Query 024271
Match_columns 270
No_of_seqs 231 out of 1651
Neff 6.6
Searched_HMMs 46136
Date Fri Mar 29 03:21:04 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024271.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024271hhsearch_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 99.6 4.8E-15 1E-19 138.3 6.8 119 90-261 87-207 (332)
2 KOG1595 CCCH-type Zn-finger pr 99.4 4E-13 8.7E-18 129.8 4.7 103 83-262 195-298 (528)
3 KOG1677 CCCH-type Zn-finger pr 99.3 3.1E-12 6.7E-17 119.4 4.5 82 79-192 122-205 (332)
4 COG5063 CTH1 CCCH-type Zn-fing 99.2 5.7E-12 1.2E-16 114.4 5.1 116 81-261 220-344 (351)
5 COG5063 CTH1 CCCH-type Zn-fing 99.1 9.1E-11 2E-15 106.6 5.4 78 159-265 223-308 (351)
6 KOG1040 Polyadenylation factor 99.1 8.1E-11 1.8E-15 109.5 4.4 113 86-261 74-188 (325)
7 KOG1595 CCCH-type Zn-finger pr 98.9 1.2E-09 2.6E-14 106.0 5.6 153 76-262 104-266 (528)
8 PF00642 zf-CCCH: Zinc finger 98.6 8.8E-09 1.9E-13 61.8 -0.3 27 229-255 1-27 (27)
9 PF00642 zf-CCCH: Zinc finger 98.5 2.9E-08 6.4E-13 59.5 0.4 25 87-111 1-26 (27)
10 COG5084 YTH1 Cleavage and poly 98.4 1.1E-06 2.3E-11 80.6 7.4 90 86-258 101-192 (285)
11 KOG1492 C3H1-type Zn-finger pr 98.2 9.9E-07 2.1E-11 77.9 2.6 21 91-111 208-229 (377)
12 smart00356 ZnF_C3H1 zinc finge 98.1 1.3E-06 2.9E-11 51.6 2.2 25 87-111 2-26 (27)
13 KOG2333 Uncharacterized conser 98.0 1.9E-06 4.2E-11 83.3 2.1 63 163-256 75-139 (614)
14 smart00356 ZnF_C3H1 zinc finge 98.0 3.6E-06 7.8E-11 49.8 2.1 26 229-255 2-27 (27)
15 KOG1040 Polyadenylation factor 97.9 1.2E-05 2.6E-10 75.2 4.2 25 88-112 104-129 (325)
16 KOG2333 Uncharacterized conser 97.8 6.5E-06 1.4E-10 79.7 0.9 58 88-186 75-136 (614)
17 KOG2494 C3H1-type Zn-finger pr 97.7 1.2E-05 2.6E-10 74.4 1.7 59 89-191 37-96 (331)
18 KOG1492 C3H1-type Zn-finger pr 97.7 1.7E-05 3.6E-10 70.3 2.0 25 232-256 289-313 (377)
19 KOG2494 C3H1-type Zn-finger pr 97.3 0.0001 2.3E-09 68.2 1.7 62 162-259 35-97 (331)
20 KOG1763 Uncharacterized conser 97.0 0.00018 4E-09 65.7 0.4 32 85-116 88-119 (343)
21 COG5252 Uncharacterized conser 96.9 0.00016 3.4E-09 64.3 -0.8 85 85-190 81-177 (299)
22 COG5084 YTH1 Cleavage and poly 96.4 0.0058 1.3E-07 56.3 5.5 56 163-255 103-158 (285)
23 PF14608 zf-CCCH_2: Zinc finge 96.0 0.0049 1.1E-07 33.8 1.7 19 233-254 1-19 (19)
24 KOG2185 Predicted RNA-processi 95.8 0.0036 7.7E-08 59.8 1.2 39 88-126 139-182 (486)
25 KOG4791 Uncharacterized conser 95.7 0.0047 1E-07 60.1 1.3 80 90-255 4-84 (667)
26 KOG2185 Predicted RNA-processi 95.5 0.0059 1.3E-07 58.3 1.5 37 230-267 139-179 (486)
27 PF14608 zf-CCCH_2: Zinc finge 95.5 0.0092 2E-07 32.7 1.6 19 91-111 1-19 (19)
28 COG5152 Uncharacterized conser 95.1 0.0072 1.6E-07 52.7 0.6 30 228-257 138-167 (259)
29 KOG4791 Uncharacterized conser 94.2 0.042 9.1E-07 53.7 3.5 106 90-255 33-141 (667)
30 COG5152 Uncharacterized conser 93.8 0.025 5.4E-07 49.4 0.9 33 85-117 137-170 (259)
31 KOG1039 Predicted E3 ubiquitin 91.7 0.13 2.9E-06 48.7 2.8 25 165-190 9-33 (344)
32 KOG1813 Predicted E3 ubiquitin 90.6 0.077 1.7E-06 49.0 0.0 30 229-258 184-213 (313)
33 KOG1763 Uncharacterized conser 90.4 0.081 1.8E-06 48.8 0.0 35 227-262 88-122 (343)
34 KOG1813 Predicted E3 ubiquitin 86.3 0.23 5.1E-06 45.9 0.2 31 161-191 183-213 (313)
35 KOG1039 Predicted E3 ubiquitin 83.4 0.43 9.3E-06 45.3 0.6 24 90-113 9-32 (344)
36 PF10650 zf-C3H1: Putative zin 83.4 0.72 1.6E-05 26.5 1.3 20 90-110 1-21 (23)
37 COG5252 Uncharacterized conser 82.9 0.34 7.3E-06 43.5 -0.3 35 227-262 81-115 (299)
38 KOG2202 U2 snRNP splicing fact 71.6 2 4.3E-05 39.1 1.2 30 83-112 146-175 (260)
39 KOG3702 Nuclear polyadenylated 64.6 11 0.00023 38.7 4.8 15 242-256 652-666 (681)
40 KOG3702 Nuclear polyadenylated 61.5 13 0.00029 38.0 4.9 11 180-190 597-607 (681)
41 KOG2202 U2 snRNP splicing fact 53.2 6.1 0.00013 36.0 0.9 28 227-255 148-175 (260)
42 KOG0153 Predicted RNA-binding 52.2 9.1 0.0002 36.4 1.9 23 90-112 162-184 (377)
43 KOG0153 Predicted RNA-binding 44.6 9.8 0.00021 36.2 0.8 24 232-256 162-185 (377)
44 PF10283 zf-CCHH: Zinc-finger 20.5 28 0.00061 20.6 -0.3 9 242-250 2-10 (26)
No 1
>KOG1677 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=99.56 E-value=4.8e-15 Score=138.28 Aligned_cols=119 Identities=30% Similarity=0.628 Sum_probs=91.9
Q ss_pred ccccccc-cCCCCCCCCCCCCCCcCccCCCCCchHHHHHHhhhhhcccCCCCccccccCccccccccccccCccccccCc
Q 024271 90 KLCCKFR-NGTCPYITNCNFAHSIEELRRPPPNWQEIVAAHEEERASTNEIPREEFQIPSIVSTNFAVETQRSYKGRHCK 168 (270)
Q Consensus 90 klC~~f~-~G~C~~Gd~C~FaH~~~elR~pp~~~~~~~~~~~~e~~~~~~~~r~~~~~p~~~s~~~~~~~~~~~Kt~~C~ 168 (270)
..|..+. .+.|.++..|+|.|...+++..+.. . .........+|+.+|.
T Consensus 87 ~~~~~~~~~~~~~~~s~~~~~~p~~~~~~~~~~----~--------------------------~~~~~~p~~~kt~lc~ 136 (332)
T KOG1677|consen 87 GDCSAYLRTGVCGYGSSCRYNHPDLRLRPRPVR----R--------------------------SRGERKPERYKTPLCR 136 (332)
T ss_pred cccccccccCCCCCCCCCCccCcccccccCCcc----c--------------------------cccccCcccccCCcce
Confidence 6899998 5999999999999988665543310 0 0011224578999999
Q ss_pred cccccCCCCC-CCCCCCCCcccccccccccccCCCCCCCCCCCcccccCCCCCccCCCCCcccccccccccccccCCCCC
Q 024271 169 KFYTEEGCPY-GENCTFLHDEQSKNRESVAISLGPGGYGGGGAAAAAAGNNIGVSNVKPSNWKTRICNKWELTGYCPFGN 247 (270)
Q Consensus 169 ~f~~~G~C~~-G~~C~f~H~~~e~~~e~~~~s~~p~~~~~~~~~~s~~~~~~~~~~~~~~~~kt~lC~~f~~~G~C~~G~ 247 (270)
.|...|.|+| |++|+|+|...++.... + ......+..|||++|.+|..+|+|+||.
T Consensus 137 ~~~~~g~c~y~ge~crfah~~~e~r~~~---~--------------------~~~~~~~~~~kt~lC~~f~~tG~C~yG~ 193 (332)
T KOG1677|consen 137 SFRKSGTCKYRGEQCRFAHGLEELRLPS---S--------------------ENQVGNPPKYKTKLCPKFQKTGLCKYGS 193 (332)
T ss_pred eeecCccccccCchhhhcCCcccccccc---c--------------------chhhcCCCCCCCcCCCccccCCCCCCCC
Confidence 9999999999 99999999998764211 0 0012467889999999999999999999
Q ss_pred CCCCCCCccccccc
Q 024271 248 KCHFAHGIQEFCIY 261 (270)
Q Consensus 248 ~CrFaHg~~el~~~ 261 (270)
+|+|+|+..+++..
