Query 018223
Match_columns 359
No_of_seqs 208 out of 388
Neff 4.3
Searched_HMMs 46136
Date Fri Mar 29 07:10:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/018223.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/018223hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1763 Uncharacterized conser 100.0 1E-113 3E-118 819.9 20.4 328 1-340 1-340 (343)
2 COG5252 Uncharacterized conser 100.0 2.5E-76 5.4E-81 551.7 11.5 263 1-295 1-280 (299)
3 KOG4018 Uncharacterized conser 99.2 8.2E-12 1.8E-16 116.5 4.2 88 214-314 125-213 (215)
4 KOG1040 Polyadenylation factor 98.0 2.9E-06 6.3E-11 84.3 2.5 83 89-197 75-159 (325)
5 smart00356 ZnF_C3H1 zinc finge 98.0 3.3E-06 7.2E-11 53.5 1.6 26 89-114 2-27 (27)
6 PF00642 zf-CCCH: Zinc finger 98.0 2.8E-06 6E-11 55.4 1.0 25 89-113 1-26 (27)
7 COG5084 YTH1 Cleavage and poly 97.2 0.00018 3.9E-09 70.6 2.2 30 89-118 102-131 (285)
8 KOG1677 CCCH-type Zn-finger pr 96.4 0.0012 2.7E-08 64.1 1.5 72 89-197 130-203 (332)
9 KOG1492 C3H1-type Zn-finger pr 96.3 0.0019 4.1E-08 62.3 2.0 82 85-195 200-283 (377)
10 KOG4791 Uncharacterized conser 96.0 0.0022 4.8E-08 66.9 0.9 24 93-116 5-28 (667)
11 KOG1492 C3H1-type Zn-finger pr 95.8 0.0039 8.4E-08 60.2 1.5 21 85-105 161-181 (377)
12 PF14608 zf-CCCH_2: Zinc finge 95.5 0.0056 1.2E-07 37.2 0.9 18 93-112 1-18 (19)
13 PF00642 zf-CCCH: Zinc finger 95.4 0.0075 1.6E-07 39.3 1.3 23 162-194 4-26 (27)
14 smart00356 ZnF_C3H1 zinc finge 94.3 0.014 3E-07 36.7 0.3 23 162-195 5-27 (27)
15 KOG2185 Predicted RNA-processi 93.8 0.026 5.6E-07 58.2 1.3 26 92-117 141-166 (486)
16 PF14608 zf-CCCH_2: Zinc finge 93.2 0.032 6.8E-07 33.9 0.4 14 180-194 6-19 (19)
17 KOG2494 C3H1-type Zn-finger pr 92.8 0.056 1.2E-06 54.2 1.8 57 92-197 38-95 (331)
18 COG5084 YTH1 Cleavage and poly 92.6 0.061 1.3E-06 53.1 1.7 30 85-114 125-158 (285)
19 PF01396 zf-C4_Topoisom: Topoi 91.0 0.13 2.8E-06 36.3 1.5 25 172-197 14-38 (39)
20 KOG1677 CCCH-type Zn-finger pr 89.7 0.17 3.7E-06 49.3 1.6 35 82-116 168-203 (332)
21 KOG4791 Uncharacterized conser 86.4 0.22 4.8E-06 52.6 0.1 23 91-114 32-54 (667)
22 KOG2185 Predicted RNA-processi 83.8 0.52 1.1E-05 48.9 1.4 26 159-195 138-163 (486)
23 KOG1595 CCCH-type Zn-finger pr 80.2 0.73 1.6E-05 49.0 1.0 27 90-116 235-261 (528)
24 KOG1039 Predicted E3 ubiquitin 74.0 1.4 2.9E-05 44.8 0.8 24 92-115 9-32 (344)
25 COG5152 Uncharacterized conser 74.0 1.2 2.7E-05 42.6 0.5 30 87-116 137-167 (259)
26 KOG1040 Polyadenylation factor 73.9 2 4.4E-05 43.3 2.0 73 93-194 107-181 (325)
27 KOG2333 Uncharacterized conser 72.4 2.4 5.1E-05 45.4 2.1 67 90-201 75-146 (614)
28 PF10650 zf-C3H1: Putative zin 68.3 2.3 5E-05 27.4 0.7 19 93-112 2-21 (23)
29 KOG1039 Predicted E3 ubiquitin 67.4 3.3 7.1E-05 42.1 1.9 32 159-199 247-278 (344)
30 KOG1763 Uncharacterized conser 66.5 5.6 0.00012 40.1 3.2 28 159-197 90-117 (343)
31 PF06524 NOA36: NOA36 protein; 62.7 5 0.00011 39.9 2.1 14 180-195 106-119 (314)
32 KOG2202 U2 snRNP splicing fact 60.2 5.7 0.00012 39.1 2.0 49 82-131 143-191 (260)
33 COG5175 MOT2 Transcriptional r 59.8 9.4 0.0002 39.4 3.5 28 159-197 200-227 (480)
34 PF04931 DNA_pol_phi: DNA poly 58.8 6.7 0.00014 43.4 2.5 7 341-347 704-710 (784)
35 KOG0699 Serine/threonine prote 57.0 11 0.00024 39.3 3.5 32 327-358 295-329 (542)
36 KOG1813 Predicted E3 ubiquitin 53.0 5.6 0.00012 39.9 0.7 30 86-115 181-211 (313)
37 KOG1595 CCCH-type Zn-finger pr 49.3 9.4 0.0002 40.9 1.6 26 159-195 234-259 (528)
38 PF03194 LUC7: LUC7 N_terminus 48.1 7.4 0.00016 37.7 0.6 26 156-193 25-60 (254)
39 KOG2494 C3H1-type Zn-finger pr 46.2 12 0.00026 38.0 1.8 27 159-196 35-62 (331)
40 KOG0153 Predicted RNA-binding 42.1 10 0.00022 39.0 0.5 32 159-201 159-190 (377)
41 PF13295 DUF4077: Domain of un 40.4 14 0.0003 33.1 1.1 25 160-184 24-56 (175)
42 COG0551 TopA Zn-finger domain 39.5 16 0.00035 31.7 1.4 18 173-191 31-48 (140)
43 KOG0943 Predicted ubiquitin-pr 36.3 29 0.00064 41.4 3.0 7 164-170 1566-1572(3015)
44 COG5406 Nucleosome binding fac 35.9 22 0.00047 39.6 1.9 79 118-200 727-832 (1001)
45 KOG1999 RNA polymerase II tran 34.8 20 0.00043 41.1 1.5 21 311-331 64-84 (1024)
46 KOG3130 Uncharacterized conser 34.5 24 0.00052 37.2 1.8 17 307-323 263-279 (514)
47 PF10446 DUF2457: Protein of u 33.5 18 0.00039 38.3 0.8 10 232-241 23-32 (458)
48 PRK14973 DNA topoisomerase I; 32.9 12 0.00027 42.6 -0.5 75 168-246 646-723 (936)
49 PF04889 Cwf_Cwc_15: Cwf15/Cwc 32.0 36 0.00077 33.1 2.5 19 329-347 139-157 (244)
50 PF04147 Nop14: Nop14-like fam 30.2 52 0.0011 37.1 3.7 7 264-270 291-297 (840)
51 PF07141 Phage_term_sma: Putat 28.1 63 0.0014 29.5 3.2 45 233-277 41-91 (174)
52 KOG1999 RNA polymerase II tran 24.9 29 0.00064 39.9 0.7 31 310-340 60-90 (1024)
53 PF06839 zf-GRF: GRF zinc fing 24.4 46 0.00099 23.8 1.3 17 176-192 22-39 (45)
54 PF00111 Fer2: 2Fe-2S iron-sul 21.0 79 0.0017 24.0 2.2 32 167-200 19-52 (78)
55 PF05416 Peptidase_C37: Southa 20.4 32 0.0007 36.6 -0.2 20 177-198 381-401 (535)
56 KOG3223 Uncharacterized conser 20.3 3.5E+02 0.0075 26.2 6.6 30 7-36 18-47 (221)
57 COG5152 Uncharacterized conser 20.2 40 0.00086 32.6 0.4 35 161-205 141-178 (259)
58 KOG0153 Predicted RNA-binding 20.0 42 0.0009 34.7 0.5 24 92-115 162-185 (377)
No 1
>KOG1763 consensus Uncharacterized conserved protein, contains CCCH-type Zn-finger [General function prediction only]
Probab=100.00 E-value=1.4e-113 Score=819.91 Aligned_cols=328 Identities=53% Similarity=0.866 Sum_probs=282.1
Q ss_pred CCCCc---cchHHHHhhhhhhccccccccccCccHHHHHHHHHHHhhcCCCCch--HHHHHHHhHHHHHHHHHHHHhhhh
Q 018223 1 MPPKQ---QSKAELAKKQKIVEDKTFGLKNKNKSKNVQKYVQNLKQNVQPKPDQ--SKVAAKKKKEEEKAKEKELNDLFK 75 (359)
Q Consensus 1 MPPk~---~~K~~~k~k~KiieDKTFGLKNKnkskkvQk~I~~v~~qv~~~~~~--~~~~~kkkke~~k~~~~el~~Lfk 75 (359)
||||+ |+|+.++.++|+||||||||||||+|++||+||+||++||++++.+ .+.++.+++.++++ .||+.||+
T Consensus 1 MPPKk~g~skka~~k~k~K~ieDKTFGLKNKk~sk~vQK~I~qv~~qvq~~~~~d~~k~~e~kkk~e~~~--~e~~~lfk 78 (343)
T KOG1763|consen 1 MPPKKQGPSKKADQKDKEKVIEDKTFGLKNKKGSKKVQKFIKQVEQQVQQNPRKDAKKRAEEKKKKEEKQ--RELNELFK 78 (343)
T ss_pred CCCccCCCCcchhhhhhhHhhhhhhcccccccccHHHHHHHHHHHHHhhcccchhHHHHHHHHhcchHHH--HHHHHhcc
Confidence 99986 5999999999999999999999999999999999999999976632 22333333333333 39999999
Q ss_pred hhhhCCCCCCCCCCcchhhhhhhcccccCCCCCccCccccccccchhhhcccccccchhhccchHHHHHHHHHhhccccc
Q 018223 76 IAVSQPKVPVGVDPKSILCEFYKAGQCQKGFKCKFSHDLNVQRKGEKIDIYSDKRDKETMEDWDQETLEKVVESKNKEYQ 155 (359)
