Query psy10458
Match_columns 563
No_of_seqs 272 out of 1345
Neff 6.7
Searched_HMMs 46136
Date Fri Aug 16 18:42:46 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy10458.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/10458hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG5260 TRF4 DNA polymerase si 100.0 2.8E-43 6.1E-48 370.2 24.9 282 136-477 54-346 (482)
2 KOG1906|consensus 100.0 6.6E-36 1.4E-40 321.8 24.5 272 138-477 62-345 (514)
3 KOG2277|consensus 100.0 4.6E-35 9.9E-40 329.2 24.3 320 129-475 103-432 (596)
4 PTZ00418 Poly(A) polymerase; P 100.0 5.2E-33 1.1E-37 302.7 28.8 283 123-501 62-407 (593)
5 KOG2245|consensus 100.0 2.6E-31 5.5E-36 278.8 24.4 274 140-503 34-365 (562)
6 COG5186 PAP1 Poly(A) polymeras 99.9 1.1E-23 2.5E-28 213.3 19.8 274 139-501 25-355 (552)
7 cd05402 NT_PAP_TUTase Nucleoti 99.9 9.1E-23 2E-27 181.3 12.4 114 159-302 1-114 (114)
8 PF04928 PAP_central: Poly(A) 99.8 3.6E-21 7.9E-26 193.5 10.6 155 288-498 89-254 (254)
9 TIGR03671 cca_archaeal CCA-add 99.7 2.6E-15 5.6E-20 159.2 25.0 234 144-469 3-253 (408)
10 PRK13300 tRNA CCA-pyrophosphor 99.6 2.5E-14 5.4E-19 153.9 24.3 234 143-467 3-254 (447)
11 COG1746 CCA1 tRNA nucleotidylt 99.5 1.1E-12 2.3E-17 137.7 22.2 236 138-466 2-255 (443)
12 PF03828 PAP_assoc: Cid1 famil 99.1 1.1E-11 2.4E-16 97.6 1.6 49 398-446 1-60 (60)
13 PF09249 tRNA_NucTransf2: tRNA 98.3 1.3E-06 2.8E-11 76.8 7.0 99 312-467 3-103 (114)
14 smart00572 DZF domain in DSRM 98.3 2.3E-05 5E-10 78.4 15.5 199 179-476 4-234 (246)
15 PF03813 Nrap: Nrap protein; 98.3 4E-05 8.6E-10 91.5 20.3 139 299-475 157-301 (972)
16 cd05397 NT_Pol-beta-like Nucle 97.8 2.6E-05 5.6E-10 59.0 4.6 41 162-202 2-42 (49)
17 PF10421 OAS1_C: 2'-5'-oligoad 97.8 6.4E-05 1.4E-09 72.4 8.1 58 291-348 26-84 (190)
18 PF01909 NTP_transf_2: Nucleot 97.8 1.4E-05 2.9E-10 67.8 2.8 43 164-206 1-43 (93)
19 cd05400 NT_2-5OAS_ClassI-CCAas 97.6 0.00071 1.5E-08 62.3 10.8 81 176-285 26-107 (143)
20 cd05403 NT_KNTase_like Nucleot 97.3 0.00035 7.5E-09 58.7 4.7 43 164-206 4-47 (93)
21 PF07528 DZF: DZF domain; Int 97.3 0.0099 2.1E-07 60.2 15.9 129 284-475 106-235 (248)
22 KOG2054|consensus 96.7 0.011 2.5E-07 68.6 11.1 128 304-477 306-439 (1121)
23 COG1669 Predicted nucleotidylt 96.5 0.0063 1.4E-07 52.5 5.8 45 162-206 9-53 (97)
24 PF03813 Nrap: Nrap protein; 96.0 0.16 3.4E-06 61.2 16.3 133 294-473 671-825 (972)
25 COG1708 Predicted nucleotidylt 95.7 0.017 3.6E-07 51.2 5.2 37 169-205 18-54 (128)
26 PRK13746 aminoglycoside resist 95.1 0.026 5.7E-07 57.6 4.8 41 166-206 15-57 (262)
27 PF13893 RRM_5: RNA recognitio 94.4 0.058 1.2E-06 41.2 4.1 34 43-78 8-41 (56)
28 PF14091 DUF4269: Domain of un 92.3 2.3 5E-05 39.9 11.6 113 178-325 16-142 (152)
29 KOG3793|consensus 91.4 6.4 0.00014 40.1 14.3 68 138-205 40-115 (362)
30 KOG2054|consensus 90.9 2.4 5.3E-05 50.1 12.3 138 293-477 806-960 (1121)
31 KOG0148|consensus 90.7 0.43 9.4E-06 48.4 5.4 59 17-79 144-221 (321)
32 PF14259 RRM_6: RNA recognitio 89.4 0.43 9.3E-06 37.7 3.5 37 43-79 22-60 (70)
33 smart00362 RRM_2 RNA recogniti 89.2 0.69 1.5E-05 35.3 4.5 37 43-79 23-60 (72)
34 PF00076 RRM_1: RNA recognitio 88.4 0.73 1.6E-05 35.8 4.2 37 43-79 22-60 (70)
35 KOG0130|consensus 87.7 0.5 1.1E-05 43.2 3.1 48 43-90 96-147 (170)
36 KOG0415|consensus 87.3 0.47 1E-05 49.6 3.0 54 24-77 206-300 (479)
37 PRK02098 phosphoribosyl-dephos 85.5 1.1 2.4E-05 44.7 4.5 39 165-205 110-154 (221)
38 smart00360 RRM RNA recognition 85.0 2 4.2E-05 32.5 4.9 37 43-79 20-59 (71)
39 TIGR03135 malonate_mdcG holo-A 84.9 1.3 2.7E-05 43.7 4.6 39 165-205 98-142 (202)
40 PLN03120 nucleic acid binding 84.9 1.6 3.4E-05 44.6 5.4 49 43-91 28-76 (260)
41 PLN03134 glycine-rich RNA-bind 84.5 0.99 2.1E-05 41.9 3.5 48 43-90 58-109 (144)
42 TIGR01649 hnRNP-L_PTB hnRNP-L/ 83.4 1.6 3.4E-05 48.6 5.1 45 43-90 26-73 (481)
43 PLN03121 nucleic acid binding 82.8 2.2 4.8E-05 42.9 5.3 49 43-91 29-77 (243)
44 smart00361 RRM_1 RNA recogniti 78.0 5.1 0.00011 32.0 5.1 35 43-77 16-56 (70)
45 cd00590 RRM RRM (RNA recogniti 77.3 5.2 0.00011 30.4 4.9 37 43-79 23-61 (74)
46 TIGR01661 ELAV_HUD_SF ELAV/HuD 74.6 2.7 5.9E-05 44.1 3.4 48 43-90 293-344 (352)
47 KOG0113|consensus 74.0 5 0.00011 41.5 4.8 37 43-79 125-164 (335)
48 PF14792 DNA_pol_B_palm: DNA p 73.4 3.9 8.5E-05 36.3 3.6 44 162-206 9-52 (112)
49 TIGR01659 sex-lethal sex-letha 68.2 5.4 0.00012 42.6 3.9 35 43-77 131-168 (346)
50 TIGR01622 SF-CC1 splicing fact 67.6 7.8 0.00017 42.4 5.1 48 43-90 113-163 (457)
51 TIGR01649 hnRNP-L_PTB hnRNP-L/ 66.1 5.4 0.00012 44.4 3.5 46 43-90 300-346 (481)
52 PF15023 DUF4523: Protein of u 64.7 5.6 0.00012 36.9 2.7 48 33-84 99-151 (166)
53 TIGR01645 half-pint poly-U bin 64.1 6.8 0.00015 44.9 3.8 48 43-90 228-279 (612)
54 cd00141 NT_POLXc Nucleotidyltr 63.4 84 0.0018 32.9 11.6 43 162-205 145-187 (307)
55 KOG1456|consensus 61.9 7.7 0.00017 41.2 3.4 30 43-74 146-175 (494)
56 TIGR01628 PABP-1234 polyadenyl 61.3 11 0.00023 42.6 4.9 51 39-89 18-74 (562)
57 PF10127 Nuc-transf: Predicted 61.0 7.6 0.00016 39.2 3.2 46 160-205 2-48 (247)
58 TIGR01659 sex-lethal sex-letha 60.2 7 0.00015 41.7 2.9 37 43-79 217-256 (346)
59 PF03445 DUF294: Putative nucl 59.3 47 0.001 30.5 7.9 29 177-205 49-77 (138)
60 KOG0111|consensus 58.8 6.6 0.00014 38.9 2.2 35 43-77 34-71 (298)
61 TIGR01645 half-pint poly-U bin 57.2 9 0.00019 43.9 3.2 48 43-90 131-182 (612)
62 KOG4212|consensus 54.7 15 0.00033 39.8 4.2 48 43-90 69-119 (608)
63 PF11774 Lsr2: Lsr2 ; InterPr 54.6 21 0.00045 31.8 4.4 64 269-335 20-101 (110)
64 cd05401 NT_GlnE_GlnD_like Nucl 54.4 22 0.00049 33.4 5.0 30 177-206 55-84 (172)
65 PRK01293 phosphoribosyl-dephos 52.7 31 0.00067 34.2 5.8 41 164-206 98-144 (207)
66 PF10620 MdcG: Phosphoribosyl- 52.1 16 0.00035 36.3 3.7 42 163-206 104-151 (213)
67 TIGR01628 PABP-1234 polyadenyl 52.0 13 0.00029 41.9 3.6 48 43-90 309-359 (562)
68 KOG2534|consensus 51.8 65 0.0014 33.9 8.1 51 152-206 149-199 (353)
69 TIGR01622 SF-CC1 splicing fact 50.0 14 0.0003 40.5 3.2 48 43-90 210-261 (457)
70 PHA02603 nrdC.11 hypothetical 48.8 9.7 0.00021 40.2 1.7 21 180-200 6-26 (330)
71 COG2413 Predicted nucleotidylt 48.4 30 0.00065 34.0 4.8 45 159-206 22-66 (228)
72 TIGR01661 ELAV_HUD_SF ELAV/HuD 48.1 23 0.00051 37.0 4.5 47 43-89 27-77 (352)
73 KOG0105|consensus 46.6 24 0.00053 34.2 3.8 48 43-90 30-78 (241)
74 TIGR01642 U2AF_lg U2 snRNP aux 46.0 31 0.00066 38.3 5.2 48 43-90 319-370 (509)
75 KOG0107|consensus 44.6 18 0.0004 34.8 2.6 32 43-76 34-65 (195)
76 COG3541 Predicted nucleotidylt 41.7 13 0.00028 37.6 1.2 21 183-203 16-36 (248)
77 PRK08609 hypothetical protein; 40.2 3.4E+02 0.0074 31.0 12.5 42 163-205 161-202 (570)
78 COG1665 Predicted nucleotidylt 40.0 28 0.00061 35.8 3.3 66 127-204 82-148 (315)
79 TIGR01642 U2AF_lg U2 snRNP aux 40.0 29 0.00063 38.5 3.8 43 45-90 213-255 (509)
80 PF09970 DUF2204: Nucleotidyl 39.8 1.5E+02 0.0033 28.5 8.3 29 177-205 16-48 (181)
81 PRK00227 glnD PII uridylyl-tra 38.8 50 0.0011 38.7 5.5 48 158-205 6-55 (693)
82 PRK05007 PII uridylyl-transfer 38.0 57 0.0012 39.3 6.1 29 177-205 80-108 (884)
83 PF05172 Nup35_RRM: Nup53/35/4 37.1 64 0.0014 28.2 4.7 46 43-90 29-87 (100)
84 KOG4454|consensus 36.6 16 0.00035 36.3 1.0 34 43-76 33-67 (267)
85 COG0724 RNA-binding proteins ( 35.4 66 0.0014 30.9 5.2 48 43-90 139-190 (306)
86 TIGR01648 hnRNP-R-Q heterogene 35.1 29 0.00063 39.6 2.9 43 43-90 257-302 (578)
87 KOG0122|consensus 33.8 58 0.0012 33.0 4.3 47 43-89 213-263 (270)
88 smart00483 POLXc DNA polymeras 33.6 64 0.0014 34.2 5.0 45 161-206 148-192 (334)
89 KOG4205|consensus 32.0 20 0.00043 37.7 0.8 84 7-90 58-171 (311)
90 KOG0123|consensus 30.6 66 0.0014 34.7 4.5 34 43-77 100-134 (369)
91 KOG1190|consensus 30.5 46 0.00099 36.1 3.2 46 43-90 322-368 (492)
92 PF14605 Nup35_RRM_2: Nup53/35 28.1 66 0.0014 24.5 2.9 30 43-75 24-53 (53)
93 TIGR01648 hnRNP-R-Q heterogene 27.0 46 0.00099 38.1 2.7 36 43-78 82-119 (578)
94 PRK04374 PII uridylyl-transfer 26.2 1.6E+02 0.0035 35.5 7.1 50 157-206 48-101 (869)
95 PF03296 Pox_polyA_pol: Poxvir 26.1 1E+02 0.0023 28.5 4.2 61 138-200 7-76 (149)
96 KOG0116|consensus 25.2 58 0.0013 35.8 2.9 51 43-93 312-365 (419)
97 COG1796 POL4 DNA polymerase IV 22.9 9.3E+02 0.02 25.6 11.4 121 163-330 166-286 (326)
98 TIGR01693 UTase_glnD [Protein- 22.6 1.9E+02 0.0041 34.7 6.9 31 176-206 42-72 (850)
99 PLN03213 repressor of silencin 22.6 1E+02 0.0022 34.2 4.1 34 43-77 34-69 (759)
100 COG2844 GlnD UTP:GlnB (protein 22.3 1.6E+02 0.0036 34.9 5.9 30 177-206 66-95 (867)
101 KOG0121|consensus 22.1 2.4E+02 0.0052 26.1 5.7 47 43-89 60-110 (153)
102 PRK03059 PII uridylyl-transfer 20.8 2.7E+02 0.0059 33.5 7.7 29 177-205 61-89 (856)
103 KOG0149|consensus 20.2 82 0.0018 31.8 2.6 50 35-84 26-80 (247)
104 PF12633 Adenyl_cycl_N: Adenyl 20.1 1.4E+02 0.0029 29.7 4.1 29 178-206 98-126 (204)
105 KOG0110|consensus 20.1 1.3E+02 0.0027 35.0 4.3 48 43-90 539-593 (725)
No 1
>COG5260 TRF4 DNA polymerase sigma [DNA replication, recombination, and repair]
Probab=100.00 E-value=2.8e-43 Score=370.24 Aligned_cols=282 Identities=24% Similarity=0.357 Sum_probs=233.4
Q ss_pred cccHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhcCCCceEEEEcceecCCCCCCCccceeeccccCCCCCCcccc
Q psy10458 136 CNTITQQMTTLHNITKMNDINTRLRFLVAYQVELALSGLFPLCAIFPFGSSVNNFGKLGCDLDLVLQLDLQSQGDNDQCR 215 (563)
Q Consensus 136 ~~~l~~qI~~l~~~~~pt~~e~~~R~~v~~~L~~il~~~fp~~~V~pFGS~~~Gl~~~~SDLDl~l~~~~~~~~~~~~~~ 215 (563)
...++.++..||.++.|+++|.+.|..+++.|+.++.+.||++.+++|||+.+|+++++||||+||..+..-.
T Consensus 54 ~~~lt~el~~~y~~I~ps~eEl~~R~~~leklr~~lk~~~pda~l~vFGS~~t~L~l~~SDiDl~I~s~~~~~------- 126 (482)
T COG5260 54 SDELTSELLEFYDYIAPSDEELKRRKALLEKLRTLLKKEFPDADLKVFGSTETGLALPKSDIDLCIISDPRGY------- 126 (482)
T ss_pred HHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHHHHhCCccceeEecccccccccCcccccEEEecCCccc-------
Confidence 3457899999999999999999999999999999999999999999999999999999999999999876411
Q ss_pred hhhcccccCCcchHHHHHHHHHHHHHHHhhCCCCCCCCCCCceeeEEecCCCeeEEEEeecCCcceEEEeecchhhhhhH
Q psy10458 216 LMFHCKSSLGSERSQTLRHLETVGDLLQLFLPGCSQLFLPGCSQVKRILGARVPIIKYNHDMSALECDLSMTNLTALYMA 295 (563)
Q Consensus 216 l~~~~k~~~~~~R~~~~~~L~~l~~~L~~~~p~~s~~~~~g~~~V~~I~~ARVPIIKf~~~~~gi~~DIS~nN~~gl~nS 295 (563)
. ..|. . +..+..++... +...++.|.+||||||||++..+|++|||++||..|+.|+
T Consensus 127 ---~------et~~---~-~~l~~~l~~~~----------~~~~~~~v~tarVPIIKl~d~~s~l~~Disfn~~~~~~~a 183 (482)
T COG5260 127 ---K------ETRN---A-GSLASHLFKKN----------LAKEVVVVSTARVPIIKLVDPQSGLHCDISFNNTNGIVNA 183 (482)
T ss_pred ---c------cccc---H-HHHHHHHHHhc----------cCeeeEEEEecccceEEEecCccceEEEeecCchhHHHHH
Confidence 1 0111 1 12222333321 5678889999999999999999999999999999999999
Q ss_pred HHHHHHhhcCCCchhHHHHHHHHHHHcCCCCCCCCCCcChHHHHHHHHHHhhcCCCCCchhhhhhhhcccCcceeeCCcc
Q psy10458 296 ELLYLFGEIDWRVRPLVFTIKKWAKDINLTNPTPGRWITNFSLTLLVLFYLQSVKVLPPLKLLIDEASLKDRRISEDGVN 375 (563)
Q Consensus 296 ~LL~~y~~~dpr~r~Lv~~IK~Wak~~gL~~~~~G~~LsSYsL~LLVI~fLQ~~pvLP~Lq~l~~~~~~~d~~~~~~g~d 375 (563)
++++.|...||++|||+++||+||+.|.|++++.|| |+||++++||+.|||++|..|-++. |.
T Consensus 184 kl~~~~~~~~P~lrpLvliIKhwl~~R~ln~~~~Gt-L~sy~i~cmV~sfLq~~~~~~~~~~---------------~~- 246 (482)
T COG5260 184 KLIRSYLKEDPRLRPLVLIIKHWLKRRALNDVATGT-LSSYTISCMVLSFLQMHPPFLFFDN---------------GL- 246 (482)
T ss_pred HHHHHHHhcCcccchHHHHHHHHHHHHhhcccccCc-chhhhhHHHHHHHHHhCCccccccc---------------cc-
Confidence 999999999999999999999999999999999887 9999999999999999763222111 00
Q ss_pred cccccccccccCCCCCCCCCCCCHHHHHHHHHHhhc-cCCCCCceEEecCC-CCcCCC-------CC-CCeEEecCC-CC
Q psy10458 376 CTFVRDITKLQFHPSIPEQSTDSLTTLLFGFFEFYS-QYDFNNQGISLYLG-SPIPKP-------EH-GALYINNPL-ER 444 (563)
Q Consensus 376 ~~F~~d~~~l~~~~~~~~~n~~sl~~LL~~FF~fYs-~Fd~~~~vIsir~G-~~~~K~-------~~-~~L~I~DPf-e~ 444 (563)
++.+. ...|..++|.||.+||+||+ .|+|...+++++.| ..++|. .+ ..|+||||+ ++
T Consensus 247 ------~~~l~-----~~~~~~~lgvLf~dFf~~yG~~f~Y~~~~~si~~g~~~~~K~e~g~~~~~~p~~LsiqdP~td~ 315 (482)
T COG5260 247 ------LSPLK-----YNKNIDNLGVLFDDFFELYGKSFNYSLVVLSINSGDFYLPKYEKGWLKPSKPNSLSIQDPGTDR 315 (482)
T ss_pred ------cchhh-----ccccccccchHHHHHHHHhccccChhheEEEecCCceeeehhhcccccccCCCcEeecCCCCCc
Confidence 01110 13677899999999999999 99999999999999 444442 23 789999999 87
Q ss_pred CCCccccCCHHhHHHHHHHHHHHHHHHHhhhcC
Q psy10458 445 GLNVSKNVSFEELERLKVEVRNASWTLESTANS 477 (563)
Q Consensus 445 ~~NvarnVs~~~~~~i~~ef~~A~~~L~~~~~~ 477 (563)
.+++++.. .++..++.+|.+|..+|...+..
T Consensus 316 n~~~~a~s--~~ik~i~~~F~~aF~lls~~~~t 346 (482)
T COG5260 316 NNDISAVS--FNIKDIKAAFIRAFELLSNKLFT 346 (482)
T ss_pred cccccccc--chHHHHHHHHHHHHHHHhhhcch
Confidence 77777644 78899999999998888876543
No 2
>KOG1906|consensus
Probab=100.00 E-value=6.6e-36 Score=321.80 Aligned_cols=272 Identities=22% Similarity=0.322 Sum_probs=226.4
Q ss_pred cHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhcCCCceEEEEcceecCCCCCCCccceeeccccCCCCCCcccchh
Q psy10458 138 TITQQMTTLHNITKMNDINTRLRFLVAYQVELALSGLFPLCAIFPFGSSVNNFGKLGCDLDLVLQLDLQSQGDNDQCRLM 217 (563)
Q Consensus 138 ~l~~qI~~l~~~~~pt~~e~~~R~~v~~~L~~il~~~fp~~~V~pFGS~~~Gl~~~~SDLDl~l~~~~~~~~~~~~~~l~ 217 (563)
.++++|.++++++.||.+|.++|..+++.+++++.+.||+|.|++|||+.+|+++|+||||+++..+....+
T Consensus 62 ~l~~eI~~fv~~l~pt~~e~~~R~~~~~~i~~~v~~~~~~a~v~~FGS~~tglyLP~sDIDl~v~~~~~~~~-------- 133 (514)
T KOG1906|consen 62 RLRNEILDFVQYLIPTPEEIEVRSELVEKIRDVVKQKWPDASVYVFGSVPTGLYLPDSDIDLVVLSKFLNDK-------- 133 (514)
T ss_pred HHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHHHhcccceeEEeeeeeccccccccceEEEEecccccCc--------
Confidence 468999999999999999999999999999999999999999999999999999999999999998853210
Q ss_pred hcccccCCcchHHHHHHHHHHHHHHHhhCCCCCCCCCCCceeeEEecCCCeeEEEEeecCCcceEEEeecchhhhhhHHH
Q psy10458 218 FHCKSSLGSERSQTLRHLETVGDLLQLFLPGCSQLFLPGCSQVKRILGARVPIIKYNHDMSALECDLSMTNLTALYMAEL 297 (563)
Q Consensus 218 ~~~k~~~~~~R~~~~~~L~~l~~~L~~~~p~~s~~~~~g~~~V~~I~~ARVPIIKf~~~~~gi~~DIS~nN~~gl~nS~L 297 (563)
..+. ..+ .+...++.. . .-..|..|..|||||+||++..+||.+|||||+..|++.+++
T Consensus 134 --------e~~~---~~~-~l~~~~e~~-~--------~~~~v~~v~karvpiik~~d~~s~i~vDISFn~~~G~~aa~~ 192 (514)
T KOG1906|consen 134 --------EDRA---VKL-ELALELEED-N--------SAFHVKVVQKARVPIIKFKDPVSNIHVDISFNQTNGVKAAKF 192 (514)
T ss_pred --------hhhH---HHH-HHHHhhhhc-c--------ccceEEEeeeeeeeeEEeecCccceEEEeeecccCchhHHHH
Confidence 0111 111 122222211 1 224678899999999999999999999999999999999999
Q ss_pred HHHHhhcCCCchhHHHHHHHHHHHcCCCCCCCCCCcChHHHHHHHHHHhhcCCCCCchhhhhhhhcccCcceeeCCcccc
Q psy10458 298 LYLFGEIDWRVRPLVFTIKKWAKDINLTNPTPGRWITNFSLTLLVLFYLQSVKVLPPLKLLIDEASLKDRRISEDGVNCT 377 (563)
Q Consensus 298 L~~y~~~dpr~r~Lv~~IK~Wak~~gL~~~~~G~~LsSYsL~LLVI~fLQ~~pvLP~Lq~l~~~~~~~d~~~~~~g~d~~ 377 (563)
++.|.+..|.+++|++++|+|...++|++...|| |+||+|++||++|||.++.+=+ +
T Consensus 193 i~~~~~~~p~~~~lvlvlk~fl~~r~ln~v~tGg-isSyal~~Lv~~fl~l~~~~~s----------~------------ 249 (514)
T KOG1906|consen 193 IKDFLRDHPFLRSLVLVLKQFLYERRLNGVHTGG-ISSYALELLVLSFLQLHPRSKS----------G------------ 249 (514)
T ss_pred HHHHHhcCccchhHHHHHHHHHHhhccccccccc-chHHHHHHHHHHHHhhcccccC----------C------------
Confidence 9999999999999999999999999999999998 9999999999999999754200 0
Q ss_pred cccccccccCCCCCCCCCCCCHHHHHHHHHHhhc-cCCCCCceEEecCCCCcCCC-----------CCCCeEEecCCCCC
Q psy10458 378 FVRDITKLQFHPSIPEQSTDSLTTLLFGFFEFYS-QYDFNNQGISLYLGSPIPKP-----------EHGALYINNPLERG 445 (563)
Q Consensus 378 F~~d~~~l~~~~~~~~~n~~sl~~LL~~FF~fYs-~Fd~~~~vIsir~G~~~~K~-----------~~~~L~I~DPfe~~ 445 (563)
. ......++.||+.||++|| +|.|.+.+|++..|+..... ..+.|+|+||.+|.
T Consensus 250 ---~-----------~~~~~~~~vll~~f~e~yG~~f~~~k~~i~~~~~g~~~~~~~~~~~~~~~~~~~~LsieDP~~P~ 315 (514)
T KOG1906|consen 250 ---R-----------LAVLKNLGVLLIKFFELYGRNFGYDKLGISLSLGGEYVSKELTGFFNNSLERPGSLSIEDPVDPT 315 (514)
T ss_pred ---c-----------cchhcccchHHHHHHHHhccccCchhhceeccCCcccccHHhhhhhcccccCCCccccCCCCCcc
Confidence 0 0123456799999999999 99999999998877654321 24679999999999
Q ss_pred CCccccCCHHhHHHHHHHHHHHHHHHHhhhcC
Q psy10458 446 LNVSKNVSFEELERLKVEVRNASWTLESTANS 477 (563)
Q Consensus 446 ~NvarnVs~~~~~~i~~ef~~A~~~L~~~~~~ 477 (563)
+|+||.. +++..++.+|..|+..|......
T Consensus 316 ndigr~s--~~~~~v~~~F~~af~~l~~~~~~ 345 (514)
T KOG1906|consen 316 NDIGRSS--FNFSQVKGAFAYAFKVLTNAVFS 345 (514)
T ss_pred ccccccc--ccHHHHHHHHHHHHHHHhhhhcc
Confidence 9999866 88999999999999888775543
No 3
>KOG2277|consensus
Probab=100.00 E-value=4.6e-35 Score=329.23 Aligned_cols=320 Identities=33% Similarity=0.518 Sum_probs=273.1
Q ss_pred HHHHhccccc-HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhcCCCceEE--EEcceecCCCCCCCccceeecccc
Q psy10458 129 VRECLASCNT-ITQQMTTLHNITKMNDINTRLRFLVAYQVELALSGLFPLCAIF--PFGSSVNNFGKLGCDLDLVLQLDL 205 (563)
Q Consensus 129 l~~~L~~~~~-l~~qI~~l~~~~~pt~~e~~~R~~v~~~L~~il~~~fp~~~V~--pFGS~~~Gl~~~~SDLDl~l~~~~ 205 (563)
+......... |+.++..+++...+...+...|......++.++...+|+.... .|||..+|++...+|+|+++....
