Query 047631
Match_columns 1232
No_of_seqs 362 out of 716
Neff 3.9
Searched_HMMs 46136
Date Fri Mar 29 13:06:53 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/047631.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/047631hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2402 Paf1/RNA polymerase II 100.0 2.9E-32 6.3E-37 314.0 13.0 170 300-480 213-382 (525)
2 KOG1946 RNA polymerase I trans 100.0 1.7E-30 3.7E-35 278.6 9.9 173 55-247 1-180 (240)
3 smart00719 Plus3 Short conserv 100.0 1.3E-29 2.7E-34 243.5 10.4 109 302-412 1-109 (109)
4 PF03126 Plus-3: Plus-3 domain 99.9 5.8E-28 1.2E-32 230.9 9.2 108 306-414 1-108 (108)
5 COG5296 Transcription factor i 99.9 4.3E-25 9.2E-30 245.2 15.5 181 298-491 205-397 (521)
6 KOG2570 SWI/SNF transcription 99.9 1.5E-22 3.3E-27 227.9 8.0 166 160-360 206-387 (420)
7 smart00151 SWIB SWI complex, B 99.8 3.5E-19 7.5E-24 162.1 7.0 71 167-243 7-77 (77)
8 PF02201 SWIB: SWIB/MDM2 domai 99.8 9.8E-20 2.1E-24 165.3 1.4 70 167-242 7-76 (76)
9 COG5531 SWIB-domain-containing 99.7 1.7E-16 3.7E-21 170.5 9.4 74 166-245 126-199 (237)
10 PRK14724 DNA topoisomerase III 99.6 1.5E-15 3.4E-20 190.1 7.1 74 163-242 914-987 (987)
11 KOG1862 GYF domain containing 99.4 2.4E-10 5.3E-15 139.4 29.5 206 1007-1232 457-673 (673)
12 cd00072 GYF GYF domain: contai 99.3 2.5E-12 5.4E-17 112.0 5.1 56 654-710 1-56 (57)
13 smart00444 GYF Contains conser 99.3 3.4E-12 7.4E-17 110.8 4.4 54 655-708 1-54 (56)
14 PF02213 GYF: GYF domain; Int 99.1 3.4E-11 7.3E-16 104.3 0.7 44 655-698 1-44 (57)
15 PRK06319 DNA topoisomerase I/S 99.0 1.6E-10 3.5E-15 144.2 4.5 71 167-243 790-860 (860)
16 PF14237 DUF4339: Domain of un 96.6 0.0019 4.1E-08 53.9 3.4 39 656-695 1-39 (45)
17 smart00356 ZnF_C3H1 zinc finge 95.8 0.0043 9.4E-08 45.7 1.3 22 1211-1232 5-26 (27)
18 PF00642 zf-CCCH: Zinc finger 95.3 0.0034 7.4E-08 47.6 -0.7 23 1210-1232 3-26 (27)
19 PF14608 zf-CCCH_2: Zinc finge 91.3 0.089 1.9E-06 37.4 0.9 19 1212-1232 1-19 (19)
20 KOG3032 Uncharacterized conser 88.7 0.93 2E-05 50.4 6.4 88 400-516 165-253 (264)
21 KOG1040 Polyadenylation factor 86.5 0.39 8.5E-06 55.7 2.1 25 1207-1231 74-98 (325)
22 KOG1677 CCCH-type Zn-finger pr 84.0 0.54 1.2E-05 53.5 1.8 28 1205-1232 172-200 (332)
23 COG5152 Uncharacterized conser 77.8 0.82 1.8E-05 49.9 0.4 10 166-175 37-46 (259)
24 KOG1763 Uncharacterized conser 69.5 1.1 2.4E-05 51.3 -1.0 21 1211-1231 93-113 (343)
25 KOG1999 RNA polymerase II tran 67.2 1.2E+02 0.0025 40.5 15.3 30 328-363 256-285 (1024)
26 KOG0921 Dosage compensation co 66.7 48 0.001 43.8 11.8 28 1055-1082 1155-1182(1282)
27 KOG2522 Filamentous baseplate 63.7 12 0.00025 45.5 5.6 52 173-224 369-420 (560)
28 KOG2202 U2 snRNP splicing fact 63.6 2.8 6E-05 47.5 0.6 17 422-438 87-103 (260)
29 KOG2950 Uncharacterized protei 56.7 11 0.00024 44.3 3.8 42 654-695 287-330 (348)
30 KOG2185 Predicted RNA-processi 56.2 4 8.8E-05 48.7 0.3 26 481-506 58-88 (486)
31 COG4518 Mu-like prophage FluMu 53.1 7.1 0.00015 39.3 1.4 20 663-682 70-89 (122)
32 KOG1492 C3H1-type Zn-finger pr 51.7 7.2 0.00016 43.3 1.3 12 194-205 104-115 (377)
33 KOG2135 Proteins containing th 46.0 17 0.00037 44.4 3.2 22 1211-1232 213-235 (526)
34 PRK05350 acyl carrier protein; 45.0 18 0.0004 33.6 2.7 57 186-245 2-58 (82)
35 PRK15447 putative protease; Pr 44.4 27 0.00058 40.2 4.4 49 28-77 222-270 (301)
36 KOG4274 Positive cofactor 2 (P 42.1 1.3E+02 0.0029 38.0 9.7 118 951-1087 84-201 (742)
37 PRK05828 acyl carrier protein; 37.4 41 0.00088 32.2 3.7 57 186-245 1-57 (84)
38 COG5252 Uncharacterized conser 37.1 7.5 0.00016 43.8 -1.3 20 1212-1231 87-106 (299)
39 KOG1677 CCCH-type Zn-finger pr 29.7 30 0.00065 39.6 1.8 28 1205-1232 127-156 (332)
40 PF05918 API5: Apoptosis inhib 29.7 18 0.00038 45.3 0.0 10 706-715 339-348 (556)
41 KOG1862 GYF domain containing 29.5 29 0.00063 44.2 1.8 143 652-817 201-348 (673)
42 KOG3973 Uncharacterized conser 29.4 2.7E+02 0.006 33.6 9.2 10 1142-1151 408-417 (465)
43 COG5084 YTH1 Cleavage and poly 28.5 25 0.00055 40.7 0.9 21 1212-1232 106-126 (285)
44 PF04570 DUF581: Protein of un 28.0 47 0.001 30.3 2.4 28 16-43 29-57 (58)
45 PRK12449 acyl carrier protein; 27.7 76 0.0016 29.1 3.7 57 186-245 1-57 (80)
46 CHL00124 acpP acyl carrier pro 27.5 49 0.0011 30.5 2.5 57 186-245 1-57 (82)
47 KOG1984 Vesicle coat complex C 27.4 9.7E+02 0.021 32.4 14.1 11 1212-1222 276-286 (1007)
48 KOG1924 RhoA GTPase effector D 27.1 2.7E+02 0.0058 36.8 9.2 87 976-1075 512-608 (1102)
49 cd08305 Pyrin Pyrin: a protein 25.3 1.3E+02 0.0027 28.3 4.7 47 398-445 7-53 (73)
50 KOG0153 Predicted RNA-binding 24.1 37 0.00081 40.3 1.3 20 1212-1231 163-182 (377)
51 KOG1999 RNA polymerase II tran 23.9 2E+03 0.043 29.9 16.1 26 373-398 260-286 (1024)
52 KOG0921 Dosage compensation co 23.4 3.8E+02 0.0082 36.2 9.6 27 944-970 1029-1055(1282)
53 PRK01294 lipase chaperone; Pro 22.6 1.2E+02 0.0026 35.9 5.0 67 417-495 150-220 (336)
54 KOG1040 Polyadenylation factor 22.5 40 0.00087 39.8 1.1 22 1211-1232 106-128 (325)
55 KOG3973 Uncharacterized conser 22.3 3.8E+02 0.0082 32.5 8.7 36 1084-1119 352-389 (465)
56 PF06246 Isy1: Isy1-like splic 21.8 1.4E+02 0.003 34.4 5.1 36 400-444 41-76 (255)
No 1
>KOG2402 consensus Paf1/RNA polymerase II complex, RTF1 component (involved in regulation of TATA box-binding protein) [Transcription]
Probab=99.97 E-value=2.9e-32 Score=313.96 Aligned_cols=170 Identities=24% Similarity=0.313 Sum_probs=163.2
Q ss_pred hhhhcHHHHhhhhhcHHHHHHHhcCcchHHHhhhcceEEEEecCCCCCCCCceEEEEEcCcCcCCcccccCCceecEEEE
Q 047631 300 YAAIDMHNINLIYLRRNFVEELLEDTETFHDKVVGTFARIRISGSAHQKQDLYRLVQVTGTSKGTEPYKVGKRTTDILLE 379 (1232)
Q Consensus 300 ~AAidvedIn~IrLkRsfLe~l~~DPP~Fek~VvGcFVRI~IG~~~~qgq~vYRL~QIvGV~k~~K~YkLG~~~Tnk~L~ 379 (1232)
....++.+++.++|+|++|++||+ .|+|+++|+||||||+||... ++++||||+|+||.++.|+|+++++.||+||.
T Consensus 213 ~~v~~~~dln~~rlsR~~vak~~~-~P~Fe~~V~gCfvRv~ig~~~--~~p~YRv~~I~gV~es~k~Y~l~~~~Tnk~l~ 289 (525)
T KOG2402|consen 213 ARVPSISDLNALRLSRHKVAKWLF-SPFFESTVTGCFVRVGIGGEG--SKPVYRVAEIVGVLESDKPYKLEGVKTNKYLR 289 (525)
T ss_pred cCCCCHHHHHHHHhhHHHHHHHHh-hhHHHHHhhhheEEeeecCcC--CCCceeEEEEeeecccCccccccceeecceee
Confidence 344568999999999999999999 999999999999999999884 88999999999999999999999999999999
Q ss_pred EEeCCceeeEEeEeccCCcCCHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHHhccccHHHHHHHhhhhhhhhhhcc
Q 047631 380 ILNLNKTEVISIDIISNQEFTEDECKRLRQSIKCGLINRLTVGDIQEKAMALQEVRVKDWMEAEILRLSHLRDRASDLGR 459 (1232)
Q Consensus 380 L~~G~keR~f~Id~VSNsdFTEeEfeRw~q~~k~~~~k~PTv~dVeeKa~dIq~ai~~~~teeEI~rL~~LidrA~EKgr 459 (1232)
|+||..+++|+|.+|||++|+++||++|+..|+...+.+||+..|.+|..+|.++++|.|++++|..|+ .||-+
T Consensus 290 ~~~G~s~r~f~m~~iSn~~f~e~Efq~w~~~~~~s~~~~PT~~~i~~K~~~i~~a~~~~~sd~~v~~~v------~~k~~ 363 (525)
T KOG2402|consen 290 VRHGRSERVFRMNFISNGEFTEEEFQDWLRACKNSHGIMPTVDLISRKKLDIVKALNYRLSDKEVDQMV------AEKFE 363 (525)
T ss_pred eecCcchhhcchhhhcCCcccHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHhcCccCcccHHHHH------Hhhhh
Confidence 999999999999999999999999999999999999999999999999999999999999999999999 88888
Q ss_pred cccCCCcHHHHHHHHhhcCCH
Q 047631 460 RKEYPLLYEECVEKLQLLKTP 480 (1232)
Q Consensus 460 r~e~P~n~~ealeK~qLLksp 480 (1232)
++..|.|+ ||+|+.|++..
