Query 009892
Match_columns 523
No_of_seqs 369 out of 1813
Neff 6.5
Searched_HMMs 46136
Date Thu Mar 28 18:34:48 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/009892.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/009892hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR02692 tRNA_CCA_actino tRNA 100.0 2.3E-59 5E-64 505.6 31.7 344 79-474 15-376 (466)
2 KOG2159 tRNA nucleotidyltransf 100.0 3.3E-60 7.2E-65 489.3 19.7 244 73-325 10-254 (416)
3 PRK10885 cca multifunctional t 100.0 2.5E-52 5.5E-57 442.8 23.5 288 95-418 2-307 (409)
4 PRK13299 tRNA CCA-pyrophosphor 100.0 8.2E-52 1.8E-56 437.0 26.4 276 83-416 12-289 (394)
5 PRK11623 pcnB poly(A) polymera 100.0 4.6E-52 9.9E-57 440.9 23.7 231 65-326 44-286 (472)
6 TIGR01942 pcnB poly(A) polymer 100.0 1.6E-51 3.5E-56 431.7 26.6 225 71-326 13-241 (410)
7 PRK13298 tRNA CCA-pyrophosphor 100.0 6.1E-51 1.3E-55 428.7 26.6 289 95-418 2-310 (417)
8 COG0617 PcnB tRNA nucleotidylt 100.0 1.4E-50 3.1E-55 431.3 21.0 218 82-326 13-231 (412)
9 PRK13297 tRNA CCA-pyrophosphor 100.0 1.8E-46 4E-51 387.4 21.1 205 92-326 10-219 (364)
10 PRK13296 tRNA CCA-pyrophosphor 100.0 2.7E-45 5.8E-50 375.7 21.7 200 95-326 2-208 (360)
11 cd05398 NT_ClassII-CCAase Nucl 100.0 1.7E-33 3.8E-38 257.4 14.6 125 92-231 15-139 (139)
12 PF01743 PolyA_pol: Poly A pol 100.0 4.9E-33 1.1E-37 250.3 10.9 124 96-235 1-126 (126)
13 PRK00227 glnD PII uridylyl-tra 99.9 4.8E-23 1E-27 230.2 15.0 207 229-473 275-490 (693)
14 PRK03381 PII uridylyl-transfer 99.9 3.1E-22 6.7E-27 228.3 19.3 178 229-420 313-498 (774)
15 PRK00275 glnD PII uridylyl-tra 99.9 3.1E-22 6.6E-27 231.2 14.2 188 218-420 339-553 (895)
16 TIGR01693 UTase_glnD [Protein- 99.9 7.4E-22 1.6E-26 228.0 12.3 179 229-421 319-522 (850)
17 PRK03059 PII uridylyl-transfer 99.9 2.3E-21 5.1E-26 223.0 15.0 180 228-421 328-534 (856)
18 PRK05092 PII uridylyl-transfer 99.9 9.3E-21 2E-25 220.5 17.6 176 229-420 384-586 (931)
19 PRK01759 glnD PII uridylyl-tra 99.8 2.5E-20 5.4E-25 214.7 16.8 181 228-421 325-530 (854)
20 PRK05007 PII uridylyl-transfer 99.8 1E-18 2.3E-23 202.0 17.9 182 225-421 347-555 (884)
21 PHA01806 hypothetical protein 99.8 8.6E-19 1.9E-23 164.5 11.8 108 92-214 34-151 (200)
22 PRK04374 PII uridylyl-transfer 99.8 1.7E-17 3.7E-22 191.1 18.4 180 229-422 339-544 (869)
23 COG2844 GlnD UTP:GlnB (protein 99.7 2E-17 4.3E-22 182.8 15.1 179 229-421 336-540 (867)
24 PF12627 PolyA_pol_RNAbd: Prob 99.1 1.2E-10 2.6E-15 92.2 5.7 60 262-326 1-60 (64)
25 cd07749 NT_Pol-beta-like_1 Nuc 94.3 0.28 6.1E-06 45.9 9.0 71 94-174 17-89 (156)
26 PF06042 DUF925: Bacterial pro 93.6 0.66 1.4E-05 43.8 10.2 116 85-236 2-133 (163)
27 cd05402 NT_PAP_TUTase Nucleoti 93.4 0.84 1.8E-05 39.7 10.1 89 77-174 3-97 (114)
28 COG3575 Uncharacterized protei 91.7 2.2 4.9E-05 40.6 10.8 126 81-237 18-156 (184)
29 PF10706 Aminoglyc_resit: Amin 91.5 0.28 6.2E-06 46.1 4.7 55 79-139 8-65 (174)
30 cd05397 NT_Pol-beta-like Nucle 88.6 0.54 1.2E-05 35.2 3.4 40 79-120 3-42 (49)
31 PRK13480 3'-5' exoribonuclease 87.7 1.6 3.6E-05 45.5 7.3 49 361-410 181-241 (314)
32 PF09970 DUF2204: Nucleotidyl 86.4 3.9 8.4E-05 39.2 8.7 56 80-137 5-62 (181)
33 PF14792 DNA_pol_B_palm: DNA p 85.4 2.2 4.8E-05 37.7 6.0 60 75-138 6-73 (112)
34 PF01966 HD: HD domain; Inter 85.1 0.16 3.4E-06 43.5 -1.5 56 362-418 24-90 (122)
35 PRK13300 tRNA CCA-pyrophosphor 85.0 4.2 9.1E-05 44.5 9.0 52 68-120 8-67 (447)
36 TIGR03401 cyanamide_fam HD dom 84.2 2.6 5.6E-05 42.0 6.5 79 338-416 55-138 (228)
37 COG1418 Predicted HD superfami 80.5 1.6 3.5E-05 43.2 3.5 63 336-401 34-97 (222)
38 PRK10119 putative hydrolase; P 79.2 4.5 9.8E-05 40.4 6.1 78 337-416 24-104 (231)
39 TIGR03671 cca_archaeal CCA-add 77.2 8.1 0.00018 41.8 7.8 42 78-120 25-66 (408)
40 TIGR00277 HDIG uncharacterized 71.2 3.2 7E-05 32.8 2.3 34 363-397 27-63 (80)
41 COG1078 HD superfamily phospho 71.2 2.7 5.9E-05 45.6 2.4 73 296-380 21-100 (421)
42 PRK12703 tRNA 2'-O-methylase; 63.5 27 0.00059 36.9 7.9 27 68-94 31-57 (339)
43 PRK00106 hypothetical protein; 63.4 43 0.00092 37.7 9.8 51 362-417 372-423 (535)
44 TIGR00295 conserved hypothetic 59.7 13 0.00028 34.9 4.3 48 362-416 40-87 (164)
45 PRK07152 nadD putative nicotin 58.7 19 0.00042 37.8 5.9 81 285-379 155-235 (342)
46 TIGR01596 cas3_HD CRISPR-assoc 58.6 9.2 0.0002 35.4 3.1 54 362-416 30-100 (177)
47 COG4849 Predicted nucleotidylt 56.9 23 0.00051 34.9 5.5 45 94-139 26-78 (269)
48 PF01909 NTP_transf_2: Nucleot 56.5 10 0.00022 31.1 2.8 40 83-124 4-43 (93)
49 TIGR03276 Phn-HD phosphonate d 53.0 17 0.00038 34.9 4.0 53 363-422 43-104 (179)
50 smart00471 HDc Metal dependent 52.3 6.7 0.00014 32.7 1.0 19 362-380 27-45 (124)
51 PF08843 DUF1814: Nucleotidyl 49.2 35 0.00075 32.7 5.6 32 91-122 10-44 (233)
52 cd00077 HDc Metal dependent ph 48.6 16 0.00034 31.1 2.7 51 362-413 27-88 (145)
53 PF03458 UPF0126: UPF0126 doma 48.2 11 0.00024 31.3 1.6 15 98-112 39-53 (80)
54 PF14091 DUF4269: Domain of un 45.9 72 0.0016 29.9 6.7 28 109-136 29-56 (152)
55 cd05400 NT_2-5OAS_ClassI-CCAas 42.2 2E+02 0.0043 25.6 9.1 74 93-177 27-110 (143)
56 KOG0564 5,10-methylenetetrahyd 41.7 1.8E+02 0.0038 32.5 9.7 197 72-320 86-302 (590)
57 PRK12705 hypothetical protein; 41.2 29 0.00063 38.7 4.0 50 363-417 346-396 (508)
58 COG2860 Predicted membrane pro 41.1 15 0.00032 36.1 1.5 15 98-112 44-58 (209)
59 COG1746 CCA1 tRNA nucleotidylt 41.0 32 0.00069 37.4 4.1 52 68-120 12-71 (443)
60 PRK12704 phosphodiesterase; Pr 40.5 34 0.00073 38.3 4.4 35 362-397 357-392 (520)
61 COG2206 c-di-GMP phosphodieste 40.3 49 0.0011 34.8 5.4 24 357-380 168-191 (344)
62 TIGR03319 YmdA_YtgF conserved 38.0 36 0.00077 38.1 4.1 50 362-416 351-401 (514)
63 PF04439 Adenyl_transf: Strept 35.6 1.1E+02 0.0024 31.4 7.0 53 75-127 3-55 (282)
64 TIGR00488 putative HD superfam 35.4 28 0.00061 32.2 2.4 16 363-378 31-46 (158)
65 cd05403 NT_KNTase_like Nucleot 33.1 37 0.00081 27.4 2.5 41 81-123 5-46 (93)
66 KOG2681 Metal-dependent phosph 32.9 32 0.00069 37.4 2.5 69 305-380 51-124 (498)
67 COG1708 Predicted nucleotidylt 30.7 71 0.0015 27.3 4.1 33 87-121 20-52 (128)
68 cd00141 NT_POLXc Nucleotidyltr 25.7 1.8E+02 0.0038 30.3 6.5 50 68-122 136-186 (307)
69 PRK10578 hypothetical protein; 23.0 47 0.001 32.7 1.6 15 98-112 41-55 (207)
70 KOG4022 Dihydropteridine reduc 23.0 1E+02 0.0022 29.5 3.7 53 64-121 45-97 (236)
71 COG1669 Predicted nucleotidylt 20.3 1.7E+02 0.0036 25.4 4.2 47 78-127 9-56 (97)
No 1
>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=100.00 E-value=2.3e-59 Score=505.64 Aligned_cols=344 Identities=24% Similarity=0.315 Sum_probs=273.7
Q ss_pred HHHHHHHHHHhcCCCCeEEEEchHHHHHHcCCCCCCeEEEEcCCChHHHHHHHHHHHHhcCCccCCceEEecCCCCCCcc
Q 009892 79 IFSCLLNTLRHFNLETVLRVAGGWVRDKLLGKDCYDIDIALDNMMGSEFATKVAEYLSATGETAPSGFGVIPSNPDQSKH 158 (523)
Q Consensus 79 i~~~l~~~~~~~~~~~~~yiVGG~VRD~LLg~~~~DiDi~~~~~~~~~f~~~l~~~l~~~g~~~~~~~~vi~~n~~~~k~ 158 (523)
.+..+.+.++.. |+++|+|||||||.|||++|+|+||+|++. ++++++.+.++.. . ++.. ++.
