 80 90 100 110 hg0055 RRPFPGSRAASLAFHRRRLSQYCNIGEKQTMVNPGSSSQPPPVTAGSLSWKRCAGCGGKI :::::::::::::::..::::::::::::: gi|821 MVNPGSSSQPPPVTASTLSWKRCAGCGGKI 10 20 30 120 130 140 150 160 170 hg0055 ADRFLLYAMDSYWHSRCLKCSCCQAQLGDIGTSCYTKSGMILCRNDYIRLFGNSGACSAC ::::::::::::::::::::::::::::.::::::::::::::::::::::::::::::: gi|821 ADRFLLYAMDSYWHSRCLKCSCCQAQLGEIGTSCYTKSGMILCRNDYIRLFGNSGACSAC 40 50 60 70 80 90 180 190 200 210 220 230 hg0055 GQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPTALINGHL :::::::::::::::::::::::::::::::::::::::::::::::::::::::::::: gi|821 GQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPTALINGHL 100 110 120 130 140 150 240 hg0055 NSLQSNPLLPDQKVC ::::::::::::::: gi|821 NSLQSNPLLPDQKVC 160 >>gi|158258593|dbj|BAF85267.1| unnamed protein product [ (165 aa) initn: 1184 init1: 1184 opt: 1184 Z-score: 1317.3 bits: 250.6 E(): 9.8e-65 Smith-Waterman score: 1184; 100.000% identity (100.000% similar) in 163 aa overlap (83-245:1-163) 60 70 80 90 100 110 hg0055 RRPFPGSRAASLAFHRRRLSQYCNIGEKQTMVNPGSSSQPPPVTAGSLSWKRCAGCGGKI :::::::::::::::::::::::::::::: gi|158 MVNPGSSSQPPPVTAGSLSWKRCAGCGGKI 10 20 30 120 130 140 150 160 170 hg0055 ADRFLLYAMDSYWHSRCLKCSCCQAQLGDIGTSCYTKSGMILCRNDYIRLFGNSGACSAC :::::::::::::::::::::::::::::::::::::::::::::::::::::::::::: gi|158 ADRFLLYAMDSYWHSRCLKCSCCQAQLGDIGTSCYTKSGMILCRNDYIRLFGNSGACSAC 40 50 60 70 80 90 180 190 200 210 220 230 hg0055 GQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPTALINGHL :::::::::::::::::::::::::::::::::::::::::::::::::::::::::::: gi|158 GQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPTALINGHL 100 110 120 130 140 150 240 hg0055 NSLQSNPLLPDQKVC ::::::::::::: gi|158 NSLQSNPLLPDQKAY 160 >>gi|49900550|gb|AAH76053.1| LIM domain only 4, like [Da (165 aa) initn: 1171 init1: 1171 opt: 1171 Z-score: 1303.0 bits: 248.0 E(): 6.2e-64 Smith-Waterman score: 1171; 96.364% identity (99.394% similar) in 165 aa overlap (83-247:1-165) 60 70 80 90 100 110 hg0055 RRPFPGSRAASLAFHRRRLSQYCNIGEKQTMVNPGSSSQPPPVTAGSLSWKRCAGCGGKI :::::.:.::::: :::::::::::::::: gi|499 MVNPGGSAQPPPVGAGSLSWKRCAGCGGKI 10 20 30 120 130 140 150 160 170 hg0055 ADRFLLYAMDSYWHSRCLKCSCCQAQLGDIGTSCYTKSGMILCRNDYIRLFGNSGACSAC ::::::::::::::::::::::::::::.::::::::::::::::::::::::::::::: gi|499 ADRFLLYAMDSYWHSRCLKCSCCQAQLGEIGTSCYTKSGMILCRNDYIRLFGNSGACSAC 40 50 60 70 80 90 180 190 200 210 220 230 hg0055 GQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPTALINGHL :::::::::::::::::::::::::::::::::::::::::::::::::::::::::::: gi|499 GQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPTALINGHL 100 110 120 130 140 150 240 hg0055 NSLQSNPLLPDQKVC .:::.:::::::::: gi|499 SSLQTNPLLPDQKVC 160 >>gi|126306116|ref|XP_001364235.1| PREDICTED: similar to (204 aa) initn: 1169 init1: 1169 opt: 1169 Z-score: 1299.6 bits: 247.7 E(): 9.6e-64 Smith-Waterman score: 1169; 98.773% identity (99.387% similar) in 163 aa overlap (83-245:1-163) 60 70 80 90 100 110 hg0055 