T Consensus 364 ~~~~p~N~--ameK~~l~k~r 382 (525)
T KOG2402|consen 364 ASPRPRNV--AMEKTGLRKER 382 (525)
T ss_pred cCcCcchH--HHHHHhHHHHH
Confidence 99999999 99999998876
No 2
>KOG1946 consensus RNA polymerase I transcription factor UAF [Transcription]
Probab=99.96 E-value=1.7e-30 Score=278.63 Aligned_cols=173 Identities=40% Similarity=0.622 Sum_probs=117.2
Q ss_pred CCCCchhhhHHHHHHHhhhhcCCChHHHHhhcCCCCCCCCCCCCCCCCcccccccCCCCCCCCCCCCCccccccccchhh
Q 047631 55 DDKNSWEYLFKDYWLDLKVRLSLSSDELARAKNPWKGSDTHAGKQSSPDELYDANVDGGHGSDSSSGNAEATVSKRRKAK 134 (1232)
Q Consensus 55 dDk~s~EyLFK~YW~~lK~ke~LTl~el~~Ak~~~k~~~~~~~k~~s~~e~~~~~~d~~s~sD~~~~~~~~~~sKrrK~k 134 (1232)
+|..+|||||++||+.+|++++||.++|++|.++|.+.+....+.-. .+.++...+. +.. ........|.+..+
T Consensus 1 ~~~~~~~~~~~~~~l~~~~~~~lt~~~vr~~~~~~~~v~~~~~k~~~-~~~~~~~~~~----~~~-~~~k~~~~k~~~~~ 74 (240)
T KOG1946|consen 1 MDSLSWEYLFKDYILSLKDQETLTPDDVRRAMAPRSGVDGTAQKSLL-AKAIDESSDE----DSA-LPVKGSKKKKRGSK 74 (240)
T ss_pred CcchhhhhhhhHHHhcccccccCCHHHHHHHhccccCCCCcchhhhh-hhhhhccccc----ccc-cccccccccccccc
Confidence 47889999999999999999999999999999999986653322211 1222221111 111 11111111100001
Q ss_pred ccccccccCCCCCCccccCCCCCcCCCCCccc-------ccHHHHHHHhhhcCCCCcccCHHHHHHHHHHHHhhcCCCCC
Q 047631 135 KRSKSRAKDEVSPGTVKLSGGEGASTDGSVEW-------ASKELLDLVMHMRNGDKSALSQFDVQTLLLEYIKKYKLRDP 207 (1232)
Q Consensus 135 kr~Ks~~k~~~s~~~~~~~~~~~~~~~~f~~w-------lSpeLaefLG~Ig~dd~~~lSR~dVvk~LWeYIK~nnLQDP 207 (1232)
.+.+...+. ...+.......-+.| +|++|+.|+| .++|+|.+|+++||+|||+||||||
T Consensus 75 ~~~~~~~~~--------~~~~~~~~~~~~~~~g~~kl~~ls~~L~~~~G------~~~lsR~~vvk~iw~YIke~nLqDP 140 (240)
T KOG1946|consen 75 TRSRKPKSL--------ESSGEKNKKKKKASWGSTKLIPLSPSLARFVG------TSELSRTDVVKKIWAYIKEHNLQDP 140 (240)
T ss_pred cccccCccc--------ccccccchhccccCcCcccccccCHHHHhhcc------cccccHHHHHHHHHHHHHHhccCCc
Confidence 111100000 001111111111345 6667777775 6999999999999999999999999
Q ss_pred CCCCccccchhhhhhhCCCccChhhHHHHHHccCCCCCCC
Q 047631 208 QRRTHVICDARLQNLFGKPRVGHFEMLKLLESHFLTKEDS 247 (1232)
Q Consensus 208 ~nKr~IiCDekLr~LFGk~rV~~feI~kLL~~Hl~~~dp~ 247 (1232)
.||+.|+||++|+.|||+++|+||+|+|||.+||.++.+.
T Consensus 141 ~nkr~IlCDekL~~iF~~k~v~~fem~KLL~~H~~~~~d~ 180 (240)
T KOG1946|consen 141 KNKREILCDEKLKSIFGKKRVGMFEMLKLLTKHFLKNQDM 180 (240)
T ss_pred cccCeeeeHHHHHHHhccCccceeeHHHHHHHhccCcccc
Confidence 9999999999999999999999999999999999998874
No 3
>smart00719 Plus3 Short conserved domain in transcriptional regulators. Plus3 domains occur in the Saccharomyces cerevisiae Rtf1p protein, which interacts with Spt6p, and in parsley CIP, which interacts with the bZIP protein CPRF1.
Probab=99.96 E-value=1.3e-29 Score=243.52 Aligned_cols=109 Identities=50% Similarity=0.838 Sum_probs=104.2
Q ss_pred hhcHHHHhhhhhcHHHHHHHhcCcchHHHhhhcceEEEEecCCCCCCCCceEEEEEcCcCcCCcccccCCceecEEEEEE
Q 047631 302 AIDMHNINLIYLRRNFVEELLEDTETFHDKVVGTFARIRISGSAHQKQDLYRLVQVTGTSKGTEPYKVGKRTTDILLEIL 381 (1232)
Q Consensus 302 AidvedIn~IrLkRsfLe~l~~DPP~Fek~VvGcFVRI~IG~~~~qgq~vYRL~QIvGV~k~~K~YkLG~~~Tnk~L~L~ 381 (1232)
++++++|++|+|+|++|++||+ +|+|+++|+||||||+||++++++ ++||||||+||.+..|+|++++++||++|.|+
T Consensus 1 ~~~l~~l~~i~L~R~~l~~~~~-~p~Fe~~v~GcFVRv~ig~~~~~~-~~Yrl~qI~gv~~~~k~Y~~~~~~t~~~L~v~ 78 (109)
T smart00719 1 AIVFDNLNLLRLRRSLVEELLK-PPTFESKVVGCFVRVKIGPNDQKQ-PIYRLVQVTGVKEADKPYELGGKTTNVLLEVL 78 (109)
T ss_pred CCChHHhheEEEEHHHHHHHhc-CCchhHhceEeEEEEEECCCCCCC-CeEEEEEEeeEEecCcceecCCceeeEEEEEe
Confidence 4688999999999999999999 999999999999999999998554 99999999999988999999999999999999
Q ss_pred eCCceeeEEeEeccCCcCCHHHHHHHHHHHH
Q 047631 382 NLNKTEVISIDIISNQEFTEDECKRLRQSIK 412 (1232)
Q Consensus 382 ~G~keR~f~Id~VSNsdFTEeEfeRw~q~~k 412 (1232)
|++.++.|+|++|||++|||+||++|++.|+
T Consensus 79 ~g~~~~~~~i~~iSn~~fte~E~~~w~~~~~ 109 (109)
T smart00719 79 NGDSEKVVQINFISNQDFTEEEFQRWKQAIK 109 (109)
T ss_pred cCCceEEEEEEEecCCCCCHHHHHHHHHHhC
Confidence 9999999999999999999999999999984
No 4
>PF03126 Plus-3: Plus-3 domain; InterPro: IPR004343 The yeast Paf1 complex consists of Pfa1, Rtf1, Cdc73, Ctr9, and Leo1. The complex regulates histone H2B ubiquitination, histone H3 methylation, RNA polymerase II carboxy-terminal domain (CTD) Ser2 phosphorylation, and RNA 3' end processing. The conservation of Paf1 complex function in higher eukaryotes has been confirmed in human cells, Drosophila and Arabidopsis. The Plus3 domain spans the most conserved regions of the Rtf1 protein and is surrounded by regions of low complexity and coiled-coil propensity []. It contains only a limited number of highly conserved amino acids, among which are three positively charged residues that gave the Plus3 domain its name. The capacity to bind single-stranded DNA is at least one function of the Plus3 domain []. The plus-3 domain is about 90 residues in length and is often found associated with the GYF domain (IPR003169 from INTERPRO). The Plus3 domain structure consists of six alpha helices intervened by a sequence of six beta strands in a mixed alpha/beta topology. Beta strands 1, 2, 5, and 6 compose a four-stranded antiparallel beta sheet with a beta-hairpin insertion formed by strands 3 and 4. The N-terminal helices alpha1-alpha3 and C-terminal helix alpha6 pack together to form an alpha subdomain, while the beta strands and the small 3(10) helix alpha 4 form a beta subdomain. The two subdomains pack together to form a compact, globular protein [].; GO: 0003677 DNA binding, 0006352 transcription initiation, DNA-dependent, 0016570 histone modification, 0005634 nucleus; PDB: 2BZE_A 3U1U_B 2DB9_A.
Probab=99.95 E-value=5.8e-28 Score=230.91 Aligned_cols=108 Identities=35% Similarity=0.567 Sum_probs=93.0
Q ss_pred HHHhhhhhcHHHHHHHhcCcchHHHhhhcceEEEEecCCCCCCCCceEEEEEcCcCcCCcccccCCceecEEEEEEeCCc
Q 047631 306 HNINLIYLRRNFVEELLEDTETFHDKVVGTFARIRISGSAHQKQDLYRLVQVTGTSKGTEPYKVGKRTTDILLEILNLNK 385 (1232)
Q Consensus 306 edIn~IrLkRsfLe~l~~DPP~Fek~VvGcFVRI~IG~~~~qgq~vYRL~QIvGV~k~~K~YkLG~~~Tnk~L~L~~G~k 385 (1232)
++|++|+|+|++|++||+ .|+|+++|+||||||+||++++....+||||||+||.+..++|+|++..||++|.|+||+.
T Consensus 1 e~i~~i~l~Rs~l~~~~~-~P~Fe~~v~G~fVRv~ig~~~~~~~~~Yrl~qI~~v~~~~k~Y~~~~~~t~~~L~l~~g~~ 79 (108)
T PF03126_consen 1 EDIKRIRLSRSQLEKWLF-KPFFEDAVVGCFVRVNIGPNDYTQNPVYRLCQIVGVKEGKKPYKLGSKKTNKYLVLRHGNS 79 (108)
T ss_dssp HHHHHTBE-HHHHHHHTT-STTHHHHHTT-EEEEEEETTSSS-E--EEEEEEEEEEEEEEEEEETTEEEEEEEEEEETTE
T ss_pred CchHeEEEEHHHHHHHHc-CCChhHheeEEEEEEEecCCCCCCceeEEEEEEEEEecccccEecCCeEEEEEEEEEECCc
Confidence 589999999999999999 5699999999999999999886666689999999998888999999999999999999999
Q ss_pred eeeEEeEeccCCcCCHHHHHHHHHHHHhC
Q 047631 386 TEVISIDIISNQEFTEDECKRLRQSIKCG 414 (1232)
Q Consensus 386 eR~f~Id~VSNsdFTEeEfeRw~q~~k~~ 414 (1232)
+|.|+|++|||++|||+||++|++.|++.
T Consensus 80 ~r~~~i~~vSn~~~te~E~~~w~~~~~~~ 108 (108)
T PF03126_consen 80 ERDFPIDMVSNSPFTEEEFERWKQSCEKD 108 (108)
T ss_dssp EEEEEGGGBBSS---HHHHHHHHHHH---
T ss_pred eeEEEeEeeECCCCCHHHHHHHHHHhccC
Confidence 99999999999999999999999999863
No 5
>COG5296 Transcription factor involved in TATA site selection and in elongation by RNA polymerase II [Transcription]
Probab=99.92 E-value=4.3e-25 Score=245.22 Aligned_cols=181 Identities=28% Similarity=0.373 Sum_probs=157.5
Q ss_pred hhhhhhcHHHHhhhhhcHHHHHHHhcCcchHHHhhhcceEEEEecCCCCCCCCceEEEEEcCcCcCCcccccCCceecEE
Q 047631 298 DDYAAIDMHNINLIYLRRNFVEELLEDTETFHDKVVGTFARIRISGSAHQKQDLYRLVQVTGTSKGTEPYKVGKRTTDIL 377 (1232)
Q Consensus 298 Dd~AAidvedIn~IrLkRsfLe~l~~DPP~Fek~VvGcFVRI~IG~~~~qgq~vYRL~QIvGV~k~~K~YkLG~~~Tnk~ 377 (1232)
|+++. +-++|.|+|.|+|++++|+ .|.|++.|+|||+||+||.. .++-+||||+|.++....++|.+++..||.|
T Consensus 205 d~~a~--l~Dfn~~rvgR~~VA~~~f-~P~Fed~v~Gcf~Rv~Ig~R--~g~~vyRiv~V~~~~~~~kpy~~~~v~Tn~y 279 (521)
T COG5296 205 DDFAE--LYDFNQCRVGRDMVARNVF-KPIFEDEVIGCFTRVRIGER--GGYLVYRIVGVGKGSTYSKPYGRKEVKTNRY 279 (521)
T ss_pred chhhh--hhhhhhhhhhHHHHHHHhc-ccchhhhhcceeeEEEeccc--CCeeEEEEEEeccceeccccccccceeeeee
Confidence 34443 7799999999999999999 89999999999999999955 5899999999999988899999999999999
Q ss_pred EEEEeCCceeeEEeEeccCCcCCHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHHhccccHHHHHHHhhhhhhhhhh
Q 047631 378 LEILNLNKTEVISIDIISNQEFTEDECKRLRQSIKCGLINRLTVGDIQEKAMALQEVRVKDWMEAEILRLSHLRDRASDL 457 (1232)
Q Consensus 378 L~L~~G~keR~f~Id~VSNsdFTEeEfeRw~q~~k~~~~k~PTv~dVeeKa~dIq~ai~~~~teeEI~rL~~LidrA~EK 457 (1232)
|.|.+|...++|+|..|||++|.++||+||+..++.+.+.+|++..|.+|..+|-.++.+.++++||.+|++..+.