Q Consensus 76 ~~~~~~kv~~g~dpKsv~C~fFk~G~C~kG~kCkfSHd~~~~rk~eK~dlY~D~R~~dtmd~Wd~~kL~~Vv~~kh~~~~ 155 (359)
| .+|+||+|||||||+|+||++|+|+||++|+||||+++.|+++||+||.|.|++ | ||+++|++||++||| +
T Consensus 79 p--~~qkv~~gvDPKSvvCafFk~g~C~KG~kCKFsHdl~~~~k~eK~dly~d~rde--m--WD~~kl~~vv~~K~~--k 150 (343)
T KOG1763|consen 79 P--ADQKVPKGVDPKSVVCAFFKQGTCTKGDKCKFSHDLAVERKKEKIDLYPDTRDE--M--WDEEKLEEVVLKKHG--K 150 (343)
T ss_pred c--cccccccCCCchHHHHHHHhccCCCCCCcccccchHHHhhhccchhccccchhh--h--hhHHHHHHHHHhhcc--C
Confidence 9 578999999999999999999999999999999999999999999999999998 7 999999999999999 4
Q ss_pred CCCCchhhhhHHHHHHHhcccCcccccCCCCCCccccccCCCccccchhHHHHHHHHHhhhcHHHHHHHHHhcCCC-CCC
Q 018223 156 QNKPTDIVCKYFLEAVEKKQYGWFWVCPNGGKDCHYRHALPPGYVLKSQMKALLEEEAEKITIEEEIENQRAKITT-TTP 234 (359)
Q Consensus 156 ~~~~t~ivCK~Fl~AvE~~kYGWfW~CPnGgd~C~yrH~LPpG~VlK~~~k~~~e~~~~eisLEE~iE~ER~kL~~-gTP 234 (359)
+..+|+|||||||+|||+|+|||||.|||||+.|+||||||+||||+++++++ +...+||||++||.||++|++ +||
T Consensus 151 ~k~~tdiVCKfFLeAvE~~kYGWfW~CPnGg~~C~YrHaLP~GyVLk~dkkk~--ek~~eISlEe~IE~ER~~L~~nlT~ 228 (343)
T KOG1763|consen 151 PKPTTDIVCKFFLEAVENGKYGWFWECPNGGDKCIYRHALPEGYVLKRDKKKL--EKQDEISLEELIEKERAALGPNLTP 228 (343)
T ss_pred CCCchhHHHHHHHHHHhcCCccceeECCCCCCeeeeeecCCcchhhhhhhhhh--cccccccHHHHHHHHHHhcCCCCcc
Confidence 56679999999999999999999999999999999999999999999888873 478899999999999999998 999
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHH--hcCCCCccceeeccCCCCccCchHHHhhhhhhhchhhhhhhhcCCcCCCC
Q 018223 235 MTPELFTEWKKKKIAERDAGLAAERAER--AKNDRMSGRELFLSDSSWFVDDAEAYDKYQREEESHVTEQKANGNSARDG 312 (359)
Q Consensus 235 VT~EsFl~WKkkk~~Ek~~~~~k~kee~--a~k~~LSGRELFe~dp~Lf~DDdeA~d~y~re~~~d~~ed~~~~~evdeS 312 (359)
||+|||++||.++++++.+.+++.++.+ .|+.-||||+||+++++||.||++.+..|+++...++.++.+.+.++|.+
T Consensus 229 ~T~e~F~~WKk~k~~er~~k~~~~~~~~k~~gk~~~sGRElF~~~~dl~~dd~~e~~d~e~~~~~ee~d~~~k~~e~d~~ 308 (343)
T KOG1763|consen 229 LTEETFKAWKKRKIRERKEKLAAEKAERKKVGKSNMSGRELFESNADLVNDDDEEAGDLEYTEYSEETDEEAKVKEADAP 308 (343)
T ss_pred ccHHHHHHHHHhhHHHHHHHHHHHHHHhhhhccCCCchHHHHhhchhhccCchhhccchhhhhhccchhhhhhhhhcccc
Confidence 9999999999999999987777665444 23433999999999999999997766666666666778888999999999
Q ss_pred CCCCccCCC----CCCCCCCCCCccchhhhhH
Q 018223 313 PSNSAKAGQ----EDEVVPDDDDELDMDELNE 340 (359)
Q Consensus 313 lf~~~~~~~----~d~~~~ddddd~d~del~e 340 (359)
.|-+...|. ...+..|+.+..|++++|+
T Consensus 309 ~~d~~~~dq~s~~~~ed~~~~~~~~di~e~~~ 340 (343)
T KOG1763|consen 309 IFDGSGADQQSKGAIEDYGDGNDTFDINEDNE 340 (343)
T ss_pred cccccCccccchhhhhhccCCCcccCcchhhh
Confidence 993222222 1224555677888888877
No 2
>COG5252 Uncharacterized conserved protein, contains CCCH-type Zn-finger protein [General function prediction only]
Probab=100.00 E-value=2.5e-76 Score=551.71 Aligned_cols=263 Identities=37% Similarity=0.617 Sum_probs=212.3
Q ss_pred CCCCc-------cchHHHHhhhhhhccccccccccCccHHHHHHHHHHHhhcCCCCchHHHHHHHhHHHHHHHHHHHHhh
Q 018223 1 MPPKQ-------QSKAELAKKQKIVEDKTFGLKNKNKSKNVQKYVQNLKQNVQPKPDQSKVAAKKKKEEEKAKEKELNDL 73 (359)
Q Consensus 1 MPPk~-------~~K~~~k~k~KiieDKTFGLKNKnkskkvQk~I~~v~~qv~~~~~~~~~~~kkkke~~k~~~~el~~L 73 (359)
|||+. +.|+.++.+.|-.+||||||||||+|.+||++|+||+++....+ .+.++++..++++..
T Consensus 1 ~~~k~~aK~~~~~gk~a~~d~~K~~~dktFGlKNKnrsTKVqa~ikQie~~~~~~~----~e~~~k~~~e~KRre----- 71 (299)
T COG5252 1 MPPKKMAKKQQESGKKATRDMRKELEDKTFGLKNKNRSTKVQAIIKQIETLNLKEQ----LEKKEKMRMEEKRRE----- 71 (299)
T ss_pred CchhhhhhcCCCcchhhhhhhhhhhHHhhcccccccccHHHHHHHHHHHhhcchhH----HHHHHHHHHHHhhcc-----
Confidence 88842 34566677889999999999999999999999999999855422 222222222222211
Q ss_pred hhhhhhCCCCCCCCCCcchhhhhhhcccccCCCCCccCccccccccchhhhcccccccc---hhhccchHHHHHHHHHhh
Q 018223 74 FKIAVSQPKVPVGVDPKSILCEFYKAGQCQKGFKCKFSHDLNVQRKGEKIDIYSDKRDK---ETMEDWDQETLEKVVESK 150 (359)
Q Consensus 74 fk~~~~~~kv~~g~dpKsv~C~fFk~G~C~kG~kCkfSHd~~~~rk~eK~dlY~D~R~~---dtmd~Wd~~kL~~Vv~~k 150 (359)
...|.|+.|||||+++|+.|+++.|.+|..|+|+|++...|+++|+|||+|.|++ .+|+
T Consensus 72 ----~ekq~iragvdpK~~vcalF~~~~c~kg~~ckF~h~~ee~r~~eK~DLYsDvRd~~ed~pl~-------------- 133 (299)
T COG5252 72 ----PEKQVIRAGVDPKTVVCALFLNKTCAKGDACKFAHGKEEARKTEKPDLYSDVRDKEEDVPLG-------------- 133 (299)
T ss_pred ----hhhhhhccccCchhHHHHHhccCccccCchhhhhcchHHHhhhcccchhhhhhhhhccCCcc--------------
Confidence 1116889999999999999999999999999999999999999999999999996 3554
Q ss_pred cccccCCCCchhhhhHHHHHHHhcccCcccccCCCCCCccccccCCCccccchhHHHHHHHHHhhhcHHHHHHHHHhcCC
Q 018223 151 NKEYQQNKPTDIVCKYFLEAVEKKQYGWFWVCPNGGKDCHYRHALPPGYVLKSQMKALLEEEAEKITIEEEIENQRAKIT 230 (359)
Q Consensus 151 h~~~~~~~~t~ivCK~Fl~AvE~~kYGWfW~CPnGgd~C~yrH~LPpG~VlK~~~k~~~e~~~~eisLEE~iE~ER~kL~ 230 (359)
..+...|++||+|||+|+|+|+|||||.|||||+.|+|+|+||.||||++++.+ .....+||||+|||.||+.|+
T Consensus 134 ---krP~intd~VCkffieA~e~GkYgw~W~CPng~~~C~y~H~Lp~GyVLsrdk~K--d~tq~eislEefIE~eR~~L~ 208 (299)
T COG5252 134 ---KRPWINTDRVCKFFIEAMESGKYGWGWTCPNGNMRCSYIHKLPDGYVLSRDKIK--DSTQVEISLEEFIELERQSLP 208 (299)
T ss_pred ---cCCCCChhHHHHHHHHHHhcCCccceeeCCCCCceeeeeeccCccceecccccc--ccccccccHHHHHHHHhccCC
Confidence 125678999999999999999999999999999999999999999999999998 355789999999999999998
Q ss_pred C-CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH--hcCCCCccc-eeeccCCCCccCchHHH---hhhhhhh
Q 018223 231 T-TTPMTPELFTEWKKKKIAERDAGLAAERAER--AKNDRMSGR-ELFLSDSSWFVDDAEAY---DKYQREE 295 (359)
Q Consensus 231 ~-gTPVT~EsFl~WKkkk~~Ek~~~~~k~kee~--a~k~~LSGR-ELFe~dp~Lf~DDdeA~---d~y~re~ 295 (359)
+ +||||.|+|.+|+..++......++.....| .|...+||+ ++|+.+..+|-||.+|. |.-++-+
T Consensus 209 ~~LTP~TeenFk~Wkd~~~~r~lkq~ee~~s~Rk~~gr~~~~k~~e~FEt~~d~~~ddv~~ge~wD~te~~~ 280 (299)
T COG5252 209 EKLTPLTEENFKEWKDGRRLRILKQKEEKESARKVKGRATGTKGVELFETRRDLFKDDVEAGEEWDYTERCY 280 (299)
T ss_pred CcCCcccHHHHHHhccchHHHHHHHHHHHHhcccchhhhhhccchhhhhcccccccccccccccccHHHHHH
Confidence 8 9999999999999888777554443333333 233446666 99999999998876544 5444433
No 3
>KOG4018 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=99.21 E-value=8.2e-12 Score=116.55 Aligned_cols=88 Identities=25% Similarity=0.213 Sum_probs=70.9
Q ss_pred hhhcHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH-HHhcCCCCccceeeccCCCCccCchHHHhhhh
Q 018223 214 EKITIEEEIENQRAKITTTTPMTPELFTEWKKKKIAERDAGLAAERA-ERAKNDRMSGRELFLSDSSWFVDDAEAYDKYQ 292 (359)
Q Consensus 214 ~eisLEE~iE~ER~kL~~gTPVT~EsFl~WKkkk~~Ek~~~~~k~ke-e~a~k~~LSGRELFe~dp~Lf~DDdeA~d~y~ 292 (359)
-++-.++..+.||+++ +|||||++||++||.+|.++....+.+.+. ..+..+++|||++|+.++.+..+|..