T Consensus 15 ~~~~i~~~l~~~--g~~~y~VGG~VRD~llg~~~~D~Di~~~~~-~~~~~~~~~~~~~----~------~~~~----g~~ 77 (466)
T TIGR02692 15 LLAPLAAAFAAA--GHELYLVGGSVRDALLGRLGHDLDFTTDAR-PEETLAILRPWAD----A------VWDT----GIA 77 (466)
T ss_pred HHHHHHHHHHhC--CCEEEEeCcHHHHHHcCCCCCCEEEEeCCC-HHHHHHHHHHhhh----h------cccc----Ccc
Confidence 344444555555 578999999999999999999999999985 7777776654321 1 1111 345
Q ss_pred eeeEEEEEcCeEEEeeecccccccCCCCCcccccC-CHHHHHhcCCCCccceeeecCCC---ceecCccccHHHhhcCce
Q 009892 159 LETATMKLYDLWIDFVNLRCEDYSENSRIPTMRFG-TAEEDAYRRDLTINSLFYNINTS---SVEDLTGRGIADLKHGKI 234 (523)
Q Consensus 159 ~~t~~~~~~g~~iD~~~~R~e~y~~~~r~p~v~~g-t~~eDl~RRDFTINAla~~l~~~---~i~D~~g~G~~DL~~g~I 234 (523)
++|+++...|..+||+++|+|.|..+++.|+|+++ ++++||.||||||||||||++++ .++||+| |++||++|+|
T Consensus 78 ~g~~~v~~~~~~~ei~~~r~e~~~~~~~~~~v~~~~~i~~Dl~rRDFTiNA~a~~~~~~~~g~l~D~~~-G~~Dl~~~~i 156 (466)
T TIGR02692 78 FGTVGAEKDGQQIEITTFRSDSYDGTSRKPEVTFGDTLEGDLIRRDFTVNAMAVRIPADGSLEFHDPVG-GLDDLLAKVL 156 (466)
T ss_pred cceEEEEECCcEEEEEecccccCcCCCCCCcccCCCCHHHHHHhccccHHHhhccccCCCCceeecCCC-cHHHHhCCce
Confidence 78999999999999999999999999999999985 89999999999999999999875 8999998 9999999999
Q ss_pred ecCCCCCCCCccCHHHHHHHHHHHhhcCCCCcHHHHHHHHhhHHHHHHhccccHHHHHHHHHHhhcCCCHHHHHHHHHHc
Q 009892 235 VTPLPPKATFLDDPLRVLRAIRFGARFDFILDEELKKAAASDEVKAALAAKISRERVGTEIDLMVSGNQPVKAMTHICGL 314 (523)
Q Consensus 235 R~~~~p~~~F~eDPLRiLRa~RFAarlgf~id~~t~~ai~~~~~~~~l~~~is~ERI~~El~kiL~~~~~~~~L~lL~~~ 314 (523)
|++++|.++|.|||+||||++|||+++||+|+++|.++|+.. ..++..++.|||+.||.++|.++++..+++.|+++
T Consensus 157 r~v~~~~~~f~eDPlRiLRa~Rfaa~lgf~i~~~T~~~i~~~---~~~l~~i~~eRi~~E~~kil~~~~~~~~l~~l~~~ 233 (466)
T TIGR02692 157 DTPATPEQSFGDDPLRMLRAARFVSQLGFEVAPRVRAAMTEM---ADQIERISAERVRVELDKLLLGDHPRAGIDLMVET 233 (466)
T ss_pred EecCChHHhhhhChHHHHHHHHHHHHhCCCcCHHHHHHHHHH---HHHHhcCCHHHHHHHHHHHHcCCCcHHHHHHHHhh
Confidence 999999999999999999999999999999999999999875 44567899999999999999999999999999999
Q ss_pred CchhHHhhCCCCCchhhhhhccccccchhhhHH-HHHHHhhcc-CCCcc-chhHHHHhcccccccccccc----CCC---
Q 009892 315 TLFWIVFKLPLQVEPEVLEGCEMFCTAYLDAAW-DLTQLIGSS-TFNDD-QRRLSQYAALFLPFRNTTYK----DNK--- 384 (523)
Q Consensus 315 glL~~if~~Pe~~~~~~~~~~~q~~~~h~~tvd-h~l~~l~~~-~~~~e-~~~ll~LAaLlhpi~k~~~~----~~~--- 384 (523)
|+|..+| |++. . .. ..|...||.+++| |++.++... .+... ....+.|||||||+||+... +++
T Consensus 234 glL~~~~--Pe~~-~--~~-~~~~~~~h~~~v~~Htl~vl~~~~~l~~~~~~~~l~lAaLLHDiGK~~t~~~~~~g~~~f 307 (466)
T TIGR02692 234 GLADRVL--PEIP-A--LR-LEIDEHHQHKDVYEHSLTVLRQAIDLEDDGPDLVLRWAALLHDIGKPATRRFEPDGRVSF 307 (466)
T ss_pred hhhhhcC--chHH-H--Hh-cccccCCCCCcHHHHHHHHHHHHHhccccccCHHHHHHHHHhhccCCCCcccccCCCccc
Confidence 9999999 9963 1 12 4466788889998 998887643 12212 23367899999999998542 111
Q ss_pred -CCCchhHHHHHHHHhcC---CCCCHHHHHHHHHHHHHHHhhhhhhhcccccccccccccccccCCCcchhhHHHHhHHH
Q 009892 385 -GKKIPVVNYTFRDSLKR---KASDAETVMNIHRVLEKFLSLIPSLVSAEDVKVNDGQWSKELVDVPDASKLRVLTGFLL 460 (523)
Q Consensus 385 -~h~~~~~a~iare~Lk~---~~~d~~~v~~lv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~R~~~G~~i 460 (523)
+| ..+|+.++++.|++ ++...+.|.+++++|..+.... + ...+...+..++
T Consensus 308 ~gH-~~~Ga~~a~~iL~rLk~s~~~~~~V~~LV~~H~~~~~~~----~--------------------~~~~~~~v~r~~ 362 (466)
T TIGR02692 308 HHH-EVVGAKMVRKRMRALKYSKQMVEDVSRLVELHLRFHGYG----D--------------------GQWTDSAVRRYV 362 (466)
T ss_pred CcH-HHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCchhhcc----c--------------------CCCCHHHHHHHH
Confidence 34 57899999887775 6667777778888886432110 0 012345667888
Q ss_pred HHhcchhHHHHHHH
Q 009892 461 REIKKFWRVALLIS 474 (523)
Q Consensus 461 r~~~~~W~~~~~~~ 474 (523)
++.|..|...++++
T Consensus 363 ~~~g~~l~~L~~L~ 376 (466)
T TIGR02692 363 RDAGPLLPRLHKLV 376 (466)
T ss_pred HHhhhhHHHHHHHH
Confidence 99988776555544
No 2
>KOG2159 consensus tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3.3e-60 Score=489.30 Aligned_cols=244 Identities=46% Similarity=0.665 Sum_probs=220.1
Q ss_pred ChhhHHHHHHHHHHHHhcCCCCeEEEEchHHHHHHcCCCCCCeEEEEcCCChHHHHHHHHHHHHhcCCccCCceEEecCC
Q 009892 73 TDTETKIFSCLLNTLRHFNLETVLRVAGGWVRDKLLGKDCYDIDIALDNMMGSEFATKVAEYLSATGETAPSGFGVIPSN 152 (523)
Q Consensus 73 ~~~e~~i~~~l~~~~~~~~~~~~~yiVGG~VRD~LLg~~~~DiDi~~~~~~~~~f~~~l~~~l~~~g~~~~~~~~vi~~n 152 (523)
+..+...++.+++.+...| +++|||||||||+|||++|+|+||||++++++ +.+.+..+-...|... +.+||+ .|
T Consensus 10 ~s~~~~~~~~v~~~~~~~~--~elRiaGGwVRD~LLg~~p~DiDiatta~~g~-~~e~f~~~~~~~~~~~-~~~h~~-~n 84 (416)
T KOG2159|consen 10 TSLLTDSTRLVLSKLKKKG--YELRLAGGWVRDLLLGREPKDIDIATTAMSGQ-MKEMFQSAQIRVGKKF-PICHVI-MG 84 (416)
T ss_pred HHhccHHHHHHHHHhhcCC--CeeEEecccHHHHHcCCCCcccceeeccccHH-HHHHHHHHHHhhcccC-Ccceee-cC
Confidence 5666778888888777665 89999999999999999999999999999764 6666666555566666 678899 89
Q ss_pred CCCCcceeeEEEEEcCeEEEeeecccccccCCCCCcccccCCHHHHHhcCCCCccceeeecCCCceecCccccHHHhhcC
Q 009892 153 PDQSKHLETATMKLYDLWIDFVNLRCEDYSENSRIPTMRFGTAEEDAYRRDLTINSLFYNINTSSVEDLTGRGIADLKHG 232 (523)
Q Consensus 153 ~~~~k~~~t~~~~~~g~~iD~~~~R~e~y~~~~r~p~v~~gt~~eDl~RRDFTINAla~~l~~~~i~D~~g~G~~DL~~g 232 (523)
|+++||.+|+++++++.+|||+++|.|.|++.+ +|.+++||.++|++|||||||++|||+.+|.|+||+| |++||+++
T Consensus 85 p~~skhletat~~i~~~~iD~v~lr~~~y~e~~-~~~~~dgt~~~nalRRD~TIN~Lffn~~~~~VeDytg-G~eDL~~~ 162 (416)
T KOG2159|consen 85 PIKSKHLETATFRITTLRIDFVNLRREAYTETS-IPYVTDGTRDENALRRDFTINSLFFNPFDGTVEDYTG-GLEDLKNK 162 (416)
T ss_pred CcceeeecceeeeeeccccceeecCcccccccC-CCCCCcCcchhhhhhhccchhhhhccCCCCceeeccc-cHhHHhcC
Confidence 999999999999999999999999999999766 9999999999999999999999999999999999998 99999999
Q ss_pred ceecCCCCCCCCccCHHHHHHHHHHHhhcCCCCcHHHHHHHHhhHHHHHHhccccHHHHHHHHHHhhcCCCHHHHHHHHH
Q 009892 233 KIVTPLPPKATFLDDPLRVLRAIRFGARFDFILDEELKKAAASDEVKAALAAKISRERVGTEIDLMVSGNQPVKAMTHIC 312 (523)
Q Consensus 233 ~IR~~~~p~~~F~eDPLRiLRa~RFAarlgf~id~~t~~ai~~~~~~~~l~~~is~ERI~~El~kiL~~~~~~~~L~lL~ 312 (523)
+||||++|.++|.|||+||||+||||+|+||+|++++.+++...+++.++..++|+|||+.|+.|||.++++..+|++|+
T Consensus 163 kvrt~~~A~~tf~eDpLRILR~iRFaaRlgftid~~~~e~~~~~k~~~~~~~kIS~ERI~~Ei~kmL~g~~~~~~L~ll~ 242 (416)
T KOG2159|consen 163 KVRTVLHAKQTFLEDPLRILRGIRFAARLGFTIDEESKETLEAIKENVALLAKISRERIGVEINKMLVGNSAEASLRLLW 242 (416)
T ss_pred eEEeeccccceeccchHHHHHHHHHHHhhcCccCcccHHHHhhHHHHHHHhccccHHHHHHHHHHHHcCCcHHHHHHHHH
Confidence 99999999999999999999999999999999988888777777677888899999999999999999999999999999
Q ss_pred H-cCchhHHhhCCC
Q 009892 313 G-LTLFWIVFKLPL 325 (523)
Q Consensus 313 ~-~glL~~if~~Pe 325 (523)
+ .++...++ |-
T Consensus 243 ~~~~~~~i~l--p~ 254 (416)
T KOG2159|consen 243 RLFGFEYIFL--PI 254 (416)
T ss_pred HhcCceEEec--cc
Confidence 9 55555444 55
No 3
>PRK10885 cca multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed
Probab=100.00 E-value=2.5e-52 Score=442.80 Aligned_cols=288 Identities=22% Similarity=0.198 Sum_probs=224.0
Q ss_pred eEEEEchHHHHHHcCCCCCCeEEEEcCCChHHHHHHHHHHHHhcCCccCCceEEecCCCCCCcceeeEEEEEcCeEEEee
Q 009892 95 VLRVAGGWVRDKLLGKDCYDIDIALDNMMGSEFATKVAEYLSATGETAPSGFGVIPSNPDQSKHLETATMKLYDLWIDFV 174 (523)
Q Consensus 95 ~~yiVGG~VRD~LLg~~~~DiDi~~~~~~~~~f~~~l~~~l~~~g~~~~~~~~vi~~n~~~~k~~~t~~~~~~g~~iD~~ 174 (523)
++|+|||||||+|||++++|+||+|.+.+++++.. ..+... ++.|.+.. ..+...|++
T Consensus 2 ~~ylVGG~VRD~Llg~~~~D~D~vv~~~~~~~~~~---~~~~~~-----------------g~~f~v~~--~~~~~~e~~ 59 (409)
T PRK10885 2 KIYLVGGAVRDALLGLPVKDRDWVVVGATPEEMLA---QGYQQV-----------------GKDFPVFL--HPKTHEEYA 59 (409)
T ss_pred cEEEeccHHHHHHcCCCCCCeeEEeeCChHHHHHh---CCCeec-----------------CceeEEEE--eCCceEEEE
Confidence 58999999999999999999999887766655422 111111 22333322 224456899
Q ss_pred ecccccccCCCCCcc-cc---cCCHHHHHhcCCCCccceeeecCCCceecCccccHHHhhcCceecCCCCCCCCccCHHH
Q 009892 175 NLRCEDYSENSRIPT-MR---FGTAEEDAYRRDLTINSLFYNINTSSVEDLTGRGIADLKHGKIVTPLPPKATFLDDPLR 250 (523)
Q Consensus 175 ~~R~e~y~~~~r~p~-v~---~gt~~eDl~RRDFTINAla~~l~~~~i~D~~g~G~~DL~~g~IR~~~~p~~~F~eDPLR 250 (523)
.+|+|.|+++|...- +. ..|++|||.||||||||||||. +|.++||+| |++||++|+||++++ +|.|||+|
T Consensus 60 ~~r~er~~~~g~~~~~~~~~~~~~l~eDl~RRDfTiNA~a~~~-~~~liDp~~-G~~Dl~~~~lr~v~~---~f~eDPlR 134 (409)
T PRK10885 60 LARTERKSGRGYTGFTCYAAPDVTLEEDLIRRDLTINAMAQDD-DGELIDPYG-GQRDLEARLLRHVSP---AFAEDPLR 134 (409)
T ss_pred eeeeccccCCCCCCceeccCCCCCHHHHHHhccchhhhheeCC-CCCEecCCC-CHHHHhCCceEeCCc---hhhhCHHH
Confidence 999998876664321 11 1499999999999999999994 688999998 999999999999964 69999999
Q ss_pred HHHHHHHHhhc---CCCCcHHHHHHHHhhHHHHHHhccccHHHHHHHHHHhhcCCCHHHHHHHHHHcCchhHHhhCCCCC
Q 009892 251 VLRAIRFGARF---DFILDEELKKAAASDEVKAALAAKISRERVGTEIDLMVSGNQPVKAMTHICGLTLFWIVFKLPLQV 327 (523)
Q Consensus 251 iLRa~RFAarl---gf~id~~t~~ai~~~~~~~~l~~~is~ERI~~El~kiL~~~~~~~~L~lL~~~glL~~if~~Pe~~ 327 (523)
|||++|||+|+ ||+|+++|+++|+.. +....+..+++|||+.|+.|+|.+++|..+|+.|+++|+|..+| ||+.
