Query 017965
Match_columns 363
No_of_seqs 225 out of 377
Neff 4.1
Searched_HMMs 46136
Date Fri Mar 29 04:58:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/017965.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/017965hhsearch_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 2E-114 5E-119 826.8 21.0 330 1-342 1-340 (343)
2 COG5252 Uncharacterized conser 100.0 1.5E-78 3.2E-83 567.8 12.6 265 1-297 1-283 (299)
3 KOG4018 Uncharacterized conser 98.7 6.9E-09 1.5E-13 97.4 3.1 69 214-283 126-195 (215)
4 KOG1040 Polyadenylation factor 98.0 3E-06 6.6E-11 84.2 2.6 83 88-196 75-159 (325)
5 smart00356 ZnF_C3H1 zinc finge 98.0 3E-06 6.5E-11 53.8 1.6 26 88-113 2-27 (27)
6 PF00642 zf-CCCH: Zinc finger 98.0 2.4E-06 5.2E-11 55.9 0.9 26 88-113 1-27 (27)
7 COG5084 YTH1 Cleavage and poly 97.2 0.00017 3.7E-09 70.8 2.0 29 88-116 102-130 (285)
8 KOG1677 CCCH-type Zn-finger pr 96.4 0.0012 2.6E-08 64.2 1.3 72 88-196 130-203 (332)
9 KOG1492 C3H1-type Zn-finger pr 96.2 0.0023 5.1E-08 61.9 1.9 82 84-194 200-283 (377)
10 KOG4791 Uncharacterized conser 96.0 0.0022 4.8E-08 67.1 0.9 24 92-115 5-28 (667)
11 KOG1492 C3H1-type Zn-finger pr 95.5 0.0056 1.2E-07 59.3 1.4 21 84-104 161-181 (377)
12 PF14608 zf-CCCH_2: Zinc finge 95.2 0.0083 1.8E-07 36.6 0.9 18 92-111 1-18 (19)
13 PF00642 zf-CCCH: Zinc finger 95.2 0.01 2.2E-07 38.8 1.3 23 161-193 4-26 (27)
14 smart00356 ZnF_C3H1 zinc finge 94.0 0.016 3.5E-07 36.5 0.2 23 161-194 5-27 (27)
15 KOG2185 Predicted RNA-processi 93.0 0.041 9E-07 56.9 1.3 26 91-116 141-166 (486)
16 PF14608 zf-CCCH_2: Zinc finge 92.8 0.035 7.6E-07 33.9 0.3 13 179-192 6-18 (19)
17 COG5084 YTH1 Cleavage and poly 91.9 0.077 1.7E-06 52.5 1.5 30 84-113 125-158 (285)
18 PF01396 zf-C4_Topoisom: Topoi 91.2 0.12 2.6E-06 36.6 1.4 25 171-196 14-38 (39)
19 KOG2494 C3H1-type Zn-finger pr 90.8 0.11 2.3E-06 52.4 1.3 24 91-114 38-62 (331)
20 KOG1677 CCCH-type Zn-finger pr 90.7 0.12 2.7E-06 50.2 1.6 35 81-115 168-203 (332)
21 KOG4791 Uncharacterized conser 84.2 0.31 6.8E-06 51.6 0.0 23 90-113 32-54 (667)
22 KOG2185 Predicted RNA-processi 82.6 0.62 1.3E-05 48.6 1.4 25 159-194 139-163 (486)
23 KOG1595 CCCH-type Zn-finger pr 79.5 0.8 1.7E-05 48.8 1.0 26 89-114 235-260 (528)
24 PF04931 DNA_pol_phi: DNA poly 79.4 1.3 2.8E-05 48.8 2.5 6 343-348 704-709 (784)
25 KOG2333 Uncharacterized conser 77.7 1.9 4.1E-05 46.2 3.0 67 89-200 75-146 (614)
26 PF10446 DUF2457: Protein of u 75.6 2.2 4.7E-05 44.9 2.8 10 231-240 23-32 (458)
27 KOG1039 Predicted E3 ubiquitin 74.2 1.3 2.9E-05 45.0 0.8 24 91-114 9-32 (344)
28 COG5152 Uncharacterized conser 73.9 1.2 2.7E-05 42.7 0.5 30 86-115 137-167 (259)
29 KOG1039 Predicted E3 ubiquitin 69.3 2.8 6.1E-05 42.7 1.9 32 158-198 247-278 (344)
30 PF10650 zf-C3H1: Putative zin 68.1 2.4 5.1E-05 27.5 0.7 19 92-111 2-21 (23)
31 KOG1763 Uncharacterized conser 66.3 3 6.6E-05 42.0 1.4 28 158-196 90-117 (343)
32 KOG1040 Polyadenylation factor 65.7 3.9 8.5E-05 41.4 2.0 73 92-193 107-181 (325)
33 PF06524 NOA36: NOA36 protein; 64.4 4.6 9.9E-05 40.3 2.2 14 179-194 106-119 (314)
34 COG5175 MOT2 Transcriptional r 57.5 11 0.00023 39.1 3.5 28 158-196 200-227 (480)
35 KOG2202 U2 snRNP splicing fact 54.6 7.4 0.00016 38.4 1.8 49 81-130 143-191 (260)
36 KOG1999 RNA polymerase II tran 53.2 8.2 0.00018 44.1 2.0 11 265-275 22-32 (1024)
37 KOG1813 Predicted E3 ubiquitin 50.0 6.7 0.00015 39.5 0.7 29 86-114 182-211 (313)
38 PF03194 LUC7: LUC7 N_terminus 47.0 7.7 0.00017 37.7 0.6 26 157-194 27-62 (254)
39 KOG2494 C3H1-type Zn-finger pr 47.0 12 0.00026 38.1 1.9 25 158-193 35-60 (331)
40 PF04147 Nop14: Nop14-like fam 46.1 34 0.00073 38.6 5.4 7 263-269 291-297 (840)
41 KOG0699 Serine/threonine prote 43.3 19 0.00042 37.7 2.8 31 330-360 296-329 (542)
42 PF13295 DUF4077: Domain of un 42.2 13 0.00028 33.5 1.2 25 159-183 24-56 (175)
43 COG0551 TopA Zn-finger domain 42.0 14 0.0003 32.1 1.3 18 172-190 31-48 (140)
44 KOG0153 Predicted RNA-binding 39.4 11 0.00024 38.8 0.4 34 156-200 157-190 (377)
45 PF03194 LUC7: LUC7 N_terminus 39.0 17 0.00037 35.3 1.5 48 65-115 4-64 (254)
46 KOG1999 RNA polymerase II tran 38.2 19 0.0004 41.5 1.9 13 312-324 64-76 (1024)
47 KOG1595 CCCH-type Zn-finger pr 38.2 16 0.00036 39.3 1.4 25 159-194 235-259 (528)
48 KOG1832 HIV-1 Vpr-binding prot 33.4 24 0.00052 40.8 1.7 10 175-184 1269-1278(1516)
49 COG5406 Nucleosome binding fac 32.7 39 0.00084 37.8 3.1 80 117-200 727-833 (1001)
50 PF06839 zf-GRF: GRF zinc fing 31.7 25 0.00053 25.3 1.0 17 175-191 22-39 (45)
51 PF04889 Cwf_Cwc_15: Cwf15/Cwc 31.0 32 0.00069 33.5 2.0 21 328-348 136-156 (244)
52 KOG0943 Predicted ubiquitin-pr 27.8 49 0.0011 39.8 3.0 7 163-169 1566-1572(3015)
53 PF07141 Phage_term_sma: Putat 27.5 55 0.0012 30.0 2.7 50 232-282 41-96 (174)
54 KOG2051 Nonsense-mediated mRNA 26.6 1.8E+02 0.004 34.2 7.1 32 141-172 779-810 (1128)
55 KOG1189 Global transcriptional 24.5 58 0.0013 37.1 2.7 29 18-46 552-580 (960)
56 KOG2038 CAATT-binding transcri 24.4 56 0.0012 37.3 2.6 19 24-42 565-583 (988)
57 KOG0943 Predicted ubiquitin-pr 24.3 45 0.00097 40.1 1.9 22 176-199 1556-1578(3015)
58 PF05416 Peptidase_C37: Southa 22.7 28 0.00061 37.1 -0.0 20 176-197 381-401 (535)
59 PRK14973 DNA topoisomerase I; 22.1 27 0.00058 40.0 -0.3 76 167-246 646-724 (936)
60 PF00111 Fer2: 2Fe-2S iron-sul 21.4 77 0.0017 24.1 2.2 32 166-199 19-52 (78)
61 PRK07220 DNA topoisomerase I; 21.0 61 0.0013 36.1 2.1 69 173-245 652-738 (740)
No 1
>KOG1763 consensus Uncharacterized conserved protein, contains CCCH-type Zn-finger [General function prediction only]
