Query 015670
Match_columns 403
No_of_seqs 350 out of 1397
Neff 4.9
Searched_HMMs 46136
Date Fri Mar 29 08:29:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/015670.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/015670hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1677 CCCH-type Zn-finger pr 99.9 9.9E-22 2.1E-26 194.3 13.8 209 7-297 122-332 (332)
2 KOG1677 CCCH-type Zn-finger pr 99.6 1.8E-15 3.8E-20 149.9 8.2 79 224-304 125-204 (332)
3 KOG2494 C3H1-type Zn-finger pr 99.2 1.5E-11 3.3E-16 122.1 6.1 220 17-309 37-261 (331)
4 KOG1040 Polyadenylation factor 99.0 2.7E-10 5.9E-15 114.3 4.9 51 232-305 135-186 (325)
5 KOG1492 C3H1-type Zn-finger pr 98.9 1E-09 2.2E-14 105.1 3.5 54 15-88 204-257 (377)
6 KOG1040 Polyadenylation factor 98.7 1.7E-08 3.7E-13 101.5 4.7 61 232-310 106-166 (325)
7 COG5063 CTH1 CCCH-type Zn-fing 98.5 3E-07 6.5E-12 91.2 8.5 76 221-304 219-301 (351)
8 COG5084 YTH1 Cleavage and poly 98.5 8E-07 1.7E-11 88.1 9.9 59 232-306 164-238 (285)
9 PF00642 zf-CCCH: Zinc finger 98.4 6.7E-08 1.4E-12 63.6 1.0 25 230-254 2-26 (27)
10 PF00642 zf-CCCH: Zinc finger 98.3 9.2E-08 2E-12 62.9 0.2 27 15-41 1-27 (27)
11 KOG2333 Uncharacterized conser 98.2 6.5E-07 1.4E-11 93.7 1.6 63 230-302 75-139 (614)
12 COG5084 YTH1 Cleavage and poly 98.2 2.7E-05 5.8E-10 77.4 12.7 61 232-309 135-197 (285)
13 KOG2333 Uncharacterized conser 98.1 6.7E-07 1.4E-11 93.6 1.4 63 17-89 76-142 (614)
14 KOG1492 C3H1-type Zn-finger pr 98.1 1.4E-06 3E-11 83.9 3.4 53 16-88 232-284 (377)
15 COG5063 CTH1 CCCH-type Zn-fing 98.1 4E-06 8.6E-11 83.4 5.5 67 18-92 231-303 (351)
16 KOG2494 C3H1-type Zn-finger pr 98.1 1.7E-06 3.6E-11 86.7 2.6 59 231-304 37-96 (331)
17 smart00356 ZnF_C3H1 zinc finge 97.8 1.5E-05 3.2E-10 51.2 2.2 24 230-254 3-26 (27)
18 KOG1763 Uncharacterized conser 97.8 5.5E-06 1.2E-10 82.1 -0.1 76 14-90 89-193 (343)
19 smart00356 ZnF_C3H1 zinc finge 97.8 1.8E-05 4E-10 50.8 2.3 25 16-41 3-27 (27)
20 KOG1763 Uncharacterized conser 97.5 2.9E-05 6.4E-10 77.0 0.3 76 226-302 87-191 (343)
21 KOG2185 Predicted RNA-processi 97.0 0.00035 7.6E-09 72.1 2.0 59 30-89 97-165 (486)
22 COG5252 Uncharacterized conser 96.8 0.0003 6.5E-09 68.3 0.1 76 14-90 82-178 (299)
23 KOG1595 CCCH-type Zn-finger pr 96.7 0.0044 9.6E-08 66.0 7.6 61 231-306 236-296 (528)
24 KOG4791 Uncharacterized conser 96.7 0.00079 1.7E-08 70.8 2.0 52 18-88 4-55 (667)
25 KOG1595 CCCH-type Zn-finger pr 96.5 0.0025 5.3E-08 67.9 4.2 53 28-88 208-260 (528)
26 PF14608 zf-CCCH_2: Zinc finge 96.3 0.0022 4.9E-08 39.1 1.5 19 19-40 1-19 (19)
27 KOG2185 Predicted RNA-processi 96.2 0.002 4.4E-08 66.6 1.8 30 226-256 135-164 (486)
28 PF14608 zf-CCCH_2: Zinc finge 96.0 0.0034 7.3E-08 38.3 1.3 19 233-254 1-19 (19)
29 COG5252 Uncharacterized conser 95.8 0.0024 5.2E-08 62.2 -0.1 76 226-302 80-176 (299)
30 COG5152 Uncharacterized conser 95.5 0.0044 9.5E-08 59.1 0.5 28 17-44 141-168 (259)
31 COG5152 Uncharacterized conser 94.2 0.015 3.3E-07 55.5 0.6 25 64-88 142-166 (259)
32 KOG4791 Uncharacterized conser 93.3 0.065 1.4E-06 56.9 3.1 66 232-300 4-83 (667)
33 KOG2202 U2 snRNP splicing fact 93.1 0.029 6.2E-07 55.2 0.2 34 223-256 7-40 (260)
34 KOG1039 Predicted E3 ubiquitin 92.4 0.046 9.9E-07 56.1 0.6 25 18-43 9-33 (344)
35 KOG1813 Predicted E3 ubiquitin 92.2 0.043 9.4E-07 55.0 0.2 28 17-44 186-213 (313)
36 KOG1039 Predicted E3 ubiquitin 92.1 0.054 1.2E-06 55.6 0.7 25 64-89 9-33 (344)
37 KOG2202 U2 snRNP splicing fact 90.2 0.087 1.9E-06 51.9 0.1 28 61-89 150-177 (260)
38 KOG1813 Predicted E3 ubiquitin 88.0 0.15 3.3E-06 51.3 -0.1 25 64-88 187-211 (313)
39 KOG3702 Nuclear polyadenylated 86.0 1 2.2E-05 49.6 4.9 23 277-303 625-647 (681)
40 PF10650 zf-C3H1: Putative zin 82.2 0.76 1.6E-05 29.6 1.2 22 18-40 1-22 (23)
41 KOG3702 Nuclear polyadenylated 79.1 2.7 5.8E-05 46.5 4.8 57 232-304 545-608 (681)
42 PF10650 zf-C3H1: Putative zin 76.0 1.8 3.8E-05 28.0 1.4 21 65-86 2-22 (23)
43 KOG0153 Predicted RNA-binding 75.4 2 4.3E-05 44.3 2.4 34 222-256 152-185 (377)
44 KOG0153 Predicted RNA-binding 71.9 2.2 4.9E-05 44.0 1.8 32 10-42 154-185 (377)
45 PF10283 zf-CCHH: Zinc-finger 45.6 5.8 0.00013 26.3 -0.3 11 288-298 2-12 (26)
46 KOG2135 Proteins containing th 29.0 28 0.0006 37.6 1.3 35 10-44 205-239 (526)
47 KOG2135 Proteins containing th 28.3 33 0.00072 37.0 1.7 32 228-259 209-240 (526)
No 1
>KOG1677 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=99.87 E-value=9.9e-22 Score=194.29 Aligned_cols=209 Identities=36% Similarity=0.708 Sum_probs=136.5
Q ss_pred CCCCCCCCCCccccccccccCCCCC-CCCCCCCcCCCCCCCcccccccCCCCCCCCCCcccccccCccCCCCCCCccCCC
Q 015670 7 GGGEFPERVGQPVCQYYMRTGTCKY-GASCKYHHPRQGAGSVSNVSLNYYGYPLRPGEKECSYYMKTRQCKFGATCKFHH 85 (403)
Q Consensus 7 ~~~~~peR~g~~~CryylrtG~Ck~-G~~CkF~H~~~~~~~~~~~~ln~~g~P~r~~e~~C~~flktG~CkfG~~CrF~H 85 (403)
..+..|++.++++|++|.++|.|+| |++|||+|..++.+... .++..+++.+.++++|.+|+++|.|+||.+|+|.|
T Consensus 122 ~~~~~p~~~kt~lc~~~~~~g~c~y~ge~crfah~~~e~r~~~--~~~~~~~~~~~kt~lC~~f~~tG~C~yG~rC~F~H 199 (332)
T KOG1677|consen 122 RGERKPERYKTPLCRSFRKSGTCKYRGEQCRFAHGLEELRLPS--SENQVGNPPKYKTKLCPKFQKTGLCKYGSRCRFIH 199 (332)
T ss_pred ccccCcccccCCcceeeecCccccccCchhhhcCCcccccccc--cchhhcCCCCCCCcCCCccccCCCCCCCCcCeecC
Confidence 4468899999999999999999999 99999999998865221 34567788999999999999999999999999999
Q ss_pred CCCCCCCCCCCCCCCccCCCCCCCCCCCCCCCCCCCCCCCcccccccccCCCCCCCC-CCCCCCCceecCCCcccCCCCC
Q 015670 86 PQPAGVPAPTPSPAPQVAAVPTPVPAPALYPPLQSPSVPSAQQYGVVVARPPLLHGS-YVQGPYGPVLVSPSMFSLQGWS 164 (403)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~p~~~~~~~~~~r~~~~pgs-~~~~~y~p~~~~pg~~p~~~w~ 164 (403)
+...+..... .. + .+.. .+..++|+....|+-++... .++.+|.+..++.+++|. |.