T Consensus 103 ~~~l~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~gs~~~~~~~~~~d~d~~~~~~~ 182 (596)
T KOG2277|consen 103 LLKLPYIDLSFLDPQLNELLESFKLPHSDVKTRKLILDKLRALASLLFPDSILSLYLFGSSDLGLGERSSDLDLCVDFTS 182 (596)
T ss_pred hhhhhhhHHhhhchhhhhhhhccCCCccccchHHHHHHHHHHHHHHhcCCCcceeeccCcccccccccccCcceeecccc
Confidence 4444555555 9999999999999999999999999999999999999976555 999999999999999996666554
Q ss_pred CCCCCCcccchhhcccccCCcchHHHHHHHHHHHHHHHhhCCCCCCCCCCCceeeEEecCCCeeEEEEeecCCcceEEEe
Q psy10458 206 QSQGDNDQCRLMFHCKSSLGSERSQTLRHLETVGDLLQLFLPGCSQLFLPGCSQVKRILGARVPIIKYNHDMSALECDLS 285 (563)
Q Consensus 206 ~~~~~~~~~~l~~~~k~~~~~~R~~~~~~L~~l~~~L~~~~p~~s~~~~~g~~~V~~I~~ARVPIIKf~~~~~gi~~DIS 285 (563)
.. ...++.....++..+++++..+.+ .++..++.|..|||||||+.|...+++||++
T Consensus 183 ~~----------------~~~~~~~~~~~~~l~~~~~~~~~~-------~~~~~~~~i~~A~vPiik~~~~~~~~~~d~s 239 (596)
T KOG2277|consen 183 SF----------------LSFEKIKGLEILKLLAKCLASLLE-------EGVREVQQILSARVPIIKFNDSGSGLECDLS 239 (596)
T ss_pred cc----------------cccchhhhHHHHHHHHHHHHhccc-------cccceeeeeeecCCCEEEecCCCCCCceeee
Confidence 20 113344566778889999988654 1277899999999999999999999999999
Q ss_pred ecchhhhhhHHHHHHHhhcCCCchhHHHHHHHHHHHcCCCCCCCCCCcChHHHHHHHHHHhhc--CCCCCchhhhhhhhc
Q psy10458 286 MTNLTALYMAELLYLFGEIDWRVRPLVFTIKKWAKDINLTNPTPGRWITNFSLTLLVLFYLQS--VKVLPPLKLLIDEAS 363 (563)
Q Consensus 286 ~nN~~gl~nS~LL~~y~~~dpr~r~Lv~~IK~Wak~~gL~~~~~G~~LsSYsL~LLVI~fLQ~--~pvLP~Lq~l~~~~~ 363 (563)
++|..|++||.|++.|..+|+|+++|++++|+||+.++++++..|++.++|++++|||||||+ +++||++..+.....
T Consensus 240 ~~n~~~~~nS~ll~~~~~~d~r~~~L~~~vk~wa~~~~~~d~~~g~~~s~ysl~lmvi~fLq~~~~~ilp~l~~l~~~~~ 319 (596)
T KOG2277|consen 240 VNNSDAILNSQLLRNYSEIDPRVRPLVLLVKHWAKEKGLNDAKPGGLNSSYSLTLMVIHFLQTLSPPILPPLSKLLPESD 319 (596)
T ss_pred eccchhhhhhHHHHHhHhcCCCcchHhHHHHHHHHhccCCCCCCCceeccccHHHHHHHHHHhcCCcCCCchhhhchhcc
Confidence 999999999999999999999999999999999999999999999944479999999999999 479999999887765
Q ss_pred ccCcceeeCCcccccccccccccCCCCCCCCCCCCHHHHHHHHHHhhc-cCCCCCceEEecCCCCcCC--C--CCCCeEE
Q psy10458 364 LKDRRISEDGVNCTFVRDITKLQFHPSIPEQSTDSLTTLLFGFFEFYS-QYDFNNQGISLYLGSPIPK--P--EHGALYI 438 (563)
Q Consensus 364 ~~d~~~~~~g~d~~F~~d~~~l~~~~~~~~~n~~sl~~LL~~FF~fYs-~Fd~~~~vIsir~G~~~~K--~--~~~~L~I 438 (563)
..+.......+.|.|.......+. ...|..+++.|+.+||.||+ .|||.+.+|+++.|..+.+ . ....++|
T Consensus 320 ~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~l~~l~~~f~~yy~~~Fdf~~~~I~~r~~~~l~~~~~~~~~~~l~i 395 (596)
T KOG2277|consen 320 SNDKPVVKKKVLCSFLRVFQRNPS----NSQNTGSLGELLLGFFSYYASLFDFRKNAISIRRGRALKRAKKIKSKKFLCI 395 (596)
T ss_pred cccccchhhhhhhccccccccccc----cccccchHHHHHHHHHHHHhhhcccccceeeeeecccccccchhhhccceee
Confidence 544334444466777665544431 25788999999999999999 8999999999999998874 2 2679999
Q ss_pred ecCCCCCCCccccCCHHhHHHHHHHHHHHHHHHHhhh
Q psy10458 439 NNPLERGLNVSKNVSFEELERLKVEVRNASWTLESTA 475 (563)
Q Consensus 439 ~DPfe~~~NvarnVs~~~~~~i~~ef~~A~~~L~~~~ 475 (563)
+|||+..+|++.+++......++.+|+.+.+.+....
T Consensus 396 ~dp~~~~~n~~~~~~~~~~~~i~~~~~~~~~~~~~~~ 432 (596)
T KOG2277|consen 396 EDPFEVSHNADAGVTLKVLLLIQDEFQESRRVFKDVN 432 (596)
T ss_pred ccccccccCccccchHHHHHHHHHHHHHHHHHhhhhc
Confidence 9999999999999999999999999999999999875
No 4
>PTZ00418 Poly(A) polymerase; Provisional
Probab=100.00 E-value=5.2e-33 Score=302.71 Aligned_cols=283 Identities=19% Similarity=0.239 Sum_probs=225.9
Q ss_pred CCCHHHHHHHhcccccHHHHHHHHHHH--cCCCHHHHHHHHHHHHHHHHHHHhc---------C-------CCceEEEEc
Q psy10458 123 PPTEDHVRECLASCNTITQQMTTLHNI--TKMNDINTRLRFLVAYQVELALSGL---------F-------PLCAIFPFG 184 (563)
Q Consensus 123 ~~~~~~l~~~L~~~~~l~~qI~~l~~~--~~pt~~e~~~R~~v~~~L~~il~~~---------f-------p~~~V~pFG 184 (563)
.|++.++.. +++|..+++. +-++++|.+.|+.++..|++++.+. . .+++|++||
T Consensus 62 ~Pt~~d~~~--------s~~L~~~L~~~~~fes~ee~~kR~~vL~~L~~iv~~wv~~vs~~k~~~~~~~~~~~g~I~tfG 133 (593)
T PTZ00418 62 GPTEEDLKL--------SNELINLLKSYNLYETEEGKKKRERVLGSLNKLVREFVVEASIEQGINEEEASQISGKLFTFG 133 (593)
T ss_pred CCChHHHhh--------hHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCChhHHhcCCeEEEEec
Confidence 466555544 5666666665 4679999999999999999998762 1 258999999
Q ss_pred ceecCCCCCCCccceeeccccCCCCCCcccchhhcccccCCcchHHHHHHHHHHHHHHHhhCCCCCCCCCCCceeeEEec
Q psy10458 185 SSVNNFGKLGCDLDLVLQLDLQSQGDNDQCRLMFHCKSSLGSERSQTLRHLETVGDLLQLFLPGCSQLFLPGCSQVKRIL 264 (563)
Q Consensus 185 S~~~Gl~~~~SDLDl~l~~~~~~~~~~~~~~l~~~~k~~~~~~R~~~~~~L~~l~~~L~~~~p~~s~~~~~g~~~V~~I~ 264 (563)
|+..|++.|+||||.+|+.|.... | ..+...+..+|+. .| ++++++.|.
T Consensus 134 SYrLGV~~pgSDID~L~V~P~~vt-------------------r---edFF~~f~~~L~~-~~--------~V~eL~~V~ 182 (593)
T PTZ00418 134 SYRLGVVAPGSDIDTLCLAPRHIT-------------------R---ESFFSDFYAKLQQ-DP--------NITKLQPVP 182 (593)
T ss_pred cccccCCCCCCcccEEEECCCCCC-------------------H---HHHHHHHHHHHhc-CC--------CcceeeccC
Confidence 999999999999999999997531 2 1355667777776 45 899999999
Q ss_pred CCCeeEEEEeecCCcceEEEeecc-----------------------------hhhhhhHHHHHHHhhcCCCchhHHHHH
Q psy10458 265 GARVPIIKYNHDMSALECDLSMTN-----------------------------LTALYMAELLYLFGEIDWRVRPLVFTI 315 (563)
Q Consensus 265 ~ARVPIIKf~~~~~gi~~DIS~nN-----------------------------~~gl~nS~LL~~y~~~dpr~r~Lv~~I 315 (563)
.|+||||||.. .||+|||.+.. .+|++.+..|....--.+.||.++++|
T Consensus 183 ~A~VPiIk~~~--~GI~iDL~fa~l~~~~vp~~~~~l~d~~lL~nlde~s~rSLNG~Rvtd~Il~lVPn~~~Fr~aLR~I 260 (593)
T PTZ00418 183 DAYTPVIKFVY--DGIDIDLLFANLPLPTIPDCLNSLDDDYILRNVDEKTVRSLNGCRVADLILASVPNKDYFRTTLRFI 260 (593)
T ss_pred ccccCeEEEEE--CCEEEeeeecccCCCCCCccccccCchhhhhcCCHHHhhhhccHHHHHHHHHHCCChHHHHHHHHHH
Confidence 99999999994 79999998861 256677765555444456899999999
Q ss_pred HHHHHHcCCCCCCCCCCcChHHHHHHHHHHhhcCCCCCchhhhhhhhcccCcceeeCCcccccccccccccCCCCCCCCC
Q psy10458 316 KKWAKDINLTNPTPGRWITNFSLTLLVLFYLQSVKVLPPLKLLIDEASLKDRRISEDGVNCTFVRDITKLQFHPSIPEQS 395 (563)
Q Consensus 316 K~Wak~~gL~~~~~G~~LsSYsL~LLVI~fLQ~~pvLP~Lq~l~~~~~~~d~~~~~~g~d~~F~~d~~~l~~~~~~~~~n 395 (563)
|.|||+|||+++..|. |++.+|++||+..||..|
T Consensus 261 KlWAkrRGIYsNv~Gf-lGGV~wAILvARVCQLyP--------------------------------------------- 294 (593)
T PTZ00418 261 KLWAKRRGIYSNVLGY-LGGVSWAILTARICQLYP--------------------------------------------- 294 (593)
T ss_pred HHHHHHhccccccccc-cchHHHHHHHHHHHHhCC---------------------------------------------
Confidence 9999999999999996 999999999999999843
Q ss_pred CCCHHHHHHHHHHhhccCCCCCceEEe--cC-----CC---------CcCCCCCCCeEEecCCCCCCCccccCCHHhHHH
Q psy10458 396 TDSLTTLLFGFFEFYSQYDFNNQGISL--YL-----GS---------PIPKPEHGALYINNPLERGLNVSKNVSFEELER 459 (563)
Q Consensus 396 ~~sl~~LL~~FF~fYs~Fd~~~~vIsi--r~-----G~---------~~~K~~~~~L~I~DPfe~~~NvarnVs~~~~~~ 459 (563)
..+.+.|+..||.+|++|+|.+.++-- .+ |. ..++...+.|.|..|..|..|++.||+..++..
T Consensus 295 na~~s~Lv~~FF~iys~W~Wp~PV~L~~i~~~~~~~g~~~~~VWdPr~~~~dr~h~MPIITPayP~mNst~nVt~sT~~v 374 (593)
T PTZ00418 295 NFAPSQLIHKFFRVYSIWNWKNPVLLCKIKEVPNIPGLMNFKVWDPRVNPQDRAHLMPIITPAFPSMNSTHNVTYTTKRV 374 (593)
T ss_pred CCCHHHHHHHHHHHhhcCCCCCCeEcccccccccCCcccCCcccCCCCCcccccccCCeecCCCCCccccccccHHHHHH
Confidence 245689999999999999999987421 11 21 111223578999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhhhcCCCCCCCCCCCccccccccccCCcC
Q psy10458 460 LKVEVRNASWTLESTANSNNKPSHTPSESWGLLELFKKQNLS 501 (563)
Q Consensus 460 i~~ef~~A~~~L~~~~~~~~~~~~~~~~~wgl~~ll~~~~~~ 501 (563)
|.+||++|..+++....+. ..+| .+||+|.++.
T Consensus 375 I~~Ef~Ra~~i~~~i~~~~-------~~~W--~~Lfep~~Ff 407 (593)
T PTZ00418 375 ITEEFKRAHEIIKYIEKNS-------ENTW--TNVLEPLDFF 407 (593)
T ss_pred HHHHHHHHHHHHHHHHhcC-------CCCH--HHHcCCcchh
Confidence 9999999999999866411 2344 4799998764
No 5
>KOG2245|consensus
Probab=100.00 E-value=2.6e-31 Score=278.81 Aligned_cols=274 Identities=23% Similarity=0.266 Sum_probs=221.5
Q ss_pred HHHHHHHHHHc--CCCHHHHHHHHHHHHHHHHHHHhc---------CC-------CceEEEEcceecCCCCCCCccceee
Q psy10458 140 TQQMTTLHNIT--KMNDINTRLRFLVAYQVELALSGL---------FP-------LCAIFPFGSSVNNFGKLGCDLDLVL 201 (563)
Q Consensus 140 ~~qI~~l~~~~--~pt~~e~~~R~~v~~~L~~il~~~---------fp-------~~~V~pFGS~~~Gl~~~~SDLDl~l 201 (563)
+.+|++.++.. -.+++|...|..|+..|+.++++. .| ++++.+||||..|++.+|+|||-.|
T Consensus 34 t~~L~~~L~~~g~fEs~eEt~~R~~VL~~L~~iVk~wVk~vs~~k~~p~~~~~~aggkIftfGSYRLGVhg~GADIDtLc 113 (562)
T KOG2245|consen 34 TQELIKTLKNEGLFESKEETQRREEVLGKLNQIVKEWVKKVSEQKGLPDGMIENAGGKIFTFGSYRLGVHGPGADIDTLC 113 (562)
T ss_pred HHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCChhhhhhcCceEEeccceeecccCCCCCcceee
Confidence 45555555444 357889999999999999998752 33 5899999999999999999999999
Q ss_pred ccccCCCCCCcccchhhcccccCCcchHHHHHHHHHHHHHHHhhCCCCCCCCCCCceeeEEecCCCeeEEEEeecCCcce
Q psy10458 202 QLDLQSQGDNDQCRLMFHCKSSLGSERSQTLRHLETVGDLLQLFLPGCSQLFLPGCSQVKRILGARVPIIKYNHDMSALE 281 (563)
Q Consensus 202 ~~~~~~~~~~~~~~l~~~~k~~~~~~R~~~~~~L~~l~~~L~~~~p~~s~~~~~g~~~V~~I~~ARVPIIKf~~~~~gi~ 281 (563)
+.|... .|. ++...+.++|+. .| +++++..|..|.||||||. ..||+
T Consensus 114 V~Prhv-------------------~R~---DFF~sf~~mL~~-~~--------eVteL~~V~dAfVPiikfK--f~GI~ 160 (562)
T KOG2245|consen 114 VGPRHV-------------------SRS---DFFTSFYDMLKE-RP--------EVTELHAVEDAFVPIIKFK--FDGIE 160 (562)
T ss_pred eccccc-------------------cHH---HHHHHHHHHHhc-Cc--------cccccccccccccceEEEE--ecCee
Confidence 999752 132 456677888886 45 8999999999999999999 68999
Q ss_pred EEEeecc----------------------------hhhhhhH-HHHHHHhhcCCCchhHHHHHHHHHHHcCCCCCCCCCC
Q psy10458 282 CDLSMTN----------------------------LTALYMA-ELLYLFGEIDWRVRPLVFTIKKWAKDINLTNPTPGRW 332 (563)
Q Consensus 282 ~DIS~nN----------------------------~~gl~nS-~LL~~y~~~dpr~r~Lv~~IK~Wak~~gL~~~~~G~~ 332 (563)
+||-+.. .+|++-| ++|+..-.. ..||..+++||.|||.||++++..| +
T Consensus 161 IDllfArL~l~~VP~dldl~ddslLknlDe~~vrSLNGcRVtdqiL~LVPn~-~~F~~tLRaiKlWAKrrgVYsN~~G-F 238 (562)
T KOG2245|consen 161 IDLLFARLALPVVPEDLDLSDDSLLKNLDERCVRSLNGCRVTDQILKLVPNQ-ENFRITLRAIKLWAKRRGVYSNVMG-F 238 (562)
T ss_pred eeeeehhcccccCCCcccccchHhhhcccHHHHHHhcCcCHHHHHHHhCCCH-HHHHHHHHHHHHHHHhccccccccc-c
Confidence 9997753 3555544 344443222 2699999999999999999999999 6
Q ss_pred cChHHHHHHHHHHhhcCCCCCchhhhhhhhcccCcceeeCCcccccccccccccCCCCCCCCCCCCHHHHHHHHHHhhcc
Q psy10458 333 ITNFSLTLLVLFYLQSVKVLPPLKLLIDEASLKDRRISEDGVNCTFVRDITKLQFHPSIPEQSTDSLTTLLFGFFEFYSQ 412 (563)
Q Consensus 333 LsSYsL~LLVI~fLQ~~pvLP~Lq~l~~~~~~~d~~~~~~g~d~~F~~d~~~l~~~~~~~~~n~~sl~~LL~~FF~fYs~ 412 (563)
|++.+|+|||+..||..| ..+...|+..||.-|++
T Consensus 239 ~GGV~wA~LVARiCQLYP---------------------------------------------NA~~s~Lv~kfF~ifs~ 273 (562)
T KOG2245|consen 239 LGGVAWAMLVARICQLYP---------------------------------------------NASPSTLVAKFFRVFSQ 273 (562)
T ss_pred cchHHHHHHHHHHHccCC---------------------------------------------CcchHHHHHHHHHHHhh
Confidence 999999999999999843 23457899999999999
Q ss_pred CCCCCceEE--ecCCCC---------cCCCCCCCeEEecCCCCCCCccccCCHHhHHHHHHHHHHHHHHHHhhhcCCCCC
Q psy10458 413 YDFNNQGIS--LYLGSP---------IPKPEHGALYINNPLERGLNVSKNVSFEELERLKVEVRNASWTLESTANSNNKP 481 (563)
Q Consensus 413 Fd~~~~vIs--ir~G~~---------~~K~~~~~L~I~DPfe~~~NvarnVs~~~~~~i~~ef~~A~~~L~~~~~~~~~~ 481 (563)
|+|.+.++- +.+|.. .+....+.|.|+.|..|..|.+.|||.+++..|++||.+|..+++....++
T Consensus 274 W~WP~PVlL~~ie~~~L~~~VWdPr~n~~DryHlMPIITPAyP~~nsthNVS~ST~~Vi~~Ef~~g~~I~~~i~~~k--- 350 (562)
T KOG2245|consen 274 WNWPNPVLLKPIEEGNLNLPVWDPRVNPSDRYHLMPIITPAYPQMNSTHNVSRSTLKVITEEFKRGLEICDDIELNK--- 350 (562)
T ss_pred ccCCCceEeccccccccCccccCCCCCCCCcceecccccCCcccccccccccHHHHHHHHHHHHHHHHHHHHHHhcc---
Confidence 999999865 222322 222335789999999999999999999999999999999999999999875
Q ss_pred CCCCCCccccccccccCCcCcc
Q psy10458 482 SHTPSESWGLLELFKKQNLSEK 503 (563)
Q Consensus 482 ~~~~~~~wgl~~ll~~~~~~~~ 503 (563)
. .|.+||++.++.++
T Consensus 351 -----~--~W~~LFE~~~FF~r 365 (562)
T KOG2245|consen 351 -----L--DWSDLFELYNFFSR 365 (562)
T ss_pred -----c--cHHHHhhhhHHHHH
Confidence 3 46689999888554
No 6
>COG5186 PAP1 Poly(A) polymerase [RNA processing and modification]
Probab=99.91 E-value=1.1e-23 Score=213.34 Aligned_cols=274 Identities=18% Similarity=0.202 Sum_probs=210.9
Q ss_pred HHHHHHHHHHHcC--CCHHHHHHHHHHHHHHHHHHHhcC----------------CCceEEEEcceecCCCCCCCcccee
Q psy10458 139 ITQQMTTLHNITK--MNDINTRLRFLVAYQVELALSGLF----------------PLCAIFPFGSSVNNFGKLGCDLDLV 200 (563)
Q Consensus 139 l~~qI~~l~~~~~--pt~~e~~~R~~v~~~L~~il~~~f----------------p~~~V~pFGS~~~Gl~~~~SDLDl~ 200 (563)
|+.+|++-++.-. -++.|-+.|..++..|+.+++++. .+.+++.|||+..|++.||||||..
T Consensus 25 Ln~~li~eLk~~g~FE~~~E~~~Rv~VL~~Lq~~~~eFV~~vs~~K~m~dgmar~aGGKIFTyGSYRLGVhgpGsDIDtL 104 (552)
T COG5186 25 LNGELIKELKERGFFEDDKEGQTRVRVLGKLQFMVREFVARVSRNKGMGDGMARPAGGKIFTYGSYRLGVHGPGSDIDTL 104 (552)
T ss_pred hhHHHHHHHHHcCCcCCchhhhhHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCCceeeeecceeeeccCCCCCcceE
Confidence 4455555444433 467888899999999999887632 1579999999999999999999999
Q ss_pred eccccCCCCCCcccchhhcccccCCcchHHHHHHHHHHHHHHHhhCCCCCCCCCCCceeeEEecCCCeeEEEEeecCCcc
Q psy10458 201 LQLDLQSQGDNDQCRLMFHCKSSLGSERSQTLRHLETVGDLLQLFLPGCSQLFLPGCSQVKRILGARVPIIKYNHDMSAL 280 (563)
Q Consensus 201 l~~~~~~~~~~~~~~l~~~~k~~~~~~R~~~~~~L~~l~~~L~~~~p~~s~~~~~g~~~V~~I~~ARVPIIKf~~~~~gi 280 (563)
++.|.... |. ++...+...|+. .| .+.++-.|+.|-|||||+. ..||
T Consensus 105 vvVPkHVs-------------------R~---dFFt~f~~~Lre-r~--------ei~eva~vpDAfVPIIK~K--F~GI 151 (552)
T COG5186 105 VVVPKHVS-------------------RS---DFFTHFYEELRE-RP--------EIEEVAKVPDAFVPIIKLK--FQGI 151 (552)
T ss_pred EEeccccc-------------------HH---HHHHHHHHHhcc-Cc--------chhhhccCCcccceeEEEE--ecCc
Confidence 99987521 21 234456667775 34 7788899999999999999 5899
Q ss_pred eEEEeecch-------------------------hhhhhHHHHHHHhhcCC---CchhHHHHHHHHHHHcCCCCCCCCCC
Q psy10458 281 ECDLSMTNL-------------------------TALYMAELLYLFGEIDW---RVRPLVFTIKKWAKDINLTNPTPGRW 332 (563)
Q Consensus 281 ~~DIS~nN~-------------------------~gl~nS~LL~~y~~~dp---r~r~Lv~~IK~Wak~~gL~~~~~G~~ 332 (563)
.+|+-|... .++.-|+.-....++-| -|+..+++||+||+.|.++.+..| +
T Consensus 152 sIDLifARLs~P~Vp~~l~Lsd~nLLk~~dEkcilsLNGtRVTDeiL~LVP~~~vF~~ALRaIK~WAqRRavYaN~~G-f 230 (552)
T COG5186 152 SIDLIFARLSIPVVPDGLNLSDDNLLKSMDEKCILSLNGTRVTDEILNLVPSVKVFHSALRAIKYWAQRRAVYANPYG-F 230 (552)
T ss_pred cceeeeeeccCCcCCCcccccchhhhhcchHHHHHhhcCceehHHHHHhCCchHHHHHHHHHHHHHHHhhhhhccccC-C
Confidence 999977631 12222233333444455 478899999999999999988888 5
Q ss_pred cChHHHHHHHHHHhhcCCCCCchhhhhhhhcccCcceeeCCcccccccccccccCCCCCCCCCCCCHHHHHHHHHHhhcc
Q psy10458 333 ITNFSLTLLVLFYLQSVKVLPPLKLLIDEASLKDRRISEDGVNCTFVRDITKLQFHPSIPEQSTDSLTTLLFGFFEFYSQ 412 (563)
Q Consensus 333 LsSYsL~LLVI~fLQ~~pvLP~Lq~l~~~~~~~d~~~~~~g~d~~F~~d~~~l~~~~~~~~~n~~sl~~LL~~FF~fYs~ 412 (563)
.++.+|.|||+..||..| ..+-..++..||+.+++
T Consensus 231 pGGVAwam~VARiCQLYP---------------------------------------------NA~S~vIv~kFF~ils~ 265 (552)
T COG5186 231 PGGVAWAMCVARICQLYP---------------------------------------------NASSFVIVCKFFEILSS 265 (552)
T ss_pred cchHHHHHHHHHHHhhcc---------------------------------------------CcchHhHHHHHHHHHHh
Confidence 999999999999999843 11225689999999999
Q ss_pred CCCCCceEE--ecCCC---------CcCCCCCCCeEEecCCCCCCCccccCCHHhHHHHHHHHHHHHHHHHhhhcCCCCC
Q psy10458 413 YDFNNQGIS--LYLGS---------PIPKPEHGALYINNPLERGLNVSKNVSFEELERLKVEVRNASWTLESTANSNNKP 481 (563)
Q Consensus 413 Fd~~~~vIs--ir~G~---------~~~K~~~~~L~I~DPfe~~~NvarnVs~~~~~~i~~ef~~A~~~L~~~~~~~~~~ 481 (563)
|+|.+.+|- |..|- ..+....++|.|+.|..|+...+.|++.++...|..||-+|..++.+...+.