T Consensus 194 rC~F~H~~~~~~~~ 207 (332)
T KOG1677|consen 194 RCRFIHGEPEDRAS 207 (332)
T ss_pred cCeecCCCcccccc
Confidence 99999999877654
No 2
>KOG1595 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=99.36 E-value=4e-13 Score=129.81 Aligned_cols=103 Identities=29% Similarity=0.619 Sum_probs=87.2
Q ss_pred CccccccccccccccCCCCCCCCCCCCC-CcCccCCCCCchHHHHHHhhhhhcccCCCCccccccCccccccccccccCc
Q 024271 83 GKMFFKTKLCCKFRNGTCPYITNCNFAH-SIEELRRPPPNWQEIVAAHEEERASTNEIPREEFQIPSIVSTNFAVETQRS 161 (270)
Q Consensus 83 ~~~~yKTklC~~f~~G~C~~Gd~C~FaH-~~~elR~pp~~~~~~~~~~~~e~~~~~~~~r~~~~~p~~~s~~~~~~~~~~ 161 (270)
.+--|||+.|..- .|.-+..|.|+| +..+.|+.|.. ..
T Consensus 195 rMy~fKir~C~R~---~shDwteCPf~HpgEkARRRDPRk--------------------------------------yh 233 (528)
T KOG1595|consen 195 RMYSFKIRRCSRP---RSHDWTECPFAHPGEKARRRDPRK--------------------------------------YH 233 (528)
T ss_pred EEEeeeecccCCc---cCCCcccCCccCCCcccccCCccc--------------------------------------cc
Confidence 3445899999864 999999999999 76667776642 24
Q ss_pred cccccCccccccCCCCCCCCCCCCCcccccccccccccCCCCCCCCCCCcccccCCCCCccCCCCCcccccccccccccc
Q 024271 162 YKGRHCKKFYTEEGCPYGENCTFLHDEQSKNRESVAISLGPGGYGGGGAAAAAAGNNIGVSNVKPSNWKTRICNKWELTG 241 (270)
Q Consensus 162 ~Kt~~C~~f~~~G~C~~G~~C~f~H~~~e~~~e~~~~s~~p~~~~~~~~~~s~~~~~~~~~~~~~~~~kt~lC~~f~~~G 241 (270)
|..+.|+.|.. |.|..|+.|.|+|++-|.. ++|..|||++|++ .|
T Consensus 234 Ys~tpCPefrk-G~C~rGD~CEyaHgvfEcw-------------------------------LHPa~YRT~~CkD---g~ 278 (528)
T KOG1595|consen 234 YSSTPCPEFRK-GSCERGDSCEYAHGVFECW-------------------------------LHPARYRTRKCKD---GG 278 (528)
T ss_pred ccCccCccccc-CCCCCCCccccccceehhh-------------------------------cCHHHhccccccC---CC
Confidence 67889999865 9999999999999998854 7899999999997 48
Q ss_pred cCCCCCCCCCCCCcccccccc
Q 024271 242 YCPFGNKCHFAHGIQEFCIYG 262 (270)
Q Consensus 242 ~C~~G~~CrFaHg~~el~~~~ 262 (270)
+|++ .-|.|||..+|||...
T Consensus 279 ~C~R-rvCfFAH~~eqLR~l~ 298 (528)
T KOG1595|consen 279 YCPR-RVCFFAHSPEQLRPLP 298 (528)
T ss_pred CCcc-ceEeeecChHHhcccC
Confidence 9999 9999999999998765
No 3
>KOG1677 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=99.27 E-value=3.1e-12 Score=119.37 Aligned_cols=82 Identities=39% Similarity=0.755 Sum_probs=66.1
Q ss_pred ccccCccccccccccccc-cCCCCC-CCCCCCCCCcCccCCCCCchHHHHHHhhhhhcccCCCCccccccCccccccccc
Q 024271 79 SKAIGKMFFKTKLCCKFR-NGTCPY-ITNCNFAHSIEELRRPPPNWQEIVAAHEEERASTNEIPREEFQIPSIVSTNFAV 156 (270)
Q Consensus 79 ~~~~~~~~yKTklC~~f~-~G~C~~-Gd~C~FaH~~~elR~pp~~~~~~~~~~~~e~~~~~~~~r~~~~~p~~~s~~~~~ 156 (270)
........|||.+|..|. .|.|+| |++|+|+|+.+++|.+.. . . ..
T Consensus 122 ~~~~~p~~~kt~lc~~~~~~g~c~y~ge~crfah~~~e~r~~~~--~--~----------------------------~~ 169 (332)
T KOG1677|consen 122 RGERKPERYKTPLCRSFRKSGTCKYRGEQCRFAHGLEELRLPSS--E--N----------------------------QV 169 (332)
T ss_pred ccccCcccccCCcceeeecCccccccCchhhhcCCccccccccc--c--h----------------------------hh
Confidence 444556779999999999 699999 999999999999986520 0 0 00
Q ss_pred cccCccccccCccccccCCCCCCCCCCCCCcccccc
Q 024271 157 ETQRSYKGRHCKKFYTEEGCPYGENCTFLHDEQSKN 192 (270)
Q Consensus 157 ~~~~~~Kt~~C~~f~~~G~C~~G~~C~f~H~~~e~~ 192 (270)
....+|||++|.+|..+|.|+||.+|+|+|...+..
T Consensus 170 ~~~~~~kt~lC~~f~~tG~C~yG~rC~F~H~~~~~~ 205 (332)
T KOG1677|consen 170 GNPPKYKTKLCPKFQKTGLCKYGSRCRFIHGEPEDR 205 (332)
T ss_pred cCCCCCCCcCCCccccCCCCCCCCcCeecCCCcccc
Confidence 114679999999999999999999999999987553
No 4
>COG5063 CTH1 CCCH-type Zn-finger protein [General function prediction only]
Probab=99.25 E-value=5.7e-12 Score=114.37 Aligned_cols=116 Identities=26% Similarity=0.534 Sum_probs=93.2
Q ss_pred ccCcccccc--ccccccc-cCCCCC---CCCCCCC---CCcCccCCCCCchHHHHHHhhhhhcccCCCCccccccCcccc
Q 024271 81 AIGKMFFKT--KLCCKFR-NGTCPY---ITNCNFA---HSIEELRRPPPNWQEIVAAHEEERASTNEIPREEFQIPSIVS 151 (270)
Q Consensus 81 ~~~~~~yKT--klC~~f~-~G~C~~---Gd~C~Fa---H~~~elR~pp~~~~~~~~~~~~e~~~~~~~~r~~~~~p~~~s 151 (270)
..++..||| .||.-|. .|.|++ |+.|+|+ |+..+|...-
T Consensus 220 e~n~~L~kt~~~lc~~ft~kg~~p~~~sG~~~q~a~~~HGlN~l~~k~-------------------------------- 267 (351)
T COG5063 220 EQNKPLYKTNPELCESFTRKGTCPYWISGVKCQFACRGHGLNELKSKK-------------------------------- 267 (351)
T ss_pred hccchhhcCCHHHhhccCcCCCCccccccccccccccccccccccccc--------------------------------
Confidence 355677999 8999998 699999 9999999 9987765421
Q ss_pred ccccccccCccccccCccccccCCCCCCCCCCCCCcccccccccccccCCCCCCCCCCCcccccCCCCCccCCCCCcccc
Q 024271 152 TNFAVETQRSYKGRHCKKFYTEEGCPYGENCTFLHDEQSKNRESVAISLGPGGYGGGGAAAAAAGNNIGVSNVKPSNWKT 231 (270)
Q Consensus 152 ~~~~~~~~~~~Kt~~C~~f~~~G~C~~G~~C~f~H~~~e~~~e~~~~s~~p~~~~~~~~~~s~~~~~~~~~~~~~~~~kt 231 (270)
...+|+|++|..|...|+|+||.+|.|.|+..++..... .....|+.
T Consensus 268 ------k~~~frTePcinwe~sGyc~yg~Rc~F~hgd~~~ie~~~---------------------------~~~~~y~~ 314 (351)
T COG5063 268 ------KKQNFRTEPCINWEKSGYCPYGLRCCFKHGDDSDIEMYE---------------------------EASLGYLD 314 (351)
T ss_pred ------cccccccCCccchhhcccCccccccccccCChhhccccc---------------------------cccccccc
Confidence 124689999999999999999999999999877532111 11234566
Q ss_pred cccccccccccCCCCCCCCCCCCccccccc
Q 024271 232 RICNKWELTGYCPFGNKCHFAHGIQEFCIY 261 (270)
Q Consensus 232 ~lC~~f~~~G~C~~G~~CrFaHg~~el~~~ 261 (270)
..|+-++..|.|++|..|.|.|....|...