T Consensus 200 ~~~~~~~~~~----------------~~-~-~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~--~~ 257 (332)
T KOG1677|consen 200 GEPEDRASNR----------------HP-Y-PVSR--NPQPQSYGLTASRSSLLNQQSKLQQPFAPSGLSESVLPR--SS 257 (332)
T ss_pred CCcccccccc----------------CC-c-cccc--cccccccchhhcchhhccccccccccccccccccccCcC--Cc
Confidence 9986543211 01 1 1111 23445666444444333222 222223222233343331 10
Q ss_pred CCCcCCCCCCCCCCCCCCCCCcccccccccCCCCCCCCCCcccCCCCCCCCCCCCCCCCCCCCCCCcccchhhhcCCCCC
Q 015670 165 PYATSLNPISSPGTGTQSSVGSSSIYGITQLSASAPAYTGTYQSLPSSVGPSSSSQKEHPFPERPGQQECQYYMKTGDCK 244 (403)
Q Consensus 165 ~Y~~~~~~~~~p~~~~~~~~~s~~~y~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~PeRp~q~~Cryy~KtG~Ck 244 (403)
++.+... .+......... -.....+++.+++++.+++|++ +++|
T Consensus 258 ----------------~~~~~~~------~~~~~~~~~~~----------~~~~~~~~~~~~~~p~~~~~~~-~~~~--- 301 (332)
T KOG1677|consen 258 ----------------QQNLLPQ------GLRSSSSSHPS----------GSQENVNENGFRARPEQPECRS-MKSG--- 301 (332)
T ss_pred ----------------ccccccc------ccccccccccc----------cchhccccccCcCCCCCCccch-hccc---
Confidence 0000000 00000000000 0113456788999999999999 9999
Q ss_pred CCCCCCCCCCCCccCCCCCcccCCCCCCCCCCCccccccccccccCCCCCCCC
Q 015670 245 FGSSCRFHHPRELIVPKMDVTLSPFGLPLRPGAAPCTHYVQRGVCKFGPACKF 297 (403)
Q Consensus 245 fG~~CkF~Hp~~~~~~~~~~~ls~~glP~rp~~~~C~~Y~~~G~CkfG~~CkF 297 (403)
.++. +|+|++...|.+|..+|.|+||..|+|
T Consensus 302 ----------~~~l------------~~~~~~~~~~~~~~~~~~~~~~~~~~~ 332 (332)
T KOG1677|consen 302 ----------ENRL------------LPLRPGPGACTLFSRYGSCKFGPLCKF 332 (332)
T ss_pred ----------cccc------------cCCCCCcccccccccccccCCCCcCCC
Confidence 1111 788999999999999999999999997
No 2
>KOG1677 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=99.59 E-value=1.8e-15 Score=149.88 Aligned_cols=79 Identities=30% Similarity=0.624 Sum_probs=67.7
Q ss_pred CCCCCCCcccchhhhcCCCCCC-CCCCCCCCCCCccCCCCCcccCCCCCCCCCCCccccccccccccCCCCCCCCCCCCC
Q 015670 224 PFPERPGQQECQYYMKTGDCKF-GSSCRFHHPRELIVPKMDVTLSPFGLPLRPGAAPCTHYVQRGVCKFGPACKFDHPMG 302 (403)
Q Consensus 224 ~~PeRp~q~~Cryy~KtG~Ckf-G~~CkF~Hp~~~~~~~~~~~ls~~glP~rp~~~~C~~Y~~~G~CkfG~~CkF~Hp~~ 302 (403)
..+++.++++|++|+++|.|+| |++|||+|.+++..... .+...+++.+.++.+|.+|+++|.||||.+|+|.|+..
T Consensus 125 ~~p~~~kt~lc~~~~~~g~c~y~ge~crfah~~~e~r~~~--~~~~~~~~~~~kt~lC~~f~~tG~C~yG~rC~F~H~~~ 202 (332)
T KOG1677|consen 125 RKPERYKTPLCRSFRKSGTCKYRGEQCRFAHGLEELRLPS--SENQVGNPPKYKTKLCPKFQKTGLCKYGSRCRFIHGEP 202 (332)
T ss_pred cCcccccCCcceeeecCccccccCchhhhcCCcccccccc--cchhhcCCCCCCCcCCCccccCCCCCCCCcCeecCCCc
Confidence 4677888999999999999999 99999999888765221 23456788899999999999999999999999999987
Q ss_pred CC
Q 015670 303 ML 304 (403)
Q Consensus 303 ~~ 304 (403)
..
T Consensus 203 ~~ 204 (332)
T KOG1677|consen 203 ED 204 (332)
T ss_pred cc
Confidence 44
No 3
>KOG2494 consensus C3H1-type Zn-finger protein [Transcription]
Probab=99.21 E-value=1.5e-11 Score=122.11 Aligned_cols=220 Identities=20% Similarity=0.376 Sum_probs=116.3
Q ss_pred ccccccccccCCCCCCCC-CCCCcCCCCCCCcccccccCCCCCCCCCCcccccccCccCCCCCCCccCCCCCCCCCCCCC
Q 015670 17 QPVCQYYMRTGTCKYGAS-CKYHHPRQGAGSVSNVSLNYYGYPLRPGEKECSYYMKTRQCKFGATCKFHHPQPAGVPAPT 95 (403)
Q Consensus 17 ~~~CryylrtG~Ck~G~~-CkF~H~~~~~~~~~~~~ln~~g~P~r~~e~~C~~flktG~CkfG~~CrF~H~~~~~~~~~~ 95 (403)
..+||.|+| |.|++|+. |||.|+...... +.-++ .-|..|+| |.|. .++|||.|+......-..
T Consensus 37 ~eVCReF~r-n~C~R~d~~CkfaHP~~~~~V-~~g~v-----------~aC~Ds~k-grCs-R~nCkylHpp~hlkdql~ 101 (331)
T KOG2494|consen 37 LEVCREFLR-NTCSRGDRECKFAHPPKNCQV-SNGRV-----------IACFDSQK-GRCS-RENCKYLHPPQHLKDQLK 101 (331)
T ss_pred HHHHHHHHh-ccccCCCccccccCCCCCCCc-cCCeE-----------EEEecccc-CccC-cccceecCCChhhhhhhh
Confidence 579999999 99999999 999999875431 11111 14999999 9998 678999999764322110
Q ss_pred CCCCCccCCCCCCCCCC-CCCCCCCCCCCCCcccc-cccccC-CCCCCCCCCCCCCCceecCCCcccCCCCCCCCcCCCC
Q 015670 96 PSPAPQVAAVPTPVPAP-ALYPPLQSPSVPSAQQY-GVVVAR-PPLLHGSYVQGPYGPVLVSPSMFSLQGWSPYATSLNP 172 (403)
Q Consensus 96 ~~~~~~~~~~~~~~~~~-~~~p~~~~~~~p~~~~~-~~~~~r-~~~~pgs~~~~~y~p~~~~pg~~p~~~w~~Y~~~~~~ 172 (403)
. ++.. -++.....+....+++. |.++-+ +-|-.+.++ .| ++.-.+++|+.++.-
T Consensus 102 i------------ngrn~l~lq~~~aA~~~q~~~~~g~Pi~~v~~f~~~~~~----------~g-~~~~s~~~y~~~~Pg 158 (331)
T KOG2494|consen 102 I------------NGRNNLILQKTAAAMLAQQMQGPGTPICSVPMFATGPCL----------GG-NTACSYWPYLPPVPG 158 (331)
T ss_pred h------------cccccHHHHHHHHhhhcccccCCCccccccccccccccc----------cC-CCccccccccCCCCC
Confidence 0 0000 01111000111111121 111111 000001111 11 223445566664300
Q ss_pred CCCCCCCCCCCCCcccccccccCCCCCCCCCCcccCCCCCCCCCCCCCCCCCCCCCCCcccchhhhcCCCCCCCCC-CCC
Q 015670 173 ISSPGTGTQSSVGSSSIYGITQLSASAPAYTGTYQSLPSSVGPSSSSQKEHPFPERPGQQECQYYMKTGDCKFGSS-CRF 251 (403)
Q Consensus 173 ~~~p~~~~~~~~~s~~~y~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~PeRp~q~~Cryy~KtG~CkfG~~-CkF 251 (403)
.+.|.. .+...++|....... +......++.....+..+.|+- . .|.|..+++ |+|
T Consensus 159 ~~vp~~----~~p~~~~~~~g~p~v-----------------~~~~~~~~~k~~r~~~~e~~~~-~-~gn~~r~e~d~~f 215 (331)
T KOG2494|consen 159 GLVPAD----GLPTTPVFVPGGPGV-----------------PGPGLVGGQKLLRSDRLEVCRE-Q-RGNCRRGEQDAQF 215 (331)
T ss_pred CCCCCc----CCCCCccccCCCCcc-----------------cccccccccccccCCCCCCCcc-c-ccccccchhHHHH
Confidence 122221 222333333211111 1111222334444456777888 3 699999965 999
Q ss_pred CCCCCccCCCCCcccCCCCCCCCCCCccccccccccccCCCCCCCCCCCCCCCCCCCC
Q 015670 252 HHPRELIVPKMDVTLSPFGLPLRPGAAPCTHYVQRGVCKFGPACKFDHPMGMLSYSPS 309 (403)
Q Consensus 252 ~Hp~~~~~~~~~~~ls~~glP~rp~~~~C~~Y~~~G~CkfG~~CkF~Hp~~~~~y~~~ 309 (403)
.|+.+......+... ..+|..| .+|.|-- ++||+.|......+...