T Consensus 266 WnWPqPviLkPieDgplqvrvWnPKvYpsDk~HRMPvITPAYPSMCATHNit~STq~vIl~EfvRa~~I~~di~~n~--- 342 (552)
T COG5186 266 WNWPQPVILKPIEDGPLQVRVWNPKVYPSDKYHRMPVITPAYPSMCATHNITNSTQHVILMEFVRAHKILSDIERNA--- 342 (552)
T ss_pred cCCCCCeEeeeccCCCeeEEeeCCccCcccccccCccccCCchhhhhhccccchhhhhHHHHHHHHHHhhhhHhhcc---
Confidence 999999876 33332 2233346899999999999999999999999999999999999999998775
Q ss_pred CCCCCCccccccccccCCcC
Q psy10458 482 SHTPSESWGLLELFKKQNLS 501 (563)
Q Consensus 482 ~~~~~~~wgl~~ll~~~~~~ 501 (563)
.+ |.+||+-+++-
T Consensus 343 -----~~--w~~lFek~DFF 355 (552)
T COG5186 343 -----LD--WRRLFEKSDFF 355 (552)
T ss_pred -----cc--HHHHHHhhhHH
Confidence 33 55788887764
No 7
>cd05402 NT_PAP_TUTase Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases. Poly(A) polymerases (PAPs) catalyze mRNA poly(A) tail synthesis, and terminal uridylyl transferases (TUTases) uridylate RNA. PAPs in this subgroup include human PAP alpha, mouse testis-specific cytoplasmic PAP beta, human nuclear PAP gamma, Saccharomyces cerevisiae PAP1, TRF4 and-5, Schizosaccharomyces pombe caffeine-induced death proteins -1, and -14, Caenorhabditis elegans Germ Line Development-2, and Chlamydomonas reinhardtii MUT68. This family also includes human U6 snRNA-specific TUTase1, and Trypanosoma brucei 3'-TUTase-1,-2, and 4. This family belongs to the Pol beta-like NT superfamily. In the majority of enzymes in this superfamily, two carboxylates, Dx[D/E], together with a third more distal carboxylate, coordinate two divalent metal cations involved in a two-metal ion mechanism of nucleotide addition. For the majority of proteins in this family, these carboxyla
Probab=99.89 E-value=9.1e-23 Score=181.33 Aligned_cols=114 Identities=30% Similarity=0.433 Sum_probs=101.1
Q ss_pred HHHHHHHHHHHHHHhcCCCceEEEEcceecCCCCCCCccceeeccccCCCCCCcccchhhcccccCCcchHHHHHHHHHH
Q psy10458 159 LRFLVAYQVELALSGLFPLCAIFPFGSSVNNFGKLGCDLDLVLQLDLQSQGDNDQCRLMFHCKSSLGSERSQTLRHLETV 238 (563)
Q Consensus 159 ~R~~v~~~L~~il~~~fp~~~V~pFGS~~~Gl~~~~SDLDl~l~~~~~~~~~~~~~~l~~~~k~~~~~~R~~~~~~L~~l 238 (563)
.|..+++.|++++++.+|++++++|||+++|+++++||||+++..+.. . ....+.+..+
T Consensus 1 ~r~~i~~~l~~~i~~~~~~~~v~~fGS~~~g~~~~~SDiDl~i~~~~~-~--------------------~~~~~~l~~l 59 (114)
T cd05402 1 KREEVLDRLQELIKEWFPGAKLYPFGSYVTGLGLPGSDIDLCLLGPNH-R--------------------VDREDFLRKL 59 (114)
T ss_pred CHHHHHHHHHHHHHHHCCCCEEEEecccccCCCCCCCCeeEEEEeCCC-C--------------------ccHHHHHHHH
Confidence 378899999999999999999999999999999999999999999863 0 0124678889
Q ss_pred HHHHHhhCCCCCCCCCCCceeeEEecCCCeeEEEEeecCCcceEEEeecchhhhhhHHHHHHHh
Q psy10458 239 GDLLQLFLPGCSQLFLPGCSQVKRILGARVPIIKYNHDMSALECDLSMTNLTALYMAELLYLFG 302 (563)
Q Consensus 239 ~~~L~~~~p~~s~~~~~g~~~V~~I~~ARVPIIKf~~~~~gi~~DIS~nN~~gl~nS~LL~~y~ 302 (563)
++.|+... .+.++..|.+|||||||+.|..+|+.||||++|.+|++||++++.|+
T Consensus 60 ~~~l~~~~---------~~~~~~~i~~ArVPiik~~~~~~~i~~Dis~~~~~g~~~s~li~~y~ 114 (114)
T cd05402 60 AKLLKKSG---------EVVEVEPIINARVPIIKFVDKPTGIEVDISFNNLNGIRNTKLLRAYV 114 (114)
T ss_pred HHHHHhCC---------CceeeEEeccCCCCEEEEEEcCCCeEEEEEcccchHHHHHHHHHHhC
Confidence 99998742 36688899999999999999999999999999999999999999984
No 8
>PF04928 PAP_central: Poly(A) polymerase central domain; InterPro: IPR007012 In eukaryotes, polyadenylation of pre-mRNA plays an essential role in the initiation step of protein synthesis, as well as in the export and stability of mRNAs. Poly(A) polymerase, the enzyme at the heart of the polyadenylation machinery, is a template-independent RNA polymerase which specifically incorporates ATP at the 3' end of mRNA. The crystal structure of bovine poly(A) polymerase bound to an ATP analog at 2.5 A resolutio has been determined []. The structure revealed expected and unexpected similarities to other proteins. As expected, the catalytic domain of poly(A) polymerase shares substantial structural homology with other nucleotidyl transferases such as DNA polymerase beta and kanamycin transferase. The central domain of Poly(A) polymerase shares structural similarity with the allosteric activity domain of ribonucleotide reductase R1, which comprises a four-helix bundle and a three-stranded mixed beta-sheet. Even though the two enzymes bind ATP, the ATP-recognition motifs are different.; GO: 0004652 polynucleotide adenylyltransferase activity, 0006351 transcription, DNA-dependent; PDB: 1Q79_A 1Q78_A 1F5A_A 2O1P_A 2HHP_A 3C66_B 1FA0_A 2Q66_A.
Probab=99.84 E-value=3.6e-21 Score=193.47 Aligned_cols=155 Identities=23% Similarity=0.270 Sum_probs=108.5
Q ss_pred chhhhhhHHHHHHHhhcCCCchhHHHHHHHHHHHcCCCCCCCCCCcChHHHHHHHHHHhhcCCCCCchhhhhhhhcccCc
Q psy10458 288 NLTALYMAELLYLFGEIDWRVRPLVFTIKKWAKDINLTNPTPGRWITNFSLTLLVLFYLQSVKVLPPLKLLIDEASLKDR 367 (563)
Q Consensus 288 N~~gl~nS~LL~~y~~~dpr~r~Lv~~IK~Wak~~gL~~~~~G~~LsSYsL~LLVI~fLQ~~pvLP~Lq~l~~~~~~~d~ 367 (563)
..+|++.+..|.....-...||.++++||.||++|||+++..|. |++++|++||++.||..|
T Consensus 89 sLnG~Rv~~~il~~Vp~~~~Fr~~lR~IK~WAk~RGIYsn~~Gy-lGGI~waILvArvcql~P----------------- 150 (254)
T PF04928_consen 89 SLNGVRVTDYILRLVPNQETFRTALRFIKLWAKRRGIYSNVFGY-LGGIHWAILVARVCQLYP----------------- 150 (254)
T ss_dssp HHHHHHHHHHHHCTSS-HHHHHHHHHHHHHHHHHTT-B-CCCTS-B-HHHHHHHHHHHHHHST-----------------
T ss_pred CcccccHHHHHHHHCCCHHHHHHHHHHHHHHHHHccccchhhcc-chHHHHHHHHHHHHHHCc-----------------
Confidence 35677777666554433468999999999999999999999996 999999999999999842
Q ss_pred ceeeCCcccccccccccccCCCCCCCCCCCCHHHHHHHHHHhhccCCCCCceEEe--cCCCC---cCCC------CCCCe
Q psy10458 368 RISEDGVNCTFVRDITKLQFHPSIPEQSTDSLTTLLFGFFEFYSQYDFNNQGISL--YLGSP---IPKP------EHGAL 436 (563)
Q Consensus 368 ~~~~~g~d~~F~~d~~~l~~~~~~~~~n~~sl~~LL~~FF~fYs~Fd~~~~vIsi--r~G~~---~~K~------~~~~L 436 (563)
..+.+.||..||.+|++|||.+.++-- ..+.. ...| ..++|
T Consensus 151 ----------------------------n~~~~~ll~~FF~~ys~W~W~~PV~l~~~~~~~~~~~~w~p~~~~~~~~~~M 202 (254)
T PF04928_consen 151 ----------------------------NASPSTLLSRFFQIYSQWDWPNPVVLDPIEDGPLGFKVWNPRLYPRDRRHLM 202 (254)
T ss_dssp ----------------------------T--HHHHHHHHHHHHHCS-TTS-EESS-----SSSCGS--TTT-HHHHC-SS
T ss_pred ----------------------------cccccchHHHHHHHhcCCCCCCceeecccccCcccccCCCCCCCCCCcccce
Confidence 234678999999999999999976431 11221 1112 26899
Q ss_pred EEecCCCCCCCccccCCHHhHHHHHHHHHHHHHHHHhhhcCCCCCCCCCCCccccccccccC
Q psy10458 437 YINNPLERGLNVSKNVSFEELERLKVEVRNASWTLESTANSNNKPSHTPSESWGLLELFKKQ 498 (563)
Q Consensus 437 ~I~DPfe~~~NvarnVs~~~~~~i~~ef~~A~~~L~~~~~~~~~~~~~~~~~wgl~~ll~~~ 498 (563)
+|.+|..|..|++.||+.+++..|++||++|+.+++...... .. |..||+|+
T Consensus 203 pIiTP~yP~~Nst~nVt~st~~~i~~Ef~ra~~i~~~~~~~~--------~~--W~~L~e~~ 254 (254)
T PF04928_consen 203 PIITPAYPSMNSTYNVTRSTLRIIREEFQRAHEILSEILKGG--------AS--WSDLFEPH 254 (254)
T ss_dssp -EE-SSSS--BTTTT--HHHHHHHHHHHHHHHHHHHHHHTTS--------S---HHHCT---
T ss_pred eEccCCCCccccccccCHHHHHHHHHHHHHHHHHHHHHHcCC--------CC--HHHHcCCC
Confidence 999999999999999999999999999999999999988543 34 55788763
No 9
>TIGR03671 cca_archaeal CCA-adding enzyme.
Probab=99.70 E-value=2.6e-15 Score=159.23 Aligned_cols=234 Identities=16% Similarity=0.110 Sum_probs=154.3
Q ss_pred HHHHHHcCCCHHHHHHHHHHHHH----HHHHHHhcCCCceEEEEcceecCCCCC-CCccceeeccccCCCCCCcccchhh
Q psy10458 144 TTLHNITKMNDINTRLRFLVAYQ----VELALSGLFPLCAIFPFGSSVNNFGKL-GCDLDLVLQLDLQSQGDNDQCRLMF 218 (563)
Q Consensus 144 ~~l~~~~~pt~~e~~~R~~v~~~----L~~il~~~fp~~~V~pFGS~~~Gl~~~-~SDLDl~l~~~~~~~~~~~~~~l~~ 218 (563)
...++.+.||++|.+.-..+++. |++.+.+..+++.|..|||++-|++++ +||||+++.++....
T Consensus 3 ~~vl~~i~Ps~eE~~~~~~~~~~l~~~l~~~~~e~~~~~~v~~~GS~ArgT~L~G~sDIDIfi~f~~~~~---------- 72 (408)
T TIGR03671 3 EEVLERIKPTEEEREKLKKVADELIARLEEIIEELGVDAEVVLVGSYARGTWLKGDRDIDIFILFPKDTS---------- 72 (408)
T ss_pred HHHhhhcCCCHHHHHHHHHHHHHHHHHHHHHHHhcCCcceEEEEeeEecCCccCCCCceeEEEEeCCCCC----------
Confidence 45677899999997766555544 455555566789999999999999999 899999999976421
Q ss_pred cccccCCcchHHHHHHHHHHHHHHHhhCCCCCCCCCCCceeeEEecCCCeeEEEEeecCCcceEEE--eecch------h
Q psy10458 219 HCKSSLGSERSQTLRHLETVGDLLQLFLPGCSQLFLPGCSQVKRILGARVPIIKYNHDMSALECDL--SMTNL------T 290 (563)
Q Consensus 219 ~~k~~~~~~R~~~~~~L~~l~~~L~~~~p~~s~~~~~g~~~V~~I~~ARVPIIKf~~~~~gi~~DI--S~nN~------~ 290 (563)
+.+..+....|+..+....+ .. ....|-.|-|+... .|++||| |+.-. +
T Consensus 73 ---------~e~l~~~gl~i~~~~~~~~~--------~~----~~~yaeHpYv~~~~--~G~~VDiVPcy~v~~g~~~~t 129 (408)
T TIGR03671 73 ---------REELEEYGLEIGHEVLKRGG--------NY----EERYAEHPYVSGEI--EGFEVDVVPCYKVESGEEIIS 129 (408)
T ss_pred ---------HHHHHHHHHHHHHHHHhhCC--------CH----hheeccCceEEEEE--ccEEEEEEeeEEccCcCeeec
Confidence 11222222233333322111 11 14478889999885 4999999 23211 2
Q ss_pred hhhhHHHHHHH--hhcCCCchhHHHHHHHHHHHcCCCCC--CCCCCcChHHHHHHHHHHhhcCCCCCchhhhhhhhcccC
Q psy10458 291 ALYMAELLYLF--GEIDWRVRPLVFTIKKWAKDINLTNP--TPGRWITNFSLTLLVLFYLQSVKVLPPLKLLIDEASLKD 366 (563)
Q Consensus 291 gl~nS~LL~~y--~~~dpr~r~Lv~~IK~Wak~~gL~~~--~~G~~LsSYsL~LLVI~fLQ~~pvLP~Lq~l~~~~~~~d 366 (563)
++.-|.|-..| ..++..++..|+++|.|+|..|++++ ..+| ||||..-|||++|---.
T Consensus 130 aVDRtp~H~~fv~~rl~~~~~d~VRLlK~f~k~igvYGsE~~~~G-FSGYl~ELLv~~yG~F~----------------- 191 (408)
T TIGR03671 130 AVDRTPFHTRYVLERLDGKLRDDVRLLKQFLKGIGVYGSELKTRG-FSGYLCELLVIHYGSFE----------------- 191 (408)
T ss_pred cccCchHHHHHHHHhhhhhHHHHHHHHHHHHHhCCccchhhccCC-ccHHHHHHHHHHhCCHH-----------------
Confidence 22223333223 23455689999999999999999976 6787 99999999999962211
Q ss_pred cceeeCCcccccccccccccCCCCCCCCCCCCHHHHHHHHHHhhccCCCCCceEEecCCCCcCCCCCCCeEEecCCCCCC
Q psy10458 367 RRISEDGVNCTFVRDITKLQFHPSIPEQSTDSLTTLLFGFFEFYSQYDFNNQGISLYLGSPIPKPEHGALYINNPLERGL 446 (563)
Q Consensus 367 ~~~~~~g~d~~F~~d~~~l~~~~~~~~~n~~sl~~LL~~FF~fYs~Fd~~~~vIsir~G~~~~K~~~~~L~I~DPfe~~~ 446 (563)
.++..+- .|.. ...|.+. ....+.-..||.|.||.||.+
T Consensus 192 ----------------------------------~~l~~a~----~wk~-~~~id~~--~~~~~~f~~PlvViDPvDp~R 230 (408)
T TIGR03671 192 ----------------------------------NVLKAAS----KWKP-GVVIDIE--EHGTKKFDDPLVVIDPVDPKR 230 (408)
T ss_pred ----------------------------------HHHHHHH----hcCC-CeEEecC--ccccccCCCCEEEeCCCCCcc
Confidence 1111111 1111 1122221 111122257999999999999
Q ss_pred CccccCCHHhHHHHHHHHHHHHH
Q psy10458 447 NVSKNVSFEELERLKVEVRNASW 469 (563)
Q Consensus 447 NvarnVs~~~~~~i~~ef~~A~~ 469 (563)
|||+++|...+.+|..+.+++..
T Consensus 231 NVAaalS~~~~~~fv~aar~fl~ 253 (408)
T TIGR03671 231 NVAAALSLENLARFILAARMFLK 253 (408)
T ss_pred hHHHHcCHHHHHHHHHHHHHHHH
Confidence 99999999999999999988863
No 10
>PRK13300 tRNA CCA-pyrophosphorylase; Provisional
Probab=99.65 E-value=2.5e-14 Score=153.89 Aligned_cols=234 Identities=15% Similarity=0.144 Sum_probs=154.0
Q ss_pred HHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhc----CCCceEEEEcceecCCCCC-CCccceeeccccCCCCCCcccchh
Q psy10458 143 MTTLHNITKMNDINTRLRFLVAYQVELALSGL----FPLCAIFPFGSSVNNFGKL-GCDLDLVLQLDLQSQGDNDQCRLM 217 (563)
Q Consensus 143 I~~l~~~~~pt~~e~~~R~~v~~~L~~il~~~----fp~~~V~pFGS~~~Gl~~~-~SDLDl~l~~~~~~~~~~~~~~l~ 217 (563)
+...++.+.||++|.+.-..+++.|...+++. -.++.|.++||++-|++++ +|||||++.++....
T Consensus 3 ~~evl~~i~Ps~eE~~~l~~~~~~l~~~L~~~~~~~~~~~~V~l~GS~ArgT~L~GdsDIDIFv~fp~~~~--------- 73 (447)
T PRK13300 3 LEEVLERIKPTEEEREKLKKVAEELIERLEEAIKELGLDAEVELVGSTARGTWLSGDRDIDIFVLFPKDTS--------- 73 (447)
T ss_pred HHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHhcCCceEEEEEeeecCCcccCCCCceeEEEEeCCCCC---------
Confidence 34667899999999876666665555555543 2359999999999999999 689999999976421
Q ss_pred hcccccCCcchHHHHHH-HHHHHHHHHhhCCCCCCCCCCCceeeEEecCCCeeEEEEeecCCcceEEE--eec--c----
Q psy10458 218 FHCKSSLGSERSQTLRH-LETVGDLLQLFLPGCSQLFLPGCSQVKRILGARVPIIKYNHDMSALECDL--SMT--N---- 288 (563)
Q Consensus 218 ~~~k~~~~~~R~~~~~~-L~~l~~~L~~~~p~~s~~~~~g~~~V~~I~~ARVPIIKf~~~~~gi~~DI--S~n--N---- 288 (563)
+....+. ++....+++.+.| .. .++ .|-.|-|+... .|++||| |++ .
T Consensus 74 ----------~e~L~~~gl~i~~~~~~~~~~--------~~-~~~---yaeHpyv~~~~--~G~~VDiVPcy~v~~~~~~ 129 (447)
T PRK13300 74 ----------REELEEKGLEIGKEVAKELLG--------DY-EER---YAEHPYVTGEI--DGFEVDIVPCYKVESGEEI 129 (447)
T ss_pred ----------HHHHHHHHHHHHHHHHHhhCC--------cc-eee---eccCceEEEEE--CCEEEEEEeeEEccCcCcc
Confidence 1111222 2222333344333 21 232 59999999985 5999999 232 1
Q ss_pred hhhhhhHHHHHHH--hhcCCCchhHHHHHHHHHHHcCCCCC--CCCCCcChHHHHHHHHHHhhcCCCCCchhhhhhhhcc
Q psy10458 289 LTALYMAELLYLF--GEIDWRVRPLVFTIKKWAKDINLTNP--TPGRWITNFSLTLLVLFYLQSVKVLPPLKLLIDEASL 364 (563)
Q Consensus 289 ~~gl~nS~LL~~y--~~~dpr~r~Lv~~IK~Wak~~gL~~~--~~G~~LsSYsL~LLVI~fLQ~~pvLP~Lq~l~~~~~~ 364 (563)
.+++.-|.+-..| ..++..++..|+++|.|+|..|++++ ..+| ||||..-|||++|---..
T Consensus 130 ~saVDRtp~H~~fv~~rl~~~~~d~VRLlK~f~k~~gvYGsE~k~~G-FSGYl~ELLv~~yG~F~~-------------- 194 (447)
T PRK13300 130 ISAVDRTPFHTKYVKERLKGKLEDEVRLLKQFLKGIGVYGSELKTRG-FSGYLCELLIIHYGSFEN-------------- 194 (447)
T ss_pred cccccCchHHHHHHHHhhhhhHHHHHHHHHHHHHhCCccchhhccCC-ccHHHHHHHHHHhCCHHH--------------
Confidence 1333223333333 23456699999999999999999976 6788 999999999999632211
Q ss_pred cCcceeeCCcccccccccccccCCCCCCCCCCCCHHHHHHHHHHhhccCCCCCceEEecCCCCcCCCCCCCeEEecCCCC
Q psy10458 365 KDRRISEDGVNCTFVRDITKLQFHPSIPEQSTDSLTTLLFGFFEFYSQYDFNNQGISLYLGSPIPKPEHGALYINNPLER 444 (563)
Q Consensus 365 ~d~~~~~~g~d~~F~~d~~~l~~~~~~~~~n~~sl~~LL~~FF~fYs~Fd~~~~vIsir~G~~~~K~~~~~L~I~DPfe~ 444 (563)
+|..+= .|.. ...|.+...+.. ..-..||.|.||.||
T Consensus 195 -------------------------------------~l~~a~----~w~~-~~~I~~~~~~~~-~~f~~PlvViDPvDp 231 (447)
T PRK13300 195 -------------------------------------VLKAAS----KWKP-PVKIDLEKHGKE-YKFDDPLVVIDPVDP 231 (447)
T ss_pred -------------------------------------HHHHHH----hCCC-CceEeccccCcc-ccCCCCEEEeCCCCC
Confidence 111111 1211 123333322111 122579999999999
Q ss_pred CCCccccCCHHhHHHHHHHHHHH
Q psy10458 445 GLNVSKNVSFEELERLKVEVRNA 467 (563)
Q Consensus 445 ~~NvarnVs~~~~~~i~~ef~~A 467 (563)
.+|||.++|...+.+|..+.+.=
T Consensus 232 ~RNVAaa~S~~~~~~fv~aar~f 254 (447)
T PRK13300 232 NRNVAAALSLENLATFILAAREF 254 (447)
T ss_pred cchHHHHcCHHHHHHHHHHHHHH
Confidence 99999999999999888877654
No 11
>COG1746 CCA1 tRNA nucleotidyltransferase (CCA-adding enzyme) [Translation, ribosomal structure and biogenesis]
Probab=99.53 E-value=1.1e-12 Score=137.71 Aligned_cols=236 Identities=17% Similarity=0.161 Sum_probs=164.6
Q ss_pred cHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHH----HhcCCCceEEEEcceecCCCCC-CCccceeeccccCCCCCCc
Q psy10458 138 TITQQMTTLHNITKMNDINTRLRFLVAYQVELAL----SGLFPLCAIFPFGSSVNNFGKL-GCDLDLVLQLDLQSQGDND 212 (563)
Q Consensus 138 ~l~~qI~~l~~~~~pt~~e~~~R~~v~~~L~~il----~~~fp~~~V~pFGS~~~Gl~~~-~SDLDl~l~~~~~~~~~~~ 212 (563)
++.+.+...++.++||++|.+.-..+.+.|...+ .+.-.++.+...||++-|++++ +.|||++|.+|....
T Consensus 2 ~~~~~l~evl~~i~P~~eE~~~~~~~~e~l~~~~~~~~~e~~~~aev~lVGS~AkgTwL~gd~DIDvFi~Fp~d~~---- 77 (443)
T COG1746 2 TLEEVLEEVLKRIKPTEEERKKLKEVAEELRERINEIIEELGIDAEVVLVGSYAKGTWLRGDHDIDVFIAFPKDTS---- 77 (443)
T ss_pred chHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHhcCCcceEEEEeecccCcccCCCcceeEEEECCCCCC----
Confidence 4567788899999999999876666665555544 4445689999999999999999 579999999997521
Q ss_pred ccchhhcccccCCcchHH-HHHHHHHHHHHHHhhCCCCCCCCCCCceeeEEecCCCeeEEEEeecCCcceEEEe--ec--
Q psy10458 213 QCRLMFHCKSSLGSERSQ-TLRHLETVGDLLQLFLPGCSQLFLPGCSQVKRILGARVPIIKYNHDMSALECDLS--MT-- 287 (563)
Q Consensus 213 ~~~l~~~~k~~~~~~R~~-~~~~L~~l~~~L~~~~p~~s~~~~~g~~~V~~I~~ARVPIIKf~~~~~gi~~DIS--~n-- 287 (563)
+.+ ...-|+....+|.. .+ + .+..|-.|.|... ..|++|||- ++
T Consensus 78 ---------------~eel~~~GL~ig~~~l~~-~~--------~-----~~~YAeHPYV~g~--v~G~eVDvVPCy~v~ 126 (443)
T COG1746 78 ---------------EEELEEKGLEIGREVLKR-GN--------Y-----EERYAEHPYVTGE--VDGYEVDVVPCYKVE 126 (443)
T ss_pred ---------------HHHHHHHHHHHHHHHhcC-Cc--------h-----hhhhccCCeeEEE--EccEEEEEEeccccc
Confidence 111 11234444455543 11 1 3568999999998 469999993 32
Q ss_pred ----chhhhhhHHHHHHHh--hcCCCchhHHHHHHHHHHHcCCCCC--CCCCCcChHHHHHHHHHHhhcCCCCCchhhhh
Q psy10458 288 ----NLTALYMAELLYLFG--EIDWRVRPLVFTIKKWAKDINLTNP--TPGRWITNFSLTLLVLFYLQSVKVLPPLKLLI 359 (563)
Q Consensus 288 ----N~~gl~nS~LL~~y~--~~dpr~r~Lv~~IK~Wak~~gL~~~--~~G~~LsSYsL~LLVI~fLQ~~pvLP~Lq~l~ 359 (563)
-.+|+.-|-|-..|. .++.+.+.=|+++|.+.|.-|++++ ..+| ||+|.--||||+|=--..+|
T Consensus 127 ~~~~~~sAVDRTplHt~yv~e~L~~~~~deVrLLK~FlK~iGvYGaE~rt~G-FSGYL~ELLII~yGsFe~vl------- 198 (443)
T COG1746 127 DGEKIISAVDRTPLHTRYVEEHLKGRQKDEVRLLKQFLKGIGVYGAELRTQG-FSGYLCELLIIHYGSFENVL------- 198 (443)
T ss_pred CcccccccccCcchhHHHHHHHhcccchhHHHHHHHHHhccCccceeeeecc-chHHHHHHHHhhhccHHHHH-------
Confidence 135555555554443 4678888899999999999999987 5787 99999999999875432111
Q ss_pred hhhcccCcceeeCCcccccccccccccCCCCCCCCCCCCHHHHHHHHHHhhccCCCCCceEEecCCCCcCCCCCCCeEEe
Q psy10458 360 DEASLKDRRISEDGVNCTFVRDITKLQFHPSIPEQSTDSLTTLLFGFFEFYSQYDFNNQGISLYLGSPIPKPEHGALYIN 439 (563)
Q Consensus 360 ~~~~~~d~~~~~~g~d~~F~~d~~~l~~~~~~~~~n~~sl~~LL~~FF~fYs~Fd~~~~vIsir~G~~~~K~~~~~L~I~ 439 (563)
+..+.|--. ..|.+..+ .-.+-...||.|.
T Consensus 199 ------------------------------------------------~~a~~wrp~-~~ID~~~~-~~e~f~d~PliVv 228 (443)
T COG1746 199 ------------------------------------------------KAASRWRPG-KIIDLEGH-KRERFEDEPLIVV 228 (443)
T ss_pred ------------------------------------------------HHHhccCCC-eEEeccch-hhhccCCCCeEec
Confidence 111122222 34554433 0111233499999
Q ss_pred cCCCCCCCccccCCHHhHHHHHHHHHH
Q psy10458 440 NPLERGLNVSKNVSFEELERLKVEVRN 466 (563)
Q Consensus 440 DPfe~~~NvarnVs~~~~~~i~~ef~~ 466 (563)
||.||.+|||.+||...+.+|+.+++.
T Consensus 229 DPVDP~RNVAAalSl~~la~f~~aar~ 255 (443)
T COG1746 229 DPVDPKRNVAAALSLENLARFVHAARE 255 (443)
T ss_pred CCCCCccchhhhcCHHHHHHHHHHHHH
Confidence 999999999999999988888776554
No 12
>PF03828 PAP_assoc: Cid1 family poly A polymerase; InterPro: IPR002058 These PAP/25A associated domains are found in uncharacterised eukaryotic proteins, a number of which are described as 'topoisomerase 1-related' though they appear to have little or no homology to topoisomerase 1. The signatures that define this group of sequences often occur towards the C terminus after the PAP/25A core domain IPR001201 from INTERPRO.; PDB: 2B4V_A 2B56_A 2B51_A 4EP7_B 2NOM_B 2Q0G_B 2Q0D_B 2Q0C_A 2Q0F_A 2Q0E_A ....
