Query 002828
Match_columns 876
No_of_seqs 447 out of 2011
Neff 8.7
Searched_HMMs 29240
Date Mon Mar 25 03:13:43 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/002828.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/002828hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3pfy_A OTU domain-containing p 99.8 8.4E-20 2.9E-24 177.8 7.0 127 695-834 54-181 (185)
2 3by4_A OTU1, ubiquitin thioest 99.7 4.4E-18 1.5E-22 170.7 5.1 121 698-834 18-139 (212)
3 3phu_A RNA-directed RNA polyme 99.6 4.4E-16 1.5E-20 155.3 6.2 150 700-863 31-193 (219)
4 3phx_A RNA-directed RNA polyme 99.6 4.1E-16 1.4E-20 152.6 4.5 124 700-836 31-161 (185)
5 1tff_A Ubiquitin thiolesterase 99.2 1E-11 3.4E-16 126.6 8.7 99 728-837 133-233 (234)
6 2zfy_A Ubiquitin thioesterase 98.9 1.1E-09 3.7E-14 111.8 7.0 95 729-834 137-234 (234)
7 4dhi_B Ubiquitin thioesterase 98.8 4.4E-09 1.5E-13 108.1 8.4 100 729-840 172-279 (284)
8 3dkb_A Tumor necrosis factor, 98.7 7.3E-08 2.5E-12 99.7 11.4 131 704-836 116-284 (390)
9 4ddg_A Ubiquitin-conjugating e 98.6 3.4E-08 1.2E-12 109.2 6.6 97 727-834 300-399 (399)
10 3zrh_A Ubiquitin thioesterase 98.4 6.2E-07 2.1E-11 94.4 10.3 123 705-838 194-352 (454)
11 2ayd_A WRKY transcription fact 95.8 0.036 1.2E-06 44.6 7.9 59 59-141 16-74 (76)
12 1wj2_A Probable WRKY transcrip 95.0 0.036 1.2E-06 44.8 5.5 59 59-141 19-77 (78)
13 2rpr_A Flywch-type zinc finger 88.8 0.69 2.3E-05 38.7 5.9 49 59-141 26-74 (87)
14 3hot_A Transposable element ma 64.2 1.4E+02 0.0048 31.0 18.6 47 155-201 9-55 (345)
15 3kks_A Integrase, IN; beta-str 57.3 28 0.00094 31.3 7.7 66 253-329 2-67 (152)
16 1je8_A Nitrate/nitrite respons 39.7 91 0.0031 25.0 7.3 45 134-179 3-47 (82)
17 3hph_A Integrase, IN; protein- 37.0 74 0.0025 30.7 7.6 66 254-330 61-126 (219)
18 2xv9_A ABA-1A1 repeat UNIT; li 34.2 44 0.0015 30.0 4.6 46 135-182 5-50 (134)
19 1c0m_A Protein (integrase); HI 29.8 1.3E+02 0.0046 29.4 8.2 70 253-328 10-79 (238)
20 1cxq_A Avian sarcoma virus int 25.7 1.9E+02 0.0064 26.1 7.9 71 253-329 11-81 (162)
21 3l3u_A POL polyprotein; DNA in 23.1 1.3E+02 0.0045 27.1 6.3 64 253-327 9-72 (163)
22 2x78_A Integrase; viral protei 20.6 2.5E+02 0.0085 26.2 7.9 69 254-329 14-83 (200)
No 1
>3pfy_A OTU domain-containing protein 5; structural genomics, structural genomics consortium, SGC, PE C65 otubain, hydrolase; HET: MSE PG4; 1.70A {Homo sapiens} PDB: 3tmp_A* 3tmo_A*
Probab=99.78 E-value=8.4e-20 Score=177.76 Aligned_cols=127 Identities=14% Similarity=0.127 Sum_probs=94.0
Q ss_pred ccccccccccccCCCCcchhhHHhhhccCCchHHHHHHHHHHHHHhhhhhhhhhhcCHHHHHHHHhhcCCCCCCCCcccc
Q 002828 695 LRPYIHDVQDVIADGHCGFRVVAELMDIGEDNWAQVRRDLVDELQSHYDDYIQLYGDAEIARELLHSLSYSESNPGIEHR 774 (876)
Q Consensus 695 l~~~~~~~~~v~~dg~Cgfraia~~l~~~~~~~~~vR~~l~~el~~~~~~y~~~~~~~~~~~~~~~~l~~~~~~~~~~~w 774 (876)
++...+.+++|+|||||+|||||++|..+++.|..||+.++++|+++++.|.+++. +.|++|+..|. .++.|
T Consensus 54 ~~~~gL~~~~I~~DGnCLFrAia~qL~g~~~~h~~LR~~vv~yi~~n~d~f~~Fv~--~~~e~Y~~~m~------~~~~W 125 (185)
T 3pfy_A 54 RDKKGFIIKQMKEDGACLFRAVADQVYGDQDMHEVVRKHCMDYLMKNADYFSNYVT--EDFTTYINRKR------KNNCH 125 (185)
T ss_dssp HHHHCCEEECCCCSTTHHHHHHHHHHHSCGGGHHHHHHHHHHHHHHTHHHHTTCC-------------------------
T ss_pred HHHCCcEEEeeCCCCChHHHHHHHHHhCCchHHHHHHHHHHHHHHHHHHHHHHHHh--ccHHHHHHHhh------CCCcc
Confidence 36788999999999999999999999999999999999999999999999999985 46999999986 67789
Q ss_pred cccCCchhhhhcccceeEEEEccCcc-eeeccCccCCCCCCCCceEEEEEecCCceEEeec
Q 002828 775 MIMPDTGHLIASRYNIVLMHLSQQQC-FTFLPLRSVPLPRTSRKIVTIGFVNECQFVKVFM 834 (876)
Q Consensus 775 ~~~~~~g~~iA~~~~~~v~~~~~~~~-~~~~p~~~~p~~~~~~~~i~l~~~~~~Hf~~~~~ 834 (876)
++.+++ .++|..|+++|++++...+ ...|+- ......+||+|+|++++||+||.-
T Consensus 126 Gg~iEL-~AlS~~~~v~I~V~~~~~~~i~i~~g----~~~~~~~~I~L~Y~~~~HYnSv~~ 181 (185)
T 3pfy_A 126 GNHIEM-QAMAEMYNRPVEVYQYSTEPINTFHG----IHQNEDEPIRVSYHRNIHYNSVVN 181 (185)
T ss_dssp CCHHHH-HHHHHHHTSCEEEESSCSSCSEEECT----TSCCTTSCEEEEEETTTEEEEEEC
T ss_pred chHHHH-HHHHHhhCCcEEEEECCCCCeEEecC----ccCCCCCEEEEEECCCCCcccccC
Confidence 999987 5999999999999987532 222221 122236889999999999999864
No 2
>3by4_A OTU1, ubiquitin thioesterase OTU1; ubiquitin hydrolase, deubiquitinase, cell cycle, hydrolase; 1.55A {Saccharomyces cerevisiae} PDB: 3c0r_A
Probab=99.70 E-value=4.4e-18 Score=170.72 Aligned_cols=121 Identities=12% Similarity=0.132 Sum_probs=101.1
Q ss_pred cccccccccCCCCcchhhHHhhhccCCchHHHHHHHHHHHHHhhhhhhhhhhcCHHHHHHHHhhcCCCCCCCCccccccc
Q 002828 698 YIHDVQDVIADGHCGFRVVAELMDIGEDNWAQVRRDLVDELQSHYDDYIQLYGDAEIARELLHSLSYSESNPGIEHRMIM 777 (876)
Q Consensus 698 ~~~~~~~v~~dg~Cgfraia~~l~~~~~~~~~vR~~l~~el~~~~~~y~~~~~~~~~~~~~~~~l~~~~~~~~~~~w~~~ 777 (876)
-.+.+++|+|||||+|||||+|| .+++.|..||+.++++|++|++.|.+++-+ +.|++|+..|. .++.|++.