T Consensus 216 ~~~~k~~~~~s~~~t----------~~~~~~~-t~~~~~~-en~~~~~~~~h~~~~~~ 261 (331)
T KOG2494|consen 216 AHPAKSIMIDSNDNT----------VEVCLRY-TKGRCET-ENCKYFHAPAHDQASAK 261 (331)
T ss_pred hhhhhhhhcccCCCc----------chhcccc-ccceech-hcccccCchHHHHHHHH
Confidence 999876654433221 3578888 5799984 89999999876655433
No 4
>KOG1040 consensus Polyadenylation factor I complex, subunit, Yth1 (CPSF subunit) [RNA processing and modification]
Probab=99.00 E-value=2.7e-10 Score=114.31 Aligned_cols=51 Identities=35% Similarity=0.815 Sum_probs=42.4
Q ss_pred ccchhhhcCCCCCCCCCCCCCCCCCccCCCCCcccCCCCCCCCCCCccccccccccccCCCCC-CCCCCCCCCCC
Q 015670 232 QECQYYMKTGDCKFGSSCRFHHPRELIVPKMDVTLSPFGLPLRPGAAPCTHYVQRGVCKFGPA-CKFDHPMGMLS 305 (403)
Q Consensus 232 ~~Cryy~KtG~CkfG~~CkF~Hp~~~~~~~~~~~ls~~glP~rp~~~~C~~Y~~~G~CkfG~~-CkF~Hp~~~~~ 305 (403)
.+|.+|. .|.|+-|.+|++.|-.. ..|..|. .|+|.-|.. |.+.|+...+.
T Consensus 135 k~c~~~~-~g~c~~g~~c~~~h~~~---------------------~~c~~y~-~gfC~~g~q~c~~~hp~~~~~ 186 (325)
T KOG1040|consen 135 KKCKWYK-EGFCRGGPSCKKRHERK---------------------VLCPPYN-AGFCPKGPQRCDMLHPEFQQP 186 (325)
T ss_pred hccchhh-hccCCCcchhhhhhhcc---------------------cCCCchh-hhhccCCCCcccccCCCCCCC
Confidence 6788888 69999999999999321 4699994 799999999 99999987664
No 5
>KOG1492 consensus C3H1-type Zn-finger protein [General function prediction only]
Probab=98.88 E-value=1e-09 Score=105.12 Aligned_cols=54 Identities=24% Similarity=0.679 Sum_probs=46.3
Q ss_pred CCccccccccccCCCCCCCCCCCCcCCCCCCCcccccccCCCCCCCCCCcccccccCccCCCCCCCccCCCCCC
Q 015670 15 VGQPVCQYYMRTGTCKYGASCKYHHPRQGAGSVSNVSLNYYGYPLRPGEKECSYYMKTRQCKFGATCKFHHPQP 88 (403)
Q Consensus 15 ~g~~~CryylrtG~Ck~G~~CkF~H~~~~~~~~~~~~ln~~g~P~r~~e~~C~~flktG~CkfG~~CrF~H~~~ 88 (403)
+...-||||...|.|-.|..|||.|...+. .+|+-|+. |.|-..+.|.+.|..+
T Consensus 204 psavycryynangicgkgaacrfvheptrk-------------------ticpkfln-grcnkaedcnlsheld 257 (377)
T KOG1492|consen 204 PSAVYCRYYNANGICGKGAACRFVHEPTRK-------------------TICPKFLN-GRCNKAEDCNLSHELD 257 (377)
T ss_pred CceeEEEEecCCCcccCCceeeeecccccc-------------------ccChHHhc-CccCchhcCCcccccC
Confidence 556789999888999999999999976643 26999998 9999999999999875
No 6
>KOG1040 consensus Polyadenylation factor I complex, subunit, Yth1 (CPSF subunit) [RNA processing and modification]
Probab=98.67 E-value=1.7e-08 Score=101.51 Aligned_cols=61 Identities=30% Similarity=0.710 Sum_probs=50.1
Q ss_pred ccchhhhcCCCCCCCCCCCCCCCCCccCCCCCcccCCCCCCCCCCCccccccccccccCCCCCCCCCCCCCCCCCCCCC
Q 015670 232 QECQYYMKTGDCKFGSSCRFHHPRELIVPKMDVTLSPFGLPLRPGAAPCTHYVQRGVCKFGPACKFDHPMGMLSYSPSA 310 (403)
Q Consensus 232 ~~Cryy~KtG~CkfG~~CkF~Hp~~~~~~~~~~~ls~~glP~rp~~~~C~~Y~~~G~CkfG~~CkF~Hp~~~~~y~~~~ 310 (403)
++|.||.+.|.|..|.+|-|.|..... ....|.+| +.|+|+-|+.||+.|....+.+...+
T Consensus 106 rec~ff~~~g~c~~~~~c~y~h~dpqt-----------------~~k~c~~~-~~g~c~~g~~c~~~h~~~~~c~~y~~ 166 (325)
T KOG1040|consen 106 RECKFFSLFGECTNGKDCPYLHGDPQT-----------------AIKKCKWY-KEGFCRGGPSCKKRHERKVLCPPYNA 166 (325)
T ss_pred ccccccccccccccccCCcccCCChhh-----------------hhhccchh-hhccCCCcchhhhhhhcccCCCchhh
Confidence 689999999999999999999954211 13579999 68999999999999999877665543
No 7
>COG5063 CTH1 CCCH-type Zn-finger protein [General function prediction only]
Probab=98.52 E-value=3e-07 Score=91.22 Aligned_cols=76 Identities=24% Similarity=0.552 Sum_probs=57.4
Q ss_pred CCCCCCCCCC-cccchhhhcCCCCCC---CCCCCCC---CCCCccCCCCCcccCCCCCCCCCCCccccccccccccCCCC
Q 015670 221 KEHPFPERPG-QQECQYYMKTGDCKF---GSSCRFH---HPRELIVPKMDVTLSPFGLPLRPGAAPCTHYVQRGVCKFGP 293 (403)
Q Consensus 221 ~~~~~PeRp~-q~~Cryy~KtG~Ckf---G~~CkF~---Hp~~~~~~~~~~~ls~~glP~rp~~~~C~~Y~~~G~CkfG~ 293 (403)
+++.-+.+.+ -.+|.-|...|.|++ |+.|.|+ |....+..+... .-.++..|..+.+.|+|+||.
T Consensus 219 ~e~n~~L~kt~~~lc~~ft~kg~~p~~~sG~~~q~a~~~HGlN~l~~k~k~--------~~frTePcinwe~sGyc~yg~ 290 (351)
T COG5063 219 QEQNKPLYKTNPELCESFTRKGTCPYWISGVKCQFACRGHGLNELKSKKKK--------QNFRTEPCINWEKSGYCPYGL 290 (351)
T ss_pred hhccchhhcCCHHHhhccCcCCCCccccccccccccccccccccccccccc--------cccccCCccchhhcccCcccc
Confidence 3344444443 257999999999999 9999999 986655443221 113467899999999999999
Q ss_pred CCCCCCCCCCC
Q 015670 294 ACKFDHPMGML 304 (403)
Q Consensus 294 ~CkF~Hp~~~~ 304 (403)
+|-|.|..+..
T Consensus 291 Rc~F~hgd~~~ 301 (351)
T COG5063 291 RCCFKHGDDSD 301 (351)
T ss_pred ccccccCChhh
Confidence 99999998654
No 8
>COG5084 YTH1 Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]
Probab=98.46 E-value=8e-07 Score=88.07 Aligned_cols=59 Identities=29% Similarity=0.679 Sum_probs=41.8
Q ss_pred ccchhhhc--CCCCCCCCCCCCCCCCCccCCCCCcccCCCCCCCCCCCccccccccccccCCCCC--------------C
Q 015670 232 QECQYYMK--TGDCKFGSSCRFHHPRELIVPKMDVTLSPFGLPLRPGAAPCTHYVQRGVCKFGPA--------------C 295 (403)
Q Consensus 232 ~~Cryy~K--tG~CkfG~~CkF~Hp~~~~~~~~~~~ls~~glP~rp~~~~C~~Y~~~G~CkfG~~--------------C 295 (403)
.+|++|.+ .+.|.+|..|+|.|-..... .+...|.+| +.++|+-|.. |
T Consensus 164 ~~~~~~~~~~~~f~p~g~~c~~~H~~~~~~---------------~~~~p~~~y-~~~fsP~g~~~~~~~~~~~~~~~~~ 227 (285)
T COG5084 164 GNCDQYSGATYGFCPLGASCKFSHTLKRVS---------------YGSSPCGNY-TPPFSPPGTPSESVSSWGYGKGTSC 227 (285)
T ss_pred ccccccCcccccccCCCCcccccccccccc---------------ccccccccC-cCCcCCCCCCccccccccccccccc
Confidence 44555554 68999999999999543221 111268888 4688888888 9
Q ss_pred CCCCCCCCCCC
Q 015670 296 KFDHPMGMLSY 306 (403)
Q Consensus 296 kF~Hp~~~~~y 306 (403)
++.||...+.-
T Consensus 228 ~~~~ps~~~~i 238 (285)
T COG5084 228 SLSHPSLNIDI 238 (285)
T ss_pred cCCCccccCCc
Confidence 99999876644
No 9
>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=98.43 E-value=6.7e-08 Score=63.59 Aligned_cols=25 Identities=44% Similarity=1.182 Sum_probs=20.5
Q ss_pred CcccchhhhcCCCCCCCCCCCCCCC
Q 015670 230 GQQECQYYMKTGDCKFGSSCRFHHP 254 (403)
Q Consensus 230 ~q~~Cryy~KtG~CkfG~~CkF~Hp 254 (403)
++.+|++|+++|.|+||++|+|+|+
T Consensus 2 k~~~C~~f~~~g~C~~G~~C~f~H~ 26 (27)
T PF00642_consen 2 KTKLCRFFMRTGTCPFGDKCRFAHG 26 (27)
T ss_dssp TSSB-HHHHHTS--TTGGGSSSBSS
T ss_pred ccccChhhccCCccCCCCCcCccCC
Confidence 5689999999999999999999996
No 10
>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=98.35 E-value=9.2e-08 Score=62.92 Aligned_cols=27 Identities=37% Similarity=1.091 Sum_probs=21.5
Q ss_pred CCccccccccccCCCCCCCCCCCCcCC
Q 015670 15 VGQPVCQYYMRTGTCKYGASCKYHHPR 41 (403)
Q Consensus 15 ~g~~~CryylrtG~Ck~G~~CkF~H~~ 41 (403)
+++.+|++|+++|.|++|++|+|+|+.