Probab=100.00 E-value=2.3e-114 Score=826.83 Aligned_cols=330 Identities=52% Similarity=0.868 Sum_probs=275.1
Q ss_pred CCCCc----chhhHhhhhhhccccccccccCCccHHHHHHHHHHHhhcCCCCCh--hHHHHHHhHHHHHHHHHHHHhhhh
Q 017965 1 MPPKQ----SKADLAKKQKVVEDKTFGLKNKNKSKNVQKYVQSLKQSVEPRPDP--TKVAVKKKKEEEKAREKELNDLFK 74 (363)
Q Consensus 1 MPPK~----~K~~~k~k~K~ieDKTFGlKNKnksk~vQk~I~~v~~qv~~~~~~--~k~~~kkkke~ek~~~~e~~~Lfk 74 (363)
||||+ +|+.++.++|+||||||||||||+|++||+||+||++||++++.. .+.++.+++.++++ .||+.||+
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 99997 789999999999999999999999999999999999999966532 23333333333333 39999999
Q ss_pred hhhcCCCCCCCCCCCchhhhhhhcccccCCCCCccCcccchhhcchhhhcccccCCccccccccHHHHHHHHHhhhcccC
Q 017965 75 VAVTQPKVPVGVDPKSILCEFFKAGQCQKGFKCKFSHDLNIQRKGEKIDIYSDKRDGETMEDWDQETLEKVVESKKMEYN 154 (363)
Q Consensus 75 ~v~~q~kvp~gvDpKsv~C~fFk~G~C~KG~kCKFSHDl~~~rk~eK~dlY~D~R~~dtmd~WD~~kL~~Vv~~Khg~~~ 154 (363)
| .+|+||.|||||||+|+||++|+|+||++||||||+++.|+++|++||.|+|++ | ||+++|++||++||| +
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 568999999999999999999999999999999999999999999999999998 7 999999999999999 5
Q ss_pred CCCChhhhhHHHHHHHHhcccCcccccCCCCCcccccccCCCcccchhhhHHhHHhhccCCCcHHHHHHHhccCCC-CCC
Q 017965 155 QNKPTEIVCKYFLEAVEKKQYGWFWVCPNGGKECHYRHALPPGYILKSQMKALLEEESDRLPIEDEIEDQRGKLKS-TTP 233 (363)
Q Consensus 155 ~~~~t~ivCK~FleAvE~~kYGWfW~CPnGGd~C~YrH~LPpG~VLK~~~k~~~e~~~~eisLEE~IE~ER~kL~~-gTP 233 (363)
+..+|+|||||||+|||+|+|||||+|||||+.|+||||||+||||+++++++ +...+||||+|||.||++|++ +||
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 56789999999999999999999999999999999999999999999887773 478999999999999999998 999
Q ss_pred cCHHHHHHhHHHHHHHHHHHHHHHHHHHh--cCCCCcchhhhhcCCCcccCchHHhhhhhhccccchhhhccccccCCCC
Q 017965 234 MTTELFMQWKKKKMEERNAGLAAQQAERA--KNDRMSGRELFLSNASLFVDDAEAFEEYHREEEAESNEQKGKDESATSG 311 (363)
Q Consensus 234 VT~EsF~~WKkkk~~Ek~~~~~~~k~era--~k~~LSGRELFe~dp~Lf~DDd~A~d~y~re~~~d~~e~~~~~~~~~~~ 311 (363)
||+|||++||+++++++.+.+++.++.+. ++.-||||+||+++++||.||++++..|+++...++.++.....+++.+
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 99999999999999999887777555442 3333999999999999999997766666665555666666666666643
Q ss_pred CCCCCCCCCCCC-CCCCCCCCCcccChhhhhH
Q 017965 312 PSNSSGAVADSE-EILPDDDDDDELDLDELNE 342 (363)
Q Consensus 312 ~s~~~~~~~~~~-~~~~~~ddd~d~d~de~~e 342 (363)
..-.++.+--++ ...+++++++.+|++++++
T Consensus 309 ~~d~~~~dq~s~~~~ed~~~~~~~~di~e~~~ 340 (343)
T KOG1763|consen 309 IFDGSGADQQSKGAIEDYGDGNDTFDINEDNE 340 (343)
T ss_pred cccccCccccchhhhhhccCCCcccCcchhhh
Confidence 332222111111 1114556677788888776
No 2
>COG5252 Uncharacterized conserved protein, contains CCCH-type Zn-finger protein [General function prediction only]
Probab=100.00 E-value=1.5e-78 Score=567.84 Aligned_cols=265 Identities=35% Similarity=0.609 Sum_probs=214.1
Q ss_pred CCCCc--------chhhHhhhhhhccccccccccCCccHHHHHHHHHHHhhcCCCCChhHHHHHHhHHHHHHHHHHHHhh
Q 017965 1 MPPKQ--------SKADLAKKQKVVEDKTFGLKNKNKSKNVQKYVQSLKQSVEPRPDPTKVAVKKKKEEEKAREKELNDL 72 (363)
Q Consensus 1 MPPK~--------~K~~~k~k~K~ieDKTFGlKNKnksk~vQk~I~~v~~qv~~~~~~~k~~~kkkke~ek~~~~e~~~L 72 (363)
|||++ .|+.++.+.|.++||||||||||+|.+||++|+||+++....+ ...++++.+++++..+
T Consensus 1 ~~~k~~aK~~~~~gk~a~~d~~K~~~dktFGlKNKnrsTKVqa~ikQie~~~~~~~----~e~~~k~~~e~KRre~---- 72 (299)
T COG5252 1 MPPKKMAKKQQESGKKATRDMRKELEDKTFGLKNKNRSTKVQAIIKQIETLNLKEQ----LEKKEKMRMEEKRREP---- 72 (299)
T ss_pred CchhhhhhcCCCcchhhhhhhhhhhHHhhcccccccccHHHHHHHHHHHhhcchhH----HHHHHHHHHHHhhcch----
Confidence 78864 3556666889999999999999999999999999999865322 2222222222222111
Q ss_pred hhhhhcCCCCCCCCCCCchhhhhhhcccccCCCCCccCcccchhhcchhhhcccccCCc---cccccccHHHHHHHHHhh
Q 017965 73 FKVAVTQPKVPVGVDPKSILCEFFKAGQCQKGFKCKFSHDLNIQRKGEKIDIYSDKRDG---ETMEDWDQETLEKVVESK 149 (363)
Q Consensus 73 fk~v~~q~kvp~gvDpKsv~C~fFk~G~C~KG~kCKFSHDl~~~rk~eK~dlY~D~R~~---dtmd~WD~~kL~~Vv~~K 149 (363)
..|.|+.|||||+++|+.|++|.|.+|..|+|+|++++.|+++|+|||+|.|++ .+|+.
T Consensus 73 -----ekq~iragvdpK~~vcalF~~~~c~kg~~ckF~h~~ee~r~~eK~DLYsDvRd~~ed~pl~k------------- 134 (299)
T COG5252 73 -----EKQVIRAGVDPKTVVCALFLNKTCAKGDACKFAHGKEEARKTEKPDLYSDVRDKEEDVPLGK------------- 134 (299)
T ss_pred -----hhhhhccccCchhHHHHHhccCccccCchhhhhcchHHHhhhcccchhhhhhhhhccCCccc-------------
Confidence 116899999999999999999999999999999999999999999999999986 36651
Q ss_pred hcccCCCCChhhhhHHHHHHHHhcccCcccccCCCCCcccccccCCCcccchhhhHHhHHhhccCCCcHHHHHHHhccCC
Q 017965 150 KMEYNQNKPTEIVCKYFLEAVEKKQYGWFWVCPNGGKECHYRHALPPGYILKSQMKALLEEESDRLPIEDEIEDQRGKLK 229 (363)
Q Consensus 150 hg~~~~~~~t~ivCK~FleAvE~~kYGWfW~CPnGGd~C~YrH~LPpG~VLK~~~k~~~e~~~~eisLEE~IE~ER~kL~ 229 (363)
.+.++|++||+|||+|+|+|+|||||.|||||+.|+|+|+||.||||++++++ .....+||||+|||.||+.|+
T Consensus 135 ----rP~intd~VCkffieA~e~GkYgw~W~CPng~~~C~y~H~Lp~GyVLsrdk~K--d~tq~eislEefIE~eR~~L~ 208 (299)
T COG5252 135 ----RPWINTDRVCKFFIEAMESGKYGWGWTCPNGNMRCSYIHKLPDGYVLSRDKIK--DSTQVEISLEEFIELERQSLP 208 (299)
T ss_pred ----CCCCChhHHHHHHHHHHhcCCccceeeCCCCCceeeeeeccCccceecccccc--ccccccccHHHHHHHHhccCC
Confidence 26788999999999999999999999999999999999999999999999998 456889999999999999998
Q ss_pred C-CCCcCHHHHHHhHHHHHHHHHHHHHHHHHHH--hcCCCCcch-hhhhcCCCcccCchH---Hhhhhhhccccc
Q 017965 230 S-TTPMTTELFMQWKKKKMEERNAGLAAQQAER--AKNDRMSGR-ELFLSNASLFVDDAE---AFEEYHREEEAE 297 (363)
Q Consensus 230 ~-gTPVT~EsF~~WKkkk~~Ek~~~~~~~k~er--a~k~~LSGR-ELFe~dp~Lf~DDd~---A~d~y~re~~~d 297 (363)
+ +||||.|+|.+|+..++......++.....| .+...+||+ ++|+.+.++|-||.+ +.|..++-+...