T Consensus 280 l~v~~Gr~~kvF~in~~Sn~pf~~~eyQr~~r~~~~~kl~~PS~~~v~~k~~~l~d~~~~~LSdkeis~~V~~k~e---- 355 (521)
T COG5296 280 LDVSTGRTYKVFRINNISNSPFLREEYQRVWRSFKVGKLSMPSIAKVKEKYDKLVDTMGRRLSDKEISKMVACKDE---- 355 (521)
T ss_pred EeeecCcceeeeEeecccCCcccHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHhCCcCchhHHHHHHHHHHh----
Confidence 9999998889999999999999999999999999999999999999999999999999999999999999955443
Q ss_pred cccccCCCcHHHHHHHHhhcCCH------------HHHHhhhcccc
Q 047631 458 GRRKEYPLLYEECVEKLQLLKTP------------EERQRRLEEIP 491 (1232)
Q Consensus 458 grr~e~P~n~~ealeK~qLLksp------------~Eq~R~L~EVP 491 (1232)
+...|-|. +++|+.|.+.. .|.++-|+++-
T Consensus 356 --~~~k~sNv--i~eKt~Lrqkrq~A~e~~n~k~~~ey~~qL~~~E 397 (521)
T COG5296 356 --VHPKRSNV--IHEKTELRQKRQRAIELKNKKAAMEYQRQLEEIE 397 (521)
T ss_pred --cCccchhH--HHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHH
Confidence 23334455 66777765533 45556665553
No 6
>KOG2570 consensus SWI/SNF transcription activation complex subunit [Chromatin structure and dynamics; Transcription]
Probab=99.87 E-value=1.5e-22 Score=227.86 Aligned_cols=166 Identities=23% Similarity=0.342 Sum_probs=134.8
Q ss_pred CCCCcccccHHHHHHHhhhcCCCCcccCHHHHHHHHHHHHhhcCCCCCCCCCccccchhhhhhhCCCccChhhHHHHHHc
Q 047631 160 TDGSVEWASKELLDLVMHMRNGDKSALSQFDVQTLLLEYIKKYKLRDPQRRTHVICDARLQNLFGKPRVGHFEMLKLLES 239 (1232)
Q Consensus 160 ~~~f~~wlSpeLaefLG~Ig~dd~~~lSR~dVvk~LWeYIK~nnLQDP~nKr~IiCDekLr~LFGk~rV~~feI~kLL~~ 239 (1232)
...|. +||.|+.+|| ..+-||++||.+||.|||.|+||||+++..|+||..|++|||++++.|.+|+.+|++
T Consensus 206 P~~fk--lsp~La~lLG------i~t~Trp~iI~alWqYIk~n~Lqd~~e~~~incD~~l~qif~~~rl~F~elp~~l~~ 277 (420)
T KOG2570|consen 206 PEEFK--LSPRLANLLG------IHTGTRPDIVTALWQYIKTNKLQDPEDSDFINCDKALEQIFGVDRLKFPELPQLLNP 277 (420)
T ss_pred Ccccc--cCHHHHHHhh------hccCcchHHHHHHHHHHHHhccCCcccchhhcchHHHHHhhcccccccccchhhhhh
Confidence 44465 9999999998 466799999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCCCC--------ccccc-CCceecccccccccCCCcchhhccCccccccccccCCCCCCCCC------chhhhhhc
Q 047631 240 HFLTKEDS--------QVDEL-QGSVVDTEANLLEADGSSDALVKGGKDKKRKTRKKGDHRGLQSN------VDDYAAID 304 (1232)
Q Consensus 240 Hl~~~dp~--------~~E~~-~~svyDie~~~VevDd~~d~~mK~~k~~r~k~~kk~~~r~~qsn------lDd~AAid 304 (1232)
||.+++|. +.... ..+||||+ |+|+++...+|. .++.++.. +|+.+.-+
T Consensus 278 lL~P~dPIvi~h~I~v~~~~~~~tacyDId---V~v~~p~~~q~~-------------nfl~~~~~~~eI~alD~kI~~l 341 (420)
T KOG2570|consen 278 LLSPPDPIVIDHTISVDGNDTKVTACYDID---VEVEDPRKSQMS-------------NFLASTESQKEIAALDRKITEL 341 (420)
T ss_pred ccCCCCCeeecceeccCCCcccceeEEeee---eccCCccchhhh-------------hhhcchhhhHHHHHHHHHHHHH
Confidence 99999992 22222 34799995 688887555431 13333333 44444445
Q ss_pred HHHHhhhhhcHHHHHHHhcCcchHHHhhhcceEEEEecCCCCCCCCceEEE-EEcCc
Q 047631 305 MHNINLIYLRRNFVEELLEDTETFHDKVVGTFARIRISGSAHQKQDLYRLV-QVTGT 360 (1232)
Q Consensus 305 vedIn~IrLkRsfLe~l~~DPP~Fek~VvGcFVRI~IG~~~~qgq~vYRL~-QIvGV 360 (1232)
++.||.++.+|+||.+|+.||..|++.|+-+ +.+++.-|+ .+.+-
T Consensus 342 i~~ine~~~rr~Ff~~Fs~dPvefin~wi~S-----------q~~Dlkv~~gd~~~N 387 (420)
T KOG2570|consen 342 IQQINESKERRDFFLEFSKDPVEFINEWIES-----------QSSDLKVLAGDVSGN 387 (420)
T ss_pred HHHHHHHHHHHHHHHHhhhCHHHHHHHHHHh-----------cchhhHHhhccccCC
Confidence 8999999999999999999999999999998 667776665 55544
No 7
>smart00151 SWIB SWI complex, BAF60b domains.
Probab=99.77 E-value=3.5e-19 Score=162.10 Aligned_cols=71 Identities=37% Similarity=0.699 Sum_probs=68.6
Q ss_pred ccHHHHHHHhhhcCCCCcccCHHHHHHHHHHHHhhcCCCCCCCCCccccchhhhhhhCCCccChhhHHHHHHccCCC
Q 047631 167 ASKELLDLVMHMRNGDKSALSQFDVQTLLLEYIKKYKLRDPQRRTHVICDARLQNLFGKPRVGHFEMLKLLESHFLT 243 (1232)
Q Consensus 167 lSpeLaefLG~Ig~dd~~~lSR~dVvk~LWeYIK~nnLQDP~nKr~IiCDekLr~LFGk~rV~~feI~kLL~~Hl~~ 243 (1232)
+|++|++||| .+++||.+|+++||+|||.||||||++|+.|+||++|++|||+++|.+++|+++|++||.+
T Consensus 7 ls~~L~~~lg------~~~~tr~ev~~~lw~YIk~n~L~d~~~k~~i~~D~~L~~l~~~~~v~~~~~~~ll~~Hl~~ 77 (77)
T smart00151 7 LSPELAKVLG------APEMTRTEIIKRLWEYIKEHNLQDPQNKREILCDSKLEQIFGKDRMDMFEMNKLLTPHLIK 77 (77)
T ss_pred CCHHHHHHhC------CCcCcHHHHHHHHHHHHHHhcccCCccCCEEecCHHHHHHHCcCeecHHHHHHHHHHHcCC
Confidence 8999999997 4889999999999999999999999999999999999999999999999999999999974
No 8
>PF02201 SWIB: SWIB/MDM2 domain; InterPro: IPR003121 The SWI/SNF family of complexes, which are conserved from yeast to humans, are ATP-dependent chromatin-remodelling proteins that facilitate transcription activation []. The mammalian complexes are made up of 9-12 proteins called BAFs (BRG1-associated factors). The BAF60 family have at least three members: BAF60a, which is ubiquitous, BAF60b and BAF60c, which are expressed in muscle and pancreatic tissues, respectively. BAF60b is present in alternative forms of the SWI/SNF complex, including complex B (SWIB), which lacks BAF60a. The SWIB domain is a conserved region found within the BAF60b proteins [], and can be found fused to the C terminus of DNA topoisomerase in Chlamydia. MDM2 is an oncoprotein that acts as a cellular inhibitor of the p53 tumour suppressor by binding to the transactivation domain of p53 and suppressing its ability to activate transcription []. p53 acts in response to DNA damage, inducing cell cycle arrest and apoptosis. Inactivation of p53 is a common occurrence in neoplastic transformations. The core of MDM2 folds into an open bundle of four helices, which is capped by two small 3-stranded beta-sheets. It consists of a duplication of two structural repeats. MDM2 has a deep hydrophobic cleft on which the p53 alpha-helix binds; p53 residues involved in transactivation are buried deep within the cleft of MDM2, thereby concealing the p53 transactivation domain. The SWIB and MDM2 domains are homologous and share a common fold.; GO: 0005515 protein binding; PDB: 1V31_A 3FE7_A 3JZQ_B 3EQY_B 2VYR_A 3JZO_A 3DAB_E 3LBJ_E 3FEA_A 3FDO_A ....
Probab=99.76 E-value=9.8e-20 Score=165.32 Aligned_cols=70 Identities=40% Similarity=0.710 Sum_probs=65.7
Q ss_pred ccHHHHHHHhhhcCCCCcccCHHHHHHHHHHHHhhcCCCCCCCCCccccchhhhhhhCCCccChhhHHHHHHccCC
Q 047631 167 ASKELLDLVMHMRNGDKSALSQFDVQTLLLEYIKKYKLRDPQRRTHVICDARLQNLFGKPRVGHFEMLKLLESHFL 242 (1232)
Q Consensus 167 lSpeLaefLG~Ig~dd~~~lSR~dVvk~LWeYIK~nnLQDP~nKr~IiCDekLr~LFGk~rV~~feI~kLL~~Hl~ 242 (1232)
+|++|++||| ..++||.+|+++||+|||+|+||||++|+.|+||++|++|||+++|.+++|+++|.+||.
T Consensus 7 ls~~L~~~lg------~~~~sr~~v~~~lw~YIk~~~L~dp~~k~~I~cD~~L~~lf~~~~v~~~~i~~~l~~hl~ 76 (76)
T PF02201_consen 7 LSPELAEFLG------EDELSRSEVVKRLWQYIKENNLQDPKDKRIIICDEKLKKLFGKDSVNFFEIPKLLKPHLI 76 (76)
T ss_dssp HHHHHHHHTT-------SCEEHHHHHHHHHHHHHHTTSBESSSTTEEE-TTSHHHHHHTSECSEEETTHHHHHHHE
T ss_pred CCHHHHHHhC------CCCCCHHHHHHHHHHHHHHhcCCCcccCceEecCHHHHHHhCCCeecHhhHHHHHHHhcC
Confidence 8999999998 466999999999999999999999999999999999999999999999999999999973
No 9
>COG5531 SWIB-domain-containing proteins implicated in chromatin remodeling [Chromatin structure and dynamics]
Probab=99.66 E-value=1.7e-16 Score=170.46 Aligned_cols=74 Identities=26% Similarity=0.470 Sum_probs=70.8
Q ss_pred cccHHHHHHHhhhcCCCCcccCHHHHHHHHHHHHhhcCCCCCCCCCccccchhhhhhhCCCccChhhHHHHHHccCCCCC
Q 047631 166 WASKELLDLVMHMRNGDKSALSQFDVQTLLLEYIKKYKLRDPQRRTHVICDARLQNLFGKPRVGHFEMLKLLESHFLTKE 245 (1232)
Q Consensus 166 wlSpeLaefLG~Ig~dd~~~lSR~dVvk~LWeYIK~nnLQDP~nKr~IiCDekLr~LFGk~rV~~feI~kLL~~Hl~~~d 245 (1232)
-+|+.||.||| ..++||++||+.||+|||.||||||++||.|+||++|+.|||.+.+.||+|.++|.+|+.+..