T Consensus 1 ~k~~~C~~f~~~g~C~~G~~C~f~H~~ 27 (27)
T PF00642_consen 1 YKTKLCRFFMRTGTCPFGDKCRFAHGE 27 (27)
T ss_dssp TTSSB-HHHHHTS--TTGGGSSSBSSG
T ss_pred CccccChhhccCCccCCCCCcCccCCC
Confidence 357899999999999999999999973
No 11
>KOG2333 consensus Uncharacterized conserved protein [General function prediction only]
Probab=98.16 E-value=6.5e-07 Score=93.67 Aligned_cols=63 Identities=24% Similarity=0.598 Sum_probs=53.2
Q ss_pred CcccchhhhcC--CCCCCCCCCCCCCCCCccCCCCCcccCCCCCCCCCCCccccccccccccCCCCCCCCCCCCC
Q 015670 230 GQQECQYYMKT--GDCKFGSSCRFHHPRELIVPKMDVTLSPFGLPLRPGAAPCTHYVQRGVCKFGPACKFDHPMG 302 (403)
Q Consensus 230 ~q~~Cryy~Kt--G~CkfG~~CkF~Hp~~~~~~~~~~~ls~~glP~rp~~~~C~~Y~~~G~CkfG~~CkF~Hp~~ 302 (403)
...+|.-.... -.|.||++|||.|+++.+.+.+..++ .+.|++|...|+|.||-+|||.-.+.
T Consensus 75 ~n~LCPsli~g~~~~C~f~d~Crf~HDi~ayLatK~~Di----------g~~Cp~f~s~G~Cp~G~~CRFl~aHl 139 (614)
T KOG2333|consen 75 QNRLCPSLIQGDISKCSFGDNCRFVHDIEAYLATKAPDI----------GPSCPVFESLGFCPYGFKCRFLGAHL 139 (614)
T ss_pred hhccChHhhcCCCccCcccccccccccHHHHHhccCccc----------CCccceeeccccCCccceeehhhccc
Confidence 35789999965 36999999999999999887776665 36799999999999999999985553
No 12
>COG5084 YTH1 Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]
Probab=98.15 E-value=2.7e-05 Score=77.39 Aligned_cols=61 Identities=33% Similarity=0.742 Sum_probs=49.9
Q ss_pred ccchhhhcCCCCCCCCCCCCCCCCCccCCCCCcccCCCCCCCCCCCcccccccc--ccccCCCCCCCCCCCCCCCCCCCC
Q 015670 232 QECQYYMKTGDCKFGSSCRFHHPRELIVPKMDVTLSPFGLPLRPGAAPCTHYVQ--RGVCKFGPACKFDHPMGMLSYSPS 309 (403)
Q Consensus 232 ~~Cryy~KtG~CkfG~~CkF~Hp~~~~~~~~~~~ls~~glP~rp~~~~C~~Y~~--~G~CkfG~~CkF~Hp~~~~~y~~~ 309 (403)
..|++|-..|.|..|..|.|.|.... .....|.+|.. ++.|.+|..|+|.|...+..|.++
T Consensus 135 ~~c~~Fs~~G~cs~g~~c~~~h~dp~-----------------~~~~~~~~~~~~~~~f~p~g~~c~~~H~~~~~~~~~~ 197 (285)
T COG5084 135 PPCRSFSLKGSCSSGPSCGYSHIDPD-----------------SFAGNCDQYSGATYGFCPLGASCKFSHTLKRVSYGSS 197 (285)
T ss_pred CCcccccccceeccCCCCCccccCcc-----------------cccccccccCcccccccCCCCcccccccccccccccc
Confidence 57899966899999999999995311 01346888853 799999999999999999988777
No 13
>KOG2333 consensus Uncharacterized conserved protein [General function prediction only]
Probab=98.15 E-value=6.7e-07 Score=93.56 Aligned_cols=63 Identities=17% Similarity=0.568 Sum_probs=52.4
Q ss_pred cccccccccc--CCCCCCCCCCCCcCCCCCCCcccccccCCCCCCCCCCcccccccCccCCCCCCCccC--CCCCCC
Q 015670 17 QPVCQYYMRT--GTCKYGASCKYHHPRQGAGSVSNVSLNYYGYPLRPGEKECSYYMKTRQCKFGATCKF--HHPQPA 89 (403)
Q Consensus 17 ~~~Cryylrt--G~Ck~G~~CkF~H~~~~~~~~~~~~ln~~g~P~r~~e~~C~~flktG~CkfG~~CrF--~H~~~~ 89 (403)
..+|.-.+.+ -.|.||++|||.||++.....++.++ ++.|++|...|.|.||.+||| .|....
T Consensus 76 n~LCPsli~g~~~~C~f~d~Crf~HDi~ayLatK~~Di----------g~~Cp~f~s~G~Cp~G~~CRFl~aHld~~ 142 (614)
T KOG2333|consen 76 NRLCPSLIQGDISKCSFGDNCRFVHDIEAYLATKAPDI----------GPSCPVFESLGFCPYGFKCRFLGAHLDIE 142 (614)
T ss_pred hccChHhhcCCCccCcccccccccccHHHHHhccCccc----------CCccceeeccccCCccceeehhhcccCcc
Confidence 5799999996 36999999999999998765566555 357999999999999999999 565543
No 14
>KOG1492 consensus C3H1-type Zn-finger protein [General function prediction only]
Probab=98.14 E-value=1.4e-06 Score=83.94 Aligned_cols=53 Identities=19% Similarity=0.668 Sum_probs=45.1
Q ss_pred CccccccccccCCCCCCCCCCCCcCCCCCCCcccccccCCCCCCCCCCcccccccCccCCCCCCCccCCCCCC
Q 015670 16 GQPVCQYYMRTGTCKYGASCKYHHPRQGAGSVSNVSLNYYGYPLRPGEKECSYYMKTRQCKFGATCKFHHPQP 88 (403)
Q Consensus 16 g~~~CryylrtG~Ck~G~~CkF~H~~~~~~~~~~~~ln~~g~P~r~~e~~C~~flktG~CkfG~~CrF~H~~~ 88 (403)
...+|.-|+. |.|...+.|..+|..+..+ .+.|+||+. |+|- ..+|||.|.+-
T Consensus 232 rkticpkfln-grcnkaedcnlsheldprr-----------------ipacryfll-gkcn-npncryvhihy 284 (377)
T KOG1492|consen 232 RKTICPKFLN-GRCNKAEDCNLSHELDPRR-----------------IPACRYFLL-GKCN-NPNCRYVHIHY 284 (377)
T ss_pred ccccChHHhc-CccCchhcCCcccccCccc-----------------cchhhhhhh-ccCC-CCCceEEEEee
Confidence 3678999999 9999999999999988653 346999998 9996 78999988763
No 15
>COG5063 CTH1 CCCH-type Zn-finger protein [General function prediction only]
Probab=98.09 E-value=4e-06 Score=83.42 Aligned_cols=67 Identities=25% Similarity=0.633 Sum_probs=54.3
Q ss_pred cccccccccCCCCC---CCCCCCC---cCCCCCCCcccccccCCCCCCCCCCcccccccCccCCCCCCCccCCCCCCCCC
Q 015670 18 PVCQYYMRTGTCKY---GASCKYH---HPRQGAGSVSNVSLNYYGYPLRPGEKECSYYMKTRQCKFGATCKFHHPQPAGV 91 (403)
Q Consensus 18 ~~CryylrtG~Ck~---G~~CkF~---H~~~~~~~~~~~~ln~~g~P~r~~e~~C~~flktG~CkfG~~CrF~H~~~~~~ 91 (403)
.+|.-|.+.|.|.+ |+.|.|. |...+...... -...+++.|..|.+.|.|+||.+|-|.|..+.++
T Consensus 231 ~lc~~ft~kg~~p~~~sG~~~q~a~~~HGlN~l~~k~k--------~~~frTePcinwe~sGyc~yg~Rc~F~hgd~~~i 302 (351)
T COG5063 231 ELCESFTRKGTCPYWISGVKCQFACRGHGLNELKSKKK--------KQNFRTEPCINWEKSGYCPYGLRCCFKHGDDSDI 302 (351)
T ss_pred HHhhccCcCCCCcccccccccccccccccccccccccc--------ccccccCCccchhhcccCccccccccccCChhhc
Confidence 68999988899999 9999999 98776532111 1123567899999999999999999999998765
Q ss_pred C
Q 015670 92 P 92 (403)
Q Consensus 92 ~ 92 (403)
.