Probab=99.15 E-value=1.1e-11 Score=97.61 Aligned_cols=49 Identities=39% Similarity=0.742 Sum_probs=41.9
Q ss_pred CHHHHHHHHHHhhc-cCCCCCceEEecCCCCcCCC----------CCCCeEEecCCCCCC
Q psy10458 398 SLTTLLFGFFEFYS-QYDFNNQGISLYLGSPIPKP----------EHGALYINNPLERGL 446 (563)
Q Consensus 398 sl~~LL~~FF~fYs-~Fd~~~~vIsir~G~~~~K~----------~~~~L~I~DPfe~~~ 446 (563)
|||+||.+||+||| .|||.+.+|||+.|+.++|. ...+|+|+|||+++|
T Consensus 1 slg~Ll~~Ff~~Y~~~Fd~~~~~Isi~~g~~~~k~~~~~~~~~~~~~~~l~IeDP~~~~n 60 (60)
T PF03828_consen 1 SLGELLLGFFEYYGRKFDYENNVISIRNGGYFPKEEKNWSKSRNQRKKRLCIEDPFDPSN 60 (60)
T ss_dssp -HHHHHHHHHHHHHHTS-TTTEEEESSSSSEEEHHHHTGCHCCCCECSSSEBBESSSTTE
T ss_pred CHHHHHHHHHHHhCCcCCCCceEEEecCCceEEhhhccccccccCCCCeEEEECCCCCCC
Confidence 58999999999999 99999999999999977652 157999999999874
No 13
>PF09249 tRNA_NucTransf2: tRNA nucleotidyltransferase, second domain; InterPro: IPR015329 This domain adopts a structure consisting of a five helical bundle core. It is predominantly found in Archaeal tRNA nucleotidyltransferases, following the catalytic nucleotidyltransferase domain []. ; GO: 0004810 tRNA adenylyltransferase activity, 0016437 tRNA cytidylyltransferase activity; PDB: 3OUY_B 2ZHB_A 2ZH1_A 2ZH2_A 1UET_A 2ZH7_A 1R8B_A 2DR5_A 1TFW_C 3OVA_A ....
Probab=98.33 E-value=1.3e-06 Score=76.79 Aligned_cols=99 Identities=20% Similarity=0.244 Sum_probs=62.3
Q ss_pred HHHHHHHHHHcCCCCC--CCCCCcChHHHHHHHHHHhhcCCCCCchhhhhhhhcccCcceeeCCcccccccccccccCCC
Q psy10458 312 VFTIKKWAKDINLTNP--TPGRWITNFSLTLLVLFYLQSVKVLPPLKLLIDEASLKDRRISEDGVNCTFVRDITKLQFHP 389 (563)
Q Consensus 312 v~~IK~Wak~~gL~~~--~~G~~LsSYsL~LLVI~fLQ~~pvLP~Lq~l~~~~~~~d~~~~~~g~d~~F~~d~~~l~~~~ 389 (563)
|+++|.++|..|++++ ..+| +|+|..-|||++|=--.++
T Consensus 3 VrLLK~FlK~igvYGse~~~~G-FSGYL~ELLii~yGsF~~~-------------------------------------- 43 (114)
T PF09249_consen 3 VRLLKQFLKGIGVYGSELKTRG-FSGYLCELLIIHYGSFENV-------------------------------------- 43 (114)
T ss_dssp HHHHHHHHHHTT-B-SSTTT-S-B-HHHHHHHHHHHSSHHHH--------------------------------------
T ss_pred hHHHHHHHhcCCCcchhhhcCc-chHHHHHHHHHHHCCHHHH--------------------------------------
Confidence 7899999999999987 5787 9999999999987443211
Q ss_pred CCCCCCCCCHHHHHHHHHHhhccCCCCCceEEecCCCCcCCCCCCCeEEecCCCCCCCccccCCHHhHHHHHHHHHHH
Q psy10458 390 SIPEQSTDSLTTLLFGFFEFYSQYDFNNQGISLYLGSPIPKPEHGALYINNPLERGLNVSKNVSFEELERLKVEVRNA 467 (563)
Q Consensus 390 ~~~~~n~~sl~~LL~~FF~fYs~Fd~~~~vIsir~G~~~~K~~~~~L~I~DPfe~~~NvarnVs~~~~~~i~~ef~~A 467 (563)
++.-+.|.. ...|.+.......+.-..||.|.||.||.+|||.++|...+.+|+..++.-
T Consensus 44 -----------------l~~a~~W~~-~~~Id~~~~~~~~~~f~~PlvviDPvDp~RNVAAalS~~~~~~fv~~ar~f 103 (114)
T PF09249_consen 44 -----------------LEAAAKWKP-PVVIDLEDHGEPSKKFDDPLVVIDPVDPNRNVAAALSLENLAEFVHAAREF 103 (114)
T ss_dssp -----------------HHHHTT--T-TEEEETT-TTE--EEE-SS-EEEETTEEEEETTTTS-HHHHHHHHHHHHHH
T ss_pred -----------------HHHHHhcCC-CeEEccCccchhhhhcCCCeEEcCCCCCCchHhHhcCHHHHHHHHHHHHHH
Confidence 111122221 233444322211122257999999999999999999999998888776653
No 14
>smart00572 DZF domain in DSRM or ZnF_C2H2 domain containing proteins.
Probab=98.28 E-value=2.3e-05 Score=78.37 Aligned_cols=199 Identities=13% Similarity=0.118 Sum_probs=133.7
Q ss_pred eEEEEcceecCCCCCC-CccceeeccccCCCCCCcccchhhcccccCCcchHHHHHHHHHHH----HHHHhhCCCCCCCC
Q psy10458 179 AIFPFGSSVNNFGKLG-CDLDLVLQLDLQSQGDNDQCRLMFHCKSSLGSERSQTLRHLETVG----DLLQLFLPGCSQLF 253 (563)
Q Consensus 179 ~V~pFGS~~~Gl~~~~-SDLDl~l~~~~~~~~~~~~~~l~~~~k~~~~~~R~~~~~~L~~l~----~~L~~~~p~~s~~~ 253 (563)
.|.-.||+..|+-+.| .+.|+++.+...+. ...++.++ +.|+...+
T Consensus 4 gV~rVG~~aKG~ll~Gd~~~~lVv~c~~~PT-----------------------~~ll~~v~~~l~e~l~~~~~------ 54 (246)
T smart00572 4 GVMRVGSFAKGTLLKGDNVAELVLLCKEKPT-----------------------SELVARLARKLPEQLKAVTE------ 54 (246)
T ss_pred ceEEeeeeccCceecCCCceeEEEEecCCCc-----------------------HHHHHHHHHHHHHHHhhcCc------
Confidence 4778999999999886 48999998876421 12233333 33333222
Q ss_pred CCCceeeEEecCCCeeEEEEeecCCc------------------------ceEEEeecchhhhhhHHHHHHHhhcCCCch
Q psy10458 254 LPGCSQVKRILGARVPIIKYNHDMSA------------------------LECDLSMTNLTALYMAELLYLFGEIDWRVR 309 (563)
Q Consensus 254 ~~g~~~V~~I~~ARVPIIKf~~~~~g------------------------i~~DIS~nN~~gl~nS~LL~~y~~~dpr~r 309 (563)
.-.. ..+.....|.+++...-++ ++-+.+.....+++.+++++.-..--..++
T Consensus 55 --~e~~-~~~~~~~~~~~~~~i~ltSp~~r~~~~~~~~~~~~~~~~p~~~ld~~~cl~aLAalRhakWFq~~a~~l~s~~ 131 (246)
T smart00572 55 --DEAL-IIVTSTKEPTMEVGILITSPLARVELLITTVPENLRKLDPEDHLDRKKCLSALASLRHAKWFQARASGLQSCV 131 (246)
T ss_pred --ccce-eeeeccCCCceeEEEEEecccccccccccccCcccccCCccccCCHHHHHHHHHHHHHhHHHHHhccCCcchh
Confidence 1001 1233444454444332111 111223445677888888887776666899
Q ss_pred hHHHHHHHHHHHcCCCCCCCCCCcChHHHHHHHHHHhhcCCCCCchhhhhhhhcccCcceeeCCcccccccccccccCCC
Q psy10458 310 PLVFTIKKWAKDINLTNPTPGRWITNFSLTLLVLFYLQSVKVLPPLKLLIDEASLKDRRISEDGVNCTFVRDITKLQFHP 389 (563)
Q Consensus 310 ~Lv~~IK~Wak~~gL~~~~~G~~LsSYsL~LLVI~fLQ~~pvLP~Lq~l~~~~~~~d~~~~~~g~d~~F~~d~~~l~~~~ 389 (563)
.+++++|.|+++...- ++ |++|.+-|++-+.+-.
T Consensus 132 iviRilKd~~~R~~~~----~p-L~~w~iELl~~~~i~~----------------------------------------- 165 (246)
T smart00572 132 IVIRVLRDLCNRVPTW----QP-LSGWPLELLVEKAIGS----------------------------------------- 165 (246)
T ss_pred hHHHHHHHHHHhcccc----cc-cccccHHHHHHHHhcc-----------------------------------------
Confidence 9999999999986442 34 9999999999764421
Q ss_pred CCCCCCCCCHHHHHHHHHHhhc--cCCCCCceEEecCCCCcCCCCCCCeEEecCCCC-CCCccccCCHHhHHHHHHHHHH
Q psy10458 390 SIPEQSTDSLTTLLFGFFEFYS--QYDFNNQGISLYLGSPIPKPEHGALYINNPLER-GLNVSKNVSFEELERLKVEVRN 466 (563)
Q Consensus 390 ~~~~~n~~sl~~LL~~FF~fYs--~Fd~~~~vIsir~G~~~~K~~~~~L~I~DPfe~-~~NvarnVs~~~~~~i~~ef~~ 466 (563)
.....++++.|..||+|.+ .| |... -.|.||++. .+|++...|..+.+.|....+.
T Consensus 166 ---~~~~l~~~~a~RR~fe~lAsG~l-~p~~-----------------~gI~DPce~~~~nv~~~lT~qqrd~It~sAQ~ 224 (246)
T smart00572 166 ---ARQPLGLGDAFRRVFECLASGIL-LPGS-----------------PGLTDPCEKDNTDALTALTLQQREDVTASAQT 224 (246)
T ss_pred ---CCCCCCHHHHHHHHHHHHHhccC-cCCC-----------------CCCcCCCCCCcccHHHhcCHHHHHHHHHHHHH
Confidence 1234578999999999998 33 3211 357899997 8899999999999999999999
Q ss_pred HHHHHHhhhc
Q psy10458 467 ASWTLESTAN 476 (563)
Q Consensus 467 A~~~L~~~~~ 476 (563)
|.+++.-...
T Consensus 225 alRl~Afgq~ 234 (246)
T smart00572 225 ALRLLAFGQI 234 (246)
T ss_pred HHHHHHhcch
Confidence 9998876543
No 15
>PF03813 Nrap: Nrap protein; InterPro: IPR005554 Members of this family are nucleolar RNA-associated proteins (Nrap) which are highly conserved from yeast (Saccharomyces cerevisiae) to human. In the mouse, Nrap is ubiquitously expressed and is specifically localized in the nucleolus []. Nrap is a large nucleolar protein (of more than 1000 amino acids). Nrap appears to be associated with ribosome biogenesis by interacting with pre-rRNA primary transcript [].
Probab=98.28 E-value=4e-05 Score=91.47 Aligned_cols=139 Identities=17% Similarity=0.201 Sum_probs=105.0
Q ss_pred HHHhhcCCCchhHHHHHHHHHHHcCCCCCC-CCCCcChHHHHHHHHHHhhcCCCCCchhhhhhhhcccCcceeeCCcccc
Q psy10458 299 YLFGEIDWRVRPLVFTIKKWAKDINLTNPT-PGRWITNFSLTLLVLFYLQSVKVLPPLKLLIDEASLKDRRISEDGVNCT 377 (563)
Q Consensus 299 ~~y~~~dpr~r~Lv~~IK~Wak~~gL~~~~-~G~~LsSYsL~LLVI~fLQ~~pvLP~Lq~l~~~~~~~d~~~~~~g~d~~ 377 (563)
+...+..|.|+.-++++|.|+++||+.... .|| +++|-|++|+++.+|.-.. .|.
T Consensus 157 ~~~~~~~p~f~dA~iLlkvWl~QRg~~~~~~~~G-f~~f~~s~lla~Ll~~g~~--------------------~~~--- 212 (972)
T PF03813_consen 157 HEASKSSPAFRDACILLKVWLRQRGFGSGISQGG-FGGFEWSMLLAYLLQGGGR--------------------NGK--- 212 (972)
T ss_pred HHHHhcCHHHHHHHHHHHHHHhcCCCCcccCCCC-cchHHHHHHHHHHHcCCCc--------------------cCC---
Confidence 333455799999999999999999998764 355 9999999999999988210 000
Q ss_pred cccccccccCCCCCCCCCCCCHHHHHHHHHHhhccCCCCCceEEecCCCC-cCC----CCCCCeEEecCCCCCCCccccC
Q psy10458 378 FVRDITKLQFHPSIPEQSTDSLTTLLFGFFEFYSQYDFNNQGISLYLGSP-IPK----PEHGALYINNPLERGLNVSKNV 452 (563)
Q Consensus 378 F~~d~~~l~~~~~~~~~n~~sl~~LL~~FF~fYs~Fd~~~~vIsir~G~~-~~K----~~~~~L~I~DPfe~~~NvarnV 452 (563)
.++ ....|--+++..++.|-+.-||.+.+|.+..-.. .+. .........||-.. .|++..+
T Consensus 213 -----~~l--------~~~mSsyQlFr~~l~fLA~~d~~~~~l~~~~~~~~~~~~~~~~~~~~~vf~D~sg~-~Nl~~~m 278 (972)
T PF03813_consen 213 -----KKL--------SKSMSSYQLFRAVLQFLATTDLSKKPLFFKSSSDSTESLEEFHSAFDPVFVDPSGG-LNLLAKM 278 (972)
T ss_pred -----ccc--------CCCCCHHHHHHHHHHHHhccccccCceEEecCCCccchhhhhhccCCeEEEeCCCC-EEEEEcC
Confidence 001 2235567999999999999999888888765331 110 12456777799874 7999999
Q ss_pred CHHhHHHHHHHHHHHHHHHHhhh
Q psy10458 453 SFEELERLKVEVRNASWTLESTA 475 (563)
Q Consensus 453 s~~~~~~i~~ef~~A~~~L~~~~ 475 (563)
+...++.++.|.+.+..+|....
T Consensus 279 s~~s~~~L~~eA~~tl~lL~~~~ 301 (972)
T PF03813_consen 279 SPSSYEELQHEAKLTLELLDDSS 301 (972)
T ss_pred CHHHHHHHHHHHHHHHHHhcccc
Confidence 99999999999999999998654
No 16
>cd05397 NT_Pol-beta-like Nucleotidyltransferase (NT) domain of DNA polymerase beta and similar proteins. This superfamily includes the NT domains of DNA polymerase beta and other family X DNA polymerases, as well as the NT domains of Class I and Class II CCA-adding enzymes, RelA- and SpoT-like ppGpp synthetases and hydrolases, 2'5'-oligoadenylate (2-5A)synthetases, Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), poly (A) polymerases, terminal uridylyl transferases, and Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins. The Escherichia coli CCA-adding enzyme belongs to this superfamily but is not included as this enzyme lacks the N-terminal helix conserved in the remainder of the superfamily. In the majority of the Pol beta-like superfamily NTs, two carboxylates, Dx[D/E], together with a third more distal carboxylate coordinate two divalent metal cations that are essential for catalysis. These divalent metal ions are
Probab=97.83 E-value=2.6e-05 Score=59.01 Aligned_cols=41 Identities=27% Similarity=0.282 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHhcCCCceEEEEcceecCCCCCCCccceeec
Q psy10458 162 LVAYQVELALSGLFPLCAIFPFGSSVNNFGKLGCDLDLVLQ 202 (563)
Q Consensus 162 ~v~~~L~~il~~~fp~~~V~pFGS~~~Gl~~~~SDLDl~l~ 202 (563)
.+++.+.+.+++.++...++.|||++.|.+.+.||||+++.
T Consensus 2 ~~l~~i~~~l~~~~~~~~v~lfGS~arg~~~~~SDIDi~v~ 42 (49)
T cd05397 2 ELLDIIKERLKKLVPGYEIVVYGSLVRGLLKKSSDIDLACV 42 (49)
T ss_pred HHHHHHHHHHHhhcCCcEEEEECCcCCCCCCCCCCEEEEEE
Confidence 35667788888888899999999999999999999999986
No 17
>PF10421 OAS1_C: 2'-5'-oligoadenylate synthetase 1, domain 2, C-terminus ; InterPro: IPR018952 This is the largely alpha-helical, C-terminal half of 2'-5'-oligoadenylate synthetase 1, being described as domain 2 of the enzyme and homologous to a tandem ubiquitin repeat. It carries the region of enzymic activity between residues 320 and 344 at the extreme C-terminal end []. Oligoadenylate synthetases are antiviral enzymes that counteract viral attack by degrading viral RNA. The enzyme uses ATP in 2'-specific nucleotidyl transfer reactions to synthesise 2'.5'-oligoadenylates, which activate latent ribonuclease, resulting in degradation of viral RNA and inhibition of virus replication []. This domain is often associated with IPR002934 from INTERPRO. ; PDB: 1PX5_B.
Probab=97.81 E-value=6.4e-05 Score=72.40 Aligned_cols=58 Identities=17% Similarity=0.301 Sum_probs=42.7
Q ss_pred hhhhHHHHHHHhhcCC-CchhHHHHHHHHHHHcCCCCCCCCCCcChHHHHHHHHHHhhc
Q psy10458 291 ALYMAELLYLFGEIDW-RVRPLVFTIKKWAKDINLTNPTPGRWITNFSLTLLVLFYLQS 348 (563)
Q Consensus 291 gl~nS~LL~~y~~~dp-r~r~Lv~~IK~Wak~~gL~~~~~G~~LsSYsL~LLVI~fLQ~ 348 (563)
++.-|+|-+.|....| .++.|+++||+|.+.+.-.....++..++|+|.||+||.-.+
T Consensus 26 S~cftelQ~~Fvk~rP~klK~LIrLVKhWy~~~~~~~~~~~~lPpsYaLELLtIyAWE~ 84 (190)
T PF10421_consen 26 SACFTELQRNFVKHRPTKLKNLIRLVKHWYQQCKKKKCGGGSLPPSYALELLTIYAWEQ 84 (190)
T ss_dssp GGGGHHHHHHHHHTS-HHHHHHHHHHHHHHHHHHCC--HTT-S--HHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhccCCCCCcHHHHHHHHHHHHHHh
Confidence 4556788888877766 799999999999999766644445546789999999998766
No 18
>PF01909 NTP_transf_2: Nucleotidyltransferase domain A subset of this Pfam family; InterPro: IPR002934 A small region that overlaps with a nuclear localization signal and binds to the RNA primer contains three aspartates that are essential for catalysis. Sequence and secondary structure comparisons of regions surrounding these aspartates with sequences of other polymerases revealed a significant homology to the palm structure of DNA polymerase beta, terminal deoxynucleotidyltransferase and DNA polymerase IV of Saccharomyces cerevisiae, all members of the family X of polymerases. This homology extends as far as cca: tRNA nucleotidyltransferase and streptomycin adenylyltransferase, an antibiotic resistance factor [, ]. Proteins containing this domain include kanamycin nucleotidyltransferase (KNTase) which is a plasmid-coded enzyme responsible for some types of bacterial resistance to aminoglycosides. KNTase inactivates antibiotics by catalysing the addition of a nucleotidyl group onto the drug. In experiments, Mn2+ strongly stimulated this reaction due to a 50-fold lower Ki for 8-azido-ATP in the presence of Mn2+. Mutations of the highly conserved Asp residues 113, 115, and 167, critical for metal binding in the catalytic domain of bovine poly(A) polymerase, led to a strong reduction of cross-linking efficiency, and Mn2+ no longer stimulated the reaction. Mutations in the region of the "helical turn motif" (a domain binding the triphosphate moiety of the nucleotide) and in the suspected nucleotide-binding helix of bovine poly(A) polymerase impaired ATP binding and catalysis. The results indicate that ATP is bound in part by the helical turn motif and in part by a region that may be a structural analogue of the fingers domain found in many polymerases.; GO: 0016779 nucleotidyltransferase activity; PDB: 4EBK_B 4EBJ_A 1KNY_A 2B4V_A 2B56_A 2B51_A 1NO5_B 1Q79_A 1Q78_A 1F5A_A ....
Probab=97.79 E-value=1.4e-05 Score=67.81 Aligned_cols=43 Identities=26% Similarity=0.413 Sum_probs=38.6
Q ss_pred HHHHHHHHHhcCCCceEEEEcceecCCCCCCCccceeeccccC
Q psy10458 164 AYQVELALSGLFPLCAIFPFGSSVNNFGKLGCDLDLVLQLDLQ 206 (563)
Q Consensus 164 ~~~L~~il~~~fp~~~V~pFGS~~~Gl~~~~SDLDl~l~~~~~ 206 (563)
++.|.+.+++.++...|.+|||++.|.+.++||||+++..+..
T Consensus 1 i~~i~~~l~~~~~~~~v~lfGS~a~g~~~~~SDIDl~i~~~~~ 43 (93)
T PF01909_consen 1 IEEIKEILKELFGVAEVYLFGSYARGDATPDSDIDLLIILDEP 43 (93)
T ss_dssp HHHHHHHHHHHHTTEEEEEEHHHHHTSSCTTSCEEEEEEESST
T ss_pred CHHHHHHHHHHCCCCEEEEECCcccCcCCCCCCEEEEEEeCCc
Confidence 3567788888888999999999999999999999999999874
No 19
>cd05400 NT_2-5OAS_ClassI-CCAase Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme. In vertebrates, 2-5OASs are induced by interferon during the innate immune response to protect against RNA virus infections. In the presence of an RNA activator, 2-5OASs catalyze the oligomerization of ATP into 2-5A. 2-5A activates endoribonuclease L, which leads to degradation of the viral RNA. 2-5OASs are also implicated in cell growth control, differentiation, and apoptosis. This family includes human OAS1, -2, -3, and OASL. CCA-adding enzymes add the sequence [cytidine(C)-cytidine-adenosine (A)], one nucleotide at a time, onto the 3' end of tRNA, in a template-independent reaction. This class I group includes the archaeal Sulfolobus shibatae and Archeoglobus fulgidus CCA-adding enzymes. It belongs to the Pol beta-like NT superfamily. In the majority of enzymes in this superfamily, two carboxylates, Dx[D/E], together with a third more dis
Probab=97.55 E-value=0.00071 Score=62.26 Aligned_cols=81 Identities=16% Similarity=0.195 Sum_probs=52.3
Q ss_pred CCceEEEEcceecCCCCC-CCccceeeccccCCCCCCcccchhhcccccCCcchHHHHHHHHHHHHHHHhhCCCCCCCCC
Q psy10458 176 PLCAIFPFGSSVNNFGKL-GCDLDLVLQLDLQSQGDNDQCRLMFHCKSSLGSERSQTLRHLETVGDLLQLFLPGCSQLFL 254 (563)
Q Consensus 176 p~~~V~pFGS~~~Gl~~~-~SDLDl~l~~~~~~~~~~~~~~l~~~~k~~~~~~R~~~~~~L~~l~~~L~~~~p~~s~~~~ 254 (563)
+...+++|||++.|++++ .||||+++.++..... + .....+++..|.+.|....+
T Consensus 26 ~~~~~~~~GS~a~~T~i~~~sDiD~~v~~~~~~~~---------~--------~~~~~~~~~~l~~~L~~~~~------- 81 (143)
T cd05400 26 RVAEVFLQGSYARGTALRGDSDIDLVVVLPDDTSF---------A--------EYGPAELLDELGEALKEYYG------- 81 (143)
T ss_pred cccEEEEEcceeCCCCCCCCCceeEEEEEcCcccc---------c--------ccCHHHHHHHHHHHHHHhcC-------
Confidence 358999999999999977 7999999999864210 0 00124567778888876432
Q ss_pred CCceeeEEecCCCeeEEEEeecCCcceEEEe
Q psy10458 255 PGCSQVKRILGARVPIIKYNHDMSALECDLS 285 (563)
Q Consensus 255 ~g~~~V~~I~~ARVPIIKf~~~~~gi~~DIS 285 (563)
. .... ...-|.|++.....++++||.
T Consensus 82 -~--~~~~--~~~~~~v~v~~~~~~~~vDvv 107 (143)
T cd05400 82 -A--NEEV--KAQHRSVTVKFKGQGFHVDVV 107 (143)
T ss_pred -c--cccc--ccCceEEEEEEcCCCeEEEEE
Confidence 1 1111 234455555543458999993
No 20
>cd05403 NT_KNTase_like Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins. S. aureus KNTase is a plasmid encoded enzyme which confers resistance to a wide range of aminoglycoside antibiotics which have a 4'- or 4''-hydroxyl group in the equatorial position, such as kanamycin A. This enzyme transfers a nucleoside monophosphate group from a nucleotide (ATP,GTP, or UTP) to the 4'-hydroxyl group of kanamycin A. This enzyme is a homodimer, having two NT active sites. The nucleotide and antibiotic binding sites of each active site include residues from each monomer. Included in this subgroup is Escherichia coli AadA5 which confers resistance to the antibiotic spectinomycin and is a putative aminoglycoside-3'-adenylyltransferase. It is part of the aadA5 cassette of a class 1 integron. This subgroup also includes Haemophilus influenzae HI0073 which forms a 2:2 heterotetramer with an unrelated protein HI0074. Structurally HI0074 is
Probab=97.28 E-value=0.00035 Score=58.70 Aligned_cols=43 Identities=21% Similarity=0.295 Sum_probs=35.9
Q ss_pred HHHHHHHHHhcCC-CceEEEEcceecCCCCCCCccceeeccccC
Q psy10458 164 AYQVELALSGLFP-LCAIFPFGSSVNNFGKLGCDLDLVLQLDLQ 206 (563)
Q Consensus 164 ~~~L~~il~~~fp-~~~V~pFGS~~~Gl~~~~SDLDl~l~~~~~ 206 (563)
+..+.+.+++.+. -..++.|||++.|-+.++||||+++..+..
T Consensus 4 ~~~i~~~l~~~~~~i~~i~LfGS~arg~~~~~SDiDl~vi~~~~ 47 (93)
T cd05403 4 LEEILEILRELLGGVEKVYLFGSYARGDARPDSDIDLLVIFDDP 47 (93)
T ss_pred HHHHHHHHHHHhCCccEEEEEeeeecCCCCCCCCeeEEEEeCCC
Confidence 4556666666666 689999999999999999999999998764
No 21
>PF07528 DZF: DZF domain; InterPro: IPR006561 This domain is found in proteins containing the double-stranded RNA-binding motif, DSRM (IPR001159 from INTERPRO), or the zinc finger domain C2H2 (IPR007087 from INTERPRO). This domain is found exclusively in the metazoa.