T Consensus 135 iLRa~RFaarl~~lgf~i~~~T~~~i~~~-~~~~~L~~~~~ERi~~El~kiL~~~~p~~~l~~L~~~g~L~~l~--PEl~ 211 (409)
T PRK10885 135 VLRVARFAARFAHLGFRIAPETLALMREM-VASGELDALTPERVWKETERALMERNPQVFFQVLRDCGALAVLL--PEID 211 (409)
T ss_pred HHHHHHHHHHhccCCCCcCHHHHHHHHHh-hhhchhhhCCHHHHHHHHHHHHcCCCHHHHHHHHHHhhHHHHHh--hHHH
Confidence 99999999999 999999999999864 22225567899999999999999999999999999999999999 9963
Q ss_pred chhhhhhccccccchh-hhHH-HHHHHhhcc-CCCccchhHHHHhccccccccccccC-C----CCCCchhHHHHHHHHh
Q 009892 328 EPEVLEGCEMFCTAYL-DAAW-DLTQLIGSS-TFNDDQRRLSQYAALFLPFRNTTYKD-N----KGKKIPVVNYTFRDSL 399 (523)
Q Consensus 328 ~~~~~~~~~q~~~~h~-~tvd-h~l~~l~~~-~~~~e~~~ll~LAaLlhpi~k~~~~~-~----~~h~~~~~a~iare~L 399 (523)
. ..+..|...||. ++++ |++.++... .+ .....+.|||||||+||+.... + .+| ...|+.++++.+
T Consensus 212 -~--l~~~~Q~~~~H~e~dv~~Htl~~l~~~~~l--~~~l~lr~AaLlHDlGK~~t~~~~~~~~~gH-~~~Ga~~a~~i~ 285 (409)
T PRK10885 212 -A--LFGVPQPAKWHPEIDTGIHTLMVLDQAAKL--SPSLDVRFAALCHDLGKGLTPPEEWPRHHGH-EPRGVKLVEQLC 285 (409)
T ss_pred -H--HhcCCCCcCCCCCCcHHHHHHHHHHHHHhc--CCCHHHHHHHHhccccCCCCCcccCcccCch-hHhHHHHHHHHH
Confidence 2 346678888996 6887 998888643 11 1234578999999999985322 1 145 578999999877
Q ss_pred cC---CCCCHHHHHHHHHHHHH
Q 009892 400 KR---KASDAETVMNIHRVLEK 418 (523)
Q Consensus 400 k~---~~~d~~~v~~lv~~~~~ 418 (523)
++ ++...+.+.++++.|..
T Consensus 286 ~RLk~p~~~~~~~~~lv~~H~~ 307 (409)
T PRK10885 286 QRLRVPNECRDLALLVAEEHDN 307 (409)
T ss_pred HHcCcCHHHHHHHHHHHHHhhc
Confidence 76 55666667777787753
No 4
>PRK13299 tRNA CCA-pyrophosphorylase; Provisional
Probab=100.00 E-value=8.2e-52 Score=436.98 Aligned_cols=276 Identities=26% Similarity=0.301 Sum_probs=216.0
Q ss_pred HHHHHHhcCCCCeEEEEchHHHHHHcCCCCCCeEEEEcCCChHHHHHHHHHHHHhcCCccCCceEEecCCCCCCcceeeE
Q 009892 83 LLNTLRHFNLETVLRVAGGWVRDKLLGKDCYDIDIALDNMMGSEFATKVAEYLSATGETAPSGFGVIPSNPDQSKHLETA 162 (523)
Q Consensus 83 l~~~~~~~~~~~~~yiVGG~VRD~LLg~~~~DiDi~~~~~~~~~f~~~l~~~l~~~g~~~~~~~~vi~~n~~~~k~~~t~ 162 (523)
+++.++.. |+++|+|||||||+|||++++|+||+|++. ++++++.+.+.. . .++.++|+
T Consensus 12 i~~~l~~~--g~~~ylVGG~VRD~LLg~~~~DiDi~~~~~-~~~~~~~~~~~~--------------~----~g~~~gt~ 70 (394)
T PRK13299 12 ILEKIKEA--GFEAYFVGGSVRDYLLGRPIHDVDIATSAY-PEEVKAIFPRTV--------------D----VGIEHGTV 70 (394)
T ss_pred HHHHHHHc--CCeEeeccchHHHHHcCCCCCCEEEecCCC-HHHHHHHhhhhh--------------h----ccccCCEE
Confidence 34455555 578999999999999999999999999984 677665543211 0 12456899
Q ss_pred EEEEcCeEEEeeecccccccCCCCCcc-ccc-CCHHHHHhcCCCCccceeeecCCCceecCccccHHHhhcCceecCCCC
Q 009892 163 TMKLYDLWIDFVNLRCEDYSENSRIPT-MRF-GTAEEDAYRRDLTINSLFYNINTSSVEDLTGRGIADLKHGKIVTPLPP 240 (523)
Q Consensus 163 ~~~~~g~~iD~~~~R~e~y~~~~r~p~-v~~-gt~~eDl~RRDFTINAla~~l~~~~i~D~~g~G~~DL~~g~IR~~~~p 240 (523)
++..+|..+||+++|+|.+..+++.|. +.| +|+++||.|||||||||||+++ |.++||+| |++||++|+||++++|
T Consensus 71 ~v~~~~~~~ei~t~R~e~~~~d~~~p~~~~~~~~i~eDl~RRDFTINAma~~~~-g~liDpf~-G~~DL~~~~iR~v~~~ 148 (394)
T PRK13299 71 LVLENGEEYEVTTFRTESEYVDYRRPSEVTFVRSLEEDLKRRDFTINAIAMDEN-GEIIDLFD-GLEDLKNRLIRAVGNA 148 (394)
T ss_pred EEEECCEEEEEEeeccccCccCCCCCccccCCCCHHHHHHhccccHHHhhcCCC-CCEeeCCC-CHHHHhCCceeecCCH
Confidence 988899999999999997666788886 666 6999999999999999999985 78999998 9999999999999988
Q ss_pred CCCCccCHHHHHHHHHHHhhcCCCCcHHHHHHHHhhHHHHHHhccccHHHHHHHHHHhhcCCCHHHHHHHHHHcCchhHH
Q 009892 241 KATFLDDPLRVLRAIRFGARFDFILDEELKKAAASDEVKAALAAKISRERVGTEIDLMVSGNQPVKAMTHICGLTLFWIV 320 (523)
Q Consensus 241 ~~~F~eDPLRiLRa~RFAarlgf~id~~t~~ai~~~~~~~~l~~~is~ERI~~El~kiL~~~~~~~~L~lL~~~glL~~i 320 (523)
.++|.|||+|||||+|||++|||+|+++|.++|+.. ..++.++|+|||+.|+.|||.+++|..+++.|.++|++..
T Consensus 149 ~~~f~eDplRiLRa~Rfaa~l~f~i~~~t~~~i~~~---~~~l~~vs~eRI~~El~kll~~~~~~~~l~~l~~~gll~~- 224 (394)
T PRK13299 149 EERFQEDALRMMRAVRFASQLGFDLETETFEAMKTQ---APLLEKISVERIFVEFEKLLLGPFWRKGLKLLIETGLYNY- 224 (394)
T ss_pred HHhhccCHHHHHHHHHHHHHHCCCCCHHHHHHHHHH---HHHHhcCCHHHHHHHHHHHHcCCCHHHHHHHHHHCChHHh-
Confidence 899999999999999999999999999999999875 4567899999999999999999999999999999999987
Q ss_pred hhCCCCCchhhhhhccccccchhhhHHHHHHHhhccCCCccchhHHHHhccccccccccccCCCCCCchhHHHHHHHHhc
Q 009892 321 FKLPLQVEPEVLEGCEMFCTAYLDAAWDLTQLIGSSTFNDDQRRLSQYAALFLPFRNTTYKDNKGKKIPVVNYTFRDSLK 400 (523)
Q Consensus 321 f~~Pe~~~~~~~~~~~q~~~~h~~tvdh~l~~l~~~~~~~e~~~ll~LAaLlhpi~k~~~~~~~~h~~~~~a~iare~Lk 400 (523)
| |+.... .. ...++...... ........||++||++++. .+.-+-+.++
T Consensus 225 ~--p~l~~~-------~~------~~~~~~~~~~~----~~~~~~~~~a~ll~~~~~~------------~~~~~l~rl~ 273 (394)
T PRK13299 225 L--PGLKGK-------EE------NLLKLTQLLWF----SFETSEQAWAALLISLKIE------------NIKSFLKAWK 273 (394)
T ss_pred C--cccccc-------hH------HHHHHHHHHhc----cCCCHHHHHHHHHHhcCHH------------HHHHHHHHhC
Confidence 7 885210 00 01112222210 0123445688999998531 0122335556
Q ss_pred CCCCCHHHHHHHHHHH
Q 009892 401 RKASDAETVMNIHRVL 416 (523)
Q Consensus 401 ~~~~d~~~v~~lv~~~ 416 (523)
.++...+.+..++..|
T Consensus 274 ls~~~~~~i~~li~~~ 289 (394)
T PRK13299 274 LSNKFIKDVVKLLALY 289 (394)
T ss_pred CCHHHHHHHHHHHHHh
Confidence 6666666677676555
No 5
>PRK11623 pcnB poly(A) polymerase I; Provisional
Probab=100.00 E-value=4.6e-52 Score=440.85 Aligned_cols=231 Identities=28% Similarity=0.416 Sum_probs=199.2
Q ss_pred ecccceecChhhHHHHHHHHHHHHhcCCCCeEEEEchHHHHHHcCCCCCCeEEEEcCCChHHHHHHHHHHHHhcCCccCC
Q 009892 65 QVRDKIELTDTETKIFSCLLNTLRHFNLETVLRVAGGWVRDKLLGKDCYDIDIALDNMMGSEFATKVAEYLSATGETAPS 144 (523)
Q Consensus 65 ~~~~~i~l~~~e~~i~~~l~~~~~~~~~~~~~yiVGG~VRD~LLg~~~~DiDi~~~~~~~~~f~~~l~~~l~~~g~~~~~ 144 (523)
|......+++.-.+|++.|. . .|+++|||||||||+|||++|+|+||+|++. ++++.+.+..