T Consensus 303 e 303 (351)
T COG5063 303 E 303 (351)
T ss_pred c
Confidence 4
No 16
>KOG2494 consensus C3H1-type Zn-finger protein [Transcription]
Probab=98.08 E-value=1.7e-06 Score=86.66 Aligned_cols=59 Identities=27% Similarity=0.619 Sum_probs=45.6
Q ss_pred cccchhhhcCCCCCCCCC-CCCCCCCCccCCCCCcccCCCCCCCCCCCccccccccccccCCCCCCCCCCCCCCC
Q 015670 231 QQECQYYMKTGDCKFGSS-CRFHHPRELIVPKMDVTLSPFGLPLRPGAAPCTHYVQRGVCKFGPACKFDHPMGML 304 (403)
Q Consensus 231 q~~Cryy~KtG~CkfG~~-CkF~Hp~~~~~~~~~~~ls~~glP~rp~~~~C~~Y~~~G~CkfG~~CkF~Hp~~~~ 304 (403)
..+||.|+ .|.|++|+. |||.||.....-... +...|..| ++|.|.. ++|||.|+...+
T Consensus 37 ~eVCReF~-rn~C~R~d~~CkfaHP~~~~~V~~g------------~v~aC~Ds-~kgrCsR-~nCkylHpp~hl 96 (331)
T KOG2494|consen 37 LEVCREFL-RNTCSRGDRECKFAHPPKNCQVSNG------------RVIACFDS-QKGRCSR-ENCKYLHPPQHL 96 (331)
T ss_pred HHHHHHHH-hccccCCCccccccCCCCCCCccCC------------eEEEEecc-ccCccCc-ccceecCCChhh
Confidence 36899999 599999999 999998663322211 23469999 6899996 789999998655
No 17
>smart00356 ZnF_C3H1 zinc finger.
Probab=97.78 E-value=1.5e-05 Score=51.23 Aligned_cols=24 Identities=38% Similarity=1.175 Sum_probs=21.4
Q ss_pred CcccchhhhcCCCCCCCCCCCCCCC
Q 015670 230 GQQECQYYMKTGDCKFGSSCRFHHP 254 (403)
Q Consensus 230 ~q~~Cryy~KtG~CkfG~~CkF~Hp 254 (403)
+..+|++| ++|.|++|++|+|.|+
T Consensus 3 k~~~C~~~-~~g~C~~g~~C~~~H~ 26 (27)
T smart00356 3 KTELCKFF-KRGYCPYGDRCKFAHP 26 (27)
T ss_pred CCCcCcCc-cCCCCCCCCCcCCCCc
Confidence 45689999 5999999999999995
No 18
>KOG1763 consensus Uncharacterized conserved protein, contains CCCH-type Zn-finger [General function prediction only]
Probab=97.76 E-value=5.5e-06 Score=82.07 Aligned_cols=76 Identities=25% Similarity=0.632 Sum_probs=52.0
Q ss_pred CCCccccccccccCCCCCCCCCCCCcCCCCCCCcccccccC-------------------CCCCCCCCCcccccccC---
Q 015670 14 RVGQPVCQYYMRTGTCKYGASCKYHHPRQGAGSVSNVSLNY-------------------YGYPLRPGEKECSYYMK--- 71 (403)
Q Consensus 14 R~g~~~CryylrtG~Ck~G~~CkF~H~~~~~~~~~~~~ln~-------------------~g~P~r~~e~~C~~flk--- 71 (403)
.+...+|.||.. |.|..|+.|+|+|+..........++.. .+-|..-...+|+||+-
T Consensus 89 DPKSvvCafFk~-g~C~KG~kCKFsHdl~~~~k~eK~dly~d~rdemWD~~kl~~vv~~K~~k~k~~tdiVCKfFLeAvE 167 (343)
T KOG1763|consen 89 DPKSVVCAFFKQ-GTCTKGDKCKFSHDLAVERKKEKIDLYPDTRDEMWDEEKLEEVVLKKHGKPKPTTDIVCKFFLEAVE 167 (343)
T ss_pred CchHHHHHHHhc-cCCCCCCcccccchHHHhhhccchhccccchhhhhhHHHHHHHHHhhccCCCCchhHHHHHHHHHHh
Confidence 467899999999 9999999999999987654322222200 01111112347999973
Q ss_pred ---cc---CCCCCC-CccCCCCCCCC
Q 015670 72 ---TR---QCKFGA-TCKFHHPQPAG 90 (403)
Q Consensus 72 ---tG---~CkfG~-~CrF~H~~~~~ 90 (403)
+| .|++|. .|.|.|-.+.+
T Consensus 168 ~~kYGWfW~CPnGg~~C~YrHaLP~G 193 (343)
T KOG1763|consen 168 NGKYGWFWECPNGGDKCIYRHALPEG 193 (343)
T ss_pred cCCccceeECCCCCCeeeeeecCCcc
Confidence 34 399986 99999998753
No 19
>smart00356 ZnF_C3H1 zinc finger.
Probab=97.75 E-value=1.8e-05 Score=50.77 Aligned_cols=25 Identities=36% Similarity=1.142 Sum_probs=21.6
Q ss_pred CccccccccccCCCCCCCCCCCCcCC
Q 015670 16 GQPVCQYYMRTGTCKYGASCKYHHPR 41 (403)
Q Consensus 16 g~~~CryylrtG~Ck~G~~CkF~H~~ 41 (403)
+..+|++| .+|.|.+|++|+|.|+.
T Consensus 3 k~~~C~~~-~~g~C~~g~~C~~~H~~ 27 (27)
T smart00356 3 KTELCKFF-KRGYCPYGDRCKFAHPL 27 (27)
T ss_pred CCCcCcCc-cCCCCCCCCCcCCCCcC
Confidence 45689999 55999999999999973
No 20
>KOG1763 consensus Uncharacterized conserved protein, contains CCCH-type Zn-finger [General function prediction only]
Probab=97.47 E-value=2.9e-05 Score=77.03 Aligned_cols=76 Identities=25% Similarity=0.580 Sum_probs=51.8
Q ss_pred CCCCCcccchhhhcCCCCCCCCCCCCCCCCCccCCCCC-------------------cccCCCCCCCCCCCccccccc--
Q 015670 226 PERPGQQECQYYMKTGDCKFGSSCRFHHPRELIVPKMD-------------------VTLSPFGLPLRPGAAPCTHYV-- 284 (403)
Q Consensus 226 PeRp~q~~Cryy~KtG~CkfG~~CkF~Hp~~~~~~~~~-------------------~~ls~~glP~rp~~~~C~~Y~-- 284 (403)
-+.|+..+|-||. .|.|..|+.|+|+|+........- +++...|-|.---..+|.||+
T Consensus 87 gvDPKSvvCafFk-~g~C~KG~kCKFsHdl~~~~k~eK~dly~d~rdemWD~~kl~~vv~~K~~k~k~~tdiVCKfFLeA 165 (343)
T KOG1763|consen 87 GVDPKSVVCAFFK-QGTCTKGDKCKFSHDLAVERKKEKIDLYPDTRDEMWDEEKLEEVVLKKHGKPKPTTDIVCKFFLEA 165 (343)
T ss_pred CCCchHHHHHHHh-ccCCCCCCcccccchHHHhhhccchhccccchhhhhhHHHHHHHHHhhccCCCCchhHHHHHHHHH
Confidence 3467889999999 899999999999997654322111 112222222212244899997
Q ss_pred ----cccc---cCCCC-CCCCCCCCC
Q 015670 285 ----QRGV---CKFGP-ACKFDHPMG 302 (403)
Q Consensus 285 ----~~G~---CkfG~-~CkF~Hp~~ 302 (403)
+||+ |++|- .|.|.|-..
T Consensus 166 vE~~kYGWfW~CPnGg~~C~YrHaLP 191 (343)
T KOG1763|consen 166 VENGKYGWFWECPNGGDKCIYRHALP 191 (343)
T ss_pred HhcCCccceeECCCCCCeeeeeecCC
Confidence 5665 99986 799999764
No 21
>KOG2185 consensus Predicted RNA-processing protein, contains G-patch domain [RNA processing and modification]
Probab=96.97 E-value=0.00035 Score=72.13 Aligned_cols=59 Identities=20% Similarity=0.563 Sum_probs=41.0
Q ss_pred CCCCCCCCCcCCCCCC---Ccccc------ccc-CCCCCCCCCCcccccccCccCCCCCCCccCCCCCCC
Q 015670 30 KYGASCKYHHPRQGAG---SVSNV------SLN-YYGYPLRPGEKECSYYMKTRQCKFGATCKFHHPQPA 89 (403)
Q Consensus 30 k~G~~CkF~H~~~~~~---~~~~~------~ln-~~g~P~r~~e~~C~~flktG~CkfG~~CrF~H~~~~ 89 (403)
--|++|.+-|.-.... .+..+ .+. ..-+|.....++|+||+. |.|+|+++|||+|....