T Consensus 126 ~lS~~La~ilG------~~~~tr~~~v~~lw~YIk~h~lq~~~nkr~I~~D~~L~~v~g~~p~~mf~~~k~l~~hl~~~~ 199 (237)
T COG5531 126 KLSPKLAAILG------LEPGTRPEAVKKLWKYIKKHNLQDPNNKRLILCDSKLKKVLGSDPIDMFELTKPLSPHLIKYT 199 (237)
T ss_pred ecCHHHHHHhC------CCCCCccHHHHHHHHHHHHhcCCCccccceecccHHHHHHhCCCchhhhhhhcccccceecCc
Confidence 39999999998 588999999999999999999999999999999999999999999999999999999999854
No 10
>PRK14724 DNA topoisomerase III; Provisional
Probab=99.57 E-value=1.5e-15 Score=190.06 Aligned_cols=74 Identities=27% Similarity=0.433 Sum_probs=69.9
Q ss_pred CcccccHHHHHHHhhhcCCCCcccCHHHHHHHHHHHHhhcCCCCCCCCCccccchhhhhhhCCCccChhhHHHHHHccCC
Q 047631 163 SVEWASKELLDLVMHMRNGDKSALSQFDVQTLLLEYIKKYKLRDPQRRTHVICDARLQNLFGKPRVGHFEMLKLLESHFL 242 (1232)
Q Consensus 163 f~~wlSpeLaefLG~Ig~dd~~~lSR~dVvk~LWeYIK~nnLQDP~nKr~IiCDekLr~LFGk~rV~~feI~kLL~~Hl~ 242 (1232)
+..-+|++|++||| ..+++|++|+++||+|||+|+||||+|||.|+||++|+.|||+++|.||+|+++|++||.
T Consensus 914 ~~~~ls~~La~~lg------~~~~~r~~v~~~lW~YIK~~~Lqdp~~k~~i~cD~~L~~vfg~~~~~~~~~~~~l~~hl~ 987 (987)
T PRK14724 914 AGLKPSAALAAVIG------AEPVARPEVIKKLWDYIKANNLQDPADKRAINADAKLRPVFGKDQVTMFELAGIVGKHLS 987 (987)
T ss_pred cccCCCHHHHHHhC------CCcCCHHHHHHHHHHHHHHccCCCcccCCeeccchHHHHHhCCCcccHHHHHHHHHHhcC
Confidence 34559999999997 578999999999999999999999999999999999999999999999999999999984
No 11
>KOG1862 consensus GYF domain containing proteins [General function prediction only]
Probab=99.36 E-value=2.4e-10 Score=139.41 Aligned_cols=206 Identities=7% Similarity=-0.116 Sum_probs=117.6
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcccCC-CCCCCCCCCCCCCCCccccCCCCCCCCCccCCCCCCCccCCCc
Q 047631 1007 QSGMPASDSWRAPVPSQSNVQSPAQPITPWGMGVAG-NQSAVPRQVPESQNTGWGQMPANPSMGWGGQLPASTNMNWGAP 1085 (1232)
Q Consensus 1007 ~~g~~~~~~w~~~~~~~~n~~~~~~~~~~wG~~~~~-n~~~~~~~~~~nqn~~w~~~~~~~nm~wg~~~p~~~N~~Wg~~ 1085 (1232)
..+....++|.+.+..+.+..... .|++.... |+....-+..+.+++-|.+...+.++.|....+...+..|...
T Consensus 457 ~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~n~~s~~~~~~~~~~s~~~~~~~~~~~s~~~~~~~~~~~~~~~~ 532 (673)
T KOG1862|consen 457 IPSLDVGSSLPPSQFEPEQKRAQE----QVQGVREDANQQSQLSNDMADAPSPLSSAQDSSSLSHLQTKQQSKSTLEEQS 532 (673)
T ss_pred ccccccccccccccccchhhhccc----cccccccccchhhhhhhhhhhcccccccCCCCCcccccccccccccccccCC
Confidence 355666777777766665554444 48887766 7888888888999999999999999999998888888888532
Q ss_pred c-CcCCCCCCCCCCCCCcCCCCCCCCCCCCCCCC----CCCCC-----CccCccccCCCCCCCCCCCCCCCCCCCCCCCC
Q 047631 1086 A-QGQAPGNAHSGWAGPAQGQAHKNAVPGWAPPG----QGPSP-----VNANTGWVAPGQGPPPGNGNPGWGAPAGNPGM 1155 (1232)
Q Consensus 1086 ~-qg~~~~n~n~~w~~p~qg~~~~na~~gW~~p~----qg~~~-----~nan~gW~~pgQg~~~gn~n~~w~~p~gnpg~ 1155 (1232)
- .++.+.--.-.|.++.....+......|..+. |.... .+....|+..++.+...|.++.|.--.-..=.
T Consensus 533 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 612 (673)
T KOG1862|consen 533 PLPSASQQSKVQKGLDQLRSEPQLSQKTLQEQQVSPKQQSSSQQISQLKAKDSSPSQLGTSPSANNVSKRQEFIRWCKSQ 612 (673)
T ss_pred CccccccccchhcccchhhcccccccccccccccchhhhcccccccccccCCCccccccccccccccchhhHHHHHHHhh
Confidence 2 13333334444445556666666666666433 22222 22233577777777777766665432100000
Q ss_pred CCCCCCCCCCCcccCCCCCCCCCCCCCCCCCCCcCCCCCCCCCCCCCCCCCCCCceEEEeeccccccCCCCCCCCCC
Q 047631 1156 WGSDQNNGGDRFSNQRDRGSHGGDSGYGGGRPWNRQPSFGSRGGDSSRPHFNKGQRVCKFHESGHCKKGSQCDYLHT 1232 (1232)
Q Consensus 1156 wg~~~~~~~~r~s~~~d~~~~~~dsg~~~g~~w~~q~~~g~~ggg~~~~~~~~gq~vc~~~~~g~C~~g~~c~y~h~ 1232 (1232)
|+.....-. .+.. --..-.+++++ |..++. -+....+.+=+.|.+...+ |.-..+|..+|+
T Consensus 613 ~~~~~~~~~--~~~~--~~~~~~~~~~~----~~~~~~-------~~~~~~~~~~~~~~~~~~~-~~~~~s~~~~~~ 673 (673)
T KOG1862|consen 613 QKLNSGSQP--VLEM--LLSQPPGANSK----EAIQEG-------IYANLSTMDLKRFATSFIK-CKDPLSWSEILA 673 (673)
T ss_pred hhccCCccc--chhh--hhcCCCCCCcc----eecCcc-------cccccccccccccCchhhc-cCCccchhhccC
Confidence 000000000 0000 00011122222 566552 1122222333578777777 999999999885
No 12
>cd00072 GYF GYF domain: contains conserved Gly-Tyr-Phe residues; Proline-binding domain in CD2-binding and other proteins. Involved in signaling lymphocyte activity. Also present in other unrelated proteins (mainly unknown) derived from diverse eukaryotic species.
Probab=99.30 E-value=2.5e-12 Score=112.00 Aligned_cols=56 Identities=39% Similarity=0.805 Sum_probs=50.0
Q ss_pred CCceeecCCCCCccCCCcHHHHhhhhcCCCCCCCceeeecCccccchhhhHHHHhcc
Q 047631 654 EKIWHYQDPSGKVQGPFSMVQLRKWNNTGYFPANLRIWRSNEKQDDSILLTDALAGK 710 (1232)
Q Consensus 654 ~~~W~y~dP~G~vqGPFs~~~L~~W~~~gyF~~~l~Vwrt~e~~d~silL~daL~~~ 710 (1232)
+.+|+|+||+|+|||||+..+|+.|.+.|||+++|+|+|.+ ...+-+.|.+++..+
T Consensus 1 ~~~W~Y~d~~g~vqGPF~~~~M~~W~~~gyF~~~l~vr~~~-~~~~f~~l~~~~~~l 56 (57)
T cd00072 1 EVQWFYKDPQGEIQGPFSASQMLQWYQAGYFPDGLQVRRLD-NGGEFYTLGDILFDL 56 (57)
T ss_pred CcEEEEECCCCCCcCCcCHHHHHHHHHCCCCCCCeEEEECC-CCCCcEEHHHHHhhh
Confidence 36899999999999999999999999999999999999998 445677999988643
No 13
>smart00444 GYF Contains conserved Gly-Tyr-Phe residues. Proline-binding domain in CD2-binding protein. Contains conserved Gly-Tyr-Phe residues.
Probab=99.27 E-value=3.4e-12 Score=110.75 Aligned_cols=54 Identities=43% Similarity=0.859 Sum_probs=50.4
Q ss_pred CceeecCCCCCccCCCcHHHHhhhhcCCCCCCCceeeecCccccchhhhHHHHh
Q 047631 655 KIWHYQDPSGKVQGPFSMVQLRKWNNTGYFPANLRIWRSNEKQDDSILLTDALA 708 (1232)
Q Consensus 655 ~~W~y~dP~G~vqGPFs~~~L~~W~~~gyF~~~l~Vwrt~e~~d~silL~daL~ 708 (1232)
.+|+|+||+|+|||||+..+|+.|...|||+++|+|+|+++.+.+.+.+.+.|.
T Consensus 1 ~~W~Y~d~~~~iqGPf~~~~M~~W~~~gyF~~~l~vr~~~~~~~~~l~~~~~i~ 54 (56)
T smart00444 1 VLWLYKDPDGEIQGPFTASQMSQWYQAGYFPDSLQIKRLNEPPYDTLGDLDRLL 54 (56)
T ss_pred CEEEEECCCCCEeCCcCHHHHHHHHHCCCCCCCeEEEEcCCCCCCcchhhhhee
Confidence 379999999999999999999999999999999999999999888888877764
No 14
>PF02213 GYF: GYF domain; InterPro: IPR003169 The glycine-tyrosine-phenylalanine (GYF) domain is an around 60-amino acid domain which contains a conserved GP[YF]xxxx[MV]xxWxxx[GN]YF motif. It was identified in the human intracellular protein termed CD2 binding protein 2 (CD2BP2), which binds to a site containing two tandem PPPGHR segments within the cytoplasmic region of CD2. Binding experiments and mutational analyses have demonstrated the critical importance of the GYF tripeptide in ligand binding. A GYF domain is also found in several other eukaryotic proteins of unknown function []. It has been proposed that the GYF domain found in these proteins could also be involved in proline-rich sequence recognition []. Resolution of the structure of the CD2BP2 GYF domain by NMR spectroscopy revealed a compact domain with a beta-beta-alpha-beta-beta topology, where the single alpha-helix is tilted away from the twisted, anti-parallel beta-sheet. The conserved residues of the GYF domain create a contiguous patch of predominantly hydrophobic nature which forms an integral part of the ligand-binding site []. There is limited homology within the C-terminal 20-30 amino acids of various GYF domains, supporting the idea that this part of the domain is structurally but not functionally important [].; GO: 0005515 protein binding; PDB: 1SYX_F 1L2Z_A 1GYF_A 1WH2_A 3FMA_C 3K3V_A.
Probab=99.05 E-value=3.4e-11 Score=104.35 Aligned_cols=44 Identities=45% Similarity=1.045 Sum_probs=39.0
Q ss_pred CceeecCCCCCccCCCcHHHHhhhhcCCCCCCCceeeecCcccc
Q 047631 655 KIWHYQDPSGKVQGPFSMVQLRKWNNTGYFPANLRIWRSNEKQD 698 (1232)
Q Consensus 655 ~~W~y~dP~G~vqGPFs~~~L~~W~~~gyF~~~l~Vwrt~e~~d 698 (1232)
++|+|+||.|++||||+..+|+.|...|||+++|+|+|.++...
