Query psy12993
Match_columns 243
No_of_seqs 167 out of 1174
Neff 7.2
Searched_HMMs 46136
Date Fri Aug 16 16:23:01 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12993.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/12993hhsearch_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 1.7E-34 3.7E-39 266.6 16.3 184 5-242 80-286 (482)
2 KOG1906|consensus 100.0 4E-29 8.7E-34 235.3 16.3 187 5-242 86-284 (514)
3 cd05402 NT_PAP_TUTase Nucleoti 99.9 1E-24 2.3E-29 168.8 13.6 112 4-167 3-114 (114)
4 KOG2277|consensus 99.9 3.7E-22 8E-27 193.8 15.0 184 7-236 139-325 (596)
5 PTZ00418 Poly(A) polymerase; P 99.8 1.8E-18 4E-23 165.4 16.4 160 19-233 125-316 (593)
6 KOG2245|consensus 99.7 2.6E-16 5.7E-21 146.2 14.8 174 3-236 63-281 (562)
7 COG5186 PAP1 Poly(A) polymeras 99.4 5.5E-12 1.2E-16 114.0 12.9 163 19-236 80-273 (552)
8 TIGR03671 cca_archaeal CCA-add 99.2 1.8E-09 4E-14 100.2 16.7 149 4-209 24-187 (408)
9 PRK13300 tRNA CCA-pyrophosphor 99.1 6.8E-09 1.5E-13 97.7 16.5 150 6-209 27-189 (447)
10 COG1746 CCA1 tRNA nucleotidylt 98.6 1.4E-06 3E-11 80.8 14.1 149 5-209 30-191 (443)
11 PF01909 NTP_transf_2: Nucleot 98.5 1E-07 2.2E-12 70.3 3.2 43 7-49 1-43 (93)
12 cd05397 NT_Pol-beta-like Nucle 98.4 5.6E-07 1.2E-11 59.5 5.2 41 5-45 2-42 (49)
13 PF04928 PAP_central: Poly(A) 98.2 6.6E-07 1.4E-11 78.8 2.9 81 153-233 89-172 (254)
14 cd05403 NT_KNTase_like Nucleot 98.1 6.6E-06 1.4E-10 60.0 5.1 45 5-49 2-47 (93)
15 cd05400 NT_2-5OAS_ClassI-CCAas 98.0 9.3E-05 2E-09 59.0 10.6 47 3-49 5-57 (143)
16 COG1669 Predicted nucleotidylt 97.5 0.00026 5.5E-09 53.3 5.4 47 3-49 7-53 (97)
17 COG1708 Predicted nucleotidylt 97.1 0.00088 1.9E-08 51.4 5.0 32 15-46 21-52 (128)
18 PRK13746 aminoglycoside resist 97.0 0.0014 3.1E-08 58.1 5.8 47 3-49 9-57 (262)
19 PF03813 Nrap: Nrap protein; 95.8 0.023 5E-07 59.1 7.0 51 162-212 155-206 (972)
20 PF10421 OAS1_C: 2'-5'-oligoad 95.3 0.028 6.1E-07 47.4 4.6 58 156-213 26-85 (190)
21 TIGR03135 malonate_mdcG holo-A 95.0 0.054 1.2E-06 46.3 5.7 40 6-47 96-141 (202)
22 PRK02098 phosphoribosyl-dephos 94.8 0.047 1E-06 47.2 4.8 41 5-47 107-153 (221)
23 PF09249 tRNA_NucTransf2: tRNA 94.4 0.064 1.4E-06 41.5 4.2 33 177-209 3-37 (114)
24 smart00572 DZF domain in DSRM 94.1 0.31 6.7E-06 42.8 8.3 60 149-212 106-165 (246)
25 PF14792 DNA_pol_B_palm: DNA p 92.4 0.37 7.9E-06 37.1 5.5 65 9-82 13-77 (112)
26 cd05401 NT_GlnE_GlnD_like Nucl 90.7 1.9 4E-05 35.2 8.4 30 20-49 55-84 (172)
27 PF07528 DZF: DZF domain; Int 90.1 2 4.4E-05 37.8 8.6 64 145-212 102-165 (248)
28 PF14091 DUF4269: Domain of un 89.7 6.2 0.00013 32.2 10.4 27 22-48 17-43 (152)
29 PF03445 DUF294: Putative nucl 88.9 2.8 6.1E-05 33.3 7.9 68 6-80 35-103 (138)
30 PF10620 MdcG: Phosphoribosyl- 84.8 1.4 3E-05 37.9 4.3 43 4-48 102-150 (213)
31 PHA02603 nrdC.11 hypothetical 80.4 0.95 2.1E-05 41.5 1.6 21 23-43 6-26 (330)
32 PRK01293 phosphoribosyl-dephos 78.7 4.6 9.9E-05 34.6 5.2 41 5-47 96-142 (207)
33 COG1665 Predicted nucleotidylt 78.6 2.6 5.6E-05 37.7 3.7 30 17-46 118-147 (315)
34 PF10127 Nuc-transf: Predicted 77.2 2.1 4.6E-05 37.2 2.8 26 22-47 22-47 (247)
35 COG3541 Predicted nucleotidylt 73.5 1.8 3.9E-05 38.0 1.3 22 25-46 15-36 (248)
36 cd00141 NT_POLXc Nucleotidyltr 71.6 78 0.0017 28.6 12.9 40 8-48 148-187 (307)
37 PF04229 GrpB: GrpB protein; 65.6 73 0.0016 26.0 10.3 124 5-185 15-142 (167)
38 KOG2054|consensus 63.0 16 0.00036 38.2 5.8 45 167-212 304-348 (1121)
39 PF03828 PAP_assoc: Cid1 famil 54.0 2.5 5.5E-05 28.2 -1.1 26 218-243 5-30 (60)
40 PF09970 DUF2204: Nucleotidyl 52.0 27 0.00059 29.1 4.6 41 5-47 3-47 (181)
41 KOG3793|consensus 48.9 1.9E+02 0.0041 26.1 9.3 38 22-61 88-126 (362)
42 PF12633 Adenyl_cycl_N: Adenyl 48.4 45 0.00097 28.6 5.3 32 21-53 98-129 (204)
43 PRK05007 PII uridylyl-transfer 47.2 71 0.0015 33.3 7.6 30 19-48 79-108 (884)
44 PF11774 Lsr2: Lsr2 ; InterPr 46.8 24 0.00053 27.1 3.2 64 135-200 21-102 (110)
45 cd02068 radical_SAM_B12_BD B12 46.2 29 0.00063 26.5 3.6 41 6-46 54-97 (127)
46 TIGR01693 UTase_glnD [Protein- 45.7 79 0.0017 32.7 7.7 31 19-49 42-72 (850)
47 PF03813 Nrap: Nrap protein; 45.5 71 0.0015 33.7 7.3 51 158-212 670-720 (972)
48 PRK00227 glnD PII uridylyl-tra 45.4 46 0.001 33.7 5.8 43 6-48 11-55 (693)
49 COG2413 Predicted nucleotidylt 42.9 41 0.00089 28.9 4.2 25 22-46 39-63 (228)
50 KOG2534|consensus 42.1 1.1E+02 0.0024 28.1 7.1 38 11-49 162-199 (353)
51 COG4914 Predicted nucleotidylt 41.7 46 0.001 27.5 4.2 52 1-52 1-57 (190)
52 smart00483 POLXc DNA polymeras 37.5 77 0.0017 29.0 5.5 39 9-48 153-191 (334)
53 KOG2054|consensus 37.5 80 0.0017 33.4 6.0 56 158-218 806-861 (1121)
54 PF03710 GlnE: Glutamate-ammon 36.6 1.1E+02 0.0023 26.7 6.1 30 20-49 127-156 (247)
55 PRK01759 glnD PII uridylyl-tra 36.5 1.3E+02 0.0029 31.2 7.6 29 20-48 56-84 (854)
56 PF07796 DUF1638: Protein of u 36.4 70 0.0015 25.9 4.6 30 18-47 28-60 (166)
57 KOG0584|consensus 34.2 42 0.00091 33.4 3.4 66 135-221 103-169 (632)
58 PRK03059 PII uridylyl-transfer 32.2 90 0.002 32.4 5.6 30 19-48 60-89 (856)
59 PRK00275 glnD PII uridylyl-tra 32.0 77 0.0017 33.1 5.1 30 20-49 78-107 (895)
60 PRK05092 PII uridylyl-transfer 31.1 96 0.0021 32.5 5.6 29 20-48 105-133 (931)
61 PRK04374 PII uridylyl-transfer 29.8 89 0.0019 32.6 5.1 30 20-49 72-101 (869)
62 TIGR00237 xseA exodeoxyribonuc 26.3 74 0.0016 30.2 3.5 45 5-49 141-197 (432)
63 COG1570 XseA Exonuclease VII, 26.1 1.6E+02 0.0034 28.3 5.6 43 6-48 148-202 (440)
64 PF14907 NTP_transf_5: Unchara 25.3 1E+02 0.0022 26.1 3.9 40 4-45 57-102 (249)
65 COG2844 GlnD UTP:GlnB (protein 25.2 1.5E+02 0.0032 30.8 5.5 30 20-49 66-95 (867)
66 PRK08609 hypothetical protein; 23.6 7.2E+02 0.016 24.5 12.0 39 8-47 163-201 (570)
67 PRK03381 PII uridylyl-transfer 23.4 1.7E+02 0.0036 30.1 5.7 29 20-48 57-85 (774)
68 PRK14109 bifunctional glutamin 23.4 1.4E+02 0.003 31.7 5.2 30 20-49 215-244 (1007)
69 TIGR02692 tRNA_CCA_actino tRNA 22.0 2.4E+02 0.0053 26.9 6.2 42 2-45 11-54 (466)
70 PRK14109 bifunctional glutamin 21.6 1.7E+02 0.0037 31.0 5.5 28 21-48 724-751 (1007)
No 1
>COG5260 TRF4 DNA polymerase sigma [DNA replication, recombination, and repair]
Probab=100.00 E-value=1.7e-34 Score=266.56 Aligned_cols=184 Identities=30% Similarity=0.436 Sum_probs=155.3
Q ss_pred HHHHHHHHHHhcCCCCcEEEEecccccCCCCCCCCceEEEeecCCc-CChhhHHHHhhhcccchhHHHHHHH-hhccccc
Q psy12993 5 KAVEEYVRFTLRDPAHVRLFVVGSTMTGFGLDSSDVDMCLGIRPYE-FDRGQAIRVLCVLETSDVDMCLEIF-KKADLIH 82 (243)
Q Consensus 5 ~~i~~~~~~i~~~~p~~~v~~fGS~~tGl~l~~SDiDl~l~~~~~~-~~~~~a~~~l~~~~~~~~~~~~~~L-~~~~~~~ 82 (243)
..++++++.+++.||+|.+.+|||+.||+++|.||+|+||..++.. .+...+. .++..+ +++.+
T Consensus 80 ~~leklr~~lk~~~pda~l~vFGS~~t~L~l~~SDiDl~I~s~~~~~~et~~~~------------~l~~~l~~~~~~-- 145 (482)
T COG5260 80 ALLEKLRTLLKKEFPDADLKVFGSTETGLALPKSDIDLCIISDPRGYKETRNAG------------SLASHLFKKNLA-- 145 (482)
T ss_pred HHHHHHHHHHHHhCCccceeEecccccccccCcccccEEEecCCccccccccHH------------HHHHHHHHhccC--
Confidence 5789999999999999999999999999999999999999985432 1111111 122222 22221
Q ss_pred cccceeecccCccceeeecccccccccccccccccccccceeEeeeccCCcceEEEEeCCCCeeEEEEecCchHhHHHHH
Q psy12993 83 AKVPILKFQDSSFKLEVDLNCNNVVGVRNTHLLYCYAQKIFKKADLIHAKVPILKFQDSSFKLEVDLNCNNVVGVRNTHL 162 (243)
Q Consensus 83 ~~~p~~~~~~~~~~~e~~~~~~~~~g~r~~~~~~c~~~~~~~~~~i~~ArVPIik~~~~~~~i~~DIs~~n~~g~~ns~l 162 (243)
.+++.+.+|||||||++++.+|+.|||+|||..|+.|+++
T Consensus 146 ----------------------------------------~~~~~v~tarVPIIKl~d~~s~l~~Disfn~~~~~~~akl 185 (482)
T COG5260 146 ----------------------------------------KEVVVVSTARVPIIKLVDPQSGLHCDISFNNTNGIVNAKL 185 (482)
T ss_pred ----------------------------------------eeeEEEEecccceEEEecCccceEEEeecCchhHHHHHHH
Confidence 4566799999999999999999999999999999999999
Q ss_pred HHHHHhcCcchHHHHHHHHHHHHHCCCCCCCCCCCChHHHHHHHHHHHhcCCCC---------------------Ccccc
Q psy12993 163 LYCYAQMDWRIRPLVLLVKLWAQAHNINDAKNMTISSYSFTLMVIHFLQCGTSP---------------------PVLPN 221 (243)
Q Consensus 163 l~~~~~~~p~~r~L~~~lK~W~~~~~L~~~~~G~lsSy~l~lmvi~fLq~~~~~---------------------~iLp~ 221 (243)
++.|...+|++|||++++|||+++|.|++++.|||+||++++||+.|||.+..+ -++-.
T Consensus 186 ~~~~~~~~P~lrpLvliIKhwl~~R~ln~~~~GtL~sy~i~cmV~sfLq~~~~~~~~~~~~~~~l~~~~~~~~lgvLf~d 265 (482)
T COG5260 186 IRSYLKEDPRLRPLVLIIKHWLKRRALNDVATGTLSSYTISCMVLSFLQMHPPFLFFDNGLLSPLKYNKNIDNLGVLFDD 265 (482)
T ss_pred HHHHHhcCcccchHHHHHHHHHHHHhhcccccCcchhhhhHHHHHHHHHhCCccccccccccchhhccccccccchHHHH
Confidence 999999999999999999999999999999999999999999999999996311 12455
Q ss_pred hhhhcCCCCCCCcccccccCC
Q psy12993 222 LVAQYPTKFSPNSNIDNIQEG 242 (243)
Q Consensus 222 l~~~~~~~f~p~~~~~~~~~~ 242 (243)
|+++||-.|++...+.++..|
T Consensus 266 Ff~~yG~~f~Y~~~~~si~~g 286 (482)
T COG5260 266 FFELYGKSFNYSLVVLSINSG 286 (482)
T ss_pred HHHHhccccChhheEEEecCC
Confidence 788999999999999888877
No 2
>KOG1906|consensus
Probab=99.96 E-value=4e-29 Score=235.33 Aligned_cols=187 Identities=24% Similarity=0.344 Sum_probs=152.2
Q ss_pred HHHHHHHHHHhcCCCCcEEEEecccccCCCCCCCCceEEEeecCCcCChhhHHHHhhhcccchhHHHHHHHhhccccccc
Q psy12993 5 KAVEEYVRFTLRDPAHVRLFVVGSTMTGFGLDSSDVDMCLGIRPYEFDRGQAIRVLCVLETSDVDMCLEIFKKADLIHAK 84 (243)
Q Consensus 5 ~~i~~~~~~i~~~~p~~~v~~fGS~~tGl~l~~SDiDl~l~~~~~~~~~~~a~~~l~~~~~~~~~~~~~~L~~~~~~~~~ 84 (243)
.+++++++++.+.||+|.|.+|||+.||++||+||||+++..+........+.. + .+...+++...