T Consensus 315 ~~crt~~~~g~~p~g~~~c~~~dkkn~~~s 344 (351)
T COG5063 315 GPCRTRAKGGAFPSGGAVCKSFDKKNLDFS 344 (351)
T ss_pred cccccccccCccCCCCchhhccccchhhhh
Confidence 889999999999999999999998877653
No 5
>COG5063 CTH1 CCCH-type Zn-finger protein [General function prediction only]
Probab=99.10 E-value=9.1e-11 Score=106.63 Aligned_cols=78 Identities=33% Similarity=0.743 Sum_probs=64.9
Q ss_pred cCcccc--ccCccccccCCCCC---CCCCCCC---CcccccccccccccCCCCCCCCCCCcccccCCCCCccCCCCCccc
Q 024271 159 QRSYKG--RHCKKFYTEEGCPY---GENCTFL---HDEQSKNRESVAISLGPGGYGGGGAAAAAAGNNIGVSNVKPSNWK 230 (270)
Q Consensus 159 ~~~~Kt--~~C~~f~~~G~C~~---G~~C~f~---H~~~e~~~e~~~~s~~p~~~~~~~~~~s~~~~~~~~~~~~~~~~k 230 (270)
...|++ .+|..|...|.|++ |+.|.|+ |+..++.. +.....|+
T Consensus 223 ~~L~kt~~~lc~~ft~kg~~p~~~sG~~~q~a~~~HGlN~l~~-----------------------------k~k~~~fr 273 (351)
T COG5063 223 KPLYKTNPELCESFTRKGTCPYWISGVKCQFACRGHGLNELKS-----------------------------KKKKQNFR 273 (351)
T ss_pred chhhcCCHHHhhccCcCCCCccccccccccccccccccccccc-----------------------------cccccccc
Confidence 446788 99999999999999 9999999 98765422 13446789
Q ss_pred ccccccccccccCCCCCCCCCCCCccccccccccc
Q 024271 231 TRICNKWELTGYCPFGNKCHFAHGIQEFCIYGIQG 265 (270)
Q Consensus 231 t~lC~~f~~~G~C~~G~~CrFaHg~~el~~~~~~~ 265 (270)
|++|..|+..|+|+||.+|.|+||++++.-+...+
T Consensus 274 TePcinwe~sGyc~yg~Rc~F~hgd~~~ie~~~~~ 308 (351)
T COG5063 274 TEPCINWEKSGYCPYGLRCCFKHGDDSDIEMYEEA 308 (351)
T ss_pred cCCccchhhcccCccccccccccCChhhccccccc
Confidence 99999999999999999999999999877665444
No 6
>KOG1040 consensus Polyadenylation factor I complex, subunit, Yth1 (CPSF subunit) [RNA processing and modification]
Probab=99.08 E-value=8.1e-11 Score=109.53 Aligned_cols=113 Identities=23% Similarity=0.499 Sum_probs=76.8
Q ss_pred ccccccccccccCCCCCCCCCCCCCCcCccCCCCCchHHHHHHhhhhhcccCCCCccccccCccccccccccccCccccc
Q 024271 86 FFKTKLCCKFRNGTCPYITNCNFAHSIEELRRPPPNWQEIVAAHEEERASTNEIPREEFQIPSIVSTNFAVETQRSYKGR 165 (270)
Q Consensus 86 ~yKTklC~~f~~G~C~~Gd~C~FaH~~~elR~pp~~~~~~~~~~~~e~~~~~~~~r~~~~~p~~~s~~~~~~~~~~~Kt~ 165 (270)
.+++.+|++|+.|.|+.||.|.|+|.. +|.. ..
T Consensus 74 ~~~~~vcK~~l~glC~kgD~C~Flhe~-~~~k----------------------------------------------~r 106 (325)
T KOG1040|consen 74 SRGKVVCKHWLRGLCKKGDQCEFLHEY-DLTK----------------------------------------------MR 106 (325)
T ss_pred cCCceeehhhhhhhhhccCcCcchhhh-hhcc----------------------------------------------cc
Confidence 678899999999999999999999987 4332 23
Q ss_pred cCccccccCCCCCCCCCCCCCccccc-ccccccccCCCCCCCCCCCcccccCCCCCccCCCCCcccccccccccccccCC
Q 024271 166 HCKKFYTEEGCPYGENCTFLHDEQSK-NRESVAISLGPGGYGGGGAAAAAAGNNIGVSNVKPSNWKTRICNKWELTGYCP 244 (270)
Q Consensus 166 ~C~~f~~~G~C~~G~~C~f~H~~~e~-~~e~~~~s~~p~~~~~~~~~~s~~~~~~~~~~~~~~~~kt~lC~~f~~~G~C~ 244 (270)
.|.+|...|.|..+..|.|.|...+- ..+...+ ..++. ..+...........+|+.|. .|+|+
T Consensus 107 ec~ff~~~g~c~~~~~c~y~h~dpqt~~k~c~~~-------~~g~c--------~~g~~c~~~h~~~~~c~~y~-~gfC~ 170 (325)
T KOG1040|consen 107 ECKFFSLFGECTNGKDCPYLHGDPQTAIKKCKWY-------KEGFC--------RGGPSCKKRHERKVLCPPYN-AGFCP 170 (325)
T ss_pred cccccccccccccccCCcccCCChhhhhhccchh-------hhccC--------CCcchhhhhhhcccCCCchh-hhhcc
Confidence 47788889999999999999988421 1110000 00000 00111222223337899888 88999
Q ss_pred CCCC-CCCCCCccccccc
Q 024271 245 FGNK-CHFAHGIQEFCIY 261 (270)
Q Consensus 245 ~G~~-CrFaHg~~el~~~ 261 (270)
.|.. |-++|+...+...
T Consensus 171 ~g~q~c~~~hp~~~~~~~ 188 (325)
T KOG1040|consen 171 KGPQRCDMLHPEFQQPPF 188 (325)
T ss_pred CCCCcccccCCCCCCChh
Confidence 9988 9999988776654
No 7
>KOG1595 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=98.92 E-value=1.2e-09 Score=106.04 Aligned_cols=153 Identities=23% Similarity=0.449 Sum_probs=98.4
Q ss_pred CCCccccCccccccccccccccCCCCC-CCCCCCCCCcCccCCCCCchHHHH--HHhh-hhhcccCC----CCccccccC
Q 024271 76 NSKSKAIGKMFFKTKLCCKFRNGTCPY-ITNCNFAHSIEELRRPPPNWQEIV--AAHE-EERASTNE----IPREEFQIP 147 (270)
Q Consensus 76 ~~~~~~~~~~~yKTklC~~f~~G~C~~-Gd~C~FaH~~~elR~pp~~~~~~~--~~~~-~e~~~~~~----~~r~~~~~p 147 (270)
+...+.++..+|||-+|..-..|.|.. +..|.|+|...++|.+...+.++. .... .+...... .--.+.+.|
T Consensus 104 ~~~e~~~hL~~~k~~~~~tda~g~~~~~v~~~~~~~~~~~~r~~~~~l~e~~~~~~~~~~e~~~~~~~~~~~y~~Dp~~p 183 (528)
T KOG1595|consen 104 GDTERTYHLRYYKTLPCVTDARGNCVKNVLHCAFAHGPNDLRPPVEDLLELQGGSGLPDDEPEVESKLDVTEYPEDPSWP 183 (528)
T ss_pred CCcceeEeccccccccCccccCCCcccCcccccccCCccccccHHHHHHhcccccCccCCCcccccccccccccCCCCcc
Confidence 444577888899999999666799955 467999999999998765443332 0000 00000000 000111222
Q ss_pred ccc-cccccccccCccccccCccccccCCCCCCCCCCCCC-cccccccccccccCCCCCCCCCCCcccccCCCCCccCCC
Q 024271 148 SIV-STNFAVETQRSYKGRHCKKFYTEEGCPYGENCTFLH-DEQSKNRESVAISLGPGGYGGGGAAAAAAGNNIGVSNVK 225 (270)
Q Consensus 148 ~~~-s~~~~~~~~~~~Kt~~C~~f~~~G~C~~G~~C~f~H-~~~e~~~e~~~~s~~p~~~~~~~~~~s~~~~~~~~~~~~ 225 (270)
.|. ..+.+....-.||++.|.. +.|.-+..|+|+| ++...+|. .+
T Consensus 184 di~~~ys~DeFrMy~fKir~C~R----~~shDwteCPf~HpgEkARRRD-----------------------------PR 230 (528)
T KOG1595|consen 184 DINGIYSSDEFRMYSFKIRRCSR----PRSHDWTECPFAHPGEKARRRD-----------------------------PR 230 (528)
T ss_pred cccccccccceEEEeeeecccCC----ccCCCcccCCccCCCcccccCC-----------------------------cc
Confidence 221 1111122245799999954 5899999999999 66655543 23
Q ss_pred CCcccccccccccccccCCCCCCCCCCCCcccccccc
Q 024271 226 PSNWKTRICNKWELTGYCPFGNKCHFAHGIQEFCIYG 262 (270)
Q Consensus 226 ~~~~kt~lC~~f~~~G~C~~G~~CrFaHg~~el~~~~ 262 (270)
-..|..+.|+.|. +|.|+.||.|.|+||.-|..-++
T Consensus 231 kyhYs~tpCPefr-kG~C~rGD~CEyaHgvfEcwLHP 266 (528)
T KOG1595|consen 231 KYHYSSTPCPEFR-KGSCERGDSCEYAHGVFECWLHP 266 (528)
T ss_pred cccccCccCcccc-cCCCCCCCccccccceehhhcCH
Confidence 3456678999998 69999999999999998865543
No 8
>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=98.58 E-value=8.8e-09 Score=61.81 Aligned_cols=27 Identities=56% Similarity=1.232 Sum_probs=21.8
Q ss_pred ccccccccccccccCCCCCCCCCCCCc
Q 024271 229 WKTRICNKWELTGYCPFGNKCHFAHGI 255 (270)
Q Consensus 229 ~kt~lC~~f~~~G~C~~G~~CrFaHg~ 255 (270)
+|+++|++|+.+|.|++|++|+|+|+.