T Consensus 1 ~~W~Y~d~~g~~qGPf~~~~M~~W~~~gyF~~~l~vr~~~~~~~ 44 (57)
T PF02213_consen 1 KMWYYKDPDGNIQGPFSSEQMQAWYKQGYFPDDLQVRRVDDTQF 44 (57)
T ss_dssp -EEEEESTTS-EEEEEEHHHHHHHHHTTSSTTT-EEEETTSTTT
T ss_pred CEeEEECCCCCcCCCcCHHHHHHHHHCCCCCCCcEEEEecCCCC
Confidence 58999999999999999999999999999999999999977654
No 15
>PRK06319 DNA topoisomerase I/SWI domain fusion protein; Validated
Probab=99.01 E-value=1.6e-10 Score=144.18 Aligned_cols=71 Identities=23% Similarity=0.442 Sum_probs=68.2
Q ss_pred ccHHHHHHHhhhcCCCCcccCHHHHHHHHHHHHhhcCCCCCCCCCccccchhhhhhhCCCccChhhHHHHHHccCCC
Q 047631 167 ASKELLDLVMHMRNGDKSALSQFDVQTLLLEYIKKYKLRDPQRRTHVICDARLQNLFGKPRVGHFEMLKLLESHFLT 243 (1232)
Q Consensus 167 lSpeLaefLG~Ig~dd~~~lSR~dVvk~LWeYIK~nnLQDP~nKr~IiCDekLr~LFGk~rV~~feI~kLL~~Hl~~ 243 (1232)
+|++|+.|+| ..+++|.++++.||+|||+|+||||++||.|+||++|+++||++++.||+|+++|+.||.+
T Consensus 790 ~S~~La~~~g------~~~~sr~~~~~~lw~yIk~~~lqdp~~Kr~i~~d~kl~kvf~~~~~~~~~~~k~l~~hl~~ 860 (860)
T PRK06319 790 PSPALAAMIG------AEPVGRGEATKKVWDYIKEHGLQSPENKKLIIPDSKLQGVIGPDPIDMFQLSKKLSQHLIK 860 (860)
T ss_pred cccccccccC------cCccCchHHHHHHHHHHHHhcccCccccccCCCchhhhhhhCcCccchhhhHHHHHhhhcC
Confidence 7999999996 5789999999999999999999999999999999999999999999999999999999864
No 16
>PF14237 DUF4339: Domain of unknown function (DUF4339)
Probab=96.61 E-value=0.0019 Score=53.90 Aligned_cols=39 Identities=31% Similarity=0.716 Sum_probs=36.6
Q ss_pred ceeecCCCCCccCCCcHHHHhhhhcCCCCCCCceeeecCc
Q 047631 656 IWHYQDPSGKVQGPFSMVQLRKWNNTGYFPANLRIWRSNE 695 (1232)
Q Consensus 656 ~W~y~dP~G~vqGPFs~~~L~~W~~~gyF~~~l~Vwrt~e 695 (1232)
.|||.+ .|+.+|||++++|++.-..|...++=.||+.|-
T Consensus 1 ~Wy~~~-~g~~~GP~s~~el~~l~~~g~i~~~tlvw~~g~ 39 (45)
T PF14237_consen 1 EWYYAR-NGQQQGPFSLEELRQLISSGEIDPDTLVWKEGM 39 (45)
T ss_pred CEEEeC-CCeEECCcCHHHHHHHHHcCCCCCCCeEeCCCh
Confidence 499999 999999999999999999999999999999764
No 17
>smart00356 ZnF_C3H1 zinc finger.
Probab=95.77 E-value=0.0043 Score=45.70 Aligned_cols=22 Identities=36% Similarity=1.038 Sum_probs=20.5
Q ss_pred eEEEeeccccccCCCCCCCCCC
Q 047631 1211 RVCKFHESGHCKKGSQCDYLHT 1232 (1232)
Q Consensus 1211 ~vc~~~~~g~C~~g~~c~y~h~ 1232 (1232)
.+|++|+.|.|+.|.+|.|+|.
T Consensus 5 ~~C~~~~~g~C~~g~~C~~~H~ 26 (27)
T smart00356 5 ELCKFFKRGYCPYGDRCKFAHP 26 (27)
T ss_pred CcCcCccCCCCCCCCCcCCCCc
Confidence 4999999999999999999995
No 18
>PF00642 zf-CCCH: Zinc finger C-x8-C-x5-C-x3-H type (and similar); InterPro: IPR000571 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents C-x8-C-x5-C-x3-H (CCCH) type Zinc finger (Znf) domains. Proteins containing CCCH Znf domains include Znf proteins from eukaryotes involved in cell cycle or growth phase-related regulation, e.g. human TIS11B (butyrate response factor 1), a probable regulatory protein involved in regulating the response to growth factors, and the mouse TTP growth factor-inducible nuclear protein, which has the same function. The mouse TTP protein is induced by growth factors. Another protein containing this domain is the human splicing factor U2AF 35kDa subunit, which plays a critical role in both constitutive and enhancer-dependent splicing by mediating essential protein-protein interactions and protein-RNA interactions required for 3' splice site selection. It has been shown that different CCCH-type Znf proteins interact with the 3'-untranslated region of various mRNA [, ]. This type of Znf is very often present in two copies. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 1M9O_A 1RGO_A 2CQE_A 2FC6_A 2D9M_A 2E5S_A 2RHK_C 2D9N_A 3D2S_A 3D2Q_C ....
Probab=95.30 E-value=0.0034 Score=47.61 Aligned_cols=23 Identities=30% Similarity=1.013 Sum_probs=17.2
Q ss_pred ceEEEee-ccccccCCCCCCCCCC
Q 047631 1210 QRVCKFH-ESGHCKKGSQCDYLHT 1232 (1232)
Q Consensus 1210 q~vc~~~-~~g~C~~g~~c~y~h~ 1232 (1232)
..+|++| +.|.|+.|++|.|.|+
T Consensus 3 ~~~C~~f~~~g~C~~G~~C~f~H~ 26 (27)
T PF00642_consen 3 TKLCRFFMRTGTCPFGDKCRFAHG 26 (27)
T ss_dssp SSB-HHHHHTS--TTGGGSSSBSS
T ss_pred cccChhhccCCccCCCCCcCccCC
Confidence 3599877 6699999999999995
No 19
>PF14608 zf-CCCH_2: Zinc finger C-x8-C-x5-C-x3-H type
Probab=91.31 E-value=0.089 Score=37.38 Aligned_cols=19 Identities=37% Similarity=1.034 Sum_probs=16.6
Q ss_pred EEEeeccccccCCCCCCCCCC
Q 047631 1212 VCKFHESGHCKKGSQCDYLHT 1232 (1232)
Q Consensus 1212 vc~~~~~g~C~~g~~c~y~h~ 1232 (1232)
.|+|+.. |+++.+|.|.||
T Consensus 1 ~Ck~~~~--C~~~~~C~f~HP 19 (19)
T PF14608_consen 1 PCKFGPN--CTNGDNCPFSHP 19 (19)
T ss_pred CCcCcCC--CCCCCcCccCCc
Confidence 4887765 999999999997
No 20
>KOG3032 consensus Uncharacterized conserved protein [Function unknown]
Probab=88.66 E-value=0.93 Score=50.41 Aligned_cols=88 Identities=25% Similarity=0.240 Sum_probs=55.3
Q ss_pred CHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHHhccccHHHHHHHhhhhhhhhhhcccccCCCcHHHHHHHHhhcCC
Q 047631 400 TEDECKRLRQSIKCGLINRLTVGDIQEKAMALQEVRVKDWMEAEILRLSHLRDRASDLGRRKEYPLLYEECVEKLQLLKT 479 (1232)
Q Consensus 400 TEeEfeRw~q~~k~~~~k~PTv~dVeeKa~dIq~ai~~~~teeEI~rL~~LidrA~EKgrr~e~P~n~~ealeK~qLLks 479 (1232)
-++||+||.+.|+... .++..++++.++++....-.+||..-+ +|.+|...|+.
T Consensus 165 ~d~Ey~rfqkeI~~~~------tesd~iveEeeed~~l~reieeidEQi--------------------~~~kkvekl~~ 218 (264)
T KOG3032|consen 165 IDDEYKRFQKEIQDDL------TESDSIVEEEEEDAALTREIEEIDEQI--------------------SYKKKVEKLKR 218 (264)
T ss_pred HHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHH--------------------HHHHHHHHHHH
Confidence 3789999999999886 677888888888887766666665432 35556555554
Q ss_pred H-HHHHhhhccccccccCCCCCCCCCCcccCCCcchhh
Q 047631 480 P-EERQRRLEEIPEIHSDPNMDPSYESEEDDGETDDKR 516 (1232)
Q Consensus 480 p-~Eq~R~L~EVPevi~d~~~~p~~es~ed~~e~~~~~ 516 (1232)
. +|++.-++| +..--.+.++.|+.+|++|-+|.-
T Consensus 219 qK~ellnkkRe---~~~k~ev~ke~eesddDgeddDl~ 253 (264)
T KOG3032|consen 219 QKMELLNKKRE---KTSKGEVKKEEEESDDDGEDDDLS 253 (264)
T ss_pred HHHHHHHHHhh---cccccccCcccccCccccchhhhh
Confidence 3 333322222 222223344666667777776654
No 21
>KOG1040 consensus Polyadenylation factor I complex, subunit, Yth1 (CPSF subunit) [RNA processing and modification]
Probab=86.46 E-value=0.39 Score=55.72 Aligned_cols=25 Identities=52% Similarity=1.140 Sum_probs=22.7
Q ss_pred CCCceEEEeeccccccCCCCCCCCC
Q 047631 1207 NKGQRVCKFHESGHCKKGSQCDYLH 1231 (1232)
Q Consensus 1207 ~~gq~vc~~~~~g~C~~g~~c~y~h 1231 (1232)
..|..||||+-+|-|+||..|.|+|
T Consensus 74 ~~~~~vcK~~l~glC~kgD~C~Flh 98 (325)
T KOG1040|consen 74 SRGKVVCKHWLRGLCKKGDQCEFLH 98 (325)
T ss_pred cCCceeehhhhhhhhhccCcCcchh
Confidence 3566699999999999999999999
No 22
>KOG1677 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=83.98 E-value=0.54 Score=53.48 Aligned_cols=28 Identities=36% Similarity=0.885 Sum_probs=22.8
Q ss_pred CCCCCceEE-EeeccccccCCCCCCCCCC
Q 047631 1205 HFNKGQRVC-KFHESGHCKKGSQCDYLHT 1232 (1232)
Q Consensus 1205 ~~~~gq~vc-~~~~~g~C~~g~~c~y~h~ 1232 (1232)
+.+-+..+| +|.+.|+|+.|..|.|.|+
T Consensus 172 ~~~~kt~lC~~f~~tG~C~yG~rC~F~H~ 200 (332)
T KOG1677|consen 172 PPKYKTKLCPKFQKTGLCKYGSRCRFIHG 200 (332)
T ss_pred CCCCCCcCCCccccCCCCCCCCcCeecCC
Confidence 444667799 5557799999999999996
No 23
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=77.76 E-value=0.82 Score=49.89 Aligned_cols=10 Identities=30% Similarity=0.448 Sum_probs=5.1
Q ss_pred cccHHHHHHH
Q 047631 166 WASKELLDLV 175 (1232)
Q Consensus 166 wlSpeLaefL 175 (1232)
-.|-.|..+-
T Consensus 37 K~s~~L~~L~ 46 (259)
T COG5152 37 KGSSDLMSLA 46 (259)
T ss_pred cchhHHHHHH
Confidence 3455555554
No 24
>KOG1763 consensus Uncharacterized conserved protein, contains CCCH-type Zn-finger [General function prediction only]
Probab=69.48 E-value=1.1 Score=51.28 Aligned_cols=21 Identities=43% Similarity=1.133 Sum_probs=19.1
Q ss_pred eEEEeeccccccCCCCCCCCC
Q 047631 1211 RVCKFHESGHCKKGSQCDYLH 1231 (1232)
Q Consensus 1211 ~vc~~~~~g~C~~g~~c~y~h 1231 (1232)
.||.||-.|.|.||..|+|+|
T Consensus 93 vvCafFk~g~C~KG~kCKFsH 113 (343)
T KOG1763|consen 93 VVCAFFKQGTCTKGDKCKFSH 113 (343)
T ss_pred HHHHHHhccCCCCCCcccccc
Confidence 489999999999999999998
No 25
>KOG1999 consensus RNA polymerase II transcription elongation factor DSIF/SUPT5H/SPT5 [Transcription]
Probab=67.15 E-value=1.2e+02 Score=40.54 Aligned_cols=30 Identities=20% Similarity=0.223 Sum_probs=21.7
Q ss_pred HHHhhhcceEEEEecCCCCCCCCceEEEEEcCcCcC
Q 047631 328 FHDKVVGTFARIRISGSAHQKQDLYRLVQVTGTSKG 363 (1232)
Q Consensus 328 Fek~VvGcFVRI~IG~~~~qgq~vYRL~QIvGV~k~ 363 (1232)
-++.-.|+||||+.|... =-||||..|...
T Consensus 256 ~v~L~~gswVRiKrG~YK------gDLAqVd~Vd~~ 285 (1024)
T KOG1999|consen 256 VVQLSEGSWVRIKRGKYK------GDLAQVDDVDEN 285 (1024)
T ss_pred hhccCccceEEEeccccc------cceeeeeeeccc
Confidence 345667999999999653 247888888643
No 26
>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]
Probab=66.70 E-value=48 Score=43.77 Aligned_cols=28 Identities=25% Similarity=0.464 Sum_probs=17.5
Q ss_pred CCCccccCCCCCCCCCccCCCCCCCccC
Q 047631 1055 QNTGWGQMPANPSMGWGGQLPASTNMNW 1082 (1232)
Q Consensus 1055 qn~~w~~~~~~~nm~wg~~~p~~~N~~W 1082 (1232)
|++-.+-.|++|-|.---.-|.|-|.+.