T Consensus 125 ~e~~~~~~ee~e~~kf-hgt~VT~esfl~Wk~~fe~el~~~~~k~~~~~~~~~~k~tgRQ~f~~d~~~~~~~~~------ 197 (215)
T KOG4018|consen 125 REQEAREAEEEERKKF-HGTPVTLESFLEWKLKFEEELLQIKAKVKKRLQALAKKLTGRQLFETDHKGDRSDIW------ 197 (215)
T ss_pred HHHHHHHHHHHhhccc-cCCceehhhhHHHHHhhhhhhhhhhhhhhhHHHHHhhhHHHHHHHHhcccCChhhhH------
Confidence 3455677778888888 999999999999999999998544444433 34677999999999999999888753
Q ss_pred hhhchhhhhhhhcCCcCCCCCC
Q 018223 293 REEESHVTEQKANGNSARDGPS 314 (359)
Q Consensus 293 re~~~d~~ed~~~~~evdeSlf 314 (359)
+..+++.++++|+|+|
T Consensus 198 ------~~~da~~~~e~~e~~f 213 (215)
T KOG4018|consen 198 ------NLVDAVKDVEIDESLF 213 (215)
T ss_pred ------Hhhhhhhhhhcchhhc
Confidence 3667778888999999
No 4
>KOG1040 consensus Polyadenylation factor I complex, subunit, Yth1 (CPSF subunit) [RNA processing and modification]
Probab=98.00 E-value=2.9e-06 Score=84.26 Aligned_cols=83 Identities=19% Similarity=0.507 Sum_probs=53.3
Q ss_pred CcchhhhhhhcccccCCCCCccCcccccccc--chhhhcccccccchhhccchHHHHHHHHHhhcccccCCCCchhhhhH
Q 018223 89 PKSILCEFYKAGQCQKGFKCKFSHDLNVQRK--GEKIDIYSDKRDKETMEDWDQETLEKVVESKNKEYQQNKPTDIVCKY 166 (359)
Q Consensus 89 pKsv~C~fFk~G~C~kG~kCkfSHd~~~~rk--~eK~dlY~D~R~~dtmd~Wd~~kL~~Vv~~kh~~~~~~~~t~ivCK~ 166 (359)
-.+|||+||..|.|.+|+.|-|+|+..+.+. +-.-++|.+-..... -.=+|+.. -+--..|++
T Consensus 75 ~~~~vcK~~l~glC~kgD~C~Flhe~~~~k~rec~ff~~~g~c~~~~~------------c~y~h~dp---qt~~k~c~~ 139 (325)
T KOG1040|consen 75 RGKVVCKHWLRGLCKKGDQCEFLHEYDLTKMRECKFFSLFGECTNGKD------------CPYLHGDP---QTAIKKCKW 139 (325)
T ss_pred CCceeehhhhhhhhhccCcCcchhhhhhcccccccccccccccccccC------------CcccCCCh---hhhhhccch
Confidence 3689999999999999999999998755433 334444443332100 00012210 022356777
Q ss_pred HHHHHHhcccCcccccCCCCCCccccccCCC
Q 018223 167 FLEAVEKKQYGWFWVCPNGGKDCHYRHALPP 197 (359)
Q Consensus 167 Fl~AvE~~kYGWfW~CPnGgd~C~yrH~LPp 197 (359)
|-+ ..|++| .+|+|||.+++
T Consensus 140 ~~~----------g~c~~g-~~c~~~h~~~~ 159 (325)
T KOG1040|consen 140 YKE----------GFCRGG-PSCKKRHERKV 159 (325)
T ss_pred hhh----------ccCCCc-chhhhhhhccc
Confidence 766 589988 99999998764
No 5
>smart00356 ZnF_C3H1 zinc finger.
Probab=97.97 E-value=3.3e-06 Score=53.55 Aligned_cols=26 Identities=50% Similarity=1.041 Sum_probs=23.7
Q ss_pred CcchhhhhhhcccccCCCCCccCccc
Q 018223 89 PKSILCEFYKAGQCQKGFKCKFSHDL 114 (359)
Q Consensus 89 pKsv~C~fFk~G~C~kG~kCkfSHd~ 114 (359)
.|+++|.+|+.|.|..|+.|+|+|++
T Consensus 2 ~k~~~C~~~~~g~C~~g~~C~~~H~~ 27 (27)
T smart00356 2 YKTELCKFFKRGYCPYGDRCKFAHPL 27 (27)
T ss_pred CCCCcCcCccCCCCCCCCCcCCCCcC
Confidence 46789999999999999999999974
No 6
>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=97.96 E-value=2.8e-06 Score=55.42 Aligned_cols=25 Identities=44% Similarity=0.983 Sum_probs=20.5
Q ss_pred Ccchhhhhhhc-ccccCCCCCccCcc
Q 018223 89 PKSILCEFYKA-GQCQKGFKCKFSHD 113 (359)
Q Consensus 89 pKsv~C~fFk~-G~C~kG~kCkfSHd 113 (359)
||+.+|.||.+ |.|..|++|+|+|+
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 68899999988 99999999999997
No 7
>COG5084 YTH1 Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]
Probab=97.19 E-value=0.00018 Score=70.60 Aligned_cols=30 Identities=33% Similarity=1.033 Sum_probs=27.2
Q ss_pred CcchhhhhhhcccccCCCCCccCccccccc
Q 018223 89 PKSILCEFYKAGQCQKGFKCKFSHDLNVQR 118 (359)
Q Consensus 89 pKsv~C~fFk~G~C~kG~kCkfSHd~~~~r 118 (359)
--+|+|.||..|.|.+|..|-|+|...+.+
T Consensus 102 ~s~V~c~~~~~g~c~s~~~c~~lh~~d~~~ 131 (285)
T COG5084 102 SSSVVCKFFLRGLCKSGFSCEFLHEYDLRS 131 (285)
T ss_pred cCCcccchhccccCcCCCccccccCCCccc
Confidence 568999999999999999999999998733
No 8
>KOG1677 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=96.45 E-value=0.0012 Score=64.13 Aligned_cols=72 Identities=26% Similarity=0.565 Sum_probs=50.1
Q ss_pred Ccchhhhhhh-cccccC-CCCCccCccccccccchhhhcccccccchhhccchHHHHHHHHHhhcccccCCCCchhhhhH
Q 018223 89 PKSILCEFYK-AGQCQK-GFKCKFSHDLNVQRKGEKIDIYSDKRDKETMEDWDQETLEKVVESKNKEYQQNKPTDIVCKY 166 (359)
Q Consensus 89 pKsv~C~fFk-~G~C~k-G~kCkfSHd~~~~rk~eK~dlY~D~R~~dtmd~Wd~~kL~~Vv~~kh~~~~~~~~t~ivCK~ 166 (359)
.++.+|.+|. .|.|.- |.+|+|.|-..-.|-.. ..+... +....-.+.|.+
T Consensus 130 ~kt~lc~~~~~~g~c~y~ge~crfah~~~e~r~~~----------------------~~~~~~-----~~~~~kt~lC~~ 182 (332)
T KOG1677|consen 130 YKTPLCRSFRKSGTCKYRGEQCRFAHGLEELRLPS----------------------SENQVG-----NPPKYKTKLCPK 182 (332)
T ss_pred ccCCcceeeecCccccccCchhhhcCCcccccccc----------------------cchhhc-----CCCCCCCcCCCc
Confidence 3678999776 569998 99999999876533100 001111 122345678999
Q ss_pred HHHHHHhcccCcccccCCCCCCccccccCCC
Q 018223 167 FLEAVEKKQYGWFWVCPNGGKDCHYRHALPP 197 (359)
Q Consensus 167 Fl~AvE~~kYGWfW~CPnGgd~C~yrH~LPp 197 (359)
|+. ++.||.| ..|+|.|-.+.
T Consensus 183 f~~---------tG~C~yG-~rC~F~H~~~~ 203 (332)
T KOG1677|consen 183 FQK---------TGLCKYG-SRCRFIHGEPE 203 (332)
T ss_pred ccc---------CCCCCCC-CcCeecCCCcc
Confidence 976 3799999 99999998874
No 9
>KOG1492 consensus C3H1-type Zn-finger protein [General function prediction only]
Probab=96.34 E-value=0.0019 Score=62.31 Aligned_cols=82 Identities=29% Similarity=0.665 Sum_probs=55.6
Q ss_pred CCCCCcchhhhhhh-cccccCCCCCccCccccccccchhhhcccccccchhhccchHHHHHHHHHhhcccccCCCC-chh
Q 018223 85 VGVDPKSILCEFYK-AGQCQKGFKCKFSHDLNVQRKGEKIDIYSDKRDKETMEDWDQETLEKVVESKNKEYQQNKP-TDI 162 (359)
Q Consensus 85 ~g~dpKsv~C~fFk-~G~C~kG~kCkfSHd~~~~rk~eK~dlY~D~R~~dtmd~Wd~~kL~~Vv~~kh~~~~~~~~-t~i 162 (359)
.|--|..|.|.||- +|.|.||..|+|-|.++...-+.| |...|....-| .+-.|.- .| .-.
T Consensus 200 vgnspsavycryynangicgkgaacrfvheptrkticpk---flngrcnkaed----------cnlshel----dprrip 262 (377)
T KOG1492|consen 200 VGNSPSAVYCRYYNANGICGKGAACRFVHEPTRKTICPK---FLNGRCNKAED----------CNLSHEL----DPRRIP 262 (377)
T ss_pred hCCCCceeEEEEecCCCcccCCceeeeeccccccccChH---HhcCccCchhc----------CCccccc----Cccccc
Confidence 48899999999996 479999999999999875443433 55566531000 0001211 13 334
Q ss_pred hhhHHHHHHHhcccCcccccCCCCCCccccccC
Q 018223 163 VCKYFLEAVEKKQYGWFWVCPNGGKDCHYRHAL 195 (359)
Q Consensus 163 vCK~Fl~AvE~~kYGWfW~CPnGgd~C~yrH~L 195 (359)
.|+|||- ..|.| .+|+|.|.-
T Consensus 263 acryfll----------gkcnn--pncryvhih 283 (377)
T KOG1492|consen 263 ACRYFLL----------GKCNN--PNCRYVHIH 283 (377)
T ss_pred hhhhhhh----------ccCCC--CCceEEEEe
Confidence 6999986 58988 499999975
No 10
>KOG4791 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.03 E-value=0.0022 Score=66.92 Aligned_cols=24 Identities=33% Similarity=0.663 Sum_probs=21.7
Q ss_pred hhhhhhcccccCCCCCccCccccc
Q 018223 93 LCEFYKAGQCQKGFKCKFSHDLNV 116 (359)
Q Consensus 93 ~C~fFk~G~C~kG~kCkfSHd~~~ 116 (359)
-|.||.+-.|.+|+.|.|+|.-+.