T Consensus 86 ~~~~~i~~~v~~~~~~a~v~~FGS~~tglyLP~sDIDl~v~~~~~~~~e~~~~~-~---------~l~~~~e~~~~---- 151 (514)
T KOG1906|consen 86 ELVEKIRDVVKQKWPDASVYVFGSVPTGLYLPDSDIDLVVLSKFLNDKEDRAVK-L---------ELALELEEDNS---- 151 (514)
T ss_pred HHHHHHHHHHHHhcccceeEEeeeeeccccccccceEEEEecccccCchhhHHH-H---------HHHHhhhhccc----
Confidence 467888999999999999999999999999999999999998733211111110 0 11111111100
Q ss_pred cceeecccCccceeeecccccccccccccccccccccceeEeeeccCCcceEEEEeCCCCeeEEEEecCchHhHHHHHHH
Q psy12993 85 VPILKFQDSSFKLEVDLNCNNVVGVRNTHLLYCYAQKIFKKADLIHAKVPILKFQDSSFKLEVDLNCNNVVGVRNTHLLY 164 (243)
Q Consensus 85 ~p~~~~~~~~~~~e~~~~~~~~~g~r~~~~~~c~~~~~~~~~~i~~ArVPIik~~~~~~~i~~DIs~~n~~g~~ns~ll~ 164 (243)
+ ..+..+..|||||+||++..+++.+|||||+.+|++.+++++
T Consensus 152 -----------------------------------~--~~v~~v~karvpiik~~d~~s~i~vDISFn~~~G~~aa~~i~ 194 (514)
T KOG1906|consen 152 -----------------------------------A--FHVKVVQKARVPIIKFKDPVSNIHVDISFNQTNGVKAAKFIK 194 (514)
T ss_pred -----------------------------------c--ceEEEeeeeeeeeEEeecCccceEEEeeecccCchhHHHHHH
Confidence 0 234568899999999999999999999999999999999999
Q ss_pred HHHhcCcchHHHHHHHHHHHHHCCCCCCCCCCCChHHHHHHHHHHHhcCCC---C---------CcccchhhhcCCCCCC
Q psy12993 165 CYAQMDWRIRPLVLLVKLWAQAHNINDAKNMTISSYSFTLMVIHFLQCGTS---P---------PVLPNLVAQYPTKFSP 232 (243)
Q Consensus 165 ~~~~~~p~~r~L~~~lK~W~~~~~L~~~~~G~lsSy~l~lmvi~fLq~~~~---~---------~iLp~l~~~~~~~f~p 232 (243)
.|...+|.+++|++++|+|+.+|+++++++||++||++++|+++|||.+.. . -+|-.|+++||-.|+.
T Consensus 195 ~~~~~~p~~~~lvlvlk~fl~~r~ln~v~tGgisSyal~~Lv~~fl~l~~~~~s~~~~~~~~~~vll~~f~e~yG~~f~~ 274 (514)
T KOG1906|consen 195 DFLRDHPFLRSLVLVLKQFLYERRLNGVHTGGISSYALELLVLSFLQLHPRSKSGRLAVLKNLGVLLIKFFELYGRNFGY 274 (514)
T ss_pred HHHhcCccchhHHHHHHHHHHhhcccccccccchHHHHHHHHHHHHhhcccccCCccchhcccchHHHHHHHHhccccCc
Confidence 999999999999999999999999999999999999999999999999731 1 2567799999999988
Q ss_pred CcccccccCC
Q psy12993 233 NSNIDNIQEG 242 (243)
Q Consensus 233 ~~~~~~~~~~ 242 (243)
..-.+++..|
T Consensus 275 ~k~~i~~~~~ 284 (514)
T KOG1906|consen 275 DKLGISLSLG 284 (514)
T ss_pred hhhceeccCC
Confidence 8877766654
No 3
>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=99.92 E-value=1e-24 Score=168.79 Aligned_cols=112 Identities=33% Similarity=0.526 Sum_probs=93.1
Q ss_pred HHHHHHHHHHHhcCCCCcEEEEecccccCCCCCCCCceEEEeecCCcCChhhHHHHhhhcccchhHHHHHHHhhcccccc
Q psy12993 4 SKAVEEYVRFTLRDPAHVRLFVVGSTMTGFGLDSSDVDMCLGIRPYEFDRGQAIRVLCVLETSDVDMCLEIFKKADLIHA 83 (243)
Q Consensus 4 ~~~i~~~~~~i~~~~p~~~v~~fGS~~tGl~l~~SDiDl~l~~~~~~~~~~~a~~~l~~~~~~~~~~~~~~L~~~~~~~~ 83 (243)
++.++++++++++.||++++++|||+++|+++++||||+++..+....+. .+.+ .++.+.|++.+.
T Consensus 3 ~~i~~~l~~~i~~~~~~~~v~~fGS~~~g~~~~~SDiDl~i~~~~~~~~~---~~~l--------~~l~~~l~~~~~--- 68 (114)
T cd05402 3 EEVLDRLQELIKEWFPGAKLYPFGSYVTGLGLPGSDIDLCLLGPNHRVDR---EDFL--------RKLAKLLKKSGE--- 68 (114)
T ss_pred HHHHHHHHHHHHHHCCCCEEEEecccccCCCCCCCCeeEEEEeCCCCccH---HHHH--------HHHHHHHHhCCC---
Confidence 57889999999999999999999999999999999999999987541122 2222 366677766531
Q ss_pred ccceeecccCccceeeecccccccccccccccccccccceeEeeeccCCcceEEEEeCCCCeeEEEEecCchHhHHHHHH
Q psy12993 84 KVPILKFQDSSFKLEVDLNCNNVVGVRNTHLLYCYAQKIFKKADLIHAKVPILKFQDSSFKLEVDLNCNNVVGVRNTHLL 163 (243)
Q Consensus 84 ~~p~~~~~~~~~~~e~~~~~~~~~g~r~~~~~~c~~~~~~~~~~i~~ArVPIik~~~~~~~i~~DIs~~n~~g~~ns~ll 163 (243)
+.+...|.+|||||||+.|..+|+.|||||+|.+|+.||+++
T Consensus 69 --------------------------------------~~~~~~i~~ArVPiik~~~~~~~i~~Dis~~~~~g~~~s~li 110 (114)
T cd05402 69 --------------------------------------VVEVEPIINARVPIIKFVDKPTGIEVDISFNNLNGIRNTKLL 110 (114)
T ss_pred --------------------------------------ceeeEEeccCCCCEEEEEEcCCCeEEEEEcccchHHHHHHHH
Confidence 134567999999999999999999999999999999999999
Q ss_pred HHHH
Q psy12993 164 YCYA 167 (243)
Q Consensus 164 ~~~~ 167 (243)
++|.
T Consensus 111 ~~y~ 114 (114)
T cd05402 111 RAYV 114 (114)
T ss_pred HHhC
Confidence 9884
No 4
>KOG2277|consensus
Probab=99.88 E-value=3.7e-22 Score=193.78 Aligned_cols=184 Identities=36% Similarity=0.529 Sum_probs=142.0
Q ss_pred HHHHHHHHhcCCCCcEEE--EecccccCCCCCCCCceEEEeecCCcCChhhHHHHhhhcccchhHHHHHHHhhccccccc
Q psy12993 7 VEEYVRFTLRDPAHVRLF--VVGSTMTGFGLDSSDVDMCLGIRPYEFDRGQAIRVLCVLETSDVDMCLEIFKKADLIHAK 84 (243)
Q Consensus 7 i~~~~~~i~~~~p~~~v~--~fGS~~tGl~l~~SDiDl~l~~~~~~~~~~~a~~~l~~~~~~~~~~~~~~L~~~~~~~~~ 84 (243)
...+.......+|..... .|||..+|++...+|+|+++......... +...... ....+.+++....
T Consensus 139 ~~~l~~~~~~~~p~~~~~~~~~gs~~~~~~~~~~d~d~~~~~~~~~~~~-~~~~~~~-----~~~l~~~~~~~~~----- 207 (596)
T KOG2277|consen 139 LDKLRALASLLFPDSILSLYLFGSSDLGLGERSSDLDLCVDFTSSFLSF-EKIKGLE-----ILKLLAKCLASLL----- 207 (596)
T ss_pred HHHHHHHHHHhcCCCcceeeccCcccccccccccCcceeeccccccccc-chhhhHH-----HHHHHHHHHHhcc-----
Confidence 344555666678887666 99999999999999999777664432111 1111100 0112333332210
Q ss_pred cceeecccCccceeeecccccccccccccccccccccceeEeeeccCCcceEEEEeCCCCeeEEEEecCchHhHHHHHHH
Q psy12993 85 VPILKFQDSSFKLEVDLNCNNVVGVRNTHLLYCYAQKIFKKADLIHAKVPILKFQDSSFKLEVDLNCNNVVGVRNTHLLY 164 (243)
Q Consensus 85 ~p~~~~~~~~~~~e~~~~~~~~~g~r~~~~~~c~~~~~~~~~~i~~ArVPIik~~~~~~~i~~DIs~~n~~g~~ns~ll~ 164 (243)
. ..+..+..+..|||||||+.|...+++||++++|..|+.||.+++
T Consensus 208 ---------------------------------~-~~~~~~~~i~~A~vPiik~~~~~~~~~~d~s~~n~~~~~nS~ll~ 253 (596)
T KOG2277|consen 208 ---------------------------------E-EGVREVQQILSARVPIIKFNDSGSGLECDLSVNNSDAILNSQLLR 253 (596)
T ss_pred ---------------------------------c-cccceeeeeeecCCCEEEecCCCCCCceeeeeccchhhhhhHHHH
Confidence 0 001244679999999999999999999999999999999999999
Q ss_pred HHHhcCcchHHHHHHHHHHHHHCCCCCCCCCCCC-hHHHHHHHHHHHhcCCCCCcccchhhhcCCCCCCCccc
Q psy12993 165 CYAQMDWRIRPLVLLVKLWAQAHNINDAKNMTIS-SYSFTLMVIHFLQCGTSPPVLPNLVAQYPTKFSPNSNI 236 (243)
Q Consensus 165 ~~~~~~p~~r~L~~~lK~W~~~~~L~~~~~G~ls-Sy~l~lmvi~fLq~~~~~~iLp~l~~~~~~~f~p~~~~ 236 (243)
.|...||++++|++++|+|+++++++++..|+++ ||++++|++||||+ ..|++||.+.+++......+.+.
T Consensus 254 ~~~~~d~r~~~L~~~vk~wa~~~~~~d~~~g~~~s~ysl~lmvi~fLq~-~~~~ilp~l~~l~~~~~~~~~~~ 325 (596)
T KOG2277|consen 254 NYSEIDPRVRPLVLLVKHWAKEKGLNDAKPGGLNSSYSLTLMVIHFLQT-LSPPILPPLSKLLPESDSNDKPV 325 (596)
T ss_pred HhHhcCCCcchHhHHHHHHHHhccCCCCCCCceeccccHHHHHHHHHHh-cCCcCCCchhhhchhcccccccc
Confidence 9999999999999999999999999999999999 59999999999999 67889999999988766655544
No 5
>PTZ00418 Poly(A) polymerase; Provisional
Probab=99.79 E-value=1.8e-18 Score=165.36 Aligned_cols=160 Identities=19% Similarity=0.215 Sum_probs=123.7
Q ss_pred CCcEEEEecccccCCCCCCCCceEEEeecCCcCChhhHHHHhhhcccchhHHHHHHHhhccccccccceeecccCcccee
Q psy12993 19 AHVRLFVVGSTMTGFGLDSSDVDMCLGIRPYEFDRGQAIRVLCVLETSDVDMCLEIFKKADLIHAKVPILKFQDSSFKLE 98 (243)
Q Consensus 19 p~~~v~~fGS~~tGl~l~~SDiDl~l~~~~~~~~~~~a~~~l~~~~~~~~~~~~~~L~~~~~~~~~~p~~~~~~~~~~~e 98 (243)
.+++|++|||+..|.+.|+||||..+..+.. .++++... .+.+.|++..
T Consensus 125 ~~g~I~tfGSYrLGV~~pgSDID~L~V~P~~-vtredFF~-----------~f~~~L~~~~------------------- 173 (593)
T PTZ00418 125 ISGKLFTFGSYRLGVVAPGSDIDTLCLAPRH-ITRESFFS-----------DFYAKLQQDP------------------- 173 (593)
T ss_pred CCeEEEEeccccccCCCCCCcccEEEECCCC-CCHHHHHH-----------HHHHHHhcCC-------------------
Confidence 5689999999999999999999977776543 45433322 4456665431
Q ss_pred eecccccccccccccccccccccceeEeeeccCCcceEEEEeCCCCeeEEEEecC-------------------------
Q psy12993 99 VDLNCNNVVGVRNTHLLYCYAQKIFKKADLIHAKVPILKFQDSSFKLEVDLNCNN------------------------- 153 (243)
Q Consensus 99 ~~~~~~~~~g~r~~~~~~c~~~~~~~~~~i~~ArVPIik~~~~~~~i~~DIs~~n------------------------- 153 (243)
++ -+...+..|+||+|||.. .||+||+.|..
T Consensus 174 ---------~V-------------~eL~~V~~A~VPiIk~~~--~GI~iDL~fa~l~~~~vp~~~~~l~d~~lL~nlde~ 229 (593)
T PTZ00418 174 ---------NI-------------TKLQPVPDAYTPVIKFVY--DGIDIDLLFANLPLPTIPDCLNSLDDDYILRNVDEK 229 (593)
T ss_pred ---------Cc-------------ceeeccCccccCeEEEEE--CCEEEeeeecccCCCCCCccccccCchhhhhcCCHH
Confidence 11 234568999999999999 79999999851
Q ss_pred ----chHhHHHHHHHHHHhcCcchHHHHHHHHHHHHHCCCCCCCCCCCChHHHHHHHHHHHhcCCC---CCcccchhhhc
Q psy12993 154 ----VVGVRNTHLLYCYAQMDWRIRPLVLLVKLWAQAHNINDAKNMTISSYSFTLMVIHFLQCGTS---PPVLPNLVAQY 226 (243)
Q Consensus 154 ----~~g~~ns~ll~~~~~~~p~~r~L~~~lK~W~~~~~L~~~~~G~lsSy~l~lmvi~fLq~~~~---~~iLp~l~~~~ 226 (243)
.+|++.+..|....--.+.||.+.++||.|||+||++....|++|+-+|.+||...+|..+. ..+|-.|+..|
T Consensus 230 s~rSLNG~Rvtd~Il~lVPn~~~Fr~aLR~IKlWAkrRGIYsNv~GflGGV~wAILvARVCQLyPna~~s~Lv~~FF~iy 309 (593)
T PTZ00418 230 TVRSLNGCRVADLILASVPNKDYFRTTLRFIKLWAKRRGIYSNVLGYLGGVSWAILTARICQLYPNFAPSQLIHKFFRVY 309 (593)
T ss_pred HhhhhccHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccccccccccchHHHHHHHHHHHHhCCCCCHHHHHHHHHHHh
Confidence 15677777777666666789999999999999999999999999999999999999998532 13566677777
Q ss_pred CCCCCCC
Q psy12993 227 PTKFSPN 233 (243)
Q Consensus 227 ~~~f~p~ 233 (243)
...-=|+
T Consensus 310 s~W~Wp~ 316 (593)
T PTZ00418 310 SIWNWKN 316 (593)
T ss_pred hcCCCCC
Confidence 7655444
No 6
>KOG2245|consensus
Probab=99.70 E-value=2.6e-16 Score=146.21 Aligned_cols=174 Identities=21% Similarity=0.276 Sum_probs=124.2
Q ss_pred HHHHHHHHHHHHhcC--C-------CCcEEEEecccccCCCCCCCCceEEEeecCCcCChhhHHHHhhhcccchhHHHHH
Q psy12993 3 LSKAVEEYVRFTLRD--P-------AHVRLFVVGSTMTGFGLDSSDVDMCLGIRPYEFDRGQAIRVLCVLETSDVDMCLE 73 (243)
Q Consensus 3 l~~~i~~~~~~i~~~--~-------p~~~v~~fGS~~tGl~l~~SDiDl~l~~~~~~~~~~~a~~~l~~~~~~~~~~~~~ 73 (243)
|.+.+.++.+-+.+. . -++++++|||+..|.+.++||||-.+. .+...++.+... .+.+
T Consensus 63 L~~iVk~wVk~vs~~k~~p~~~~~~aggkIftfGSYRLGVhg~GADIDtLcV-~Prhv~R~DFF~-----------sf~~ 130 (562)
T KOG2245|consen 63 LNQIVKEWVKKVSEQKGLPDGMIENAGGKIFTFGSYRLGVHGPGADIDTLCV-GPRHVSRSDFFT-----------SFYD 130 (562)
T ss_pred HHHHHHHHHHHHHHhcCCChhhhhhcCceEEeccceeecccCCCCCcceeee-ccccccHHHHHH-----------HHHH
Confidence 667777777655433 2 457999999999999999999994444 444455544332 3446
Q ss_pred HHhhccccccccceeecccCccceeeecccccccccccccccccccccceeEeeeccCCcceEEEEeCCCCeeEEEEecC
Q psy12993 74 IFKKADLIHAKVPILKFQDSSFKLEVDLNCNNVVGVRNTHLLYCYAQKIFKKADLIHAKVPILKFQDSSFKLEVDLNCNN 153 (243)
Q Consensus 74 ~L~~~~~~~~~~p~~~~~~~~~~~e~~~~~~~~~g~r~~~~~~c~~~~~~~~~~i~~ArVPIik~~~~~~~i~~DIs~~n 153 (243)
.|++.. ++ .|...++.|.||||||+. .||++|+-|..