T Consensus 97 L~GsKcsaph~ss~gl~yHna~I~g~E~sarvRVlfl~PTh~sMkpC~ffLe-g~CRF~enCRfSHG~~V 165 (486)
T KOG2185|consen 97 LDGSKCSAPHTSSRGLYYHNARIIGFEGSARVRVLFLTPTHESMKPCKFFLE-GRCRFGENCRFSHGLDV 165 (486)
T ss_pred ccCCcccccccCCccceecceeEEeeccccceEEEeecCcchhhccchHhhc-cccccCcccccccCccc
Confidence 3588998888765531 11100 111 123577777889999999 99999999999999864
No 22
>COG5252 Uncharacterized conserved protein, contains CCCH-type Zn-finger protein [General function prediction only]
Probab=96.82 E-value=0.0003 Score=68.29 Aligned_cols=76 Identities=28% Similarity=0.694 Sum_probs=53.6
Q ss_pred CCCccccccccccCCCCCCCCCCCCcCCCCCCCccccccc------CCCCCC--CC---CCcccccccC---cc------
Q 015670 14 RVGQPVCQYYMRTGTCKYGASCKYHHPRQGAGSVSNVSLN------YYGYPL--RP---GEKECSYYMK---TR------ 73 (403)
Q Consensus 14 R~g~~~CryylrtG~Ck~G~~CkF~H~~~~~~~~~~~~ln------~~g~P~--r~---~e~~C~~flk---tG------ 73 (403)
.+...+|..|+. +.|-.|+.|+|+|+.......+..+|. ...+|+ |+ -..+|+||+- +|
T Consensus 82 dpK~~vcalF~~-~~c~kg~~ckF~h~~ee~r~~eK~DLYsDvRd~~ed~pl~krP~intd~VCkffieA~e~GkYgw~W 160 (299)
T COG5252 82 DPKTVVCALFLN-KTCAKGDACKFAHGKEEARKTEKPDLYSDVRDKEEDVPLGKRPWINTDRVCKFFIEAMESGKYGWGW 160 (299)
T ss_pred CchhHHHHHhcc-CccccCchhhhhcchHHHhhhcccchhhhhhhhhccCCcccCCCCChhHHHHHHHHHHhcCCcccee
Confidence 467899999999 999999999999997775433333221 122332 33 2457999973 23
Q ss_pred CCCCC-CCccCCCCCCCC
Q 015670 74 QCKFG-ATCKFHHPQPAG 90 (403)
Q Consensus 74 ~CkfG-~~CrF~H~~~~~ 90 (403)
.|++| .+|.|.|..+.+
T Consensus 161 ~CPng~~~C~y~H~Lp~G 178 (299)
T COG5252 161 TCPNGNMRCSYIHKLPDG 178 (299)
T ss_pred eCCCCCceeeeeeccCcc
Confidence 39999 699999998753
No 23
>KOG1595 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=96.69 E-value=0.0044 Score=66.00 Aligned_cols=61 Identities=28% Similarity=0.549 Sum_probs=50.8
Q ss_pred cccchhhhcCCCCCCCCCCCCCCCCCccCCCCCcccCCCCCCCCCCCccccccccccccCCCCCCCCCCCCCCCCC
Q 015670 231 QQECQYYMKTGDCKFGSSCRFHHPRELIVPKMDVTLSPFGLPLRPGAAPCTHYVQRGVCKFGPACKFDHPMGMLSY 306 (403)
Q Consensus 231 q~~Cryy~KtG~CkfG~~CkF~Hp~~~~~~~~~~~ls~~glP~rp~~~~C~~Y~~~G~CkfG~~CkF~Hp~~~~~y 306 (403)
-..|..|.| |.|+.||.|-|+|.. +.-|-.|.|+++..|+.= |.|+. .-|-|.|..+.|..
T Consensus 236 ~tpCPefrk-G~C~rGD~CEyaHgv----------fEcwLHPa~YRT~~CkDg---~~C~R-rvCfFAH~~eqLR~ 296 (528)
T KOG1595|consen 236 STPCPEFRK-GSCERGDSCEYAHGV----------FECWLHPARYRTRKCKDG---GYCPR-RVCFFAHSPEQLRP 296 (528)
T ss_pred CccCccccc-CCCCCCCccccccce----------ehhhcCHHHhccccccCC---CCCcc-ceEeeecChHHhcc
Confidence 367999995 999999999999954 444556888999999876 89998 78999999988843
No 24
>KOG4791 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.69 E-value=0.00079 Score=70.78 Aligned_cols=52 Identities=29% Similarity=0.788 Sum_probs=40.0
Q ss_pred cccccccccCCCCCCCCCCCCcCCCCCCCcccccccCCCCCCCCCCcccccccCccCCCCCCCccCCCCCC
Q 015670 18 PVCQYYMRTGTCKYGASCKYHHPRQGAGSVSNVSLNYYGYPLRPGEKECSYYMKTRQCKFGATCKFHHPQP 88 (403)
Q Consensus 18 ~~CryylrtG~Ck~G~~CkF~H~~~~~~~~~~~~ln~~g~P~r~~e~~C~~flktG~CkfG~~CrF~H~~~ 88 (403)
..|.||+- -.||+++.|.|.|...-.. ..-+|.+|+..--|+. .|+|.|..-
T Consensus 4 ~dcyff~y-s~cKk~d~c~~rh~E~al~----------------n~t~C~~w~~~~~C~k--~C~YRHSe~ 55 (667)
T KOG4791|consen 4 EDCYFFFY-STCKKGDSCPFRHCEAALG----------------NETVCTLWQEGRCCRK--VCRYRHSEI 55 (667)
T ss_pred ccchhhhh-hhhhccCcCcchhhHHHhc----------------CcchhhhhhhcCcccc--cccchhhHH
Confidence 57999988 7899999999999766542 1237999998444664 999999773
No 25
>KOG1595 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=96.50 E-value=0.0025 Score=67.88 Aligned_cols=53 Identities=19% Similarity=0.419 Sum_probs=39.6
Q ss_pred CCCCCCCCCCCcCCCCCCCcccccccCCCCCCCCCCcccccccCccCCCCCCCccCCCCCC
Q 015670 28 TCKYGASCKYHHPRQGAGSVSNVSLNYYGYPLRPGEKECSYYMKTRQCKFGATCKFHHPQP 88 (403)
Q Consensus 28 ~Ck~G~~CkF~H~~~~~~~~~~~~ln~~g~P~r~~e~~C~~flktG~CkfG~~CrF~H~~~ 88 (403)
.|.-+..|.|.|+-++.+...+.... +.-..|+.|.| |.|+.||.|.|.|..-
T Consensus 208 ~shDwteCPf~HpgEkARRRDPRkyh-------Ys~tpCPefrk-G~C~rGD~CEyaHgvf 260 (528)
T KOG1595|consen 208 RSHDWTECPFAHPGEKARRRDPRKYH-------YSSTPCPEFRK-GSCERGDSCEYAHGVF 260 (528)
T ss_pred cCCCcccCCccCCCcccccCCccccc-------ccCccCccccc-CCCCCCCcccccccee
Confidence 45667889999988876544443222 22346999999 9999999999999764
No 26
>PF14608 zf-CCCH_2: Zinc finger C-x8-C-x5-C-x3-H type
Probab=96.30 E-value=0.0022 Score=39.08 Aligned_cols=19 Identities=32% Similarity=0.999 Sum_probs=17.0
Q ss_pred ccccccccCCCCCCCCCCCCcC
Q 015670 19 VCQYYMRTGTCKYGASCKYHHP 40 (403)
Q Consensus 19 ~CryylrtG~Ck~G~~CkF~H~ 40 (403)
.|+||.. |++|++|.|.|+
T Consensus 1 ~Ck~~~~---C~~~~~C~f~HP 19 (19)
T PF14608_consen 1 PCKFGPN---CTNGDNCPFSHP 19 (19)
T ss_pred CCcCcCC---CCCCCcCccCCc
Confidence 5998876 999999999996
No 27
>KOG2185 consensus Predicted RNA-processing protein, contains G-patch domain [RNA processing and modification]
Probab=96.24 E-value=0.002 Score=66.64 Aligned_cols=30 Identities=33% Similarity=1.077 Sum_probs=25.3
Q ss_pred CCCCCcccchhhhcCCCCCCCCCCCCCCCCC
Q 015670 226 PERPGQQECQYYMKTGDCKFGSSCRFHHPRE 256 (403)
Q Consensus 226 PeRp~q~~Cryy~KtG~CkfG~~CkF~Hp~~ 256 (403)
|--.....|.||+ .|.|+||++|||+|..+
T Consensus 135 PTh~sMkpC~ffL-eg~CRF~enCRfSHG~~ 164 (486)
T KOG2185|consen 135 PTHESMKPCKFFL-EGRCRFGENCRFSHGLD 164 (486)
T ss_pred CcchhhccchHhh-ccccccCcccccccCcc
Confidence 3344568999999 89999999999999765
No 28
>PF14608 zf-CCCH_2: Zinc finger C-x8-C-x5-C-x3-H type
Probab=96.03 E-value=0.0034 Score=38.30 Aligned_cols=19 Identities=37% Similarity=1.043 Sum_probs=16.6
Q ss_pred cchhhhcCCCCCCCCCCCCCCC
Q 015670 233 ECQYYMKTGDCKFGSSCRFHHP 254 (403)
Q Consensus 233 ~Cryy~KtG~CkfG~~CkF~Hp 254 (403)
.|+|+.. |++|++|.|.||
T Consensus 1 ~Ck~~~~---C~~~~~C~f~HP 19 (19)
T PF14608_consen 1 PCKFGPN---CTNGDNCPFSHP 19 (19)
T ss_pred CCcCcCC---CCCCCcCccCCc
Confidence 4898873 999999999996
No 29
>COG5252 Uncharacterized conserved protein, contains CCCH-type Zn-finger protein [General function prediction only]
Probab=95.79 E-value=0.0024 Score=62.17 Aligned_cols=76 Identities=25% Similarity=0.565 Sum_probs=50.0
Q ss_pred CCCCCcccchhhhcCCCCCCCCCCCCCCCCCccCCCCCccc------CCCCCCC--CCC---Cccccccc------cccc
Q 015670 226 PERPGQQECQYYMKTGDCKFGSSCRFHHPRELIVPKMDVTL------SPFGLPL--RPG---AAPCTHYV------QRGV 288 (403)
Q Consensus 226 PeRp~q~~Cryy~KtG~CkfG~~CkF~Hp~~~~~~~~~~~l------s~~glP~--rp~---~~~C~~Y~------~~G~ 288 (403)
-+.|+..+|-.|. .+.|-.|+.|+|+|.++......-.+| ..-.+|+ ||- ..+|.||. ++|+
T Consensus 80 gvdpK~~vcalF~-~~~c~kg~~ckF~h~~ee~r~~eK~DLYsDvRd~~ed~pl~krP~intd~VCkffieA~e~GkYgw 158 (299)
T COG5252 80 GVDPKTVVCALFL-NKTCAKGDACKFAHGKEEARKTEKPDLYSDVRDKEEDVPLGKRPWINTDRVCKFFIEAMESGKYGW 158 (299)
T ss_pred ccCchhHHHHHhc-cCccccCchhhhhcchHHHhhhcccchhhhhhhhhccCCcccCCCCChhHHHHHHHHHHhcCCccc
Confidence 3457889999999 899999999999998654321111111 0011232 222 35899996 3443
Q ss_pred ---cCCC-CCCCCCCCCC
Q 015670 289 ---CKFG-PACKFDHPMG 302 (403)
Q Consensus 289 ---CkfG-~~CkF~Hp~~ 302 (403)
|++| ++|.|.|-..