T Consensus 44 H~i~~~~i~~~a~~Vl~~L~----~--~G~eaYLVGG~VRDlLLG~~pkD~DIaT~A~-peev~~lf~~----------- 105 (472)
T PRK11623 44 HAISRKDISENALKVLYRLN----K--AGYEAYLVGGGVRDLLLGKKPKDFDVTTNAT-PEQVRKLFRN----------- 105 (472)
T ss_pred cCcCcccCCHHHHHHHHHHH----H--CCCeEEEeChHHHHHHcCCCCCCEEEecCCC-HHHHHHHhhh-----------
Confidence 34445577777777776554 3 3688999999999999999999999999985 7777655432
Q ss_pred ceEEecCCCCCCcceeeEEEEEcCeEEEeeecccccccCCCCCcc------------cccCCHHHHHhcCCCCccceeee
Q 009892 145 GFGVIPSNPDQSKHLETATMKLYDLWIDFVNLRCEDYSENSRIPT------------MRFGTAEEDAYRRDLTINSLFYN 212 (523)
Q Consensus 145 ~~~vi~~n~~~~k~~~t~~~~~~g~~iD~~~~R~e~y~~~~r~p~------------v~~gt~~eDl~RRDFTINAla~~ 212 (523)
...| ++.|+++.+.+++..|||+++|++.+..+++.|. +.+||++|||.||||||||||||
T Consensus 106 -~r~i------GrrF~~~hV~~~~~~iEVaTfR~~~~~~~~~~~~~~~~~~g~~~rdn~~gtieeDl~RRDFTINALayd 178 (472)
T PRK11623 106 -CRLV------GRRFRLAHVMFGPEIIEVATFRGHHEGNESDRNTSQRGQNGMLLRDNIFGSIEEDAQRRDFTINSLYYS 178 (472)
T ss_pred -Ceee------cCCCCEEEEEECCceEEEeccccccccccccccccccCCCCceecccCCCCHHHHHHhccccHHHheec
Confidence 1112 3457888888888899999999987655544442 45789999999999999999999
Q ss_pred cCCCceecCccccHHHhhcCceecCCCCCCCCccCHHHHHHHHHHHhhcCCCCcHHHHHHHHhhHHHHHHhccccHHHHH
Q 009892 213 INTSSVEDLTGRGIADLKHGKIVTPLPPKATFLDDPLRVLRAIRFGARFDFILDEELKKAAASDEVKAALAAKISRERVG 292 (523)
Q Consensus 213 l~~~~i~D~~g~G~~DL~~g~IR~~~~p~~~F~eDPLRiLRa~RFAarlgf~id~~t~~ai~~~~~~~~l~~~is~ERI~ 292 (523)
+.++.|+||+| |++||++|+||++++|.++|.|||+|||||+|||++|||+|+++|.++|+.. ..++.++|+|||+
T Consensus 179 ~~~~~IiD~~g-G~~DLk~riLR~IGdp~~rf~EDPlRmLRAvRFAArLgF~Ie~~T~~aI~~~---a~lL~~vs~eRI~ 254 (472)
T PRK11623 179 VADFTVRDYVG-GMKDLKEGVIRLIGNPETRYREDPVRMLRAVRFAAKLDMRISPETAEPIPRL---ATLLNDIPPARLF 254 (472)
T ss_pred CCCCeEecCCC-CHHHHhCCceeecCChHhhcccchHHHHHHHHHHHHhCCCcCHHHHHHHHHH---HHHhhcCCHHHHH
Confidence 99999999998 9999999999999999999999999999999999999999999999999875 5677899999999
Q ss_pred HHHHHhhcCCCHHHHHHHHHHcCchhHHhhCCCC
Q 009892 293 TEIDLMVSGNQPVKAMTHICGLTLFWIVFKLPLQ 326 (523)
Q Consensus 293 ~El~kiL~~~~~~~~L~lL~~~glL~~if~~Pe~ 326 (523)
.|+.|||.++++..++++|.++|++..+| |+.
T Consensus 255 ~El~KlL~~~~~~~~~~lL~e~GLl~~lf--Pel 286 (472)
T PRK11623 255 EESLKLLQAGYGYETYKLLCEYHLFQPLF--PTI 286 (472)
T ss_pred HHHHHHHcCCCHHHHHHHHHHcCCHHHHh--HhH
Confidence 99999999999999999999999999999 884
No 6
>TIGR01942 pcnB poly(A) polymerase. This model describes the pcnB family of poly(A) polymerases (also known as plasmid copy number protein). These enzymes sequentially add adenosine nucleotides to the 3' end of RNAs, targeting them for degradation by the cell. This was originally described for anti-sense RNAs, but was later demonstrated for mRNAs as well. Members of this family are as yet limited to the gamma- and beta-proteobacteria, with putative members in the Chlamydiacae and spirochetes. This family has homology to tRNA nucleotidyltransferase (cca).
Probab=100.00 E-value=1.6e-51 Score=431.75 Aligned_cols=225 Identities=26% Similarity=0.445 Sum_probs=196.8
Q ss_pred ecChhhHHHHHHHHHHHHhcCCCCeEEEEchHHHHHHcCCCCCCeEEEEcCCChHHHHHHHHHHHHhcCCccCCceEEec
Q 009892 71 ELTDTETKIFSCLLNTLRHFNLETVLRVAGGWVRDKLLGKDCYDIDIALDNMMGSEFATKVAEYLSATGETAPSGFGVIP 150 (523)
Q Consensus 71 ~l~~~e~~i~~~l~~~~~~~~~~~~~yiVGG~VRD~LLg~~~~DiDi~~~~~~~~~f~~~l~~~l~~~g~~~~~~~~vi~ 150 (523)
.+++...+|++.|.+ .|+++|||||||||+|||++|+|+||+|++. ++++.+.+.. ...+
T Consensus 13 ~i~~~a~~Vl~~L~~------~G~~aYlVGG~VRDlLLG~~pkD~DIat~a~-peei~~lf~~------------~~~i- 72 (410)
T TIGR01942 13 SFSAHALNVVERLKG------AGYQAYIVGGAVRDLLLGIEPKDFDVVTSAT-PEEVRKLFRN------------SRIV- 72 (410)
T ss_pred HCCHHHHHHHHHHHH------CCCcEEEECHHHHHHHcCCCCCCEEEEcCCC-HHHHHHHhhh------------Ceec-
Confidence 467888888876643 3688999999999999999999999999985 6776554421 1112
Q ss_pred CCCCCCcceeeEEEEEcCeEEEeeecccccc---cCCCCCcc-cccCCHHHHHhcCCCCccceeeecCCCceecCccccH
Q 009892 151 SNPDQSKHLETATMKLYDLWIDFVNLRCEDY---SENSRIPT-MRFGTAEEDAYRRDLTINSLFYNINTSSVEDLTGRGI 226 (523)
Q Consensus 151 ~n~~~~k~~~t~~~~~~g~~iD~~~~R~e~y---~~~~r~p~-v~~gt~~eDl~RRDFTINAla~~l~~~~i~D~~g~G~ 226 (523)
++.++++++.+++..||++++|+|.+ ..+|+++. ..+||+++||.||||||||||||+.+++|+||+| |+
T Consensus 73 -----G~rf~~~~v~~~~~~iEvatfR~~~~~~~~~~g~~~~d~~~gtieeDl~RRDFTINALayd~~~~~IiD~~g-G~ 146 (410)
T TIGR01942 73 -----GRRFRLVHVSFGRQIIEVATFRSGHKSSVNAEGRILKDNVYGTLEEDAWRRDFTVNALYYDPSREVIIDYVG-GM 146 (410)
T ss_pred -----CCCCCEEEEEECCEEEEEecccccccCCCCCCCCcccccccCCHHHHhhcCCchhhheeecCCCCeeeCCCC-cH
Confidence 35678999988889999999999753 34667665 5569999999999999999999999999999998 99
Q ss_pred HHhhcCceecCCCCCCCCccCHHHHHHHHHHHhhcCCCCcHHHHHHHHhhHHHHHHhccccHHHHHHHHHHhhcCCCHHH
Q 009892 227 ADLKHGKIVTPLPPKATFLDDPLRVLRAIRFGARFDFILDEELKKAAASDEVKAALAAKISRERVGTEIDLMVSGNQPVK 306 (523)
Q Consensus 227 ~DL~~g~IR~~~~p~~~F~eDPLRiLRa~RFAarlgf~id~~t~~ai~~~~~~~~l~~~is~ERI~~El~kiL~~~~~~~ 306 (523)
+||++|+||++++|.++|.|||+|||||+|||++|||.|+++|.++|++. ..++..+|+|||+.|+.|+|.++++..
T Consensus 147 ~DL~~~~LR~igdp~~rf~EDPlRiLRAvRFaa~LgF~Ie~~T~~~I~~~---a~~L~~vs~eRI~~El~Kll~~~~~~~ 223 (410)
T TIGR01942 147 EDLKNRRLRLIGDPRSRYQEDPVRMLRALRFSVKLEFTIDESTARPIRES---APLLKGIPPARLFEEILKLLFSGRSAA 223 (410)
T ss_pred HHHHCCceeecCChhhcccccHHHHHHHHHHHHHhCCCcCHHHHHHHHHH---HHHHhcCCHHHHHHHHHHHHcCCCHHH
Confidence 99999999999999999999999999999999999999999999999875 556789999999999999999999999
Q ss_pred HHHHHHHcCchhHHhhCCCC
Q 009892 307 AMTHICGLTLFWIVFKLPLQ 326 (523)
Q Consensus 307 ~L~lL~~~glL~~if~~Pe~ 326 (523)
++++|.++|++..+| |+.
T Consensus 224 ~l~~L~~~gll~~lf--Pel 241 (410)
T TIGR01942 224 LFRMLCGYQLLEPLF--PSV 241 (410)
T ss_pred HHHHHHHcCCHHHHh--HhH
Confidence 999999999999999 884
No 7
>PRK13298 tRNA CCA-pyrophosphorylase; Provisional
Probab=100.00 E-value=6.1e-51 Score=428.70 Aligned_cols=289 Identities=19% Similarity=0.104 Sum_probs=216.7
Q ss_pred eEEEEchHHHHHHcCCCCCCeEEEEcCCChHHHHHHHHHHHHhcCCccCCceEEecCCCCCCcceeeEEEEEcCeEEEee
Q 009892 95 VLRVAGGWVRDKLLGKDCYDIDIALDNMMGSEFATKVAEYLSATGETAPSGFGVIPSNPDQSKHLETATMKLYDLWIDFV 174 (523)
Q Consensus 95 ~~yiVGG~VRD~LLg~~~~DiDi~~~~~~~~~f~~~l~~~l~~~g~~~~~~~~vi~~n~~~~k~~~t~~~~~~g~~iD~~ 174 (523)
++|+|||||||.|||++++|+|++|.+.+++++.. ..+...|..+ +++ .. .+...+++
T Consensus 2 ~~YlVGGaVRD~LLg~~~~D~D~vv~g~~~~~~~~---~~~~~vG~~f----~v~-------------l~--~~~~~e~a 59 (417)
T PRK13298 2 KIYLVGGAVRDSLLNLPVKDKDWVVVGGTPKILLS---INFQQVGKDF----PVF-------------LH--PETHEEYA 59 (417)
T ss_pred cEEEEccHHHHHHcCCCCCCeeEEecCCCHHHHHH---HHHHHhCCee----EEE-------------Ee--CceeEEEE
Confidence 68999999999999999999999998876665422 2233334332 222 11 22346788
Q ss_pred ecccccccCCCCC---cccc-cCCHHHHHhcCCCCccceeeecCCCceecCccccHHHhhcCceecCCCCCCCCccCHHH
Q 009892 175 NLRCEDYSENSRI---PTMR-FGTAEEDAYRRDLTINSLFYNINTSSVEDLTGRGIADLKHGKIVTPLPPKATFLDDPLR 250 (523)
Q Consensus 175 ~~R~e~y~~~~r~---p~v~-~gt~~eDl~RRDFTINAla~~l~~~~i~D~~g~G~~DL~~g~IR~~~~p~~~F~eDPLR 250 (523)
.+|+|.|+++|.. +.+. ..|++|||.||||||||||||++ |.++||+| |++||++|+||+++ ++|.|||+|
T Consensus 60 ~aRter~~g~g~~g~~~~~~~~~tleeDL~RRDFTINAmA~~~~-g~liDp~~-G~~DL~~r~lR~v~---~~F~EDPLR 134 (417)
T PRK13298 60 LARTERKSGVGYTGFITDTSSDVTLEEDLIRRDLTINAIAQDEN-GNYIDPFQ-GKKDIQLRLLRHVS---ESFIEDPLR 134 (417)
T ss_pred eecccccccCCCCCcccccCCCCCHHHHHHhcccceeeeEECCC-CCEEeCCC-cHHHHHCCcEecCC---cccccCHHH
Confidence 9999987765432 2232 25999999999999999999975 78999998 99999999999995 489999999
Q ss_pred HHHHHHHHhhc---CCCCcHHHHHHHHhhHHHHHHhccccHHHHHHHHHHhhcCCCHHHHHHHHHHcCchhHHhhCCCCC
Q 009892 251 VLRAIRFGARF---DFILDEELKKAAASDEVKAALAAKISRERVGTEIDLMVSGNQPVKAMTHICGLTLFWIVFKLPLQV 327 (523)
Q Consensus 251 iLRa~RFAarl---gf~id~~t~~ai~~~~~~~~l~~~is~ERI~~El~kiL~~~~~~~~L~lL~~~glL~~if~~Pe~~ 327 (523)
|||++|||+|| ||+|+++|.++|+.. .....+..+|+|||+.|+.|+|.+++|..+++.|.++|+|..+| ||..