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 468999999999999999999999984
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=98.48 E-value=2.9e-08 Score=59.51 Aligned_cols=25 Identities=56% Similarity=1.156 Sum_probs=20.5
Q ss_pred ccccccccccc-CCCCCCCCCCCCCC
Q 024271 87 FKTKLCCKFRN-GTCPYITNCNFAHS 111 (270)
Q Consensus 87 yKTklC~~f~~-G~C~~Gd~C~FaH~ 111 (270)
|||++|.+|+. |.|++|++|+|+|+
T Consensus 1 ~k~~~C~~f~~~g~C~~G~~C~f~H~ 26 (27)
T PF00642_consen 1 YKTKLCRFFMRTGTCPFGDKCRFAHG 26 (27)
T ss_dssp TTSSB-HHHHHTS--TTGGGSSSBSS
T ss_pred CccccChhhccCCccCCCCCcCccCC
Confidence 68999999995 99999999999997
No 10
>COG5084 YTH1 Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]
Probab=98.36 E-value=1.1e-06 Score=80.59 Aligned_cols=90 Identities=24% Similarity=0.658 Sum_probs=70.0
Q ss_pred ccccccccccccCCCCCCCCCCCCCCcCccCCCCCchHHHHHHhhhhhcccCCCCccccccCccccccccccccCccccc
Q 024271 86 FFKTKLCCKFRNGTCPYITNCNFAHSIEELRRPPPNWQEIVAAHEEERASTNEIPREEFQIPSIVSTNFAVETQRSYKGR 165 (270)
Q Consensus 86 ~yKTklC~~f~~G~C~~Gd~C~FaH~~~elR~pp~~~~~~~~~~~~e~~~~~~~~r~~~~~p~~~s~~~~~~~~~~~Kt~ 165 (270)
.+...+|++|..|.|+.+..|.|+|+..-++. .+-
T Consensus 101 ~~s~V~c~~~~~g~c~s~~~c~~lh~~d~~~s---------------------------------------------~~~ 135 (285)
T COG5084 101 LSSSVVCKFFLRGLCKSGFSCEFLHEYDLRSS---------------------------------------------QGP 135 (285)
T ss_pred ccCCcccchhccccCcCCCccccccCCCcccc---------------------------------------------cCC
Confidence 56678999999999999999999998732221 124
Q ss_pred cCccccccCCCCCCCCCCCCCcccccccccccccCCCCCCCCCCCcccccCCCCCccCCCCCcccccccccccc--cccC
Q 024271 166 HCKKFYTEEGCPYGENCTFLHDEQSKNRESVAISLGPGGYGGGGAAAAAAGNNIGVSNVKPSNWKTRICNKWEL--TGYC 243 (270)
Q Consensus 166 ~C~~f~~~G~C~~G~~C~f~H~~~e~~~e~~~~s~~p~~~~~~~~~~s~~~~~~~~~~~~~~~~kt~lC~~f~~--~G~C 243 (270)
.|+.|...|.|..|..|.|.|...... ...|.+|.. .+.|
T Consensus 136 ~c~~Fs~~G~cs~g~~c~~~h~dp~~~--------------------------------------~~~~~~~~~~~~~f~ 177 (285)
T COG5084 136 PCRSFSLKGSCSSGPSCGYSHIDPDSF--------------------------------------AGNCDQYSGATYGFC 177 (285)
T ss_pred CcccccccceeccCCCCCccccCcccc--------------------------------------cccccccCccccccc
Confidence 588888899999999999999873211 134655543 7899
Q ss_pred CCCCCCCCCCCcccc
Q 024271 244 PFGNKCHFAHGIQEF 258 (270)
Q Consensus 244 ~~G~~CrFaHg~~el 258 (270)
++|..|+|.|+...+
T Consensus 178 p~g~~c~~~H~~~~~ 192 (285)
T COG5084 178 PLGASCKFSHTLKRV 192 (285)
T ss_pred CCCCccccccccccc
Confidence 999999999998744
No 11
>KOG1492 consensus C3H1-type Zn-finger protein [General function prediction only]
Probab=98.17 E-value=9.9e-07 Score=77.93 Aligned_cols=21 Identities=33% Similarity=0.811 Sum_probs=13.8
Q ss_pred cccccc-cCCCCCCCCCCCCCC
Q 024271 91 LCCKFR-NGTCPYITNCNFAHS 111 (270)
Q Consensus 91 lC~~f~-~G~C~~Gd~C~FaH~ 111 (270)
.|++|. +|.|-.|..|+|.|.
T Consensus 208 ycryynangicgkgaacrfvhe 229 (377)
T KOG1492|consen 208 YCRYYNANGICGKGAACRFVHE 229 (377)
T ss_pred EEEEecCCCcccCCceeeeecc
Confidence 466665 566766767777664
No 12
>smart00356 ZnF_C3H1 zinc finger.
Probab=98.15 E-value=1.3e-06 Score=51.62 Aligned_cols=25 Identities=52% Similarity=1.157 Sum_probs=23.5
Q ss_pred cccccccccccCCCCCCCCCCCCCC
Q 024271 87 FKTKLCCKFRNGTCPYITNCNFAHS 111 (270)
Q Consensus 87 yKTklC~~f~~G~C~~Gd~C~FaH~ 111 (270)
+|+.+|.+|.+|.|.+|++|+|+|+
T Consensus 2 ~k~~~C~~~~~g~C~~g~~C~~~H~ 26 (27)
T smart00356 2 YKTELCKFFKRGYCPYGDRCKFAHP 26 (27)
T ss_pred CCCCcCcCccCCCCCCCCCcCCCCc
Confidence 6889999999999999999999996
No 13
>KOG2333 consensus Uncharacterized conserved protein [General function prediction only]
Probab=98.04 E-value=1.9e-06 Score=83.29 Aligned_cols=63 Identities=30% Similarity=0.738 Sum_probs=49.4
Q ss_pred ccccCcccccc--CCCCCCCCCCCCCcccccccccccccCCCCCCCCCCCcccccCCCCCccCCCCCccccccccccccc
Q 024271 163 KGRHCKKFYTE--EGCPYGENCTFLHDEQSKNRESVAISLGPGGYGGGGAAAAAAGNNIGVSNVKPSNWKTRICNKWELT 240 (270)
Q Consensus 163 Kt~~C~~f~~~--G~C~~G~~C~f~H~~~e~~~e~~~~s~~p~~~~~~~~~~s~~~~~~~~~~~~~~~~kt~lC~~f~~~ 240 (270)
+..||+..... ..|.||++|+|.|+...+... ++.+.. .-|+.|.+.
T Consensus 75 ~n~LCPsli~g~~~~C~f~d~Crf~HDi~ayLat------------------------------K~~Dig-~~Cp~f~s~ 123 (614)
T KOG2333|consen 75 QNRLCPSLIQGDISKCSFGDNCRFVHDIEAYLAT------------------------------KAPDIG-PSCPVFESL 123 (614)
T ss_pred hhccChHhhcCCCccCcccccccccccHHHHHhc------------------------------cCcccC-Cccceeecc
Confidence 46899887666 579999999999999876532 223333 469999999
Q ss_pred ccCCCCCCCCCCCCcc
Q 024271 241 GYCPFGNKCHFAHGIQ 256 (270)
Q Consensus 241 G~C~~G~~CrFaHg~~ 256 (270)
|+|+||-+|||+-++-
T Consensus 124 G~Cp~G~~CRFl~aHl 139 (614)
T KOG2333|consen 124 GFCPYGFKCRFLGAHL 139 (614)
T ss_pred ccCCccceeehhhccc
Confidence 9999999999986653
No 14
>smart00356 ZnF_C3H1 zinc finger.
Probab=98.01 E-value=3.6e-06 Score=49.75 Aligned_cols=26 Identities=46% Similarity=1.307 Sum_probs=22.8
Q ss_pred ccccccccccccccCCCCCCCCCCCCc
Q 024271 229 WKTRICNKWELTGYCPFGNKCHFAHGI 255 (270)
Q Consensus 229 ~kt~lC~~f~~~G~C~~G~~CrFaHg~ 255 (270)
+|+.+|++| .+|.|++|++|+|+|+.