T Consensus 209 ~~LTP~TeenFk~Wkd~~~~r~lkq~ee~~s~Rk~~gr~~~~k~~e~FEt~~d~~~ddv~~ge~wD~te~~~~~~ 283 (299)
T COG5252 209 EKLTPLTEENFKEWKDGRRLRILKQKEEKESARKVKGRATGTKGVELFETRRDLFKDDVEAGEEWDYTERCYSES 283 (299)
T ss_pred CcCCcccHHHHHHhccchHHHHHHHHHHHHhcccchhhhhhccchhhhhcccccccccccccccccHHHHHHHhh
Confidence 8 9999999999999988877654444333333 122345666 999999999988854 456555554333
No 3
>KOG4018 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=98.71 E-value=6.9e-09 Score=97.37 Aligned_cols=69 Identities=29% Similarity=0.359 Sum_probs=53.5
Q ss_pred CCCcHHHHHHHhccCCCCCCcCHHHHHHhHHHHHHHHHHHHHHHHH-HHhcCCCCcchhhhhcCCCcccCc
Q 017965 214 RLPIEDEIEDQRGKLKSTTPMTTELFMQWKKKKMEERNAGLAAQQA-ERAKNDRMSGRELFLSNASLFVDD 283 (363)
Q Consensus 214 eisLEE~IE~ER~kL~~gTPVT~EsF~~WKkkk~~Ek~~~~~~~k~-era~k~~LSGRELFe~dp~Lf~DD 283 (363)
++-.++.-+.||+++ +|||||++||++||.+|.++....+.+.+. ..+..+++|||+||+.++.+-.++
T Consensus 126 e~~~~~~ee~e~~kf-hgt~VT~esfl~Wk~~fe~el~~~~~k~~~~~~~~~~k~tgRQ~f~~d~~~~~~~ 195 (215)
T KOG4018|consen 126 EQEAREAEEEERKKF-HGTPVTLESFLEWKLKFEEELLQIKAKVKKRLQALAKKLTGRQLFETDHKGDRSD 195 (215)
T ss_pred HHHHHHHHHHhhccc-cCCceehhhhHHHHHhhhhhhhhhhhhhhhHHHHHhhhHHHHHHHHhcccCChhh
Confidence 344666668888888 899999999999999999998444444333 345678999999999998876544
No 4
>KOG1040 consensus Polyadenylation factor I complex, subunit, Yth1 (CPSF subunit) [RNA processing and modification]
Probab=97.99 E-value=3e-06 Score=84.18 Aligned_cols=83 Identities=20% Similarity=0.531 Sum_probs=54.2
Q ss_pred CCchhhhhhhcccccCCCCCccCcccchhhc--chhhhcccccCCccccccccHHHHHHHHHhhhcccCCCCChhhhhHH
Q 017965 88 PKSILCEFFKAGQCQKGFKCKFSHDLNIQRK--GEKIDIYSDKRDGETMEDWDQETLEKVVESKKMEYNQNKPTEIVCKY 165 (363)
Q Consensus 88 pKsv~C~fFk~G~C~KG~kCKFSHDl~~~rk--~eK~dlY~D~R~~dtmd~WD~~kL~~Vv~~Khg~~~~~~~t~ivCK~ 165 (363)
-.+|||.||..|.|.+|+.|-|+|+..+.+. +-.-++|.+-..... -.=+|+.. -+--..|++
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 3689999999999999999999998765443 444444444332100 00013311 123456877
Q ss_pred HHHHHHhcccCcccccCCCCCcccccccCCC
Q 017965 166 FLEAVEKKQYGWFWVCPNGGKECHYRHALPP 196 (363)
Q Consensus 166 FleAvE~~kYGWfW~CPnGGd~C~YrH~LPp 196 (363)
|-+ ..|++| .+|+|||.+++
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=97.99 E-value=3e-06 Score=53.82 Aligned_cols=26 Identities=54% Similarity=1.065 Sum_probs=23.8
Q ss_pred CCchhhhhhhcccccCCCCCccCccc
Q 017965 88 PKSILCEFFKAGQCQKGFKCKFSHDL 113 (363)
Q Consensus 88 pKsv~C~fFk~G~C~KG~kCKFSHDl 113 (363)
.|+++|.+|+.|.|..|..|.|+|++
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=97.97 E-value=2.4e-06 Score=55.89 Aligned_cols=26 Identities=46% Similarity=0.934 Sum_probs=20.9
Q ss_pred CCchhhhhhhc-ccccCCCCCccCccc
Q 017965 88 PKSILCEFFKA-GQCQKGFKCKFSHDL 113 (363)
Q Consensus 88 pKsv~C~fFk~-G~C~KG~kCKFSHDl 113 (363)
||+.+|.||.+ |.|..|++|+|+|+.
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 68899999988 999999999999973
No 7
>COG5084 YTH1 Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]
Probab=97.18 E-value=0.00017 Score=70.80 Aligned_cols=29 Identities=38% Similarity=1.104 Sum_probs=26.8
Q ss_pred CCchhhhhhhcccccCCCCCccCcccchh
Q 017965 88 PKSILCEFFKAGQCQKGFKCKFSHDLNIQ 116 (363)
Q Consensus 88 pKsv~C~fFk~G~C~KG~kCKFSHDl~~~ 116 (363)
--+|+|.||..|.|.+|..|-|+|..++.
T Consensus 102 ~s~V~c~~~~~g~c~s~~~c~~lh~~d~~ 130 (285)
T COG5084 102 SSSVVCKFFLRGLCKSGFSCEFLHEYDLR 130 (285)
T ss_pred cCCcccchhccccCcCCCccccccCCCcc
Confidence 56899999999999999999999999873
No 8
>KOG1677 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=96.43 E-value=0.0012 Score=64.15 Aligned_cols=72 Identities=29% Similarity=0.587 Sum_probs=50.0
Q ss_pred CCchhhhhhh-cccccC-CCCCccCcccchhhcchhhhcccccCCccccccccHHHHHHHHHhhhcccCCCCChhhhhHH
Q 017965 88 PKSILCEFFK-AGQCQK-GFKCKFSHDLNIQRKGEKIDIYSDKRDGETMEDWDQETLEKVVESKKMEYNQNKPTEIVCKY 165 (363)
Q Consensus 88 pKsv~C~fFk-~G~C~K-G~kCKFSHDl~~~rk~eK~dlY~D~R~~dtmd~WD~~kL~~Vv~~Khg~~~~~~~t~ivCK~ 165 (363)
.++.+|.+|. .|.|.- |.+|+|.|-..-.|-.. ..+... +....-.+.|.+
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 99999999876533110 001111 222345678999
Q ss_pred HHHHHHhcccCcccccCCCCCcccccccCCC
Q 017965 166 FLEAVEKKQYGWFWVCPNGGKECHYRHALPP 196 (363)
Q Consensus 166 FleAvE~~kYGWfW~CPnGGd~C~YrH~LPp 196 (363)
|+. +..||.| ..|+|.|-.+.
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 975 3799999 99999998773
No 9
>KOG1492 consensus C3H1-type Zn-finger protein [General function prediction only]
Probab=96.20 E-value=0.0023 Score=61.87 Aligned_cols=82 Identities=28% Similarity=0.634 Sum_probs=55.0
Q ss_pred CCCCCCchhhhhhh-cccccCCCCCccCcccchhhcchhhhcccccCCccccccccHHHHHHHHHhhhcccCCCCC-hhh
Q 017965 84 VGVDPKSILCEFFK-AGQCQKGFKCKFSHDLNIQRKGEKIDIYSDKRDGETMEDWDQETLEKVVESKKMEYNQNKP-TEI 161 (363)
Q Consensus 84 ~gvDpKsv~C~fFk-~G~C~KG~kCKFSHDl~~~rk~eK~dlY~D~R~~dtmd~WD~~kL~~Vv~~Khg~~~~~~~-t~i 161 (363)
.|--|..|.|.||- +|.|.||..|+|-|.++...-+.| |...|....-| .+-.|. -.| .-.