T Consensus 18 ~~l~~~~i~~DGnCLFrAva~qL-~~~~~~~~lR~~vv~yi~~n~d~f~e~~~~-~~~e~Y~~~m~------~~~~WGg~ 89 (212)
T 3by4_A 18 NVLSVHPVLDDNSCLFHAIAYGI-FKQDSVRDLREMVSKEVLNNPVKFNDAILD-KPNKDYAQWIL------KMESWGGA 89 (212)
T ss_dssp SEEEEECCCCSTTHHHHHHHHHH-HSSCCSHHHHHHHHHHHHHCTTTTCHHHHT-SCHHHHHHHTT------STTSCCCH
T ss_pred CCeEEEEeCCCCchHHHHHHHHh-CCchHHHHHHHHHHHHHHHCHHHHhhhhcC-CCHHHHHHHhc------CCCEEccH
Confidence 35678899999999999999999 789999999999999999999999755532 57999999997 66789999
Q ss_pred CCchhhhhcccceeEEEEccC-cceeeccCccCCCCCCCCceEEEEEecCCceEEeec
Q 002828 778 PDTGHLIASRYNIVLMHLSQQ-QCFTFLPLRSVPLPRTSRKIVTIGFVNECQFVKVFM 834 (876)
Q Consensus 778 ~~~g~~iA~~~~~~v~~~~~~-~~~~~~p~~~~p~~~~~~~~i~l~~~~~~Hf~~~~~ 834 (876)
+++ .++|..|++||++++.. .....|+ +.. ..++|+|+|. +.||++|++
T Consensus 90 iEL-~Als~~~~~~I~V~~~~~~~~~~~~----~~~--~~~~I~L~Y~-g~HYdsl~~ 139 (212)
T 3by4_A 90 IEI-GIISDALAVAIYVVDIDAVKIEKFN----EDK--FDNYILILFN-GIHYDSLTM 139 (212)
T ss_dssp HHH-HHHHHHHTCEEEEEETTTTEEEEES----TTT--CSEEEEEEEC-SSCEEEEEE
T ss_pred HHH-HHHHHHHCCCEEEEECCCCCeEEeC----CCC--CCCeEEEEEc-CCcceEEec
Confidence 987 59999999999999864 2222222 222 3678999997 899999998
No 3
>3phu_A RNA-directed RNA polymerase L; OTU domain, DE-ubiquitinase, DE-isgylase, hydrolase; 2.20A {Crimean-congo hemorrhagic fever VIRUSIBAR10200}
Probab=99.60 E-value=4.4e-16 Score=155.30 Aligned_cols=150 Identities=11% Similarity=0.026 Sum_probs=103.3
Q ss_pred cccccccCCCCcchhhHHhhhccC-Cch-----HHHHHHHHHHHHHhhhhhhhhhhcCHHHHHHHHhhcCCCCCCCCccc
Q 002828 700 HDVQDVIADGHCGFRVVAELMDIG-EDN-----WAQVRRDLVDELQSHYDDYIQLYGDAEIARELLHSLSYSESNPGIEH 773 (876)
Q Consensus 700 ~~~~~v~~dg~Cgfraia~~l~~~-~~~-----~~~vR~~l~~el~~~~~~y~~~~~~~~~~~~~~~~l~~~~~~~~~~~ 773 (876)
..|+.|+|||||.|||||+||+.+ ++. |..||+.++++|++|++.+ +. ++.|++|++.+. .++.
T Consensus 31 ~~V~rvpgDGnCLFrAVs~qL~~~~~~~~~~~~h~~LR~~va~yi~~n~d~~--~~--~~~feeY~~~m~------~~g~ 100 (219)
T 3phu_A 31 FEIVRQPGDGNCFYHSIAELTMPNKTDHSYHYIKRLTESAARKYYQEEPEAR--LV--GLSLEDYLKRML------SDNE 100 (219)
T ss_dssp EEEECCCCSSCHHHHHHHHHHCTTCCTTTHHHHHHHHHHHHHHHGGGCHHHH--HH--CCCHHHHHHHHH------STTC
T ss_pred eEEEccCCCCchHHHHHHHHHhCCCccchhhhHHHHHHHHHHHHHHhChhhh--hc--CCCHHHHHHHhc------CCCc
Confidence 456778999999999999999998 566 9999999999999999882 22 346999999997 6788
Q ss_pred ccccCCchhhhhcccceeEEEEccCcc-eeeccCccCCCCCCCCceEEEEEecCCceEEeeccCCC---CCCCCChhhhh
Q 002828 774 RMIMPDTGHLIASRYNIVLMHLSQQQC-FTFLPLRSVPLPRTSRKIVTIGFVNECQFVKVFMHPGA---PMPPISPKWLE 849 (876)
Q Consensus 774 w~~~~~~g~~iA~~~~~~v~~~~~~~~-~~~~p~~~~p~~~~~~~~i~l~~~~~~Hf~~~~~~~~~---p~p~~~~~w~~ 849 (876)
|++.+++ .++|..|+++|++++.... .+......++... .++|+|+|.+++||++|.+.++. |.+|.+.. .|
T Consensus 101 WGG~iEL-~AlS~~~~v~I~V~~~d~~g~~~~i~~fge~~~--~~~I~L~Y~g~~HYdSL~~~~d~~~~~~~~~~l~-~~ 176 (219)
T 3phu_A 101 WGSTLEA-SMLAKEMGITIIIWTVAASDEVEAGIKFGDGDV--FTAVNLLHSGQTHFDALRILPQFETDTREALSLM-DR 176 (219)
T ss_dssp CCCHHHH-HHHHHHTTCCEEEEEESSSSBEEEEEEESSCCT--TTSEEEEEETTTEEEEEEECTTTCCSCCCCCCHH-HH
T ss_pred cCCHHHH-HHHHHHhCCCEEEEEecCCCCceeEEEecCCCC--CCeEEEEECCCcCchhheECCCCCCCCCcchhHH-HH
Confidence 9999887 5999999999999965432 0111112233332 57899999977999999875543 33344432 33
Q ss_pred cccc---cccCchhhhh
Q 002828 850 HRYP---CAQGWETPYT 863 (876)
Q Consensus 850 ~~~~---~a~~w~~~~~ 863 (876)
-.-. -+.+|++.++
T Consensus 177 ~~~~~~~~~~~~~~~~~ 193 (219)
T 3phu_A 177 VIAVDQLTSSSSDELQD 193 (219)
T ss_dssp HHHHHHHHC--------
T ss_pred HHHHHHHHhccHHhhhh
Confidence 3222 2466665544
No 4
>3phx_A RNA-directed RNA polymerase L; OTU domain, DE-ubiquitinase, DE-isgylase, hydrolase-protein complex; 1.60A {Crimean-congo hemorrhagic fever virus} PDB: 3phw_A 3pt2_A 3pse_A 3prp_A 3prm_A
Probab=99.59 E-value=4.1e-16 Score=152.58 Aligned_cols=124 Identities=12% Similarity=0.073 Sum_probs=96.1
Q ss_pred cccccccCCCCcchhhHHhhhccC-Cch-----HHHHHHHHHHHHHhhhhhhhhhhcCHHHHHHHHhhcCCCCCCCCccc
Q 002828 700 HDVQDVIADGHCGFRVVAELMDIG-EDN-----WAQVRRDLVDELQSHYDDYIQLYGDAEIARELLHSLSYSESNPGIEH 773 (876)
Q Consensus 700 ~~~~~v~~dg~Cgfraia~~l~~~-~~~-----~~~vR~~l~~el~~~~~~y~~~~~~~~~~~~~~~~l~~~~~~~~~~~ 773 (876)
..|+.|+|||||.|||||+||+.+ ++. |..||+.+++.|++|++.+ +. ++.|++|++.+. .++.