T Consensus 5 dcyff~ys~cKk~d~c~~rh~E~a 28 (667)
T KOG4791|consen 5 DCYFFFYSTCKKGDSCPFRHCEAA 28 (667)
T ss_pred cchhhhhhhhhccCcCcchhhHHH
Confidence 499999999999999999998653
No 11
>KOG1492 consensus C3H1-type Zn-finger protein [General function prediction only]
Probab=95.83 E-value=0.0039 Score=60.22 Aligned_cols=21 Identities=33% Similarity=0.358 Sum_probs=11.8
Q ss_pred CCCCCcchhhhhhhcccccCC
Q 018223 85 VGVDPKSILCEFYKAGQCQKG 105 (359)
Q Consensus 85 ~g~dpKsv~C~fFk~G~C~kG 105 (359)
.||--...+--.--.|+|.|.
T Consensus 161 tgvsdtkwlefvsakgqcpky 181 (377)
T KOG1492|consen 161 TGVSDTKWLEFVSAKGQCPKY 181 (377)
T ss_pred cccccchhhhhhhhcCCCCce
Confidence 455444444444456888774
No 12
>PF14608 zf-CCCH_2: Zinc finger C-x8-C-x5-C-x3-H type
Probab=95.52 E-value=0.0056 Score=37.19 Aligned_cols=18 Identities=44% Similarity=0.995 Sum_probs=16.5
Q ss_pred hhhhhhcccccCCCCCccCc
Q 018223 93 LCEFYKAGQCQKGFKCKFSH 112 (359)
Q Consensus 93 ~C~fFk~G~C~kG~kCkfSH 112 (359)
+|.||.+ |..|+.|.|+|
T Consensus 1 ~Ck~~~~--C~~~~~C~f~H 18 (19)
T PF14608_consen 1 PCKFGPN--CTNGDNCPFSH 18 (19)
T ss_pred CCcCcCC--CCCCCcCccCC
Confidence 5899977 99999999999
No 13
>PF00642 zf-CCCH: Zinc finger C-x8-C-x5-C-x3-H type (and similar); InterPro: IPR000571 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents C-x8-C-x5-C-x3-H (CCCH) type Zinc finger (Znf) domains. Proteins containing CCCH Znf domains include Znf proteins from eukaryotes involved in cell cycle or growth phase-related regulation, e.g. human TIS11B (butyrate response factor 1), a probable regulatory protein involved in regulating the response to growth factors, and the mouse TTP growth factor-inducible nuclear protein, which has the same function. The mouse TTP protein is induced by growth factors. Another protein containing this domain is the human splicing factor U2AF 35kDa subunit, which plays a critical role in both constitutive and enhancer-dependent splicing by mediating essential protein-protein interactions and protein-RNA interactions required for 3' splice site selection. It has been shown that different CCCH-type Znf proteins interact with the 3'-untranslated region of various mRNA [, ]. This type of Znf is very often present in two copies. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 1M9O_A 1RGO_A 2CQE_A 2FC6_A 2D9M_A 2E5S_A 2RHK_C 2D9N_A 3D2S_A 3D2Q_C ....
Probab=95.42 E-value=0.0075 Score=39.26 Aligned_cols=23 Identities=30% Similarity=1.013 Sum_probs=16.9
Q ss_pred hhhhHHHHHHHhcccCcccccCCCCCCcccccc
Q 018223 162 IVCKYFLEAVEKKQYGWFWVCPNGGKDCHYRHA 194 (359)
Q Consensus 162 ivCK~Fl~AvE~~kYGWfW~CPnGgd~C~yrH~ 194 (359)
.+|++|+. . ..||.| +.|.|.|-
T Consensus 4 ~~C~~f~~------~---g~C~~G-~~C~f~H~ 26 (27)
T PF00642_consen 4 KLCRFFMR------T---GTCPFG-DKCRFAHG 26 (27)
T ss_dssp SB-HHHHH------T---S--TTG-GGSSSBSS
T ss_pred ccChhhcc------C---CccCCC-CCcCccCC
Confidence 58999987 2 499999 99999994
No 14
>smart00356 ZnF_C3H1 zinc finger.
Probab=94.30 E-value=0.014 Score=36.73 Aligned_cols=23 Identities=39% Similarity=1.021 Sum_probs=18.9
Q ss_pred hhhhHHHHHHHhcccCcccccCCCCCCccccccC
Q 018223 162 IVCKYFLEAVEKKQYGWFWVCPNGGKDCHYRHAL 195 (359)
Q Consensus 162 ivCK~Fl~AvE~~kYGWfW~CPnGgd~C~yrH~L 195 (359)
.+|++|+. ..|+.| ++|.|.|.+
T Consensus 5 ~~C~~~~~----------g~C~~g-~~C~~~H~~ 27 (27)
T smart00356 5 ELCKFFKR----------GYCPYG-DRCKFAHPL 27 (27)
T ss_pred CcCcCccC----------CCCCCC-CCcCCCCcC
Confidence 47999944 499998 899999964
No 15
>KOG2185 consensus Predicted RNA-processing protein, contains G-patch domain [RNA processing and modification]
Probab=93.85 E-value=0.026 Score=58.20 Aligned_cols=26 Identities=42% Similarity=1.005 Sum_probs=24.4
Q ss_pred hhhhhhhcccccCCCCCccCcccccc
Q 018223 92 ILCEFYKAGQCQKGFKCKFSHDLNVQ 117 (359)
Q Consensus 92 v~C~fFk~G~C~kG~kCkfSHd~~~~ 117 (359)
.+|.||..|.|-=|.+|+|||-+.|.
T Consensus 141 kpC~ffLeg~CRF~enCRfSHG~~V~ 166 (486)
T KOG2185|consen 141 KPCKFFLEGRCRFGENCRFSHGLDVP 166 (486)
T ss_pred ccchHhhccccccCcccccccCcccc
Confidence 58999999999999999999999885
No 16
>PF14608 zf-CCCH_2: Zinc finger C-x8-C-x5-C-x3-H type
Probab=93.15 E-value=0.032 Score=33.91 Aligned_cols=14 Identities=36% Similarity=0.930 Sum_probs=12.0
Q ss_pred cccCCCCCCcccccc
Q 018223 180 WVCPNGGKDCHYRHA 194 (359)
Q Consensus 180 W~CPnGgd~C~yrH~ 194 (359)
=.|+|| ++|.|+|-
T Consensus 6 ~~C~~~-~~C~f~HP 19 (19)
T PF14608_consen 6 PNCTNG-DNCPFSHP 19 (19)
T ss_pred CCCCCC-CcCccCCc
Confidence 369998 99999993
No 17
>KOG2494 consensus C3H1-type Zn-finger protein [Transcription]
Probab=92.85 E-value=0.056 Score=54.24 Aligned_cols=57 Identities=25% Similarity=0.501 Sum_probs=42.4
Q ss_pred hhhhhhhcccccCCCC-CccCccccccccchhhhcccccccchhhccchHHHHHHHHHhhcccccCCCCchhhhhHHHHH
Q 018223 92 ILCEFYKAGQCQKGFK-CKFSHDLNVQRKGEKIDIYSDKRDKETMEDWDQETLEKVVESKNKEYQQNKPTDIVCKYFLEA 170 (359)
Q Consensus 92 v~C~fFk~G~C~kG~k-CkfSHd~~~~rk~eK~dlY~D~R~~dtmd~Wd~~kL~~Vv~~kh~~~~~~~~t~ivCK~Fl~A 170 (359)
-||.=|.-|.|..|+. |||.|-...- ......-|-|-=|+-
T Consensus 38 eVCReF~rn~C~R~d~~CkfaHP~~~~-------------------------------------~V~~g~v~aC~Ds~k- 79 (331)
T KOG2494|consen 38 EVCREFLRNTCSRGDRECKFAHPPKNC-------------------------------------QVSNGRVIACFDSQK- 79 (331)
T ss_pred HHHHHHHhccccCCCccccccCCCCCC-------------------------------------CccCCeEEEEecccc-
Confidence 4899999999999999 9999986520 011234566766665
Q ss_pred HHhcccCcccccCCCCCCccccccCCC
Q 018223 171 VEKKQYGWFWVCPNGGKDCHYRHALPP 197 (359)
Q Consensus 171 vE~~kYGWfW~CPnGgd~C~yrH~LPp 197 (359)
..|-- ++|+|.|..++
T Consensus 80 ---------grCsR--~nCkylHpp~h 95 (331)
T KOG2494|consen 80 ---------GRCSR--ENCKYLHPPQH 95 (331)
T ss_pred ---------CccCc--ccceecCCChh
Confidence 47765 68999999886
No 18
>COG5084 YTH1 Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]
Probab=92.56 E-value=0.061 Score=53.12 Aligned_cols=30 Identities=30% Similarity=0.530 Sum_probs=26.2
Q ss_pred CCCCCcc---hhhhhh-hcccccCCCCCccCccc
Q 018223 85 VGVDPKS---ILCEFY-KAGQCQKGFKCKFSHDL 114 (359)
Q Consensus 85 ~g~dpKs---v~C~fF-k~G~C~kG~kCkfSHd~ 114 (359)
.+.|+.+ ..|.|| ..|.|.-|..|.++|-.