T Consensus 2 ~k~~~C~~~-~~g~C~~g~~C~~~H~~ 27 (27)
T smart00356 2 YKTELCKFF-KRGYCPYGDRCKFAHPL 27 (27)
T ss_pred CCCCcCcCc-cCCCCCCCCCcCCCCcC
Confidence 456799999 69999999999999973
No 15
>KOG1040 consensus Polyadenylation factor I complex, subunit, Yth1 (CPSF subunit) [RNA processing and modification]
Probab=97.88 E-value=1.2e-05 Score=75.24 Aligned_cols=25 Identities=28% Similarity=0.577 Sum_probs=20.9
Q ss_pred ccccccccc-cCCCCCCCCCCCCCCc
Q 024271 88 KTKLCCKFR-NGTCPYITNCNFAHSI 112 (270)
Q Consensus 88 KTklC~~f~-~G~C~~Gd~C~FaH~~ 112 (270)
|.+.|.+|. .|.|..++.|.|.|+.
T Consensus 104 k~rec~ff~~~g~c~~~~~c~y~h~d 129 (325)
T KOG1040|consen 104 KMRECKFFSLFGECTNGKDCPYLHGD 129 (325)
T ss_pred ccccccccccccccccccCCcccCCC
Confidence 334688887 6999999999999976
No 16
>KOG2333 consensus Uncharacterized conserved protein [General function prediction only]
Probab=97.79 E-value=6.5e-06 Score=79.73 Aligned_cols=58 Identities=38% Similarity=0.813 Sum_probs=45.3
Q ss_pred ccccccccccC---CCCCCCCCCCCCCcCc-cCCCCCchHHHHHHhhhhhcccCCCCccccccCccccccccccccCccc
Q 024271 88 KTKLCCKFRNG---TCPYITNCNFAHSIEE-LRRPPPNWQEIVAAHEEERASTNEIPREEFQIPSIVSTNFAVETQRSYK 163 (270)
Q Consensus 88 KTklC~~f~~G---~C~~Gd~C~FaH~~~e-lR~pp~~~~~~~~~~~~e~~~~~~~~r~~~~~p~~~s~~~~~~~~~~~K 163 (270)
+..||.....| .|.||++|+|.|+++- |...++ .|+
T Consensus 75 ~n~LCPsli~g~~~~C~f~d~Crf~HDi~ayLatK~~---------------------------Dig------------- 114 (614)
T KOG2333|consen 75 QNRLCPSLIQGDISKCSFGDNCRFVHDIEAYLATKAP---------------------------DIG------------- 114 (614)
T ss_pred hhccChHhhcCCCccCcccccccccccHHHHHhccCc---------------------------ccC-------------
Confidence 56899999865 7999999999999854 333221 221
Q ss_pred cccCccccccCCCCCCCCCCCCC
Q 024271 164 GRHCKKFYTEEGCPYGENCTFLH 186 (270)
Q Consensus 164 t~~C~~f~~~G~C~~G~~C~f~H 186 (270)
..|+.|...|.|+||.+|||+-
T Consensus 115 -~~Cp~f~s~G~Cp~G~~CRFl~ 136 (614)
T KOG2333|consen 115 -PSCPVFESLGFCPYGFKCRFLG 136 (614)
T ss_pred -CccceeeccccCCccceeehhh
Confidence 4599999999999999999953
No 17
>KOG2494 consensus C3H1-type Zn-finger protein [Transcription]
Probab=97.73 E-value=1.2e-05 Score=74.38 Aligned_cols=59 Identities=27% Similarity=0.526 Sum_probs=44.2
Q ss_pred cccccccccCCCCCCCC-CCCCCCcCccCCCCCchHHHHHHhhhhhcccCCCCccccccCccccccccccccCccccccC
Q 024271 89 TKLCCKFRNGTCPYITN-CNFAHSIEELRRPPPNWQEIVAAHEEERASTNEIPREEFQIPSIVSTNFAVETQRSYKGRHC 167 (270)
Q Consensus 89 TklC~~f~~G~C~~Gd~-C~FaH~~~elR~pp~~~~~~~~~~~~e~~~~~~~~r~~~~~p~~~s~~~~~~~~~~~Kt~~C 167 (270)
..+|+.|+.|.|.+||. |+|+|...-+- ..+-+...|
T Consensus 37 ~eVCReF~rn~C~R~d~~CkfaHP~~~~~------------------------------------------V~~g~v~aC 74 (331)
T KOG2494|consen 37 LEVCREFLRNTCSRGDRECKFAHPPKNCQ------------------------------------------VSNGRVIAC 74 (331)
T ss_pred HHHHHHHHhccccCCCccccccCCCCCCC------------------------------------------ccCCeEEEE
Confidence 37999999999999998 99999542111 122345679
Q ss_pred ccccccCCCCCCCCCCCCCccccc
Q 024271 168 KKFYTEEGCPYGENCTFLHDEQSK 191 (270)
Q Consensus 168 ~~f~~~G~C~~G~~C~f~H~~~e~ 191 (270)
..|+ +|.|. .++|+|+|....+
T Consensus 75 ~Ds~-kgrCs-R~nCkylHpp~hl 96 (331)
T KOG2494|consen 75 FDSQ-KGRCS-RENCKYLHPPQHL 96 (331)
T ss_pred eccc-cCccC-cccceecCCChhh
Confidence 6664 58999 4779999988765
No 18
>KOG1492 consensus C3H1-type Zn-finger protein [General function prediction only]
Probab=97.70 E-value=1.7e-05 Score=70.26 Aligned_cols=25 Identities=32% Similarity=0.800 Sum_probs=20.7
Q ss_pred cccccccccccCCCCCCCCCCCCcc
Q 024271 232 RICNKWELTGYCPFGNKCHFAHGIQ 256 (270)
Q Consensus 232 ~lC~~f~~~G~C~~G~~CrFaHg~~ 256 (270)
.+|-.|...|+|..|..|.-.|-.+
T Consensus 289 picfefakygfcelgtscknqhilq 313 (377)
T KOG1492|consen 289 PICFEFAKYGFCELGTSCKNQHILQ 313 (377)
T ss_pred ceeeeehhcceeccccccccceeee
Confidence 5788888899999999999888543
No 19
>KOG2494 consensus C3H1-type Zn-finger protein [Transcription]
Probab=97.29 E-value=0.0001 Score=68.23 Aligned_cols=62 Identities=24% Similarity=0.537 Sum_probs=46.9
Q ss_pred cccccCccccccCCCCCCCC-CCCCCcccccccccccccCCCCCCCCCCCcccccCCCCCccCCCCCccccccccccccc
Q 024271 162 YKGRHCKKFYTEEGCPYGEN-CTFLHDEQSKNRESVAISLGPGGYGGGGAAAAAAGNNIGVSNVKPSNWKTRICNKWELT 240 (270)
Q Consensus 162 ~Kt~~C~~f~~~G~C~~G~~-C~f~H~~~e~~~e~~~~s~~p~~~~~~~~~~s~~~~~~~~~~~~~~~~kt~lC~~f~~~ 240 (270)
..-.+|+.|+. +.|.+|++ |+|+|..... ..++-+-.-|-+|. +
T Consensus 35 l~~eVCReF~r-n~C~R~d~~CkfaHP~~~~---------------------------------~V~~g~v~aC~Ds~-k 79 (331)
T KOG2494|consen 35 LTLEVCREFLR-NTCSRGDRECKFAHPPKNC---------------------------------QVSNGRVIACFDSQ-K 79 (331)
T ss_pred hHHHHHHHHHh-ccccCCCccccccCCCCCC---------------------------------CccCCeEEEEeccc-c
Confidence 34578999864 89999999 9999987632 11222335799998 8
Q ss_pred ccCCCCCCCCCCCCccccc
Q 024271 241 GYCPFGNKCHFAHGIQEFC 259 (270)
Q Consensus 241 G~C~~G~~CrFaHg~~el~ 259 (270)
|.|.+- +|+|+|+..+++
T Consensus 80 grCsR~-nCkylHpp~hlk 97 (331)
T KOG2494|consen 80 GRCSRE-NCKYLHPPQHLK 97 (331)
T ss_pred CccCcc-cceecCCChhhh
Confidence 999986 599999987654
No 20
>KOG1763 consensus Uncharacterized conserved protein, contains CCCH-type Zn-finger [General function prediction only]
Probab=97.02 E-value=0.00018 Score=65.73 Aligned_cols=32 Identities=31% Similarity=0.644 Sum_probs=27.4
Q ss_pred cccccccccccccCCCCCCCCCCCCCCcCccC
Q 024271 85 MFFKTKLCCKFRNGTCPYITNCNFAHSIEELR 116 (270)
Q Consensus 85 ~~yKTklC~~f~~G~C~~Gd~C~FaH~~~elR 116 (270)
.--|+.+|.+|.+|+|..|+.|.|+|+....|
T Consensus 88 vDPKSvvCafFk~g~C~KG~kCKFsHdl~~~~ 119 (343)
T KOG1763|consen 88 VDPKSVVCAFFKQGTCTKGDKCKFSHDLAVER 119 (343)
T ss_pred CCchHHHHHHHhccCCCCCCcccccchHHHhh
Confidence 44588999999999999999999999885433
No 21
>COG5252 Uncharacterized conserved protein, contains CCCH-type Zn-finger protein [General function prediction only]
Probab=96.92 E-value=0.00016 Score=64.34 Aligned_cols=85 Identities=33% Similarity=0.589 Sum_probs=53.5
Q ss_pred cccccccccccccCCCCCCCCCCCCCCcCccCCC--CCchHHHHHHhhhhhcccCCCCccccccCccccccccccccCcc
Q 024271 85 MFFKTKLCCKFRNGTCPYITNCNFAHSIEELRRP--PPNWQEIVAAHEEERASTNEIPREEFQIPSIVSTNFAVETQRSY 162 (270)
Q Consensus 85 ~~yKTklC~~f~~G~C~~Gd~C~FaH~~~elR~p--p~~~~~~~~~~~~e~~~~~~~~r~~~~~p~~~s~~~~~~~~~~~ 162 (270)
.--||.+|..|.++.|..|+.|.|+|+.++.|.. +.-|+++- ..++.... ..| |- ..