T Consensus 31 ~~v~rv~gDGnCLFrAva~qL~~~~~~~~~~~~~~~LR~~~~~yi~~~~~~~--~~--~~~~~~Y~~~m~------~~~~ 100 (185)
T 3phx_A 31 FEIVRQPGDGNCFYHSIAELTMPNKTDHSYHYIKRLTESAARKYYQEEPEAR--LV--GLSLEDYLKRML------SDNE 100 (185)
T ss_dssp EEEECCCSSTTHHHHHHHHHHSTTCCTTTHHHHHHHHHHHHHHHGGGCTTHH--HH--CCCHHHHHHHHT------STTC
T ss_pred eEEEccCCCCchHHHHHHHHHhCCCccchhhhHHHHHHHHHHHHHHhChHhh--hc--CCCHHHHHHHhh------CCCc
Confidence 446778999999999999999998 666 9999999999999999872 22 346999999997 6788
Q ss_pred ccccCCchhhhhcccceeEEEEccCcceeeccC-ccCCCCCCCCceEEEEEecCCceEEeeccC
Q 002828 774 RMIMPDTGHLIASRYNIVLMHLSQQQCFTFLPL-RSVPLPRTSRKIVTIGFVNECQFVKVFMHP 836 (876)
Q Consensus 774 w~~~~~~g~~iA~~~~~~v~~~~~~~~~~~~p~-~~~p~~~~~~~~i~l~~~~~~Hf~~~~~~~ 836 (876)
|++..++ .++|..|+++|++++......++.+ ..++... .++|+|+|.++.||++|.+.+
T Consensus 101 WGg~iEL-~Als~~~~v~I~V~~~d~~~~~~~i~~f~~~~~--~~~I~L~Y~g~~HYdsl~~~~ 161 (185)
T 3phx_A 101 WGSTLEA-SMLAKEMGITIIIWTVAASDEVEAGIKFGDGDV--FTAVNLLHSGQTHFDALRILP 161 (185)
T ss_dssp CCBHHHH-HHHHHHHCCCEEEEEC--CCBCCEEEEESSCCT--TTSEEEEEETTTEEEEEEECG
T ss_pred cCcHHHH-HHHHHHHCCcEEEEEecCCCCceEEEEcCCCCC--CCEEEEEECCCcCchhceECC
Confidence 9999887 5999999999999986433211111 1123222 578999998779999998754
No 5
>1tff_A Ubiquitin thiolesterase protein OTUB2; hydrolase; 2.10A {Homo sapiens} SCOP: d.3.1.11
Probab=99.24 E-value=1e-11 Score=126.56 Aligned_cols=99 Identities=7% Similarity=0.009 Sum_probs=73.6
Q ss_pred HHHHHHHHHHHHhhhhhhhhhhcCHHHHHHHHh-hcCCCCCCCCcccccccCCchhhhhcccceeEEEEccCccee-ecc
Q 002828 728 AQVRRDLVDELQSHYDDYIQLYGDAEIARELLH-SLSYSESNPGIEHRMIMPDTGHLIASRYNIVLMHLSQQQCFT-FLP 805 (876)
Q Consensus 728 ~~vR~~l~~el~~~~~~y~~~~~~~~~~~~~~~-~l~~~~~~~~~~~w~~~~~~g~~iA~~~~~~v~~~~~~~~~~-~~p 805 (876)
..+|.....+|++|+++|.+++.++..+++++. .+. +.+.|.+...+ .+||+++++||.++....+.. +-+
T Consensus 133 ~~lR~lta~~i~~~~d~f~pFi~~~~~~~~yC~~~ve------~~~~~~~~iei-~ALa~aL~v~I~V~~~d~~~~~~~~ 205 (234)
T 1tff_A 133 QFLRLLTSAFIRNRADFFRHFIDEEMDIKDFCTHEVE------PMATECDHIQI-TALSQALSIALQVEYVDEMDTALNH 205 (234)
T ss_dssp HHHHHHHHHHHHHTHHHHGGGSCTTSCHHHHHHHHTS------STTCCCCHHHH-HHHHHHHTCCEEEEECC-------C
T ss_pred HHHHHHHHHHHHHCHHHHhhhhcCCCCHHHHHHHHhh------hhhcccccHHH-HHHHHHhCCCEEEEEcCCCCCcccc
Confidence 446888889999999999999976567999999 776 67889998877 599999999999988655431 111
Q ss_pred CccCCCCCCCCceEEEEEecCCceEEeeccCC
Q 002828 806 LRSVPLPRTSRKIVTIGFVNECQFVKVFMHPG 837 (876)
Q Consensus 806 ~~~~p~~~~~~~~i~l~~~~~~Hf~~~~~~~~ 837 (876)
... |.. ..|.|+|+|. +.||++|+.+++
T Consensus 206 ~~~-~~~--~~~~I~LlY~-pgHYdily~~~~ 233 (234)
T 1tff_A 206 HVF-PEA--ATPSVYLLYK-TSHYNILYAADK 233 (234)
T ss_dssp CCC-CCC--SSCSEEEEEE-TTEEEEEEECCC
T ss_pred ccC-CCC--CCCeEEEEEC-CCCceecccCCC
Confidence 222 222 2567999998 569999998654
No 6
>2zfy_A Ubiquitin thioesterase OTUB1; otubain, structural genomics, structural genomics consortium, SGC, alternative splicing, hydrolase, immune response; 1.69A {Homo sapiens} PDB: 4ddg_B 4ddi_A
Probab=98.92 E-value=1.1e-09 Score=111.81 Aligned_cols=95 Identities=7% Similarity=-0.035 Sum_probs=69.5
Q ss_pred HHHHHHHHHHHhhhhhhhhhhcCHHHHHHHHh-hcCCCCCCCCcccccccCCchhhhhcccceeEEEEccCccee--ecc
Q 002828 729 QVRRDLVDELQSHYDDYIQLYGDAEIARELLH-SLSYSESNPGIEHRMIMPDTGHLIASRYNIVLMHLSQQQCFT--FLP 805 (876)
Q Consensus 729 ~vR~~l~~el~~~~~~y~~~~~~~~~~~~~~~-~l~~~~~~~~~~~w~~~~~~g~~iA~~~~~~v~~~~~~~~~~--~~p 805 (876)
.+|.....+|++|+++|.+++.++..+++++. .+. +.+.|.+...+ .+||+++++||.++....+.. .-+
T Consensus 137 ~lR~lta~yi~~~~d~f~pFi~~~~~~e~yc~~~ve------~~~~~~~~i~i-~ALa~al~v~I~V~~~d~~~~~~v~~ 209 (234)
T 2zfy_A 137 YLRLLTSGYLQRESKFFEHFIEGGRTVKEFCQQEVE------PMCKESDHIHI-IALAQALSVSIQVEYMDRGEGGTTNP 209 (234)
T ss_dssp HHHHHHHHHHHHTHHHHGGGCCSSCCHHHHHHHHTS------STTCCCCHHHH-HHHHHHHTCCEEEEECC-CCSSCCEE
T ss_pred HHHHHHHHHHHHCHHHHhcccCCCCCHHHHHHHHhh------hHhhcCCHHHH-HHHHHHhCCCEEEEEcCCCCCCcccc
Confidence 45666667899999999999977668999996 575 67889988877 599999999999987644421 111
Q ss_pred CccCCCCCCCCceEEEEEecCCceEEeec
Q 002828 806 LRSVPLPRTSRKIVTIGFVNECQFVKVFM 834 (876)
Q Consensus 806 ~~~~p~~~~~~~~i~l~~~~~~Hf~~~~~ 834 (876)
...++ .. .|.|+|+|. +.||++|+.