T Consensus 200 vgnspsavycryynangicgkgaacrfvheptrkticpk---flngrcnkaed----------cnlshe----ldprrip 262 (377)
T KOG1492|consen 200 VGNSPSAVYCRYYNANGICGKGAACRFVHEPTRKTICPK---FLNGRCNKAED----------CNLSHE----LDPRRIP 262 (377)
T ss_pred hCCCCceeEEEEecCCCcccCCceeeeeccccccccChH---HhcCccCchhc----------CCcccc----cCccccc
Confidence 48899999999996 579999999999999875333333 55566431000 000111 113 334
Q ss_pred hhHHHHHHHHhcccCcccccCCCCCcccccccC
Q 017965 162 VCKYFLEAVEKKQYGWFWVCPNGGKECHYRHAL 194 (363)
Q Consensus 162 vCK~FleAvE~~kYGWfW~CPnGGd~C~YrH~L 194 (363)
.|+|||- ..|.| .+|+|.|.-
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 499999964
No 10
>KOG4791 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.04 E-value=0.0022 Score=67.10 Aligned_cols=24 Identities=38% Similarity=0.676 Sum_probs=21.6
Q ss_pred hhhhhhcccccCCCCCccCcccch
Q 017965 92 LCEFFKAGQCQKGFKCKFSHDLNI 115 (363)
Q Consensus 92 ~C~fFk~G~C~KG~kCKFSHDl~~ 115 (363)
-|.||.+-.|-+|+.|-|+|.-+.
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=95.54 E-value=0.0056 Score=59.34 Aligned_cols=21 Identities=33% Similarity=0.344 Sum_probs=12.9
Q ss_pred CCCCCCchhhhhhhcccccCC
Q 017965 84 VGVDPKSILCEFFKAGQCQKG 104 (363)
Q Consensus 84 ~gvDpKsv~C~fFk~G~C~KG 104 (363)
.||--...+--.--.|+|.|.
T Consensus 161 tgvsdtkwlefvsakgqcpky 181 (377)
T KOG1492|consen 161 TGVSDTKWLEFVSAKGQCPKY 181 (377)
T ss_pred cccccchhhhhhhhcCCCCce
Confidence 566555455545566888875
No 12
>PF14608 zf-CCCH_2: Zinc finger C-x8-C-x5-C-x3-H type
Probab=95.19 E-value=0.0083 Score=36.62 Aligned_cols=18 Identities=44% Similarity=0.973 Sum_probs=16.4
Q ss_pred hhhhhhcccccCCCCCccCc
Q 017965 92 LCEFFKAGQCQKGFKCKFSH 111 (363)
Q Consensus 92 ~C~fFk~G~C~KG~kCKFSH 111 (363)
+|.||.+ |..|+.|.|+|
T Consensus 1 ~Ck~~~~--C~~~~~C~f~H 18 (19)
T PF14608_consen 1 PCKFGPN--CTNGDNCPFSH 18 (19)
T ss_pred CCcCcCC--CCCCCcCccCC
Confidence 5899877 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=95.18 E-value=0.01 Score=38.80 Aligned_cols=23 Identities=30% Similarity=1.024 Sum_probs=16.8
Q ss_pred hhhHHHHHHHHhcccCcccccCCCCCccccccc
Q 017965 161 IVCKYFLEAVEKKQYGWFWVCPNGGKECHYRHA 193 (363)
Q Consensus 161 ivCK~FleAvE~~kYGWfW~CPnGGd~C~YrH~ 193 (363)
.+|++|+. . ..||.| +.|.|.|.
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=94.02 E-value=0.016 Score=36.48 Aligned_cols=23 Identities=39% Similarity=1.031 Sum_probs=18.7
Q ss_pred hhhHHHHHHHHhcccCcccccCCCCCcccccccC
Q 017965 161 IVCKYFLEAVEKKQYGWFWVCPNGGKECHYRHAL 194 (363)
Q Consensus 161 ivCK~FleAvE~~kYGWfW~CPnGGd~C~YrH~L 194 (363)
.+|++|+. ..|+.| ++|.|.|.+
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=93.03 E-value=0.041 Score=56.88 Aligned_cols=26 Identities=42% Similarity=1.026 Sum_probs=24.4
Q ss_pred hhhhhhhcccccCCCCCccCcccchh
Q 017965 91 ILCEFFKAGQCQKGFKCKFSHDLNIQ 116 (363)
Q Consensus 91 v~C~fFk~G~C~KG~kCKFSHDl~~~ 116 (363)
.+|.||..|.|-=|..|+|||-+.|.
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=92.83 E-value=0.035 Score=33.86 Aligned_cols=13 Identities=38% Similarity=0.961 Sum_probs=11.6
Q ss_pred cccCCCCCcccccc
Q 017965 179 WVCPNGGKECHYRH 192 (363)
Q Consensus 179 W~CPnGGd~C~YrH 192 (363)
=.|+|| ++|.|+|
T Consensus 6 ~~C~~~-~~C~f~H 18 (19)
T PF14608_consen 6 PNCTNG-DNCPFSH 18 (19)
T ss_pred CCCCCC-CcCccCC
Confidence 369998 9999999
No 17
>COG5084 YTH1 Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]
Probab=91.91 E-value=0.077 Score=52.50 Aligned_cols=30 Identities=33% Similarity=0.551 Sum_probs=26.1
Q ss_pred CCCCCCc---hhhhhh-hcccccCCCCCccCccc
Q 017965 84 VGVDPKS---ILCEFF-KAGQCQKGFKCKFSHDL 113 (363)
Q Consensus 84 ~gvDpKs---v~C~fF-k~G~C~KG~kCKFSHDl 113 (363)
.|.|+.+ ..|.|| ..|.|.-|..|.++|-+
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 3666665 789999 99999999999999986
No 18
>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=91.18 E-value=0.12 Score=36.65 Aligned_cols=25 Identities=36% Similarity=0.715 Sum_probs=22.1
Q ss_pred HhcccCcccccCCCCCcccccccCCC
Q 017965 171 EKKQYGWFWVCPNGGKECHYRHALPP 196 (363)
Q Consensus 171 E~~kYGWfW~CPnGGd~C~YrH~LPp 196 (363)
..+++|.||.|.|- ..|.|...||+
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 78999998886
No 19
>KOG2494 consensus C3H1-type Zn-finger protein [Transcription]
Probab=90.85 E-value=0.11 Score=52.41 Aligned_cols=24 Identities=33% Similarity=0.800 Sum_probs=21.9
Q ss_pred hhhhhhhcccccCCCC-CccCcccc
Q 017965 91 ILCEFFKAGQCQKGFK-CKFSHDLN 114 (363)
Q Consensus 91 v~C~fFk~G~C~KG~k-CKFSHDl~ 114 (363)
-||.=|..|.|..|+. |||-|-..
T Consensus 38 eVCReF~rn~C~R~d~~CkfaHP~~ 62 (331)
T KOG2494|consen 38 EVCREFLRNTCSRGDRECKFAHPPK 62 (331)
T ss_pred HHHHHHHhccccCCCccccccCCCC
Confidence 3899999999999999 99999864
No 20
>KOG1677 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=90.72 E-value=0.12 Score=50.20 Aligned_cols=35 Identities=31% Similarity=0.562 Sum_probs=30.5
Q ss_pred CCCCCCCCCchhhhhhhc-ccccCCCCCccCcccch
Q 017965 81 KVPVGVDPKSILCEFFKA-GQCQKGFKCKFSHDLNI 115 (363)
Q Consensus 81 kvp~gvDpKsv~C~fFk~-G~C~KG~kCKFSHDl~~ 115 (363)
.+-.....||++|.+|.. |.|--|.+|+|-|-..-
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 455677899999999998 99999999999998763
No 21
>KOG4791 consensus Uncharacterized conserved protein [Function unknown]
Probab=84.24 E-value=0.31 Score=51.64 Aligned_cols=23 Identities=22% Similarity=0.866 Sum_probs=18.0
Q ss_pred chhhhhhhcccccCCCCCccCccc
Q 017965 90 SILCEFFKAGQCQKGFKCKFSHDL 113 (363)
Q Consensus 90 sv~C~fFk~G~C~KG~kCKFSHDl 113 (363)
.+.|.||..|.|-+- -|.|-|.-
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 89999863
No 22
>KOG2185 consensus Predicted RNA-processing protein, contains G-patch domain [RNA processing and modification]
Probab=82.61 E-value=0.62 Score=48.55 Aligned_cols=25 Identities=40% Similarity=0.902 Sum_probs=22.2
Q ss_pred hhhhhHHHHHHHHhcccCcccccCCCCCcccccccC
Q 017965 159 TEIVCKYFLEAVEKKQYGWFWVCPNGGKECHYRHAL 194 (363)
Q Consensus 159 t~ivCK~FleAvE~~kYGWfW~CPnGGd~C~YrH~L 194 (363)
.-.+|+|||+ ..|.+| .+|+|.|-+
T Consensus 139 sMkpC~ffLe----------g~CRF~-enCRfSHG~ 163 (486)
T KOG2185|consen 139 SMKPCKFFLE----------GRCRFG-ENCRFSHGL 163 (486)
T ss_pred hhccchHhhc----------cccccC-cccccccCc
Confidence 5789999999 699998 889999955
No 23
>KOG1595 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=79.46 E-value=0.8 Score=48.81 Aligned_cols=26 Identities=31% Similarity=0.825 Sum_probs=24.0
Q ss_pred CchhhhhhhcccccCCCCCccCcccc
Q 017965 89 KSILCEFFKAGQCQKGFKCKFSHDLN 114 (363)
Q Consensus 89 Ksv~C~fFk~G~C~KG~kCKFSHDl~ 114 (363)
-.++|-=|++|.|.+|+.|-|.|-..