Probab=97.28 E-value=0.0099 Score=60.24 Aligned_cols=129 Identities=18% Similarity=0.178 Sum_probs=95.8
Q ss_pred EeecchhhhhhHHHHHHHhhcCCCchhHHHHHHHHHHHcCCCCCCCCCCcChHHHHHHHHHHhhcCCCCCchhhhhhhhc
Q psy10458 284 LSMTNLTALYMAELLYLFGEIDWRVRPLVFTIKKWAKDINLTNPTPGRWITNFSLTLLVLFYLQSVKVLPPLKLLIDEAS 363 (563)
Q Consensus 284 IS~nN~~gl~nS~LL~~y~~~dpr~r~Lv~~IK~Wak~~gL~~~~~G~~LsSYsL~LLVI~fLQ~~pvLP~Lq~l~~~~~ 363 (563)
.+..+..+++.+++++.-+..-+..+.+++++|-...+. +..++ |++|++-+|+-+-+-..+
T Consensus 106 ~cl~aLaalRhakWFq~~a~~l~s~~~viRIlrDl~~R~----p~w~~-L~~W~leLL~~~~i~~~~------------- 167 (248)
T PF07528_consen 106 KCLSALAALRHAKWFQARANGLQSCVIVIRILRDLRQRV----PTWQP-LSSWALELLVEKAISNNS------------- 167 (248)
T ss_pred HHHHHHHHHHHhHHHHHHhccCCCcceehhhHHHHHHhC----CCCCC-CChhHHHHHHHHHeeeCC-------------
Confidence 345567888899999888777778899999999998875 33455 999999998876444210
Q ss_pred ccCcceeeCCcccccccccccccCCCCCCCCCCCCHHHHHHHHHHhhccCCCCCceEEecCCCCcCCCCCCCeEEecCCC
Q psy10458 364 LKDRRISEDGVNCTFVRDITKLQFHPSIPEQSTDSLTTLLFGFFEFYSQYDFNNQGISLYLGSPIPKPEHGALYINNPLE 443 (563)
Q Consensus 364 ~~d~~~~~~g~d~~F~~d~~~l~~~~~~~~~n~~sl~~LL~~FF~fYs~Fd~~~~vIsir~G~~~~K~~~~~L~I~DPfe 443 (563)
+....++++.|..+|+..|. +|-+- |+ --|.||.+
T Consensus 168 -----------------------------~~~~l~~g~a~RRvle~las------Gillp-~~---------~gl~DPcE 202 (248)
T PF07528_consen 168 -----------------------------SRQPLSPGDAFRRVLECLAS------GILLP-GS---------PGLRDPCE 202 (248)
T ss_pred -----------------------------CCCCCChHHHHHHHHHHHhC------ceecC-CC---------CCCcCCCC
Confidence 13346689999999999981 11111 11 12569999
Q ss_pred -CCCCccccCCHHhHHHHHHHHHHHHHHHHhhh
Q psy10458 444 -RGLNVSKNVSFEELERLKVEVRNASWTLESTA 475 (563)
Q Consensus 444 -~~~NvarnVs~~~~~~i~~ef~~A~~~L~~~~ 475 (563)
...|+..+++..+.+.|....+.+.+++.-..
T Consensus 203 ~~~~~~~~~lt~qq~e~it~sAQ~~LRllafgq 235 (248)
T PF07528_consen 203 KDPVDVLDTLTLQQREDITSSAQTALRLLAFGQ 235 (248)
T ss_pred CCCceeeccCCHHHHHHHHHHHHHHHHHHHhcC
Confidence 77889999999999999999999888877553
No 22
>KOG2054|consensus
Probab=96.66 E-value=0.011 Score=68.62 Aligned_cols=128 Identities=23% Similarity=0.305 Sum_probs=96.2
Q ss_pred cCCCchhHHHHHHHHHHHcCCCCCCCCCCcChHHHHHHHHHHhhcCCCCCchhhhhhhhcccCcceeeCCcccccccccc
Q psy10458 304 IDWRVRPLVFTIKKWAKDINLTNPTPGRWITNFSLTLLVLFYLQSVKVLPPLKLLIDEASLKDRRISEDGVNCTFVRDIT 383 (563)
Q Consensus 304 ~dpr~r~Lv~~IK~Wak~~gL~~~~~G~~LsSYsL~LLVI~fLQ~~pvLP~Lq~l~~~~~~~d~~~~~~g~d~~F~~d~~ 383 (563)
..+.++.-+.++|.|+++|.+... .|| |+++-|+++|++.+-+.-+
T Consensus 306 ~~~~f~da~~Llk~WlrqRs~~~~-~~g-fg~f~~s~lvv~L~s~~ki-------------------------------- 351 (1121)
T KOG2054|consen 306 SAKGFKDALALLKVWLRQRSLDIG-QGG-FGGFLLSALVVYLVSTRKI-------------------------------- 351 (1121)
T ss_pred hhhhHHHHHHHHHHHHHhhhhhcc-cCc-chHHHHHHHHHHHHhcCch--------------------------------
Confidence 357899999999999999966443 566 9999999999986665311
Q ss_pred cccCCCCCCCCCCCCHHHHHHHHHHhhccCCCCCceEEecCCCCcCCC------CCCCeEEecCCCCCCCccccCCHHhH
Q psy10458 384 KLQFHPSIPEQSTDSLTTLLFGFFEFYSQYDFNNQGISLYLGSPIPKP------EHGALYINNPLERGLNVSKNVSFEEL 457 (563)
Q Consensus 384 ~l~~~~~~~~~n~~sl~~LL~~FF~fYs~Fd~~~~vIsir~G~~~~K~------~~~~L~I~DPfe~~~NvarnVs~~~~ 457 (563)
....+..+++..-++|.+++|++.++|++.... .+-| +....+..| +...+|++.+++.+.+
T Consensus 352 ----------~~~~S~yqvfR~vl~flat~dlt~~~~~l~~~~-~s~~~~~~f~e~~~~~f~D-~s~~~NLc~~mt~s~y 419 (1121)
T KOG2054|consen 352 ----------HTTLSAYQVFRSVLQFLATTDLTVNGISLVPSS-PSLPALADFHEGQLVTFID-SSGHLNLCANMTASTY 419 (1121)
T ss_pred ----------hhcchHHHHHHHHHHHHhhhhhhccceEeccCC-CCchhhhhhhhcceeeEec-cCCcchhhhhccHHHH
Confidence 123456789999999999999999888876542 1111 122233333 3457899999999999
Q ss_pred HHHHHHHHHHHHHHHhhhcC
Q psy10458 458 ERLKVEVRNASWTLESTANS 477 (563)
Q Consensus 458 ~~i~~ef~~A~~~L~~~~~~ 477 (563)
+++++|++.++.+|......
T Consensus 420 ~~~q~ea~ltl~lL~~~~~~ 439 (1121)
T KOG2054|consen 420 EQVQEEARLTLMLLDSRADD 439 (1121)
T ss_pred HHHHHHHHHHHHHHhhhhhc
Confidence 99999999999999976544
No 23
>COG1669 Predicted nucleotidyltransferases [General function prediction only]
Probab=96.48 E-value=0.0063 Score=52.51 Aligned_cols=45 Identities=16% Similarity=0.270 Sum_probs=38.6
Q ss_pred HHHHHHHHHHHhcCCCceEEEEcceecCCCCCCCccceeeccccC
Q psy10458 162 LVAYQVELALSGLFPLCAIFPFGSSVNNFGKLGCDLDLVLQLDLQ 206 (563)
Q Consensus 162 ~v~~~L~~il~~~fp~~~V~pFGS~~~Gl~~~~SDLDl~l~~~~~ 206 (563)
.+.+.+...+++.++=+.+..|||++-|-..|+||||+.|.+...
T Consensus 9 ~~lr~~~~~l~~k~gv~~~~vFGS~aRgE~~~~SDIDILVef~~~ 53 (97)
T COG1669 9 KILRKIKPELKEKYGVKRVAVFGSYARGEQKPDSDIDILVEFEPG 53 (97)
T ss_pred HHHHHHHHHHHHHhCCceEEEeeeeecCCCCCCCCceeEEeecCC
Confidence 346677778887788889999999999999999999999988653
No 24
>PF03813 Nrap: Nrap protein; InterPro: IPR005554 Members of this family are nucleolar RNA-associated proteins (Nrap) which are highly conserved from yeast (Saccharomyces cerevisiae) to human. In the mouse, Nrap is ubiquitously expressed and is specifically localized in the nucleolus []. Nrap is a large nucleolar protein (of more than 1000 amino acids). Nrap appears to be associated with ribosome biogenesis by interacting with pre-rRNA primary transcript [].
Probab=95.98 E-value=0.16 Score=61.24 Aligned_cols=133 Identities=18% Similarity=0.204 Sum_probs=98.0
Q ss_pred hHHHHHHHhhcCCCchhHHHHHHHHHHHcCCCCCCCCCCcChHHHHHHHHHHhhcC-CCCCchhhhhhhhcccCcceeeC
Q psy10458 294 MAELLYLFGEIDWRVRPLVFTIKKWAKDINLTNPTPGRWITNFSLTLLVLFYLQSV-KVLPPLKLLIDEASLKDRRISED 372 (563)
Q Consensus 294 nS~LL~~y~~~dpr~r~Lv~~IK~Wak~~gL~~~~~G~~LsSYsL~LLVI~fLQ~~-pvLP~Lq~l~~~~~~~d~~~~~~ 372 (563)
.+..|..+...+|.+.+-++++|+|+..+-|. |. ++.=++-|||++.+-.+ |.
T Consensus 671 h~~~i~~l~~~~p~fs~tvRL~KrW~~shlLs----~~-i~~E~vELlva~vfl~~~p~--------------------- 724 (972)
T PF03813_consen 671 HTSAIHGLHTRFPSFSPTVRLAKRWLSSHLLS----GH-ISEEAVELLVASVFLSPAPW--------------------- 724 (972)
T ss_pred HHHHHHHHHhhCCchhHHHHHHHHHHHhccCc----cc-CCHHHHHHHHHHHhcCCCCC---------------------
Confidence 44556677778999999999999999999884 33 89999999999977653 21
Q ss_pred CcccccccccccccCCCCCCCCCCCCHHHHHHHHHHhhccCCCCCceEEecCCCCcC--------------CC-----CC
Q psy10458 373 GVNCTFVRDITKLQFHPSIPEQSTDSLTTLLFGFFEFYSQYDFNNQGISLYLGSPIP--------------KP-----EH 433 (563)
Q Consensus 373 g~d~~F~~d~~~l~~~~~~~~~n~~sl~~LL~~FF~fYs~Fd~~~~vIsir~G~~~~--------------K~-----~~ 433 (563)
....|...=|+.|+++-++|||...-+-+.....++ +. ..
T Consensus 725 ---------------------~~P~S~~~GFlRfL~lLs~~dW~~~PLiVd~~~~l~~~~~~~i~~~f~~~R~~dp~~~~ 783 (972)
T PF03813_consen 725 ---------------------SPPSSPQTGFLRFLHLLSTWDWREEPLIVDFNNELTEEDRAEIETNFDAWRKIDPAMNL 783 (972)
T ss_pred ---------------------CCCCCHhHHHHHHHHHHHhCCCCcCCEEEECCCCCCHHHHHHHHHHHHHhhccCccccC
Confidence 123345667888888899999997655444332221 11 35
Q ss_pred CCeEEecCCCCCCCccc--cCCHHhHHHHHHHHHHHHHHHHh
Q psy10458 434 GALYINNPLERGLNVSK--NVSFEELERLKVEVRNASWTLES 473 (563)
Q Consensus 434 ~~L~I~DPfe~~~Nvar--nVs~~~~~~i~~ef~~A~~~L~~ 473 (563)
.+|+|-.|.|+.--.-. .-+.--+.||+...+.|+..|+.
T Consensus 784 p~~~IaT~~D~~g~~wT~~~Ps~~v~~Rl~~LAk~sl~~l~~ 825 (972)
T PF03813_consen 784 PAMFIATPYDPEGSLWTRNGPSKVVAKRLTALAKASLKLLEE 825 (972)
T ss_pred CcEEEEeCCCCCCCEeECCCCCHHHHHHHHHHHHHHHHHHHh
Confidence 68999999998654333 34556789999999999999993
No 25
>COG1708 Predicted nucleotidyltransferases [General function prediction only]
Probab=95.74 E-value=0.017 Score=51.22 Aligned_cols=37 Identities=24% Similarity=0.082 Sum_probs=30.4
Q ss_pred HHHHhcCCCceEEEEcceecCCCCCCCccceeecccc
Q psy10458 169 LALSGLFPLCAIFPFGSSVNNFGKLGCDLDLVLQLDL 205 (563)
Q Consensus 169 ~il~~~fp~~~V~pFGS~~~Gl~~~~SDLDl~l~~~~ 205 (563)
.......+...|+.|||++.|-+.+.||||+++..+.
T Consensus 18 ~~~~~~~~~~~v~LfGS~arG~~~~~SDiDv~vv~~~ 54 (128)
T COG1708 18 AIEKKLGGDLLIYLFGSYARGDFVKESDIDLLVVSDD 54 (128)
T ss_pred HHHHhcCCCeEEEEEccCcccccccCCCeeEEEEcCC
Confidence 3333445578999999999999999999999999733
No 26
>PRK13746 aminoglycoside resistance protein; Provisional
Probab=95.11 E-value=0.026 Score=57.61 Aligned_cols=41 Identities=22% Similarity=0.281 Sum_probs=34.0
Q ss_pred HHHHHHHhcCCCc--eEEEEcceecCCCCCCCccceeeccccC
Q psy10458 166 QVELALSGLFPLC--AIFPFGSSVNNFGKLGCDLDLVLQLDLQ 206 (563)
Q Consensus 166 ~L~~il~~~fp~~--~V~pFGS~~~Gl~~~~SDLDl~l~~~~~ 206 (563)
.+.+++.+.+++. .|+.|||.+.|-..+.||||+.+..+..
T Consensus 15 ~~~~~l~~~l~~~l~~vyLfGS~~~G~~~p~SDIDllvvv~~~ 57 (262)
T PRK13746 15 EACAVIERHLEPTLLAIHLYGSAVDGGLKPHSDIDLLVTVAVP 57 (262)
T ss_pred HHHHHHHHhCcccEEEEEEECCcccCCCCCCCceeEEEEeCCC
Confidence 4456677777653 7999999999999999999999998874
No 27
>PF13893 RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); PDB: 2PE8_A 2PEH_A 2D9O_A 1A9N_D 2DIT_A 3S6E_A 2LQ5_A 1SJQ_A 2AD9_A 1X4D_A ....
Probab=94.44 E-value=0.058 Score=41.23 Aligned_cols=34 Identities=18% Similarity=0.411 Sum_probs=29.1
Q ss_pred eeecceEEEeecCCceeEEEEEeCCHHHHHHHHhhc
Q psy10458 43 FGTVQSMHHYTLPGQTHFVIVEMKDSQVTRRILNKC 78 (563)
Q Consensus 43 ~G~i~~~~~~~~~~~~~~~~vef~~~~~~~~~~~~~ 78 (563)
||+|.++.+...++ .+|.|||.+.+++..++..-
T Consensus 8 fG~V~~i~~~~~~~--~~a~V~f~~~~~A~~a~~~l 41 (56)
T PF13893_consen 8 FGEVKKIKIFKKKR--GFAFVEFASVEDAQKAIEQL 41 (56)
T ss_dssp TS-EEEEEEETTST--TEEEEEESSHHHHHHHHHHH
T ss_pred cccEEEEEEEeCCC--CEEEEEECCHHHHHHHHHHh
Confidence 89999999988773 59999999999999998753
No 28
>PF14091 DUF4269: Domain of unknown function (DUF4269)
Probab=92.28 E-value=2.3 Score=39.92 Aligned_cols=113 Identities=17% Similarity=0.148 Sum_probs=68.2
Q ss_pred ceEEEEcceecCCCCCCCccceeeccccCCCCCCcccchhhcccccCCcchHHHHHHHHHHHHHHHhhCCCCCCCCCCCc
Q psy10458 178 CAIFPFGSSVNNFGKLGCDLDLVLQLDLQSQGDNDQCRLMFHCKSSLGSERSQTLRHLETVGDLLQLFLPGCSQLFLPGC 257 (563)
Q Consensus 178 ~~V~pFGS~~~Gl~~~~SDLDl~l~~~~~~~~~~~~~~l~~~~k~~~~~~R~~~~~~L~~l~~~L~~~~p~~s~~~~~g~ 257 (563)
.....-|...-|+..++|||||+|..++. + .+...+.+....+ + ++
T Consensus 16 ~~PiL~GTiPi~Idi~~SDLDIic~~~d~-~------------------------~F~~~l~~~f~~~-~--------~f 61 (152)
T PF14091_consen 16 YDPILVGTIPIGIDIPGSDLDIICEVPDP-E------------------------AFEQLLQSLFGQF-E--------GF 61 (152)
T ss_pred CCCEEecccccccCCCCCCccEEEEeCCH-H------------------------HHHHHHHHHhccC-C--------Cc
Confidence 35677899999999999999999998763 1 1111111111111 1 33
Q ss_pred eeeEEecCCCeeEEEEeecCCcceEEEeecc-----hhhhhhHHHHHHHhhc-CCCchhHHHHHH--------HHHHHcC
Q psy10458 258 SQVKRILGARVPIIKYNHDMSALECDLSMTN-----LTALYMAELLYLFGEI-DWRVRPLVFTIK--------KWAKDIN 323 (563)
Q Consensus 258 ~~V~~I~~ARVPIIKf~~~~~gi~~DIS~nN-----~~gl~nS~LL~~y~~~-dpr~r~Lv~~IK--------~Wak~~g 323 (563)
++..-.-...|.+.......|.++.|-..+ .+|.+.-.+-+...+. .|.+|.=++-+| +||+.-|
T Consensus 62 -~~~~~~i~~~~~~~~~F~~~~~~~EiF~Q~~Pv~~QnayrHm~iE~rLL~~~g~~~r~~Ii~LK~~GlKTEPAFa~lLg 140 (152)
T PF14091_consen 62 -TIKEKTIRGEPSIVANFRYEGFPFEIFGQPIPVEEQNAYRHMLIEHRLLELHGPSFREEIIELKESGLKTEPAFAKLLG 140 (152)
T ss_pred -eeeeceeCCceeEEEEEEECCceEEEeecCCChhhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHcCCcchHHHHHHhC
Confidence 122111134556655555789999887643 4555544444443333 488999888888 4777777
Q ss_pred CC
Q psy10458 324 LT 325 (563)
Q Consensus 324 L~ 325 (563)
|.
T Consensus 141 L~ 142 (152)
T PF14091_consen 141 LE 142 (152)
T ss_pred CC
Confidence 75
No 29
>KOG3793|consensus
Probab=91.45 E-value=6.4 Score=40.08 Aligned_cols=68 Identities=18% Similarity=0.164 Sum_probs=51.5
Q ss_pred cHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhcC-CC------ceEEEEcceecCCCCCCCcc-ceeecccc
Q psy10458 138 TITQQMTTLHNITKMNDINTRLRFLVAYQVELALSGLF-PL------CAIFPFGSSVNNFGKLGCDL-DLVLQLDL 205 (563)
Q Consensus 138 ~l~~qI~~l~~~~~pt~~e~~~R~~v~~~L~~il~~~f-p~------~~V~pFGS~~~Gl~~~~SDL-Dl~l~~~~ 205 (563)
.++++|.+--+.+.||.+|...-..++..+..++.... |+ ..|.-.||++.|.-+.++|. |+++....
T Consensus 40 ~f~~alLkRnqdL~P~~~~q~~I~~~vtKV~~vLdn~~~~~L~~~~ieevrqVGSF~k~T~~tg~~~advVViLkT 115 (362)
T KOG3793|consen 40 SFSEALLKRNQDLAPNSAEQASILSLVTKVNNVLDNLVAPGLFEVQIEEVRQVGSFKKGTMTTGHNVADLVVILKT 115 (362)
T ss_pred HHHHHHHhhhccCCCCHHHHHHHHHHHHHHHHHHHhhccCCceEeehhhhhhccceeccccccCCcccceEEEeec
Confidence 46677888788889999998777777777777776543 32 46788999999998877654 77776654
No 30
>KOG2054|consensus
Probab=90.89 E-value=2.4 Score=50.15 Aligned_cols=138 Identities=18% Similarity=0.198 Sum_probs=94.5
Q ss_pred hhHHHHHHHhhcCCCchhHHHHHHHHHHHcCCCCCCCCCCcChHHHHHHHHHHhhcC-CCCCchhhhhhhhcccCcceee
Q psy10458 293 YMAELLYLFGEIDWRVRPLVFTIKKWAKDINLTNPTPGRWITNFSLTLLVLFYLQSV-KVLPPLKLLIDEASLKDRRISE 371 (563)
Q Consensus 293 ~nS~LL~~y~~~dpr~r~Lv~~IK~Wak~~gL~~~~~G~~LsSYsL~LLVI~fLQ~~-pvLP~Lq~l~~~~~~~d~~~~~ 371 (563)
+.|.-|+.+.+.+|.+-+.|++.|+|...+=|. |+ +.--++-|||++.++.+ |..|
T Consensus 806 ~ht~aL~~l~qsh~~ys~vvrLaKrWl~shLL~----~h-~~De~iELLva~lf~~p~p~~~------------------ 862 (1121)
T KOG2054|consen 806 LHTLALQSLSQSHPFYSSVVRLAKRWLGSHLLS----GH-HLDEAIELLVAALFLKPGPLVP------------------ 862 (1121)
T ss_pred HHHHHHHHHhhcccchhHHHHHHHHHHHHHhhc----cc-hHHHHHHHHHHHHhcCccCCCC------------------
Confidence 344456777888999999999999999998775 44 56889999999988885 2211
Q ss_pred CCcccccccccccccCCCCCCCCCCCCHHHHHHHHHHhhccCCCCCce--EEecCCCCc------------CCCCCCCeE
Q psy10458 372 DGVNCTFVRDITKLQFHPSIPEQSTDSLTTLLFGFFEFYSQYDFNNQG--ISLYLGSPI------------PKPEHGALY 437 (563)
Q Consensus 372 ~g~d~~F~~d~~~l~~~~~~~~~n~~sl~~LL~~FF~fYs~Fd~~~~v--Isir~G~~~------------~K~~~~~L~ 437 (563)
..|...=++.|+.+-|+|||...- |....|-.. .++...+|.
T Consensus 863 ------------------------psS~~~gFlRfL~llS~~dW~~~PLIvd~nn~~~ed~~~e~~e~f~s~R~~lp~m~ 918 (1121)
T KOG2054|consen 863 ------------------------PSSPENGFLRFLSLLSTWDWKFDPLIVDFNNGFPEDERSELEEKFISARKQLPPMV 918 (1121)
T ss_pred ------------------------CCCcchhHHHHHHHHhcCcccCCceEEEcCCCCcHHHHHHHHHHHhhhcccCCceE
Confidence 223344578899999999997765 444322110 123346899
Q ss_pred EecCCCCCCCccccCCHH--hHHHHHHHHHHHHHHHHhhhcC
Q psy10458 438 INNPLERGLNVSKNVSFE--ELERLKVEVRNASWTLESTANS 477 (563)
Q Consensus 438 I~DPfe~~~NvarnVs~~--~~~~i~~ef~~A~~~L~~~~~~ 477 (563)
|..|+|-.++.=-+-+.. -+.++....|.+..+++...-+
T Consensus 919 vit~yD~~~~~~t~~~P~~~v~~r~~alar~sl~ll~k~~p~ 960 (1121)
T KOG2054|consen 919 VITPYDHLGSKFTRTSPNQIVLNRLVALARESLKLLEKQAPG 960 (1121)
T ss_pred EeeccccccccccccCchHHHHHHHHHhhhhhHHhhcccccc
Confidence 999999766543333333 4467777777777777765543
No 31
>KOG0148|consensus
Probab=90.65 E-value=0.43 Score=48.35 Aligned_cols=59 Identities=14% Similarity=0.224 Sum_probs=47.1
Q ss_pred CCCCccccchHHHHHHHHhhhcceee-------------------eeecceEEEeecCCceeEEEEEeCCHHHHHHHHhh
Q psy10458 17 PSGNVLSKYFVPSIEYRRLEAQRSIL-------------------FGTVQSMHHYTLPGQTHFVIVEMKDSQVTRRILNK 77 (563)
Q Consensus 17 ~~~~~~~~~~~~~~~~r~~qa~rsv~-------------------~G~i~~~~~~~~~~~~~~~~vef~~~~~~~~~~~~ 77 (563)
...|...++|+|+... -+---.||| ||+|+.|..++++| ||.|-|+++|+++.+|-+
T Consensus 144 ~e~n~~~ltfdeV~NQ-ssp~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk~qG---YaFVrF~tkEaAahAIv~ 219 (321)
T KOG0148|consen 144 SEMNGKPLTFDEVYNQ-SSPDNTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFKDQG---YAFVRFETKEAAAHAIVQ 219 (321)
T ss_pred cccCCCCccHHHHhcc-CCCCCceEEeCCcCccccHHHHHHhcccCCcceEEEEecccc---eEEEEecchhhHHHHHHH
Confidence 3445567899998753 222346777 99999999999999 999999999999999876
Q ss_pred cC
Q psy10458 78 CG 79 (563)
Q Consensus 78 ~~ 79 (563)
-.
T Consensus 220 mN 221 (321)
T KOG0148|consen 220 MN 221 (321)
T ss_pred hc
Confidence 43
No 32
>PF14259 RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or RNP domain); PDB: 2DNN_A 1WI6_A 2EVZ_A 2ADC_A 1QM9_A 2KG1_A 2HGN_A 1U2F_A 2G4B_A 2HZC_A ....
Probab=89.43 E-value=0.43 Score=37.73 Aligned_cols=37 Identities=22% Similarity=0.352 Sum_probs=31.1
Q ss_pred eeecceEEEeecCC--ceeEEEEEeCCHHHHHHHHhhcC
Q psy10458 43 FGTVQSMHHYTLPG--QTHFVIVEMKDSQVTRRILNKCG 79 (563)
Q Consensus 43 ~G~i~~~~~~~~~~--~~~~~~vef~~~~~~~~~~~~~~ 79 (563)
+|+|..+.+...+. ...+|.|||++.+++..++....
T Consensus 22 ~g~v~~v~~~~~~~~~~~~~a~v~f~~~~~a~~al~~~~ 60 (70)
T PF14259_consen 22 FGPVEKVRLIKNKDGQSRGFAFVEFSSEEDAKRALELLN 60 (70)
T ss_dssp SSBEEEEEEEESTTSSEEEEEEEEESSHHHHHHHHHHHT
T ss_pred cCCcceEEEEeeeccccCCEEEEEeCCHHHHHHHHHHCC
Confidence 79999999887641 24799999999999999998765
No 33
>smart00362 RRM_2 RNA recognition motif.
Probab=89.17 E-value=0.69 Score=35.34 Aligned_cols=37 Identities=19% Similarity=0.378 Sum_probs=29.1
Q ss_pred eeecceEEEeecCC-ceeEEEEEeCCHHHHHHHHhhcC
Q psy10458 43 FGTVQSMHHYTLPG-QTHFVIVEMKDSQVTRRILNKCG 79 (563)
Q Consensus 43 ~G~i~~~~~~~~~~-~~~~~~vef~~~~~~~~~~~~~~ 79 (563)
||+|..+.+....| ...||.|||.+.+++..++..-.
T Consensus 23 ~g~v~~~~~~~~~~~~~~~~~v~f~~~~~a~~a~~~~~ 60 (72)
T smart00362 23 FGPIESVKIPKDTGKSKGFAFVEFESEEDAEKAIEALN 60 (72)
T ss_pred cCCEEEEEEecCCCCCCceEEEEeCCHHHHHHHHHHhC
Confidence 89998888776652 12499999999999999987543
No 34
>PF00076 RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....