T Consensus 210 ~~f~~-~~--~p~I~LlY~-pgHYdiLy~ 234 (234)
T 2zfy_A 210 HIFPE-GS--EPKVYLLYR-PGHYDILYK 234 (234)
T ss_dssp EEEST-TC--CCSEEEEEE-TTEEEEEEC
T ss_pred eeCCC-CC--CCeEEEEEC-CCCcccCCC
Confidence 11122 22 467999998 569999973
No 7
>4dhi_B Ubiquitin thioesterase otubain-like; ubiquitin E2 enzyme fold, ubiquitination, hydrolase-ligase C; 1.80A {Caenorhabditis elegans} PDB: 4dhj_A 4dhz_A
Probab=98.84 E-value=4.4e-09 Score=108.13 Aligned_cols=100 Identities=5% Similarity=0.003 Sum_probs=71.9
Q ss_pred HHHHHHHHHHHhhhhhhhhhhcCHHHHHHHHh-hcCCCCCCCCcccccccCCchhhhhcccceeEEEEccCcc-------
Q 002828 729 QVRRDLVDELQSHYDDYIQLYGDAEIARELLH-SLSYSESNPGIEHRMIMPDTGHLIASRYNIVLMHLSQQQC------- 800 (876)
Q Consensus 729 ~vR~~l~~el~~~~~~y~~~~~~~~~~~~~~~-~l~~~~~~~~~~~w~~~~~~g~~iA~~~~~~v~~~~~~~~------- 800 (876)
.+|.....+|++|+++|.+++.+...+++++. .+. +.++|.+...+. +||++|++||-+.-...+
T Consensus 172 ~LRllts~yi~~~~d~f~pFi~~~~~v~~yC~~eVe------~~~~e~d~leI~-ALa~aL~v~I~V~ylDrs~g~~v~~ 244 (284)
T 4dhi_B 172 FFRLITSAFLKQNSEEYAPFIDEGMTVAQYCEQEIE------PMWKDADHLAIN-SLIKAAGTRVRIEYMDRTAAPNGGW 244 (284)
T ss_dssp HHHHHHHHHHHHTHHHHGGGSCTTCCHHHHHHHHTS------STTCCCCHHHHH-HHHHHTTCCEEEEESSGGGCTTSSS
T ss_pred HHHHHHHHHHHHCHHHHHhhcCCCCCHHHHHHHhce------ehhhcccHHHHH-HHHHHhCCcEEEEEecCCCCCCCcc
Confidence 35666677888999999999976667999998 776 788999999875 999999999977643221
Q ss_pred eeeccCccCCCCCCCCceEEEEEecCCceEEeeccCCCCC
Q 002828 801 FTFLPLRSVPLPRTSRKIVTIGFVNECQFVKVFMHPGAPM 840 (876)
Q Consensus 801 ~~~~p~~~~p~~~~~~~~i~l~~~~~~Hf~~~~~~~~~p~ 840 (876)
...||-.. .+..|.|.|.|- +.||..||.+++.|.
T Consensus 245 h~~fp~~~----~~~~p~I~LLYr-pgHYDILY~~~p~~~ 279 (284)
T 4dhi_B 245 HYDIPSDD----QQIAPEITLLYR-PGHYDVIYKKDSTEA 279 (284)
T ss_dssp EEEESCCC----SCCCCSEEEEEE-TTEEEEEEECC----
T ss_pred cccCCCCC----CCCCCEEEEeec-CCCccccccCCCCch
Confidence 22035321 112466999997 689999999875443
No 8
>3dkb_A Tumor necrosis factor, alpha-induced protein 3; OTU domain, DUB domain, apoptosis, cytoplasm, DNA-binding, hydrolase, metal-binding, nucleus; 2.50A {Homo sapiens} PDB: 2vfj_A
Probab=98.68 E-value=7.3e-08 Score=99.73 Aligned_cols=131 Identities=15% Similarity=0.134 Sum_probs=94.5
Q ss_pred cccCCCCcchhhHHhhhccCCchHHHHHHHHHHHHHhhh--hhhh-----hh----h------cC----HHHHHHHHhhc
Q 002828 704 DVIADGHCGFRVVAELMDIGEDNWAQVRRDLVDELQSHY--DDYI-----QL----Y------GD----AEIARELLHSL 762 (876)
Q Consensus 704 ~v~~dg~Cgfraia~~l~~~~~~~~~vR~~l~~el~~~~--~~y~-----~~----~------~~----~~~~~~~~~~l 762 (876)
...|||||+.+|++..+.+-.|.-..+|+.|..-|++.. ..+. .. + .+ ..+++.+++..
T Consensus 116 ~t~GDGnCLLHAvSqamWGv~DrdlvLRkaL~~~L~~~~~~~fr~RW~~e~~~~q~~~~~gL~y~e~ew~~EW~~Iv~~A 195 (390)
T 3dkb_A 116 KTNGDGNCLMHATSQYMWGVQDTDLVLRKALFSTLKETDTRNFKFRWQLESLKSQEFVETGLCYDTRNWNDEWDNLIKMA 195 (390)
T ss_dssp CCCCSSCHHHHHHHHHHHSSCSTTCHHHHHHHHHHHHSCCHHHHHHHHHHHHCCCSSCC----CCSSCSSHHHHHHHHHT
T ss_pred EecCCCchHHHHHhHHhcCCCCHhHHHHHHHHHHHHhchHHHHHHHHHHHHHHhhhhHhhcccccHHHHHHHHHHHHHHh
Confidence 489999999999999999999999999999999988643 1111 00 0 11 35788888777
Q ss_pred CCCCCCCCcccccccCC--chhhhhcccceeEEEEcc--------C-------cceeeccCccCCCCCCCCceEEEEEec
Q 002828 763 SYSESNPGIEHRMIMPD--TGHLIASRYNIVLMHLSQ--------Q-------QCFTFLPLRSVPLPRTSRKIVTIGFVN 825 (876)
Q Consensus 763 ~~~~~~~~~~~w~~~~~--~g~~iA~~~~~~v~~~~~--------~-------~~~~~~p~~~~p~~~~~~~~i~l~~~~ 825 (876)
+.+...+..+.=+.-.+ |-++||+.+.||||+|+. + .+.+|+|+..+|..... .||+|||-+
T Consensus 196 sp~~~~~~~~~~y~sLEeiHIFvLAhVLRRPIIV~~d~~lr~~~~Ge~~~Pi~f~GIYLPLlwpp~~C~r-sPI~LgY~s 274 (390)
T 3dkb_A 196 STDTPMARSGLQYNSLEEIHIFVLCNILRRPIIVISDKMLRSLESGSNFAPLKVGGIYLPLHWPAQECYR-YPIVLGYDS 274 (390)
T ss_dssp SSCCCSSSSSCSSCCCCHHHHHHHHHHTTSCEEEEECCCCTTCCCC----CCCCCEEECCTTSCTTSSCS-SCEEEEECS
T ss_pred CCCCCCCCCcchhhhHHHHHHHHHHHHhcCCEEEEechhhccccCCCccCcCccCceecCCcCCHHHccC-CceEEEecc
Confidence 54433222232222222 556799999999999952 1 25899999999877764 599999974
Q ss_pred CCceEEeeccC
Q 002828 826 ECQFVKVFMHP 836 (876)
Q Consensus 826 ~~Hf~~~~~~~ 836 (876)
.||.+|+...