T Consensus 81 vdpK~~vcalF~~~~c~kg~~ckF~h~~ee~r~~eK~DLYsDvR--d~~ed~pl--~kr-----P~------------in 139 (299)
T COG5252 81 VDPKTVVCALFLNKTCAKGDACKFAHGKEEARKTEKPDLYSDVR--DKEEDVPL--GKR-----PW------------IN 139 (299)
T ss_pred cCchhHHHHHhccCccccCchhhhhcchHHHhhhcccchhhhhh--hhhccCCc--ccC-----CC------------CC
Confidence 3458899999999999999999999998886653 33333321 11111000 000 11 12
Q ss_pred ccccCccccc---cC------CCCCC-CCCCCCCcccc
Q 024271 163 KGRHCKKFYT---EE------GCPYG-ENCTFLHDEQS 190 (270)
Q Consensus 163 Kt~~C~~f~~---~G------~C~~G-~~C~f~H~~~e 190 (270)
.-.+|.+|.. .| .|+.| .+|.|.|...+
T Consensus 140 td~VCkffieA~e~GkYgw~W~CPng~~~C~y~H~Lp~ 177 (299)
T COG5252 140 TDRVCKFFIEAMESGKYGWGWTCPNGNMRCSYIHKLPD 177 (299)
T ss_pred hhHHHHHHHHHHhcCCccceeeCCCCCceeeeeeccCc
Confidence 3367866643 22 49988 78999998766
No 22
>COG5084 YTH1 Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]
Probab=96.40 E-value=0.0058 Score=56.27 Aligned_cols=56 Identities=30% Similarity=0.624 Sum_probs=45.6
Q ss_pred ccccCccccccCCCCCCCCCCCCCcccccccccccccCCCCCCCCCCCcccccCCCCCccCCCCCccccccccccccccc
Q 024271 163 KGRHCKKFYTEEGCPYGENCTFLHDEQSKNRESVAISLGPGGYGGGGAAAAAAGNNIGVSNVKPSNWKTRICNKWELTGY 242 (270)
Q Consensus 163 Kt~~C~~f~~~G~C~~G~~C~f~H~~~e~~~e~~~~s~~p~~~~~~~~~~s~~~~~~~~~~~~~~~~kt~lC~~f~~~G~ 242 (270)
..++|+.| ..|.|+.+..|.|+|...... . .+..|++|...|.
T Consensus 103 s~V~c~~~-~~g~c~s~~~c~~lh~~d~~~----------------------------------s--~~~~c~~Fs~~G~ 145 (285)
T COG5084 103 SSVVCKFF-LRGLCKSGFSCEFLHEYDLRS----------------------------------S--QGPPCRSFSLKGS 145 (285)
T ss_pred CCcccchh-ccccCcCCCccccccCCCccc----------------------------------c--cCCCcccccccce
Confidence 45789666 569999999999999886421 1 1357999988999
Q ss_pred CCCCCCCCCCCCc
Q 024271 243 CPFGNKCHFAHGI 255 (270)
Q Consensus 243 C~~G~~CrFaHg~ 255 (270)
|..|..|.|.|.+
T Consensus 146 cs~g~~c~~~h~d 158 (285)
T COG5084 146 CSSGPSCGYSHID 158 (285)
T ss_pred eccCCCCCccccC
Confidence 9999999999997
No 23
>PF14608 zf-CCCH_2: Zinc finger C-x8-C-x5-C-x3-H type
Probab=95.95 E-value=0.0049 Score=33.79 Aligned_cols=19 Identities=32% Similarity=0.728 Sum_probs=16.3
Q ss_pred ccccccccccCCCCCCCCCCCC
Q 024271 233 ICNKWELTGYCPFGNKCHFAHG 254 (270)
Q Consensus 233 lC~~f~~~G~C~~G~~CrFaHg 254 (270)
+|++|. .|++|++|.|+|+
T Consensus 1 ~Ck~~~---~C~~~~~C~f~HP 19 (19)
T PF14608_consen 1 PCKFGP---NCTNGDNCPFSHP 19 (19)
T ss_pred CCcCcC---CCCCCCcCccCCc
Confidence 488776 4999999999995
No 24
>KOG2185 consensus Predicted RNA-processing protein, contains G-patch domain [RNA processing and modification]
Probab=95.83 E-value=0.0036 Score=59.77 Aligned_cols=39 Identities=33% Similarity=0.865 Sum_probs=28.9
Q ss_pred ccccccccccCCCCCCCCCCCCCCc----CccCC-CCCchHHHH
Q 024271 88 KTKLCCKFRNGTCPYITNCNFAHSI----EELRR-PPPNWQEIV 126 (270)
Q Consensus 88 KTklC~~f~~G~C~~Gd~C~FaH~~----~elR~-pp~~~~~~~ 126 (270)
-.++|.+|+.|.|+|+++|+|+|+. +.||. -+++|..|+
T Consensus 139 sMkpC~ffLeg~CRF~enCRfSHG~~V~lsslr~yq~pD~s~L~ 182 (486)
T KOG2185|consen 139 SMKPCKFFLEGRCRFGENCRFSHGLDVPLSSLRNYQQPDWSQLM 182 (486)
T ss_pred hhccchHhhccccccCcccccccCcccchhhcccCCCccHHHHh
Confidence 3468999999999999999999987 33432 244565554
No 25
>KOG4791 consensus Uncharacterized conserved protein [Function unknown]
Probab=95.66 E-value=0.0047 Score=60.08 Aligned_cols=80 Identities=25% Similarity=0.436 Sum_probs=58.8
Q ss_pred ccccccccCCCCCCCCCCCCCCcCccCCCCCchHHHHHHhhhhhcccCCCCccccccCccccccccccccCccccccCcc
Q 024271 90 KLCCKFRNGTCPYITNCNFAHSIEELRRPPPNWQEIVAAHEEERASTNEIPREEFQIPSIVSTNFAVETQRSYKGRHCKK 169 (270)
Q Consensus 90 klC~~f~~G~C~~Gd~C~FaH~~~elR~pp~~~~~~~~~~~~e~~~~~~~~r~~~~~p~~~s~~~~~~~~~~~Kt~~C~~ 169 (270)
..|.+|....|++++.|.|.|...-|. -...|..
T Consensus 4 ~dcyff~ys~cKk~d~c~~rh~E~al~----------------------------------------------n~t~C~~ 37 (667)
T KOG4791|consen 4 EDCYFFFYSTCKKGDSCPFRHCEAALG----------------------------------------------NETVCTL 37 (667)
T ss_pred ccchhhhhhhhhccCcCcchhhHHHhc----------------------------------------------Ccchhhh
Confidence 458888889999999999999652211 1246999
Q ss_pred ccccCCCCCCCCCCCCCcccccccccccccCCCCCCCCCCCcccccCCCCCccCCCCCccccccccccccccc-CCCCCC
Q 024271 170 FYTEEGCPYGENCTFLHDEQSKNRESVAISLGPGGYGGGGAAAAAAGNNIGVSNVKPSNWKTRICNKWELTGY-CPFGNK 248 (270)
Q Consensus 170 f~~~G~C~~G~~C~f~H~~~e~~~e~~~~s~~p~~~~~~~~~~s~~~~~~~~~~~~~~~~kt~lC~~f~~~G~-C~~G~~ 248 (270)
|+..-.|+. .|+|-|..-.+.+ ...+|.+|. ++. |.. ++
T Consensus 38 w~~~~~C~k--~C~YRHSe~~~kr------------------------------------~e~~CYwe~-~p~gC~k-~~ 77 (667)
T KOG4791|consen 38 WQEGRCCRK--VCRYRHSEIDKKR------------------------------------SEIPCYWEN-QPTGCQK-LN 77 (667)
T ss_pred hhhcCcccc--cccchhhHHhhhc------------------------------------Ccccceeec-CCCccCC-Cc
Confidence 988877875 9999998755321 136897666 665 875 69
Q ss_pred CCCCCCc
Q 024271 249 CHFAHGI 255 (270)
Q Consensus 249 CrFaHg~ 255 (270)
|-|.|..