T Consensus 125 h~~d~~~s~~~~c~~Fs~~G~cs~g~~c~~~h~d 158 (285)
T COG5084 125 HEYDLRSSQGPPCRSFSLKGSCSSGPSCGYSHID 158 (285)
T ss_pred cCCCcccccCCCcccccccceeccCCCCCccccC
Confidence 4666665 789999 99999999999999986
No 19
>PF01396 zf-C4_Topoisom: Topoisomerase DNA binding C4 zinc finger; InterPro: IPR013498 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type I topoisomerases are ATP-independent enzymes (except for reverse gyrase), and can be subdivided according to their structure and reaction mechanisms: type IA (bacterial and archaeal topoisomerase I, topoisomerase III and reverse gyrase) and type IB (eukaryotic topoisomerase I and topoisomerase V). These enzymes are primarily responsible for relaxing positively and/or negatively supercoiled DNA, except for reverse gyrase, which can introduce positive supercoils into DNA. This entry represents the zinc-finger domain found in type IA topoisomerases, including bacterial and archaeal topoisomerase I and III enzymes, and in eukaryotic topoisomerase III enzymes. Escherichia coli topoisomerase I proteins contain five copies of a zinc-ribbon-like domain at their C terminus, two of which have lost their cysteine residues and are therefore probably not able to bind zinc []. This domain is still considered to be a member of the zinc-ribbon superfamily despite not being able to bind zinc. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003916 DNA topoisomerase activity, 0006265 DNA topological change, 0005694 chromosome
Probab=91.01 E-value=0.13 Score=36.34 Aligned_cols=25 Identities=32% Similarity=0.703 Sum_probs=22.1
Q ss_pred HhcccCcccccCCCCCCccccccCCC
Q 018223 172 EKKQYGWFWVCPNGGKDCHYRHALPP 197 (359)
Q Consensus 172 E~~kYGWfW~CPnGgd~C~yrH~LPp 197 (359)
..+++|.||.|.|- ..|+|..-||+
T Consensus 14 r~~k~g~F~~Cs~y-P~C~~~~~~~~ 38 (39)
T PF01396_consen 14 RRGKKGKFLGCSNY-PECKYTEPLPK 38 (39)
T ss_pred EECCCCCEEECCCC-CCcCCeEeCCC
Confidence 46789999999998 88999998886
No 20
>KOG1677 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=89.69 E-value=0.17 Score=49.33 Aligned_cols=35 Identities=29% Similarity=0.552 Sum_probs=30.4
Q ss_pred CCCCCCCCcchhhhhhhc-ccccCCCCCccCccccc
Q 018223 82 KVPVGVDPKSILCEFYKA-GQCQKGFKCKFSHDLNV 116 (359)
Q Consensus 82 kv~~g~dpKsv~C~fFk~-G~C~kG~kCkfSHd~~~ 116 (359)
.+......|+++|.+|.. |.|.-|.+|+|-|-..-
T Consensus 168 ~~~~~~~~kt~lC~~f~~tG~C~yG~rC~F~H~~~~ 203 (332)
T KOG1677|consen 168 QVGNPPKYKTKLCPKFQKTGLCKYGSRCRFIHGEPE 203 (332)
T ss_pred hhcCCCCCCCcCCCccccCCCCCCCCcCeecCCCcc
Confidence 445567899999999998 99999999999999763
No 21
>KOG4791 consensus Uncharacterized conserved protein [Function unknown]
Probab=86.35 E-value=0.22 Score=52.57 Aligned_cols=23 Identities=22% Similarity=0.873 Sum_probs=18.0
Q ss_pred chhhhhhhcccccCCCCCccCccc
Q 018223 91 SILCEFYKAGQCQKGFKCKFSHDL 114 (359)
Q Consensus 91 sv~C~fFk~G~C~kG~kCkfSHd~ 114 (359)
.+.|.||..|.|-+- -|.|-|.-
T Consensus 32 ~t~C~~w~~~~~C~k-~C~YRHSe 54 (667)
T KOG4791|consen 32 ETVCTLWQEGRCCRK-VCRYRHSE 54 (667)
T ss_pred cchhhhhhhcCcccc-cccchhhH
Confidence 368999999965553 89999973
No 22
>KOG2185 consensus Predicted RNA-processing protein, contains G-patch domain [RNA processing and modification]
Probab=83.83 E-value=0.52 Score=48.95 Aligned_cols=26 Identities=38% Similarity=0.865 Sum_probs=22.7
Q ss_pred CchhhhhHHHHHHHhcccCcccccCCCCCCccccccC
Q 018223 159 PTDIVCKYFLEAVEKKQYGWFWVCPNGGKDCHYRHAL 195 (359)
Q Consensus 159 ~t~ivCK~Fl~AvE~~kYGWfW~CPnGgd~C~yrH~L 195 (359)
..-.+|+|||+ ..|.+| .+|+|.|-+
T Consensus 138 ~sMkpC~ffLe----------g~CRF~-enCRfSHG~ 163 (486)
T KOG2185|consen 138 ESMKPCKFFLE----------GRCRFG-ENCRFSHGL 163 (486)
T ss_pred hhhccchHhhc----------cccccC-cccccccCc
Confidence 35789999999 699998 889999965
No 23
>KOG1595 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=80.22 E-value=0.73 Score=49.02 Aligned_cols=27 Identities=26% Similarity=0.748 Sum_probs=24.5
Q ss_pred cchhhhhhhcccccCCCCCccCccccc
Q 018223 90 KSILCEFYKAGQCQKGFKCKFSHDLNV 116 (359)
Q Consensus 90 Ksv~C~fFk~G~C~kG~kCkfSHd~~~ 116 (359)
..++|-=|++|.|.+|+.|-|.|-..-
T Consensus 235 s~tpCPefrkG~C~rGD~CEyaHgvfE 261 (528)
T KOG1595|consen 235 SSTPCPEFRKGSCERGDSCEYAHGVFE 261 (528)
T ss_pred cCccCcccccCCCCCCCccccccceeh
Confidence 578999999999999999999998753
No 24
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=74.00 E-value=1.4 Score=44.85 Aligned_cols=24 Identities=38% Similarity=1.025 Sum_probs=23.5
Q ss_pred hhhhhhhcccccCCCCCccCcccc
Q 018223 92 ILCEFYKAGQCQKGFKCKFSHDLN 115 (359)
Q Consensus 92 v~C~fFk~G~C~kG~kCkfSHd~~ 115 (359)
++|.||--|.|.-|+.|+|||.+.
T Consensus 9 tic~~~~~g~c~~g~~cr~~h~~~ 32 (344)
T KOG1039|consen 9 TICKYYQKGNCKFGDLCRLSHSLP 32 (344)
T ss_pred hhhhhcccccccccceeeeeccCc
Confidence 799999999999999999999998
No 25
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=73.98 E-value=1.2 Score=42.57 Aligned_cols=30 Identities=40% Similarity=0.762 Sum_probs=25.4
Q ss_pred CCCcchhhhhhhc-ccccCCCCCccCccccc
Q 018223 87 VDPKSILCEFYKA-GQCQKGFKCKFSHDLNV 116 (359)
Q Consensus 87 ~dpKsv~C~fFk~-G~C~kG~kCkfSHd~~~ 116 (359)
+|-.-.+|.=|++ |-|.-|+.|||+|+-+.
T Consensus 137 iD~qpdVCKdyk~TGYCGYGDsCKflH~R~D 167 (259)
T COG5152 137 IDTQPDVCKDYKETGYCGYGDSCKFLHDRSD 167 (259)
T ss_pred eecCcccccchhhcccccCCchhhhhhhhhh
Confidence 4666779998886 79999999999999764
No 26
>KOG1040 consensus Polyadenylation factor I complex, subunit, Yth1 (CPSF subunit) [RNA processing and modification]
Probab=73.89 E-value=2 Score=43.30 Aligned_cols=73 Identities=22% Similarity=0.521 Sum_probs=48.1
Q ss_pred hhhhh-hcccccCCCCCccCccccccccchhhhcccccccchhhccchHHHHHHHHHhhcccccCCCC-chhhhhHHHHH
Q 018223 93 LCEFY-KAGQCQKGFKCKFSHDLNVQRKGEKIDIYSDKRDKETMEDWDQETLEKVVESKNKEYQQNKP-TDIVCKYFLEA 170 (359)
Q Consensus 93 ~C~fF-k~G~C~kG~kCkfSHd~~~~rk~eK~dlY~D~R~~dtmd~Wd~~kL~~Vv~~kh~~~~~~~~-t~ivCK~Fl~A 170 (359)
.|.|| .-|-|+.|..|.|.|--- +.+.+++..|...-.. +|..+...+ -..+|..++.
T Consensus 107 ec~ff~~~g~c~~~~~c~y~h~dp-qt~~k~c~~~~~g~c~------------------~g~~c~~~h~~~~~c~~y~~- 166 (325)
T KOG1040|consen 107 ECKFFSLFGECTNGKDCPYLHGDP-QTAIKKCKWYKEGFCR------------------GGPSCKKRHERKVLCPPYNA- 166 (325)
T ss_pred cccccccccccccccCCcccCCCh-hhhhhccchhhhccCC------------------CcchhhhhhhcccCCCchhh-
Confidence 56555 567999999999999863 3445666666654332 222222222 3478887776
Q ss_pred HHhcccCcccccCCCCCCcccccc
Q 018223 171 VEKKQYGWFWVCPNGGKDCHYRHA 194 (359)
Q Consensus 171 vE~~kYGWfW~CPnGgd~C~yrH~ 194 (359)
..||-|..-|.|-|-
T Consensus 167 ---------gfC~~g~q~c~~~hp 181 (325)
T KOG1040|consen 167 ---------GFCPKGPQRCDMLHP 181 (325)
T ss_pred ---------hhccCCCCcccccCC
Confidence 589999777999874
No 27
>KOG2333 consensus Uncharacterized conserved protein [General function prediction only]
Probab=72.42 E-value=2.4 Score=45.36 Aligned_cols=67 Identities=30% Similarity=0.607 Sum_probs=47.6
Q ss_pred cchhhhhhhcc---cccCCCCCccCccccccccchhhhcccccccchhhccchHHHHHHHHHhhcccccCCCCchhhhhH
Q 018223 90 KSILCEFYKAG---QCQKGFKCKFSHDLNVQRKGEKIDIYSDKRDKETMEDWDQETLEKVVESKNKEYQQNKPTDIVCKY 166 (359)
Q Consensus 90 Ksv~C~fFk~G---~C~kG~kCkfSHd~~~~rk~eK~dlY~D~R~~dtmd~Wd~~kL~~Vv~~kh~~~~~~~~t~ivCK~ 166 (359)
.+.||----+| .|.=|++|+|-||+.. |.- .|.. .-..-|-+
T Consensus 75 ~n~LCPsli~g~~~~C~f~d~Crf~HDi~a---------yLa--------------------tK~~------Dig~~Cp~ 119 (614)