T Consensus 275 -~HFsaLV~me 284 (390)
T 3dkb_A 275 -HHFVPLVTLK 284 (390)
T ss_dssp -SCEEEEEEBC
T ss_pred -Cceeeeeecc
Confidence 8999998744
No 9
>4ddg_A Ubiquitin-conjugating enzyme E2 D2, ubiquitin THI OTUB1; inhibition, hydrolase-ligase complex; 3.30A {Homo sapiens} PDB: 4ddi_A
Probab=98.60 E-value=3.4e-08 Score=109.24 Aligned_cols=97 Identities=9% Similarity=-0.011 Sum_probs=70.2
Q ss_pred HHHHHHHHHHHHHhhhhhhhhhhcCHHHHHHHHh-hcCCCCCCCCcccccccCCchhhhhcccceeEEEEccCcc--eee
Q 002828 727 WAQVRRDLVDELQSHYDDYIQLYGDAEIARELLH-SLSYSESNPGIEHRMIMPDTGHLIASRYNIVLMHLSQQQC--FTF 803 (876)
Q Consensus 727 ~~~vR~~l~~el~~~~~~y~~~~~~~~~~~~~~~-~l~~~~~~~~~~~w~~~~~~g~~iA~~~~~~v~~~~~~~~--~~~ 803 (876)
...+|.....+|++|+++|.+++.+...+++++. .+. +.+.|.+...+ .+||+++|++|.++-.+.+ ...
T Consensus 300 v~~lRllts~~i~~~~d~f~pFi~~~~~v~~yc~~~ve------~~~~e~d~l~I-~ALa~al~v~I~V~yld~~~~~~v 372 (399)
T 4ddg_A 300 VVYLRLLTSGYLQRESKFFEHFIEGGRTVKEFCQQEVE------PMCKESDHIHI-IALAQALSVSIQVEYMDRGEGGTT 372 (399)
T ss_dssp HHHHHHHHHHHHHHTHHHHGGGSSSSCCHHHHHHHHTS------STTCCBCHHHH-HHHHHHHTCCCEEEECSCCSSSCC
T ss_pred HHHHHHHHHHHHHHCHHHHhcccCCCCCHHHHHHHhce------eHHhhCcHHHH-HHHHHHcCCcEEEEEcCCCCCCcc
Confidence 4456777778899999999999976667888888 776 77899998877 4999999999988643221 111
Q ss_pred ccCccCCCCCCCCceEEEEEecCCceEEeec
Q 002828 804 LPLRSVPLPRTSRKIVTIGFVNECQFVKVFM 834 (876)
Q Consensus 804 ~p~~~~p~~~~~~~~i~l~~~~~~Hf~~~~~ 834 (876)
-+... |... .+.|+|.|- +-||..||.
T Consensus 373 ~~~~~-~~~~--~~~I~LLYr-PgHYDiLY~ 399 (399)
T 4ddg_A 373 NPHIF-PEGS--EPKVYLLYR-PGHYDILYK 399 (399)
T ss_dssp CEEET-TTTC--CCCCEEEEE-TBEEEEEEC
T ss_pred ceeeC-CCCC--CCEEEEEEc-CCccccCCC
Confidence 11111 2222 567999996 679999873
No 10
>3zrh_A Ubiquitin thioesterase zranb1; hydrolase, deubiquitinating enzyme, WNT signaling, ovarian T domain; 2.23A {Homo sapiens}
Probab=98.43 E-value=6.2e-07 Score=94.37 Aligned_cols=123 Identities=15% Similarity=0.087 Sum_probs=90.3
Q ss_pred ccCCCCcchhhHHhhhccCCchHHHHHHHHHHHHHhhhh-hh------hh----hhc-----CH----HHHHHHHhhcCC
Q 002828 705 VIADGHCGFRVVAELMDIGEDNWAQVRRDLVDELQSHYD-DY------IQ----LYG-----DA----EIARELLHSLSY 764 (876)
Q Consensus 705 v~~dg~Cgfraia~~l~~~~~~~~~vR~~l~~el~~~~~-~y------~~----~~~-----~~----~~~~~~~~~l~~ 764 (876)
..|||||..+|++..|.+-.|....+|+.|..-|++... .| .. .++ ++ .+++.++...+.
T Consensus 194 t~GDGNCLLHAvSqamWGV~DrdlvLRkaL~~~L~~~~~~f~~RW~~~e~~q~q~~gL~y~lde~ewq~EW~~iv~~As~ 273 (454)
T 3zrh_A 194 NRTAGDCLLDSVLQATWGIYDKDSVLRKALHDSLHDCSHWFYTRWKDWESWYSQSFGLHFSLREEQWQEDWAFILSLASQ 273 (454)
T ss_dssp CCCSSCHHHHHHHHTTTSSCCGGGHHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHTTCCCCCCHHHHHHHHHHHHHHTTS
T ss_pred ecCCCccHHHHHHHHhhcccCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHhcC
Confidence 789999999999999999999999999999999986322 22 11 111 23 346666665542
Q ss_pred CCCCCCcccccccCC--chhhhhcccceeEEEEcc--------------CcceeeccCccCCCCCCCCceEEEEEecCCc
Q 002828 765 SESNPGIEHRMIMPD--TGHLIASRYNIVLMHLSQ--------------QQCFTFLPLRSVPLPRTSRKIVTIGFVNECQ 828 (876)
Q Consensus 765 ~~~~~~~~~w~~~~~--~g~~iA~~~~~~v~~~~~--------------~~~~~~~p~~~~p~~~~~~~~i~l~~~~~~H 828 (876)
++ .-.+ |-+++|+...||||+|+. ..+..|||+..+|.... ..||+|||-+ .|
T Consensus 274 Pg---------~sLEeiHIFvLAhVLRRPIIV~~d~~lrs~~Ge~l~pi~f~GIYLPLlwpp~~C~-rsPIvLgY~~-gH 342 (454)
T 3zrh_A 274 PG---------ASLEQTHIFVLAHILRRPIIVYGVKYYKSFRGETLGYTRFQGVYLPLLWEQSFCW-KSPIALGYTR-GH 342 (454)
T ss_dssp TT---------CCCCHHHHHHHHHHTTSCEEEEECSSCC-----CCCCCCCCEEECCTTSCGGGSC-SCCEEEEEET-TE
T ss_pred Cc---------chHHHHHHHHHHHHhcCCeEEeccccccccCCCcCCCcccceeeccCcCCHHHhc-CCceEEEecc-cc
Confidence 21 1122 557799999999999973 13469999999987665 4689999984 79
Q ss_pred eEEeeccCCC
Q 002828 829 FVKVFMHPGA 838 (876)
Q Consensus 829 f~~~~~~~~~ 838 (876)
|.+|+...+.