T Consensus 131 mL~~~~----------------------------eV-------------teL~~V~dAfVPiikfKf--~GI~IDllfAr 167 (562)
T KOG2245|consen 131 MLKERP----------------------------EV-------------TELHAVEDAFVPIIKFKF--DGIEIDLLFAR 167 (562)
T ss_pred HHhcCc----------------------------cc-------------cccccccccccceEEEEe--cCeeeeeeehh
Confidence 665431 11 244568999999999999 99999999853
Q ss_pred ----------------------------chHhHHHHHHHHHHhcCc---chHHHHHHHHHHHHHCCCCCCCCCCCChHHH
Q psy12993 154 ----------------------------VVGVRNTHLLYCYAQMDW---RIRPLVLLVKLWAQAHNINDAKNMTISSYSF 202 (243)
Q Consensus 154 ----------------------------~~g~~ns~ll~~~~~~~p---~~r~L~~~lK~W~~~~~L~~~~~G~lsSy~l 202 (243)
.+|++-| .+.+++=| .||...+.+|.|||.||+.....|.+|+-+|
T Consensus 168 L~l~~VP~dldl~ddslLknlDe~~vrSLNGcRVt---dqiL~LVPn~~~F~~tLRaiKlWAKrrgVYsN~~GF~GGV~w 244 (562)
T KOG2245|consen 168 LALPVVPEDLDLSDDSLLKNLDERCVRSLNGCRVT---DQILKLVPNQENFRITLRAIKLWAKRRGVYSNVMGFLGGVAW 244 (562)
T ss_pred cccccCCCcccccchHhhhcccHHHHHHhcCcCHH---HHHHHhCCCHHHHHHHHHHHHHHHHhcccccccccccchHHH
Confidence 1233323 23344444 5899999999999999999999999999999
Q ss_pred HHHHHHHHhcCCCCC-----cccchhhhcCCCCCCCccc
Q psy12993 203 TLMVIHFLQCGTSPP-----VLPNLVAQYPTKFSPNSNI 236 (243)
Q Consensus 203 ~lmvi~fLq~~~~~~-----iLp~l~~~~~~~f~p~~~~ 236 (243)
.+||+..+|.. |+ ++-.|+..|.+.-=|+..+
T Consensus 245 A~LVARiCQLY--PNA~~s~Lv~kfF~ifs~W~WP~PVl 281 (562)
T KOG2245|consen 245 AMLVARICQLY--PNASPSTLVAKFFRVFSQWNWPNPVL 281 (562)
T ss_pred HHHHHHHHccC--CCcchHHHHHHHHHHHhhccCCCceE
Confidence 99999999984 44 3444666666655555443
No 7
>COG5186 PAP1 Poly(A) polymerase [RNA processing and modification]
Probab=99.38 E-value=5.5e-12 Score=113.96 Aligned_cols=163 Identities=17% Similarity=0.149 Sum_probs=116.9
Q ss_pred CCcEEEEecccccCCCCCCCCceEEEeecCCcCChhhHHHHhhhcccchhHHHHHHHhhccccccccceeecccCcccee
Q psy12993 19 AHVRLFVVGSTMTGFGLDSSDVDMCLGIRPYEFDRGQAIRVLCVLETSDVDMCLEIFKKADLIHAKVPILKFQDSSFKLE 98 (243)
Q Consensus 19 p~~~v~~fGS~~tGl~l~~SDiDl~l~~~~~~~~~~~a~~~l~~~~~~~~~~~~~~L~~~~~~~~~~p~~~~~~~~~~~e 98 (243)
-+-+++.|||+..|.+.|+||||-.+..+.. .++.+...+ +.+.||...-
T Consensus 80 aGGKIFTyGSYRLGVhgpGsDIDtLvvVPkH-VsR~dFFt~-----------f~~~Lrer~e------------------ 129 (552)
T COG5186 80 AGGKIFTYGSYRLGVHGPGSDIDTLVVVPKH-VSRSDFFTH-----------FYEELRERPE------------------ 129 (552)
T ss_pred CCceeeeecceeeeccCCCCCcceEEEeccc-ccHHHHHHH-----------HHHHhccCcc------------------
Confidence 3469999999999999999999966665543 454444433 3355543210
Q ss_pred eecccccccccccccccccccccceeEeeeccCCcceEEEEeCCCCeeEEEEecCc------h-----------------
Q psy12993 99 VDLNCNNVVGVRNTHLLYCYAQKIFKKADLIHAKVPILKFQDSSFKLEVDLNCNNV------V----------------- 155 (243)
Q Consensus 99 ~~~~~~~~~g~r~~~~~~c~~~~~~~~~~i~~ArVPIik~~~~~~~i~~DIs~~n~------~----------------- 155 (243)
+-++..++.|=|||||++. .||++|+-|... .
T Consensus 130 -----------------------i~eva~vpDAfVPIIK~KF--~GIsIDLifARLs~P~Vp~~l~Lsd~nLLk~~dEkc 184 (552)
T COG5186 130 -----------------------IEEVAKVPDAFVPIIKLKF--QGISIDLIFARLSIPVVPDGLNLSDDNLLKSMDEKC 184 (552)
T ss_pred -----------------------hhhhccCCcccceeEEEEe--cCccceeeeeeccCCcCCCcccccchhhhhcchHHH
Confidence 1234568999999999999 899999988531 1
Q ss_pred --HhHHHHHHHHHHhcCc---chHHHHHHHHHHHHHCCCCCCCCCCCChHHHHHHHHHHHhcCCC---CCcccchhhhcC
Q psy12993 156 --GVRNTHLLYCYAQMDW---RIRPLVLLVKLWAQAHNINDAKNMTISSYSFTLMVIHFLQCGTS---PPVLPNLVAQYP 227 (243)
Q Consensus 156 --g~~ns~ll~~~~~~~p---~~r~L~~~lK~W~~~~~L~~~~~G~lsSy~l~lmvi~fLq~~~~---~~iLp~l~~~~~ 227 (243)
++..|+...+..++-| .|+...+.+|+||+.|.+.....|..++-||.+||...+|..+. .-|+-.|+++..
T Consensus 185 ilsLNGtRVTDeiL~LVP~~~vF~~ALRaIK~WAqRRavYaN~~GfpGGVAwam~VARiCQLYPNA~S~vIv~kFF~ils 264 (552)
T COG5186 185 ILSLNGTRVTDEILNLVPSVKVFHSALRAIKYWAQRRAVYANPYGFPGGVAWAMCVARICQLYPNASSFVIVCKFFEILS 264 (552)
T ss_pred HHhhcCceehHHHHHhCCchHHHHHHHHHHHHHHHhhhhhccccCCcchHHHHHHHHHHHhhccCcchHhHHHHHHHHHH
Confidence 1222333344555555 47888999999999999998889999999999999999998532 236666777777
Q ss_pred CCCCCCccc
Q psy12993 228 TKFSPNSNI 236 (243)
Q Consensus 228 ~~f~p~~~~ 236 (243)
+.-=|+..|
T Consensus 265 ~WnWPqPvi 273 (552)
T COG5186 265 SWNWPQPVI 273 (552)
T ss_pred hcCCCCCeE
Confidence 666665544
No 8
>TIGR03671 cca_archaeal CCA-adding enzyme.
Probab=99.15 E-value=1.8e-09 Score=100.25 Aligned_cols=149 Identities=18% Similarity=0.159 Sum_probs=91.0
Q ss_pred HHHHHHHHHHHhcCCCCcEEEEecccccCCCCC-CCCceEEEeecCCcCChhhHHHHhhhcccchhHHHHHHHhhccccc
Q psy12993 4 SKAVEEYVRFTLRDPAHVRLFVVGSTMTGFGLD-SSDVDMCLGIRPYEFDRGQAIRVLCVLETSDVDMCLEIFKKADLIH 82 (243)
Q Consensus 4 ~~~i~~~~~~i~~~~p~~~v~~fGS~~tGl~l~-~SDiDl~l~~~~~~~~~~~a~~~l~~~~~~~~~~~~~~L~~~~~~~ 82 (243)
++.++++.+.+.+..+++++.+|||++-|.+++ .||||+.+..+.. .+.++ .+.+. ..+.+.+.+.+.
T Consensus 24 ~~l~~~l~~~~~e~~~~~~v~~~GS~ArgT~L~G~sDIDIfi~f~~~-~~~e~-l~~~g-------l~i~~~~~~~~~-- 92 (408)
T TIGR03671 24 DELIARLEEIIEELGVDAEVVLVGSYARGTWLKGDRDIDIFILFPKD-TSREE-LEEYG-------LEIGHEVLKRGG-- 92 (408)
T ss_pred HHHHHHHHHHHHhcCCcceEEEEeeEecCCccCCCCceeEEEEeCCC-CCHHH-HHHHH-------HHHHHHHHhhCC--
Confidence 344566667777778889999999999999999 9999999998543 33222 11111 122222211110
Q ss_pred cccceeecccCccceeeecccccccccccccccccccccceeEeeeccCCcceEEEEeCCCCeeEEEE--ec--C----c
Q psy12993 83 AKVPILKFQDSSFKLEVDLNCNNVVGVRNTHLLYCYAQKIFKKADLIHAKVPILKFQDSSFKLEVDLN--CN--N----V 154 (243)
Q Consensus 83 ~~~p~~~~~~~~~~~e~~~~~~~~~g~r~~~~~~c~~~~~~~~~~i~~ArVPIik~~~~~~~i~~DIs--~~--n----~ 154 (243)
......|.-|=++... .|+++||- +. . .
T Consensus 93 ------------------------------------------~~~~~yaeHpYv~~~~--~G~~VDiVPcy~v~~g~~~~ 128 (408)
T TIGR03671 93 ------------------------------------------NYEERYAEHPYVSGEI--EGFEVDVVPCYKVESGEEII 128 (408)
T ss_pred ------------------------------------------CHhheeccCceEEEEE--ccEEEEEEeeEEccCcCeee
Confidence 0001122334444444 24555543 11 0 1
Q ss_pred hH----hHHHHHHHHHHhcCcchHHHHHHHHHHHHHCCCCC--CCCCCCChHHHHHHHHHH
Q psy12993 155 VG----VRNTHLLYCYAQMDWRIRPLVLLVKLWAQAHNIND--AKNMTISSYSFTLMVIHF 209 (243)
Q Consensus 155 ~g----~~ns~ll~~~~~~~p~~r~L~~~lK~W~~~~~L~~--~~~G~lsSy~l~lmvi~f 209 (243)
.+ ...++++..= ++..++..++++|.|++.-|+.+ .+.+|||||..-||+++|
T Consensus 129 taVDRtp~H~~fv~~r--l~~~~~d~VRLlK~f~k~igvYGsE~~~~GFSGYl~ELLv~~y 187 (408)
T TIGR03671 129 SAVDRTPFHTRYVLER--LDGKLRDDVRLLKQFLKGIGVYGSELKTRGFSGYLCELLVIHY 187 (408)
T ss_pred ccccCchHHHHHHHHh--hhhhHHHHHHHHHHHHHhCCccchhhccCCccHHHHHHHHHHh
Confidence 11 2333443322 23448899999999999999984 489999999999999997
No 9
>PRK13300 tRNA CCA-pyrophosphorylase; Provisional
Probab=99.06 E-value=6.8e-09 Score=97.71 Aligned_cols=150 Identities=19% Similarity=0.174 Sum_probs=89.8
Q ss_pred HHHHHHHHHhcCCCCcEEEEecccccCCCCC-CCCceEEEeecCCcCChhhHHHHhhhcccchhHHHHHHHhhccccccc
Q psy12993 6 AVEEYVRFTLRDPAHVRLFVVGSTMTGFGLD-SSDVDMCLGIRPYEFDRGQAIRVLCVLETSDVDMCLEIFKKADLIHAK 84 (243)
Q Consensus 6 ~i~~~~~~i~~~~p~~~v~~fGS~~tGl~l~-~SDiDl~l~~~~~~~~~~~a~~~l~~~~~~~~~~~~~~L~~~~~~~~~ 84 (243)
.++++.+.+.+.-.++++.++||++.|.+++ +||||+++..+.. .+.++ .+.+. ..+...+.+. +.