T KOG2333|consen 75 QNRLCPSLIQGDISKCSFGDNCRFVHDIEA---------YLA--------------------TKAP------DIGPSCPV 119 (614)
T ss_pred hhccChHhhcCCCccCcccccccccccHHH---------HHh--------------------ccCc------ccCCccce
Confidence 77888888888 7999999999999753 321 1111 12245877
Q ss_pred HHHHHHhcccCcccccCCCCCCcccc--ccCCCcccc
Q 018223 167 FLEAVEKKQYGWFWVCPNGGKDCHYR--HALPPGYVL 201 (359)
Q Consensus 167 Fl~AvE~~kYGWfW~CPnGgd~C~yr--H~LPpG~Vl 201 (359)
|-. +..||.| -+|+|- |--+.|-.|
T Consensus 120 f~s---------~G~Cp~G-~~CRFl~aHld~~g~~~ 146 (614)
T KOG2333|consen 120 FES---------LGFCPYG-FKCRFLGAHLDIEGNNL 146 (614)
T ss_pred eec---------cccCCcc-ceeehhhcccCccccch
Confidence 733 4699998 999986 777777654
No 28
>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=68.35 E-value=2.3 Score=27.42 Aligned_cols=19 Identities=37% Similarity=0.987 Sum_probs=16.9
Q ss_pred hhhhhhcc-cccCCCCCccCc
Q 018223 93 LCEFYKAG-QCQKGFKCKFSH 112 (359)
Q Consensus 93 ~C~fFk~G-~C~kG~kCkfSH 112 (359)
+|.|...| .|.. ..|.|.|
T Consensus 2 lC~yEl~Gg~Cnd-~~C~~QH 21 (23)
T PF10650_consen 2 LCPYELTGGVCND-PDCEFQH 21 (23)
T ss_pred CCccccCCCeeCC-CCCCccc
Confidence 79999999 9987 6899999
No 29
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=67.45 E-value=3.3 Score=42.14 Aligned_cols=32 Identities=44% Similarity=0.800 Sum_probs=26.0
Q ss_pred CchhhhhHHHHHHHhcccCcccccCCCCCCccccccCCCcc
Q 018223 159 PTDIVCKYFLEAVEKKQYGWFWVCPNGGKDCHYRHALPPGY 199 (359)
Q Consensus 159 ~t~ivCK~Fl~AvE~~kYGWfW~CPnGgd~C~yrH~LPpG~ 199 (359)
.....|+||- +++ ..||.| ..|-|+|.+|-|-
T Consensus 247 ~s~~~c~yf~------~~~--g~cPf~-s~~~y~h~~~~~~ 278 (344)
T KOG1039|consen 247 MSAKDCKYFS------QGL--GSCPFG-SKCFYKHLLPSGA 278 (344)
T ss_pred hhccchhhhc------CCC--CCCCCC-Ccccccccccccc
Confidence 3467899995 444 799998 9999999999754
No 30
>KOG1763 consensus Uncharacterized conserved protein, contains CCCH-type Zn-finger [General function prediction only]
Probab=66.46 E-value=5.6 Score=40.07 Aligned_cols=28 Identities=32% Similarity=0.936 Sum_probs=24.8
Q ss_pred CchhhhhHHHHHHHhcccCcccccCCCCCCccccccCCC
Q 018223 159 PTDIVCKYFLEAVEKKQYGWFWVCPNGGKDCHYRHALPP 197 (359)
Q Consensus 159 ~t~ivCK~Fl~AvE~~kYGWfW~CPnGgd~C~yrH~LPp 197 (359)
|-.+||-||.+ ..|--| +.|+|.|-|--
T Consensus 90 PKSvvCafFk~----------g~C~KG-~kCKFsHdl~~ 117 (343)
T KOG1763|consen 90 PKSVVCAFFKQ----------GTCTKG-DKCKFSHDLAV 117 (343)
T ss_pred chHHHHHHHhc----------cCCCCC-CcccccchHHH
Confidence 67899999998 589988 99999999864
No 31
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=62.67 E-value=5 Score=39.89 Aligned_cols=14 Identities=43% Similarity=1.094 Sum_probs=9.8
Q ss_pred cccCCCCCCccccccC
Q 018223 180 WVCPNGGKDCHYRHAL 195 (359)
Q Consensus 180 W~CPnGgd~C~yrH~L 195 (359)
|+|-. .+|.-.|+-
T Consensus 106 wvCHg--rkCl~~HaC 119 (314)
T PF06524_consen 106 WVCHG--RKCLSTHAC 119 (314)
T ss_pred heecc--ccccccccc
Confidence 88875 577777764
No 32
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=60.20 E-value=5.7 Score=39.09 Aligned_cols=49 Identities=20% Similarity=0.528 Sum_probs=40.0
Q ss_pred CCCCCCCCcchhhhhhhcccccCCCCCccCccccccccchhhhccccccc
Q 018223 82 KVPVGVDPKSILCEFYKAGQCQKGFKCKFSHDLNVQRKGEKIDIYSDKRD 131 (359)
Q Consensus 82 kv~~g~dpKsv~C~fFk~G~C~kG~kCkfSHd~~~~rk~eK~dlY~D~R~ 131 (359)
-++.=.|++.-.|.+|--+.|..|..|.|-|-..++|. -.+.||+..|-
T Consensus 143 e~~pvT~~rea~C~~~e~~~C~rG~~CnFmH~k~~sr~-L~r~l~~~~~~ 191 (260)
T KOG2202|consen 143 ELSPVTDFREAICGQFERTECSRGGACNFMHVKRLSRS-LRRELYGRQRK 191 (260)
T ss_pred eecCcCchhhhhhcccccccCCCCCcCcchhhhhhhHH-HHHHhhhhhhc
Confidence 34556899999999999999999999999999877654 34577777664
No 33
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=59.85 E-value=9.4 Score=39.38 Aligned_cols=28 Identities=43% Similarity=0.816 Sum_probs=23.2
Q ss_pred CchhhhhHHHHHHHhcccCcccccCCCCCCccccccCCC
Q 018223 159 PTDIVCKYFLEAVEKKQYGWFWVCPNGGKDCHYRHALPP 197 (359)
Q Consensus 159 ~t~ivCK~Fl~AvE~~kYGWfW~CPnGgd~C~yrH~LPp 197 (359)
.|..-|-+||. | -+|||+ +|||-|-.-|
T Consensus 200 GTTKYCtsYLR-------n--~~CpNp--~CMyLHEpg~ 227 (480)
T COG5175 200 GTTKYCTSYLR-------N--AVCPNP--DCMYLHEPGP 227 (480)
T ss_pred CchHHHHHHHc-------C--CCCCCC--CeeeecCCCc
Confidence 47788999987 2 699997 8999998765
No 34
>PF04931 DNA_pol_phi: DNA polymerase phi; InterPro: IPR007015 Proteins of this family are predominantly nucleolar. The majority are described as transcription factor transactivators. The family also includes the fifth essential DNA polymerase (Pol5p) of Schizosaccharomyces pombe (Fission yeast) and Saccharomyces cerevisiae (Baker's yeast) (2.7.7.7 from EC). Pol5p is localized exclusively to the nucleolus and binds near or at the enhancer region of rRNA-encoding DNA repeating units.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006351 transcription, DNA-dependent
Probab=58.77 E-value=6.7 Score=43.39 Aligned_cols=7 Identities=43% Similarity=0.676 Sum_probs=2.9
Q ss_pred HHHhhhh
Q 018223 341 LEASLAK 347 (359)
Q Consensus 341 lEa~~~~ 347 (359)
+...|.+
T Consensus 704 ~~~~l~~ 710 (784)
T PF04931_consen 704 FRSALAK 710 (784)
T ss_pred HHHHHHH
Confidence 4444443
No 35
>KOG0699 consensus Serine/threonine protein phosphatase [Signal transduction mechanisms]
Probab=57.03 E-value=11 Score=39.33 Aligned_cols=32 Identities=28% Similarity=0.383 Sum_probs=20.2
Q ss_pred CCCCCccchhhhhHHHHhhhhh---ccccCCCCCC
Q 018223 327 PDDDDELDMDELNELEASLAKT---SIQIQDPSNG 358 (359)
Q Consensus 327 ~ddddd~d~del~elEa~~~~~---~~~~~e~~~~ 358 (359)
+|+|.+.+.|++...|.+++-. +..+.+||.-
T Consensus 295 ~Ded~e~e~ddEE~~e~~map~~~~~~g~EePG~D 329 (542)
T KOG0699|consen 295 DDEDAEDEQDDEEMVEGSMAPLLLGSGGAEEPGED 329 (542)
T ss_pred cccccccccchhhhhhhcccccccccccCcCCCCC
Confidence 3344444455555667777666 7788899864
No 36
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=53.00 E-value=5.6 Score=39.94 Aligned_cols=30 Identities=40% Similarity=0.759 Sum_probs=25.4
Q ss_pred CCCCcchhhhhhhc-ccccCCCCCccCcccc
Q 018223 86 GVDPKSILCEFYKA-GQCQKGFKCKFSHDLN 115 (359)
Q Consensus 86 g~dpKsv~C~fFk~-G~C~kG~kCkfSHd~~ 115 (359)
-.|---.+|.=|+. |-|..|+.|+|.||-.
T Consensus 181 ~~d~qpDicKdykeTgycg~gdSckFlh~r~ 211 (313)
T KOG1813|consen 181 RIDYQPDICKDYKETGYCGYGDSCKFLHDRS 211 (313)
T ss_pred eeecCchhhhhhHhhCcccccchhhhhhhhh
Confidence 35677789998886 7999999999999966
No 37
>KOG1595 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=49.28 E-value=9.4 Score=40.95 Aligned_cols=26 Identities=27% Similarity=0.667 Sum_probs=19.7
Q ss_pred CchhhhhHHHHHHHhcccCcccccCCCCCCccccccC
Q 018223 159 PTDIVCKYFLEAVEKKQYGWFWVCPNGGKDCHYRHAL 195 (359)
Q Consensus 159 ~t~ivCK~Fl~AvE~~kYGWfW~CPnGgd~C~yrH~L 195 (359)
-+-.+|-=|-- ..|+-| |.|-|-|-.
T Consensus 234 Ys~tpCPefrk----------G~C~rG-D~CEyaHgv 259 (528)
T KOG1595|consen 234 YSSTPCPEFRK----------GSCERG-DSCEYAHGV 259 (528)
T ss_pred ccCccCccccc----------CCCCCC-Cccccccce
Confidence 36778887743 589988 999998754
No 38
>PF03194 LUC7: LUC7 N_terminus; InterPro: IPR004882 This family consists of several LUC7 protein homologues that are restricted to eukaryotes. LUC7 has been shown to be a U1 snRNA associated protein [] with a role in splice site recognition []. The entry contains human and mouse LUC7 like (LUC7L) proteins [] and human cisplatin resistance-associated overexpressed protein (CROP) [].