T Consensus 343 FsaLV~~~~~ 352 (454)
T 3zrh_A 343 FSALVAMEND 352 (454)
T ss_dssp EEEEEEBCCC
T ss_pred eeeeeecccc
Confidence 9999875543
No 11
>2ayd_A WRKY transcription factor 1; beta strands, zinc finger; 1.60A {Arabidopsis thaliana}
Probab=95.80 E-value=0.036 Score=44.63 Aligned_cols=59 Identities=19% Similarity=0.333 Sum_probs=46.6
Q ss_pred cCEEEEEEeecCCCCCCCceEEEEEecCCccCCCCCCCCCCCCCCCCCcceeCCccEEEEeeeCCCCCeEEEEEccccCC
Q 002828 59 NGLVIVIKKSDVGGDGRRPRITFACERSGAYRRKYTEGQTPKRPKTTGTKKCGCPFLLKGHKLDTDDDWILKVVCGVHNH 138 (876)
Q Consensus 59 ~GF~v~~~~S~~~~~g~~~~~~~vC~r~G~~r~~~~~~~~~~~rr~~~s~~~gCp~~i~~~~~~~~~~w~V~~~~~~HNH 138 (876)
-||..|+--.+..++...-|.+|.|+. .||+++=.+.+...+....++.+.++|||
T Consensus 16 DGy~WRKYGQK~ikgs~~PRsYYrCt~------------------------~gC~a~K~Ver~~~d~~~~~~tY~G~H~H 71 (76)
T 2ayd_A 16 DGYRWRKYGQKSVKGSPYPRSYYRCSS------------------------PGCPVKKHVERSSHDTKLLITTYEGKHDH 71 (76)
T ss_dssp CSSCEEEEEEECCTTCSSCEEEEEECS------------------------TTCCCEEEEEECSSSTTEEEEEEESCCSS
T ss_pred CCchhhhCcccccCCCCCceeEeEcCC------------------------CCCCceeeEEEECCCCCEEEEEEccCcCC
Confidence 478888877666665566678889942 38999988887777888899999999999
Q ss_pred CCC
Q 002828 139 PVT 141 (876)
Q Consensus 139 ~~~ 141 (876)
+..
T Consensus 72 ~~p 74 (76)
T 2ayd_A 72 DMP 74 (76)
T ss_dssp CCC
T ss_pred CCC
Confidence 864
No 12
>1wj2_A Probable WRKY transcription factor 4; DNA-binding domain, zinc-binding, structural genomics; NMR {Arabidopsis thaliana} SCOP: g.79.1.1 PDB: 2lex_A*
Probab=95.02 E-value=0.036 Score=44.78 Aligned_cols=59 Identities=22% Similarity=0.307 Sum_probs=45.5
Q ss_pred cCEEEEEEeecCCCCCCCceEEEEEecCCccCCCCCCCCCCCCCCCCCcceeCCccEEEEeeeCCCCCeEEEEEccccCC
Q 002828 59 NGLVIVIKKSDVGGDGRRPRITFACERSGAYRRKYTEGQTPKRPKTTGTKKCGCPFLLKGHKLDTDDDWILKVVCGVHNH 138 (876)
Q Consensus 59 ~GF~v~~~~S~~~~~g~~~~~~~vC~r~G~~r~~~~~~~~~~~rr~~~s~~~gCp~~i~~~~~~~~~~w~V~~~~~~HNH 138 (876)
-||..|+--.+..++...-|.+|.|+. .||+++=.+.+...+....++.+.++|||
T Consensus 19 DGy~WRKYGQK~ikgs~~PRsYYrCt~------------------------~gC~a~K~Ver~~~d~~~~~~tY~G~H~H 74 (78)
T 1wj2_A 19 DGYRWRKYGQKVVKGNPYPRSYYKCTT------------------------PGCGVRKHVERAATDPKAVVTTYEGKHNH 74 (78)
T ss_dssp SSSCBCCCEEECCTTCSSCEEEEEEEC------------------------SSCEEEEEEEEETTTTSEEEEEEESCCSS
T ss_pred CCchhhhCcccccCCCcCeeEEeecCc------------------------CCCCcEeeEEEEcCCCCEEEEEEeeEcCC
Confidence 467777666555555556688899954 38999988888777888888999999999
Q ss_pred CCC
Q 002828 139 PVT 141 (876)
Q Consensus 139 ~~~ 141 (876)
+..
T Consensus 75 ~~p 77 (78)
T 1wj2_A 75 DLP 77 (78)
T ss_dssp CCC
T ss_pred CCC
Confidence 863
No 13
>2rpr_A Flywch-type zinc finger-containing protein 1; flywch domain, alternative splicing, DNA-binding, metal- binding, nucleus, metal binding protein; NMR {Homo sapiens}
Probab=88.84 E-value=0.69 Score=38.67 Aligned_cols=49 Identities=14% Similarity=0.293 Sum_probs=31.1
Q ss_pred cCEEEEEEeecCCCCCCCceEEEEEecCCccCCCCCCCCCCCCCCCCCcceeCCccEEEEeeeCCCCCeEEEEEccccCC
Q 002828 59 NGLVIVIKKSDVGGDGRRPRITFACERSGAYRRKYTEGQTPKRPKTTGTKKCGCPFLLKGHKLDTDDDWILKVVCGVHNH 138 (876)
Q Consensus 59 ~GF~v~~~~S~~~~~g~~~~~~~vC~r~G~~r~~~~~~~~~~~rr~~~s~~~gCp~~i~~~~~~~~~~w~V~~~~~~HNH 138 (876)
.||.+...+.... ..++.|++.. ..+|++++.... ++ + .....|||
T Consensus 26 ~Gy~Y~~~~~~~~------~~yWrC~~~~---------------------~~kCrARi~T~~---~~---~-~~~~~HnH 71 (87)
T 2rpr_A 26 ESFLYRKEKAAGE------KVYWMCRDQA---------------------RLGCRSRAITQG---HR---I-MVMRSHCH 71 (87)
T ss_dssp TTEEEEEEEECSS------CEEEEEGGGT---------------------TSCCCCEEEEET---TE---E-EECSCCSS
T ss_pred CCEEEEeeecCCC------cEEEEecCCC---------------------CCCCCEEEEEcC---CC---E-ECCCCcCC
Confidence 5777776665432 5678896531 238999987532 22 3 25678999
Q ss_pred CCC
Q 002828 139 PVT 141 (876)
Q Consensus 139 ~~~ 141 (876)
++.
T Consensus 72 ~p~ 74 (87)
T 2rpr_A 72 QPD 74 (87)
T ss_dssp CCC
T ss_pred CCc
Confidence 875
No 14
>3hot_A Transposable element mariner, complete CDS; protein-DNA complex, synaptic complex, transposase, inverted DNA, DNA binding protein-DNA complex; HET: 5IU; 3.25A {Drosophila mauritiana} PDB: 3hos_A*
Probab=64.25 E-value=1.4e+02 Score=31.04 Aligned_cols=47 Identities=17% Similarity=0.123 Sum_probs=38.0
Q ss_pred HHHHHHHHHHhhCCCChHHHHHHHHhcCCCccchHHHHHHHHHHhhh
Q 002828 155 EQEANILVDLSRSNISPKEILQTLKQRDMHNVSTIKAIYNARHKYRV 201 (876)
Q Consensus 155 ~~~k~~i~~l~~~~~~p~~I~~~l~~~~~~~~~t~kdi~n~~~~~r~ 201 (876)
.+.+..|..+...|.+.++|...|.+.++....+...+++..++++.
T Consensus 9 ~~~R~~i~~~~~~G~s~~~~~~~l~~~~g~~~vs~~tv~~w~~r~~~ 55 (345)
T 3hot_A 9 EQTRTVLIFCFHLKKTAAESHRMLVEAFGEQVPTVKTCERWFQRFKS 55 (345)
T ss_dssp HHHHHHHHHHHHTTCCHHHHHHHHHHHTCSCSCCHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHhCCCCCcHHHHHHHHHHHhC
Confidence 34566777788899999999999999887666677888888888764
No 15
>3kks_A Integrase, IN; beta-strands flanked by alpha-helices, DNA binding protein; 2.20A {Bovine immunodeficiency virus} PDB: 3kkr_A
Probab=57.32 E-value=28 Score=31.32 Aligned_cols=66 Identities=11% Similarity=-0.031 Sum_probs=43.2
Q ss_pred CceEEEeccccCCCCCCeeEEEEeecCCCCeEEEEEEeeccCccchHHHHHHHHHHhhcCCCCCeEEEeeccHHHHH
Q 002828 253 PSVVMIDCTYKTSMYPFSFLEIVGATSTELTFSIAFAYLESERDDNYIWTLERLRSMMEDDALPRVIVTDKDLALMN 329 (876)
Q Consensus 253 ~~vl~iD~T~~tn~~~~~l~~~~g~~~~~~~~~va~al~~~E~~~s~~w~l~~l~~~~~~~~~P~~ivtD~d~al~~ 329 (876)
.+++.+|.|+..+ .+.++.+|..-+.. +++.+ .+++.+....+|..+.... + |++|.+|.......