T Consensus 235 s~tpCPefrkG~C~rGD~CEyaHgvf 260 (528)
T KOG1595|consen 235 SSTPCPEFRKGSCERGDSCEYAHGVF 260 (528)
T ss_pred cCccCcccccCCCCCCCcccccccee
Confidence 57899999999999999999999865
No 24
>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=79.38 E-value=1.3 Score=48.84 Aligned_cols=6 Identities=17% Similarity=0.539 Sum_probs=2.4
Q ss_pred HHhhhh
Q 017965 343 LEASLS 348 (363)
Q Consensus 343 ~e~~~~ 348 (363)
+...|.
T Consensus 704 ~~~~l~ 709 (784)
T PF04931_consen 704 FRSALA 709 (784)
T ss_pred HHHHHH
Confidence 343333
No 25
>KOG2333 consensus Uncharacterized conserved protein [General function prediction only]
Probab=77.65 E-value=1.9 Score=46.18 Aligned_cols=67 Identities=28% Similarity=0.572 Sum_probs=47.7
Q ss_pred Cchhhhhhhcc---cccCCCCCccCcccchhhcchhhhcccccCCccccccccHHHHHHHHHhhhcccCCCCChhhhhHH
Q 017965 89 KSILCEFFKAG---QCQKGFKCKFSHDLNIQRKGEKIDIYSDKRDGETMEDWDQETLEKVVESKKMEYNQNKPTEIVCKY 165 (363)
Q Consensus 89 Ksv~C~fFk~G---~C~KG~kCKFSHDl~~~rk~eK~dlY~D~R~~dtmd~WD~~kL~~Vv~~Khg~~~~~~~t~ivCK~ 165 (363)
.+.||----+| .|.=|++|+|-||+.. |.-+. .- --..-|-+
T Consensus 75 ~n~LCPsli~g~~~~C~f~d~Crf~HDi~a---------yLatK--------------------~~------Dig~~Cp~ 119 (614)
T KOG2333|consen 75 QNRLCPSLIQGDISKCSFGDNCRFVHDIEA---------YLATK--------------------AP------DIGPSCPV 119 (614)
T ss_pred hhccChHhhcCCCccCcccccccccccHHH---------HHhcc--------------------Cc------ccCCccce
Confidence 77888888888 7999999999999764 32111 10 12245877
Q ss_pred HHHHHHhcccCcccccCCCCCccccc--ccCCCcccc
Q 017965 166 FLEAVEKKQYGWFWVCPNGGKECHYR--HALPPGYIL 200 (363)
Q Consensus 166 FleAvE~~kYGWfW~CPnGGd~C~Yr--H~LPpG~VL 200 (363)
|- -+..||.| -+|+|- |--+.|-.|
T Consensus 120 f~---------s~G~Cp~G-~~CRFl~aHld~~g~~~ 146 (614)
T KOG2333|consen 120 FE---------SLGFCPYG-FKCRFLGAHLDIEGNNL 146 (614)
T ss_pred ee---------ccccCCcc-ceeehhhcccCccccch
Confidence 73 34699998 999986 777777654
No 26
>PF10446 DUF2457: Protein of unknown function (DUF2457); InterPro: IPR018853 This entry represents a family of uncharacterised proteins.
Probab=75.61 E-value=2.2 Score=44.89 Aligned_cols=10 Identities=10% Similarity=0.052 Sum_probs=6.6
Q ss_pred CCCcCHHHHH
Q 017965 231 TTPMTTELFM 240 (363)
Q Consensus 231 gTPVT~EsF~ 240 (363)
.++||+.--+
T Consensus 23 ~~KlTi~Dtl 32 (458)
T PF10446_consen 23 KRKLTINDTL 32 (458)
T ss_pred cccccHHHHH
Confidence 7777776544
No 27
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=74.25 E-value=1.3 Score=44.98 Aligned_cols=24 Identities=33% Similarity=0.988 Sum_probs=23.5
Q ss_pred hhhhhhhcccccCCCCCccCcccc
Q 017965 91 ILCEFFKAGQCQKGFKCKFSHDLN 114 (363)
Q Consensus 91 v~C~fFk~G~C~KG~kCKFSHDl~ 114 (363)
++|.||--|.|.-|..|+|||.+.
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 28
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=73.94 E-value=1.2 Score=42.70 Aligned_cols=30 Identities=37% Similarity=0.722 Sum_probs=25.3
Q ss_pred CCCCchhhhhhhc-ccccCCCCCccCcccch
Q 017965 86 VDPKSILCEFFKA-GQCQKGFKCKFSHDLNI 115 (363)
Q Consensus 86 vDpKsv~C~fFk~-G~C~KG~kCKFSHDl~~ 115 (363)
+|-.-.||.=||+ |-|.-|+.|||+|+-+.
T Consensus 137 iD~qpdVCKdyk~TGYCGYGDsCKflH~R~D 167 (259)
T COG5152 137 IDTQPDVCKDYKETGYCGYGDSCKFLHDRSD 167 (259)
T ss_pred eecCcccccchhhcccccCCchhhhhhhhhh
Confidence 4666679998886 79999999999999664
No 29
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=69.26 E-value=2.8 Score=42.67 Aligned_cols=32 Identities=44% Similarity=0.810 Sum_probs=25.9
Q ss_pred ChhhhhHHHHHHHHhcccCcccccCCCCCcccccccCCCcc
Q 017965 158 PTEIVCKYFLEAVEKKQYGWFWVCPNGGKECHYRHALPPGY 198 (363)
Q Consensus 158 ~t~ivCK~FleAvE~~kYGWfW~CPnGGd~C~YrH~LPpG~ 198 (363)
.....|+||- +++ ..||.| ..|-|+|.+|-|-
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 9999999999764
No 30
>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=68.09 E-value=2.4 Score=27.54 Aligned_cols=19 Identities=37% Similarity=0.966 Sum_probs=16.9
Q ss_pred hhhhhhcc-cccCCCCCccCc
Q 017965 92 LCEFFKAG-QCQKGFKCKFSH 111 (363)
Q Consensus 92 ~C~fFk~G-~C~KG~kCKFSH 111 (363)
+|.|...| .|+. ..|.|.|
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 6899998
No 31
>KOG1763 consensus Uncharacterized conserved protein, contains CCCH-type Zn-finger [General function prediction only]
Probab=66.34 E-value=3 Score=42.02 Aligned_cols=28 Identities=32% Similarity=0.941 Sum_probs=24.7
Q ss_pred ChhhhhHHHHHHHHhcccCcccccCCCCCcccccccCCC
Q 017965 158 PTEIVCKYFLEAVEKKQYGWFWVCPNGGKECHYRHALPP 196 (363)
Q Consensus 158 ~t~ivCK~FleAvE~~kYGWfW~CPnGGd~C~YrH~LPp 196 (363)
|-.+||-||.+ ..|--| +.|+|.|-|--
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 67899999988 589988 99999999864
No 32
>KOG1040 consensus Polyadenylation factor I complex, subunit, Yth1 (CPSF subunit) [RNA processing and modification]
Probab=65.69 E-value=3.9 Score=41.36 Aligned_cols=73 Identities=23% Similarity=0.504 Sum_probs=46.7
Q ss_pred hhhhh-hcccccCCCCCccCcccchhhcchhhhcccccCCccccccccHHHHHHHHHhhhcccCCCCC-hhhhhHHHHHH
Q 017965 92 LCEFF-KAGQCQKGFKCKFSHDLNIQRKGEKIDIYSDKRDGETMEDWDQETLEKVVESKKMEYNQNKP-TEIVCKYFLEA 169 (363)
Q Consensus 92 ~C~fF-k~G~C~KG~kCKFSHDl~~~rk~eK~dlY~D~R~~dtmd~WD~~kL~~Vv~~Khg~~~~~~~-t~ivCK~FleA 169 (363)
.|.|| .-|-|+.|..|-|.|--- +.+..+...|...-.. +|......+ -..+|..++.