T Consensus 27 l~~~L~~~~~~~~~~~~V~l~GS~ArgT~L~GdsDIDIFv~fp~~-~~~e~-L~~~g-------l~i~~~~~~~-~~--- 93 (447)
T PRK13300 27 LIERLEEAIKELGLDAEVELVGSTARGTWLSGDRDIDIFVLFPKD-TSREE-LEEKG-------LEIGKEVAKE-LL--- 93 (447)
T ss_pred HHHHHHHHHHhcCCceEEEEEeeecCCcccCCCCceeEEEEeCCC-CCHHH-HHHHH-------HHHHHHHHHh-hC---
Confidence 3344444544444459999999999999999 8899999998543 23211 11110 0112211111 00
Q ss_pred cceeecccCccceeeecccccccccccccccccccccceeEeeeccCCcceEEEEeCCCCeeEEEE--e--cCc----hH
Q psy12993 85 VPILKFQDSSFKLEVDLNCNNVVGVRNTHLLYCYAQKIFKKADLIHAKVPILKFQDSSFKLEVDLN--C--NNV----VG 156 (243)
Q Consensus 85 ~p~~~~~~~~~~~e~~~~~~~~~g~r~~~~~~c~~~~~~~~~~i~~ArVPIik~~~~~~~i~~DIs--~--~n~----~g 156 (243)
| ...+.-|.-|=++... .|+++||- + ... .+
T Consensus 94 -~--------------------------------------~~~~~yaeHpyv~~~~--~G~~VDiVPcy~v~~~~~~~sa 132 (447)
T PRK13300 94 -G--------------------------------------DYEERYAEHPYVTGEI--DGFEVDIVPCYKVESGEEIISA 132 (447)
T ss_pred -C--------------------------------------cceeeeccCceEEEEE--CCEEEEEEeeEEccCcCccccc
Confidence 0 0011124456666555 36666664 1 111 22
Q ss_pred hHHHHHHHHHHh--cCcchHHHHHHHHHHHHHCCCCC--CCCCCCChHHHHHHHHHH
Q psy12993 157 VRNTHLLYCYAQ--MDWRIRPLVLLVKLWAQAHNIND--AKNMTISSYSFTLMVIHF 209 (243)
Q Consensus 157 ~~ns~ll~~~~~--~~p~~r~L~~~lK~W~~~~~L~~--~~~G~lsSy~l~lmvi~f 209 (243)
+.-|-+-..|.. ++..++..++++|.|+|.-|+.+ .+.+|||||..-||+++|
T Consensus 133 VDRtp~H~~fv~~rl~~~~~d~VRLlK~f~k~~gvYGsE~k~~GFSGYl~ELLv~~y 189 (447)
T PRK13300 133 VDRTPFHTKYVKERLKGKLEDEVRLLKQFLKGIGVYGSELKTRGFSGYLCELLIIHY 189 (447)
T ss_pred ccCchHHHHHHHHhhhhhHHHHHHHHHHHHHhCCccchhhccCCccHHHHHHHHHHh
Confidence 222333333332 24458999999999999999985 489999999999999997
No 10
>COG1746 CCA1 tRNA nucleotidyltransferase (CCA-adding enzyme) [Translation, ribosomal structure and biogenesis]
Probab=98.58 E-value=1.4e-06 Score=80.76 Aligned_cols=149 Identities=21% Similarity=0.217 Sum_probs=98.1
Q ss_pred HHHHHHHHHHhcCCCCcEEEEecccccCCCCC-CCCceEEEeecCCcCChhhHHHHhhhcccchhHHHHHHHhhcccccc
Q psy12993 5 KAVEEYVRFTLRDPAHVRLFVVGSTMTGFGLD-SSDVDMCLGIRPYEFDRGQAIRVLCVLETSDVDMCLEIFKKADLIHA 83 (243)
Q Consensus 5 ~~i~~~~~~i~~~~p~~~v~~fGS~~tGl~l~-~SDiDl~l~~~~~~~~~~~a~~~l~~~~~~~~~~~~~~L~~~~~~~~ 83 (243)
+..+++.+.+.+.-.++.+...||.+-|.|++ +.|||+.+..+.. .+.++.. ..-+++.+..- .
T Consensus 30 ~l~~~~~~~~~e~~~~aev~lVGS~AkgTwL~gd~DIDvFi~Fp~d-~~~eel~-----------~~GL~ig~~~l--~- 94 (443)
T COG1746 30 ELRERINEIIEELGIDAEVVLVGSYAKGTWLRGDHDIDVFIAFPKD-TSEEELE-----------EKGLEIGREVL--K- 94 (443)
T ss_pred HHHHHHHHHHHhcCCcceEEEEeecccCcccCCCcceeEEEECCCC-CCHHHHH-----------HHHHHHHHHHh--c-
Confidence 34555666777777899999999999999999 8899999998643 2222211 11222222110 0
Q ss_pred ccceeecccCccceeeecccccccccccccccccccccceeEeeeccCCcceEEEEeCCCCeeEEEE--ec------Cch
Q psy12993 84 KVPILKFQDSSFKLEVDLNCNNVVGVRNTHLLYCYAQKIFKKADLIHAKVPILKFQDSSFKLEVDLN--CN------NVV 155 (243)
Q Consensus 84 ~~p~~~~~~~~~~~e~~~~~~~~~g~r~~~~~~c~~~~~~~~~~i~~ArVPIik~~~~~~~i~~DIs--~~------n~~ 155 (243)
| ..-.+.-|.-|=+...- .|+++||- ++ -..
T Consensus 95 --------------------------~-------------~~~~~~YAeHPYV~g~v--~G~eVDvVPCy~v~~~~~~~s 133 (443)
T COG1746 95 --------------------------R-------------GNYEERYAEHPYVTGEV--DGYEVDVVPCYKVEDGEKIIS 133 (443)
T ss_pred --------------------------C-------------CchhhhhccCCeeEEEE--ccEEEEEEecccccCcccccc
Confidence 0 01123445557666665 47777775 11 123
Q ss_pred HhHHHHHHHHHHh--cCcchHHHHHHHHHHHHHCCCCCC--CCCCCChHHHHHHHHHH
Q psy12993 156 GVRNTHLLYCYAQ--MDWRIRPLVLLVKLWAQAHNINDA--KNMTISSYSFTLMVIHF 209 (243)
Q Consensus 156 g~~ns~ll~~~~~--~~p~~r~L~~~lK~W~~~~~L~~~--~~G~lsSy~l~lmvi~f 209 (243)
++.-|-+-..|.+ ++.+-+.=++++|.++|.-|+.++ +.+|||+|.--+|+|+|
T Consensus 134 AVDRTplHt~yv~e~L~~~~~deVrLLK~FlK~iGvYGaE~rt~GFSGYL~ELLII~y 191 (443)
T COG1746 134 AVDRTPLHTRYVEEHLKGRQKDEVRLLKQFLKGIGVYGAELRTQGFSGYLCELLIIHY 191 (443)
T ss_pred cccCcchhHHHHHHHhcccchhHHHHHHHHHhccCccceeeeeccchHHHHHHHHhhh
Confidence 4444545455554 345566778999999999999865 78999999999999998
No 11
>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=98.48 E-value=1e-07 Score=70.30 Aligned_cols=43 Identities=19% Similarity=0.208 Sum_probs=39.0
Q ss_pred HHHHHHHHhcCCCCcEEEEecccccCCCCCCCCceEEEeecCC
Q psy12993 7 VEEYVRFTLRDPAHVRLFVVGSTMTGFGLDSSDVDMCLGIRPY 49 (243)
Q Consensus 7 i~~~~~~i~~~~p~~~v~~fGS~~tGl~l~~SDiDl~l~~~~~ 49 (243)
|+++.+.+++.++.+.+.+|||+++|.+.++||||+++.....
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 5678888888899999999999999999999999999998664
No 12
>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=98.42 E-value=5.6e-07 Score=59.47 Aligned_cols=41 Identities=20% Similarity=0.168 Sum_probs=36.6
Q ss_pred HHHHHHHHHHhcCCCCcEEEEecccccCCCCCCCCceEEEe
Q psy12993 5 KAVEEYVRFTLRDPAHVRLFVVGSTMTGFGLDSSDVDMCLG 45 (243)
Q Consensus 5 ~~i~~~~~~i~~~~p~~~v~~fGS~~tGl~l~~SDiDl~l~ 45 (243)
+.++++.+.+++..+..+++.|||++.|.+.+.||||+.+.
T Consensus 2 ~~l~~i~~~l~~~~~~~~v~lfGS~arg~~~~~SDIDi~v~ 42 (49)
T cd05397 2 ELLDIIKERLKKLVPGYEIVVYGSLVRGLLKKSSDIDLACV 42 (49)
T ss_pred HHHHHHHHHHHhhcCCcEEEEECCcCCCCCCCCCCEEEEEE
Confidence 45677778888888999999999999999999999999886
No 13
>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=98.23 E-value=6.6e-07 Score=78.80 Aligned_cols=81 Identities=20% Similarity=0.273 Sum_probs=60.6
Q ss_pred CchHhHHHHHHHHHHhcCcchHHHHHHHHHHHHHCCCCCCCCCCCChHHHHHHHHHHHhcCCCC---CcccchhhhcCCC
Q psy12993 153 NVVGVRNTHLLYCYAQMDWRIRPLVLLVKLWAQAHNINDAKNMTISSYSFTLMVIHFLQCGTSP---PVLPNLVAQYPTK 229 (243)
Q Consensus 153 n~~g~~ns~ll~~~~~~~p~~r~L~~~lK~W~~~~~L~~~~~G~lsSy~l~lmvi~fLq~~~~~---~iLp~l~~~~~~~ 229 (243)
..+|++.+..|....-....||.+.++||.||++|||.+...|+||+.+|++||+..+|..+.. .+|-.|+..|...
T Consensus 89 sLnG~Rv~~~il~~Vp~~~~Fr~~lR~IK~WAk~RGIYsn~~GylGGI~waILvArvcql~Pn~~~~~ll~~FF~~ys~W 168 (254)
T PF04928_consen 89 SLNGVRVTDYILRLVPNQETFRTALRFIKLWAKRRGIYSNVFGYLGGIHWAILVARVCQLYPNASPSTLLSRFFQIYSQW 168 (254)
T ss_dssp HHHHHHHHHHHHCTSS-HHHHHHHHHHHHHHHHHTT-B-CCCTSB-HHHHHHHHHHHHHHSTT--HHHHHHHHHHHHHCS
T ss_pred CcccccHHHHHHHHCCCHHHHHHHHHHHHHHHHHccccchhhccchHHHHHHHHHHHHHHCccccccchHHHHHHHhcCC
Confidence 3567787877766655556899999999999999999999999999999999999999986321 3566678777654
Q ss_pred CCCC
Q psy12993 230 FSPN 233 (243)
Q Consensus 230 f~p~ 233 (243)
.=|+
T Consensus 169 ~W~~ 172 (254)
T PF04928_consen 169 DWPN 172 (254)
T ss_dssp -TTS
T ss_pred CCCC
Confidence 4333
No 14
>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=98.07 E-value=6.6e-06 Score=60.05 Aligned_cols=45 Identities=18% Similarity=0.202 Sum_probs=37.9
Q ss_pred HHHHHHHHHHhcCCC-CcEEEEecccccCCCCCCCCceEEEeecCC
Q psy12993 5 KAVEEYVRFTLRDPA-HVRLFVVGSTMTGFGLDSSDVDMCLGIRPY 49 (243)
Q Consensus 5 ~~i~~~~~~i~~~~p-~~~v~~fGS~~tGl~l~~SDiDl~l~~~~~ 49 (243)
+.++++.+.+.+.+. -..+++|||.+.|-+.++||||+++.....
T Consensus 2 ~~~~~i~~~l~~~~~~i~~i~LfGS~arg~~~~~SDiDl~vi~~~~ 47 (93)
T cd05403 2 EILEEILEILRELLGGVEKVYLFGSYARGDARPDSDIDLLVIFDDP 47 (93)
T ss_pred hhHHHHHHHHHHHhCCccEEEEEeeeecCCCCCCCCeeEEEEeCCC
Confidence 346677777777776 789999999999999999999999998654
No 15
>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=97.98 E-value=9.3e-05 Score=58.98 Aligned_cols=47 Identities=19% Similarity=0.223 Sum_probs=38.3
Q ss_pred HHHHHHHHHHHHhcCCC-----CcEEEEecccccCCCCC-CCCceEEEeecCC
Q psy12993 3 LSKAVEEYVRFTLRDPA-----HVRLFVVGSTMTGFGLD-SSDVDMCLGIRPY 49 (243)
Q Consensus 3 l~~~i~~~~~~i~~~~p-----~~~v~~fGS~~tGl~l~-~SDiDl~l~~~~~ 49 (243)
+.++++.+.+.+.+.+. ...+++|||++.|.+++ .||||+++..+..
T Consensus 5 ~~~~~~~i~~~L~~~~~~~~~~~~~~~~~GS~a~~T~i~~~sDiD~~v~~~~~ 57 (143)
T cd05400 5 AKERYREIREALKESLSELAGRVAEVFLQGSYARGTALRGDSDIDLVVVLPDD 57 (143)
T ss_pred HHHHHHHHHHHHHHhcccccccccEEEEEcceeCCCCCCCCCceeEEEEEcCc
Confidence 45666777777776654 47999999999999987 8999999998754
No 16
>COG1669 Predicted nucleotidyltransferases [General function prediction only]
Probab=97.48 E-value=0.00026 Score=53.28 Aligned_cols=47 Identities=23% Similarity=0.205 Sum_probs=40.2
Q ss_pred HHHHHHHHHHHHhcCCCCcEEEEecccccCCCCCCCCceEEEeecCC
Q psy12993 3 LSKAVEEYVRFTLRDPAHVRLFVVGSTMTGFGLDSSDVDMCLGIRPY 49 (243)
Q Consensus 3 l~~~i~~~~~~i~~~~p~~~v~~fGS~~tGl~l~~SDiDl~l~~~~~ 49 (243)
+++..++....+++.+.-+++.+|||++-|=..|+||||+.|...+.
T Consensus 7 ~~~~lr~~~~~l~~k~gv~~~~vFGS~aRgE~~~~SDIDILVef~~~ 53 (97)
T COG1669 7 LKKILRKIKPELKEKYGVKRVAVFGSYARGEQKPDSDIDILVEFEPG 53 (97)
T ss_pred HHHHHHHHHHHHHHHhCCceEEEeeeeecCCCCCCCCceeEEeecCC
Confidence 34456777778888888999999999999999999999999988654
No 17
>COG1708 Predicted nucleotidyltransferases [General function prediction only]
Probab=97.11 E-value=0.00088 Score=51.44 Aligned_cols=32 Identities=19% Similarity=0.245 Sum_probs=28.6
Q ss_pred hcCCCCcEEEEecccccCCCCCCCCceEEEee
Q psy12993 15 LRDPAHVRLFVVGSTMTGFGLDSSDVDMCLGI 46 (243)
Q Consensus 15 ~~~~p~~~v~~fGS~~tGl~l~~SDiDl~l~~ 46 (243)
....+.+.+++|||.+.|-+.+.||||+.+..
T Consensus 21 ~~~~~~~~v~LfGS~arG~~~~~SDiDv~vv~ 52 (128)
T COG1708 21 KKLGGDLLIYLFGSYARGDFVKESDIDLLVVS 52 (128)
T ss_pred HhcCCCeEEEEEccCcccccccCCCeeEEEEc
Confidence 34556789999999999999999999999997
No 18
>PRK13746 aminoglycoside resistance protein; Provisional
Probab=96.99 E-value=0.0014 Score=58.06 Aligned_cols=47 Identities=19% Similarity=0.202 Sum_probs=39.0
Q ss_pred HHHHHHHHHHHHhcCCCCc--EEEEecccccCCCCCCCCceEEEeecCC
Q psy12993 3 LSKAVEEYVRFTLRDPAHV--RLFVVGSTMTGFGLDSSDVDMCLGIRPY 49 (243)
Q Consensus 3 l~~~i~~~~~~i~~~~p~~--~v~~fGS~~tGl~l~~SDiDl~l~~~~~ 49 (243)
..+.++++.+++.+..++. .|++|||.+.|-..|.||||+.+.....
T Consensus 9 i~~~l~~~~~~l~~~l~~~l~~vyLfGS~~~G~~~p~SDIDllvvv~~~ 57 (262)
T PRK13746 9 ISTQLSEACAVIERHLEPTLLAIHLYGSAVDGGLKPHSDIDLLVTVAVP 57 (262)
T ss_pred HHHHHHHHHHHHHHhCcccEEEEEEECCcccCCCCCCCceeEEEEeCCC
Confidence 4566777778888887765 7999999999999999999999998653
No 19
>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=95.77 E-value=0.023 Score=59.08 Aligned_cols=51 Identities=14% Similarity=0.311 Sum_probs=43.1
Q ss_pred HHHHHHhcCcchHHHHHHHHHHHHHCCCCCC-CCCCCChHHHHHHHHHHHhc
Q psy12993 162 LLYCYAQMDWRIRPLVLLVKLWAQAHNINDA-KNMTISSYSFTLMVIHFLQC 212 (243)
Q Consensus 162 ll~~~~~~~p~~r~L~~~lK~W~~~~~L~~~-~~G~lsSy~l~lmvi~fLq~ 212 (243)
++....+..|.++..++++|.|+++||+... ..||+++|-|.+++++-+|.