T Consensus 135 iLRa~RFaar~~~lgF~i~~~T~~~i~~~-~~~~~l~~~s~ERI~~El~k~L~~~~p~~~~~~L~~~g~L~~~~--PEl~ 211 (417)
T PRK13298 135 VLRVARFAALLVHLGFKIAKETMILMCIM-VKKHELLYLTPERIWNETEKALKTDNPHVYFQVLYECNALKFLF--PEID 211 (417)
T ss_pred HHHHHHHHHHhccCCCccCHHHHHHHHHH-hhhhhhhcCCHHHHHHHHHHHHcCCCHHHHHHHHHHcCCHHHhC--cchH
Confidence 99999999995 999999999999864 22255678999999999999999999999999999999999999 9952
Q ss_pred chhhhhhccccc--cchhhhHH-HHHHHhhccCCCccchhHHHHhcccccccccccc---CC----CCCCchhHHHHHHH
Q 009892 328 EPEVLEGCEMFC--TAYLDAAW-DLTQLIGSSTFNDDQRRLSQYAALFLPFRNTTYK---DN----KGKKIPVVNYTFRD 397 (523)
Q Consensus 328 ~~~~~~~~~q~~--~~h~~tvd-h~l~~l~~~~~~~e~~~ll~LAaLlhpi~k~~~~---~~----~~h~~~~~a~iare 397 (523)
. ..+..|.. .+|.+.++ |++.++....- ......+.+||||||+||+.+. ++ .+| ...|+.++++
T Consensus 212 -~--~~g~~q~~~~~~~~~d~~~htl~~l~~~~~-~~~~l~lR~AaLlHDiGK~~t~~~~~~~~~~~gH-e~~G~~~a~~ 286 (417)
T PRK13298 212 -F--LYEKPYFLNSFFKKFNLGNYILMGLSKISK-LTKDIDIRFSYLCQFLGSMIPINQIKRNYKKIFF-DKYAASLIKN 286 (417)
T ss_pred -H--HcCCCCCccccCCchhHHHHHHHHHHHHHh-cCCCHHHHHHHHHhhhcCCCCCCccCCCCcccCh-hHhHHHHHHH
Confidence 1 12333432 35554555 88877754310 1223457789999999997421 11 133 5678889998
Q ss_pred HhcC---CCCCHHHHHHHHHHHHH
Q 009892 398 SLKR---KASDAETVMNIHRVLEK 418 (523)
Q Consensus 398 ~Lk~---~~~d~~~v~~lv~~~~~ 418 (523)
.+++ ++...+.+..+++.|..
T Consensus 287 i~~RLk~pn~~~~~~~~li~~H~~ 310 (417)
T PRK13298 287 LCKRFKIPSYIRNIAVLNTGFYFF 310 (417)
T ss_pred HHHHhCCCHHHHHHHHHHHHHHhh
Confidence 7776 45555566667777754
No 8
>COG0617 PcnB tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.4e-50 Score=431.30 Aligned_cols=218 Identities=33% Similarity=0.460 Sum_probs=188.6
Q ss_pred HHHHHHHhcCCCCeEEEEchHHHHHHcCCCCCCeEEEEcCCChHHHHHHHHHHHHhcCCccCCceEEecCCCCCCcceee
Q 009892 82 CLLNTLRHFNLETVLRVAGGWVRDKLLGKDCYDIDIALDNMMGSEFATKVAEYLSATGETAPSGFGVIPSNPDQSKHLET 161 (523)
Q Consensus 82 ~l~~~~~~~~~~~~~yiVGG~VRD~LLg~~~~DiDi~~~~~~~~~f~~~l~~~l~~~g~~~~~~~~vi~~n~~~~k~~~t 161 (523)
.+++.++.. |+++|+|||||||+|||++++|+||||++. ++++.+.+.. +...| +.|+|
T Consensus 13 ~v~~~l~~~--g~eaylVGGaVRD~LLG~~~~D~Diat~~~-p~~~~~~~~~-~~~~G-----------------~~f~t 71 (412)
T COG0617 13 KVLSKLKEA--GYEAYLVGGAVRDLLLGRPPKDVDIATNAT-PEEVKKLFRN-TRPVG-----------------RKFGT 71 (412)
T ss_pred HHHHHHHhC--CCeEEEeCcHHHHHHcCCCCcceeeeCCCC-CHHHHHHHhh-hhhhh-----------------hhcCe
Confidence 333444444 589999999999999999999999999997 6776665542 22222 34578
Q ss_pred EEEEEcCeEEEeeecccccccCCCCC-cccccCCHHHHHhcCCCCccceeeecCCCceecCccccHHHhhcCceecCCCC
Q 009892 162 ATMKLYDLWIDFVNLRCEDYSENSRI-PTMRFGTAEEDAYRRDLTINSLFYNINTSSVEDLTGRGIADLKHGKIVTPLPP 240 (523)
Q Consensus 162 ~~~~~~g~~iD~~~~R~e~y~~~~r~-p~v~~gt~~eDl~RRDFTINAla~~l~~~~i~D~~g~G~~DL~~g~IR~~~~p 240 (523)
+++...|..+|++++|+|.|..+++. |.+.++|+++||.||||||||||||+.+|+|+||+| |+.||++|+||++++|
T Consensus 72 ~~v~~~~~~~ev~T~R~~~~~~~~~~~~~~~~~tleeDl~RRDFTINAla~~~~~~~iiD~~g-G~~DL~~~~lR~i~~~ 150 (412)
T COG0617 72 VTVPFNGEIIEVTTFRKEGYGYNGRPLPVVFPGTLEEDLKRRDFTINALAYDPEDGEIIDPFG-GLKDLENRVLRHIGDA 150 (412)
T ss_pred EEeccCCEEEEEEEeecCCCCcCCCcCCcCCCCCHHHHHHHhcccHHhhccCCCCCeEEeCCC-CHHHHhcCceeccCCH
Confidence 88888778899999999997555555 446668999999999999999999999999999998 9999999999999998
Q ss_pred CCCCccCHHHHHHHHHHHhhcCCCCcHHHHHHHHhhHHHHHHhccccHHHHHHHHHHhhcCCCHHHHHHHHHHcCchhHH
Q 009892 241 KATFLDDPLRVLRAIRFGARFDFILDEELKKAAASDEVKAALAAKISRERVGTEIDLMVSGNQPVKAMTHICGLTLFWIV 320 (523)
Q Consensus 241 ~~~F~eDPLRiLRa~RFAarlgf~id~~t~~ai~~~~~~~~l~~~is~ERI~~El~kiL~~~~~~~~L~lL~~~glL~~i 320 (523)
.++|.|||+||||++|||++|||.++++|.++|+.. ..++..+|+|||+.|+.|||.+++|..++++|.++|++..+
T Consensus 151 ~~rf~EDplRiLRa~RFaa~l~f~i~~~t~~~i~~~---~~~~~~is~ERi~~El~KlL~~~~~~~~l~~l~~~g~l~~l 227 (412)
T COG0617 151 SERFREDPLRILRAARFAARLGFTIEPETEEAIRLM---APLLAKISRERLWDELKKLLLSPNPREALQLLREYGALKIL 227 (412)
T ss_pred HHhcccchHHHHHHHHHHHHcCCCCChhHHHHHHHH---HHHhhcCCHHHHHHHHHHHHcCCCHHHHHHHHHHcCChhhc
Confidence 899999999999999999999999999999999875 44456799999999999999999999999999999999999
Q ss_pred hhCCCC
Q 009892 321 FKLPLQ 326 (523)
Q Consensus 321 f~~Pe~ 326 (523)
| |+.
T Consensus 228 ~--p~~ 231 (412)
T COG0617 228 F--PEL 231 (412)
T ss_pred C--hhH
Confidence 9 874
No 9
>PRK13297 tRNA CCA-pyrophosphorylase; Provisional
Probab=100.00 E-value=1.8e-46 Score=387.36 Aligned_cols=205 Identities=25% Similarity=0.280 Sum_probs=170.2
Q ss_pred CCCeEEEEchHHHHHHcCCCCCCeEEEEcCCChHHHHHHHHHHHHhcCCccCCceEEecCCCCCCcceeeEEEEEcCeEE
Q 009892 92 LETVLRVAGGWVRDKLLGKDCYDIDIALDNMMGSEFATKVAEYLSATGETAPSGFGVIPSNPDQSKHLETATMKLYDLWI 171 (523)
Q Consensus 92 ~~~~~yiVGG~VRD~LLg~~~~DiDi~~~~~~~~~f~~~l~~~l~~~g~~~~~~~~vi~~n~~~~k~~~t~~~~~~g~~i 171 (523)
.|+++|+|||||||.|||++++|+|++|.+.+++++++. .....| +.|.+. ...+..+
T Consensus 10 ~G~~~YlVGGaVRD~LLg~~~~D~D~vv~ga~pe~l~~~---~~~~vG-----------------~~f~v~--l~~~~~~ 67 (364)
T PRK13297 10 AGLQVYIVGGAVRDALLGLPAGDRDWVVVGATPEDMARR---GFIPVG-----------------GDFPVF--LHPRTKE 67 (364)
T ss_pred CCCEEEEeCcHHHHHHcCCCCCCeeeeccCChHHHHHhc---CceeeC-----------------CEEEEE--EeCCceE
Confidence 478999999999999999999999998877666665431 011111 122221 1124567
Q ss_pred EeeecccccccCCCCCccccc----CCHHHHHhcCCCCccceeeecCCCceecCccccHHHhhcCceecCCCCCCCCccC
Q 009892 172 DFVNLRCEDYSENSRIPTMRF----GTAEEDAYRRDLTINSLFYNINTSSVEDLTGRGIADLKHGKIVTPLPPKATFLDD 247 (523)
Q Consensus 172 D~~~~R~e~y~~~~r~p~v~~----gt~~eDl~RRDFTINAla~~l~~~~i~D~~g~G~~DL~~g~IR~~~~p~~~F~eD 247 (523)
|++..|+|.|+++|..+.+.+ .|++|||.||||||||||||. .|.++||+| |++||++|+||+++ ++|.||
T Consensus 68 e~a~aRterk~g~g~~~f~~~~~~~~tLeeDL~RRDFTINAmA~~~-~g~liDpfg-G~~DL~~riLR~v~---~~F~ED 142 (364)
T PRK13297 68 EYALARTERKSGRGYKGFTFYTGADVTLEQDLQRRDLTVNAIARTP-QGELVDPLD-GVADVRARVLRHVG---EAFAED 142 (364)
T ss_pred EEEEEEEeeccCCCCceeEEeCCCCCCHHHHHHhccceeeeeEECC-CCCEEECCC-CHHHHhCCCeeeCc---cccccC
Confidence 999999999998887765443 399999999999999999996 488999998 99999999999996 389999
Q ss_pred HHHHHHHHHHHhhcC-CCCcHHHHHHHHhhHHHHHHhccccHHHHHHHHHHhhcCCCHHHHHHHHHHcCchhHHhhCCCC
Q 009892 248 PLRVLRAIRFGARFD-FILDEELKKAAASDEVKAALAAKISRERVGTEIDLMVSGNQPVKAMTHICGLTLFWIVFKLPLQ 326 (523)
Q Consensus 248 PLRiLRa~RFAarlg-f~id~~t~~ai~~~~~~~~l~~~is~ERI~~El~kiL~~~~~~~~L~lL~~~glL~~if~~Pe~ 326 (523)
|+||||++|||+||| |+|+++|.++|+.. +....+..+++|||+.|+.|+|.+++|..+|+.|.++|+|..+| ||.