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 45555 567999999999999752 3345555555544321 222222222 3377877766
Q ss_pred HHhcccCcccccCCCCCccccccc
Q 017965 170 VEKKQYGWFWVCPNGGKECHYRHA 193 (363)
Q Consensus 170 vE~~kYGWfW~CPnGGd~C~YrH~ 193 (363)
..||-|..-|.|-|-
T Consensus 167 ---------gfC~~g~q~c~~~hp 181 (325)
T KOG1040|consen 167 ---------GFCPKGPQRCDMLHP 181 (325)
T ss_pred ---------hhccCCCCcccccCC
Confidence 589999777999873
No 33
>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=64.39 E-value=4.6 Score=40.27 Aligned_cols=14 Identities=43% Similarity=1.111 Sum_probs=9.5
Q ss_pred cccCCCCCcccccccC
Q 017965 179 WVCPNGGKECHYRHAL 194 (363)
Q Consensus 179 W~CPnGGd~C~YrH~L 194 (363)
|+|-. .+|.-.|+-
T Consensus 106 wvCHg--rkCl~~HaC 119 (314)
T PF06524_consen 106 WVCHG--RKCLSTHAC 119 (314)
T ss_pred heecc--ccccccccc
Confidence 88865 577777753
No 34
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=57.51 E-value=11 Score=39.07 Aligned_cols=28 Identities=39% Similarity=0.783 Sum_probs=22.8
Q ss_pred ChhhhhHHHHHHHHhcccCcccccCCCCCcccccccCCC
Q 017965 158 PTEIVCKYFLEAVEKKQYGWFWVCPNGGKECHYRHALPP 196 (363)
Q Consensus 158 ~t~ivCK~FleAvE~~kYGWfW~CPnGGd~C~YrH~LPp 196 (363)
.|..-|-+||.- -+|||+ +|||-|-.-|
T Consensus 200 GTTKYCtsYLRn---------~~CpNp--~CMyLHEpg~ 227 (480)
T COG5175 200 GTTKYCTSYLRN---------AVCPNP--DCMYLHEPGP 227 (480)
T ss_pred CchHHHHHHHcC---------CCCCCC--CeeeecCCCc
Confidence 477889999872 699997 8999997654
No 35
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=54.64 E-value=7.4 Score=38.40 Aligned_cols=49 Identities=22% Similarity=0.548 Sum_probs=39.9
Q ss_pred CCCCCCCCCchhhhhhhcccccCCCCCccCcccchhhcchhhhcccccCC
Q 017965 81 KVPVGVDPKSILCEFFKAGQCQKGFKCKFSHDLNIQRKGEKIDIYSDKRD 130 (363)
Q Consensus 81 kvp~gvDpKsv~C~fFk~G~C~KG~kCKFSHDl~~~rk~eK~dlY~D~R~ 130 (363)
-++.=.|++.-.|.+|--+.|..|..|.|-|-..+.|- -.+.||+..|-
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 44556899999999999999999999999999877654 34577776653
No 36
>KOG1999 consensus RNA polymerase II transcription elongation factor DSIF/SUPT5H/SPT5 [Transcription]
Probab=53.18 E-value=8.2 Score=44.15 Aligned_cols=11 Identities=18% Similarity=0.117 Sum_probs=5.6
Q ss_pred CCCcchhhhhc
Q 017965 265 DRMSGRELFLS 275 (363)
Q Consensus 265 ~~LSGRELFe~ 275 (363)
.+.+|+.=|..
T Consensus 22 r~~~~~s~~~~ 32 (1024)
T KOG1999|consen 22 RKQSGESNSPA 32 (1024)
T ss_pred ccccccccCCC
Confidence 45566654443
No 37
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=50.03 E-value=6.7 Score=39.51 Aligned_cols=29 Identities=38% Similarity=0.765 Sum_probs=24.8
Q ss_pred CCCCchhhhhhhc-ccccCCCCCccCcccc
Q 017965 86 VDPKSILCEFFKA-GQCQKGFKCKFSHDLN 114 (363)
Q Consensus 86 vDpKsv~C~fFk~-G~C~KG~kCKFSHDl~ 114 (363)
.|---.+|.=|+. |-|..|+.|||.||-.
T Consensus 182 ~d~qpDicKdykeTgycg~gdSckFlh~r~ 211 (313)
T KOG1813|consen 182 IDYQPDICKDYKETGYCGYGDSCKFLHDRS 211 (313)
T ss_pred eecCchhhhhhHhhCcccccchhhhhhhhh
Confidence 4666779998886 7999999999999965
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=47.02 E-value=7.7 Score=37.68 Aligned_cols=26 Identities=42% Similarity=0.754 Sum_probs=20.7
Q ss_pred CChhhhhHHHHHHHHhcccCcccccCC----------CCCcccccccC
Q 017965 157 KPTEIVCKYFLEAVEKKQYGWFWVCPN----------GGKECHYRHAL 194 (363)
Q Consensus 157 ~~t~ivCK~FleAvE~~kYGWfW~CPn----------GGd~C~YrH~L 194 (363)
.+..-||||||- ..||+ | .|.+.|..
T Consensus 27 f~D~~VCk~~L~----------g~CPhdLF~nTK~DLG--~C~kiHd~ 62 (254)
T PF03194_consen 27 FTDPDVCKYFLV----------GFCPHDLFVNTKSDLG--PCPKIHDE 62 (254)
T ss_pred CCCcccCHHHHh----------CCCcHHHHhhcccccc--hhhhhcCH
Confidence 356889999998 58998 4 79988853
No 39
>KOG2494 consensus C3H1-type Zn-finger protein [Transcription]
Probab=47.01 E-value=12 Score=38.09 Aligned_cols=25 Identities=36% Similarity=0.800 Sum_probs=21.4
Q ss_pred ChhhhhHHHHHHHHhcccCcccccCCCCCc-cccccc
Q 017965 158 PTEIVCKYFLEAVEKKQYGWFWVCPNGGKE-CHYRHA 193 (363)
Q Consensus 158 ~t~ivCK~FleAvE~~kYGWfW~CPnGGd~-C~YrH~ 193 (363)
-|+-||+=||- -+|--| |. |+|+|=
T Consensus 35 l~~eVCReF~r----------n~C~R~-d~~CkfaHP 60 (331)
T KOG2494|consen 35 LTLEVCREFLR----------NTCSRG-DRECKFAHP 60 (331)
T ss_pred hHHHHHHHHHh----------ccccCC-CccccccCC
Confidence 48999999998 589988 65 999993
No 40
>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=46.07 E-value=34 Score=38.61 Aligned_cols=7 Identities=43% Similarity=0.743 Sum_probs=3.7
Q ss_pred cCCCCcc
Q 017965 263 KNDRMSG 269 (363)
Q Consensus 263 ~k~~LSG 269 (363)
+..+|.|
T Consensus 291 Rl~RM~g 297 (840)
T PF04147_consen 291 RLKRMRG 297 (840)
T ss_pred HHhhhcc
Confidence 3455666
No 41
>KOG0699 consensus Serine/threonine protein phosphatase [Signal transduction mechanisms]
Probab=43.31 E-value=19 Score=37.74 Aligned_cols=31 Identities=32% Similarity=0.394 Sum_probs=18.7
Q ss_pred CCCcccChhhhhHHHhhhhcc---cccccCCCCC
Q 017965 330 DDDDELDLDELNELEASLSRT---SIQICEPGIE 360 (363)
Q Consensus 330 ddd~d~d~de~~e~e~~~~~~---~~~~~e~~~~ 360 (363)
|+|.+.+.|++...|.+++-. +..+.+||..