T Consensus 2 n~~w~~D~t~~~~-----~y~~~~iD~~sr~~-~~~~~-~~~~~~~~~~~l~~~~~~~-g---p~~i~sDnG~~f~s 67 (152)
T 3kks_A 2 SHLWQMDNTHWNK-----TIIWVAVETNSGLV-EAQVI-PEETALQVALCILQLIQRY-T---VLHLHSDNGPCFTA 67 (152)
T ss_dssp CCEEEEEEEEETT-----EEEEEEEETTTCCE-EEEEE-SSSCHHHHHHHHHHHHHHS-C---CSEEEECSCHHHHS
T ss_pred CcEEEEeeeeeCC-----EEEEEEEEcCCCcE-EEEEe-CCcCHHHHHHHHHHHHHHh-C---CcEEecCCchHhhH
Confidence 3688899998733 25566666655543 55544 4666666666665554443 2 99999999987654
No 16
>1je8_A Nitrate/nitrite response regulator protein NARL; protein-DNA complex, two-component response regulator, helix-turn-helix, DNA bending; 2.12A {Escherichia coli} SCOP: a.4.6.2 PDB: 1zg1_A 1zg5_A
Probab=39.71 E-value=91 Score=24.95 Aligned_cols=45 Identities=24% Similarity=0.282 Sum_probs=24.2
Q ss_pred cccCCCCCCCccccccccCCCHHHHHHHHHHhhCCCChHHHHHHHH
Q 002828 134 GVHNHPVTQHVEGHSYAGRLTEQEANILVDLSRSNISPKEILQTLK 179 (876)
Q Consensus 134 ~~HNH~~~~~~~~~~~~rrl~~~~k~~i~~l~~~~~~p~~I~~~l~ 179 (876)
+.++|++............|++.+++.+.. ...|.+.++|.+.+.
T Consensus 3 ~~~~~~~~~~~~~~~~~~~Lt~~e~~vl~l-~~~g~s~~eIA~~l~ 47 (82)
T 1je8_A 3 GSHHHHHHGSATTERDVNQLTPRERDILKL-IAQGLPNKMIARRLD 47 (82)
T ss_dssp --------------CCGGGSCHHHHHHHHH-HTTTCCHHHHHHHHT
T ss_pred CccCCCCCCchHHHHHHccCCHHHHHHHHH-HHcCCCHHHHHHHHC
Confidence 346666655543344446799999887766 478999999998764
No 17
>3hph_A Integrase, IN; protein-protein complex, tetramer, DNA integration, endonucl magnesium, metal-binding, multifunctional enzyme; 2.64A {Maedi visna virus} PDB: 3hpg_A
Probab=37.03 E-value=74 Score=30.74 Aligned_cols=66 Identities=14% Similarity=0.154 Sum_probs=42.2
Q ss_pred ceEEEeccccCCCCCCeeEEEEeecCCCCeEEEEEEeeccCccchHHHHHHHHHHhhcCCCCCeEEEeeccHHHHHH
Q 002828 254 SVVMIDCTYKTSMYPFSFLEIVGATSTELTFSIAFAYLESERDDNYIWTLERLRSMMEDDALPRVIVTDKDLALMNS 330 (876)
Q Consensus 254 ~vl~iD~T~~tn~~~~~l~~~~g~~~~~~~~~va~al~~~E~~~s~~w~l~~l~~~~~~~~~P~~ivtD~d~al~~A 330 (876)
.++.+|.|+..++ +.++.+|..-+.. .++. +.+++......+|..+.... + |.+|+||.......+
T Consensus 61 ~~w~~D~t~~~~~-----y~~~~iD~~Sr~~-~~~~-~~~~~~~~~~~~l~~~~~~~-g---p~~i~sDnG~~F~s~ 126 (219)
T 3hph_A 61 DHWQVDYTHYEDK-----IILVWVETNSGLI-YAER-VKGETGQEFRVQTMKWYAMF-A---PKSLQSDNGPAFVAE 126 (219)
T ss_dssp CEEEEEEEEETTE-----EEEEEEETTTCCE-EEEE-ESCCCHHHHHHHHHHHHHHH-C---CCEEEECCCHHHHSH
T ss_pred ceEEEEEecCCCE-----EEEEEEeCCCCcE-EEEE-eCCCCHHHHHHHHHHHHHHh-C---CcEEEeCCCchhhhH
Confidence 6778888865432 5556666655544 4444 45666666666665544443 3 999999999876543
No 18
>2xv9_A ABA-1A1 repeat UNIT; lipid binding protein, fatty acid binding, retinol binding,; NMR {Ascaris suum}
Probab=34.17 E-value=44 Score=29.99 Aligned_cols=46 Identities=13% Similarity=0.281 Sum_probs=36.6
Q ss_pred ccCCCCCCCccccccccCCCHHHHHHHHHHhhCCCChHHHHHHHHhcC
Q 002828 135 VHNHPVTQHVEGHSYAGRLTEQEANILVDLSRSNISPKEILQTLKQRD 182 (876)
Q Consensus 135 ~HNH~~~~~~~~~~~~rrl~~~~k~~i~~l~~~~~~p~~I~~~l~~~~ 182 (876)
+|.|.+......+. .+|+++|+..|..|...|-+..+|+..|-+.+
T Consensus 5 ~~~~~le~~~~~~L--sWLt~eQk~EI~kMk~~gksk~~v~~KI~efy 50 (134)
T 2xv9_A 5 FHHFTLESSLDTHL--KWLSQEQKDELLKMKKDGKAKKELEAKILHYY 50 (134)
T ss_dssp TSSSCSGGGTTTTT--TTSCHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred cccCCHHHHHHHHH--HHCCHHHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence 46677666554443 68999999999999999999999988777665
No 19
>1c0m_A Protein (integrase); HIV, X-RAY crystallography, protein structure, transferase; 2.53A {Rous sarcoma virus} SCOP: b.34.7.1 c.55.3.2 PDB: 1c1a_A
Probab=29.78 E-value=1.3e+02 Score=29.41 Aligned_cols=70 Identities=13% Similarity=0.049 Sum_probs=44.6
Q ss_pred CceEEEeccccCCCCCCeeEEEEeecCCCCeEEEEEEeeccCccchHHHHHHHHHHhhcCCCCCeEEEeeccHHHH
Q 002828 253 PSVVMIDCTYKTSMYPFSFLEIVGATSTELTFSIAFAYLESERDDNYIWTLERLRSMMEDDALPRVIVTDKDLALM 328 (876)
Q Consensus 253 ~~vl~iD~T~~tn~~~~~l~~~~g~~~~~~~~~va~al~~~E~~~s~~w~l~~l~~~~~~~~~P~~ivtD~d~al~ 328 (876)
..++.+|.|+.....+ -.+.++.+|.... +.+++.+- +++.+....+|....... + .|.+|.+|......