T Consensus 78 CgfRH~~ 84 (667)
T KOG4791|consen 78 CGFRHNR 84 (667)
T ss_pred cccccCC
Confidence 9999943
No 26
>KOG2185 consensus Predicted RNA-processing protein, contains G-patch domain [RNA processing and modification]
Probab=95.53 E-value=0.0059 Score=58.33 Aligned_cols=37 Identities=27% Similarity=0.738 Sum_probs=30.2
Q ss_pred cccccccccccccCCCCCCCCCCCCcc----ccccccccccc
Q 024271 230 KTRICNKWELTGYCPFGNKCHFAHGIQ----EFCIYGIQGFH 267 (270)
Q Consensus 230 kt~lC~~f~~~G~C~~G~~CrFaHg~~----el~~~~~~~~~ 267 (270)
.+.+|+||+ .|.|+|+.+|||.||.. +|+++..-.|+
T Consensus 139 sMkpC~ffL-eg~CRF~enCRfSHG~~V~lsslr~yq~pD~s 179 (486)
T KOG2185|consen 139 SMKPCKFFL-EGRCRFGENCRFSHGLDVPLSSLRNYQQPDWS 179 (486)
T ss_pred hhccchHhh-ccccccCcccccccCcccchhhcccCCCccHH
Confidence 357999999 89999999999999964 57777665554
No 27
>PF14608 zf-CCCH_2: Zinc finger C-x8-C-x5-C-x3-H type
Probab=95.50 E-value=0.0092 Score=32.70 Aligned_cols=19 Identities=37% Similarity=0.621 Sum_probs=15.5
Q ss_pred cccccccCCCCCCCCCCCCCC
Q 024271 91 LCCKFRNGTCPYITNCNFAHS 111 (270)
Q Consensus 91 lC~~f~~G~C~~Gd~C~FaH~ 111 (270)
+|+++.. |+++++|.|+|.
T Consensus 1 ~Ck~~~~--C~~~~~C~f~HP 19 (19)
T PF14608_consen 1 PCKFGPN--CTNGDNCPFSHP 19 (19)
T ss_pred CCcCcCC--CCCCCcCccCCc
Confidence 4776654 999999999993
No 28
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=95.13 E-value=0.0072 Score=52.75 Aligned_cols=30 Identities=30% Similarity=0.929 Sum_probs=26.0
Q ss_pred cccccccccccccccCCCCCCCCCCCCccc
Q 024271 228 NWKTRICNKWELTGYCPFGNKCHFAHGIQE 257 (270)
Q Consensus 228 ~~kt~lC~~f~~~G~C~~G~~CrFaHg~~e 257 (270)
.+...+|+.|..+|||-||+.|.|.|..+.
T Consensus 138 D~qpdVCKdyk~TGYCGYGDsCKflH~R~D 167 (259)
T COG5152 138 DTQPDVCKDYKETGYCGYGDSCKFLHDRSD 167 (259)
T ss_pred ecCcccccchhhcccccCCchhhhhhhhhh
Confidence 344578999999999999999999998764
No 29
>KOG4791 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.22 E-value=0.042 Score=53.67 Aligned_cols=106 Identities=15% Similarity=0.207 Sum_probs=60.4
Q ss_pred ccccccccCC-CCCCCCCCCCCCcCccCCCCCchHHHHHHhhhhhcccCCCCccccccCccccccccccccCccccccCc
Q 024271 90 KLCCKFRNGT-CPYITNCNFAHSIEELRRPPPNWQEIVAAHEEERASTNEIPREEFQIPSIVSTNFAVETQRSYKGRHCK 168 (270)
Q Consensus 90 klC~~f~~G~-C~~Gd~C~FaH~~~elR~pp~~~~~~~~~~~~e~~~~~~~~r~~~~~p~~~s~~~~~~~~~~~Kt~~C~ 168 (270)
..|.+|+.+. |+. .|.|-|+.-.+.+ ...+|
T Consensus 33 t~C~~w~~~~~C~k--~C~YRHSe~~~kr---------------------------------------------~e~~C- 64 (667)
T KOG4791|consen 33 TVCTLWQEGRCCRK--VCRYRHSEIDKKR---------------------------------------------SEIPC- 64 (667)
T ss_pred chhhhhhhcCcccc--cccchhhHHhhhc---------------------------------------------Ccccc-
Confidence 5799999765 554 8999997633221 22569
Q ss_pred cccccCC-CCCCCCCCCCCcccccccccccccCCCCCCCCCCCcccccCCCCCccCCCC-CcccccccccccccccCCCC
Q 024271 169 KFYTEEG-CPYGENCTFLHDEQSKNRESVAISLGPGGYGGGGAAAAAAGNNIGVSNVKP-SNWKTRICNKWELTGYCPFG 246 (270)
Q Consensus 169 ~f~~~G~-C~~G~~C~f~H~~~e~~~e~~~~s~~p~~~~~~~~~~s~~~~~~~~~~~~~-~~~kt~lC~~f~~~G~C~~G 246 (270)
+|...+. |. .++|-|-|....+........+.|. ....+.. .++ .++ ..-...+|-+|. .++|..+
T Consensus 65 Ywe~~p~gC~-k~~CgfRH~~pPLkg~l~~~p~~pe---~ev~~~~---~SA----q~~sV~~~p~P~l~~~-K~~e~~~ 132 (667)
T KOG4791|consen 65 YWENQPTGCQ-KLNCGFRHNRPPLKGVLPTVPESPE---EEVKASQ---LSA----QQNSVQSNPSPQLRSV-KKVESSE 132 (667)
T ss_pred eeecCCCccC-CCccccccCCCchhhhccCCCCCcc---ccccccc---ccC----CCcccccCCchHHHHh-hhhhhhc
Confidence 5555554 88 6999999976544211000000000 0000000 000 010 111125788777 8999999
Q ss_pred CCCCCCCCc
Q 024271 247 NKCHFAHGI 255 (270)
Q Consensus 247 ~~CrFaHg~ 255 (270)
+.|-|+|..
T Consensus 133 D~~s~Lh~P 141 (667)
T KOG4791|consen 133 DVPSPLHPP 141 (667)
T ss_pred cccccCCCC
Confidence 999999976
No 30
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=93.75 E-value=0.025 Score=49.43 Aligned_cols=33 Identities=21% Similarity=0.663 Sum_probs=27.2
Q ss_pred cccccccccccc-cCCCCCCCCCCCCCCcCccCC
Q 024271 85 MFFKTKLCCKFR-NGTCPYITNCNFAHSIEELRR 117 (270)
Q Consensus 85 ~~yKTklC~~f~-~G~C~~Gd~C~FaH~~~elR~ 117 (270)
+-|-..+|..|. +|.|-|||.|+|+|.-++...
T Consensus 137 iD~qpdVCKdyk~TGYCGYGDsCKflH~R~D~Kt 170 (259)
T COG5152 137 IDTQPDVCKDYKETGYCGYGDSCKFLHDRSDFKT 170 (259)
T ss_pred eecCcccccchhhcccccCCchhhhhhhhhhhhc
Confidence 445556899998 799999999999999876543
No 31
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.67 E-value=0.13 Score=48.69 Aligned_cols=25 Identities=28% Similarity=0.846 Sum_probs=21.5
Q ss_pred ccCccccccCCCCCCCCCCCCCcccc
Q 024271 165 RHCKKFYTEEGCPYGENCTFLHDEQS 190 (270)
Q Consensus 165 ~~C~~f~~~G~C~~G~~C~f~H~~~e 190 (270)
.+| +|+..|.|+||+.|+|.|+...
T Consensus 9 tic-~~~~~g~c~~g~~cr~~h~~~~ 33 (344)
T KOG1039|consen 9 TIC-KYYQKGNCKFGDLCRLSHSLPD 33 (344)
T ss_pred hhh-hhcccccccccceeeeeccCch
Confidence 679 5556799999999999999873
No 32
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.56 E-value=0.077 Score=48.97 Aligned_cols=30 Identities=33% Similarity=1.056 Sum_probs=25.8
Q ss_pred ccccccccccccccCCCCCCCCCCCCcccc
Q 024271 229 WKTRICNKWELTGYCPFGNKCHFAHGIQEF 258 (270)
Q Consensus 229 ~kt~lC~~f~~~G~C~~G~~CrFaHg~~el 258 (270)
|...+|+.|..+|+|-||+.|.|.|.....
T Consensus 184 ~qpDicKdykeTgycg~gdSckFlh~r~Dy 213 (313)
T KOG1813|consen 184 YQPDICKDYKETGYCGYGDSCKFLHDRSDY 213 (313)
T ss_pred cCchhhhhhHhhCcccccchhhhhhhhhhc
Confidence 444799999999999999999999987643
No 33
>KOG1763 consensus Uncharacterized conserved protein, contains CCCH-type Zn-finger [General function prediction only]
Probab=90.39 E-value=0.081 Score=48.78 Aligned_cols=35 Identities=26% Similarity=0.530 Sum_probs=29.6
Q ss_pred CcccccccccccccccCCCCCCCCCCCCcccccccc
Q 024271 227 SNWKTRICNKWELTGYCPFGNKCHFAHGIQEFCIYG 262 (270)
Q Consensus 227 ~~~kt~lC~~f~~~G~C~~G~~CrFaHg~~el~~~~ 262 (270)
...|+.+|-+|. .|.|..|+.|.|+|+...-+...