Probab=88.39 E-value=0.73 Score=35.83 Aligned_cols=37 Identities=16% Similarity=0.362 Sum_probs=29.9
Q ss_pred eeecceEEEeec-C-CceeEEEEEeCCHHHHHHHHhhcC
Q psy10458 43 FGTVQSMHHYTL-P-GQTHFVIVEMKDSQVTRRILNKCG 79 (563)
Q Consensus 43 ~G~i~~~~~~~~-~-~~~~~~~vef~~~~~~~~~~~~~~ 79 (563)
||+|..+.+... . ....||.|+|.+.+++.++++.-+
T Consensus 22 ~g~i~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~~~l~ 60 (70)
T PF00076_consen 22 FGKIESIKVMRNSSGKSKGYAFVEFESEEDAEKALEELN 60 (70)
T ss_dssp TSTEEEEEEEEETTSSEEEEEEEEESSHHHHHHHHHHHT
T ss_pred hhhcccccccccccccccceEEEEEcCHHHHHHHHHHcC
Confidence 899988777664 2 245899999999999999998543
No 35
>KOG0130|consensus
Probab=87.65 E-value=0.5 Score=43.25 Aligned_cols=48 Identities=15% Similarity=0.248 Sum_probs=33.2
Q ss_pred eeecceEEEeecC--C-ceeEEEEEeCCHHHHHHHHhhcC-ccCCCcceecc
Q psy10458 43 FGTVQSMHHYTLP--G-QTHFVIVEMKDSQVTRRILNKCG-HLDKSQVIPVR 90 (563)
Q Consensus 43 ~G~i~~~~~~~~~--~-~~~~~~vef~~~~~~~~~~~~~~-~~~~~~~~~~k 90 (563)
||+|+++|.--+. | ---|||||+.+.+.++++++... ...-++.+.|-
T Consensus 96 yGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VD 147 (170)
T KOG0130|consen 96 YGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVSVD 147 (170)
T ss_pred cccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCceeEE
Confidence 9999999974433 1 01399999999999999998754 22223345543
No 36
>KOG0415|consensus
Probab=87.27 E-value=0.47 Score=49.64 Aligned_cols=54 Identities=19% Similarity=0.313 Sum_probs=42.5
Q ss_pred cchHHHHHHHHhhhcceee--------------------------------------eeecce--EEEeecCC-ceeEEE
Q psy10458 24 KYFVPSIEYRRLEAQRSIL--------------------------------------FGTVQS--MHHYTLPG-QTHFVI 62 (563)
Q Consensus 24 ~~~~~~~~~r~~qa~rsv~--------------------------------------~G~i~~--~~~~~~~~-~~~~~~ 62 (563)
--++|++++|.+.|+-.|| ||+|.+ |+-+..-| ...||.
T Consensus 206 eel~e~~~e~ea~~~A~iLEmvGDlpdAd~~PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaF 285 (479)
T KOG0415|consen 206 EELEEVLAEKEAKAQAVILEMVGDLPDADVKPPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAF 285 (479)
T ss_pred HHHHHHHHHHHHHhhHhHHHHhcCCcccccCCCcceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheee
Confidence 3457888899999988888 999987 55544444 468999
Q ss_pred EEeCCHHHHHHHHhh
Q psy10458 63 VEMKDSQVTRRILNK 77 (563)
Q Consensus 63 vef~~~~~~~~~~~~ 77 (563)
|||.+++|+.++--.
T Consensus 286 iEFen~escE~AyFK 300 (479)
T KOG0415|consen 286 IEFENKESCEQAYFK 300 (479)
T ss_pred eeecchhhHHHHHhh
Confidence 999999999998543
No 37
>PRK02098 phosphoribosyl-dephospho-CoA transferase; Provisional
Probab=85.55 E-value=1.1 Score=44.74 Aligned_cols=39 Identities=21% Similarity=0.132 Sum_probs=30.3
Q ss_pred HHHHHHHHhcCCCceEEEEccee----cCC--CCCCCccceeecccc
Q psy10458 165 YQVELALSGLFPLCAIFPFGSSV----NNF--GKLGCDLDLVLQLDL 205 (563)
Q Consensus 165 ~~L~~il~~~fp~~~V~pFGS~~----~Gl--~~~~SDLDl~l~~~~ 205 (563)
+.|..+... -+..+.+|||.. +|+ -.++||||+.+..+.
T Consensus 110 ~~l~~~~~~--~g~~~gv~GS~a~qlaTG~~~l~~~SDLDLLi~~~~ 154 (221)
T PRK02098 110 RALLALAAA--HGVDCRVFGSLAWQALTGLPYLSASSDLDLLWPLPA 154 (221)
T ss_pred HHHHHHHHh--CCCcEEEeeehHHHHhhCCcccCCCCCeeEEEecCC
Confidence 344454544 256999999999 998 688999999998775
No 38
>smart00360 RRM RNA recognition motif.
Probab=85.01 E-value=2 Score=32.52 Aligned_cols=37 Identities=19% Similarity=0.342 Sum_probs=28.5
Q ss_pred eeecceEEEeecCC---ceeEEEEEeCCHHHHHHHHhhcC
Q psy10458 43 FGTVQSMHHYTLPG---QTHFVIVEMKDSQVTRRILNKCG 79 (563)
Q Consensus 43 ~G~i~~~~~~~~~~---~~~~~~vef~~~~~~~~~~~~~~ 79 (563)
||+|..+.....+. ...||+|+|.+.+++..++..-.
T Consensus 20 ~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~ 59 (71)
T smart00360 20 FGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALN 59 (71)
T ss_pred hCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcC
Confidence 89998877766531 12599999999999999987544
No 39
>TIGR03135 malonate_mdcG holo-ACP synthase, malonate decarboxylase-specific. Malonate decarboxylase, like citrate lyase, has a unique acyl carrier protein subunit with a prosthetic group derived from, and distinct from, coenzyme A. Members of this protein family are the phosphoribosyl-dephospho-CoA transferase specific to the malonate decarboxylase system. This enzyme can also be designated holo-ACP synthase (2.7.7.61). The corresponding component of the citrate lyase system, CitX, shows little or no sequence similarity to this family.
Probab=84.93 E-value=1.3 Score=43.72 Aligned_cols=39 Identities=21% Similarity=0.222 Sum_probs=30.0
Q ss_pred HHHHHHHHhcCCCceEEEEcce----ecCC--CCCCCccceeecccc
Q psy10458 165 YQVELALSGLFPLCAIFPFGSS----VNNF--GKLGCDLDLVLQLDL 205 (563)
Q Consensus 165 ~~L~~il~~~fp~~~V~pFGS~----~~Gl--~~~~SDLDl~l~~~~ 205 (563)
+.|..+... -++.+.+|||. ++|+ -.++||||+.+..+.
T Consensus 98 ~~l~~~~~~--~~~~~gv~GS~~~qlaTg~~~~~~~SDLDLLi~~~~ 142 (202)
T TIGR03135 98 RALDALLDA--LGVPWGVYGSAGWQLLTGLPYLHASSDLDLLLRAPS 142 (202)
T ss_pred HHHHHHHHh--CCCcEEEecchHHHHhcCCcccCCCCCeeEEEcCCC
Confidence 344444443 25799999999 8998 688999999998875
No 40
>PLN03120 nucleic acid binding protein; Provisional
Probab=84.93 E-value=1.6 Score=44.55 Aligned_cols=49 Identities=16% Similarity=0.183 Sum_probs=39.4
Q ss_pred eeecceEEEeecCCceeEEEEEeCCHHHHHHHHhhcCccCCCcceeccC
Q psy10458 43 FGTVQSMHHYTLPGQTHFVIVEMKDSQVTRRILNKCGHLDKSQVIPVRS 91 (563)
Q Consensus 43 ~G~i~~~~~~~~~~~~~~~~vef~~~~~~~~~~~~~~~~~~~~~~~~k~ 91 (563)
||+|.++.+..+++...||.|+|.+.+++..++.-......+..|.|.+
T Consensus 28 ~G~I~~V~I~~d~~~~GfAFVtF~d~eaAe~AllLnG~~l~gr~V~Vt~ 76 (260)
T PLN03120 28 SGDIEYVEMQSENERSQIAYVTFKDPQGAETALLLSGATIVDQSVTITP 76 (260)
T ss_pred cCCeEEEEEeecCCCCCEEEEEeCcHHHHHHHHHhcCCeeCCceEEEEe
Confidence 9999999887766445799999999999999997655666666777764
No 41
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=84.51 E-value=0.99 Score=41.92 Aligned_cols=48 Identities=21% Similarity=0.278 Sum_probs=34.6
Q ss_pred eeecceEEEeecC--C-ceeEEEEEeCCHHHHHHHHhhc-CccCCCcceecc
Q psy10458 43 FGTVQSMHHYTLP--G-QTHFVIVEMKDSQVTRRILNKC-GHLDKSQVIPVR 90 (563)
Q Consensus 43 ~G~i~~~~~~~~~--~-~~~~~~vef~~~~~~~~~~~~~-~~~~~~~~~~~k 90 (563)
||+|.++.+-.+. | ..-||.|||++.+++++++.+- .+..++..|.|+
T Consensus 58 ~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~ 109 (144)
T PLN03134 58 FGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVN 109 (144)
T ss_pred CCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEE
Confidence 9999886554332 2 2359999999999999999863 345555566665
No 42
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=83.37 E-value=1.6 Score=48.58 Aligned_cols=45 Identities=18% Similarity=0.156 Sum_probs=34.5
Q ss_pred eeecceEEEeecCCceeEEEEEeCCHHHHHHHHhhc---CccCCCcceecc
Q psy10458 43 FGTVQSMHHYTLPGQTHFVIVEMKDSQVTRRILNKC---GHLDKSQVIPVR 90 (563)
Q Consensus 43 ~G~i~~~~~~~~~~~~~~~~vef~~~~~~~~~~~~~---~~~~~~~~~~~k 90 (563)
||+|.++.+-+.+| ||+|||.+.+++.+++..- ....++..|.|.
T Consensus 26 fG~V~~v~i~~~k~---~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v~ 73 (481)
T TIGR01649 26 FGPVSYVMMLPGKR---QALVEFEDEESAKACVNFATSVPIYIRGQPAFFN 73 (481)
T ss_pred cCCeeEEEEECCCC---EEEEEeCchHHHHHHHHHhhcCCceEcCeEEEEE
Confidence 99999998777666 9999999999999999753 234444445553
No 43
>PLN03121 nucleic acid binding protein; Provisional
Probab=82.79 E-value=2.2 Score=42.93 Aligned_cols=49 Identities=12% Similarity=0.072 Sum_probs=40.0
Q ss_pred eeecceEEEeecCCceeEEEEEeCCHHHHHHHHhhcCccCCCcceeccC
Q psy10458 43 FGTVQSMHHYTLPGQTHFVIVEMKDSQVTRRILNKCGHLDKSQVIPVRS 91 (563)
Q Consensus 43 ~G~i~~~~~~~~~~~~~~~~vef~~~~~~~~~~~~~~~~~~~~~~~~k~ 91 (563)
+|+|.++.+..+.+...||.|||.+.+++..++.=......+..|.|-+
T Consensus 29 ~G~I~~V~I~~D~et~gfAfVtF~d~~aaetAllLnGa~l~d~~I~It~ 77 (243)
T PLN03121 29 CGAIEHVEIIRSGEYACTAYVTFKDAYALETAVLLSGATIVDQRVCITR 77 (243)
T ss_pred cCCeEEEEEecCCCcceEEEEEECCHHHHHHHHhcCCCeeCCceEEEEe
Confidence 9999999998887666899999999999999887666555565566653
No 44
>smart00361 RRM_1 RNA recognition motif.
Probab=77.96 E-value=5.1 Score=32.04 Aligned_cols=35 Identities=17% Similarity=0.257 Sum_probs=26.2
Q ss_pred eeecceEE---EeecC--C-ceeEEEEEeCCHHHHHHHHhh
Q psy10458 43 FGTVQSMH---HYTLP--G-QTHFVIVEMKDSQVTRRILNK 77 (563)
Q Consensus 43 ~G~i~~~~---~~~~~--~-~~~~~~vef~~~~~~~~~~~~ 77 (563)
||+|.++. ++... | ..-|+.|+|.+.+++.+++..
T Consensus 16 fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~ 56 (70)
T smart00361 16 FGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVD 56 (70)
T ss_pred cCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHH
Confidence 78888774 44322 2 346999999999999999875
No 45
>cd00590 RRM RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA processing, RNA export, and RNA stability. This domain is 90 amino acids in length and consists of a four-stranded beta-sheet packed against two alpha-helices. RRM usually interacts with ssRNA, but is also known to interact with ssDNA as well as proteins. RRM binds a variable number of nucleotides, ranging from two to eight. The active site includes three aromatic side-chains located within the conserved RNP1 and RNP2 motifs of the domain. The RRM domain is found in a variety heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing, and protein components of small nuclear ribonucleoproteins (snRNPs).
Probab=77.30 E-value=5.2 Score=30.41 Aligned_cols=37 Identities=24% Similarity=0.380 Sum_probs=29.9
Q ss_pred eeecceEEEeecCC--ceeEEEEEeCCHHHHHHHHhhcC
Q psy10458 43 FGTVQSMHHYTLPG--QTHFVIVEMKDSQVTRRILNKCG 79 (563)
Q Consensus 43 ~G~i~~~~~~~~~~--~~~~~~vef~~~~~~~~~~~~~~ 79 (563)
||+|..+.+..... ...++.|+|.+.+++..++....
T Consensus 23 ~g~i~~~~~~~~~~~~~~~~~~v~f~s~~~a~~a~~~~~ 61 (74)
T cd00590 23 FGKVESVRIVRDKDTKSKGFAFVEFEDEEDAEKALEALN 61 (74)
T ss_pred cCCEEEEEEeeCCCCCcceEEEEEECCHHHHHHHHHHhC
Confidence 69999888876652 13699999999999999997654
No 46
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=74.62 E-value=2.7 Score=44.10 Aligned_cols=48 Identities=17% Similarity=0.142 Sum_probs=33.3
Q ss_pred eeecceEEEeecC--C-ceeEEEEEeCCHHHHHHHHhhcC-ccCCCcceecc
Q psy10458 43 FGTVQSMHHYTLP--G-QTHFVIVEMKDSQVTRRILNKCG-HLDKSQVIPVR 90 (563)
Q Consensus 43 ~G~i~~~~~~~~~--~-~~~~~~vef~~~~~~~~~~~~~~-~~~~~~~~~~k 90 (563)
||+|.++..-.+. | ..-||.|+|.+.+++.+++..-. ...++..|+|.
T Consensus 293 fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i~V~ 344 (352)
T TIGR01661 293 FGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGNRVLQVS 344 (352)
T ss_pred CCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEECCeEEEEE
Confidence 9999886654432 1 12499999999999999987643 44455455553
No 47
>KOG0113|consensus
Probab=73.98 E-value=5 Score=41.45 Aligned_cols=37 Identities=8% Similarity=0.296 Sum_probs=29.5
Q ss_pred eeecceEEEeecC--C-ceeEEEEEeCCHHHHHHHHhhcC
Q psy10458 43 FGTVQSMHHYTLP--G-QTHFVIVEMKDSQVTRRILNKCG 79 (563)
Q Consensus 43 ~G~i~~~~~~~~~--~-~~~~~~vef~~~~~~~~~~~~~~ 79 (563)
||+|.++++-.++ | ..-||.|||+.+-++.++-.++.
T Consensus 125 YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~ad 164 (335)
T KOG0113|consen 125 YGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDAD 164 (335)
T ss_pred cCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhcc
Confidence 9999997765553 3 22499999999999999987765
No 48
>PF14792 DNA_pol_B_palm: DNA polymerase beta palm ; PDB: 1RZT_A 3PML_A 2PFN_A 3HX0_K 3HWT_A 2GWS_E 2BCQ_A 3UPQ_A 2BCS_A 3UQ2_A ....
Probab=73.44 E-value=3.9 Score=36.32 Aligned_cols=44 Identities=18% Similarity=0.071 Sum_probs=35.0
Q ss_pred HHHHHHHHHHHhcCCCceEEEEcceecCCCCCCCccceeeccccC
Q psy10458 162 LVAYQVELALSGLFPLCAIFPFGSSVNNFGKLGCDLDLVLQLDLQ 206 (563)
Q Consensus 162 ~v~~~L~~il~~~fp~~~V~pFGS~~~Gl~~~~SDLDl~l~~~~~ 206 (563)
.+.+.+.+.+..+.|++.+.+-|||.=|-..- +|||+.+.-++.
T Consensus 9 ~i~~~V~~~~~~i~p~~~v~i~GSyRRGK~~~-gDiDiLIt~~~~ 52 (112)
T PF14792_consen 9 EIEEIVKEALEKIDPGLEVEICGSYRRGKETS-GDIDILITHPDP 52 (112)
T ss_dssp HHHHHHHHHHHCCSTT-EEEEEHHHHTT-SEE-SSEEEEEEETTC
T ss_pred HHHHHHHHHHHhcCCCcEEEEccccccCCCcC-CCeEEEEeCCCc
Confidence 34566778888889999999999999987664 499999998874
No 49
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=68.21 E-value=5.4 Score=42.55 Aligned_cols=35 Identities=11% Similarity=0.249 Sum_probs=26.9
Q ss_pred eeecceEEEeecC--Cc-eeEEEEEeCCHHHHHHHHhh
Q psy10458 43 FGTVQSMHHYTLP--GQ-THFVIVEMKDSQVTRRILNK 77 (563)
Q Consensus 43 ~G~i~~~~~~~~~--~~-~~~~~vef~~~~~~~~~~~~ 77 (563)
||+|.++..-.+. |+ .-||.|||.+++++.+++.+
T Consensus 131 ~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~ 168 (346)
T TIGR01659 131 IGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKN 168 (346)
T ss_pred cCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHH
Confidence 9999887654432 21 24999999999999999975
No 50
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=67.60 E-value=7.8 Score=42.40 Aligned_cols=48 Identities=19% Similarity=0.196 Sum_probs=33.9
Q ss_pred eeecceEEEeecC--C-ceeEEEEEeCCHHHHHHHHhhcCccCCCcceecc
Q psy10458 43 FGTVQSMHHYTLP--G-QTHFVIVEMKDSQVTRRILNKCGHLDKSQVIPVR 90 (563)
Q Consensus 43 ~G~i~~~~~~~~~--~-~~~~~~vef~~~~~~~~~~~~~~~~~~~~~~~~k 90 (563)
||+|..|.+-.++ | ..-||.|||.+.+++.+++.-......+..|.++
T Consensus 113 ~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~l~g~~~~g~~i~v~ 163 (457)
T TIGR01622 113 VGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALALTGQMLLGRPIIVQ 163 (457)
T ss_pred cCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHHHhCCCEECCeeeEEe
Confidence 8999887775542 2 2359999999999999999754444444445444
No 51
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=66.09 E-value=5.4 Score=44.36 Aligned_cols=46 Identities=17% Similarity=0.213 Sum_probs=35.0
Q ss_pred eeecceEEEeecCCceeEEEEEeCCHHHHHHHHhhc-CccCCCcceecc
Q psy10458 43 FGTVQSMHHYTLPGQTHFVIVEMKDSQVTRRILNKC-GHLDKSQVIPVR 90 (563)
Q Consensus 43 ~G~i~~~~~~~~~~~~~~~~vef~~~~~~~~~~~~~-~~~~~~~~~~~k 90 (563)
||.|.++..-..+. .||+|||.+.+++..++..- .+...+..|.|.
T Consensus 300 yG~V~~vki~~~~~--g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v~ 346 (481)
T TIGR01649 300 YGNVERVKFMKNKK--ETALIEMADPYQAQLALTHLNGVKLFGKPLRVC 346 (481)
T ss_pred cCCeEEEEEEeCCC--CEEEEEECCHHHHHHHHHHhCCCEECCceEEEE
Confidence 99999987655443 59999999999999999753 344455566665
No 52
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=64.68 E-value=5.6 Score=36.94 Aligned_cols=48 Identities=21% Similarity=0.318 Sum_probs=36.6
Q ss_pred HHhhhcceee-----eeecceEEEeecCCceeEEEEEeCCHHHHHHHHhhcCccCCC
Q psy10458 33 RRLEAQRSIL-----FGTVQSMHHYTLPGQTHFVIVEMKDSQVTRRILNKCGHLDKS 84 (563)
Q Consensus 33 r~~qa~rsv~-----~G~i~~~~~~~~~~~~~~~~vef~~~~~~~~~~~~~~~~~~~ 84 (563)
+..+..+||. ||+|++|-. -|+ .-|||-|.|..|+..+.+.-+.+..|
T Consensus 99 ~~~edl~sV~~~Ls~fGpI~SVT~---cGr-qsavVvF~d~~SAC~Av~Af~s~~pg 151 (166)
T PF15023_consen 99 QPTEDLKSVIQRLSVFGPIQSVTL---CGR-QSAVVVFKDITSACKAVSAFQSRAPG 151 (166)
T ss_pred ChHHHHHHHHHHHHhcCCcceeee---cCC-ceEEEEehhhHHHHHHHHhhcCCCCC
Confidence 3456668887 999999886 232 58999999999999998866554433
No 53
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=64.09 E-value=6.8 Score=44.89 Aligned_cols=48 Identities=15% Similarity=0.189 Sum_probs=36.7
Q ss_pred eeecceEEEeecC--C-ceeEEEEEeCCHHHHHHHHhhcC-ccCCCcceecc
Q psy10458 43 FGTVQSMHHYTLP--G-QTHFVIVEMKDSQVTRRILNKCG-HLDKSQVIPVR 90 (563)
Q Consensus 43 ~G~i~~~~~~~~~--~-~~~~~~vef~~~~~~~~~~~~~~-~~~~~~~~~~k 90 (563)
||+|.++.+-.+. | ..-|+.|||.+.+++.+++..-. ...+|..++|.
T Consensus 228 FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~ 279 (612)
T TIGR01645 228 FGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVG 279 (612)
T ss_pred cCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEE
Confidence 9999998765543 2 12499999999999999998764 55567677775
No 54
>cd00141 NT_POLXc Nucleotidyltransferase (NT) domain of family X DNA Polymerases. X family polymerases fill in short gaps during DNA repair. They are relatively inaccurate enzymes and play roles in base excision repair, in non-homologous end joining (NHEJ) which acts mainly to repair damage due to ionizing radiation, and in V(D)J recombination. This family includes eukaryotic Pol beta, Pol lambda, Pol mu, and terminal deoxyribonucleotidyl transferase (TdT). Pol beta and Pol lambda are primarily DNA template-dependent polymerases. TdT is a DNA template-independent polymerase. Pol mu has both template dependent and template independent activities. This subgroup belongs to the Pol beta-like NT superfamily. In the majority of enzymes in this superfamily, two carboxylates, Dx[D/E], together with a third more distal carboxylate, coordinate two divalent metal cations involved in a two-metal ion mechanism of nucleotide addition. These three carboxylate residues are fairly well conserved in this
Probab=63.38 E-value=84 Score=32.90 Aligned_cols=43 Identities=19% Similarity=0.112 Sum_probs=33.7
Q ss_pred HHHHHHHHHHHhcCCCceEEEEcceecCCCCCCCccceeecccc
Q psy10458 162 LVAYQVELALSGLFPLCAIFPFGSSVNNFGKLGCDLDLVLQLDL 205 (563)
Q Consensus 162 ~v~~~L~~il~~~fp~~~V~pFGS~~~Gl~~~~SDLDl~l~~~~ 205 (563)
.+.+.|...++..-|.+.|.+-||+.=|-.. .+|||+++..+.
T Consensus 145 ~~a~~i~~~l~~~~~~~~v~i~GS~RRg~et-~gDiDilv~~~~ 187 (307)
T cd00141 145 AIAEIIKEALREVDPVLQVEIAGSYRRGKET-VGDIDILVTHPD 187 (307)
T ss_pred HHHHHHHHHHHhCCCceEEEEcccccCCCCc-cCCEEEEEecCC
Confidence 3456666667777788999999999887765 459999998766
No 55
>KOG1456|consensus
Probab=61.89 E-value=7.7 Score=41.25 Aligned_cols=30 Identities=23% Similarity=0.340 Sum_probs=27.6
Q ss_pred eeecceEEEeecCCceeEEEEEeCCHHHHHHH
Q psy10458 43 FGTVQSMHHYTLPGQTHFVIVEMKDSQVTRRI 74 (563)
Q Consensus 43 ~G~i~~~~~~~~~~~~~~~~vef~~~~~~~~~ 74 (563)
.|+|..|..++.+| +.|+|||++.+.++++
T Consensus 146 ~GkVlRIvIfkkng--VQAmVEFdsv~~AqrA 175 (494)
T KOG1456|consen 146 QGKVLRIVIFKKNG--VQAMVEFDSVEVAQRA 175 (494)
T ss_pred CCceEEEEEEeccc--eeeEEeechhHHHHHH
Confidence 99999999888888 9999999999998876
No 56
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=61.35 E-value=11 Score=42.64 Aligned_cols=51 Identities=16% Similarity=0.202 Sum_probs=36.0
Q ss_pred ceee--eeecceEEEeecC--C-ceeEEEEEeCCHHHHHHHHhhcC-ccCCCcceec
Q psy10458 39 RSIL--FGTVQSMHHYTLP--G-QTHFVIVEMKDSQVTRRILNKCG-HLDKSQVIPV 89 (563)
Q Consensus 39 rsv~--~G~i~~~~~~~~~--~-~~~~~~vef~~~~~~~~~~~~~~-~~~~~~~~~~ 89 (563)
+.+| ||+|.+|..-.+. + ..-||.|||.+.+++.++++.-. ....+..+++
T Consensus 18 ~~~F~~~G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~i 74 (562)
T TIGR01628 18 YDLFKPFGPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRI 74 (562)
T ss_pred HHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEe
Confidence 3455 9999998775543 2 22499999999999999998654 3344545554
No 57
>PF10127 Nuc-transf: Predicted nucleotidyltransferase; InterPro: IPR018775 Proteins in this entry are predicted to catalyse the transfer of nucleotide residues from nucleoside diphosphates or triphosphates into dimer or polymer forms.
Probab=61.01 E-value=7.6 Score=39.16 Aligned_cols=46 Identities=13% Similarity=-0.072 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHHHhcCCC-ceEEEEcceecCCCCCCCccceeecccc
Q psy10458 160 RFLVAYQVELALSGLFPL-CAIFPFGSSVNNFGKLGCDLDLVLQLDL 205 (563)
Q Consensus 160 R~~v~~~L~~il~~~fp~-~~V~pFGS~~~Gl~~~~SDLDl~l~~~~ 205 (563)
|..+.+.|+++-++.--. .-+...||.+.||..++||.|+..+.-.
T Consensus 2 ~~~i~~~l~~ie~~~~~~il~~~~sGS~a~G~~s~dSD~D~r~vy~~ 48 (247)
T PF10127_consen 2 RETIQEKLNEIEKEHNVKILYACESGSRAYGFASPDSDYDVRGVYIP 48 (247)
T ss_pred chHHHHHHHHHHHhcCCcEEEEecccccccCCCCCCcCcccchhccC
Confidence 445566677766654222 4567899999999999999999776544
No 58
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=60.23 E-value=7 Score=41.72 Aligned_cols=37 Identities=8% Similarity=0.206 Sum_probs=28.0
Q ss_pred eeecceEEEeecC--Cc-eeEEEEEeCCHHHHHHHHhhcC
Q psy10458 43 FGTVQSMHHYTLP--GQ-THFVIVEMKDSQVTRRILNKCG 79 (563)
Q Consensus 43 ~G~i~~~~~~~~~--~~-~~~~~vef~~~~~~~~~~~~~~ 79 (563)
||.|..+....++ |+ .-||.|||.+.+++.++++.-.
T Consensus 217 fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~ln 256 (346)
T TIGR01659 217 YGQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALN 256 (346)
T ss_pred cCCEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhC
Confidence 9999776554443 32 2499999999999999998643
No 59
>PF03445 DUF294: Putative nucleotidyltransferase DUF294; InterPro: IPR005105 This domain is found associated with an N-terminal cyclic nucleotide-binding domain (IPR000595 from INTERPRO) and two CBS domains (IPR000644 from INTERPRO). This domain, normally represents the C-terminal region, is uncharacterised; however, it seems to be similar to the nucleotidyltransferase domain (IPR002934 from INTERPRO), conserving the DXD motif, which strongly suggests that proteins containing this domain are also nucleotidyltransferases.; GO: 0008773 [protein-PII] uridylyltransferase activity
Probab=59.29 E-value=47 Score=30.45 Aligned_cols=29 Identities=24% Similarity=0.110 Sum_probs=27.4
Q ss_pred CceEEEEcceecCCCCCCCccceeecccc
Q psy10458 177 LCAIFPFGSSVNNFGKLGCDLDLVLQLDL 205 (563)
Q Consensus 177 ~~~V~pFGS~~~Gl~~~~SDLDl~l~~~~ 205 (563)
...+..+||..=+=-.+.||+|..|+.++
T Consensus 49 ~~a~lalGS~GR~E~~~~sDqD~alv~~d 77 (138)
T PF03445_consen 49 PFAWLALGSYGRREQTLYSDQDNALVFED 77 (138)
T ss_pred CEEEEEECcccccCCCcCccccceeeecC
Confidence 57899999999999999999999999987
No 60
>KOG0111|consensus
Probab=58.81 E-value=6.6 Score=38.89 Aligned_cols=35 Identities=17% Similarity=0.435 Sum_probs=28.0
Q ss_pred eeecceEEE---eecCCceeEEEEEeCCHHHHHHHHhh
Q psy10458 43 FGTVQSMHH---YTLPGQTHFVIVEMKDSQVTRRILNK 77 (563)
Q Consensus 43 ~G~i~~~~~---~~~~~~~~~~~vef~~~~~~~~~~~~ 77 (563)
||.|..|-. |++....-|+.|||...|+++++++.