T Consensus 155 ~l~~~~~~~p~f~dA~iLlkvWl~QRg~~~~~~~~Gf~~f~~s~lla~Ll~~ 206 (972)
T PF03813_consen 155 YLHEASKSSPAFRDACILLKVWLRQRGFGSGISQGGFGGFEWSMLLAYLLQG 206 (972)
T ss_pred HHHHHHhcCHHHHHHHHHHHHHHhcCCCCcccCCCCcchHHHHHHHHHHHcC
Confidence 3444555679999999999999999999865 35999999999988888887
No 20
>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=95.29 E-value=0.028 Score=47.40 Aligned_cols=58 Identities=22% Similarity=0.292 Sum_probs=43.1
Q ss_pred HhHHHHHHHHHHhcCc-chHHHHHHHHHHHHHCCCCCC-CCCCCChHHHHHHHHHHHhcC
Q psy12993 156 GVRNTHLLYCYAQMDW-RIRPLVLLVKLWAQAHNINDA-KNMTISSYSFTLMVIHFLQCG 213 (243)
Q Consensus 156 g~~ns~ll~~~~~~~p-~~r~L~~~lK~W~~~~~L~~~-~~G~lsSy~l~lmvi~fLq~~ 213 (243)
+..-|++=+.|++..| .++.|++++|+|-++..-... ..+-.+||+|-||+|+.-.+.
T Consensus 26 S~cftelQ~~Fvk~rP~klK~LIrLVKhWy~~~~~~~~~~~~lPpsYaLELLtIyAWE~g 85 (190)
T PF10421_consen 26 SACFTELQRNFVKHRPTKLKNLIRLVKHWYQQCKKKKCGGGSLPPSYALELLTIYAWEQG 85 (190)
T ss_dssp GGGGHHHHHHHHHTS-HHHHHHHHHHHHHHHHHHCC--HTT-S--HHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhccCCCCCcHHHHHHHHHHHHHHhc
Confidence 4566788889998887 699999999999998765533 344566899999999988763
No 21
>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=95.05 E-value=0.054 Score=46.25 Aligned_cols=40 Identities=30% Similarity=0.238 Sum_probs=30.4
Q ss_pred HHHHHHHHHhcCCCCcEEEEeccc----ccCC--CCCCCCceEEEeec
Q psy12993 6 AVEEYVRFTLRDPAHVRLFVVGST----MTGF--GLDSSDVDMCLGIR 47 (243)
Q Consensus 6 ~i~~~~~~i~~~~p~~~v~~fGS~----~tGl--~l~~SDiDl~l~~~ 47 (243)
++..+.....+ -++...+|||. +||+ -.++||||+.+..+
T Consensus 96 ~l~~l~~~~~~--~~~~~gv~GS~~~qlaTg~~~~~~~SDLDLLi~~~ 141 (202)
T TIGR03135 96 ALRALDALLDA--LGVPWGVYGSAGWQLLTGLPYLHASSDLDLLLRAP 141 (202)
T ss_pred HHHHHHHHHHh--CCCcEEEecchHHHHhcCCcccCCCCCeeEEEcCC
Confidence 44445544444 25799999999 9999 68999999998764
No 22
>PRK02098 phosphoribosyl-dephospho-CoA transferase; Provisional
Probab=94.80 E-value=0.047 Score=47.24 Aligned_cols=41 Identities=24% Similarity=0.258 Sum_probs=30.7
Q ss_pred HHHHHHHHHHhcCCCCcEEEEecccc----cCC--CCCCCCceEEEeec
Q psy12993 5 KAVEEYVRFTLRDPAHVRLFVVGSTM----TGF--GLDSSDVDMCLGIR 47 (243)
Q Consensus 5 ~~i~~~~~~i~~~~p~~~v~~fGS~~----tGl--~l~~SDiDl~l~~~ 47 (243)
+++..+.....+ -++.+.+|||.. ||+ -.++||||+.+..+
T Consensus 107 ~~l~~l~~~~~~--~g~~~gv~GS~a~qlaTG~~~l~~~SDLDLLi~~~ 153 (221)
T PRK02098 107 PTLRALLALAAA--HGVDCRVFGSLAWQALTGLPYLSASSDLDLLWPLP 153 (221)
T ss_pred HHHHHHHHHHHh--CCCcEEEeeehHHHHhhCCcccCCCCCeeEEEecC
Confidence 344445544444 256999999999 999 68999999998764
No 23
>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=94.41 E-value=0.064 Score=41.49 Aligned_cols=33 Identities=27% Similarity=0.490 Sum_probs=26.9
Q ss_pred HHHHHHHHHHCCCCCC--CCCCCChHHHHHHHHHH
Q psy12993 177 VLLVKLWAQAHNINDA--KNMTISSYSFTLMVIHF 209 (243)
Q Consensus 177 ~~~lK~W~~~~~L~~~--~~G~lsSy~l~lmvi~f 209 (243)
++++|.++|.-|+.++ +.+|||+|..-+|+++|
T Consensus 3 VrLLK~FlK~igvYGse~~~~GFSGYL~ELLii~y 37 (114)
T PF09249_consen 3 VRLLKQFLKGIGVYGSELKTRGFSGYLCELLIIHY 37 (114)
T ss_dssp HHHHHHHHHHTT-B-SSTTT-SB-HHHHHHHHHHH
T ss_pred hHHHHHHHhcCCCcchhhhcCcchHHHHHHHHHHH
Confidence 6899999999999855 78999999999999998
No 24
>smart00572 DZF domain in DSRM or ZnF_C2H2 domain containing proteins.
Probab=94.09 E-value=0.31 Score=42.80 Aligned_cols=60 Identities=8% Similarity=0.045 Sum_probs=44.8
Q ss_pred EEecCchHhHHHHHHHHHHhcCcchHHHHHHHHHHHHHCCCCCCCCCCCChHHHHHHHHHHHhc
Q psy12993 149 LNCNNVVGVRNTHLLYCYAQMDWRIRPLVLLVKLWAQAHNINDAKNMTISSYSFTLMVIHFLQC 212 (243)
Q Consensus 149 Is~~n~~g~~ns~ll~~~~~~~p~~r~L~~~lK~W~~~~~L~~~~~G~lsSy~l~lmvi~fLq~ 212 (243)
.+.....+++.++|+.+-++--..++.+++++|.|.+.... .+.|+||.+-+++-+-+-.
T Consensus 106 ~cl~aLAalRhakWFq~~a~~l~s~~iviRilKd~~~R~~~----~~pL~~w~iELl~~~~i~~ 165 (246)
T smart00572 106 KCLSALASLRHAKWFQARASGLQSCVIVIRVLRDLCNRVPT----WQPLSGWPLELLVEKAIGS 165 (246)
T ss_pred HHHHHHHHHHHhHHHHHhccCCcchhhHHHHHHHHHHhccc----ccccccccHHHHHHHHhcc
Confidence 33444556788888777666666899999999999887643 2359999999988776654
No 25
>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=92.38 E-value=0.37 Score=37.15 Aligned_cols=65 Identities=9% Similarity=0.042 Sum_probs=43.0
Q ss_pred HHHHHHhcCCCCcEEEEecccccCCCCCCCCceEEEeecCCcCChhhHHHHhhhcccchhHHHHHHHhhccccc
Q psy12993 9 EYVRFTLRDPAHVRLFVVGSTMTGFGLDSSDVDMCLGIRPYEFDRGQAIRVLCVLETSDVDMCLEIFKKADLIH 82 (243)
Q Consensus 9 ~~~~~i~~~~p~~~v~~fGS~~tGl~l~~SDiDl~l~~~~~~~~~~~a~~~l~~~~~~~~~~~~~~L~~~~~~~ 82 (243)
-+.+.+...-|++.+.+-||+.=|-.+.+ |||+.+..++......+.... ..++.+.|++.+++.
T Consensus 13 ~V~~~~~~i~p~~~v~i~GSyRRGK~~~g-DiDiLIt~~~~~~~~~~~~~~--------l~~lv~~L~~~g~i~ 77 (112)
T PF14792_consen 13 IVKEALEKIDPGLEVEICGSYRRGKETSG-DIDILITHPDPSSVSKKLEGL--------LEKLVKRLEEKGFIT 77 (112)
T ss_dssp HHHHHHHCCSTT-EEEEEHHHHTT-SEES-SEEEEEEETTCSTTTCSTTCH--------HHHHHHHHHHTTSEE
T ss_pred HHHHHHHhcCCCcEEEEccccccCCCcCC-CeEEEEeCCCcCcchhhHHHH--------HHHHHHHHHhCCeEE
Confidence 34456677789999999999999987654 999999887653221011112 247778888877754
No 26
>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=90.68 E-value=1.9 Score=35.23 Aligned_cols=30 Identities=30% Similarity=0.144 Sum_probs=27.0
Q ss_pred CcEEEEecccccCCCCCCCCceEEEeecCC
Q psy12993 20 HVRLFVVGSTMTGFGLDSSDVDMCLGIRPY 49 (243)
Q Consensus 20 ~~~v~~fGS~~tGl~l~~SDiDl~l~~~~~ 49 (243)
+..+..+||..-|=-.+.||+|+.+...+.
T Consensus 55 ~~~~la~Gs~GR~E~~~~SD~D~~~v~~~~ 84 (172)
T cd05401 55 PFALLALGSYGRGELNPSSDQDLLLLYDDD 84 (172)
T ss_pred cEEEEEeCCcccCCcCCCcCcceEEEeCCC
Confidence 578999999999999999999999998653
No 27
>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=90.12 E-value=2 Score=37.77 Aligned_cols=64 Identities=13% Similarity=0.101 Sum_probs=49.3
Q ss_pred eeEEEEecCchHhHHHHHHHHHHhcCcchHHHHHHHHHHHHHCCCCCCCCCCCChHHHHHHHHHHHhc
Q psy12993 145 LEVDLNCNNVVGVRNTHLLYCYAQMDWRIRPLVLLVKLWAQAHNINDAKNMTISSYSFTLMVIHFLQC 212 (243)
Q Consensus 145 i~~DIs~~n~~g~~ns~ll~~~~~~~p~~r~L~~~lK~W~~~~~L~~~~~G~lsSy~l~lmvi~fLq~ 212 (243)
++-+.+..+..+++.++|+++-+..-+.++.+++++|....+. +..+.|++|++-+++-+-+-.
T Consensus 102 Ld~~~cl~aLaalRhakWFq~~a~~l~s~~~viRIlrDl~~R~----p~w~~L~~W~leLL~~~~i~~ 165 (248)
T PF07528_consen 102 LDRKKCLSALAALRHAKWFQARANGLQSCVIVIRILRDLRQRV----PTWQPLSSWALELLVEKAISN 165 (248)
T ss_pred CCHHHHHHHHHHHHHhHHHHHHhccCCCcceehhhHHHHHHhC----CCCCCCChhHHHHHHHHHeee
Confidence 4444445556678889998888777778999999999986654 236789999999988877773
No 28
>PF14091 DUF4269: Domain of unknown function (DUF4269)
Probab=89.67 E-value=6.2 Score=32.20 Aligned_cols=27 Identities=22% Similarity=0.400 Sum_probs=23.0
Q ss_pred EEEEecccccCCCCCCCCceEEEeecC
Q psy12993 22 RLFVVGSTMTGFGLDSSDVDMCLGIRP 48 (243)
Q Consensus 22 ~v~~fGS~~tGl~l~~SDiDl~l~~~~ 48 (243)
.-.+-|..--|+..++|||||++...+
T Consensus 17 ~PiL~GTiPi~Idi~~SDLDIic~~~d 43 (152)
T PF14091_consen 17 DPILVGTIPIGIDIPGSDLDIICEVPD 43 (152)
T ss_pred CCEEecccccccCCCCCCccEEEEeCC
Confidence 445789999999999999999998753
No 29
>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=88.92 E-value=2.8 Score=33.33 Aligned_cols=68 Identities=13% Similarity=0.042 Sum_probs=43.5
Q ss_pred HHHHHHHHHhcCCCCcEEEEecccccCCCCCCCCceEEEeecCCcCCh-hhHHHHhhhcccchhHHHHHHHhhccc
Q psy12993 6 AVEEYVRFTLRDPAHVRLFVVGSTMTGFGLDSSDVDMCLGIRPYEFDR-GQAIRVLCVLETSDVDMCLEIFKKADL 80 (243)
Q Consensus 6 ~i~~~~~~i~~~~p~~~v~~fGS~~tGl~l~~SDiDl~l~~~~~~~~~-~~a~~~l~~~~~~~~~~~~~~L~~~~~ 80 (243)
+++...+.+..--....+..+||..=+=.++.||+|..+...+..... .+....+. +++...|...++
T Consensus 35 ~~~la~~~~~~pp~~~a~lalGS~GR~E~~~~sDqD~alv~~d~~~~~~~~~f~~~a-------~~~~~~L~~~G~ 103 (138)
T PF03445_consen 35 LIELAEAEMGPPPVPFAWLALGSYGRREQTLYSDQDNALVFEDEESEEDRAYFEAFA-------ERLVDALDECGF 103 (138)
T ss_pred HHHHHHHHhCCCCCCEEEEEECcccccCCCcCccccceeeecCccchhHHHHHHHHH-------HHHHHHHHHcCC
Confidence 333333333333566789999999999999999999999987622111 12222222 466777777765
No 30
>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=84.80 E-value=1.4 Score=37.87 Aligned_cols=43 Identities=23% Similarity=0.199 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHhcCCCCcEEEEecccc----cCCC--CCCCCceEEEeecC
Q psy12993 4 SKAVEEYVRFTLRDPAHVRLFVVGSTM----TGFG--LDSSDVDMCLGIRP 48 (243)
Q Consensus 4 ~~~i~~~~~~i~~~~p~~~v~~fGS~~----tGl~--l~~SDiDl~l~~~~ 48 (243)
.+++..+..... .-+....+|||.. ||+. .++||||+.+..+.