T Consensus 143 PLRILRa~RFaarlg~F~i~~eT~~~~~~~-~~~~~l~~l~~ERI~~El~k~L~~~~p~~~l~~L~~~g~L~~l~--Pel 219 (364)
T PRK13297 143 PVRILRLGRFAARFGDFSIAPETMQLCRRM-VEAGEADALVPERVWKEVSRGLMAQAPSRMLDVLARAGALARVM--PEL 219 (364)
T ss_pred HHHHHHHHHHHHHhCCCCCCHHHHHHHHHH-hhhcccccCCHHHHHHHHHHHHcCCCHHHHHHHHHHcCCHHHhC--ccc
Confidence 999999999999996 99999999999864 22224578999999999999999999999999999999999999 995
No 10
>PRK13296 tRNA CCA-pyrophosphorylase; Provisional
Probab=100.00 E-value=2.7e-45 Score=375.73 Aligned_cols=200 Identities=30% Similarity=0.369 Sum_probs=165.4
Q ss_pred eEEEEchHHHHHHcCCCCCCeEEEEcCCChHHHHHHHHHHHHhcCCccCCceEEecCCCCCCcceeeEEEEEcCeEEEee
Q 009892 95 VLRVAGGWVRDKLLGKDCYDIDIALDNMMGSEFATKVAEYLSATGETAPSGFGVIPSNPDQSKHLETATMKLYDLWIDFV 174 (523)
Q Consensus 95 ~~yiVGG~VRD~LLg~~~~DiDi~~~~~~~~~f~~~l~~~l~~~g~~~~~~~~vi~~n~~~~k~~~t~~~~~~g~~iD~~ 174 (523)
++|+|||||||+|||++|+|+||+|++..++++. ...+...| +.++++ ...+..+|++
T Consensus 2 ~vYLVGGaVRD~LLgr~p~DiDivV~g~~~~~~l---~~~~~~vg----~~f~V~---------------~~~~~~~Eia 59 (360)
T PRK13296 2 KFYLVGGAVRDMLLGITPKDKDWVVVGATEDEML---ANGFIKIA----ANFPVF---------------IHPQTKQEYA 59 (360)
T ss_pred cEEEeccHHHHHHcCCCCCCeeEEecCCcHHHHH---HhhhhhcC----CceEEE---------------EECCeeEEEe
Confidence 6899999999999999999999998876543321 11111111 112221 1235578999
Q ss_pred ecccccccCCCCCcc-cccC---CHHHHHhcCCCCccceeeecCCCceecCccccHHHhhcCceecCCCCCCCCccCHHH
Q 009892 175 NLRCEDYSENSRIPT-MRFG---TAEEDAYRRDLTINSLFYNINTSSVEDLTGRGIADLKHGKIVTPLPPKATFLDDPLR 250 (523)
Q Consensus 175 ~~R~e~y~~~~r~p~-v~~g---t~~eDl~RRDFTINAla~~l~~~~i~D~~g~G~~DL~~g~IR~~~~p~~~F~eDPLR 250 (523)
++|+|.|..+|++|. |.++ |++|||.||||||||||||++ |.++||+| |++||++|+||+++ .+|.|||+|
T Consensus 60 t~R~E~~~~~g~~~~~v~~~~~~tieeDL~RRDFTINAmA~d~~-g~liDpfg-G~~DL~~kiLR~v~---~sF~EDPLR 134 (360)
T PRK13296 60 LARSEKKTASGYHGFEVNFSKYITLEDDLKRRDLTINSIAIDQN-NKVIDPFN-GQADLQNRILRHTS---IAFIEDPLR 134 (360)
T ss_pred eccccccccCCCCCCeEeeCCCCCHHHHHHhcCcceeeeEECCC-CCEecCCC-CHHHHHCCceecCc---cccccCHHH
Confidence 999999999999874 7764 799999999999999999985 88999998 99999999999983 499999999
Q ss_pred HHHHHHHHhhc---CCCCcHHHHHHHHhhHHHHHHhccccHHHHHHHHHHhhcCCCHHHHHHHHHHcCchhHHhhCCCC
Q 009892 251 VLRAIRFGARF---DFILDEELKKAAASDEVKAALAAKISRERVGTEIDLMVSGNQPVKAMTHICGLTLFWIVFKLPLQ 326 (523)
Q Consensus 251 iLRa~RFAarl---gf~id~~t~~ai~~~~~~~~l~~~is~ERI~~El~kiL~~~~~~~~L~lL~~~glL~~if~~Pe~ 326 (523)
||||+|||+|| ||.|+++|.++|+.. +....+..+|+|||+.|+.|+|.+ |..+|+.|.++|+|..+| |+.
T Consensus 135 ILRa~RFaarL~~~gF~ie~eT~~~i~~~-~~~~~L~~vs~ERI~~El~kiL~~--p~~~l~~L~~~glL~~lf--Pel 208 (360)
T PRK13296 135 VVRLARFKAQLSNFNFSIAQEMLALIKEL-VKTGELNHLTRERLHIEFVKALNN--PKIFFTTLKELEALKIIF--PNI 208 (360)
T ss_pred HHHHHHHHHHhccCCCCcCHHHHHHHHHh-hhhhhhhcCCHHHHHHHHHHHHhC--hHHHHHHHHHcCCHHHhC--cch
Confidence 99999999986 999999999999864 223456789999999999999984 568999999999999999 985
No 11
>cd05398 NT_ClassII-CCAase Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes. 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 II group is comprised mainly of eubacterial and eukaryotic enzymes and includes Bacillus stearothermophilus CCAase, Escherichia coli poly(A) polymerase I, human mitochondrial CCAase, and Saccharomyces cerevisiae CCAase (CCA1). CCA-adding enzymes have a single catalytic pocket, which recognizes both ATP and CTP substrates. Included in this subgroup are CC- and A-adding enzymes from various ancient species of bacteria such as Aquifex aeolicus; these enzymes collaborate to add CCA to tRNAs. 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 io
Probab=100.00 E-value=1.7e-33 Score=257.39 Aligned_cols=125 Identities=39% Similarity=0.535 Sum_probs=106.8
Q ss_pred CCCeEEEEchHHHHHHcCCCCCCeEEEEcCCChHHHHHHHHHHHHhcCCccCCceEEecCCCCCCcceeeEEEEEcCeEE
Q 009892 92 LETVLRVAGGWVRDKLLGKDCYDIDIALDNMMGSEFATKVAEYLSATGETAPSGFGVIPSNPDQSKHLETATMKLYDLWI 171 (523)
Q Consensus 92 ~~~~~yiVGG~VRD~LLg~~~~DiDi~~~~~~~~~f~~~l~~~l~~~g~~~~~~~~vi~~n~~~~k~~~t~~~~~~g~~i 171 (523)
.|.++|+|||||||+|||++|+|+||+|++. +.++++.+.+.. + ..++.. .++++|+++.+.+..+
T Consensus 15 ~g~~~ylVGG~VRD~Llg~~~~DiDi~v~~~-~~~~~~~l~~~~---~------~~~v~~----~~~f~t~~v~~~~~~~ 80 (139)
T cd05398 15 LGYEAYLVGGAVRDLLLGRPPKDIDIATDAD-GPEFAEALFKKI---G------GRVVGL----GEEFGTATVVINGLTI 80 (139)
T ss_pred cCceEEEECChHHHHHcCCCCCCceEEEeCC-CHHHHHHHHHhc---C------CcEEec----CCcccEEEEEECCEEE
Confidence 3688999999999999999999999999986 355555554321 1 123332 2568999999999999
Q ss_pred EeeecccccccCCCCCcccccCCHHHHHhcCCCCccceeeecCCCceecCccccHHHhhc
Q 009892 172 DFVNLRCEDYSENSRIPTMRFGTAEEDAYRRDLTINSLFYNINTSSVEDLTGRGIADLKH 231 (523)
Q Consensus 172 D~~~~R~e~y~~~~r~p~v~~gt~~eDl~RRDFTINAla~~l~~~~i~D~~g~G~~DL~~ 231 (523)
||+++|+|.|+.+++.|.+...++++||.|||||||||||+++++.|+||+| |++||++
T Consensus 81 di~~~R~e~~~~~~~~p~~~~~~~~~Dl~RRDFTINAmA~~~~~~~liDp~~-G~~DL~~ 139 (139)
T cd05398 81 DVATLRTETYTDPGRRPPVVGFTIEEDLLRRDFTINAMAYDLDDGELIDPFG-GLKDLEN 139 (139)
T ss_pred EEcccccccccCCCCCCcccCCCCHHHHhhcCcchhheEecCCCCEEEeCCC-CHHHHhC
Confidence 9999999999999999998888999999999999999999999899999997 9999985
No 12
>PF01743 PolyA_pol: Poly A polymerase head domain; InterPro: IPR002646 This group includes nucleic acid independent RNA polymerases, such as polynucleotide adenylyltransferase (2.7.7.19 from EC), which adds the poly (A) tail to mRNA. This group also includes the tRNA nucleotidyltransferase that adds the CCA to the 3' of the tRNA 2.7.7.25 from EC.; GO: 0003723 RNA binding, 0016779 nucleotidyltransferase activity, 0006396 RNA processing; PDB: 1VFG_A 3H38_A 3H3A_B 3H39_B 3H37_A 1MIY_A 1MIV_B 1MIW_B 1OU5_B 3AQN_A ....
Probab=100.00 E-value=4.9e-33 Score=250.34 Aligned_cols=124 Identities=39% Similarity=0.492 Sum_probs=98.7
Q ss_pred EEEEchHHHHHHcCCCCCCeEEEEcCCChHHHHHHHHHHHHhcCCccCCceEEecCCCCCCcceeeEEEEEcCeEEEeee
Q 009892 96 LRVAGGWVRDKLLGKDCYDIDIALDNMMGSEFATKVAEYLSATGETAPSGFGVIPSNPDQSKHLETATMKLYDLWIDFVN 175 (523)
Q Consensus 96 ~yiVGG~VRD~LLg~~~~DiDi~~~~~~~~~f~~~l~~~l~~~g~~~~~~~~vi~~n~~~~k~~~t~~~~~~g~~iD~~~ 175 (523)
+|+|||||||+|||++++|+||+|++ .++++++.+.+.. ..+... .++++++++...+..+|+++
T Consensus 1 ~ylVGG~VRD~Llg~~~~DiDi~~~~-~~~~~~~~l~~~~---------~~~~~~-----~~~~~~~~~~~~~~~~di~~ 65 (126)
T PF01743_consen 1 AYLVGGAVRDLLLGRPPKDIDIVTNA-DPEEFAKLLAKKL---------GGVFVV-----GKRFGTVRVVFGGGSIDIAS 65 (126)
T ss_dssp EEEETHHHHHHHHTS--SEEEEEESS--HHHHHHHHCTTC---------CEEEEE-----ETTTTEEEEEETTCEEEEEE
T ss_pred CEEecHHHHHHHcCCCCCCeEEEEeC-CHHHHHHHHHhhc---------cccccc-----ccccceeeecCCCccccccc
Confidence 69999999999999999999999996 4788877665421 111221 25678999999998899999
Q ss_pred cccccccCCCCCccc-cc-CCHHHHHhcCCCCccceeeecCCCceecCccccHHHhhcCcee
Q 009892 176 LRCEDYSENSRIPTM-RF-GTAEEDAYRRDLTINSLFYNINTSSVEDLTGRGIADLKHGKIV 235 (523)
Q Consensus 176 ~R~e~y~~~~r~p~v-~~-gt~~eDl~RRDFTINAla~~l~~~~i~D~~g~G~~DL~~g~IR 235 (523)
+|.|.|..+++.|.+ .+ .|+++||.|||||||||||++.+++|+||+| |++||++|+||
T Consensus 66 ~r~~~~~~~~~~~~~~~~~~~i~~Dl~rRDFTiNAla~~~~~~~liDp~g-G~~DL~~~~iR 126 (126)
T PF01743_consen 66 FRGEFYIGDGRNPDVVEFGPTIEEDLKRRDFTINALAYDLETGKLIDPFG-GLEDLKNKIIR 126 (126)
T ss_dssp -ECE--SSSSS--CCCCCSSTHHHHHCTSSBGGGSEEEECTTTCEEESSS-HHHHHHTTEE-
T ss_pred cccccccccccccccccccCCHHHHHHhcCCeehheeEECCCCeEEcCCC-CHHHHHcCCCC
Confidence 999999999999984 44 4999999999999999999999999999998 99999999997
No 13
>PRK00227 glnD PII uridylyl-transferase; Provisional
Probab=99.89 E-value=4.8e-23 Score=230.21 Aligned_cols=207 Identities=14% Similarity=0.085 Sum_probs=163.0
Q ss_pred hhcCceecCCCCCCCCccCHHHHHHHHHHHhhcCCCCcHHHHHHHHhhHHHHHHhccccHHHHHHHHHHhhcCC-CHHHH
Q 009892 229 LKHGKIVTPLPPKATFLDDPLRVLRAIRFGARFDFILDEELKKAAASDEVKAALAAKISRERVGTEIDLMVSGN-QPVKA 307 (523)