T Consensus 1155 ~StrygDGp~PPKmaryDnG~~~n~Sgy 1182 (1282)
T KOG0921|consen 1155 DSTRYGDGPGPPKMARYDNGPSNNNSGY 1182 (1282)
T ss_pred ccccccCCCCCcccccccCCCccCcccc
Confidence 4555667888887765444455666655
No 27
>KOG2522 consensus Filamentous baseplate protein Ligatin, contains PUA domain [Translation, ribosomal structure and biogenesis]
Probab=63.71 E-value=12 Score=45.52 Aligned_cols=52 Identities=19% Similarity=0.314 Sum_probs=42.4
Q ss_pred HHHhhhcCCCCcccCHHHHHHHHHHHHhhcCCCCCCCCCccccchhhhhhhC
Q 047631 173 DLVMHMRNGDKSALSQFDVQTLLLEYIKKYKLRDPQRRTHVICDARLQNLFG 224 (1232)
Q Consensus 173 efLG~Ig~dd~~~lSR~dVvk~LWeYIK~nnLQDP~nKr~IiCDekLr~LFG 224 (1232)
+++...+.+-...++-.||..++-.||+.|||-|+.||..|+.|.-|-....
T Consensus 369 ~Lf~evg~~kg~lyt~seir~~V~kYi~knnLad~~nKg~VrLDpILfd~~~ 420 (560)
T KOG2522|consen 369 DLFKEVGLAKGTLYTSSEIRSAVSKYISKNNLADTKNKGKVRLDPILFDMVN 420 (560)
T ss_pred HHHHhcCccccceeeHHHHHHHHHHHhhhhhccccccCCcEEeccHHHHHHH
Confidence 3444445555578999999999999999999999999999888888776653
No 28
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=63.65 E-value=2.8 Score=47.45 Aligned_cols=17 Identities=24% Similarity=0.429 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHHHhcc
Q 047631 422 GDIQEKAMALQEVRVKD 438 (1232)
Q Consensus 422 ~dVeeKa~dIq~ai~~~ 438 (1232)
.++++|+-+|+++.+-+
T Consensus 87 ~E~~~kygEiee~~Vc~ 103 (260)
T KOG2202|consen 87 TELEDKYGEIEELNVCD 103 (260)
T ss_pred HHHHHHhhhhhhhhhhc
Confidence 45566777777774433
No 29
>KOG2950 consensus Uncharacterized protein involved in protein-protein interaction, contains polyproline-binding GYF domain [General function prediction only]
Probab=56.71 E-value=11 Score=44.27 Aligned_cols=42 Identities=24% Similarity=0.629 Sum_probs=34.1
Q ss_pred CCceeecCC--CCCccCCCcHHHHhhhhcCCCCCCCceeeecCc
Q 047631 654 EKIWHYQDP--SGKVQGPFSMVQLRKWNNTGYFPANLRIWRSNE 695 (1232)
Q Consensus 654 ~~~W~y~dP--~G~vqGPFs~~~L~~W~~~gyF~~~l~Vwrt~e 695 (1232)
++.|.|+=- .-+.+|||+..+|..|+..|||+.-.-|.+.++
T Consensus 287 ~~~wefkwe~d~~~~yGp~ts~~m~~w~~egyf~~~v~~r~~~~ 330 (348)
T KOG2950|consen 287 EVQWEFKWEFDEDEYYGPYTSSEMQYWQNEGYFKNAVYVRFHDE 330 (348)
T ss_pred ceeEeeEeecccccccccccHHHHhhhhccCccccceeEEeecC
Confidence 345555433 268899999999999999999999999988764
No 30
>KOG2185 consensus Predicted RNA-processing protein, contains G-patch domain [RNA processing and modification]
Probab=56.20 E-value=4 Score=48.67 Aligned_cols=26 Identities=27% Similarity=0.426 Sum_probs=15.4
Q ss_pred HHHHhhhccccccccC-----CCCCCCCCCc
Q 047631 481 EERQRRLEEIPEIHSD-----PNMDPSYESE 506 (1232)
Q Consensus 481 ~Eq~R~L~EVPevi~d-----~~~~p~~es~ 506 (1232)
+|+.+++.|+.++.++ ...-|++|.+
T Consensus 58 de~re~~~E~~D~~aag~~~~s~t~p~~e~~ 88 (486)
T KOG2185|consen 58 DEKRERLLEEADIVAAGLNHDSGTKPEHEEP 88 (486)
T ss_pred HHHHHHHhhhhhhhhccccCCcccCcccccc
Confidence 4666666666666643 3555666553
No 31
>COG4518 Mu-like prophage FluMu protein gp41 [Function unknown]
Probab=53.10 E-value=7.1 Score=39.33 Aligned_cols=20 Identities=40% Similarity=0.712 Sum_probs=17.2
Q ss_pred CCCccCCCcHHHHhhhhcCC
Q 047631 663 SGKVQGPFSMVQLRKWNNTG 682 (1232)
Q Consensus 663 ~G~vqGPFs~~~L~~W~~~g 682 (1232)
-|+||||||+-|+.+-+.-.
T Consensus 70 vG~i~GP~S~rqi~~Ls~rD 89 (122)
T COG4518 70 VGNIQGPFSVRQILKLSSRD 89 (122)
T ss_pred HhcCCCCcCHHHHHhhhHHH
Confidence 49999999999999987544
No 32
>KOG1492 consensus C3H1-type Zn-finger protein [General function prediction only]
Probab=51.71 E-value=7.2 Score=43.34 Aligned_cols=12 Identities=25% Similarity=0.318 Sum_probs=5.0
Q ss_pred HHHHHHhhcCCC
Q 047631 194 LLLEYIKKYKLR 205 (1232)
Q Consensus 194 ~LWeYIK~nnLQ 205 (1232)
+|..-|-+|.||
T Consensus 104 likknilehdlq 115 (377)
T KOG1492|consen 104 LIKKNILEHDLQ 115 (377)
T ss_pred HHHHHHHHhHHH
Confidence 333344444444
No 33
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=45.99 E-value=17 Score=44.41 Aligned_cols=22 Identities=32% Similarity=0.472 Sum_probs=20.3
Q ss_pred eEEEee-ccccccCCCCCCCCCC
Q 047631 1211 RVCKFH-ESGHCKKGSQCDYLHT 1232 (1232)
Q Consensus 1211 ~vc~~~-~~g~C~~g~~c~y~h~ 1232 (1232)
++|||| +.|+|.+|..|+|.|.
T Consensus 213 ~r~k~fee~g~~~r~el~p~~hg 235 (526)
T KOG2135|consen 213 NRRKFFEEFGVLERGELCPTHHG 235 (526)
T ss_pred HhhhhhHhhceeeeccccccccc
Confidence 489999 9999999999999994
No 34
>PRK05350 acyl carrier protein; Provisional
Probab=45.04 E-value=18 Score=33.61 Aligned_cols=57 Identities=9% Similarity=0.071 Sum_probs=48.2
Q ss_pred cCHHHHHHHHHHHHhhcCCCCCCCCCccccchhhhhhhCCCccChhhHHHHHHccCCCCC
Q 047631 186 LSQFDVQTLLLEYIKKYKLRDPQRRTHVICDARLQNLFGKPRVGHFEMLKLLESHFLTKE 245 (1232)
Q Consensus 186 lSR~dVvk~LWeYIK~nnLQDP~nKr~IiCDekLr~LFGk~rV~~feI~kLL~~Hl~~~d 245 (1232)
|+|.+|...|.++|.+. |.-+ -..|..|..|..-+|-+++.+.+|--.|+.+|--.-
T Consensus 2 m~~~~i~~~v~~ii~~~-~~~~--~~~i~~d~~l~~dlg~DSld~veli~~lE~~fgI~i 58 (82)
T PRK05350 2 MTREEILERLRAILVEL-FEID--PEDITPEANLYEDLDLDSIDAVDLVVHLQKLTGKKI 58 (82)
T ss_pred CCHHHHHHHHHHHHHHH-hCCC--HHHCCCCccchhhcCCCHHHHHHHHHHHHHHHCCcc
Confidence 68999999999999987 5322 246999999988899999999999999999986543
No 35
>PRK15447 putative protease; Provisional
Probab=44.44 E-value=27 Score=40.18 Aligned_cols=49 Identities=4% Similarity=-0.007 Sum_probs=36.0
Q ss_pred chhhHHHHHHhhhcccccccCCccccCCCCCchhhhHHHHHHHhhhhcCC
Q 047631 28 FCETCMKTVMLIERNEQGNKETAQVDFDDKNSWEYLFKDYWLDLKVRLSL 77 (1232)
Q Consensus 28 fC~~C~~~~~LIE~n~~~d~e~~kVDFdDk~s~EyLFK~YW~~lK~ke~L 77 (1232)
||..|+.++-.|++-.+.-=..-+|||...+..+ .-+.|-..|.+++..
T Consensus 222 ~s~~~l~ll~~l~eL~~~Gv~~~RIe~~~~~v~~-vv~~Yr~~ld~~~~~ 270 (301)
T PRK15447 222 QSGYCYNLLNELPSMQALGVDVVRLSPQSTDMVA-VADAFRAVLNGAAPA 270 (301)
T ss_pred cCHHHHHhHHHHHHHHHhCCCEEEEcCCcchHHH-HHHHHHHHHcCCCCC
Confidence 7999999988887766554445899998764334 448898888877643
No 36
>KOG4274 consensus Positive cofactor 2 (PC2), subunit of a multiprotein coactivator of RNA polymerase II [Transcription]
Probab=42.13 E-value=1.3e+02 Score=37.97 Aligned_cols=118 Identities=25% Similarity=0.212 Sum_probs=64.0
Q ss_pred CCCCCcCCCCCCCCCCCCCCCCCCCCCCCCCCCCcCCCCcccCCCCCCCccccCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 047631 951 PSPKPVTGAQGWGSASSQKLEPNNPVSIPAQSPAYAQPYASTFNTGNSPGVFPVSGQSGMPASDSWRAPVPSQSNVQSPA 1030 (1232)
Q Consensus 951 ~~~~~~~g~q~wg~~~~~~~~~n~~~~~~~~~~~~~~~~~~s~~t~n~~~~~p~~~~~g~~~~~~w~~~~~~~~n~~~~~ 1030 (1232)
+|-+|++|.++.+--+ +|-++++.+.. .+..-+-+++++-.|+++.+| +-|=.++|-+....+.