T Consensus 102 ~~~l~~l~~~~~--~~~~~~gv~GS~g~qlaTGl~~l~~~SDLDLli~~~~ 150 (213)
T PF10620_consen 102 QPALQALRALLD--ALGLRWGVYGSLGFQLATGLPYLHADSDLDLLIRPPS 150 (213)
T ss_pred HHHHHHHHHHHH--HcCCCEEEehhHHHHHHhCccccCCCCCceEEEeCCC
Confidence 345566555552 3488999999975 6774 58999999987643
No 31
>PHA02603 nrdC.11 hypothetical protein; Provisional
Probab=80.41 E-value=0.95 Score=41.45 Aligned_cols=21 Identities=33% Similarity=0.303 Sum_probs=19.0
Q ss_pred EEEecccccCCCCCCCCceEE
Q psy12993 23 LFVVGSTMTGFGLDSSDVDMC 43 (243)
Q Consensus 23 v~~fGS~~tGl~l~~SDiDl~ 43 (243)
...+||.+.|+.+|+||+|+-
T Consensus 6 ~~~~GShaYG~~tp~SD~D~r 26 (330)
T PHA02603 6 KGLFGSHLYGTSTPESDVDYK 26 (330)
T ss_pred EEecccceeCCCCCCcccccc
Confidence 468999999999999999974
No 32
>PRK01293 phosphoribosyl-dephospho-CoA transferase; Provisional
Probab=78.69 E-value=4.6 Score=34.65 Aligned_cols=41 Identities=22% Similarity=0.178 Sum_probs=28.9
Q ss_pred HHHHHHHHHHhcCCCCcEEEEecccc----cCCC--CCCCCceEEEeec
Q psy12993 5 KAVEEYVRFTLRDPAHVRLFVVGSTM----TGFG--LDSSDVDMCLGIR 47 (243)
Q Consensus 5 ~~i~~~~~~i~~~~p~~~v~~fGS~~----tGl~--l~~SDiDl~l~~~ 47 (243)
+++..+.....+. +...-+|||.. ||+. .++||||+++..+
T Consensus 96 ~al~~l~~~~~~~--~~~wgv~GS~g~qlaTGl~~l~~~SDLDLlir~~ 142 (207)
T PRK01293 96 PALQALAALLDAL--GLAWGVTGSAGFELATGIPVLHADSDLDLLIRAP 142 (207)
T ss_pred HHHHHHHHHHHhC--CCceeeehhHHHHHhhCCccccCCCCccEeecCC
Confidence 3444444444443 78899999975 7774 5899999998764
No 33
>COG1665 Predicted nucleotidyltransferase [General function prediction only]
Probab=78.64 E-value=2.6 Score=37.68 Aligned_cols=30 Identities=23% Similarity=0.210 Sum_probs=26.9
Q ss_pred CCCCcEEEEecccccCCCCCCCCceEEEee
Q psy12993 17 DPAHVRLFVVGSTMTGFGLDSSDVDMCLGI 46 (243)
Q Consensus 17 ~~p~~~v~~fGS~~tGl~l~~SDiDl~l~~ 46 (243)
--|--+.-+-||..-|+.-.+||||+++.+
T Consensus 118 gVp~~~mGVTGSiL~gl~~~nSDIDfVVYG 147 (315)
T COG1665 118 GVPVNSMGVTGSILLGLYDENSDIDFVVYG 147 (315)
T ss_pred CCchhhccccccccccccCCCCCceEEEEc
Confidence 457778889999999999999999999987
No 34
>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=77.21 E-value=2.1 Score=37.22 Aligned_cols=26 Identities=27% Similarity=0.133 Sum_probs=22.1
Q ss_pred EEEEecccccCCCCCCCCceEEEeec
Q psy12993 22 RLFVVGSTMTGFGLDSSDVDMCLGIR 47 (243)
Q Consensus 22 ~v~~fGS~~tGl~l~~SDiDl~l~~~ 47 (243)
-....||.+-|+..++||.|+-.+..
T Consensus 22 ~~~~sGS~a~G~~s~dSD~D~r~vy~ 47 (247)
T PF10127_consen 22 YACESGSRAYGFASPDSDYDVRGVYI 47 (247)
T ss_pred EEecccccccCCCCCCcCcccchhcc
Confidence 45589999999999999999876653
No 35
>COG3541 Predicted nucleotidyltransferase [General function prediction only]
Probab=73.49 E-value=1.8 Score=37.96 Aligned_cols=22 Identities=32% Similarity=0.247 Sum_probs=18.3
Q ss_pred EecccccCCCCCCCCceEEEee
Q psy12993 25 VVGSTMTGFGLDSSDVDMCLGI 46 (243)
Q Consensus 25 ~fGS~~tGl~l~~SDiDl~l~~ 46 (243)
.=||..-||..|+||+|+-...
T Consensus 15 esGS~~yGf~spdSDyDvR~V~ 36 (248)
T COG3541 15 ESGSHLYGFPSPDSDYDVRGVH 36 (248)
T ss_pred cccccccCCCCCCCccceeeEE
Confidence 3489999999999999986554
No 36
>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=71.58 E-value=78 Score=28.56 Aligned_cols=40 Identities=15% Similarity=0.074 Sum_probs=30.5
Q ss_pred HHHHHHHhcCCCCcEEEEecccccCCCCCCCCceEEEeecC
Q psy12993 8 EEYVRFTLRDPAHVRLFVVGSTMTGFGLDSSDVDMCLGIRP 48 (243)
Q Consensus 8 ~~~~~~i~~~~p~~~v~~fGS~~tGl~l~~SDiDl~l~~~~ 48 (243)
+.+.+.++..-|.+++.+-||+.=|-.+ .+|||+++..++
T Consensus 148 ~~i~~~l~~~~~~~~v~i~GS~RRg~et-~gDiDilv~~~~ 187 (307)
T cd00141 148 EIIKEALREVDPVLQVEIAGSYRRGKET-VGDIDILVTHPD 187 (307)
T ss_pred HHHHHHHHhCCCceEEEEcccccCCCCc-cCCEEEEEecCC
Confidence 4455566667789999999999777654 579999997654
No 37
>PF04229 GrpB: GrpB protein; InterPro: IPR007344 This family of uncharacterised proteins is also known as GrpB.; PDB: 2NRK_A.
Probab=65.56 E-value=73 Score=25.97 Aligned_cols=124 Identities=17% Similarity=0.126 Sum_probs=66.9
Q ss_pred HHHHHHHHHHhcCCCCc--EEEEeccccc-CCCCCCCCceEEEeecCCcCChhhHHHHhhhcccchhHHHHHHHhhcccc
Q psy12993 5 KAVEEYVRFTLRDPAHV--RLFVVGSTMT-GFGLDSSDVDMCLGIRPYEFDRGQAIRVLCVLETSDVDMCLEIFKKADLI 81 (243)
Q Consensus 5 ~~i~~~~~~i~~~~p~~--~v~~fGS~~t-Gl~l~~SDiDl~l~~~~~~~~~~~a~~~l~~~~~~~~~~~~~~L~~~~~~ 81 (243)
+.+++..+.|.+.+++. .|.=.||++- |+.-+. .|||.+...+.. +. ....+.|...++.
T Consensus 15 ~~f~~~~~~l~~~l~~~~~~IeHIGSTsVpgl~AKp-iIDI~v~V~~~~-~~---------------~~~~~~L~~~Gy~ 77 (167)
T PF04229_consen 15 AQFEEEKKRLREALGDPALRIEHIGSTSVPGLAAKP-IIDILVGVEDLE-DL---------------DAYIEALEALGYV 77 (167)
T ss_dssp HHHHHHHHHHHHHHGGGEEEEEEESGGGSTT--B-S--EEEEEEES-SG-GG---------------GGGHHHHHHTT-E
T ss_pred HHHHHHHHHHHHHhchhhhEEEEeccceeCCcccCC-eeeEEeccCChH-HH---------------HHHHHHHHHcCCE
Confidence 45666666666666554 7999999986 887766 888888775532 11 1234556666652
Q ss_pred ccccceeecccCccceeeecccccccccccccccccccccceeEeeeccCCcceEE-EEeCCCCeeEEEEecCchHhHHH
Q psy12993 82 HAKVPILKFQDSSFKLEVDLNCNNVVGVRNTHLLYCYAQKIFKKADLIHAKVPILK-FQDSSFKLEVDLNCNNVVGVRNT 160 (243)
Q Consensus 82 ~~~~p~~~~~~~~~~~e~~~~~~~~~g~r~~~~~~c~~~~~~~~~~i~~ArVPIik-~~~~~~~i~~DIs~~n~~g~~ns 160 (243)
.. ..+ ...+|. .-..| ..+......+-|...+.....+-
T Consensus 78 ~~------~~~-----------~~~~~~-----------------------~~f~k~~~~~~~~~hlhv~~~~~~~~~~~ 117 (167)
T PF04229_consen 78 YN------RGE-----------PGIPGR-----------------------RFFRKGDEDGERTHHLHVCPAGSPEWRRH 117 (167)
T ss_dssp E--------TT-----------TTSTTE-----------------------EEEEE---SSS--EEEEEEETT-HHHHHH
T ss_pred ec------CCC-----------CCCccc-----------------------eeeEccCCCCCccEEEEEEeCCCHHHHHH
Confidence 10 000 000000 00011 11223445555555555567778
Q ss_pred HHHHHHHhcCcchHHHHHHHHHHHH
Q psy12993 161 HLLYCYAQMDWRIRPLVLLVKLWAQ 185 (243)
Q Consensus 161 ~ll~~~~~~~p~~r~L~~~lK~W~~ 185 (243)
..++.|+..+|..+.-.--+|.=+-
T Consensus 118 l~FRDyLr~~p~~~~~Y~~lK~~la 142 (167)
T PF04229_consen 118 LLFRDYLRAHPELRREYEALKRELA 142 (167)
T ss_dssp HHHHHHHHH-HHHHHHHHHHHHHHH
T ss_pred HHHHHHHhhCHHHHHHHHHHHHHHH
Confidence 8899999999999999999998444
No 38
>KOG2054|consensus
Probab=63.03 E-value=16 Score=38.18 Aligned_cols=45 Identities=9% Similarity=0.266 Sum_probs=36.6
Q ss_pred HhcCcchHHHHHHHHHHHHHCCCCCCCCCCCChHHHHHHHHHHHhc
Q psy12993 167 AQMDWRIRPLVLLVKLWAQAHNINDAKNMTISSYSFTLMVIHFLQC 212 (243)
Q Consensus 167 ~~~~p~~r~L~~~lK~W~~~~~L~~~~~G~lsSy~l~lmvi~fLq~ 212 (243)
.+..+.++..+.++|.|+++|.+.- ..|||+.+-++.++++-+-.
T Consensus 304 ~s~~~~f~da~~Llk~WlrqRs~~~-~~~gfg~f~~s~lvv~L~s~ 348 (1121)
T KOG2054|consen 304 LSSAKGFKDALALLKVWLRQRSLDI-GQGGFGGFLLSALVVYLVST 348 (1121)
T ss_pred HhhhhhHHHHHHHHHHHHHhhhhhc-ccCcchHHHHHHHHHHHHhc
Confidence 3456889999999999999995433 46899999999888876665
No 39
>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=53.97 E-value=2.5 Score=28.16 Aligned_cols=26 Identities=27% Similarity=0.457 Sum_probs=21.8
Q ss_pred cccchhhhcCCCCCCCcccccccCCC
Q psy12993 218 VLPNLVAQYPTKFSPNSNIDNIQEGK 243 (243)
Q Consensus 218 iLp~l~~~~~~~f~p~~~~~~~~~~~ 243 (243)
+|..|+++|+..|++...+++|.+|+
T Consensus 5 Ll~~Ff~~Y~~~Fd~~~~~Isi~~g~ 30 (60)
T PF03828_consen 5 LLLGFFEYYGRKFDYENNVISIRNGG 30 (60)
T ss_dssp HHHHHHHHHHHTS-TTTEEEESSSSS
T ss_pred HHHHHHHHhCCcCCCCceEEEecCCc
Confidence 46678899999999999999998875
No 40
>PF09970 DUF2204: Nucleotidyl transferase of unknown function (DUF2204); InterPro: IPR018700 This family of hypothetical prokaryotic proteins has no known function.
Probab=52.02 E-value=27 Score=29.06 Aligned_cols=41 Identities=20% Similarity=0.297 Sum_probs=31.2
Q ss_pred HHHHHHHHHHhcCCCCcEEEEeccccc----CCCCCCCCceEEEeec
Q psy12993 5 KAVEEYVRFTLRDPAHVRLFVVGSTMT----GFGLDSSDVDMCLGIR 47 (243)
Q Consensus 5 ~~i~~~~~~i~~~~p~~~v~~fGS~~t----Gl~l~~SDiDl~l~~~ 47 (243)
+++.++.+.+.+. ++++.+.|+.+. |..-.+.|||+.+..+
T Consensus 3 ~~l~~~~~~L~~~--gv~~~ivGG~av~l~~g~~r~T~DIDlfi~~~ 47 (181)
T PF09970_consen 3 EALKEILEELNKR--GVEYVIVGGAAVNLAYGRRRTTKDIDLFIENP 47 (181)
T ss_pred HHHHHHHHHHHHc--CCeEEEECHHHHHHHhCCCCCCCCeEEEeCCC
Confidence 4666666766666 779999999974 6666799999988654
No 41
>KOG3793|consensus
Probab=48.85 E-value=1.9e+02 Score=26.11 Aligned_cols=38 Identities=18% Similarity=0.197 Sum_probs=24.4
Q ss_pred EEEEecccccCCCCCCCC-ceEEEeecCCcCChhhHHHHhh
Q psy12993 22 RLFVVGSTMTGFGLDSSD-VDMCLGIRPYEFDRGQAIRVLC 61 (243)
Q Consensus 22 ~v~~fGS~~tGl~l~~SD-iDl~l~~~~~~~~~~~a~~~l~ 61 (243)
.|.-.||+++|.-+-++| -|+++....-+ .-+|...|.
T Consensus 88 evrqVGSF~k~T~~tg~~~advVViLkTLP--t~EaV~aLg 126 (362)
T KOG3793|consen 88 EVRQVGSFKKGTMTTGHNVADLVVILKTLP--TLEAVAALG 126 (362)
T ss_pred hhhhccceeccccccCCcccceEEEeecCC--cHHHHHHHH
Confidence 566789999999776665 47777765432 234554443
No 42
>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=48.43 E-value=45 Score=28.56 Aligned_cols=32 Identities=25% Similarity=0.279 Sum_probs=26.2
Q ss_pred cEEEEecccccCCCCCCCCceEEEeecCCcCCh
Q psy12993 21 VRLFVVGSTMTGFGLDSSDVDMCLGIRPYEFDR 53 (243)
Q Consensus 21 ~~v~~fGS~~tGl~l~~SDiDl~l~~~~~~~~~ 53 (243)
.-|+.-||..|=--++.||+|+=|+..+ .++.
T Consensus 98 ~GlY~MGS~gSi~Qs~~SDlDiWvCh~~-~L~~ 129 (204)
T PF12633_consen 98 LGLYSMGSTGSIGQSSSSDLDIWVCHDS-DLSP 129 (204)
T ss_pred EEEEecCCCccccCCCCCCCeEEEEcCC-CCCH
Confidence 4788999999877899999999999864 3553
No 43
>PRK05007 PII uridylyl-transferase; Provisional
Probab=47.19 E-value=71 Score=33.30 Aligned_cols=30 Identities=27% Similarity=0.237 Sum_probs=26.9
Q ss_pred CCcEEEEecccccCCCCCCCCceEEEeecC
Q psy12993 19 AHVRLFVVGSTMTGFGLDSSDVDMCLGIRP 48 (243)
Q Consensus 19 p~~~v~~fGS~~tGl~l~~SDiDl~l~~~~ 48 (243)
|+..|...|++.-|=-.|.||||+.+..++
T Consensus 79 ~~~alvAvGgyGR~EL~p~SDiDll~l~~~ 108 (884)
T PRK05007 79 PDLALVAVGGYGRGELHPLSDIDLLILSRK 108 (884)
T ss_pred CceEEEecCCCCCcccCCcccceEEEEeCC
Confidence 457999999999999999999999999864
No 44
>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=46.81 E-value=24 Score=27.07 Aligned_cols=64 Identities=19% Similarity=0.282 Sum_probs=39.9
Q ss_pred eEEEEeCCCCeeEEEEecCchHhHHHHHHHHHHhc------------------CcchHHHHHHHHHHHHHCCCCCCCCCC
Q psy12993 135 ILKFQDSSFKLEVDLNCNNVVGVRNTHLLYCYAQM------------------DWRIRPLVLLVKLWAQAHNINDAKNMT 196 (243)
Q Consensus 135 Iik~~~~~~~i~~DIs~~n~~g~~ns~ll~~~~~~------------------~p~~r~L~~~lK~W~~~~~L~~~~~G~ 196 (243)
.|.|--....+++|+|-.|..-++++ |.-|+.. -..-++-..-++.|++..|+.-+.+|-
T Consensus 21 tv~F~ldG~~YeIDLs~~na~~lr~~--l~~yi~~arr~~g~~~~~~~~~~~~~~~~~~~~~~IR~WA~~nG~~Vs~RGR 98 (110)
T PF11774_consen 21 TVRFGLDGVDYEIDLSAENAAKLRDA--LAPYIAAARRVGGRARRRRRRARSAAAAPREDTAAIREWARENGYEVSDRGR 98 (110)
T ss_dssp EEEEEETTEEEEEEE-HHHHHHHHHH--HHHHHHHSEEE---------SSGGG---SSTHHHHHHHHHHHTT----SSS-
T ss_pred EEEEEECCeEEEEECCHHHHHHHHHH--HHHHHHHheEccccccccccCccccCCCCccchHHHHHHHHHcCCcCCCCCc
Confidence 46777767889999998887777663 4445431 124567789999999999999888998
Q ss_pred CChH
Q psy12993 197 ISSY 200 (243)
Q Consensus 197 lsSy 200 (243)
|+.=
T Consensus 99 Ip~~ 102 (110)
T PF11774_consen 99 IPAE 102 (110)
T ss_dssp --HH
T ss_pred CCHH
Confidence 8764
No 45
>cd02068 radical_SAM_B12_BD B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the signature motif Asp-X-His-X-X-Gly, which contains the histidine that acts as a cobalt ligand. The function of this domain remains unclear.