T Consensus 10 ~~~w~~D~~~~~~~~g-~~yl~~~iD~~Sr-~i~~~~~~-~~~~~~v~~~l~~~~~~~-g--~p~~i~sDnG~~f~ 79 (238)
T 1c0m_A 10 LQIWQTDFTLEPRMAP-RSWLAVTVDTASS-AIVVTQHG-RVTSVAVQHHWATAIAVL-G--RPKAIKTDNGSCFT 79 (238)
T ss_dssp TSEEEEEEEECGGGCS-SCEEEEEEETTTC-CEEEEEES-SCCHHHHHHHHHHHHHHH-C--CCSEEEECSCHHHH
T ss_pred CCEEEEeeccccccCC-CEEEEEEEECCCC-CEEEEEcc-CCCHHHHHHHHHHHHHHh-C--CCcEEEECCCCccc
Confidence 3689999998654333 3455555665443 44566654 666666666665555444 2 48899999998754
No 20
>1cxq_A Avian sarcoma virus integrase; mixed beta-sheet surrounded by alpha-helices, transferase; HET: EPE; 1.02A {Avian sarcoma virus} SCOP: c.55.3.2 PDB: 1cxu_A* 1czb_A* 1cz9_A* 1asu_A* 1asw_A* 1asv_A 1a5v_A* 1a5w_A* 1a5x_A* 1vsf_A* 1vse_A* 3o4n_A* 1vsm_A 3o4q_A* 1vsd_A* 1vsh_A* 1vsi_A* 1vsj_A* 1vsk_A 1vsl_A
Probab=25.71 E-value=1.9e+02 Score=26.10 Aligned_cols=71 Identities=13% Similarity=0.049 Sum_probs=43.8
Q ss_pred CceEEEeccccCCCCCCeeEEEEeecCCCCeEEEEEEeeccCccchHHHHHHHHHHhhcCCCCCeEEEeeccHHHHH
Q 002828 253 PSVVMIDCTYKTSMYPFSFLEIVGATSTELTFSIAFAYLESERDDNYIWTLERLRSMMEDDALPRVIVTDKDLALMN 329 (876)
Q Consensus 253 ~~vl~iD~T~~tn~~~~~l~~~~g~~~~~~~~~va~al~~~E~~~s~~w~l~~l~~~~~~~~~P~~ivtD~d~al~~ 329 (876)
..++.+|.|+.....+ ..+.++.+|...+ +++++.+- +.+.+....+|+.+.... ..|.+|.+|.......
T Consensus 11 ~~~~~~D~~~~~~~~g-~~yl~~~iD~~Sr-~i~~~~~~-~~~~~~v~~~l~~~~~~~---g~p~~i~sDnG~~f~s 81 (162)
T 1cxq_A 11 LQIWQTDFTLEPRMAP-RSWLAVTVDTASS-AIVVTQHG-RVTSVAAQHHWATAIAVL---GRPKAIKTDNGSCFTS 81 (162)
T ss_dssp CCEEEEEEEECGGGTT-SCEEEEEEETTTC-CEEEEEES-SCCHHHHHHHHHHHHHHH---CCCSEEECCSCHHHHS
T ss_pred CCEEEeeeeecccCCC-CEEEEEEEEcCCC-eEEEEECC-CccHHHHHHHHHHHHHHH---CCCeEEEeCCchhhhh
Confidence 3688999988643333 3455666676544 34556554 555555555555444443 3588999999987654
No 21
>3l3u_A POL polyprotein; DNA integration, AIDS, integrase, endonuclease, polynucleotidyl transferase, DNA binding, viral protein; 1.40A {Human immunodeficiency virus 1} PDB: 3ao1_A 3l3v_A* 3ovn_A* 3ao2_A* 3ao3_A* 3ao4_A* 3ao5_A* 2itg_A 1biz_A 1biu_A 1b9d_A 4dmn_A* 2b4j_A 1itg_A 1b92_A 1bl3_A 1bi4_A 1bis_A 1b9f_A 1bi4_B ...
Probab=23.13 E-value=1.3e+02 Score=27.10 Aligned_cols=64 Identities=17% Similarity=0.190 Sum_probs=41.7
Q ss_pred CceEEEeccccCCCCCCeeEEEEeecCCCCeEEEEEEeeccCccchHHHHHHHHHHhhcCCCCCeEEEeeccHHH
Q 002828 253 PSVVMIDCTYKTSMYPFSFLEIVGATSTELTFSIAFAYLESERDDNYIWTLERLRSMMEDDALPRVIVTDKDLAL 327 (876)
Q Consensus 253 ~~vl~iD~T~~tn~~~~~l~~~~g~~~~~~~~~va~al~~~E~~~s~~w~l~~l~~~~~~~~~P~~ivtD~d~al 327 (876)
.+++.+|.|+..+ .+.++.+|...+.. +++.+ .+++.+....+|..+.... + +.+|.+|+....
T Consensus 9 ~~~w~~D~t~~~g-----~y~~~~iD~~sr~~-~~~~~-~~~~~~~~~~~l~~~~~~~-~---~~~i~sD~G~~f 72 (163)
T 3l3u_A 9 PGIWQLDCTHLEG-----KVILVAVHVASGYI-EAEVI-PAETGQETAYFLLKLAGRW-P---VKTVHTDNGSNF 72 (163)
T ss_dssp TTEEEEEEEEETT-----EEEEEEEETTTCCE-EEEEE-SSCCHHHHHHHHHHHHHHS-C---CCEEEECCCGGG
T ss_pred CCEEEEEecccCC-----cEEEEEEecCCCcE-EEEEe-CCCcHHHHHHHHHHHHHHc-C---CcEEeecChHhh
Confidence 4789999998753 25666677665543 55544 5566666666666554443 2 489999998754
No 22
>2x78_A Integrase; viral protein, DNA-directed DNA polyme nucleotidyltransferase, DNA integration, aspartyl protease, recombination, transferase; 2.00A {Human spumaretrovirus} PDB: 2x6n_A 2x6s_A 2x74_A 3dlr_A
Probab=20.56 E-value=2.5e+02 Score=26.20 Aligned_cols=69 Identities=16% Similarity=0.160 Sum_probs=42.2
Q ss_pred ceEEEec-cccCCCCCCeeEEEEeecCCCCeEEEEEEeeccCccchHHHHHHHHHHhhcCCCCCeEEEeeccHHHHH
Q 002828 254 SVVMIDC-TYKTSMYPFSFLEIVGATSTELTFSIAFAYLESERDDNYIWTLERLRSMMEDDALPRVIVTDKDLALMN 329 (876)
Q Consensus 254 ~vl~iD~-T~~tn~~~~~l~~~~g~~~~~~~~~va~al~~~E~~~s~~w~l~~l~~~~~~~~~P~~ivtD~d~al~~ 329 (876)
.++.+|- ++.... ++..+.++.+|..-+. .+++.+ .+.+.+... +.|..++ ....|.+|.+|......+
T Consensus 14 ~~~~~D~~~~~~~~-~g~~y~~~~iD~~Sr~-~~~~~~-~~~~~~~~~---~~l~~~~-~~g~p~~i~sDnG~~f~s 83 (200)
T 2x78_A 14 DKFFIDYIGPLPPS-QGYLYVLVVVDGMTGF-TWLYPT-KAPSTSATV---KSLNVLT-SIAIPRVIHSDQGAAFTS 83 (200)
T ss_dssp SEEEEEEECCCSCB-TTBCEEEEEEETTTCC-EEEEEE-SSSCHHHHH---HHHHHHT-TTCCCSEEEECSCHHHHS
T ss_pred cEEEEEEeCCCccC-CCCeEEEEEEeCCCCc-EEEEEC-CCCCHHHHH---HHHHHHH-HhCCCcEEEecCCcceeh
Confidence 6888997 444333 3456666777765443 455555 555555544 4444444 336789999999987543
Done!