T Consensus 34 FGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDN 71 (298)
T KOG0111|consen 34 FGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDN 71 (298)
T ss_pred ccchhhcccccchhcccccceeEEEeeccchhHHHhhc
Confidence 999988654 34434457999999999999999875
No 61
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=57.17 E-value=9 Score=43.91 Aligned_cols=48 Identities=23% Similarity=0.356 Sum_probs=33.6
Q ss_pred eeecceEEEeec--CC-ceeEEEEEeCCHHHHHHHHhhc-CccCCCcceecc
Q psy10458 43 FGTVQSMHHYTL--PG-QTHFVIVEMKDSQVTRRILNKC-GHLDKSQVIPVR 90 (563)
Q Consensus 43 ~G~i~~~~~~~~--~~-~~~~~~vef~~~~~~~~~~~~~-~~~~~~~~~~~k 90 (563)
||+|.++++=.+ .| ..-||.|||.+.+++..++.+- ....++..|.|+
T Consensus 131 fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~ 182 (612)
T TIGR01645 131 FGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVG 182 (612)
T ss_pred cCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeec
Confidence 999988776332 12 2249999999999999999754 244445556665
No 62
>KOG4212|consensus
Probab=54.75 E-value=15 Score=39.80 Aligned_cols=48 Identities=19% Similarity=0.207 Sum_probs=32.6
Q ss_pred eeecceEEE--eecCCceeEEEEEeCCHHHHHHHHhhcC-ccCCCcceecc
Q psy10458 43 FGTVQSMHH--YTLPGQTHFVIVEMKDSQVTRRILNKCG-HLDKSQVIPVR 90 (563)
Q Consensus 43 ~G~i~~~~~--~~~~~~~~~~~vef~~~~~~~~~~~~~~-~~~~~~~~~~k 90 (563)
-|.|.-|.. |+.-+..--|||||+++|+++++++.-. +..++-.+.||
T Consensus 69 vGev~yveLl~D~~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vK 119 (608)
T KOG4212|consen 69 VGEVEYVELLFDESGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVK 119 (608)
T ss_pred cCceEeeeeecccCCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEe
Confidence 788877544 4433334579999999999999988643 44444444444
No 63
>PF11774 Lsr2: Lsr2 ; InterPro: IPR024412 This entry represents Lsr2, which is a small, basic DNA-bridging protein present in Mycobacterium and related actinomycetes. It is a functional homologue of the H-NS-like proteins []. H-NS proteins play a role in nucleoid organisation and also function as a pleiotropic regulator of gene expression [, ].; PDB: 4E1R_B 4E1P_B 2KNG_A.
Probab=54.65 E-value=21 Score=31.79 Aligned_cols=64 Identities=23% Similarity=0.277 Sum_probs=40.1
Q ss_pred eEEEEeecCCcceEEEeecchhhhhhHHHHHHHhhc------------------CCCchhHHHHHHHHHHHcCCCCCCCC
Q psy10458 269 PIIKYNHDMSALECDLSMTNLTALYMAELLYLFGEI------------------DWRVRPLVFTIKKWAKDINLTNPTPG 330 (563)
Q Consensus 269 PIIKf~~~~~gi~~DIS~nN~~gl~nS~LL~~y~~~------------------dpr~r~Lv~~IK~Wak~~gL~~~~~G 330 (563)
-.|.|.-.....++|||-.|..-++. .|.-|... -..-++-...||.||+.+|+.-+..|
T Consensus 20 etv~F~ldG~~YeIDLs~~na~~lr~--~l~~yi~~arr~~g~~~~~~~~~~~~~~~~~~~~~~IR~WA~~nG~~Vs~RG 97 (110)
T PF11774_consen 20 ETVRFGLDGVDYEIDLSAENAAKLRD--ALAPYIAAARRVGGRARRRRRRARSAAAAPREDTAAIREWARENGYEVSDRG 97 (110)
T ss_dssp EEEEEEETTEEEEEEE-HHHHHHHHH--HHHHHHHHSEEE---------SSGGG---SSTHHHHHHHHHHHTT----SSS
T ss_pred eEEEEEECCeEEEEECCHHHHHHHHH--HHHHHHHHheEccccccccccCccccCCCCccchHHHHHHHHHcCCcCCCCC
Confidence 56778777777889999988766665 34444321 13457888999999999999988888
Q ss_pred CCcCh
Q psy10458 331 RWITN 335 (563)
Q Consensus 331 ~~LsS 335 (563)
. |+.
T Consensus 98 R-Ip~ 101 (110)
T PF11774_consen 98 R-IPA 101 (110)
T ss_dssp ----H
T ss_pred c-CCH
Confidence 7 764
No 64
>cd05401 NT_GlnE_GlnD_like Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins. Escherichia coli GlnD and -E participate in the Glutamine synthetase (GS)/Glutamate synthase (GOGAT) pathway for the assimilation of ammonium nitrogen. In nitrogen sufficiency, GlnE adenylates GS, reducing GS activity; when nitrogen is limiting, GlnE deadenylates GS-AMP, restoring GS activity. When nitrogen is limiting, GlnD uridylylates the nitrogen regulatory protein PII to PII-UTP, and in nitrogen sufficiency, it removes the modifying groups. The activity of Escherichia coli GlnE is modulated by PII-proteins. PII-UMP promotes GlnE deadenylation activity, and PII promotes GlnE adenylation activity. Escherichia coli GlnE has two separate NT domains. The N-terminal NT domain catalyzes the deadenylylation of GS, and the C-terminal NT domain the adenylylation reaction. The majority of proteins in this family conta
Probab=54.40 E-value=22 Score=33.44 Aligned_cols=30 Identities=27% Similarity=0.213 Sum_probs=27.3
Q ss_pred CceEEEEcceecCCCCCCCccceeeccccC
Q psy10458 177 LCAIFPFGSSVNNFGKLGCDLDLVLQLDLQ 206 (563)
Q Consensus 177 ~~~V~pFGS~~~Gl~~~~SDLDl~l~~~~~ 206 (563)
+..+..+||+.-+--.+.||+|+.++.++.
T Consensus 55 ~~~~la~Gs~GR~E~~~~SD~D~~~v~~~~ 84 (172)
T cd05401 55 PFALLALGSYGRGELNPSSDQDLLLLYDDD 84 (172)
T ss_pred cEEEEEeCCcccCCcCCCcCcceEEEeCCC
Confidence 478999999999999999999999998763
No 65
>PRK01293 phosphoribosyl-dephospho-CoA transferase; Provisional
Probab=52.72 E-value=31 Score=34.17 Aligned_cols=41 Identities=22% Similarity=0.118 Sum_probs=29.2
Q ss_pred HHHHHHHHHhcCCCceEEEEccee----cCC--CCCCCccceeeccccC
Q psy10458 164 AYQVELALSGLFPLCAIFPFGSSV----NNF--GKLGCDLDLVLQLDLQ 206 (563)
Q Consensus 164 ~~~L~~il~~~fp~~~V~pFGS~~----~Gl--~~~~SDLDl~l~~~~~ 206 (563)
++.|.....+. +...-+|||.. ||+ -.++|||||++..+..
T Consensus 98 l~~l~~~~~~~--~~~wgv~GS~g~qlaTGl~~l~~~SDLDLlir~~~~ 144 (207)
T PRK01293 98 LQALAALLDAL--GLAWGVTGSAGFELATGIPVLHADSDLDLLIRAPQP 144 (207)
T ss_pred HHHHHHHHHhC--CCceeeehhHHHHHhhCCccccCCCCccEeecCCCc
Confidence 34455555442 78899999976 555 3678999999988753
No 66
>PF10620 MdcG: Phosphoribosyl-dephospho-CoA transferase MdcG; InterPro: IPR017557 Malonate decarboxylase, like citrate lyase, has a unique acyl carrier protein subunit with a prosthetic group derived from, and distinct from, coenzyme A. Members of this protein family are the phosphoribosyl-dephospho-CoA transferase specific to the malonate decarboxylase system. This enzyme can also be designated holo-ACP synthase (2.7.7.61 from EC). The corresponding component of the citrate lyase system, CitX, shows little or no sequence similarity to this family.; GO: 0016779 nucleotidyltransferase activity
Probab=52.06 E-value=16 Score=36.25 Aligned_cols=42 Identities=17% Similarity=0.052 Sum_probs=29.5
Q ss_pred HHHHHHHHHHhcCCCceEEEEccee----cCC--CCCCCccceeeccccC
Q psy10458 163 VAYQVELALSGLFPLCAIFPFGSSV----NNF--GKLGCDLDLVLQLDLQ 206 (563)
Q Consensus 163 v~~~L~~il~~~fp~~~V~pFGS~~----~Gl--~~~~SDLDl~l~~~~~ 206 (563)
.+..|+.... .-+....+|||.. ||+ -.++|||||.+..+..
T Consensus 104 ~l~~l~~~~~--~~~~~~gv~GS~g~qlaTGl~~l~~~SDLDLli~~~~~ 151 (213)
T PF10620_consen 104 ALQALRALLD--ALGLRWGVYGSLGFQLATGLPYLHADSDLDLLIRPPSP 151 (213)
T ss_pred HHHHHHHHHH--HcCCCEEEehhHHHHHHhCccccCCCCCceEEEeCCCh
Confidence 3344444442 2378999999975 665 3678999999988763
No 67
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=52.04 E-value=13 Score=41.92 Aligned_cols=48 Identities=15% Similarity=0.170 Sum_probs=33.3
Q ss_pred eeecceEEEeecC-C-ceeEEEEEeCCHHHHHHHHhhcC-ccCCCcceecc
Q psy10458 43 FGTVQSMHHYTLP-G-QTHFVIVEMKDSQVTRRILNKCG-HLDKSQVIPVR 90 (563)
Q Consensus 43 ~G~i~~~~~~~~~-~-~~~~~~vef~~~~~~~~~~~~~~-~~~~~~~~~~k 90 (563)
||+|.++....+. | ...|+.|+|++.+++.+++.+-. ...++..+.|+
T Consensus 309 ~G~i~~~~i~~d~~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk~l~V~ 359 (562)
T TIGR01628 309 CGEITSAKVMLDEKGVSRGFGFVCFSNPEEANRAVTEMHGRMLGGKPLYVA 359 (562)
T ss_pred cCCeEEEEEEECCCCCcCCeEEEEeCCHHHHHHHHHHhcCCeeCCceeEEE
Confidence 9999887665543 2 22599999999999999997543 34444444443
No 68
>KOG2534|consensus
Probab=51.84 E-value=65 Score=33.91 Aligned_cols=51 Identities=16% Similarity=0.121 Sum_probs=39.3
Q ss_pred CCHHHHHHHHHHHHHHHHHHHhcCCCceEEEEcceecCCCCCCCccceeeccccC
Q psy10458 152 MNDINTRLRFLVAYQVELALSGLFPLCAIFPFGSSVNNFGKLGCDLDLVLQLDLQ 206 (563)
Q Consensus 152 pt~~e~~~R~~v~~~L~~il~~~fp~~~V~pFGS~~~Gl~~~~SDLDl~l~~~~~ 206 (563)
.|.+|. ..+-+.+++.+.+..|++.|.+-||+.-|-. .+.|+|+.+.-|..
T Consensus 149 v~ReE~---~~i~~~V~~av~~~~p~~~vt~~GsfRRGk~-~ggDvD~LithP~~ 199 (353)
T KOG2534|consen 149 VTREEA---TAIQQTVQEAVWAFDPEAFVTVTGSFRRGKK-MGGDVDFLITHPGS 199 (353)
T ss_pred ccHHHH---HHHHHHHHHHHhhcCCCcEEEEeccccCCcc-cCCCeeEEEeCCCC
Confidence 455554 3445666777888889999999999999864 47799999998874
No 69
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=49.96 E-value=14 Score=40.48 Aligned_cols=48 Identities=17% Similarity=0.292 Sum_probs=33.0
Q ss_pred eeecceEEEeecCC--c-eeEEEEEeCCHHHHHHHHhhcC-ccCCCcceecc
Q psy10458 43 FGTVQSMHHYTLPG--Q-THFVIVEMKDSQVTRRILNKCG-HLDKSQVIPVR 90 (563)
Q Consensus 43 ~G~i~~~~~~~~~~--~-~~~~~vef~~~~~~~~~~~~~~-~~~~~~~~~~k 90 (563)
||+|..+.+..+.. + ..||.|||.+.+++.+++..-. ....+..|.|.
T Consensus 210 ~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~ 261 (457)
T TIGR01622 210 FGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVG 261 (457)
T ss_pred cCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEE
Confidence 99998877665432 1 2599999999999999986532 33334444443
No 70
>PHA02603 nrdC.11 hypothetical protein; Provisional
Probab=48.83 E-value=9.7 Score=40.25 Aligned_cols=21 Identities=24% Similarity=0.186 Sum_probs=19.2
Q ss_pred EEEEcceecCCCCCCCcccee
Q psy10458 180 IFPFGSSVNNFGKLGCDLDLV 200 (563)
Q Consensus 180 V~pFGS~~~Gl~~~~SDLDl~ 200 (563)
...+||.+.|+..++||+|+-
T Consensus 6 ~~~~GShaYG~~tp~SD~D~r 26 (330)
T PHA02603 6 KGLFGSHLYGTSTPESDVDYK 26 (330)
T ss_pred EEecccceeCCCCCCcccccc
Confidence 568999999999999999984
No 71
>COG2413 Predicted nucleotidyltransferase [General function prediction only]
Probab=48.42 E-value=30 Score=34.04 Aligned_cols=45 Identities=16% Similarity=0.030 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHHHhcCCCceEEEEcceecCCCCCCCccceeeccccC
Q psy10458 159 LRFLVAYQVELALSGLFPLCAIFPFGSSVNNFGKLGCDLDLVLQLDLQ 206 (563)
Q Consensus 159 ~R~~v~~~L~~il~~~fp~~~V~pFGS~~~Gl~~~~SDLDl~l~~~~~ 206 (563)
+|+.+...++.+..- +..-+.|||.+-|=-.++||+|++|..+-+
T Consensus 22 kRe~A~~i~e~l~~f---~ie~~v~gSvarGDV~p~SDvDV~I~~~vp 66 (228)
T COG2413 22 KREKARKIMEGLSDF---GIEAVVYGSVARGDVRPGSDVDVAIPEPVP 66 (228)
T ss_pred HHHHHHHHHHHHHHh---cchhEEEeeeeccCcCCCCCceEEEecCCC
Confidence 344444444443332 235678999999988999999999988543
No 72
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=48.13 E-value=23 Score=37.03 Aligned_cols=47 Identities=17% Similarity=0.195 Sum_probs=32.0
Q ss_pred eeecceEEEeecC--Cc-eeEEEEEeCCHHHHHHHHhhcC-ccCCCcceec
Q psy10458 43 FGTVQSMHHYTLP--GQ-THFVIVEMKDSQVTRRILNKCG-HLDKSQVIPV 89 (563)
Q Consensus 43 ~G~i~~~~~~~~~--~~-~~~~~vef~~~~~~~~~~~~~~-~~~~~~~~~~ 89 (563)
||+|..+..-.++ |+ .-||.|||.+.+++.+++..-. ....+..+.|
T Consensus 27 ~G~i~~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v 77 (352)
T TIGR01661 27 IGEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKV 77 (352)
T ss_pred cCCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCeeEEE
Confidence 9999887664332 31 2499999999999999997532 3333434444
No 73
>KOG0105|consensus
Probab=46.60 E-value=24 Score=34.20 Aligned_cols=48 Identities=17% Similarity=0.275 Sum_probs=37.1
Q ss_pred eeecceEEEeecCCceeEEEEEeCCHHHHHHHHhhcC-ccCCCcceecc
Q psy10458 43 FGTVQSMHHYTLPGQTHFVIVEMKDSQVTRRILNKCG-HLDKSQVIPVR 90 (563)
Q Consensus 43 ~G~i~~~~~~~~~~~~~~~~vef~~~~~~~~~~~~~~-~~~~~~~~~~k 90 (563)
||.|..|-.-.-.|...||.|||++.-+++.++-.-. ..-+++.++|-
T Consensus 30 yg~i~~ieLK~r~g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVE 78 (241)
T KOG0105|consen 30 YGRIREIELKNRPGPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVE 78 (241)
T ss_pred hcceEEEEeccCCCCCCeeEEEecCccchhhhhhcccccccCcceEEEE
Confidence 8999988875555767999999999999998876433 45556677775
No 74
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=45.96 E-value=31 Score=38.26 Aligned_cols=48 Identities=19% Similarity=0.284 Sum_probs=33.3
Q ss_pred eeecceEEEeecC--C-ceeEEEEEeCCHHHHHHHHhhcC-ccCCCcceecc
Q psy10458 43 FGTVQSMHHYTLP--G-QTHFVIVEMKDSQVTRRILNKCG-HLDKSQVIPVR 90 (563)
Q Consensus 43 ~G~i~~~~~~~~~--~-~~~~~~vef~~~~~~~~~~~~~~-~~~~~~~~~~k 90 (563)
||+|..+..-+.. | ..-||.|||.+.+++..++..-. ...++..|.|+
T Consensus 319 ~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~ 370 (509)
T TIGR01642 319 FGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQ 370 (509)
T ss_pred cCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEE
Confidence 9999886654432 3 23599999999999999987532 44444456554
No 75
>KOG0107|consensus
Probab=44.62 E-value=18 Score=34.76 Aligned_cols=32 Identities=22% Similarity=0.406 Sum_probs=27.3
Q ss_pred eeecceEEEeecCCceeEEEEEeCCHHHHHHHHh
Q psy10458 43 FGTVQSMHHYTLPGQTHFVIVEMKDSQVTRRILN 76 (563)
Q Consensus 43 ~G~i~~~~~~~~~~~~~~~~vef~~~~~~~~~~~ 76 (563)
||+|.+|-...... -||.|||++.-+++.+..
T Consensus 34 yG~lrsvWvArnPP--GfAFVEFed~RDA~DAvr 65 (195)
T KOG0107|consen 34 YGPLRSVWVARNPP--GFAFVEFEDPRDAEDAVR 65 (195)
T ss_pred cCcceeEEEeecCC--CceEEeccCcccHHHHHh
Confidence 99999999988664 599999999888887754
No 76
>COG3541 Predicted nucleotidyltransferase [General function prediction only]
Probab=41.68 E-value=13 Score=37.58 Aligned_cols=21 Identities=24% Similarity=0.183 Sum_probs=18.0
Q ss_pred EcceecCCCCCCCccceeecc
Q psy10458 183 FGSSVNNFGKLGCDLDLVLQL 203 (563)
Q Consensus 183 FGS~~~Gl~~~~SDLDl~l~~ 203 (563)
=||...||..|+||+|+--+.
T Consensus 16 sGS~~yGf~spdSDyDvR~V~ 36 (248)
T COG3541 16 SGSHLYGFPSPDSDYDVRGVH 36 (248)
T ss_pred ccccccCCCCCCCccceeeEE
Confidence 499999999999999985543
No 77
>PRK08609 hypothetical protein; Provisional
Probab=40.18 E-value=3.4e+02 Score=31.03 Aligned_cols=42 Identities=21% Similarity=0.173 Sum_probs=32.3
Q ss_pred HHHHHHHHHHhcCCCceEEEEcceecCCCCCCCccceeecccc
Q psy10458 163 VAYQVELALSGLFPLCAIFPFGSSVNNFGKLGCDLDLVLQLDL 205 (563)
Q Consensus 163 v~~~L~~il~~~fp~~~V~pFGS~~~Gl~~~~SDLDl~l~~~~ 205 (563)
+...|...++..-|.++|.+-||+.=|-.+ ..|||+++..++
T Consensus 161 ~a~~i~~~l~~~~~~~~v~~~GS~RR~~et-~gDiDili~~~~ 202 (570)
T PRK08609 161 IAQEIEEYLATIDEIIRFSRAGSLRRARET-VKDLDFIIATDE 202 (570)
T ss_pred HHHHHHHHHHhCCCccEEEeccchhccccc-cCCeeEEEecCC
Confidence 445666667666677899999999988766 459999997765
No 78
>COG1665 Predicted nucleotidyltransferase [General function prediction only]
Probab=40.03 E-value=28 Score=35.76 Aligned_cols=66 Identities=14% Similarity=0.142 Sum_probs=42.4
Q ss_pred HHHHHHhcccccHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHh-cCCCceEEEEcceecCCCCCCCccceeeccc
Q psy10458 127 DHVRECLASCNTITQQMTTLHNITKMNDINTRLRFLVAYQVELALSG-LFPLCAIFPFGSSVNNFGKLGCDLDLVLQLD 204 (563)
Q Consensus 127 ~~l~~~L~~~~~l~~qI~~l~~~~~pt~~e~~~R~~v~~~L~~il~~-~fp~~~V~pFGS~~~Gl~~~~SDLDl~l~~~ 204 (563)
..+.+.|.-.+.|.+-|.. +++ +.+. ..|-.++.. ..|--..-+-||...|+...+||||+++-++
T Consensus 82 ~~V~~iLrPeeRl~eil~s------~~~-~~~~-----rai~~~led~gVp~~~mGVTGSiL~gl~~~nSDIDfVVYG~ 148 (315)
T COG1665 82 SDVERILRPEERLEEILES------PSS-ESKA-----RAIVEFLEDAGVPVNSMGVTGSILLGLYDENSDIDFVVYGQ 148 (315)
T ss_pred HHHHHhcCHHHHHHHHHhC------ccc-HHHH-----HHHHHHHHHcCCchhhccccccccccccCCCCCceEEEEcH
Confidence 4566666655555444332 333 2222 333344443 4566677889999999999999999999883
No 79
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=39.96 E-value=29 Score=38.46 Aligned_cols=43 Identities=12% Similarity=0.155 Sum_probs=27.0
Q ss_pred ecceEEEeecCCceeEEEEEeCCHHHHHHHHhhcCccCCCcceecc
Q psy10458 45 TVQSMHHYTLPGQTHFVIVEMKDSQVTRRILNKCGHLDKSQVIPVR 90 (563)
Q Consensus 45 ~i~~~~~~~~~~~~~~~~vef~~~~~~~~~~~~~~~~~~~~~~~~k 90 (563)
+|..+..-..+| ||.|||.+.+++..+|.-......+..|.++
T Consensus 213 ~v~~~~~~~~kg---~afVeF~~~e~A~~Al~l~g~~~~g~~l~v~ 255 (509)
T TIGR01642 213 HVSSVNINKEKN---FAFLEFRTVEEATFAMALDSIIYSNVFLKIR 255 (509)
T ss_pred ceEEEEECCCCC---EEEEEeCCHHHHhhhhcCCCeEeeCceeEec
Confidence 344444433344 9999999999999999533333334344443
No 80
>PF09970 DUF2204: Nucleotidyl transferase of unknown function (DUF2204); InterPro: IPR018700 This family of hypothetical prokaryotic proteins has no known function.
Probab=39.84 E-value=1.5e+02 Score=28.52 Aligned_cols=29 Identities=14% Similarity=0.085 Sum_probs=23.1
Q ss_pred CceEEEEcceec----CCCCCCCccceeecccc
Q psy10458 177 LCAIFPFGSSVN----NFGKLGCDLDLVLQLDL 205 (563)
Q Consensus 177 ~~~V~pFGS~~~----Gl~~~~SDLDl~l~~~~ 205 (563)
++.+...|+++. |.-..+.|||+++..+.
T Consensus 16 gv~~~ivGG~av~l~~g~~r~T~DIDlfi~~~~ 48 (181)
T PF09970_consen 16 GVEYVIVGGAAVNLAYGRRRTTKDIDLFIENPS 48 (181)
T ss_pred CCeEEEECHHHHHHHhCCCCCCCCeEEEeCCCc
Confidence 568999999874 55677899999987664
No 81
>PRK00227 glnD PII uridylyl-transferase; Provisional
Probab=38.83 E-value=50 Score=38.68 Aligned_cols=48 Identities=27% Similarity=0.153 Sum_probs=39.1
Q ss_pred HHHHHHHHHHHHHHHhc-CC-CceEEEEcceecCCCCCCCccceeecccc
Q psy10458 158 RLRFLVAYQVELALSGL-FP-LCAIFPFGSSVNNFGKLGCDLDLVLQLDL 205 (563)
Q Consensus 158 ~~R~~v~~~L~~il~~~-fp-~~~V~pFGS~~~Gl~~~~SDLDl~l~~~~ 205 (563)
++|..+...-..+++.+ +| ++.+...|+|.-|-=.|.||||+.++.+.
T Consensus 6 ~~~~~~~~~~~~~~~~~~~~~~~aLvAvGGYGR~EL~P~SDIDLLiL~~~ 55 (693)
T PRK00227 6 QLREDAEASALALLGSLQLPPGTALAATGSLARREMTPYSDLDLILLHPP 55 (693)
T ss_pred HHHHHHHHHHHHHHHhcCCCCCeEEEEeccccccCcCCCcCceEEEEeCC
Confidence 45677777777777764 33 57899999999999999999999999874
No 82
>PRK05007 PII uridylyl-transferase; Provisional
Probab=38.05 E-value=57 Score=39.32 Aligned_cols=29 Identities=17% Similarity=0.038 Sum_probs=26.8
Q ss_pred CceEEEEcceecCCCCCCCccceeecccc
Q psy10458 177 LCAIFPFGSSVNNFGKLGCDLDLVLQLDL 205 (563)
Q Consensus 177 ~~~V~pFGS~~~Gl~~~~SDLDl~l~~~~ 205 (563)
++.+...|++.-|--.|.|||||.++.++
T Consensus 80 ~~alvAvGgyGR~EL~p~SDiDll~l~~~ 108 (884)
T PRK05007 80 DLALVAVGGYGRGELHPLSDIDLLILSRK 108 (884)
T ss_pred ceEEEecCCCCCcccCCcccceEEEEeCC
Confidence 47899999999999999999999999875
No 83
>PF05172 Nup35_RRM: Nup53/35/40-type RNA recognition motif; InterPro: IPR007846 The MPPN (Mitotic PhosphoProtein N end) family is uncharacterised however it probably plays a role in the cell cycle because the family includes mitotic phosphoproteins O13026 from SWISSPROT []. This family also includes Q05166 from SWISSPROT a suppressor of thermosensitive mutations in the DNA polymerase delta gene, Pol III []. The conserved central region appears to be distantly related to the RNA-binding region RNP-1 (RNA recognition motif, IPR000504 from INTERPRO), suggesting an RNA binding function for this protein.; PDB: 1WWH_C 3P3D_A.