Probab=46.17 E-value=29 Score=26.54 Aligned_cols=41 Identities=22% Similarity=0.177 Sum_probs=33.1
Q ss_pred HHHHHHHHHhcCCCCcEEEEecccccCCC---CCCCCceEEEee
Q psy12993 6 AVEEYVRFTLRDPAHVRLFVVGSTMTGFG---LDSSDVDMCLGI 46 (243)
Q Consensus 6 ~i~~~~~~i~~~~p~~~v~~fGS~~tGl~---l~~SDiDl~l~~ 46 (243)
...++.+.+++.+|++.|..-|..+|... +...++|.++..
T Consensus 54 ~~~~~~~~ik~~~p~~~iv~GG~~~t~~p~~~~~~~~~D~vv~G 97 (127)
T cd02068 54 EALELAKIAKEVLPNVIVVVGGPHATFFPEEILEEPGVDFVVIG 97 (127)
T ss_pred HHHHHHHHHHHHCCCCEEEECCcchhhCHHHHhcCCCCCEEEEC
Confidence 56677788899999999999999998553 346789988765
No 46
>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=45.69 E-value=79 Score=32.66 Aligned_cols=31 Identities=23% Similarity=0.143 Sum_probs=27.3
Q ss_pred CCcEEEEecccccCCCCCCCCceEEEeecCC
Q psy12993 19 AHVRLFVVGSTMTGFGLDSSDVDMCLGIRPY 49 (243)
Q Consensus 19 p~~~v~~fGS~~tGl~l~~SDiDl~l~~~~~ 49 (243)
.+..+...||+.-|=-.|.||+|+.+...+.
T Consensus 42 ~~~aliA~GgyGR~El~p~SDiDll~l~~~~ 72 (850)
T TIGR01693 42 SGIALVAVGGYGRGELAPYSDIDLLFLHDGK 72 (850)
T ss_pred CCeEEEEeCCccccCcCCCCCCeEEEEeCCC
Confidence 4678999999999999999999999988643
No 47
>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=45.52 E-value=71 Score=33.68 Aligned_cols=51 Identities=22% Similarity=0.241 Sum_probs=42.8
Q ss_pred HHHHHHHHHHhcCcchHHHHHHHHHHHHHCCCCCCCCCCCChHHHHHHHHHHHhc
Q psy12993 158 RNTHLLYCYAQMDWRIRPLVLLVKLWAQAHNINDAKNMTISSYSFTLMVIHFLQC 212 (243)
Q Consensus 158 ~ns~ll~~~~~~~p~~r~L~~~lK~W~~~~~L~~~~~G~lsSy~l~lmvi~fLq~ 212 (243)
..+..|..+...+|.+.+-++++|.|+.++-| .+.++.=++=||+++.+-.
T Consensus 670 ~h~~~i~~l~~~~p~fs~tvRL~KrW~~shlL----s~~i~~E~vELlva~vfl~ 720 (972)
T PF03813_consen 670 KHTSAIHGLHTRFPSFSPTVRLAKRWLSSHLL----SGHISEEAVELLVASVFLS 720 (972)
T ss_pred HHHHHHHHHHhhCCchhHHHHHHHHHHHhccC----cccCCHHHHHHHHHHHhcC
Confidence 34566777888999999999999999999977 4688999999999976654
No 48
>PRK00227 glnD PII uridylyl-transferase; Provisional
Probab=45.39 E-value=46 Score=33.72 Aligned_cols=43 Identities=21% Similarity=0.026 Sum_probs=33.1
Q ss_pred HHHHHHHHHhcC-C-CCcEEEEecccccCCCCCCCCceEEEeecC
Q psy12993 6 AVEEYVRFTLRD-P-AHVRLFVVGSTMTGFGLDSSDVDMCLGIRP 48 (243)
Q Consensus 6 ~i~~~~~~i~~~-~-p~~~v~~fGS~~tGl~l~~SDiDl~l~~~~ 48 (243)
|-+.....+++. + +++.+...|++.-|=-.|.||||+.+..++
T Consensus 11 ~~~~~~~~~~~~~~~~~~aLvAvGGYGR~EL~P~SDIDLLiL~~~ 55 (693)
T PRK00227 11 AEASALALLGSLQLPPGTALAATGSLARREMTPYSDLDLILLHPP 55 (693)
T ss_pred HHHHHHHHHHhcCCCCCeEEEEeccccccCcCCCcCceEEEEeCC
Confidence 344444555443 3 567999999999999999999999999864
No 49
>COG2413 Predicted nucleotidyltransferase [General function prediction only]
Probab=42.90 E-value=41 Score=28.89 Aligned_cols=25 Identities=32% Similarity=0.287 Sum_probs=21.9
Q ss_pred EEEEecccccCCCCCCCCceEEEee
Q psy12993 22 RLFVVGSTMTGFGLDSSDVDMCLGI 46 (243)
Q Consensus 22 ~v~~fGS~~tGl~l~~SDiDl~l~~ 46 (243)
.-+.|||-+-|=-.|.||+|+++..
T Consensus 39 e~~v~gSvarGDV~p~SDvDV~I~~ 63 (228)
T COG2413 39 EAVVYGSVARGDVRPGSDVDVAIPE 63 (228)
T ss_pred hhEEEeeeeccCcCCCCCceEEEec
Confidence 5568999999977899999999876
No 50
>KOG2534|consensus
Probab=42.14 E-value=1.1e+02 Score=28.10 Aligned_cols=38 Identities=18% Similarity=0.024 Sum_probs=29.7
Q ss_pred HHHHhcCCCCcEEEEecccccCCCCCCCCceEEEeecCC
Q psy12993 11 VRFTLRDPAHVRLFVVGSTMTGFGLDSSDVDMCLGIRPY 49 (243)
Q Consensus 11 ~~~i~~~~p~~~v~~fGS~~tGl~l~~SDiDl~l~~~~~ 49 (243)
++.+...-|++.|.+-||+.-|- ....|||+.+..+..
T Consensus 162 ~~av~~~~p~~~vt~~GsfRRGk-~~ggDvD~LithP~~ 199 (353)
T KOG2534|consen 162 QEAVWAFDPEAFVTVTGSFRRGK-KMGGDVDFLITHPGS 199 (353)
T ss_pred HHHHhhcCCCcEEEEeccccCCc-ccCCCeeEEEeCCCC
Confidence 34555667999999999999885 457899988876554
No 51
>COG4914 Predicted nucleotidyltransferase [General function prediction only]
Probab=41.66 E-value=46 Score=27.51 Aligned_cols=52 Identities=27% Similarity=0.314 Sum_probs=38.5
Q ss_pred CcHHHHHHHHHHHHhcCCC-CcEEEEecccccCCCC----CCCCceEEEeecCCcCC
Q psy12993 1 MTLSKAVEEYVRFTLRDPA-HVRLFVVGSTMTGFGL----DSSDVDMCLGIRPYEFD 52 (243)
Q Consensus 1 ~~l~~~i~~~~~~i~~~~p-~~~v~~fGS~~tGl~l----~~SDiDl~l~~~~~~~~ 52 (243)
|.+.+....+.+++++... +.+...-||.+--+.+ ..+|+|+.....+.-.+
T Consensus 1 M~~~~~~~~v~~vl~~L~d~g~~FviIG~tvv~~~l~~~~~~~DVDLF~~~~s~lld 57 (190)
T COG4914 1 MRLDKYKTAVRKVLKSLNDKGVEFVIIGSTVVPFVLNIDYDPRDVDLFIINKSTLLD 57 (190)
T ss_pred CccchhHHHHHHHHHHHHhcCeEEEEECCeEEEEEeccCCCccccceeeccCccccc
Confidence 6666777777777777654 8899999999876554 57899999987655333
No 52
>smart00483 POLXc DNA polymerase X family. includes vertebrate polymerase beta and terminal deoxynucleotidyltransferases
Probab=37.52 E-value=77 Score=29.01 Aligned_cols=39 Identities=18% Similarity=0.071 Sum_probs=30.6
Q ss_pred HHHHHHhcCCCCcEEEEecccccCCCCCCCCceEEEeecC
Q psy12993 9 EYVRFTLRDPAHVRLFVVGSTMTGFGLDSSDVDMCLGIRP 48 (243)
Q Consensus 9 ~~~~~i~~~~p~~~v~~fGS~~tGl~l~~SDiDl~l~~~~ 48 (243)
.+.+.+....|.+++.+-||+.=|-.+ ..|||+++..++
T Consensus 153 ~i~~~l~~~~~~~~v~i~GSyRRgket-~gDIDili~~~~ 191 (334)
T smart00483 153 IVKRAVRKILPDAIVTLTGSFRRGKET-GHDVDFLITSPH 191 (334)
T ss_pred HHHHHHHhhCCCcEEEEecccccCCCc-CCCeeEEEecCC
Confidence 344566667899999999999988765 579999998654
No 53
>KOG2054|consensus
Probab=37.51 E-value=80 Score=33.38 Aligned_cols=56 Identities=21% Similarity=0.192 Sum_probs=43.9
Q ss_pred HHHHHHHHHHhcCcchHHHHHHHHHHHHHCCCCCCCCCCCChHHHHHHHHHHHhcCCCCCc
Q psy12993 158 RNTHLLYCYAQMDWRIRPLVLLVKLWAQAHNINDAKNMTISSYSFTLMVIHFLQCGTSPPV 218 (243)
Q Consensus 158 ~ns~ll~~~~~~~p~~r~L~~~lK~W~~~~~L~~~~~G~lsSy~l~lmvi~fLq~~~~~~i 218 (243)
+.|.-+..+.+.+|.+-+.+++.|.|...+=|. ||+.=-++-++|++-++. +.|..
T Consensus 806 ~ht~aL~~l~qsh~~ys~vvrLaKrWl~shLL~----~h~~De~iELLva~lf~~-p~p~~ 861 (1121)
T KOG2054|consen 806 LHTLALQSLSQSHPFYSSVVRLAKRWLGSHLLS----GHHLDEAIELLVAALFLK-PGPLV 861 (1121)
T ss_pred HHHHHHHHHhhcccchhHHHHHHHHHHHHHhhc----cchHHHHHHHHHHHHhcC-ccCCC
Confidence 445567778889999999999999999988764 566688888888887776 44433
No 54
>PF03710 GlnE: Glutamate-ammonia ligase adenylyltransferase; InterPro: IPR005190 This is a conserved repeated domain found in GlnE proteins. These proteins adenylate and deadenylate glutamine synthases: ATP + {L-Glutamate:ammonia ligase (ADP-forming)} = Diphosphate + Adenylyl-{L-Glutamate:Ammonia ligase (ADP-forming)}. The domain is related to the nucleotidyltransferase domain IPR002934 from INTERPRO.; GO: 0008882 [glutamate-ammonia-ligase] adenylyltransferase activity; PDB: 1V4A_A 3K7D_A.
Probab=36.57 E-value=1.1e+02 Score=26.66 Aligned_cols=30 Identities=20% Similarity=0.107 Sum_probs=17.1
Q ss_pred CcEEEEecccccCCCCCCCCceEEEeecCC
Q psy12993 20 HVRLFVVGSTMTGFGLDSSDVDMCLGIRPY 49 (243)
Q Consensus 20 ~~~v~~fGS~~tGl~l~~SDiDl~l~~~~~ 49 (243)
...|.-.|-.-.+=-..+||||+++...+.
T Consensus 127 ~~~ViamGKlGg~ELny~SDiDLifvy~~~ 156 (247)
T PF03710_consen 127 GFAVIAMGKLGGRELNYSSDIDLIFVYDPD 156 (247)
T ss_dssp SEEEEE-HHHHTT---TT--EEEEEEE---
T ss_pred CeEEEEeccccccccCCccCCceEEEeccc
Confidence 567777777777777889999999998654
No 55
>PRK01759 glnD PII uridylyl-transferase; Provisional
Probab=36.54 E-value=1.3e+02 Score=31.22 Aligned_cols=29 Identities=21% Similarity=0.171 Sum_probs=25.7
Q ss_pred CcEEEEecccccCCCCCCCCceEEEeecC
Q psy12993 20 HVRLFVVGSTMTGFGLDSSDVDMCLGIRP 48 (243)
Q Consensus 20 ~~~v~~fGS~~tGl~l~~SDiDl~l~~~~ 48 (243)
++.+...|++.=|=--|.||||+.+..++
T Consensus 56 ~iaLvAvGGYGR~eL~P~SDIDlliL~~~ 84 (854)
T PRK01759 56 DLALIAVGGYGRREMFPLSDLDILILTEQ 84 (854)
T ss_pred CeEEEEeCCcccccCCCcccceEEEEeCC
Confidence 36899999999999999999999999864
No 56
>PF07796 DUF1638: Protein of unknown function (DUF1638); InterPro: IPR012437 This entry contains sequences covering an approximately 270 amino acid stretch of a group of hypothetical proteins and are confined to Bacteria and Archaea.
Probab=36.39 E-value=70 Score=25.93 Aligned_cols=30 Identities=17% Similarity=0.163 Sum_probs=24.6
Q ss_pred CCCcEEEEecccccCCCCCCCCce---EEEeec
Q psy12993 18 PAHVRLFVVGSTMTGFGLDSSDVD---MCLGIR 47 (243)
Q Consensus 18 ~p~~~v~~fGS~~tGl~l~~SDiD---l~l~~~ 47 (243)
..+..+..||.|-+|++...++++ +++...
T Consensus 28 ~~d~Ill~YG~Cg~~~g~~~~~~~~~~~~~~~~ 60 (166)
T PF07796_consen 28 DYDGILLFYGLCGNGLGLIARRLPELGLVIPRV 60 (166)
T ss_pred cCCeEEEEEeCCCCccchhhhhccccceeEeCC
Confidence 456788999999999988888888 877543
No 57
>KOG0584|consensus
Probab=34.20 E-value=42 Score=33.39 Aligned_cols=66 Identities=23% Similarity=0.425 Sum_probs=40.4
Q ss_pred eEEEEeCCCCeeEE-EEecCchHhHHHHHHHHHHhcCcchHHHHHHHHHHHHHCCCCCCCCCCCChHHHHHHHHHHHhcC
Q psy12993 135 ILKFQDSSFKLEVD-LNCNNVVGVRNTHLLYCYAQMDWRIRPLVLLVKLWAQAHNINDAKNMTISSYSFTLMVIHFLQCG 213 (243)
Q Consensus 135 Iik~~~~~~~i~~D-Is~~n~~g~~ns~ll~~~~~~~p~~r~L~~~lK~W~~~~~L~~~~~G~lsSy~l~lmvi~fLq~~ 213 (243)
||||.+. .++.| -++|-...+.++--++.|...+-++.+ .++|.|+++ +|.-+.||..