T Consensus 159 ~W~CPng~~~C~y~H~Lp 176 (299)
T COG5252 159 GWTCPNGNMRCSYIHKLP 176 (299)
T ss_pred eeeCCCCCceeeeeeccC
Confidence 9998 6799999764
No 30
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=95.49 E-value=0.0044 Score=59.09 Aligned_cols=28 Identities=46% Similarity=0.943 Sum_probs=25.5
Q ss_pred ccccccccccCCCCCCCCCCCCcCCCCC
Q 015670 17 QPVCQYYMRTGTCKYGASCKYHHPRQGA 44 (403)
Q Consensus 17 ~~~CryylrtG~Ck~G~~CkF~H~~~~~ 44 (403)
..+|+.|..||.|-||+.|||+|++++.
T Consensus 141 pdVCKdyk~TGYCGYGDsCKflH~R~D~ 168 (259)
T COG5152 141 PDVCKDYKETGYCGYGDSCKFLHDRSDF 168 (259)
T ss_pred cccccchhhcccccCCchhhhhhhhhhh
Confidence 4589999999999999999999999864
No 31
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=94.24 E-value=0.015 Score=55.48 Aligned_cols=25 Identities=36% Similarity=0.868 Sum_probs=23.5
Q ss_pred cccccccCccCCCCCCCccCCCCCC
Q 015670 64 KECSYYMKTRQCKFGATCKFHHPQP 88 (403)
Q Consensus 64 ~~C~~flktG~CkfG~~CrF~H~~~ 88 (403)
.+|+.|..||+|-||++|+|.|...
T Consensus 142 dVCKdyk~TGYCGYGDsCKflH~R~ 166 (259)
T COG5152 142 DVCKDYKETGYCGYGDSCKFLHDRS 166 (259)
T ss_pred ccccchhhcccccCCchhhhhhhhh
Confidence 4799999999999999999999986
No 32
>KOG4791 consensus Uncharacterized conserved protein [Function unknown]
Probab=93.26 E-value=0.065 Score=56.92 Aligned_cols=66 Identities=27% Similarity=0.560 Sum_probs=37.7
Q ss_pred ccchhhhcCCCCCCCCCCCCCCCCCccCCCCCcccCCCCC------CCC-------CCCccccccccccc-cCCCCCCCC
Q 015670 232 QECQYYMKTGDCKFGSSCRFHHPRELIVPKMDVTLSPFGL------PLR-------PGAAPCTHYVQRGV-CKFGPACKF 297 (403)
Q Consensus 232 ~~Cryy~KtG~CkfG~~CkF~Hp~~~~~~~~~~~ls~~gl------P~r-------p~~~~C~~Y~~~G~-CkfG~~CkF 297 (403)
+.|.||. .-.|||++.|-|.|-.+...-...|.+-..++ +.| -....|-|+. .+. |- -++|-|
T Consensus 4 ~dcyff~-ys~cKk~d~c~~rh~E~al~n~t~C~~w~~~~~C~k~C~YRHSe~~~kr~e~~CYwe~-~p~gC~-k~~Cgf 80 (667)
T KOG4791|consen 4 EDCYFFF-YSTCKKGDSCPFRHCEAALGNETVCTLWQEGRCCRKVCRYRHSEIDKKRSEIPCYWEN-QPTGCQ-KLNCGF 80 (667)
T ss_pred ccchhhh-hhhhhccCcCcchhhHHHhcCcchhhhhhhcCcccccccchhhHHhhhcCcccceeec-CCCccC-CCcccc
Confidence 5688887 67788888888888544332222222111111 111 1345687764 565 76 478999
Q ss_pred CCC
Q 015670 298 DHP 300 (403)
Q Consensus 298 ~Hp 300 (403)
.|.
T Consensus 81 RH~ 83 (667)
T KOG4791|consen 81 RHN 83 (667)
T ss_pred ccC
Confidence 983
No 33
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=93.05 E-value=0.029 Score=55.22 Aligned_cols=34 Identities=26% Similarity=0.719 Sum_probs=26.7
Q ss_pred CCCCCCCCcccchhhhcCCCCCCCCCCCCCCCCC
Q 015670 223 HPFPERPGQQECQYYMKTGDCKFGSSCRFHHPRE 256 (403)
Q Consensus 223 ~~~PeRp~q~~Cryy~KtG~CkfG~~CkF~Hp~~ 256 (403)
.+|-...++.-|.||.|+|.|++|+.|.=.|-+.
T Consensus 7 sifgtekdKv~c~fy~k~gacR~gdrcsR~h~kp 40 (260)
T KOG2202|consen 7 SIFGTEKDKVNCSFYFKIGACRHGDRCSRLHEKP 40 (260)
T ss_pred HHhcccccccccchHHhhcccccccHHHHhhccc
Confidence 3444455678899999999999999997777543
No 34
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.36 E-value=0.046 Score=56.08 Aligned_cols=25 Identities=36% Similarity=1.101 Sum_probs=23.6
Q ss_pred cccccccccCCCCCCCCCCCCcCCCC
Q 015670 18 PVCQYYMRTGTCKYGASCKYHHPRQG 43 (403)
Q Consensus 18 ~~CryylrtG~Ck~G~~CkF~H~~~~ 43 (403)
.+|+||.+ |.|+||+.|||.|.+..
T Consensus 9 tic~~~~~-g~c~~g~~cr~~h~~~~ 33 (344)
T KOG1039|consen 9 TICKYYQK-GNCKFGDLCRLSHSLPD 33 (344)
T ss_pred hhhhhccc-ccccccceeeeeccCch
Confidence 89999999 99999999999999874
No 35
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.20 E-value=0.043 Score=55.04 Aligned_cols=28 Identities=43% Similarity=0.941 Sum_probs=25.7
Q ss_pred ccccccccccCCCCCCCCCCCCcCCCCC
Q 015670 17 QPVCQYYMRTGTCKYGASCKYHHPRQGA 44 (403)
Q Consensus 17 ~~~CryylrtG~Ck~G~~CkF~H~~~~~ 44 (403)
.-+|+.|..||.|-||+.|+|.|++...
T Consensus 186 pDicKdykeTgycg~gdSckFlh~r~Dy 213 (313)
T KOG1813|consen 186 PDICKDYKETGYCGYGDSCKFLHDRSDY 213 (313)
T ss_pred chhhhhhHhhCcccccchhhhhhhhhhc
Confidence 4589999999999999999999999865
No 36
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.13 E-value=0.054 Score=55.56 Aligned_cols=25 Identities=44% Similarity=1.083 Sum_probs=23.4
Q ss_pred cccccccCccCCCCCCCccCCCCCCC
Q 015670 64 KECSYYMKTRQCKFGATCKFHHPQPA 89 (403)
Q Consensus 64 ~~C~~flktG~CkfG~~CrF~H~~~~ 89 (403)
.+|+||.+ |.|+||+.|||.|..+.
T Consensus 9 tic~~~~~-g~c~~g~~cr~~h~~~~ 33 (344)
T KOG1039|consen 9 TICKYYQK-GNCKFGDLCRLSHSLPD 33 (344)
T ss_pred hhhhhccc-ccccccceeeeeccCch
Confidence 47999999 99999999999999984
No 37
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=90.21 E-value=0.087 Score=51.92 Aligned_cols=28 Identities=25% Similarity=0.606 Sum_probs=24.2
Q ss_pred CCCcccccccCccCCCCCCCccCCCCCCC
Q 015670 61 PGEKECSYYMKTRQCKFGATCKFHHPQPA 89 (403)
Q Consensus 61 ~~e~~C~~flktG~CkfG~~CrF~H~~~~ 89 (403)
..+-.|..|.+ +.|.+|..|-|.|.+..
T Consensus 150 ~rea~C~~~e~-~~C~rG~~CnFmH~k~~ 177 (260)
T KOG2202|consen 150 FREAICGQFER-TECSRGGACNFMHVKRL 177 (260)
T ss_pred hhhhhhccccc-ccCCCCCcCcchhhhhh
Confidence 35667999999 69999999999999953
No 38
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.96 E-value=0.15 Score=51.27 Aligned_cols=25 Identities=36% Similarity=0.857 Sum_probs=23.3
Q ss_pred cccccccCccCCCCCCCccCCCCCC
Q 015670 64 KECSYYMKTRQCKFGATCKFHHPQP 88 (403)
Q Consensus 64 ~~C~~flktG~CkfG~~CrF~H~~~ 88 (403)
.+|+.|..||.|-||++|+|.|...