T Consensus 296 Ded~e~e~ddEE~~e~~map~~~~~~g~EePG~D 329 (542)
T KOG0699|consen 296 DEDAEDEQDDEEMVEGSMAPLLLGSGGAEEPGED 329 (542)
T ss_pred ccccccccchhhhhhhcccccccccccCcCCCCC
Confidence 333444444555566666665 7778888864
No 42
>PF13295 DUF4077: Domain of unknown function (DUF4077)
Probab=42.19 E-value=13 Score=33.48 Aligned_cols=25 Identities=36% Similarity=0.960 Sum_probs=21.9
Q ss_pred hhhhhHHHHHHHHhcccCc--------ccccCC
Q 017965 159 TEIVCKYFLEAVEKKQYGW--------FWVCPN 183 (363)
Q Consensus 159 t~ivCK~FleAvE~~kYGW--------fW~CPn 183 (363)
--.+|-|||--|--|-||+ ||+|.-
T Consensus 24 fiticsfflgiiaigyygyifteraiafwvcgi 56 (175)
T PF13295_consen 24 FITICSFFLGIIAIGYYGYIFTERAIAFWVCGI 56 (175)
T ss_pred HHHHHHHHHHHHHHhhhheeehhHHHHHHhhch
Confidence 4568999999999999998 899964
No 43
>COG0551 TopA Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]
Probab=42.00 E-value=14 Score=32.12 Aligned_cols=18 Identities=39% Similarity=0.827 Sum_probs=16.1
Q ss_pred hcccCcccccCCCCCcccc
Q 017965 172 KKQYGWFWVCPNGGKECHY 190 (363)
Q Consensus 172 ~~kYGWfW~CPnGGd~C~Y 190 (363)
.++||||+.|-|. .+|.|
T Consensus 31 ~~~~g~f~gCs~y-P~C~~ 48 (140)
T COG0551 31 FGKYGIFLGCSNY-PKCDY 48 (140)
T ss_pred EccCCeEEEeCCC-CCCCC
Confidence 4678999999998 99998
No 44
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=39.42 E-value=11 Score=38.77 Aligned_cols=34 Identities=35% Similarity=0.836 Sum_probs=0.0
Q ss_pred CCChhhhhHHHHHHHHhcccCcccccCCCCCcccccccCCCcccc
Q 017965 156 NKPTEIVCKYFLEAVEKKQYGWFWVCPNGGKECHYRHALPPGYIL 200 (363)
Q Consensus 156 ~~~t~ivCK~FleAvE~~kYGWfW~CPnGGd~C~YrH~LPpG~VL 200 (363)
...+..||-||+- .+|--| ..|-|||--||+--|
T Consensus 157 krn~p~Icsf~v~----------geckRG-~ec~yrhEkp~d~~L 190 (377)
T KOG0153|consen 157 KRNRPHICSFFVK----------GECKRG-AECPYRHEKPPDDPL 190 (377)
T ss_pred cCCCCccccceee----------cccccc-ccccccccCCCCcch
No 45
>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=38.96 E-value=17 Score=35.35 Aligned_cols=48 Identities=27% Similarity=0.542 Sum_probs=33.7
Q ss_pred HHHHHHhhhhhhh----cCCCCCCCCCCCchhhhhhhcccccCC---------CCCccCcccch
Q 017965 65 REKELNDLFKVAV----TQPKVPVGVDPKSILCEFFKAGQCQKG---------FKCKFSHDLNI 115 (363)
Q Consensus 65 ~~~e~~~Lfk~v~----~q~kvp~gvDpKsv~C~fFk~G~C~KG---------~kCKFSHDl~~ 115 (363)
..+.|..|+++-- ...++++ -||. ||.||.-|.|.-- ..|...||..+
T Consensus 4 ~Ra~LdeLMG~~Rn~~~~~~~~~f-~D~~--VCk~~L~g~CPhdLF~nTK~DLG~C~kiHd~~l 64 (254)
T PF03194_consen 4 MRAMLDELMGSNRNGDPSKRKVHF-TDPD--VCKYFLVGFCPHDLFVNTKSDLGPCPKIHDEAL 64 (254)
T ss_pred HHHHHHHHcCCccCCCccccCCCC-CCcc--cCHHHHhCCCcHHHHhhcccccchhhhhcCHHH
Confidence 4567888887742 1122333 7887 8999999999532 47888888776
No 46
>KOG1999 consensus RNA polymerase II transcription elongation factor DSIF/SUPT5H/SPT5 [Transcription]
Probab=38.20 E-value=19 Score=41.46 Aligned_cols=13 Identities=15% Similarity=0.097 Sum_probs=5.6
Q ss_pred CCCCCCCCCCCCC
Q 017965 312 PSNSSGAVADSEE 324 (363)
Q Consensus 312 ~s~~~~~~~~~~~ 324 (363)
.+-|+....+.+|
T Consensus 64 ~~gf~~~e~dvDd 76 (1024)
T KOG1999|consen 64 GGGFIDREADVDD 76 (1024)
T ss_pred ccccccccccccc
Confidence 4455544333333
No 47
>KOG1595 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=38.18 E-value=16 Score=39.28 Aligned_cols=25 Identities=28% Similarity=0.727 Sum_probs=18.8
Q ss_pred hhhhhHHHHHHHHhcccCcccccCCCCCcccccccC
Q 017965 159 TEIVCKYFLEAVEKKQYGWFWVCPNGGKECHYRHAL 194 (363)
Q Consensus 159 t~ivCK~FleAvE~~kYGWfW~CPnGGd~C~YrH~L 194 (363)
+-.+|-=|-- ..|+-| |.|-|-|-.
T Consensus 235 s~tpCPefrk----------G~C~rG-D~CEyaHgv 259 (528)
T KOG1595|consen 235 SSTPCPEFRK----------GSCERG-DSCEYAHGV 259 (528)
T ss_pred cCccCccccc----------CCCCCC-Cccccccce
Confidence 6677877733 589987 999998753
No 48
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=33.36 E-value=24 Score=40.84 Aligned_cols=10 Identities=40% Similarity=0.504 Sum_probs=4.9
Q ss_pred cCcccccCCC
Q 017965 175 YGWFWVCPNG 184 (363)
Q Consensus 175 YGWfW~CPnG 184 (363)
||...-=|||
T Consensus 1269 ~~~G~FHP~g 1278 (1516)
T KOG1832|consen 1269 YGGGGFHPSG 1278 (1516)
T ss_pred cccccccCCC
Confidence 4444445665
No 49
>COG5406 Nucleosome binding factor SPN, SPT16 subunit [Transcription / DNA replication, recombination, and repair / Chromatin structure and dynamics]
Probab=32.72 E-value=39 Score=37.82 Aligned_cols=80 Identities=21% Similarity=0.384 Sum_probs=43.8
Q ss_pred hcchhhhcccccCCc---cccccc------cHHHHHHHHHhhhcccCCCCChhhhhHHHHHHHHhcccCc----------
Q 017965 117 RKGEKIDIYSDKRDG---ETMEDW------DQETLEKVVESKKMEYNQNKPTEIVCKYFLEAVEKKQYGW---------- 177 (363)
Q Consensus 117 rk~eK~dlY~D~R~~---dtmd~W------D~~kL~~Vv~~Khg~~~~~~~t~ivCK~FleAvE~~kYGW---------- 177 (363)
||.+-.-+|..+.+- +||-.= |+.-|+.--..... +..-+---|+|.++|+.---|-
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 677777778766653 454332 23334432222211 1245677899999998755443
Q ss_pred -ccccCCCC-------CcccccccCCCcccc
Q 017965 178 -FWVCPNGG-------KECHYRHALPPGYIL 200 (363)
Q Consensus 178 -fW~CPnGG-------d~C~YrH~LPpG~VL 200 (363)
|..-||-. ..|-....-||-||+
T Consensus 803 gF~GVPfRs~V~~~pTtdCLVqL~e~Pf~Vi 833 (1001)
T COG5406 803 GFYGVPFRSSVMIKPTTDCLVQLDEAPFFVI 833 (1001)
T ss_pred cccCCccccceeeecchhheeeccCCceEEE
Confidence 44456641 245444455787773
No 50
>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=31.75 E-value=25 Score=25.28 Aligned_cols=17 Identities=29% Similarity=0.685 Sum_probs=12.7
Q ss_pred cCcccccCCCCC-ccccc
Q 017965 175 YGWFWVCPNGGK-ECHYR 191 (363)
Q Consensus 175 YGWfW~CPnGGd-~C~Yr 191 (363)
--+||.||+... .|.|-
T Consensus 22 GR~Fy~C~~~~~~~C~fF 39 (45)
T PF06839_consen 22 GRRFYKCPNYKDKGCNFF 39 (45)
T ss_pred CCcceECCCCCCCCcCCE
Confidence 357999999844 68774
No 51
>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=31.03 E-value=32 Score=33.47 Aligned_cols=21 Identities=43% Similarity=0.563 Sum_probs=10.2
Q ss_pred CCCCCcccChhhhhHHHhhhh
Q 017965 328 DDDDDDELDLDELNELEASLS 348 (363)
Q Consensus 328 ~~ddd~d~d~de~~e~e~~~~ 348 (363)
++++|++.|+||...|-++|.