Q Consensus 229 L~~g~IR~~~~p~~~F~eDPLRiLRa~RFAarlgf~id~~t~~ai~~~~~~~~l~~~is~ERI~~El~kiL~~~-~~~~~ 307 (523)
+.+|.|+++.++. + +||+||||+||||+++||+|+++|+++|+.. . .+....+||++.||.++|.++ ++..+
T Consensus 275 ~~~~~I~~~~~~~--~-eDPlRiLRafrfAa~~gf~I~~~Tl~~i~~~---~-~L~~~~~er~~~ef~kiL~s~~~~~~~ 347 (693)
T PRK00227 275 DANGTIALSRTPD--L-DDPALPLRVAAAAARTGLPVSESVWKRLEEC---P-ELPEPWPASAAGDFFRLLSSPVNSRRV 347 (693)
T ss_pred EECCEEEeCCCCc--c-cCHHHHHHHHHHHHhcCCCcCHHHHHHHHhh---h-hcchhhHHHHHHHHHHHHcCCCChHHH
Confidence 6789999986532 4 8999999999999999999999999999853 2 234557789999999999986 78999
Q ss_pred HHHHHHcCchhHHhhCCCCCchhhhhhccccccchhhhHH-HHHHHhhcc-CC--CccchhHHHHhccccccccccccCC
Q 009892 308 MTHICGLTLFWIVFKLPLQVEPEVLEGCEMFCTAYLDAAW-DLTQLIGSS-TF--NDDQRRLSQYAALFLPFRNTTYKDN 383 (523)
Q Consensus 308 L~lL~~~glL~~if~~Pe~~~~~~~~~~~q~~~~h~~tvd-h~l~~l~~~-~~--~~e~~~ll~LAaLlhpi~k~~~~~~ 383 (523)
|+.|+++|+|..+| ||+. .+.++.|++.||.|++| |++.++... .+ ..+.+.+++||+|||||||+. +
T Consensus 348 L~~M~~~GvL~~ll--PE~~---~i~g~~Q~d~yH~ytVDeHTL~~l~~~~~~~~~~~~~~lL~LAALlHDIGKg~---g 419 (693)
T PRK00227 348 IKQMDRHGLWERIV--PEWD---RIRGLMPREPSHIHTIDEHSLNTVANCALETVTVARPDLLLLGALYHDIGKGY---P 419 (693)
T ss_pred HHHHHHcCCHHHHh--HHHH---HHhCCCCCCCCCCCcHHHHHHHHHHHHHHhhhccCccHHHHHHHHHHhhcCCC---C
Confidence 99999999999999 9973 24578899999999999 999988753 11 124567889999999999997 4
Q ss_pred CCCCchhHHHHHHHHhcC---CCCCHHHHHHHHHHHHHHHhhhhhhhcccccccccccccccccCCCcchhhHHHHhHHH
Q 009892 384 KGKKIPVVNYTFRDSLKR---KASDAETVMNIHRVLEKFLSLIPSLVSAEDVKVNDGQWSKELVDVPDASKLRVLTGFLL 460 (523)
Q Consensus 384 ~~h~~~~~a~iare~Lk~---~~~d~~~v~~lv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~R~~~G~~i 460 (523)
++| +.+|+.++++.+++ ++.+.+.|.+||++|..+..+... .+ ..+-..+-.++
T Consensus 420 ~dH-s~~GA~~A~~i~~RLgl~~~~~e~V~~LV~~HL~ms~~Aqr----rD------------------i~dp~~I~~fa 476 (693)
T PRK00227 420 RPH-EQVGAEMVARAARRMGLNLRDRAVVQTLVAEHTTLARIAGR----LD------------------PTSEEAVDKLL 476 (693)
T ss_pred CCh-hHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHhccHhHHhhc----cC------------------CCCHHHHHHHH
Confidence 478 68999999998776 778888999999999765543211 00 11235667777
Q ss_pred HHhc-chhHHHHHH
Q 009892 461 REIK-KFWRVALLI 473 (523)
Q Consensus 461 r~~~-~~W~~~~~~ 473 (523)
+.+| ...++..++
T Consensus 477 ~~vg~~~~~L~lL~ 490 (693)
T PRK00227 477 DAVRYDLLTLNLLE 490 (693)
T ss_pred HHhCCChhhHHHHH
Confidence 7777 555655554
No 14
>PRK03381 PII uridylyl-transferase; Provisional
Probab=99.89 E-value=3.1e-22 Score=228.26 Aligned_cols=178 Identities=13% Similarity=0.012 Sum_probs=147.5
Q ss_pred hhcCceecCCCCCCCCccCHHHHHHHHHHHhhcCCCCcHHHHHHHHhhHHHHHHhccccHHHHHHHHHHhhcCCCH-HHH
Q 009892 229 LKHGKIVTPLPPKATFLDDPLRVLRAIRFGARFDFILDEELKKAAASDEVKAALAAKISRERVGTEIDLMVSGNQP-VKA 307 (523)
Q Consensus 229 L~~g~IR~~~~p~~~F~eDPLRiLRa~RFAarlgf~id~~t~~ai~~~~~~~~l~~~is~ERI~~El~kiL~~~~~-~~~ 307 (523)
+.+|.|.+.. ...|.+||+||||+||||+++||.|+++|+++|+.. ...+.+++.||++.||.|+|.++++ ..+
T Consensus 313 ~~~~~l~~~~--~~~~~~DplRiLRa~rfaa~lgf~I~~~T~~~i~~~---~~~l~~~~~eri~~ef~kiL~~~~~~~~~ 387 (774)
T PRK03381 313 EHAGEVVLAR--DARPARDPGLVLRVAAAAATTGLPIAAATLSRLAAS---APPLPTPWPAEARDDLLVLLGAGPAAVAV 387 (774)
T ss_pred EECCEEEeCC--ccccccCHHHHHHHHHHHHhcCCCcCHHHHHHHHHH---HHhcCccccHHHHHHHHHHHcCCCchHHH
Confidence 5667777653 468999999999999999999999999999999874 4466788999999999999998765 579
Q ss_pred HHHHHHcCchhHHhhCCCCCchhhhhhccccccchhhhHH-HHHHHhhcc-CC--CccchhHHHHhccccccccccccCC
Q 009892 308 MTHICGLTLFWIVFKLPLQVEPEVLEGCEMFCTAYLDAAW-DLTQLIGSS-TF--NDDQRRLSQYAALFLPFRNTTYKDN 383 (523)
Q Consensus 308 L~lL~~~glL~~if~~Pe~~~~~~~~~~~q~~~~h~~tvd-h~l~~l~~~-~~--~~e~~~ll~LAaLlhpi~k~~~~~~ 383 (523)
++.|+++|+|..+| ||+. .+.+..|++.||.|++| |++.++... .+ ....+.+++||+||||+||+..
T Consensus 388 l~~m~~~GvL~~~i--PE~~---~i~~~~Q~~~~H~ytVd~Htl~~l~~~~~~~~~~~~~~lL~lAaLlHDiGKg~~--- 459 (774)
T PRK03381 388 IEALDRTGLWGRLL--PEWE---AVRDLPPRDPVHRWTVDRHLVETAVRAAALTRRVARPDLLLLGALLHDIGKGRG--- 459 (774)
T ss_pred HHHHHHhCCHHHhc--hhHH---HhhCCCCCCCCccChHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCC---
Confidence 99999999999999 9973 24578899999999999 998887643 11 1134567899999999999863
Q ss_pred CCCCchhHHHHHHHHhcC---CCCCHHHHHHHHHHHHHHH
Q 009892 384 KGKKIPVVNYTFRDSLKR---KASDAETVMNIHRVLEKFL 420 (523)
Q Consensus 384 ~~h~~~~~a~iare~Lk~---~~~d~~~v~~lv~~~~~~~ 420 (523)
.+| +.+|+.++++.+++ ++.+.+.|.+||++|..+.
T Consensus 460 ~~H-s~~Ga~~a~~i~~RL~l~~~~~~~v~~LV~~Hl~~~ 498 (774)
T PRK03381 460 GDH-SVVGAELARQIGARLGLSPADVALLSALVRHHLLLP 498 (774)
T ss_pred CCh-HHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHhhhHH
Confidence 478 68999999998886 4566889999999997543
No 15
>PRK00275 glnD PII uridylyl-transferase; Provisional
Probab=99.87 E-value=3.1e-22 Score=231.23 Aligned_cols=188 Identities=11% Similarity=0.010 Sum_probs=156.0
Q ss_pred eecCccccHHHhhcCceecCCCCCCCCccCHHHHHHHHHHHhhcC--CCCcHHHHHHHHhhHHHHHHhccc--cHHHHHH
Q 009892 218 VEDLTGRGIADLKHGKIVTPLPPKATFLDDPLRVLRAIRFGARFD--FILDEELKKAAASDEVKAALAAKI--SRERVGT 293 (523)
Q Consensus 218 i~D~~g~G~~DL~~g~IR~~~~p~~~F~eDPLRiLRa~RFAarlg--f~id~~t~~ai~~~~~~~~l~~~i--s~ERI~~ 293 (523)
..||++ |..|+++|.|+++++ ..|.+||+||||+|||+++.+ ..|+++|+.+|+.. ..++.++ +.+|++.
T Consensus 339 ~~~~~~-~~~~l~~~~i~~~~~--~~f~~dP~riLr~f~~~a~~~~i~~i~~~t~~~i~~~---~~~i~~~~~~~~~~~~ 412 (895)
T PRK00275 339 TIQPLN-SRFQLRDGYIEATHP--NVFKRTPFALLEIFVLMAQHPEIKGVRADTIRLLREH---RHLIDDAFRNDIRNTS 412 (895)
T ss_pred cccccC-CCeEEECCEEEecCh--hhhhcCHHHHHHHHHHHHhCCCcCCCCHHHHHHHHHH---HHhcCchhccCHHHHH
Confidence 467886 889999999999864 579999999999999999964 46779999999875 4455665 6779999
Q ss_pred HHHHhhcCCCH-HHHHHHHHHcCchhHHhhCCCCCchhhhhhccccccchhhhHH-HHHHHhhcc-CCC-----------
Q 009892 294 EIDLMVSGNQP-VKAMTHICGLTLFWIVFKLPLQVEPEVLEGCEMFCTAYLDAAW-DLTQLIGSS-TFN----------- 359 (523)
Q Consensus 294 El~kiL~~~~~-~~~L~lL~~~glL~~if~~Pe~~~~~~~~~~~q~~~~h~~tvd-h~l~~l~~~-~~~----------- 359 (523)
||.+||.++++ ..+|+.|+++|+|..+| ||+. . +.++.|++.||.|+|| |++.++... .+.
T Consensus 413 ~f~~iL~~~~~~~~~l~~M~~~GvL~~~i--Pe~~-~--i~~~~Q~d~yH~ytVdeHtl~~v~~l~~l~~~~~~~~~p~~ 487 (895)
T PRK00275 413 LFIELFKCPIGIHRNLRRMNRYGILGRYL--PEFG-H--IVGQMQHDLFHIYTVDAHTLNLIKNLRKLRYPEVSEKFPLA 487 (895)
T ss_pred HHHHHHcCCCchHHHHHHHHHcCCHHHhC--chHh-h--EeeeccCcccccCcHHHHHHHHHHHHHHhhcccccccCchH
Confidence 99999999874 78899999999999999 9974 2 4588999999999999 999888643 110
Q ss_pred ------ccchhHHHHhccccccccccccCCCCCCchhHHHHHHHHhcC---CCCCHHHHHHHHHHHHHHH
Q 009892 360 ------DDQRRLSQYAALFLPFRNTTYKDNKGKKIPVVNYTFRDSLKR---KASDAETVMNIHRVLEKFL 420 (523)
Q Consensus 360 ------~e~~~ll~LAaLlhpi~k~~~~~~~~h~~~~~a~iare~Lk~---~~~d~~~v~~lv~~~~~~~ 420 (523)
.+.+.+++||+||||+||+. +++| +.+|+.++++.+++ ++.+.+.|.+||++|..+.
T Consensus 488 ~~l~~~l~~~~lL~lAaLlHDIGKg~---~~~H-s~~Ga~~a~~i~~rl~l~~~~~~~v~~LV~~HL~ms 553 (895)
T PRK00275 488 SKLMGRLPKPELLYIAGLYHDIGKGR---GGDH-SELGAVDAEAFCQRHQLPAWDTRLVVWLVENHLLMS 553 (895)
T ss_pred HHHHHhcCCHHHHHHHHHHHhhhcCC---CCCH-HHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHh
Confidence 02345789999999999997 3478 78999999998876 6778889999999997654
No 16
>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=99.86 E-value=7.4e-22 Score=227.99 Aligned_cols=179 Identities=16% Similarity=0.080 Sum_probs=149.2
Q ss_pred hhcCceecCCCCCCCCccCHHHHHHHHHHHhhcCCCCcHHHHHHHHhhHHHHHHhccccH--HHHHHHHHHhhcCC-CHH
Q 009892 229 LKHGKIVTPLPPKATFLDDPLRVLRAIRFGARFDFILDEELKKAAASDEVKAALAAKISR--ERVGTEIDLMVSGN-QPV 305 (523)
Q Consensus 229 L~~g~IR~~~~p~~~F~eDPLRiLRa~RFAarlgf~id~~t~~ai~~~~~~~~l~~~is~--ERI~~El~kiL~~~-~~~ 305 (523)
+.+|.|++.. ...|.+||+||||+||||+++||.|+++|+++|+.. ..++..+++ ||++.||.+||.++ ++.