T Consensus 187 DicKdykeTgycg~gdSckFlh~r~ 211 (313)
T KOG1813|consen 187 DICKDYKETGYCGYGDSCKFLHDRS 211 (313)
T ss_pred hhhhhhHhhCcccccchhhhhhhhh
Confidence 3699999999999999999999985
No 39
>KOG3702 consensus Nuclear polyadenylated RNA binding protein [RNA processing and modification]
Probab=86.00 E-value=1 Score=49.61 Aligned_cols=23 Identities=30% Similarity=0.612 Sum_probs=17.9
Q ss_pred CccccccccccccCCCCCCCCCCCCCC
Q 015670 277 AAPCTHYVQRGVCKFGPACKFDHPMGM 303 (403)
Q Consensus 277 ~~~C~~Y~~~G~CkfG~~CkF~Hp~~~ 303 (403)
...|+|+ |.|+ -..|+|.||...
T Consensus 625 ~~~CrY~---pnCr-nm~C~F~HPk~c 647 (681)
T KOG3702|consen 625 RGLCRYR---PNCR-NMQCKFYHPKTC 647 (681)
T ss_pred cccceec---cCcC-CccccccCCccc
Confidence 3568887 7788 478999999864
No 40
>PF10650 zf-C3H1: Putative zinc-finger domain; InterPro: IPR019607 This domain is conserved in fungi and might be a zinc-finger domain as it contains three conserved Cs and an H in the C-x8-C-x5-C-x3-H conformation typical of a zinc-finger.
Probab=82.18 E-value=0.76 Score=29.64 Aligned_cols=22 Identities=32% Similarity=1.034 Sum_probs=18.1
Q ss_pred cccccccccCCCCCCCCCCCCcC
Q 015670 18 PVCQYYMRTGTCKYGASCKYHHP 40 (403)
Q Consensus 18 ~~CryylrtG~Ck~G~~CkF~H~ 40 (403)
++|.|-+++|.|. .+.|.|.|=
T Consensus 1 ~lC~yEl~Gg~Cn-d~~C~~QHf 22 (23)
T PF10650_consen 1 PLCPYELTGGVCN-DPDCEFQHF 22 (23)
T ss_pred CCCccccCCCeeC-CCCCCcccc
Confidence 4799999966996 467999994
No 41
>KOG3702 consensus Nuclear polyadenylated RNA binding protein [RNA processing and modification]
Probab=79.06 E-value=2.7 Score=46.50 Aligned_cols=57 Identities=26% Similarity=0.613 Sum_probs=35.5
Q ss_pred ccchhhhcCCCCCCCCCCCCCCCCCccC--CCCCcccCCCCCCCCCCCccccccccccccCCCC-----CCCCCCCCCCC
Q 015670 232 QECQYYMKTGDCKFGSSCRFHHPRELIV--PKMDVTLSPFGLPLRPGAAPCTHYVQRGVCKFGP-----ACKFDHPMGML 304 (403)
Q Consensus 232 ~~Cryy~KtG~CkfG~~CkF~Hp~~~~~--~~~~~~ls~~glP~rp~~~~C~~Y~~~G~CkfG~-----~CkF~Hp~~~~ 304 (403)
..|.|+. .|. +..|.|+||..... ..+++.+ ...|.+-+ -.|+||. .|.|.|....+
T Consensus 545 ~~Cky~~---~Ct-~a~Ce~~HPtaa~~~~s~p~k~f----------a~~~~ks~--p~Ck~~~kCtasDC~~sH~~~~~ 608 (681)
T KOG3702|consen 545 TRCKYGP---ACT-SAECEFAHPTAAENAKSLPNKKF----------ASKCLKSH--PGCKFGKKCTASDCNYSHAGRRI 608 (681)
T ss_pred ccccCCC---cCC-chhhhhcCCcchhhhhccccccc----------cccceecc--cccccccccccccCcccccCCCC
Confidence 5688877 488 88899999866522 2222221 23454442 4577774 46888888776
No 42
>PF10650 zf-C3H1: Putative zinc-finger domain; InterPro: IPR019607 This domain is conserved in fungi and might be a zinc-finger domain as it contains three conserved Cs and an H in the C-x8-C-x5-C-x3-H conformation typical of a zinc-finger.
Probab=75.97 E-value=1.8 Score=27.98 Aligned_cols=21 Identities=29% Similarity=0.782 Sum_probs=18.0
Q ss_pred ccccccCccCCCCCCCccCCCC
Q 015670 65 ECSYYMKTRQCKFGATCKFHHP 86 (403)
Q Consensus 65 ~C~~flktG~CkfG~~CrF~H~ 86 (403)
.|+|-++.|.|. -+.|.|.|-
T Consensus 2 lC~yEl~Gg~Cn-d~~C~~QHf 22 (23)
T PF10650_consen 2 LCPYELTGGVCN-DPDCEFQHF 22 (23)
T ss_pred CCccccCCCeeC-CCCCCcccc
Confidence 699999955997 689999995
No 43
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=75.43 E-value=2 Score=44.34 Aligned_cols=34 Identities=29% Similarity=0.891 Sum_probs=28.0
Q ss_pred CCCCCCCCCcccchhhhcCCCCCCCCCCCCCCCCC
Q 015670 222 EHPFPERPGQQECQYYMKTGDCKFGSSCRFHHPRE 256 (403)
Q Consensus 222 ~~~~PeRp~q~~Cryy~KtG~CkfG~~CkF~Hp~~ 256 (403)
...|-.|..-.+|.||++ |.||.|+.|-|.|.+.
T Consensus 152 t~p~ykrn~p~Icsf~v~-geckRG~ec~yrhEkp 185 (377)
T KOG0153|consen 152 TTPYYKRNRPHICSFFVK-GECKRGAECPYRHEKP 185 (377)
T ss_pred cCccccCCCCccccceee-ccccccccccccccCC
Confidence 344666777789999995 7999999999999665
No 44
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=71.88 E-value=2.2 Score=43.99 Aligned_cols=32 Identities=31% Similarity=0.917 Sum_probs=28.5
Q ss_pred CCCCCCCccccccccccCCCCCCCCCCCCcCCC
Q 015670 10 EFPERVGQPVCQYYMRTGTCKYGASCKYHHPRQ 42 (403)
Q Consensus 10 ~~peR~g~~~CryylrtG~Ck~G~~CkF~H~~~ 42 (403)
.|-.|..-.+|-||++ |.|++|+.|-|.|+..
T Consensus 154 p~ykrn~p~Icsf~v~-geckRG~ec~yrhEkp 185 (377)
T KOG0153|consen 154 PYYKRNRPHICSFFVK-GECKRGAECPYRHEKP 185 (377)
T ss_pred ccccCCCCccccceee-ccccccccccccccCC
Confidence 4557777899999999 8999999999999887
No 45
>PF10283 zf-CCHH: Zinc-finger (CX5CX6HX5H) motif; InterPro: IPR019406 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. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a C2H2-type Znf motif that in humans is part of the APLF (aprataxin- and PNK-like) forkead association domain-containing protein []. The Znf is highly conserved both in primary sequence and in the spacing between the putative zinc coordinating residues, and is configured CX5CX6HX5H. Many of the proteins containing this Znf are involved in DNA strand break repair and/or contain domains implicated in DNA metabolism. This Znf motif appears to be specialised for the non-covalent binding of poly ADP-ribose; Aprataxin also appears to covalently bind poly ADP-ribose, but not through its Znf motif [].; PDB: 2KQC_A 2KUO_A 2KQE_A 2KQD_A 2KQB_A.
Probab=45.60 E-value=5.8 Score=26.32 Aligned_cols=11 Identities=36% Similarity=0.945 Sum_probs=5.8
Q ss_pred ccCCCCCCCCC
Q 015670 288 VCKFGPACKFD 298 (403)
Q Consensus 288 ~CkfG~~CkF~ 298 (403)
.|+||.+|-..
T Consensus 2 ~C~YG~~CYRk 12 (26)
T PF10283_consen 2 PCKYGAKCYRK 12 (26)
T ss_dssp E-TTGGG-S--
T ss_pred CCCcchhhhcC
Confidence 49999999533
No 46
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=28.98 E-value=28 Score=37.65 Aligned_cols=35 Identities=17% Similarity=0.247 Sum_probs=30.1
Q ss_pred CCCCCCCccccccccccCCCCCCCCCCCCcCCCCC
Q 015670 10 EFPERVGQPVCQYYMRTGTCKYGASCKYHHPRQGA 44 (403)
Q Consensus 10 ~~peR~g~~~CryylrtG~Ck~G~~CkF~H~~~~~ 44 (403)
.+.-|.....|++|.++|.|..|+.|++.|.....
T Consensus 205 p~ks~~s~~r~k~fee~g~~~r~el~p~~hg~~~v 239 (526)
T KOG2135|consen 205 PEKSRNSENRRKFFEEFGVLERGELCPTHHGCVPV 239 (526)
T ss_pred cccccccHHhhhhhHhhceeeecccccccccccee
Confidence 45566778899999999999999999999987653
No 47
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=28.30 E-value=33 Score=37.04 Aligned_cols=32 Identities=22% Similarity=0.390 Sum_probs=27.4
Q ss_pred CCCcccchhhhcCCCCCCCCCCCCCCCCCccC
Q 015670 228 RPGQQECQYYMKTGDCKFGSSCRFHHPRELIV 259 (403)
Q Consensus 228 Rp~q~~Cryy~KtG~CkfG~~CkF~Hp~~~~~ 259 (403)
|.....|.+|-++|.|+.|+.|+++|..+...
T Consensus 209 ~~s~~r~k~fee~g~~~r~el~p~~hg~~~vv 240 (526)
T KOG2135|consen 209 RNSENRRKFFEEFGVLERGELCPTHHGCVPVV 240 (526)
T ss_pred cccHHhhhhhHhhceeeeccccccccccceeE
Confidence 44567899999999999999999999877553
Done!