T Consensus 84 p~n~pagG~~g~~~pP-----rnp~qsla~~g------~~~~~~~Pm~~gG~P~Pg~sg---tA~~~~av~s~~~P~t-- 147 (742)
T KOG4274|consen 84 PTNGPAGGAAGIGMPP-----RNPGQSLAGMG------SSGAMGQPMSLGGQPPPGTSG---TAPHSMAVVSTATPQT-- 147 (742)
T ss_pred CCCCCCCCCCccCCCC-----CCccccccccc------cCCCCCCCCCCCCCCCCCCCc---cchhHHHHhccCCCCc--
Confidence 4456888888877622 33344433322 123345567888888888777 3333455544422211
Q ss_pred CCCCCCCcccCCCCCCCCCCCCCCCCCccccCCCCCCCCCccCCCCCCCccCCCccC
Q 047631 1031 QPITPWGMGVAGNQSAVPRQVPESQNTGWGQMPANPSMGWGGQLPASTNMNWGAPAQ 1087 (1232)
Q Consensus 1031 ~~~~~wG~~~~~n~~~~~~~~~~nqn~~w~~~~~~~nm~wg~~~p~~~N~~Wg~~~q 1087 (1232)
+.....+-++ ++..|.|.-.-+-.|=-++-..+-|.=+...++.+||.--+.+|
T Consensus 148 q~Qlqp~s~~---~gq~p~~~~~~~~ag~qQm~q~qqmqQ~~~q~gamn~~g~~~gq 201 (742)
T KOG4274|consen 148 QLQLQPVSLQ---QGQQPQQFQQQQQAGLQQMQQQQQMQQFQAQQGAMNQQGQAVGQ 201 (742)
T ss_pred ccccchhhhc---ccCCCcccccccchhHHHHhhhhhhccCcccccchhccCCcccc
Confidence 2222233322 23344444333333444566667777778888889988765555
No 37
>PRK05828 acyl carrier protein; Validated
Probab=37.41 E-value=41 Score=32.25 Aligned_cols=57 Identities=14% Similarity=0.167 Sum_probs=46.6
Q ss_pred cCHHHHHHHHHHHHhhcCCCCCCCCCccccchhhhhhhCCCccChhhHHHHHHccCCCCC
Q 047631 186 LSQFDVQTLLLEYIKKYKLRDPQRRTHVICDARLQNLFGKPRVGHFEMLKLLESHFLTKE 245 (1232)
Q Consensus 186 lSR~dVvk~LWeYIK~nnLQDP~nKr~IiCDekLr~LFGk~rV~~feI~kLL~~Hl~~~d 245 (1232)
|+|.+|..+|-+.|++..|.-+ -..|.+|..|.. +|-+++.+.+|--.|+.+|--.-
T Consensus 1 m~~~eI~~~i~~ii~e~~~~~~--~d~i~~~~~~~d-Lg~DSLd~velv~~lE~~f~I~i 57 (84)
T PRK05828 1 MQEMEILLKIKEIAKKKNFAVT--LDESNINKPYRE-LKIDSLDMFSIIVSLESEFNIEF 57 (84)
T ss_pred CCHHHHHHHHHHHHHHhccCCC--cccccCCCCHHh-cCCCHHHHHHHHHHHHHHHCCCc
Confidence 6899999999999998655322 234778899977 99999999999999999886544
No 38
>COG5252 Uncharacterized conserved protein, contains CCCH-type Zn-finger protein [General function prediction only]
Probab=37.09 E-value=7.5 Score=43.76 Aligned_cols=20 Identities=35% Similarity=0.936 Sum_probs=13.1
Q ss_pred EEEeeccccccCCCCCCCCC
Q 047631 1212 VCKFHESGHCKKGSQCDYLH 1231 (1232)
Q Consensus 1212 vc~~~~~g~C~~g~~c~y~h 1231 (1232)
||.+|-.+.|.+|+-|+|+|
T Consensus 87 vcalF~~~~c~kg~~ckF~h 106 (299)
T COG5252 87 VCALFLNKTCAKGDACKFAH 106 (299)
T ss_pred HHHHhccCccccCchhhhhc
Confidence 66666666666666666666
No 39
>KOG1677 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=29.71 E-value=30 Score=39.64 Aligned_cols=28 Identities=32% Similarity=0.668 Sum_probs=23.0
Q ss_pred CCCCCceEEEee-ccccccC-CCCCCCCCC
Q 047631 1205 HFNKGQRVCKFH-ESGHCKK-GSQCDYLHT 1232 (1232)
Q Consensus 1205 ~~~~gq~vc~~~-~~g~C~~-g~~c~y~h~ 1232 (1232)
+...+..+|.+| +.|+|+- |++|+|-|+
T Consensus 127 p~~~kt~lc~~~~~~g~c~y~ge~crfah~ 156 (332)
T KOG1677|consen 127 PERYKTPLCRSFRKSGTCKYRGEQCRFAHG 156 (332)
T ss_pred cccccCCcceeeecCccccccCchhhhcCC
Confidence 333556799888 9999998 999999884
No 40
>PF05918 API5: Apoptosis inhibitory protein 5 (API5); InterPro: IPR008383 This family consists of apoptosis inhibitory protein 5 (API5) sequences from several organisms. Apoptosis or programmed cell death is a physiological form of cell death that occurs in embryonic development and organ formation. It is characterised by biochemical and morphological changes such as DNA fragmentation and cell volume shrinkage. API5 is an anti apoptosis gene located in Homo sapiens chromosome 11, whose expression prevents the programmed cell death that occurs upon the deprivation of growth factors [,].; PDB: 3U0R_A 3V6A_A.
Probab=29.70 E-value=18 Score=45.32 Aligned_cols=10 Identities=30% Similarity=0.338 Sum_probs=5.4
Q ss_pred HHhcccCCCC
Q 047631 706 ALAGKFHKDP 715 (1232)
Q Consensus 706 aL~~~f~~~~ 715 (1232)
++.++..+.|
T Consensus 339 afh~La~k~p 348 (556)
T PF05918_consen 339 AFHQLARKSP 348 (556)
T ss_dssp HHHHHHTT-T
T ss_pred HHHHHhhhCc
Confidence 5566666665
No 41
>KOG1862 consensus GYF domain containing proteins [General function prediction only]
Probab=29.47 E-value=29 Score=44.23 Aligned_cols=143 Identities=20% Similarity=0.259 Sum_probs=85.2
Q ss_pred CCCCceeecCCCCCccCCCcHHHHhhhhcCCCCCCCceeeecCccc---cchhhhHHHHhcccCCCCCcccccccccccc
Q 047631 652 ESEKIWHYQDPSGKVQGPFSMVQLRKWNNTGYFPANLRIWRSNEKQ---DDSILLTDALAGKFHKDPRLVDISLSQTIPY 728 (1232)
Q Consensus 652 e~~~~W~y~dP~G~vqGPFs~~~L~~W~~~gyF~~~l~Vwrt~e~~---d~silL~daL~~~f~~~~~~~~~s~~~~~~~ 728 (1232)
..+..|||+||+|+|||||++.+|..|+.+|||++++.||++.+.+ -..|.+++-+.+.+......+.+ ..-.+.+
T Consensus 201 ~~d~~~~Y~DP~g~iqGPf~~~~v~~W~~~GyF~~~l~vr~~e~~~~~~f~tl~~~~~~l~~~~~~~~p~~~-~~~~~~~ 279 (673)
T KOG1862|consen 201 DEELSWLYKDPQGQIQGPFSASDVLQWYEAGYFPDDLQVRLGENPERSIFQTLGEVMQLLKTRTGQEAPVPT-QYSDSEF 279 (673)
T ss_pred CcceeEEeeCCCCcccCCchHHHHHHHHhcCccCCCceeeeccCCccccceehhhhhhhcccccCccCCCcC-ccccchh
Confidence 5678999999999999999999999999999999998888876665 44444445555444443211212 1111222
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCcccccccccCCCCCCCCCCCCCCCceecCCcCCCCCcC--CCCCCCCCCCCCCccccc
Q 047631 729 SGKSHGASSQPGMETPVGGSSNFDQNRTAWNQHGTPGSSGQSGGTPSLELPKQYRDGWAS--ETNLPSPTPTQSTAGEIK 806 (1232)
Q Consensus 729 s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~p~~~~~~~~~--~~~lpsptp~q~~~~~~~ 806 (1232)
++.....+.+..++.. + -........++..++.+.+.. ..-.|...+..+.....+
T Consensus 280 ~~~~~~~s~~~~~~~~--------------------~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~se~~~~~ 337 (673)
T KOG1862|consen 280 SNFLPLPSAQPEIVNG--------------------K--LESNPSTVMPVNLNPFEQKAVSESGENPKAEGRVSEEQAAP 337 (673)
T ss_pred hccccccccccccccc--------------------c--hhhCCcccccccccchhhhcccccccccccccccccccCCc
Confidence 3332222222222200 0 013344455666666676662 244455555555555556
Q ss_pred ccccccccCCC
Q 047631 807 GKTFEKEWSPT 817 (1232)
Q Consensus 807 ~~~~e~~~~~t 817 (1232)
-..+.+.++++
T Consensus 338 ~~~~~~~~s~~ 348 (673)
T KOG1862|consen 338 PSQSQESGSRS 348 (673)
T ss_pred hhhhhhhcccc
Confidence 66666666666
No 42
>KOG3973 consensus Uncharacterized conserved glycine-rich protein [Function unknown]
Probab=29.44 E-value=2.7e+02 Score=33.56 Aligned_cols=10 Identities=20% Similarity=0.611 Sum_probs=4.1
Q ss_pred CCCCCCCCCC
Q 047631 1142 GNPGWGAPAG 1151 (1232)
Q Consensus 1142 ~n~~w~~p~g 1151 (1232)
+...|-.-.|
T Consensus 408 ~~qq~~sgsg 417 (465)
T KOG3973|consen 408 NDQQWISGSG 417 (465)
T ss_pred cccceeeccc
Confidence 3344444333
No 43
>COG5084 YTH1 Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]
Probab=28.47 E-value=25 Score=40.72 Aligned_cols=21 Identities=52% Similarity=1.184 Sum_probs=20.1
Q ss_pred EEEeeccccccCCCCCCCCCC
Q 047631 1212 VCKFHESGHCKKGSQCDYLHT 1232 (1232)
Q Consensus 1212 vc~~~~~g~C~~g~~c~y~h~ 1232 (1232)
+|+++..|.|+++.+|.|+|.
T Consensus 106 ~c~~~~~g~c~s~~~c~~lh~ 126 (285)
T COG5084 106 VCKFFLRGLCKSGFSCEFLHE 126 (285)
T ss_pred ccchhccccCcCCCccccccC
Confidence 999999999999999999994
No 44
>PF04570 DUF581: Protein of unknown function (DUF581); InterPro: IPR007650 This is a family of uncharacterised proteins.
Probab=27.97 E-value=47 Score=30.33 Aligned_cols=28 Identities=29% Similarity=0.681 Sum_probs=22.5
Q ss_pred CceEEEEecCccchh-hHHHHHHhhhccc
Q 047631 16 DAVILCVRGNKGFCE-TCMKTVMLIERNE 43 (1232)
Q Consensus 16 ~a~F~~VRgnKGfC~-~C~~~~~LIE~n~ 43 (1232)
+.+.+.-||.|+||. .|-.--|++|...
T Consensus 29 ~~DiymYrGd~aFCS~ECR~~qi~~de~~ 57 (58)
T PF04570_consen 29 GKDIYMYRGDKAFCSEECRSQQILMDEEK 57 (58)
T ss_pred CCCeeeeccccccccHHHHHHHHHHHHhc
Confidence 357788999999996 6988888887643
No 45
>PRK12449 acyl carrier protein; Provisional
Probab=27.67 E-value=76 Score=29.12 Aligned_cols=57 Identities=12% Similarity=0.159 Sum_probs=45.9
Q ss_pred cCHHHHHHHHHHHHhhcCCCCCCCCCccccchhhhhhhCCCccChhhHHHHHHccCCCCC
Q 047631 186 LSQFDVQTLLLEYIKKYKLRDPQRRTHVICDARLQNLFGKPRVGHFEMLKLLESHFLTKE 245 (1232)
Q Consensus 186 lSR~dVvk~LWeYIK~nnLQDP~nKr~IiCDekLr~LFGk~rV~~feI~kLL~~Hl~~~d 245 (1232)
|+|.+|...|-++|.+.-=-++ ..|..|..|..-+|-+++.+.+|.-.|+..|--.-
T Consensus 1 m~~~~i~~~l~~il~~~~~~~~---~~i~~~~~l~~dlg~DSl~~~~li~~lE~~f~i~i 57 (80)
T PRK12449 1 MTREEIFERLINLIQKQRSYLS---LAITEQTHLKDDLAVDSIELVEFIINVEDEFHIAI 57 (80)
T ss_pred CCHHHHHHHHHHHHHHHhCCCc---cccCCCCcHHHHcCCcHHHHHHHHHHHHHHhCCCC
Confidence 5788899999999986442232 25999999999999999999999999988775443
No 46
>CHL00124 acpP acyl carrier protein; Validated
Probab=27.50 E-value=49 Score=30.50 Aligned_cols=57 Identities=14% Similarity=0.181 Sum_probs=47.1
Q ss_pred cCHHHHHHHHHHHHhhcCCCCCCCCCccccchhhhhhhCCCccChhhHHHHHHccCCCCC
Q 047631 186 LSQFDVQTLLLEYIKKYKLRDPQRRTHVICDARLQNLFGKPRVGHFEMLKLLESHFLTKE 245 (1232)
Q Consensus 186 lSR~dVvk~LWeYIK~nnLQDP~nKr~IiCDekLr~LFGk~rV~~feI~kLL~~Hl~~~d 245 (1232)
|+|.+|...|-++|.+.-=.++ ..|..|..|...+|-+++.+.+|.-.|+..|--.-
T Consensus 1 M~~~~i~~~l~~ii~~~~~~~~---~~i~~d~~l~~dlg~DSl~~~eli~~le~~f~i~i 57 (82)
T CHL00124 1 MTKNDIFEKVQSIVAEQLGIEK---SEVTLDANFTRDLGADSLDVVELVMAIEEKFDIEI 57 (82)
T ss_pred CCHHHHHHHHHHHHHHHHCCCH---HHCCCCcchhhhcCCcHHHHHHHHHHHHHHHCCcc
Confidence 5788999999999988732233 35999999999999999999999999998886543
No 47
>KOG1984 consensus Vesicle coat complex COPII, subunit SFB3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=27.38 E-value=9.7e+02 Score=32.43 Aligned_cols=11 Identities=18% Similarity=0.531 Sum_probs=7.5
Q ss_pred EEEeecccccc
Q 047631 1212 VCKFHESGHCK 1222 (1232)
Q Consensus 1212 vc~~~~~g~C~ 1222 (1232)
=|...+.|.|.