Probab=48.05 E-value=7.4 Score=37.74 Aligned_cols=26 Identities=42% Similarity=0.784 Sum_probs=0.0
Q ss_pred CCCCchhhhhHHHHHHHhcccCcccccCC----------CCCCccccc
Q 018223 156 QNKPTDIVCKYFLEAVEKKQYGWFWVCPN----------GGKDCHYRH 193 (359)
Q Consensus 156 ~~~~t~ivCK~Fl~AvE~~kYGWfW~CPn----------Ggd~C~yrH 193 (359)
...+.+-||||||- ..||+ | .|.+.|
T Consensus 25 ~~f~D~~VCk~~L~----------g~CPhdLF~nTK~DLG--~C~kiH 60 (254)
T PF03194_consen 25 VHFTDPDVCKYFLV----------GFCPHDLFVNTKSDLG--PCPKIH 60 (254)
T ss_pred CCCCCcccCHHHHh----------CCCcHHHHhhcccccc--hhhhhc
No 39
>KOG2494 consensus C3H1-type Zn-finger protein [Transcription]
Probab=46.24 E-value=12 Score=38.01 Aligned_cols=27 Identities=33% Similarity=0.682 Sum_probs=22.6
Q ss_pred CchhhhhHHHHHHHhcccCcccccCCCCCC-ccccccCC
Q 018223 159 PTDIVCKYFLEAVEKKQYGWFWVCPNGGKD-CHYRHALP 196 (359)
Q Consensus 159 ~t~ivCK~Fl~AvE~~kYGWfW~CPnGgd~-C~yrH~LP 196 (359)
-|+-||+=||. .+|--| |. |+|+|=.+
T Consensus 35 l~~eVCReF~r----------n~C~R~-d~~CkfaHP~~ 62 (331)
T KOG2494|consen 35 LTLEVCREFLR----------NTCSRG-DRECKFAHPPK 62 (331)
T ss_pred hHHHHHHHHHh----------ccccCC-CccccccCCCC
Confidence 48999999998 699998 65 99999543
No 40
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=42.10 E-value=10 Score=39.00 Aligned_cols=32 Identities=34% Similarity=0.849 Sum_probs=26.8
Q ss_pred CchhhhhHHHHHHHhcccCcccccCCCCCCccccccCCCcccc
Q 018223 159 PTDIVCKYFLEAVEKKQYGWFWVCPNGGKDCHYRHALPPGYVL 201 (359)
Q Consensus 159 ~t~ivCK~Fl~AvE~~kYGWfW~CPnGgd~C~yrH~LPpG~Vl 201 (359)
.+..||-||+- .+|--| ..|-|||--||+--|
T Consensus 159 n~p~Icsf~v~----------geckRG-~ec~yrhEkp~d~~L 190 (377)
T KOG0153|consen 159 NRPHICSFFVK----------GECKRG-AECPYRHEKPPDDPL 190 (377)
T ss_pred CCCccccceee----------cccccc-ccccccccCCCCcch
Confidence 47889999986 499887 999999999988444
No 41
>PF13295 DUF4077: Domain of unknown function (DUF4077)
Probab=40.43 E-value=14 Score=33.12 Aligned_cols=25 Identities=36% Similarity=0.946 Sum_probs=21.8
Q ss_pred chhhhhHHHHHHHhcccCc--------ccccCC
Q 018223 160 TDIVCKYFLEAVEKKQYGW--------FWVCPN 184 (359)
Q Consensus 160 t~ivCK~Fl~AvE~~kYGW--------fW~CPn 184 (359)
--.+|.|||--|--|-||+ ||+|.-
T Consensus 24 fiticsfflgiiaigyygyifteraiafwvcgi 56 (175)
T PF13295_consen 24 FITICSFFLGIIAIGYYGYIFTERAIAFWVCGI 56 (175)
T ss_pred HHHHHHHHHHHHHHhhhheeehhHHHHHHhhch
Confidence 3568999999999999998 899964
No 42
>COG0551 TopA Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]
Probab=39.47 E-value=16 Score=31.67 Aligned_cols=18 Identities=39% Similarity=0.815 Sum_probs=16.1
Q ss_pred hcccCcccccCCCCCCccc
Q 018223 173 KKQYGWFWVCPNGGKDCHY 191 (359)
Q Consensus 173 ~~kYGWfW~CPnGgd~C~y 191 (359)
.+.||||+.|-|. .+|.|
T Consensus 31 ~~~~g~f~gCs~y-P~C~~ 48 (140)
T COG0551 31 FGKYGIFLGCSNY-PKCDY 48 (140)
T ss_pred EccCCeEEEeCCC-CCCCC
Confidence 4678999999999 99998
No 43
>KOG0943 consensus Predicted ubiquitin-protein ligase/hyperplastic discs protein, HECT superfamily [Posttranslational modification, protein turnover, chaperones]
Probab=36.26 E-value=29 Score=41.37 Aligned_cols=7 Identities=57% Similarity=1.241 Sum_probs=3.6
Q ss_pred hhHHHHH
Q 018223 164 CKYFLEA 170 (359)
Q Consensus 164 CK~Fl~A 170 (359)
||-|++|
T Consensus 1566 ~~qffQa 1572 (3015)
T KOG0943|consen 1566 CKQFFQA 1572 (3015)
T ss_pred HHHHHHH
Confidence 5555553
No 44
>COG5406 Nucleosome binding factor SPN, SPT16 subunit [Transcription / DNA replication, recombination, and repair / Chromatin structure and dynamics]
Probab=35.92 E-value=22 Score=39.56 Aligned_cols=79 Identities=25% Similarity=0.408 Sum_probs=42.6
Q ss_pred ccchhhhcccccccc---hhhccc------hHHHHHHHHHhhcccccCCCCchhhhhHHHHHHHhcccCc----------
Q 018223 118 RKGEKIDIYSDKRDK---ETMEDW------DQETLEKVVESKNKEYQQNKPTDIVCKYFLEAVEKKQYGW---------- 178 (359)
Q Consensus 118 rk~eK~dlY~D~R~~---dtmd~W------d~~kL~~Vv~~kh~~~~~~~~t~ivCK~Fl~AvE~~kYGW---------- 178 (359)
||.+-.-+|..+.+- +||-.= |+.-|+.--..... +..-+---|+|.++|+.---|-
T Consensus 727 rKvqdVQFYREasd~~vdeTg~~~rk~~ygdedElEqEqeerrr----raald~eFksFa~~Iaeas~gri~~~~~fr~l 802 (1001)
T COG5406 727 RKVQDVQFYREASDTMVDETGKRGRKEHYGDEDELEQEQEERRR----RAALDQEFKSFASSIAEASEGRIEFKVQFRKL 802 (1001)
T ss_pred ceeeeeeeeecccccchhhhccccchhhccchHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHhhcCceEEeeechhc
Confidence 666666777766552 354332 23334432222211 1234666789999998755443
Q ss_pred -ccccCCCC-------CCccccccCCCccc
Q 018223 179 -FWVCPNGG-------KDCHYRHALPPGYV 200 (359)
Q Consensus 179 -fW~CPnGg-------d~C~yrH~LPpG~V 200 (359)
|..-||-. .+|-....-||-||
T Consensus 803 gF~GVPfRs~V~~~pTtdCLVqL~e~Pf~V 832 (1001)
T COG5406 803 GFYGVPFRSSVMIKPTTDCLVQLDEAPFFV 832 (1001)
T ss_pred cccCCccccceeeecchhheeeccCCceEE
Confidence 44456641 24544455588888
No 45
>KOG1999 consensus RNA polymerase II transcription elongation factor DSIF/SUPT5H/SPT5 [Transcription]
Probab=34.85 E-value=20 Score=41.14 Aligned_cols=21 Identities=43% Similarity=0.512 Sum_probs=9.6
Q ss_pred CCCCCCccCCCCCCCCCCCCC
Q 018223 311 DGPSNSAKAGQEDEVVPDDDD 331 (359)
Q Consensus 311 eSlf~~~~~~~~d~~~~dddd 331 (359)
.+-|+....|.+|+.++||+|
T Consensus 64 ~~gf~~~e~dvDdeveddd~~ 84 (1024)
T KOG1999|consen 64 GGGFIDREADVDDEVEDDDDD 84 (1024)
T ss_pred cccccccccccccccccccch
Confidence 444555445554444433333
No 46
>KOG3130 consensus Uncharacterized conserved protein [Function unknown]
Probab=34.46 E-value=24 Score=37.18 Aligned_cols=17 Identities=18% Similarity=0.216 Sum_probs=7.8
Q ss_pred CcCCCCCCCCccCCCCC
Q 018223 307 NSARDGPSNSAKAGQED 323 (359)
Q Consensus 307 ~evdeSlf~~~~~~~~d 323 (359)
-.|+.+..+..+|+++|
T Consensus 263 ~sv~~~ss~~edD~Ddd 279 (514)
T KOG3130|consen 263 CSVNGSSSYHEDDDDDD 279 (514)
T ss_pred ccccCCCCccccccccc
Confidence 34555555444444433
No 47
>PF10446 DUF2457: Protein of unknown function (DUF2457); InterPro: IPR018853 This entry represents a family of uncharacterised proteins.
Probab=33.52 E-value=18 Score=38.26 Aligned_cols=10 Identities=10% Similarity=-0.150 Sum_probs=6.9
Q ss_pred CCCCCHHHHH
Q 018223 232 TTPMTPELFT 241 (359)
Q Consensus 232 gTPVT~EsFl 241 (359)
.+.+|+.--|
T Consensus 23 ~~KlTi~Dtl 32 (458)
T PF10446_consen 23 KRKLTINDTL 32 (458)
T ss_pred cccccHHHHH
Confidence 7777776554
No 48
>PRK14973 DNA topoisomerase I; Provisional
Probab=32.87 E-value=12 Score=42.61 Aligned_cols=75 Identities=13% Similarity=0.222 Sum_probs=36.7
Q ss_pred HHHHHhcccCcccccCCCCCCccccccCCCccccchhHHHH-HH--HHHhhhcHHHHHHHHHhcCCCCCCCCHHHHHHHH
Q 018223 168 LEAVEKKQYGWFWVCPNGGKDCHYRHALPPGYVLKSQMKAL-LE--EEAEKITIEEEIENQRAKITTTTPMTPELFTEWK 244 (359)
Q Consensus 168 l~AvE~~kYGWfW~CPnGgd~C~yrH~LPpG~VlK~~~k~~-~e--~~~~eisLEE~iE~ER~kL~~gTPVT~EsFl~WK 244 (359)
+-.+..|.||||..|| .|+|+-..-+..-......+. .+ ...-.-++.++.......+..-+-|....-..|+
T Consensus 646 ~~~~r~Gr~g~fl~CP----~C~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 721 (936)
T PRK14973 646 VRLIRKGARPWDIGCP----LCSHIESNTESLLLMPSMTEELLQKLNAVHIYTVSELASREPEALAKSLGLSKKEAEKLI 721 (936)
T ss_pred eEEeecCCCcccccCc----cccchhhcccchhhccccchhhhhhhhhccCCchhhhccCCHhHhhhhcCcchHHHHHHH
Confidence 3345789999999996 587753322211111111110 00 0011224455544444444331227777777887
Q ss_pred HH
Q 018223 245 KK 246 (359)
Q Consensus 245 kk 246 (359)
..
T Consensus 722 ~~ 723 (936)
T PRK14973 722 RE 723 (936)
T ss_pred HH
Confidence 75
No 49
>PF04889 Cwf_Cwc_15: Cwf15/Cwc15 cell cycle control protein; InterPro: IPR006973 This family represents Cwf15/Cwc15 (from Schizosaccharomyces pombe and Saccharomyces cerevisiae respectively) and their homologues. The function of these proteins is unknown, but they form part of the spliceosome and are thus thought to be involved in mRNA splicing [].; GO: 0000398 nuclear mRNA splicing, via spliceosome, 0005681 spliceosomal complex
Probab=31.99 E-value=36 Score=33.10 Aligned_cols=19 Identities=37% Similarity=0.442 Sum_probs=10.0
Q ss_pred CCCccchhhhhHHHHhhhh
Q 018223 329 DDDELDMDELNELEASLAK 347 (359)
Q Consensus 329 dddd~d~del~elEa~~~~ 347 (359)
+||+.|+||..+|-++|.+
T Consensus 139 ~d~~ddeDd~~~Ll~ELek 157 (244)
T PF04889_consen 139 SDDDDDEDDTAALLRELEK 157 (244)
T ss_pred ccccccchHHHHHHHHHHH
Confidence 3344555555666665543
No 50
>PF04147 Nop14: Nop14-like family ; InterPro: IPR007276 Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production [].