T Consensus 103 Iirfy~S--W~d~~n~~in~iTEL~TSGtLr~Y~kk~~~vn~--kaik~W~RQ----------------ILkGL~yLHs- 161 (632)
T KOG0584|consen 103 IIRFYDS--WVDTDNKTINFITELFTSGTLREYRKKHRRVNI--KAIKSWCRQ----------------ILKGLVYLHS- 161 (632)
T ss_pred eeeeeeh--eecCCCceeeeeeecccCCcHHHHHHHhccCCH--HHHHHHHHH----------------HHHHhhhhhc-
Confidence 6788773 22221 123334455566567888877665443 389999997 3445678887
Q ss_pred CCCCcccc
Q psy12993 214 TSPPVLPN 221 (243)
Q Consensus 214 ~~~~iLp~ 221 (243)
+.|||+..
T Consensus 162 ~~PPIIHR 169 (632)
T KOG0584|consen 162 QDPPIIHR 169 (632)
T ss_pred CCCCcccc
Confidence 57777643
No 58
>PRK03059 PII uridylyl-transferase; Provisional
Probab=32.18 E-value=90 Score=32.43 Aligned_cols=30 Identities=30% Similarity=0.247 Sum_probs=26.4
Q ss_pred CCcEEEEecccccCCCCCCCCceEEEeecC
Q psy12993 19 AHVRLFVVGSTMTGFGLDSSDVDMCLGIRP 48 (243)
Q Consensus 19 p~~~v~~fGS~~tGl~l~~SDiDl~l~~~~ 48 (243)
.+..|...|++.-|=-.|.||||+.+..++
T Consensus 60 ~~~alvAvGgyGR~EL~p~SDiDll~l~~~ 89 (856)
T PRK03059 60 AGAALVAVGGYGRGELFPYSDVDLLVLLPD 89 (856)
T ss_pred CCeEEEEcCCCCCcccCCCCCCEEEEEecC
Confidence 356899999999999999999999999854
No 59
>PRK00275 glnD PII uridylyl-transferase; Provisional
Probab=31.96 E-value=77 Score=33.08 Aligned_cols=30 Identities=23% Similarity=0.233 Sum_probs=26.3
Q ss_pred CcEEEEecccccCCCCCCCCceEEEeecCC
Q psy12993 20 HVRLFVVGSTMTGFGLDSSDVDMCLGIRPY 49 (243)
Q Consensus 20 ~~~v~~fGS~~tGl~l~~SDiDl~l~~~~~ 49 (243)
+..|...|++.-|=-.|.||||+.+..++.
T Consensus 78 ~~alvAvGgyGR~EL~p~SDiDll~l~~~~ 107 (895)
T PRK00275 78 DIALVAVGGYGRGELHPYSDIDLLILLDSA 107 (895)
T ss_pred CEEEEEcCCccccCcCCCCCceEEEEecCC
Confidence 468999999999999999999999998643
No 60
>PRK05092 PII uridylyl-transferase; Provisional
Probab=31.05 E-value=96 Score=32.49 Aligned_cols=29 Identities=21% Similarity=0.228 Sum_probs=25.8
Q ss_pred CcEEEEecccccCCCCCCCCceEEEeecC
Q psy12993 20 HVRLFVVGSTMTGFGLDSSDVDMCLGIRP 48 (243)
Q Consensus 20 ~~~v~~fGS~~tGl~l~~SDiDl~l~~~~ 48 (243)
+..|.-.|++.-|=-.|.||||+.+...+
T Consensus 105 ~~alvA~GgyGr~EL~p~SDiDLl~l~~~ 133 (931)
T PRK05092 105 RLAVLAVGGYGRGELAPGSDIDLLFLLPY 133 (931)
T ss_pred ceEEEEecCcCCcccCCCCCceEEEEeCC
Confidence 36899999999999999999999999864
No 61
>PRK04374 PII uridylyl-transferase; Provisional
Probab=29.81 E-value=89 Score=32.55 Aligned_cols=30 Identities=27% Similarity=0.179 Sum_probs=26.3
Q ss_pred CcEEEEecccccCCCCCCCCceEEEeecCC
Q psy12993 20 HVRLFVVGSTMTGFGLDSSDVDMCLGIRPY 49 (243)
Q Consensus 20 ~~~v~~fGS~~tGl~l~~SDiDl~l~~~~~ 49 (243)
+..|...|++.-|=-.|.||||+.+..++.
T Consensus 72 ~~alvAvGgYGR~EL~p~SDIDLliL~~~~ 101 (869)
T PRK04374 72 GLSLHAVGGYGRGELFPRSDVDLLVLGETA 101 (869)
T ss_pred CEEEEEcCCccccccCCcccceEEEEecCC
Confidence 358999999999999999999999998643
No 62
>TIGR00237 xseA exodeoxyribonuclease VII, large subunit. This family consist of exodeoxyribonuclease VII, large subunit XseA which catalyses exonucleolytic cleavage in either the 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. Exonuclease VII consists of one large subunit and four small subunits.
Probab=26.32 E-value=74 Score=30.22 Aligned_cols=45 Identities=13% Similarity=0.194 Sum_probs=37.0
Q ss_pred HHHHHHHHHHhcCCCCcEEEEecccccCCCCC------------CCCceEEEeecCC
Q psy12993 5 KAVEEYVRFTLRDPAHVRLFVVGSTMTGFGLD------------SSDVDMCLGIRPY 49 (243)
Q Consensus 5 ~~i~~~~~~i~~~~p~~~v~~fGS~~tGl~l~------------~SDiDl~l~~~~~ 49 (243)
-|+.++.+.+.+.||.+++..|...+-|-.-+ .-|+|++|...+.
T Consensus 141 aa~~D~~~~~~~r~p~~~~~~~~~~vQG~~a~~~i~~al~~~~~~~~~dviii~RGG 197 (432)
T TIGR00237 141 AALADILHILKRRDPSLKVVIYPTLVQGEGAVQSIVESIELANTKNECDVLIVGRGG 197 (432)
T ss_pred HHHHHHHHHHHhhCCCceEEEecccccCccHHHHHHHHHHHhhcCCCCCEEEEecCC
Confidence 47889999999999999999999999886543 2368998888654
No 63
>COG1570 XseA Exonuclease VII, large subunit [DNA replication, recombination, and repair]
Probab=26.12 E-value=1.6e+02 Score=28.29 Aligned_cols=43 Identities=23% Similarity=0.289 Sum_probs=32.9
Q ss_pred HHHHHHHHHhcCCCCcEEEEecccccCCCC------------CCCCceEEEeecC
Q psy12993 6 AVEEYVRFTLRDPAHVRLFVVGSTMTGFGL------------DSSDVDMCLGIRP 48 (243)
Q Consensus 6 ~i~~~~~~i~~~~p~~~v~~fGS~~tGl~l------------~~SDiDl~l~~~~ 48 (243)
++.++...+.+.||.++|.+|=-.+-|=.- ...|+|+.+...+
T Consensus 148 airDIl~~~~rR~P~~~viv~pt~VQG~~A~~eIv~aI~~an~~~~~DvlIVaRG 202 (440)
T COG1570 148 ALRDILHTLSRRFPSVEVIVYPTLVQGEGAAEEIVEAIERANQRGDVDVLIVARG 202 (440)
T ss_pred HHHHHHHHHHhhCCCCeEEEEeccccCCCcHHHHHHHHHHhhccCCCCEEEEecC
Confidence 678889999999999999999877777543 3446787776644
No 64
>PF14907 NTP_transf_5: Uncharacterised nucleotidyltransferase
Probab=25.28 E-value=1e+02 Score=26.14 Aligned_cols=40 Identities=10% Similarity=0.219 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHhcCCCCcEEEEe-cccccCCC-----CCCCCceEEEe
Q psy12993 4 SKAVEEYVRFTLRDPAHVRLFVV-GSTMTGFG-----LDSSDVDMCLG 45 (243)
Q Consensus 4 ~~~i~~~~~~i~~~~p~~~v~~f-GS~~tGl~-----l~~SDiDl~l~ 45 (243)
...+.++.+.+.+. +..+.++ |....-++ -+.+|||+.|.
T Consensus 57 ~~~~~~i~~~l~~~--gI~~~~lKG~~l~~~Y~~~~~R~~~DiDlLV~ 102 (249)
T PF14907_consen 57 LAELQEILAALNAN--GIPVILLKGAALAQLYPDPGLRPMGDIDLLVP 102 (249)
T ss_pred HHHHHHHHHHHHHc--CCCEEEEchHHHHHhCCCCCCCCCCCeEEEEe
Confidence 34445555555444 7777777 55444322 24689999886
No 65
>COG2844 GlnD UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=25.24 E-value=1.5e+02 Score=30.75 Aligned_cols=30 Identities=27% Similarity=0.146 Sum_probs=26.8
Q ss_pred CcEEEEecccccCCCCCCCCceEEEeecCC
Q psy12993 20 HVRLFVVGSTMTGFGLDSSDVDMCLGIRPY 49 (243)
Q Consensus 20 ~~~v~~fGS~~tGl~l~~SDiDl~l~~~~~ 49 (243)
++.+.-.|.+.-|--.|.||||+.+..+..
T Consensus 66 ~~aLvAVGGyGRgEL~P~SDiDlL~L~p~~ 95 (867)
T COG2844 66 GLALVAVGGYGRGELHPLSDIDLLLLSPQK 95 (867)
T ss_pred ceEEEEeccccccccCCCccceEEEecCCC
Confidence 388999999999999999999999987654
No 66
>PRK08609 hypothetical protein; Provisional
Probab=23.58 E-value=7.2e+02 Score=24.52 Aligned_cols=39 Identities=15% Similarity=0.155 Sum_probs=29.7
Q ss_pred HHHHHHHhcCCCCcEEEEecccccCCCCCCCCceEEEeec
Q psy12993 8 EEYVRFTLRDPAHVRLFVVGSTMTGFGLDSSDVDMCLGIR 47 (243)
Q Consensus 8 ~~~~~~i~~~~p~~~v~~fGS~~tGl~l~~SDiDl~l~~~ 47 (243)
+.+.+.++..-|.++|.+-||+.=|-.+ ..||||++...
T Consensus 163 ~~i~~~l~~~~~~~~v~~~GS~RR~~et-~gDiDili~~~ 201 (570)
T PRK08609 163 QEIEEYLATIDEIIRFSRAGSLRRARET-VKDLDFIIATD 201 (570)
T ss_pred HHHHHHHHhCCCccEEEeccchhccccc-cCCeeEEEecC
Confidence 4455566667788899999999887665 56999998653
No 67
>PRK03381 PII uridylyl-transferase; Provisional
Probab=23.40 E-value=1.7e+02 Score=30.10 Aligned_cols=29 Identities=31% Similarity=0.172 Sum_probs=25.9
Q ss_pred CcEEEEecccccCCCCCCCCceEEEeecC
Q psy12993 20 HVRLFVVGSTMTGFGLDSSDVDMCLGIRP 48 (243)
Q Consensus 20 ~~~v~~fGS~~tGl~l~~SDiDl~l~~~~ 48 (243)
...|...|++.-|=-.|.||||+.+...+
T Consensus 57 ~~alvAvg~~gr~el~p~SD~Dll~l~~~ 85 (774)
T PRK03381 57 GVALVAVGGLGRRELLPYSDLDLVLLHDG 85 (774)
T ss_pred CeEEEEeCCcCCcCcCCCCCCeEEEEeCC
Confidence 46899999999999999999999999863
No 68
>PRK14109 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional
Probab=23.38 E-value=1.4e+02 Score=31.67 Aligned_cols=30 Identities=20% Similarity=0.143 Sum_probs=25.6
Q ss_pred CcEEEEecccccCCCCCCCCceEEEeecCC
Q psy12993 20 HVRLFVVGSTMTGFGLDSSDVDMCLGIRPY 49 (243)
Q Consensus 20 ~~~v~~fGS~~tGl~l~~SDiDl~l~~~~~ 49 (243)
+..|.-+|+.--+=-.++||||+++...+.
T Consensus 215 ~~aviamGklG~~EL~~~SDiDLi~ly~~~ 244 (1007)
T PRK14109 215 RLAVIAMGKCGARELNYVSDVDVIFVAEPA 244 (1007)
T ss_pred CeEEEEeccccccccCCccCCCEEEEeCCC
Confidence 458889999988888999999999998643
No 69
>TIGR02692 tRNA_CCA_actino tRNA adenylyltransferase. The enzyme tRNA adenylyltransferase, also called tRNA-nucleotidyltransferase and CCA-adding enzyme, can add or repair the required CCA triplet at the 3'-end of tRNA molecules. Genes encoding tRNA include the CCA tail in some but not all bacteria, and this enzyme may be required for viability. Members of this family represent a distinct clade within the larger family pfam01743 (tRNA nucleotidyltransferase/poly(A) polymerase family protein). The example from Streptomyces coelicolor was shown to act as a CCA-adding enzyme and not as a poly(A) polymerase.
Probab=22.01 E-value=2.4e+02 Score=26.88 Aligned_cols=42 Identities=19% Similarity=0.233 Sum_probs=30.6
Q ss_pred cHHHHHHHHHHHHhcCCCCcEEEEecccccCC--CCCCCCceEEEe
Q psy12993 2 TLSKAVEEYVRFTLRDPAHVRLFVVGSTMTGF--GLDSSDVDMCLG 45 (243)
Q Consensus 2 ~l~~~i~~~~~~i~~~~p~~~v~~fGS~~tGl--~l~~SDiDl~l~ 45 (243)
++...+..+.+.+.+. +.+++..|-+|=.+ +.+..|+|+++.
T Consensus 11 ~~~~~~~~i~~~l~~~--g~~~y~VGG~VRD~llg~~~~D~Di~~~ 54 (466)
T TIGR02692 11 ELSPLLAPLAAAFAAA--GHELYLVGGSVRDALLGRLGHDLDFTTD 54 (466)
T ss_pred hccHHHHHHHHHHHhC--CCEEEEeCcHHHHHHcCCCCCCEEEEeC
Confidence 3445566666666655 78999999999754 567899999864
No 70
>PRK14109 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional
Probab=21.63 E-value=1.7e+02 Score=31.03 Aligned_cols=28 Identities=18% Similarity=0.061 Sum_probs=25.3
Q ss_pred cEEEEecccccCCCCCCCCceEEEeecC
Q psy12993 21 VRLFVVGSTMTGFGLDSSDVDMCLGIRP 48 (243)
Q Consensus 21 ~~v~~fGS~~tGl~l~~SDiDl~l~~~~ 48 (243)
..|..+|+.--+=-.+.||+|+++...+
T Consensus 724 ~avia~Gk~Gr~EL~~~SDlDl~fl~~~ 751 (1007)
T PRK14109 724 IAVIGMGRLGGRELGYGSDADVMFVHEP 751 (1007)
T ss_pred EEEEEeccccccccCCCCCCcEEEEeCC
Confidence 6899999999999999999999999864
Done!