T Consensus 276 d~~~~DqGN~s 286 (1007)
T KOG1984|consen 276 DFFIQDQGNCS 286 (1007)
T ss_pred ceEEeccCCCC
Confidence 46666888774
No 48
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=27.07 E-value=2.7e+02 Score=36.79 Aligned_cols=87 Identities=23% Similarity=0.272 Sum_probs=0.0
Q ss_pred CCCCCCCCCcCCCCcccCCCCCCCccccCCCCCCCCCCC-----CCCCCCCCCCCC-----CCCCCCCCCCCcccCCCCC
Q 047631 976 VSIPAQSPAYAQPYASTFNTGNSPGVFPVSGQSGMPASD-----SWRAPVPSQSNV-----QSPAQPITPWGMGVAGNQS 1045 (1232)
Q Consensus 976 ~~~~~~~~~~~~~~~~s~~t~n~~~~~p~~~~~g~~~~~-----~w~~~~~~~~n~-----~~~~~~~~~wG~~~~~n~~ 1045 (1232)
.+.+++. +.-+++-|-+-||+..|..| .|.|+.- |-++++|-++-. ..|+++-++.|+ .+
T Consensus 512 ~al~s~~----~~~~~~~~iP~PP~~pp~gG-~g~pppPppPPlpggag~PPPPpplPg~aG~PPpPppppg~-----~g 581 (1102)
T KOG1924|consen 512 QALSSPS----QLLPIDGGIPPPPPLPPTGG-TGPPPPPPPPPLPGGAGPPPPPPPLPGIAGGPPPPPPPPGG-----GG 581 (1102)
T ss_pred hhccCcc----cCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCCCCCCCCCCccCCCCCcccCCCCccCCCCCC-----CC
Q ss_pred CCCCCCCCCCCCccccCCCCCCCCCccCCC
Q 047631 1046 AVPRQVPESQNTGWGQMPANPSMGWGGQLP 1075 (1232)
Q Consensus 1046 ~~~~~~~~nqn~~w~~~~~~~nm~wg~~~p 1075 (1232)
++||+.| -+.=|-.|.+|-|+-+.-+|
T Consensus 582 ppPPPpp---~g~~Gg~ppPP~~gm~pmaP 608 (1102)
T KOG1924|consen 582 PPPPPPP---GGFLGGPPPPPPPGMFPMAP 608 (1102)
T ss_pred CCCcCCC---CCCCCCCCCCCCCCcccccc
No 49
>cd08305 Pyrin Pyrin: a protein-protein interaction domain. The Pyrin domain (or PYD), also called DAPIN or PAAD, is a subfamily of the Death Domain (DD) superfamily and it functions in several signaling pathways. The Pyrin domain is found at the N-terminus of a variety of proteins and serves as a linker that recruits other domains into signaling complexes. Pyrin-containing proteins include NALPs, ASC (Apoptosis-associated speck-like protein containing a CARD), and the interferon-inducible p200 (IFI-200) family of proteins which includes the human IFI-16, myeloid cell nuclear differentiation antigen (MNDA) and absent in melanoma (AIM) 2. NALPs are members of the NBS-LRR family of proteins possessing a tripartite domain structure including a C-terminal LRR (leucine-rich repeats), a central nucleotide-binding site (NBS) domain or NACHT (for neuronal apoptosis inhibitor protein, CIITA, HET-E and TP1), and an N-terminal protein-protein interaction domain, which is a Pyrin domain in the case
Probab=25.28 E-value=1.3e+02 Score=28.32 Aligned_cols=47 Identities=13% Similarity=0.235 Sum_probs=38.9
Q ss_pred cCCHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHHhccccHHHHH
Q 047631 398 EFTEDECKRLRQSIKCGLINRLTVGDIQEKAMALQEVRVKDWMEAEIL 445 (1232)
Q Consensus 398 dFTEeEfeRw~q~~k~~~~k~PTv~dVeeKa~dIq~ai~~~~teeEI~ 445 (1232)
.++++||++++..+..+ .+.++...++....+|-..+..+|-++-.-
T Consensus 7 ~L~~~efk~FK~~L~~~-~~~~~~~~~~~a~~~la~lL~~~y~~~~a~ 53 (73)
T cd08305 7 NITDEELKRFKSLLAND-LFLETKAQLEYTRIQIADLMEQKFGAVSAL 53 (73)
T ss_pred HcCHHHHHHHHHHHHhc-CCCCCcccccccHHHHHHHHHHHcChhHHH
Confidence 57899999999999987 677777777777889999999988877543
No 50
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=24.05 E-value=37 Score=40.32 Aligned_cols=20 Identities=45% Similarity=1.265 Sum_probs=12.2
Q ss_pred EEEeeccccccCCCCCCCCC
Q 047631 1212 VCKFHESGHCKKGSQCDYLH 1231 (1232)
Q Consensus 1212 vc~~~~~g~C~~g~~c~y~h 1231 (1232)
||.|+-.|.|+-|+.|.|.|
T Consensus 163 Icsf~v~geckRG~ec~yrh 182 (377)
T KOG0153|consen 163 ICSFFVKGECKRGAECPYRH 182 (377)
T ss_pred cccceeeccccccccccccc
Confidence 66666666666666666655
No 51
>KOG1999 consensus RNA polymerase II transcription elongation factor DSIF/SUPT5H/SPT5 [Transcription]
Probab=23.93 E-value=2e+03 Score=29.94 Aligned_cols=26 Identities=8% Similarity=0.102 Sum_probs=16.0
Q ss_pred eecEEEEEEeCCcee-eEEeEeccCCc
Q 047631 373 TTDILLEILNLNKTE-VISIDIISNQE 398 (1232)
Q Consensus 373 ~Tnk~L~L~~G~keR-~f~Id~VSNsd 398 (1232)
...-|++|+.|..+= .-.++.||+..
T Consensus 260 ~~gswVRiKrG~YKgDLAqVd~Vd~~~ 286 (1024)
T KOG1999|consen 260 SEGSWVRIKRGKYKGDLAQVDDVDENR 286 (1024)
T ss_pred CccceEEEeccccccceeeeeeecccC
Confidence 346677887776543 35666666543
No 52
>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]
Probab=23.37 E-value=3.8e+02 Score=36.25 Aligned_cols=27 Identities=41% Similarity=0.278 Sum_probs=14.8
Q ss_pred CCCcccCCCCCCcCCCCCCCCCCCCCC
Q 047631 944 ARPEMMAPSPKPVTGAQGWGSASSQKL 970 (1232)
Q Consensus 944 ~~~~~~~~~~~~~~g~q~wg~~~~~~~ 970 (1232)
++-+|.-|+|-=|-|..-.--|-|-|+
T Consensus 1029 S~qdM~fPsPFFVFGEKIRTRAIS~K~ 1055 (1282)
T KOG0921|consen 1029 SRQEMDFPSPFFVFGEKIRTRAISCKQ 1055 (1282)
T ss_pred cccccCCCCceeeechhhhhheecccC
Confidence 456666677655556554444444443
No 53
>PRK01294 lipase chaperone; Provisional
Probab=22.63 E-value=1.2e+02 Score=35.93 Aligned_cols=67 Identities=16% Similarity=0.278 Sum_probs=50.6
Q ss_pred CCCCHHHHHHHHHHHHHHHhccccHHHHHHHhhhhhhhhhhcccccCCCcHHHHHHHHhhcCC----HHHHHhhhccccc
Q 047631 417 NRLTVGDIQEKAMALQEVRVKDWMEAEILRLSHLRDRASDLGRRKEYPLLYEECVEKLQLLKT----PEERQRRLEEIPE 492 (1232)
Q Consensus 417 k~PTv~dVeeKa~dIq~ai~~~~teeEI~rL~~LidrA~EKgrr~e~P~n~~ealeK~qLLks----p~Eq~R~L~EVPe 492 (1232)
....+.+|.....+|+.+....|++++|+.+= -+..+.+.| +|+|++++.+ .+|++++|.++-+
T Consensus 150 ~~~d~~~l~~~~~~~~~Lr~~~f~~~~~~alF------g~E~~~~~~------aL~rl~I~~d~~Ls~~qK~~~l~~L~~ 217 (336)
T PRK01294 150 GKLDLQALQQLLDARLALRARFFSDWEIQAFF------GEENQYQRY------ALERLRIAQDPSLSDAQKAARLAALEA 217 (336)
T ss_pred CccCHHHHHHHHHHHHHHHHHHcCHHHHHhcc------chHHHHHHH------HHHHHHHhcCcCCCHHHHHHHHHHHHH
Confidence 34468899999999999999999999998765 333334443 7899999986 4788888877665
Q ss_pred ccc
Q 047631 493 IHS 495 (1232)
Q Consensus 493 vi~ 495 (1232)
-.+
T Consensus 218 qLP 220 (336)
T PRK01294 218 QLP 220 (336)
T ss_pred hCC
Confidence 443
No 54
>KOG1040 consensus Polyadenylation factor I complex, subunit, Yth1 (CPSF subunit) [RNA processing and modification]
Probab=22.47 E-value=40 Score=39.78 Aligned_cols=22 Identities=50% Similarity=1.109 Sum_probs=18.7
Q ss_pred eEEEee-ccccccCCCCCCCCCC
Q 047631 1211 RVCKFH-ESGHCKKGSQCDYLHT 1232 (1232)
Q Consensus 1211 ~vc~~~-~~g~C~~g~~c~y~h~ 1232 (1232)
|-|+|| ..|.|.++..|.|+|.
T Consensus 106 rec~ff~~~g~c~~~~~c~y~h~ 128 (325)
T KOG1040|consen 106 RECKFFSLFGECTNGKDCPYLHG 128 (325)
T ss_pred ccccccccccccccccCCcccCC
Confidence 478666 8999999999999994
No 55
>KOG3973 consensus Uncharacterized conserved glycine-rich protein [Function unknown]
Probab=22.28 E-value=3.8e+02 Score=32.46 Aligned_cols=36 Identities=25% Similarity=0.514 Sum_probs=18.3
Q ss_pred CccCcCCCCCCCCCCCCCcCCCCCC--CCCCCCCCCCC
Q 047631 1084 APAQGQAPGNAHSGWAGPAQGQAHK--NAVPGWAPPGQ 1119 (1232)
Q Consensus 1084 ~~~qg~~~~n~n~~w~~p~qg~~~~--na~~gW~~p~q 1119 (1232)
..-||..-++.--.|++-.-|---+ -.-.||-.|+|
T Consensus 352 ~~eqgg~Rgg~Gg~~gGrGgGRGggG~GGGggyqqp~~ 389 (465)
T KOG3973|consen 352 VLEQGGSRGGSGGNWGGRGGGRGGGGRGGGGGYQQPQQ 389 (465)
T ss_pred hhhccCCCCCCCCCCCCCCCCCCCCCCCCCCCCcCchh
Confidence 3456666666666787544443311 11245555553
No 56
>PF06246 Isy1: Isy1-like splicing family; InterPro: IPR009360 Isy1 protein is important in the optimisation of splicing [].; PDB: 1X4T_A.
Probab=21.81 E-value=1.4e+02 Score=34.37 Aligned_cols=36 Identities=17% Similarity=0.386 Sum_probs=26.1
Q ss_pred CHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHHhccccHHHH
Q 047631 400 TEDECKRLRQSIKCGLINRLTVGDIQEKAMALQEVRVKDWMEAEI 444 (1232)
Q Consensus 400 TEeEfeRw~q~~k~~~~k~PTv~dVeeKa~dIq~ai~~~~teeEI 444 (1232)
+-.||++|+..+ +.||.+|...|+..-..++-.+|+
T Consensus 41 ~l~~ae~WR~~i---------i~EIs~kv~~Iqd~~L~E~~IRdL 76 (255)
T PF06246_consen 41 SLPEAEKWRRQI---------IKEISRKVTRIQDPSLGEFQIRDL 76 (255)
T ss_dssp -HHHHHHHHHHH---------HHHHHHHHHHHHH--S-HHHHHHH
T ss_pred CHHHHHHHHHHH---------HHHHHHHHHHHHhcCCCHHHHHHH
Confidence 357999999998 478999999999998766654444
Done!