Probab=30.19 E-value=52 Score=37.15 Aligned_cols=7 Identities=43% Similarity=0.743 Sum_probs=3.9
Q ss_pred cCCCCcc
Q 018223 264 KNDRMSG 270 (359)
Q Consensus 264 ~k~~LSG 270 (359)
+..+|.|
T Consensus 291 Rl~RM~g 297 (840)
T PF04147_consen 291 RLKRMRG 297 (840)
T ss_pred HHhhhcc
Confidence 4456666
No 51
>PF07141 Phage_term_sma: Putative bacteriophage terminase small subunit; InterPro: IPR010789 This entry is represented by Bacteriophage 712, Gp1; it is a family of uncharacterised viral proteins. This family consists of several putative Lactococcus bacteriophage terminase small subunit proteins. The exact function of this family is unknown.
Probab=28.09 E-value=63 Score=29.47 Aligned_cols=45 Identities=18% Similarity=0.369 Sum_probs=28.7
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHH------HHHhcCCCCccceeeccC
Q 018223 233 TPMTPELFTEWKKKKIAERDAGLAAER------AERAKNDRMSGRELFLSD 277 (359)
Q Consensus 233 TPVT~EsFl~WKkkk~~Ek~~~~~k~k------ee~a~k~~LSGRELFe~d 277 (359)
-.+..-||.+||..++..-......+. .+.+-+.+|+||.|=+..
T Consensus 41 L~isrKtFyeWrdtk~eA~eeA~~~rdd~LlmLArssLk~KLegyTLtET~ 91 (174)
T PF07141_consen 41 LHISRKTFYEWRDTKIEAYEEAKGIRDDNLLMLARSSLKSKLEGYTLTETE 91 (174)
T ss_pred HhccHHHHHHHHhhhHHHHHHHHhhccchHHHHHHHHHHhhcceeeeccce
Confidence 367889999999888543322221111 112356889999998875
No 52
>KOG1999 consensus RNA polymerase II transcription elongation factor DSIF/SUPT5H/SPT5 [Transcription]
Probab=24.93 E-value=29 Score=39.85 Aligned_cols=31 Identities=13% Similarity=0.145 Sum_probs=20.5
Q ss_pred CCCCCCCccCCCCCCCCCCCCCccchhhhhH
Q 018223 310 RDGPSNSAKAGQEDEVVPDDDDELDMDELNE 340 (359)
Q Consensus 310 deSlf~~~~~~~~d~~~~ddddd~d~del~e 340 (359)
..+.+.+-+...-|.+++++|||.|++++++
T Consensus 60 k~~s~~gf~~~e~dvDdeveddd~~~edEed 90 (1024)
T KOG1999|consen 60 KKESGGGFIDREADVDDEVEDDDDDEEDEED 90 (1024)
T ss_pred cccccccccccccccccccccccchhccCcc
Confidence 4677777777777666666666666655555
No 53
>PF06839 zf-GRF: GRF zinc finger; InterPro: IPR010666 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 presumed zinc-binding domain is found in a variety of DNA-binding proteins. It seems likely that this domain is involved in nucleic acid binding. It is named GRF after three conserved residues in the centre of the alignment of the domain. This zinc finger may be related to IPR000380 from INTERPRO. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding
Probab=24.36 E-value=46 Score=23.81 Aligned_cols=17 Identities=29% Similarity=0.702 Sum_probs=12.7
Q ss_pred cCcccccCCCCC-Ccccc
Q 018223 176 YGWFWVCPNGGK-DCHYR 192 (359)
Q Consensus 176 YGWfW~CPnGgd-~C~yr 192 (359)
--+||.||+... .|.|-
T Consensus 22 GR~Fy~C~~~~~~~C~fF 39 (45)
T PF06839_consen 22 GRRFYKCPNYKDKGCNFF 39 (45)
T ss_pred CCcceECCCCCCCCcCCE
Confidence 457999999843 68774
No 54
>PF00111 Fer2: 2Fe-2S iron-sulfur cluster binding domain; InterPro: IPR001041 The ferredoxin protein family are electron carrier proteins with an iron-sulphur cofactor that act in a wide variety of metabolic reactions. Ferredoxins can be divided into several subgroups depending upon the physiological nature of the iron-sulphur cluster(s) and according to sequence similarities. This entry represents members of the 2Fe-2S ferredoxin family that have a general core structure consisting of beta(2)-alpha-beta(2), which includes putidaredoxin and terpredoxin, and adrenodoxin [, , , ]. They are proteins of around one hundred amino acids with four conserved cysteine residues to which the 2Fe-2S cluster is ligated. This conserved region is also found as a domain in various metabolic enzymes and in multidomain proteins, such as aldehyde oxidoreductase (N-terminal), xanthine oxidase (N-terminal), phthalate dioxygenase reductase (C-terminal), succinate dehydrogenase iron-sulphur protein (N-terminal), and methane monooxygenase reductase (N-terminal).; GO: 0009055 electron carrier activity, 0051536 iron-sulfur cluster binding; PDB: 3M9S_C 2FUG_L 3IAS_L 2YBB_3 3IAM_3 3I9V_3 1JQ4_A 1DOX_A 1DOY_A 2KAJ_A ....
Probab=20.99 E-value=79 Score=24.00 Aligned_cols=32 Identities=31% Similarity=0.602 Sum_probs=24.2
Q ss_pred HHHHHHhc-ccCcccccCCCCCCcccccc-CCCccc
Q 018223 167 FLEAVEKK-QYGWFWVCPNGGKDCHYRHA-LPPGYV 200 (359)
Q Consensus 167 Fl~AvE~~-kYGWfW~CPnGgd~C~yrH~-LPpG~V 200 (359)
.|+|++.. .+++.+.|.+|+ |--=|+ +..|-|
T Consensus 19 ll~~~~~~~gi~i~~~C~~g~--Cg~C~v~v~~G~~ 52 (78)
T PF00111_consen 19 LLDALERAGGIGIPYSCGGGG--CGTCRVRVLEGEV 52 (78)
T ss_dssp HHHHHHHTTTTTSTTSSSSSS--SSTTEEEEEESEE
T ss_pred HHHHHHHcCCCCcccCCCCCc--cCCcEEEEeeCcc
Confidence 68888887 999999999984 865554 344555
No 55
>PF05416 Peptidase_C37: Southampton virus-type processing peptidase; InterPro: IPR001665 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to the MEROPS peptidase family C37, (clan PA(C)). The type example is calicivirin from Southampton virus, an endopeptidase that cleaves the polyprotein at sites N-terminal to itself, liberating the polyprotein helicase. Southampton virus is a positive-stranded ssRNA virus belonging to the Caliciviruses, which are viruses that cause gastroenteritis. The calicivirus genome contains two open reading frames, ORF1 and ORF2. ORF1 encodes a non-structural polypeptide, which has RNA helicase, cysteine protease and RNA polymerase activity []. The regions of the polyprotein in which these activities lie are similar to proteins produced by the picornaviruses []. ORF2 encodes a structural, capsid protein. Two different families of caliciviruses can be distinguished on the basis of sequence similarity, namely the Norwalk-like viruses or small round structured viruses (SRSVs), and those classed as non-SRSVs.; GO: 0004197 cysteine-type endopeptidase activity, 0006508 proteolysis; PDB: 2FYQ_A 2FYR_A 1WQS_D 4ASH_A 2IPH_B.
Probab=20.36 E-value=32 Score=36.56 Aligned_cols=20 Identities=50% Similarity=1.197 Sum_probs=13.0
Q ss_pred Cc-ccccCCCCCCccccccCCCc
Q 018223 177 GW-FWVCPNGGKDCHYRHALPPG 198 (359)
Q Consensus 177 GW-fW~CPnGgd~C~yrH~LPpG 198 (359)
|| ||+-|+- ----.|.+|+|
T Consensus 381 GWGfWVS~~l--fITttHViP~g 401 (535)
T PF05416_consen 381 GWGFWVSPTL--FITTTHVIPPG 401 (535)
T ss_dssp EEEEESSSSE--EEEEGGGS-ST
T ss_pred ceeeeecceE--EEEeeeecCCc
Confidence 67 8998884 12234999987
No 56
>KOG3223 consensus Uncharacterized conserved protein [Function unknown]
Probab=20.26 E-value=3.5e+02 Score=26.17 Aligned_cols=30 Identities=37% Similarity=0.375 Sum_probs=20.3
Q ss_pred chHHHHhhhhhhccccccccccCccHHHHH
Q 018223 7 SKAELAKKQKIVEDKTFGLKNKNKSKNVQK 36 (359)
Q Consensus 7 ~K~~~k~k~KiieDKTFGLKNKnkskkvQk 36 (359)
+++.+.+|.|..||--+-=--|+++++||+
T Consensus 18 k~~~~~KK~ke~ED~~W~d~dk~~~kk~qr 47 (221)
T KOG3223|consen 18 KAEEKDKKDKEKEDAKWRDDDKPKVKKVQR 47 (221)
T ss_pred HHHHHHHhHHHHHHHhhhcccchhHHHHHH
Confidence 345566778888888776555566666654
No 57
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=20.22 E-value=40 Score=32.64 Aligned_cols=35 Identities=29% Similarity=0.571 Sum_probs=25.5
Q ss_pred hhhhhHHHHHHHhcccCcccccCCCCCCccccccCC---CccccchhH
Q 018223 161 DIVCKYFLEAVEKKQYGWFWVCPNGGKDCHYRHALP---PGYVLKSQM 205 (359)
Q Consensus 161 ~ivCK~Fl~AvE~~kYGWfW~CPnGgd~C~yrH~LP---pG~VlK~~~ 205 (359)
..|||-|-+ .+-|-.| |.|+|.|.-- .|+-|-..=
T Consensus 141 pdVCKdyk~---------TGYCGYG-DsCKflH~R~D~KtGWkLn~EW 178 (259)
T COG5152 141 PDVCKDYKE---------TGYCGYG-DSCKFLHDRSDFKTGWKLNQEW 178 (259)
T ss_pred cccccchhh---------cccccCC-chhhhhhhhhhhhcccccchhh
Confidence 569998855 2578887 9999999764 466665443
No 58
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=20.00 E-value=42 Score=34.69 Aligned_cols=24 Identities=29% Similarity=1.017 Sum_probs=22.5
Q ss_pred hhhhhhhcccccCCCCCccCcccc
Q 018223 92 ILCEFYKAGQCQKGFKCKFSHDLN 115 (359)
Q Consensus 92 v~C~fFk~G~C~kG~kCkfSHd~~ 115 (359)
-+|-||-.|.|..|..|.|-|+..
T Consensus 162 ~Icsf~v~geckRG~ec~yrhEkp 185 (377)
T KOG0153|consen 162 HICSFFVKGECKRGAECPYRHEKP 185 (377)
T ss_pred ccccceeeccccccccccccccCC
Confidence 489999999999999999999976
Done!