T Consensus 136 d~~~d~~ddeDd~~~Ll~ELe 156 (244)
T PF04889_consen 136 DDDSDDDDDEDDTAALLRELE 156 (244)
T ss_pred cccccccccchHHHHHHHHHH
Confidence 333334445555555555544
No 52
>KOG0943 consensus Predicted ubiquitin-protein ligase/hyperplastic discs protein, HECT superfamily [Posttranslational modification, protein turnover, chaperones]
Probab=27.78 E-value=49 Score=39.79 Aligned_cols=7 Identities=57% Similarity=1.241 Sum_probs=3.7
Q ss_pred hHHHHHH
Q 017965 163 CKYFLEA 169 (363)
Q Consensus 163 CK~FleA 169 (363)
||-|++|
T Consensus 1566 ~~qffQa 1572 (3015)
T KOG0943|consen 1566 CKQFFQA 1572 (3015)
T ss_pred HHHHHHH
Confidence 5555553
No 53
>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=27.53 E-value=55 Score=30.02 Aligned_cols=50 Identities=16% Similarity=0.421 Sum_probs=30.2
Q ss_pred CCcCHHHHHHhHHHHHHHHHHHHHHHH------HHHhcCCCCcchhhhhcCCCcccC
Q 017965 232 TPMTTELFMQWKKKKMEERNAGLAAQQ------AERAKNDRMSGRELFLSNASLFVD 282 (363)
Q Consensus 232 TPVT~EsF~~WKkkk~~Ek~~~~~~~k------~era~k~~LSGRELFe~dp~Lf~D 282 (363)
-.+...||.+||..++..-........ .+.+-+.+|+||.|=+.. .+++-
T Consensus 41 L~isrKtFyeWrdtk~eA~eeA~~~rdd~LlmLArssLk~KLegyTLtET~-TIYvp 96 (174)
T PF07141_consen 41 LHISRKTFYEWRDTKIEAYEEAKGIRDDNLLMLARSSLKSKLEGYTLTETE-TIYVP 96 (174)
T ss_pred HhccHHHHHHHHhhhHHHHHHHHhhccchHHHHHHHHHHhhcceeeeccce-eEEcC
Confidence 467889999999988543222211110 122445789999998874 34433
No 54
>KOG2051 consensus Nonsense-mediated mRNA decay 2 protein [RNA processing and modification]
Probab=26.55 E-value=1.8e+02 Score=34.20 Aligned_cols=32 Identities=19% Similarity=0.114 Sum_probs=23.7
Q ss_pred HHHHHHHhhhcccCCCCChhhhhHHHHHHHHh
Q 017965 141 TLEKVVESKKMEYNQNKPTEIVCKYFLEAVEK 172 (363)
Q Consensus 141 kL~~Vv~~Khg~~~~~~~t~ivCK~FleAvE~ 172 (363)
+|-=+|+..-|.+=.+..|.++|.+||-|..-
T Consensus 779 rlV~~lL~tc~~yf~rgs~kkkl~~fL~~fq~ 810 (1128)
T KOG2051|consen 779 RLVCMLLQTCGPYFTRGSTKKKLDQFLVAFQR 810 (1128)
T ss_pred HHHHHHHHHcccccccchhHHHHHHHHHHHHH
Confidence 45556677777654456799999999999864
No 55
>KOG1189 consensus Global transcriptional regulator, cell division control protein [Amino acid transport and metabolism]
Probab=24.49 E-value=58 Score=37.07 Aligned_cols=29 Identities=17% Similarity=0.341 Sum_probs=21.8
Q ss_pred cccccccccCCccHHHHHHHHHHHhhcCC
Q 017965 18 EDKTFGLKNKNKSKNVQKYVQSLKQSVEP 46 (363)
Q Consensus 18 eDKTFGlKNKnksk~vQk~I~~v~~qv~~ 46 (363)
.-=||--+|=+.+..+=++|+.|+.+++.
T Consensus 552 keit~rs~~~~~~s~~f~~ik~l~k~~~~ 580 (960)
T KOG1189|consen 552 KEITFRSSNGKRSSEAFRQIKELQKRFKS 580 (960)
T ss_pred hheeeeecCCcchHHHHHHHHHHHHHHHH
Confidence 34467777777777788889999988774
No 56
>KOG2038 consensus CAATT-binding transcription factor/60S ribosomal subunit biogenesis protein [Translation, ribosomal structure and biogenesis; Transcription]
Probab=24.41 E-value=56 Score=37.27 Aligned_cols=19 Identities=32% Similarity=0.448 Sum_probs=10.0
Q ss_pred cccCCccHHHHHHHHHHHh
Q 017965 24 LKNKNKSKNVQKYVQSLKQ 42 (363)
Q Consensus 24 lKNKnksk~vQk~I~~v~~ 42 (363)
||+=.--..|..||+.|-|
T Consensus 565 lK~D~ni~RV~AFvKRlLQ 583 (988)
T KOG2038|consen 565 LKEDINIQRVRAFVKRLLQ 583 (988)
T ss_pred HHhhhhHHHHHHHHHHHHH
Confidence 3333444456677765543
No 57
>KOG0943 consensus Predicted ubiquitin-protein ligase/hyperplastic discs protein, HECT superfamily [Posttranslational modification, protein turnover, chaperones]
Probab=24.25 E-value=45 Score=40.10 Aligned_cols=22 Identities=27% Similarity=0.475 Sum_probs=13.4
Q ss_pred CcccccCCCCCccc-ccccCCCccc
Q 017965 176 GWFWVCPNGGKECH-YRHALPPGYI 199 (363)
Q Consensus 176 GWfW~CPnGGd~C~-YrH~LPpG~V 199 (363)
.=|..-|-| +|| |-.+|||--|
T Consensus 1556 na~f~amI~--k~~qffQaL~~fAV 1578 (3015)
T KOG0943|consen 1556 NAFFPAMIG--KCKQFFQALLPFAV 1578 (3015)
T ss_pred ccccHHHHH--HHHHHHHHhhhHHH
Confidence 445566665 676 5577887433
No 58
>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=22.66 E-value=28 Score=37.08 Aligned_cols=20 Identities=50% Similarity=1.207 Sum_probs=13.1
Q ss_pred Cc-ccccCCCCCcccccccCCCc
Q 017965 176 GW-FWVCPNGGKECHYRHALPPG 197 (363)
Q Consensus 176 GW-fW~CPnGGd~C~YrH~LPpG 197 (363)
|| ||+-|+- ----.|.+|+|
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 8999884 12235999987
No 59
>PRK14973 DNA topoisomerase I; Provisional
Probab=22.09 E-value=27 Score=40.03 Aligned_cols=76 Identities=12% Similarity=0.201 Sum_probs=37.1
Q ss_pred HHHHHhcccCcccccCCCCCcccccccCCCcccchhhhHHh-HH--hhccCCCcHHHHHHHhccCCCCCCcCHHHHHHhH
Q 017965 167 LEAVEKKQYGWFWVCPNGGKECHYRHALPPGYILKSQMKAL-LE--EESDRLPIEDEIEDQRGKLKSTTPMTTELFMQWK 243 (363)
Q Consensus 167 leAvE~~kYGWfW~CPnGGd~C~YrH~LPpG~VLK~~~k~~-~e--~~~~eisLEE~IE~ER~kL~~gTPVT~EsF~~WK 243 (363)
+-.+..|.||||..|| .|+|+-..-+..-......+. .+ ...-.-++.++.......+..-+-|...+-..|+
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 3345789999999995 587753322211111111110 00 0011224455544444444331127777777887
Q ss_pred HHH
Q 017965 244 KKK 246 (363)
Q Consensus 244 kkk 246 (363)
..-
T Consensus 722 ~~~ 724 (936)
T PRK14973 722 REA 724 (936)
T ss_pred HHH
Confidence 753
No 60
>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=21.41 E-value=77 Score=24.07 Aligned_cols=32 Identities=28% Similarity=0.598 Sum_probs=24.0
Q ss_pred HHHHHHhc-ccCcccccCCCCCccccccc-CCCccc
Q 017965 166 FLEAVEKK-QYGWFWVCPNGGKECHYRHA-LPPGYI 199 (363)
Q Consensus 166 FleAvE~~-kYGWfW~CPnGGd~C~YrH~-LPpG~V 199 (363)
.|+|++.. .+++.+.|-+|+ |--=|+ +-.|-|
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 67888877 999999999985 765554 344555
No 61
>PRK07220 DNA topoisomerase I; Validated
Probab=20.96 E-value=61 Score=36.10 Aligned_cols=69 Identities=16% Similarity=0.261 Sum_probs=0.0
Q ss_pred cccCcccccCCCCCcccccccCCCc---------------ccchhhhHHhHHhh---ccCCCcHHHHHHHhccCCCCCCc
Q 017965 173 KQYGWFWVCPNGGKECHYRHALPPG---------------YILKSQMKALLEEE---SDRLPIEDEIEDQRGKLKSTTPM 234 (363)
Q Consensus 173 ~kYGWfW~CPnGGd~C~YrH~LPpG---------------~VLK~~~k~~~e~~---~~eisLEE~IE~ER~kL~~gTPV 234 (363)
|+.+|||.||+ |.|...-.|. .--+....+..-+. ...-+++++....+..+..-+-|
T Consensus 652 g~~~~~~~Cp~----C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kt~~Kl~~~~i~t~~~l~~a~~~~~a~~~~i 727 (740)
T PRK07220 652 GKRPWDLGCPQ----CNFIEWQKKQKEEKAQQPKKEKPKSIKDIKGIGKKTAEKLEEAGITTVEALAEADPVELSKTTKI 727 (740)
T ss_pred CCccceeeCCC----CCCccccCCcccccccccccccchhhhcccccchhhhhhhhhcCccchhhhccCCHHHhhhhcCC
Q ss_pred CHHHHHHhHHH
Q 017965 235 TTELFMQWKKK 245 (363)
Q Consensus 235 T~EsF~~WKkk 245 (363)
....-..|+..
T Consensus 728 s~~~~~~~~~~ 738 (740)
T PRK07220 728 SVKKIKSWQES 738 (740)
T ss_pred chhhhhhhhhh
Done!