T Consensus 88 vDPKSvvCafFk-~g~C~KG~kCKFsHdl~~~~k~e 122 (343)
T KOG1763|consen 88 VDPKSVVCAFFK-QGTCTKGDKCKFSHDLAVERKKE 122 (343)
T ss_pred CCchHHHHHHHh-ccCCCCCCcccccchHHHhhhcc
Confidence 456789999888 89999999999999988766543
No 34
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.29 E-value=0.23 Score=45.86 Aligned_cols=31 Identities=35% Similarity=0.850 Sum_probs=27.7
Q ss_pred ccccccCccccccCCCCCCCCCCCCCccccc
Q 024271 161 SYKGRHCKKFYTEEGCPYGENCTFLHDEQSK 191 (270)
Q Consensus 161 ~~Kt~~C~~f~~~G~C~~G~~C~f~H~~~e~ 191 (270)
-|...+|+.|..+|+|-||+.|.|+|+...+
T Consensus 183 d~qpDicKdykeTgycg~gdSckFlh~r~Dy 213 (313)
T KOG1813|consen 183 DYQPDICKDYKETGYCGYGDSCKFLHDRSDY 213 (313)
T ss_pred ecCchhhhhhHhhCcccccchhhhhhhhhhc
Confidence 4677899999999999999999999998754
No 35
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=83.43 E-value=0.43 Score=45.33 Aligned_cols=24 Identities=25% Similarity=0.804 Sum_probs=22.6
Q ss_pred ccccccccCCCCCCCCCCCCCCcC
Q 024271 90 KLCCKFRNGTCPYITNCNFAHSIE 113 (270)
Q Consensus 90 klC~~f~~G~C~~Gd~C~FaH~~~ 113 (270)
.+|++|+.|.|.||+.|+|.|...
T Consensus 9 tic~~~~~g~c~~g~~cr~~h~~~ 32 (344)
T KOG1039|consen 9 TICKYYQKGNCKFGDLCRLSHSLP 32 (344)
T ss_pred hhhhhcccccccccceeeeeccCc
Confidence 689999999999999999999875
No 36
>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=83.38 E-value=0.72 Score=26.53 Aligned_cols=20 Identities=35% Similarity=0.742 Sum_probs=16.3
Q ss_pred ccccccccC-CCCCCCCCCCCC
Q 024271 90 KLCCKFRNG-TCPYITNCNFAH 110 (270)
Q Consensus 90 klC~~f~~G-~C~~Gd~C~FaH 110 (270)
.||.+.++| .| .-+.|.|.|
T Consensus 1 ~lC~yEl~Gg~C-nd~~C~~QH 21 (23)
T PF10650_consen 1 PLCPYELTGGVC-NDPDCEFQH 21 (23)
T ss_pred CCCccccCCCee-CCCCCCccc
Confidence 379998876 99 457899999
No 37
>COG5252 Uncharacterized conserved protein, contains CCCH-type Zn-finger protein [General function prediction only]
Probab=82.87 E-value=0.34 Score=43.55 Aligned_cols=35 Identities=31% Similarity=0.527 Sum_probs=29.7
Q ss_pred CcccccccccccccccCCCCCCCCCCCCcccccccc
Q 024271 227 SNWKTRICNKWELTGYCPFGNKCHFAHGIQEFCIYG 262 (270)
Q Consensus 227 ~~~kt~lC~~f~~~G~C~~G~~CrFaHg~~el~~~~ 262 (270)
...|+.+|-.|. .+.|..|+.|.|+|+.+|.+...
T Consensus 81 vdpK~~vcalF~-~~~c~kg~~ckF~h~~ee~r~~e 115 (299)
T COG5252 81 VDPKTVVCALFL-NKTCAKGDACKFAHGKEEARKTE 115 (299)
T ss_pred cCchhHHHHHhc-cCccccCchhhhhcchHHHhhhc
Confidence 456789999998 89999999999999988876653
No 38
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=71.56 E-value=2 Score=39.08 Aligned_cols=30 Identities=27% Similarity=0.554 Sum_probs=26.0
Q ss_pred CccccccccccccccCCCCCCCCCCCCCCc
Q 024271 83 GKMFFKTKLCCKFRNGTCPYITNCNFAHSI 112 (270)
Q Consensus 83 ~~~~yKTklC~~f~~G~C~~Gd~C~FaH~~ 112 (270)
+-..++...|..|..+.|.+|..|.|.|-.
T Consensus 146 pvT~~rea~C~~~e~~~C~rG~~CnFmH~k 175 (260)
T KOG2202|consen 146 PVTDFREAICGQFERTECSRGGACNFMHVK 175 (260)
T ss_pred CcCchhhhhhcccccccCCCCCcCcchhhh
Confidence 345678889999999999999999999954
No 39
>KOG3702 consensus Nuclear polyadenylated RNA binding protein [RNA processing and modification]
Probab=64.65 E-value=11 Score=38.69 Aligned_cols=15 Identities=33% Similarity=0.729 Sum_probs=10.3
Q ss_pred cCCCCCCCCCCCCcc
Q 024271 242 YCPFGNKCHFAHGIQ 256 (270)
Q Consensus 242 ~C~~G~~CrFaHg~~ 256 (270)
.|+.-..|.|.|...
T Consensus 652 ~c~~~~sc~fYh~r~ 666 (681)
T KOG3702|consen 652 NCPNNPSCTFYHERP 666 (681)
T ss_pred cCCCCcccccccCCc
Confidence 566666777888744
No 40
>KOG3702 consensus Nuclear polyadenylated RNA binding protein [RNA processing and modification]
Probab=61.52 E-value=13 Score=38.05 Aligned_cols=11 Identities=18% Similarity=0.715 Sum_probs=7.9
Q ss_pred CCCCCCCcccc
Q 024271 180 ENCTFLHDEQS 190 (270)
Q Consensus 180 ~~C~f~H~~~e 190 (270)
..|.|.|...-
T Consensus 597 sDC~~sH~~~~ 607 (681)
T KOG3702|consen 597 SDCNYSHAGRR 607 (681)
T ss_pred ccCcccccCCC
Confidence 56888887754
No 41
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=53.17 E-value=6.1 Score=35.97 Aligned_cols=28 Identities=29% Similarity=0.771 Sum_probs=23.6
Q ss_pred CcccccccccccccccCCCCCCCCCCCCc
Q 024271 227 SNWKTRICNKWELTGYCPFGNKCHFAHGI 255 (270)
Q Consensus 227 ~~~kt~lC~~f~~~G~C~~G~~CrFaHg~ 255 (270)
..++..+|..|+ .+.|.+|-.|-|.|--
T Consensus 148 T~~rea~C~~~e-~~~C~rG~~CnFmH~k 175 (260)
T KOG2202|consen 148 TDFREAICGQFE-RTECSRGGACNFMHVK 175 (260)
T ss_pred Cchhhhhhcccc-cccCCCCCcCcchhhh
Confidence 456678999999 4599999999999965
No 42
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=52.22 E-value=9.1 Score=36.39 Aligned_cols=23 Identities=26% Similarity=0.714 Sum_probs=21.4
Q ss_pred ccccccccCCCCCCCCCCCCCCc
Q 024271 90 KLCCKFRNGTCPYITNCNFAHSI 112 (270)
Q Consensus 90 klC~~f~~G~C~~Gd~C~FaH~~ 112 (270)
.+|.+|..|.|++|+.|.|.|..
T Consensus 162 ~Icsf~v~geckRG~ec~yrhEk 184 (377)
T KOG0153|consen 162 HICSFFVKGECKRGAECPYRHEK 184 (377)
T ss_pred ccccceeeccccccccccccccC
Confidence 58999999999999999999976
No 43
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=44.56 E-value=9.8 Score=36.17 Aligned_cols=24 Identities=29% Similarity=0.728 Sum_probs=21.2
Q ss_pred cccccccccccCCCCCCCCCCCCcc
Q 024271 232 RICNKWELTGYCPFGNKCHFAHGIQ 256 (270)
Q Consensus 232 ~lC~~f~~~G~C~~G~~CrFaHg~~ 256 (270)
-+|.+|. .|.|++|..|.|.|.-.
T Consensus 162 ~Icsf~v-~geckRG~ec~yrhEkp 185 (377)
T KOG0153|consen 162 HICSFFV-KGECKRGAECPYRHEKP 185 (377)
T ss_pred cccccee-eccccccccccccccCC
Confidence 5899888 78999999999999755
No 44
>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=20.53 E-value=28 Score=20.57 Aligned_cols=9 Identities=44% Similarity=1.172 Sum_probs=5.6
Q ss_pred cCCCCCCCC
Q 024271 242 YCPFGNKCH 250 (270)
Q Consensus 242 ~C~~G~~Cr 250 (270)
.|+||.+|-
T Consensus 2 ~C~YG~~CY 10 (26)
T PF10283_consen 2 PCKYGAKCY 10 (26)
T ss_dssp E-TTGGG-S
T ss_pred CCCcchhhh
Confidence 489999995
Done!