Probab=37.10 E-value=64 Score=28.16 Aligned_cols=46 Identities=20% Similarity=0.387 Sum_probs=32.9
Q ss_pred eeecceEE------------EeecCCceeEEEEEeCCHHHHHHHHhhcCccCCCc-ceecc
Q psy10458 43 FGTVQSMH------------HYTLPGQTHFVIVEMKDSQVTRRILNKCGHLDKSQ-VIPVR 90 (563)
Q Consensus 43 ~G~i~~~~------------~~~~~~~~~~~~vef~~~~~~~~~~~~~~~~~~~~-~~~~k 90 (563)
||+|..++ .....+ ..+-|.|++..++.++|.+-....++. .+-|+
T Consensus 29 ~G~Ile~~~~~~~~~~~~~~~~~~~~--NWi~I~Y~~~~~A~rAL~~NG~i~~g~~mvGV~ 87 (100)
T PF05172_consen 29 FGTILEHFEVLRSSSGINPYPIPSGG--NWIHITYDNPLSAQRALQKNGTIFSGSLMVGVK 87 (100)
T ss_dssp CS-EECEEGGG----------E-CCT--TEEEEEESSHHHHHHHHTTTTEEETTCEEEEEE
T ss_pred cceEEEeecccccccccccccCCCCC--CEEEEECCCHHHHHHHHHhCCeEEcCcEEEEEE
Confidence 89998876 333334 899999999999999999887666553 33354
No 84
>KOG4454|consensus
Probab=36.57 E-value=16 Score=36.28 Aligned_cols=34 Identities=12% Similarity=0.033 Sum_probs=26.1
Q ss_pred eeecceEEEeecC-CceeEEEEEeCCHHHHHHHHh
Q psy10458 43 FGTVQSMHHYTLP-GQTHFVIVEMKDSQVTRRILN 76 (563)
Q Consensus 43 ~G~i~~~~~~~~~-~~~~~~~vef~~~~~~~~~~~ 76 (563)
-|||.+|..=..+ ++..||+|||.++-|+.=++.
T Consensus 33 aGPV~kv~ip~~~d~~~kFa~v~f~~E~sv~~a~~ 67 (267)
T KOG4454|consen 33 AGPVYKVGIPSGQDQEQKFAYVFFPNENSVQLAGQ 67 (267)
T ss_pred cCceEEEeCCCCccCCCceeeeecccccchhhhhh
Confidence 5898887764444 456899999999999877653
No 85
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=35.41 E-value=66 Score=30.93 Aligned_cols=48 Identities=17% Similarity=0.318 Sum_probs=34.4
Q ss_pred eeecceEEEeecC--C-ceeEEEEEeCCHHHHHHHHhhcC-ccCCCcceecc
Q psy10458 43 FGTVQSMHHYTLP--G-QTHFVIVEMKDSQVTRRILNKCG-HLDKSQVIPVR 90 (563)
Q Consensus 43 ~G~i~~~~~~~~~--~-~~~~~~vef~~~~~~~~~~~~~~-~~~~~~~~~~k 90 (563)
||+|..+..-.++ | ...||.|+|.+.+++..++..-. ....+..+.|.
T Consensus 139 ~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~ 190 (306)
T COG0724 139 FGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQ 190 (306)
T ss_pred cCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEee
Confidence 9999766655543 2 24699999999999999998765 44444455554
No 86
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=35.13 E-value=29 Score=39.63 Aligned_cols=43 Identities=16% Similarity=0.354 Sum_probs=32.2
Q ss_pred e--eecceEEEeecCCceeEEEEEeCCHHHHHHHHhhcC-ccCCCcceecc
Q psy10458 43 F--GTVQSMHHYTLPGQTHFVIVEMKDSQVTRRILNKCG-HLDKSQVIPVR 90 (563)
Q Consensus 43 ~--G~i~~~~~~~~~~~~~~~~vef~~~~~~~~~~~~~~-~~~~~~~~~~k 90 (563)
| |+|.+|.. .+| ||.|||.+.+++.+++..-. ...++..|.|.
T Consensus 257 f~~G~I~rV~~--~rg---fAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~V~ 302 (578)
T TIGR01648 257 FKPGKVERVKK--IRD---YAFVHFEDREDAVKAMDELNGKELEGSEIEVT 302 (578)
T ss_pred cCCCceEEEEe--ecC---eEEEEeCCHHHHHHHHHHhCCCEECCEEEEEE
Confidence 8 99998865 234 99999999999999997533 44455556664
No 87
>KOG0122|consensus
Probab=33.83 E-value=58 Score=33.04 Aligned_cols=47 Identities=17% Similarity=0.244 Sum_probs=35.2
Q ss_pred eeecceEEEeecC--Cc-eeEEEEEeCCHHHHHHHHhhc-CccCCCcceec
Q psy10458 43 FGTVQSMHHYTLP--GQ-THFVIVEMKDSQVTRRILNKC-GHLDKSQVIPV 89 (563)
Q Consensus 43 ~G~i~~~~~~~~~--~~-~~~~~vef~~~~~~~~~~~~~-~~~~~~~~~~~ 89 (563)
||+|.+|+.=.++ |. .-||.|-|.+.+++.++|+.= .+.-+...++|
T Consensus 213 fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrv 263 (270)
T KOG0122|consen 213 FGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRV 263 (270)
T ss_pred cCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEE
Confidence 9999999887777 21 249999999999999999863 24444445555
No 88
>smart00483 POLXc DNA polymerase X family. includes vertebrate polymerase beta and terminal deoxynucleotidyltransferases
Probab=33.62 E-value=64 Score=34.23 Aligned_cols=45 Identities=24% Similarity=0.326 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHHhcCCCceEEEEcceecCCCCCCCccceeeccccC
Q psy10458 161 FLVAYQVELALSGLFPLCAIFPFGSSVNNFGKLGCDLDLVLQLDLQ 206 (563)
Q Consensus 161 ~~v~~~L~~il~~~fp~~~V~pFGS~~~Gl~~~~SDLDl~l~~~~~ 206 (563)
..+...|...++...|.+.|.+-||+.=|-.. ..|||+++..++.
T Consensus 148 ~~i~~~i~~~l~~~~~~~~v~i~GSyRRgket-~gDIDili~~~~~ 192 (334)
T smart00483 148 FAVEYIVKRAVRKILPDAIVTLTGSFRRGKET-GHDVDFLITSPHP 192 (334)
T ss_pred HHHHHHHHHHHHhhCCCcEEEEecccccCCCc-CCCeeEEEecCCc
Confidence 34556677777777889999999999998766 4599999987763
No 89
>KOG4205|consensus
Probab=32.04 E-value=20 Score=37.75 Aligned_cols=84 Identities=14% Similarity=0.131 Sum_probs=60.0
Q ss_pred chhhhhhccCCCCCccccchHHHHHHHHh-hh--cc-----eee-------------------eeecceEEEeecCC---
Q psy10458 7 VFSFSKALKDPSGNVLSKYFVPSIEYRRL-EA--QR-----SIL-------------------FGTVQSMHHYTLPG--- 56 (563)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~~~~~~~~~r~~-qa--~r-----sv~-------------------~G~i~~~~~~~~~~--- 56 (563)
.=+.+.+|.+..-+...++++...+.=|. |. .| -|| ||.|..+.+..+++
T Consensus 58 ~~~v~~vl~~~~h~~dgr~ve~k~av~r~~~~~~~~~~~tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~ 137 (311)
T KOG4205|consen 58 PEGVDAVLNARTHKLDGRSVEPKRAVSREDQTKVGRHLRTKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSR 137 (311)
T ss_pred CcchheeecccccccCCccccceeccCcccccccccccceeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccc
Confidence 33456677777777777777665554332 22 22 344 99887755555552
Q ss_pred ceeEEEEEeCCHHHHHHHHhhcCccCCCcceecc
Q psy10458 57 QTHFVIVEMKDSQVTRRILNKCGHLDKSQVIPVR 90 (563)
Q Consensus 57 ~~~~~~vef~~~~~~~~~~~~~~~~~~~~~~~~k 90 (563)
..-|.-|.|.+++++++++....|..++..+.||
T Consensus 138 ~rgFgfv~~~~e~sVdkv~~~~f~~~~gk~vevk 171 (311)
T KOG4205|consen 138 PRGFGFVTFDSEDSVDKVTLQKFHDFNGKKVEVK 171 (311)
T ss_pred cccceeeEeccccccceecccceeeecCceeeEe
Confidence 2469999999999999999999999999888887
No 90
>KOG0123|consensus
Probab=30.60 E-value=66 Score=34.70 Aligned_cols=34 Identities=21% Similarity=0.435 Sum_probs=27.3
Q ss_pred eeecceEEEeecC-CceeEEEEEeCCHHHHHHHHhh
Q psy10458 43 FGTVQSMHHYTLP-GQTHFVIVEMKDSQVTRRILNK 77 (563)
Q Consensus 43 ~G~i~~~~~~~~~-~~~~~~~vef~~~~~~~~~~~~ 77 (563)
||+|.++-.-.+. |..-| .|+|++++++.++++.
T Consensus 100 ~g~ilS~kv~~~~~g~kg~-FV~f~~e~~a~~ai~~ 134 (369)
T KOG0123|consen 100 FGNILSCKVATDENGSKGY-FVQFESEESAKKAIEK 134 (369)
T ss_pred hcCeeEEEEEEcCCCceee-EEEeCCHHHHHHHHHH
Confidence 9999886655554 44457 9999999999999984
No 91
>KOG1190|consensus
Probab=30.48 E-value=46 Score=36.07 Aligned_cols=46 Identities=20% Similarity=0.279 Sum_probs=38.2
Q ss_pred eeecceEEEeecCCceeEEEEEeCCHHHHHHHHhhc-CccCCCcceecc
Q psy10458 43 FGTVQSMHHYTLPGQTHFVIVEMKDSQVTRRILNKC-GHLDKSQVIPVR 90 (563)
Q Consensus 43 ~G~i~~~~~~~~~~~~~~~~vef~~~~~~~~~~~~~-~~~~~~~~~~~k 90 (563)
||+|++|-....++ ..|||.++|...+.-++++= .+...+..++|-
T Consensus 322 YGdVqRVkil~nkk--d~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt 368 (492)
T KOG1190|consen 322 YGDVQRVKILYNKK--DNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVT 368 (492)
T ss_pred hcceEEEEeeecCC--cceeeeecchhHHHHHHHHhhcceecCceEEEe
Confidence 99999988877777 89999999999998888763 466667777776
No 92
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=28.09 E-value=66 Score=24.49 Aligned_cols=30 Identities=17% Similarity=0.337 Sum_probs=24.3
Q ss_pred eeecceEEEeecCCceeEEEEEeCCHHHHHHHH
Q psy10458 43 FGTVQSMHHYTLPGQTHFVIVEMKDSQVTRRIL 75 (563)
Q Consensus 43 ~G~i~~~~~~~~~~~~~~~~vef~~~~~~~~~~ 75 (563)
||.|.++... .....+.|.|.+..+++++|
T Consensus 24 fGeI~~~~~~---~~~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 24 FGEIVDIYVP---ESTNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred cCCEEEEEcC---CCCcEEEEEECCHHHHHhhC
Confidence 9999997653 23489999999999998875
No 93
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=26.96 E-value=46 Score=38.09 Aligned_cols=36 Identities=6% Similarity=0.068 Sum_probs=26.8
Q ss_pred eeecceEEE--eecCCceeEEEEEeCCHHHHHHHHhhc
Q psy10458 43 FGTVQSMHH--YTLPGQTHFVIVEMKDSQVTRRILNKC 78 (563)
Q Consensus 43 ~G~i~~~~~--~~~~~~~~~~~vef~~~~~~~~~~~~~ 78 (563)
||+|.++.. |......-||.|+|.+.+++++++..-
T Consensus 82 ~G~I~~vrl~~D~sG~sRGfaFV~F~~~e~A~~Ai~~l 119 (578)
T TIGR01648 82 AGPIYELRLMMDFSGQNRGYAFVTFCGKEEAKEAVKLL 119 (578)
T ss_pred hCCEEEEEEEECCCCCccceEEEEeCCHHHHHHHHHHc
Confidence 999977544 422222359999999999999999763
No 94
>PRK04374 PII uridylyl-transferase; Provisional
Probab=26.16 E-value=1.6e+02 Score=35.54 Aligned_cols=50 Identities=16% Similarity=0.045 Sum_probs=35.3
Q ss_pred HHHHHHHHH-HHHHHHHhcCC---CceEEEEcceecCCCCCCCccceeeccccC
Q psy10458 157 TRLRFLVAY-QVELALSGLFP---LCAIFPFGSSVNNFGKLGCDLDLVLQLDLQ 206 (563)
Q Consensus 157 ~~~R~~v~~-~L~~il~~~fp---~~~V~pFGS~~~Gl~~~~SDLDl~l~~~~~ 206 (563)
.+.|-.+++ .|+.+....+| +..|...|++.-|-=.|.|||||.++.+..
T Consensus 48 ~~~~s~~~D~~l~~~~~~~~~~~~~~alvAvGgYGR~EL~p~SDIDLliL~~~~ 101 (869)
T PRK04374 48 LALRARAVDQLMRNAWTRCIPADSGLSLHAVGGYGRGELFPRSDVDLLVLGETA 101 (869)
T ss_pred HHHHHHHHHHHHHHHHHHhCCCcCCEEEEEcCCccccccCCcccceEEEEecCC
Confidence 334444443 33444444455 258999999999999999999999998753
No 95
>PF03296 Pox_polyA_pol: Poxvirus poly(A) polymerase nucleotidyltransferase domain; InterPro: IPR024231 Poly(A) polymerase (2.7.7.19 from EC) catalyses template-independent extension of the 3'-end of a DNA or RNA strand by one nucleotide at a time. The Poxvirus enzyme creates the 3'(poly)A tail of mRNAs, and is a heterodimer of a catalytic and a regulatory subunit. This entry represents the nucleotidyltransferase domain of the catalytic subunit [].; PDB: 3ERC_C 3ER8_D 3OWG_A 2GA9_D 2GAF_D 3ER9_B.
Probab=26.15 E-value=1e+02 Score=28.53 Aligned_cols=61 Identities=16% Similarity=0.036 Sum_probs=31.4
Q ss_pred cHHHHHHHHHHHcCCCHHHHH------HHHHHHHHHHHHHHhcCCCceEEEEcceecCCCCC---CCcccee
Q psy10458 138 TITQQMTTLHNITKMNDINTR------LRFLVAYQVELALSGLFPLCAIFPFGSSVNNFGKL---GCDLDLV 200 (563)
Q Consensus 138 ~l~~qI~~l~~~~~pt~~e~~------~R~~v~~~L~~il~~~fp~~~V~pFGS~~~Gl~~~---~SDLDl~ 200 (563)
.+.+++..-+.-..++++-.. +-..+...+++++++ .+-....|||+..-+-.| -.|||+.
T Consensus 7 ~ia~~~l~s~~v~~~~~~~~grh~vS~lV~~V~klmeEyLrr--hNk~CicYGSyslhllN~~I~YgDIDil 76 (149)
T PF03296_consen 7 KIASDYLNSYNVANPSGKVMGRHNVSDLVENVNKLMEEYLRR--HNKSCICYGSYSLHLLNPNIKYGDIDIL 76 (149)
T ss_dssp HHHHHHHHHH--S-------------THHHHHHHHHHHHHHH---TTTEEEESHHHHHTTSTTS--SS-EEE
T ss_pred HHHHHHHHHhcccccCccccccccCcHHHHHHHHHHHHHHHh--hCCCeEEeeeeeEEecCCCcccCcchhh
Confidence 344555555555555553311 224456777777777 355678899998776544 4799983
No 96
>KOG0116|consensus
Probab=25.24 E-value=58 Score=35.75 Aligned_cols=51 Identities=14% Similarity=0.180 Sum_probs=38.9
Q ss_pred eeecceEEEeecC--C-ceeEEEEEeCCHHHHHHHHhhcCccCCCcceeccCcc
Q psy10458 43 FGTVQSMHHYTLP--G-QTHFVIVEMKDSQVTRRILNKCGHLDKSQVIPVRSPF 93 (563)
Q Consensus 43 ~G~i~~~~~~~~~--~-~~~~~~vef~~~~~~~~~~~~~~~~~~~~~~~~k~r~ 93 (563)
||+|+..-+.-.. + ..+|+.|||.+.+++..++..+....++..+.|+-+.
T Consensus 312 FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~Asp~~ig~~kl~Veek~ 365 (419)
T KOG0116|consen 312 FGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEASPLEIGGRKLNVEEKR 365 (419)
T ss_pred cccccccceEEeccCCCcCceEEEEEeecchhhhhhhcCccccCCeeEEEEecc
Confidence 9999875554433 2 2399999999999999999988777777777776443
No 97
>COG1796 POL4 DNA polymerase IV (family X) [DNA replication, recombination, and repair]
Probab=22.95 E-value=9.3e+02 Score=25.59 Aligned_cols=121 Identities=20% Similarity=0.201 Sum_probs=70.5
Q ss_pred HHHHHHHHHHhcCCCceEEEEcceecCCCCCCCccceeeccccCCCCCCcccchhhcccccCCcchHHHHHHHHHHHHHH
Q psy10458 163 VAYQVELALSGLFPLCAIFPFGSSVNNFGKLGCDLDLVLQLDLQSQGDNDQCRLMFHCKSSLGSERSQTLRHLETVGDLL 242 (563)
Q Consensus 163 v~~~L~~il~~~fp~~~V~pFGS~~~Gl~~~~SDLDl~l~~~~~~~~~~~~~~l~~~~k~~~~~~R~~~~~~L~~l~~~L 242 (563)
+...|...+.+.-|-.++-.-||..-|-.+ .+|||+++....+ . .+++. .+
T Consensus 166 ia~ei~~yl~~~~~~~~~~~aGs~RR~ret-v~DiD~~~s~~~~-~------------------------~v~~~---~~ 216 (326)
T COG1796 166 IAQEIEGYLEELTPIIQASIAGSLRRGRET-VGDIDILISTSHP-E------------------------SVLEE---LL 216 (326)
T ss_pred HHHHHHHHHHhccchheeeeccchhhcccc-ccceeeEeccCCc-H------------------------HHHHH---Hh
Confidence 445666666655555677778888877655 5799999887653 1 01111 11
Q ss_pred HhhCCCCCCCCCCCceeeEEecCCCeeEEEEeecCCcceEEEeecchhhhhhHHHHHHHhhcCCCchhHHHHHHHHHHHc
Q psy10458 243 QLFLPGCSQLFLPGCSQVKRILGARVPIIKYNHDMSALECDLSMTNLTALYMAELLYLFGEIDWRVRPLVFTIKKWAKDI 322 (563)
Q Consensus 243 ~~~~p~~s~~~~~g~~~V~~I~~ARVPIIKf~~~~~gi~~DIS~nN~~gl~nS~LL~~y~~~dpr~r~Lv~~IK~Wak~~ 322 (563)
+ .| ++..+..-..-++-.+.-. -.|+.||+-+--..+.-. -+++.=++.+-. +-|+..|+.+
T Consensus 217 ~--~~--------~~~~vi~~G~~k~s~~~~~--~~~~svD~r~v~~e~fGa-al~~fTGSkehN-----i~iR~lA~~k 278 (326)
T COG1796 217 E--MP--------NVQEVIAKGETKVSMLLIL--DEGTSVDFRVVPPEAFGA-ALQHFTGSKEHN-----IKIRQLAKAK 278 (326)
T ss_pred c--CC--------CcceeeecCCceeeEEEEe--cCCCeeEEEEcCHHHhhh-hhhhcccchhhh-----HHHHHHHHHh
Confidence 1 13 4445444445555544444 378899998776544433 333333333332 3478889999
Q ss_pred CCCCCCCC
Q psy10458 323 NLTNPTPG 330 (563)
Q Consensus 323 gL~~~~~G 330 (563)
|..-+..|
T Consensus 279 g~klseyG 286 (326)
T COG1796 279 GEKLSEYG 286 (326)
T ss_pred Ccchhhcc
Confidence 88765444
No 98
>TIGR01693 UTase_glnD [Protein-PII] uridylyltransferase. This model describes GlnD, the uridylyltransferase/uridylyl-removing enzyme for the nitrogen regulatory protein PII. Not all homologs of PII share the property of uridylyltransferase modification on the characteristic Tyr residue (see Prosite pattern PS00496 and document PDOC00439), but the modification site is preserved in the PII homolog of all species with a member of this family.
Probab=22.62 E-value=1.9e+02 Score=34.74 Aligned_cols=31 Identities=19% Similarity=0.072 Sum_probs=27.8
Q ss_pred CCceEEEEcceecCCCCCCCccceeeccccC
Q psy10458 176 PLCAIFPFGSSVNNFGKLGCDLDLVLQLDLQ 206 (563)
Q Consensus 176 p~~~V~pFGS~~~Gl~~~~SDLDl~l~~~~~ 206 (563)
.++.+...||+.-|-=.|.||||++++.++.
T Consensus 42 ~~~aliA~GgyGR~El~p~SDiDll~l~~~~ 72 (850)
T TIGR01693 42 SGIALVAVGGYGRGELAPYSDIDLLFLHDGK 72 (850)
T ss_pred CCeEEEEeCCccccCcCCCCCCeEEEEeCCC
Confidence 4678999999999999999999999998753
No 99
>PLN03213 repressor of silencing 3; Provisional
Probab=22.57 E-value=1e+02 Score=34.24 Aligned_cols=34 Identities=18% Similarity=0.424 Sum_probs=28.1
Q ss_pred eeecceEEEeecCCceeEEEEEeCCH--HHHHHHHhh
Q psy10458 43 FGTVQSMHHYTLPGQTHFVIVEMKDS--QVTRRILNK 77 (563)
Q Consensus 43 ~G~i~~~~~~~~~~~~~~~~vef~~~--~~~~~~~~~ 77 (563)
||.|.+|.+-+..| .-||-|||... +++.++++.
T Consensus 34 FGsVkdVEIpRETG-RGFAFVEMssdddaEeeKAISa 69 (759)
T PLN03213 34 MGTVDAVEFVRTKG-RSFAYIDFSPSSTNSLTKLFST 69 (759)
T ss_pred cCCeeEEEEecccC-CceEEEEecCCcHHHHHHHHHH
Confidence 99999988766666 57999999987 678888774
No 100
>COG2844 GlnD UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=22.34 E-value=1.6e+02 Score=34.92 Aligned_cols=30 Identities=20% Similarity=0.063 Sum_probs=27.4
Q ss_pred CceEEEEcceecCCCCCCCccceeeccccC
Q psy10458 177 LCAIFPFGSSVNNFGKLGCDLDLVLQLDLQ 206 (563)
Q Consensus 177 ~~~V~pFGS~~~Gl~~~~SDLDl~l~~~~~ 206 (563)
++.+...|.+.-|-=.|.||||+.++.|..
T Consensus 66 ~~aLvAVGGyGRgEL~P~SDiDlL~L~p~~ 95 (867)
T COG2844 66 GLALVAVGGYGRGELHPLSDIDLLLLSPQK 95 (867)
T ss_pred ceEEEEeccccccccCCCccceEEEecCCC
Confidence 378999999999999999999999998874
No 101
>KOG0121|consensus
Probab=22.07 E-value=2.4e+02 Score=26.08 Aligned_cols=47 Identities=15% Similarity=0.116 Sum_probs=33.0
Q ss_pred eeecceEEEeecC---CceeEEEEEeCCHHHHHHHHhh-cCccCCCcceec
Q psy10458 43 FGTVQSMHHYTLP---GQTHFVIVEMKDSQVTRRILNK-CGHLDKSQVIPV 89 (563)
Q Consensus 43 ~G~i~~~~~~~~~---~~~~~~~vef~~~~~~~~~~~~-~~~~~~~~~~~~ 89 (563)
-|+|..|+|--++ -.+-|+.|||-+.+++..++.. +....++..|++
T Consensus 60 cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~ 110 (153)
T KOG0121|consen 60 CGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRI 110 (153)
T ss_pred ccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccceee
Confidence 6899999985554 1245999999999999988765 334444434444
No 102
>PRK03059 PII uridylyl-transferase; Provisional
Probab=20.83 E-value=2.7e+02 Score=33.55 Aligned_cols=29 Identities=21% Similarity=0.037 Sum_probs=26.4
Q ss_pred CceEEEEcceecCCCCCCCccceeecccc
Q psy10458 177 LCAIFPFGSSVNNFGKLGCDLDLVLQLDL 205 (563)
Q Consensus 177 ~~~V~pFGS~~~Gl~~~~SDLDl~l~~~~ 205 (563)
+..|...|++.-|--.|.||||+.++.++
T Consensus 61 ~~alvAvGgyGR~EL~p~SDiDll~l~~~ 89 (856)
T PRK03059 61 GAALVAVGGYGRGELFPYSDVDLLVLLPD 89 (856)
T ss_pred CeEEEEcCCCCCcccCCCCCCEEEEEecC
Confidence 46899999999999999999999999864
No 103
>KOG0149|consensus
Probab=20.22 E-value=82 Score=31.77 Aligned_cols=50 Identities=16% Similarity=0.269 Sum_probs=34.9
Q ss_pred hhhcceee--eeecce--EEEeecCCc-eeEEEEEeCCHHHHHHHHhhcCccCCC
Q psy10458 35 LEAQRSIL--FGTVQS--MHHYTLPGQ-THFVIVEMKDSQVTRRILNKCGHLDKS 84 (563)
Q Consensus 35 ~qa~rsv~--~G~i~~--~~~~~~~~~-~~~~~vef~~~~~~~~~~~~~~~~~~~ 84 (563)
++..|.-| ||+|.. |+.|+.-|+ .-|..|-|.|.|++..+...+....+|
T Consensus 26 ~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp~piIdG 80 (247)
T KOG0149|consen 26 KETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKDPNPIIDG 80 (247)
T ss_pred hHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcCCCCcccc
Confidence 34445555 999955 555544432 249999999999999998877755444
No 104
>PF12633 Adenyl_cycl_N: Adenylate cyclase NT domain; InterPro: IPR024685 Adenylate cyclase is the enzyme responsible for the synthesis of cAMP from ATP. On the basis of sequence similarity, it has been proposed that there are three different classes of adenylate cyclases [, ]. Class I cyclases are found in enterobacteria and related Gram-negative bacteria. This entry represents the N-terminal domain of class-I adenylate cyclases.
Probab=20.12 E-value=1.4e+02 Score=29.66 Aligned_cols=29 Identities=21% Similarity=0.242 Sum_probs=24.7
Q ss_pred ceEEEEcceecCCCCCCCccceeeccccC
Q psy10458 178 CAIFPFGSSVNNFGKLGCDLDLVLQLDLQ 206 (563)
Q Consensus 178 ~~V~pFGS~~~Gl~~~~SDLDl~l~~~~~ 206 (563)
--|+.-||..+=--.+.||+|+=|+.+..
T Consensus 98 ~GlY~MGS~gSi~Qs~~SDlDiWvCh~~~ 126 (204)
T PF12633_consen 98 LGLYSMGSTGSIGQSSSSDLDIWVCHDSD 126 (204)
T ss_pred EEEEecCCCccccCCCCCCCeEEEEcCCC
Confidence 45899999988778999999999988753
No 105
>KOG0110|consensus
Probab=20.09 E-value=1.3e+02 Score=34.99 Aligned_cols=48 Identities=17% Similarity=0.185 Sum_probs=35.8
Q ss_pred eeecceEEEeecCCc------eeEEEEEeCCHHHHHHHHhhcC-ccCCCcceecc
Q psy10458 43 FGTVQSMHHYTLPGQ------THFVIVEMKDSQVTRRILNKCG-HLDKSQVIPVR 90 (563)
Q Consensus 43 ~G~i~~~~~~~~~~~------~~~~~vef~~~~~~~~~~~~~~-~~~~~~~~~~k 90 (563)
.|.|.++-+...+.. ..|+.|||.+.+++.+++..=+ +..+|+.+-++
T Consensus 539 ~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk 593 (725)
T KOG0110|consen 539 QGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELK 593 (725)
T ss_pred cCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEE
Confidence 688877755444421 2599999999999999998744 67777777776
Done!