RRPFPGSRAASLAFHRRRLSQYCNIGEKQTMVNPGSSSQPPPVTAGSLSWKRCAGCGGKI ::::::::::::::::.::::::::::::: gi|126 MVNPGSSSQPPPVTAGALSWKRCAGCGGKI 10 20 30 120 130 140 150 160 170 hg0055 ADRFLLYAMDSYWHSRCLKCSCCQAQLGDIGTSCYTKSGMILCRNDYIRLFGNSGACSAC :::::::::::::::::::::::::::::::::::::::::::::::::::::::::::: gi|126 ADRFLLYAMDSYWHSRCLKCSCCQAQLGDIGTSCYTKSGMILCRNDYIRLFGNSGACSAC 40 50 60 70 80 90 180 190 200 210 220 230 hg0055 GQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPTALINGHL :::::::::::::::::::::::::::::::::::::::::::::::::::::::::::: gi|126 GQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPTALINGHL 100 110 120 130 140 150 240 hg0055 NSLQSNPLLPDQKVC ::::::::: ::: gi|126 NSLQSNPLLSDQKNLAMILSGWNFGRVAFLPPFPHQAQPKDAASRNSLLALQQA 160 170 180 190 200 >>gi|22652064|gb|AAN03596.1|AF398515_1 LIM-only 4 [Danio (165 aa) initn: 1163 init1: 1163 opt: 1163 Z-score: 1294.2 bits: 246.4 E(): 1.9e-63 Smith-Waterman score: 1163; 95.758% identity (98.788% similar) in 165 aa overlap (83-247:1-165) 60 70 80 90 100 110 hg0055 RRPFPGSRAASLAFHRRRLSQYCNIGEKQTMVNPGSSSQPPPVTAGSLSWKRCAGCGGKI :::::.:.::::: :::::::::::::::: gi|226 MVNPGGSAQPPPVGAGSLSWKRCAGCGGKI 10 20 30 120 130 140 150 160 170 hg0055 ADRFLLYAMDSYWHSRCLKCSCCQAQLGDIGTSCYTKSGMILCRNDYIRLFGNSGACSAC ::::::::::::::::::::::::::::.::: ::::::::::::::::::::::::::: gi|226 ADRFLLYAMDSYWHSRCLKCSCCQAQLGEIGTFCYTKSGMILCRNDYIRLFGNSGACSAC 40 50 60 70 80 90 180 190 200 210 220 230 hg0055 GQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPTALINGHL :::::::::::::::::::::::::::::::::::::::::::::::::::::::::::: gi|226 GQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPTALINGHL 100 110 120 130 140 150 240 hg0055 NSLQSNPLLPDQKVC .:::.:::::::::: gi|226 SSLQTNPLLPDQKVC 160 >>gi|47210680|emb|CAF90424.1| unnamed protein product [T (166 aa) initn: 1128 init1: 1128 opt: 1128 Z-score: 1255.5 bits: 239.2 E(): 2.7e-61 Smith-Waterman score: 1128; 93.333% identity (98.182% similar) in 165 aa overlap (82-246:1-165) 60 70 80 90 100 110 hg0055 PRRPFPGSRAASLAFHRRRLSQYCNIGEKQTMVNPGSSSQPPPVTAGSLSWKRCAGCGGK ::::::.::::: : .:::::::::::::: gi|472 TMVNPGGSSQPPAVGTGSLSWKRCAGCGGK 10 20 30 120 130 140 150 160 170 hg0055 IADRFLLYAMDSYWHSRCLKCSCCQAQLGDIGTSCYTKSGMILCRNDYIRLFGNSGACSA ::::::::.:.::::::::::::::::::.:::::::::::::::::::::::::::::: gi|472 IADRFLLYTMESYWHSRCLKCSCCQAQLGEIGTSCYTKSGMILCRNDYIRLFGNSGACSA 40 50 60 70 80 90 180 190 200 210 220 230 hg0055 CGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPTALINGH :::::::::::::::::::::::::::::::::::::::::.:::::::::::::::::: gi|472 CGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYVNGSLFCEHDRPTALINGH 100 110 120 130 140 150 240 hg0055 LNSLQSNPLLPDQKVC :.:::.:::: :::: gi|472 LSSLQTNPLLSDQKVR 160 247 residues in 1 query sequences 2362217958 residues in 6843189 library sequences Tcomplib [34.26] (8 proc) start: Tue Aug 12 01:00:39 2008 done: Tue Aug 12 01:03:24 2008 Total Scan time: 688.860 Total Display time: 0.030 Function used was FASTA [version 34.26.5 April 26, 2007]