T Consensus 319 ~~~~~l~~~~--~~~f~eDPlriLR~~rfaa~~~~~i~~~T~~~i~~~---~~~l~~~~~~~er~~~ef~~iL~~~~~~~ 393 (850)
T TIGR01693 319 EDGGELVLAR--TAVFERDPALLLRLFAIAAQRGLPIHPAALRQLTAS---LPLLPTPLREDPEARELFLELLTSGNGTV 393 (850)
T ss_pred EECCEEEecC--ccchhhCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH---HHhcCchhhcCHHHHHHHHHHHcCCCchH
Confidence 7889999874 579999999999999999999999999999999874 445667777 99999999999976 578
Q ss_pred HHHHHHHHcCchhHHhhCCCCCchhhhhhccccccchhhhHH-HHHHHhhcc-CCC-----------------ccchhHH
Q 009892 306 KAMTHICGLTLFWIVFKLPLQVEPEVLEGCEMFCTAYLDAAW-DLTQLIGSS-TFN-----------------DDQRRLS 366 (523)
Q Consensus 306 ~~L~lL~~~glL~~if~~Pe~~~~~~~~~~~q~~~~h~~tvd-h~l~~l~~~-~~~-----------------~e~~~ll 366 (523)
.+|+.|+++|+|..+| ||+. . +.+..|++.||.|+|| |++.++... .+. .+.+.++
T Consensus 394 ~~l~~m~~~gvL~~~i--Pe~~-~--i~~~~Q~~~~H~~tVd~Htl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L 468 (850)
T TIGR01693 394 RALRAMNRAGVLGRFL--PEWG-R--IVGQMQFDLFHVYTVDEHTLRTVVHLAPFARGRLAREHPLASELMPKIEDPELL 468 (850)
T ss_pred HHHHHHHHhCCHHHhC--chHh-h--heeccccCceeecchhHHHHHHHHHHHHHhccccccccccHHHHHhccCCHHHH
Confidence 8999999999999999 9973 2 3477899999999999 998887643 110 0235678
Q ss_pred HHhccccccccccccCCCCCCchhHHHHHHHHhcC---CCCCHHHHHHHHHHHHHHHh
Q 009892 367 QYAALFLPFRNTTYKDNKGKKIPVVNYTFRDSLKR---KASDAETVMNIHRVLEKFLS 421 (523)
Q Consensus 367 ~LAaLlhpi~k~~~~~~~~h~~~~~a~iare~Lk~---~~~d~~~v~~lv~~~~~~~~ 421 (523)
+|||||||+||+.. .+| +.+|+.+++..+++ ++.+.+.|.++|++|..+..
T Consensus 469 ~lAaLlHDiGKg~~---~~H-~~~Ga~~a~~~~~rl~l~~~~~~~v~~LV~~Hl~~~~ 522 (850)
T TIGR01693 469 YLAALLHDIGKGRG---GDH-SVLGAEDARDVCPRLGLDRPDTELVAWLVRNHLLMSI 522 (850)
T ss_pred HHHHHHHHHhcCCC---CCH-HHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhH
Confidence 89999999999863 478 68999999997776 66678899999999976543
No 17
>PRK03059 PII uridylyl-transferase; Provisional
Probab=99.86 E-value=2.3e-21 Score=223.03 Aligned_cols=180 Identities=13% Similarity=0.019 Sum_probs=150.4
Q ss_pred HhhcCceecCCCCCCCCccCHHHHHHHHHHHhhc-C-CCCcHHHHHHHHhhHHHHHHhccc--cHHHHHHHHHHhhcCCC
Q 009892 228 DLKHGKIVTPLPPKATFLDDPLRVLRAIRFGARF-D-FILDEELKKAAASDEVKAALAAKI--SRERVGTEIDLMVSGNQ 303 (523)
Q Consensus 228 DL~~g~IR~~~~p~~~F~eDPLRiLRa~RFAarl-g-f~id~~t~~ai~~~~~~~~l~~~i--s~ERI~~El~kiL~~~~ 303 (523)
.+.+|.|+++. +..|.+||+||||+|||++++ | +.|++.|..+|+.. ..++..+ +.||++.||.+||.+++
T Consensus 328 ~~~~~~i~~~~--~~~f~~dP~riLr~fr~aa~~~~~~~i~~~T~~~i~~~---~~~i~~~~~~~er~~~ef~~iL~~~~ 402 (856)
T PRK03059 328 VEKQGMLEIAS--DDLFERHPHAILEAFLLYQQTPGLKGLSARTLRALYNA---RDVMNAAFRRDPVNRALFMQILQQPR 402 (856)
T ss_pred EEECCEEEecC--chhhhcCHHHHHHHHHHHHhcCCccCcCHHHHHHHHHH---HHhcCcccccCHHHHHHHHHHHcCCC
Confidence 58999999985 357999999999999999999 5 69999999999875 4455666 67999999999999987
Q ss_pred H-HHHHHHHHHcCchhHHhhCCCCCchhhhhhccccccchhhhHH-HHHHHhhcc-CCC-----------------ccch
Q 009892 304 P-VKAMTHICGLTLFWIVFKLPLQVEPEVLEGCEMFCTAYLDAAW-DLTQLIGSS-TFN-----------------DDQR 363 (523)
Q Consensus 304 ~-~~~L~lL~~~glL~~if~~Pe~~~~~~~~~~~q~~~~h~~tvd-h~l~~l~~~-~~~-----------------~e~~ 363 (523)
+ ..+|+.|+++|+|..+| ||+. . +.++.|++.||.|+|| |++.++... .+. .+.+
T Consensus 403 ~~~~~l~~m~~~GlL~~~l--Pe~~-~--i~~~~Q~~~~H~ytVd~Htl~~v~~l~~~~~~~~~~~~p~~~~~~~~~~~~ 477 (856)
T PRK03059 403 GITHALRLMNQTSVLGRYL--PNFR-R--IVGQMQHDLFHVYTVDQHILMVLRNLRRFAMAEHAHEYPFCSQLIANFDRP 477 (856)
T ss_pred chHHHHHHHHHhCCHHHhC--chHh-h--eeeeecccccccCcHhHHHHHHHHHHHHhhccccccccchHHHHHHhcCCh
Confidence 5 78999999999999999 9974 2 3588999999999999 998888643 110 0235
Q ss_pred hHHHHhccccccccccccCCCCCCchhHHHHHHHHhcC---CCCCHHHHHHHHHHHHHHHh
Q 009892 364 RLSQYAALFLPFRNTTYKDNKGKKIPVVNYTFRDSLKR---KASDAETVMNIHRVLEKFLS 421 (523)
Q Consensus 364 ~ll~LAaLlhpi~k~~~~~~~~h~~~~~a~iare~Lk~---~~~d~~~v~~lv~~~~~~~~ 421 (523)
.+++||+||||+||+.. ++| +.+|+.++++.+++ ++.+.+.|.+||++|..+..
T Consensus 478 ~lL~LAaLlHDIGKg~~---~~H-s~~GA~~A~~il~rl~l~~~~~~~V~~LV~~Hl~~~~ 534 (856)
T PRK03059 478 WLLYVAALFHDIAKGRG---GDH-STLGAVDARRFCRQHGLAREDAELVVWLVEHHLTMSQ 534 (856)
T ss_pred hHHHHHHHHHhhccCCC---CCc-hHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhchHhH
Confidence 67899999999999873 478 68999999998776 66778999999999975543
No 18
>PRK05092 PII uridylyl-transferase; Provisional
Probab=99.85 E-value=9.3e-21 Score=220.48 Aligned_cols=176 Identities=14% Similarity=0.105 Sum_probs=142.9
Q ss_pred hhcCceecCCCCCCCCccCHHHHHHHHHHHhhcCCCCcHHHHHHHHhhHHHHHHhcc-----ccHHHHHHHHHHhhcCCC
Q 009892 229 LKHGKIVTPLPPKATFLDDPLRVLRAIRFGARFDFILDEELKKAAASDEVKAALAAK-----ISRERVGTEIDLMVSGNQ 303 (523)
Q Consensus 229 L~~g~IR~~~~p~~~F~eDPLRiLRa~RFAarlgf~id~~t~~ai~~~~~~~~l~~~-----is~ERI~~El~kiL~~~~ 303 (523)
+.+|.|+++. ...|.+||+||||+||||+++||.|+++|+.+|+.. ..++.. .+.+|++.|+. +..++
T Consensus 384 ~~~~~i~~~~--~~~f~edPlriLR~fr~aa~~~~~i~~~T~~~i~~~---~~~i~~~~~~~~~~~r~f~eil--~~~~~ 456 (931)
T PRK05092 384 VDNGRINLAD--PDVFERDPVNLIRLFHLADRHGLDIHPDAMRLVTRS---LRLIDAALREDPEANRLFLDIL--TSRRN 456 (931)
T ss_pred EECCEEEecC--hhhhhhCHHHHHHHHHHHHhcCCCCCHHHHHHHHHH---HHhcChhhccCHHHHHHHHHHH--cCCCc
Confidence 5788999874 478999999999999999999999999999999875 223333 46688887763 44557
Q ss_pred HHHHHHHHHHcCchhHHhhCCCCCchhhhhhccccccchhhhHH-HHHHHhhcc-CCC-----------------ccchh
Q 009892 304 PVKAMTHICGLTLFWIVFKLPLQVEPEVLEGCEMFCTAYLDAAW-DLTQLIGSS-TFN-----------------DDQRR 364 (523)
Q Consensus 304 ~~~~L~lL~~~glL~~if~~Pe~~~~~~~~~~~q~~~~h~~tvd-h~l~~l~~~-~~~-----------------~e~~~ 364 (523)
+..+|+.|+++|+|..+| ||+. .+.+..|++.||.|+|| |++.++... .+. .+.+.
T Consensus 457 ~~~~l~~m~~~GvL~~~i--Pef~---~i~~~~Q~d~~H~ytVd~Htl~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~ 531 (931)
T PRK05092 457 PERVLRRMNEAGVLGRFI--PDFG---RIVAMMQFNMYHHYTVDEHTIRAIGVLAEIERGELADEHPLASELMPKIESRR 531 (931)
T ss_pred hHHHHHHHHHhCChHHhc--ccHH---hcccccccccceeccHhHHHHHHHHHHHHHhcccccccchhHHHHHHhcCCHH
Confidence 899999999999999999 9974 24578899999999999 998887643 110 13356
Q ss_pred HHHHhccccccccccccCCCCCCchhHHHHHHHHhcC---CCCCHHHHHHHHHHHHHHH
Q 009892 365 LSQYAALFLPFRNTTYKDNKGKKIPVVNYTFRDSLKR---KASDAETVMNIHRVLEKFL 420 (523)
Q Consensus 365 ll~LAaLlhpi~k~~~~~~~~h~~~~~a~iare~Lk~---~~~d~~~v~~lv~~~~~~~ 420 (523)
+++||+||||+||+. +++| +.+|+.++++.+++ ++.+.+.|.|||++|..+.
T Consensus 532 ~L~lAaLlHDIGKg~---~~dH-s~~Ga~~a~~~~~rl~l~~~~~~~v~~LV~~Hl~ms 586 (931)
T PRK05092 532 ALYVAVLLHDIAKGR---PEDH-SIAGARIARRLCPRLGLSPAETETVAWLVEHHLLMS 586 (931)
T ss_pred HHHHHHHHHHhhcCC---CCCH-HHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhHHh
Confidence 789999999999987 3478 68999999997776 7788899999999997544
No 19
>PRK01759 glnD PII uridylyl-transferase; Provisional
Probab=99.84 E-value=2.5e-20 Score=214.67 Aligned_cols=181 Identities=12% Similarity=0.074 Sum_probs=145.6
Q ss_pred HhhcCceecCCCCCCCCccCHHHHHHHHHHHhhc-CCCCcHHHHHHHHhh-HHHHHHhccccHHHHHHHHHHhhcCCCH-
Q 009892 228 DLKHGKIVTPLPPKATFLDDPLRVLRAIRFGARF-DFILDEELKKAAASD-EVKAALAAKISRERVGTEIDLMVSGNQP- 304 (523)
Q Consensus 228 DL~~g~IR~~~~p~~~F~eDPLRiLRa~RFAarl-gf~id~~t~~ai~~~-~~~~~l~~~is~ERI~~El~kiL~~~~~- 304 (523)
.+.+|.|.+.. +..|.+||+||||+|||++++ ||.|+++|+++++.. ......+..++.|| .||.+||.++++
T Consensus 325 ~~~~~~i~~~~--~~~f~~dp~riLr~fr~~a~~~~~~i~~~t~~~i~~~~~~~~~~l~~~~~eR--~ef~kiL~~~~~~ 400 (854)
T PRK01759 325 YLINNAICLRN--PDCFEQQPESILDLFFYLTQYPQAEIHSTTLRQLRLALEQLQQPLCELPAAR--ERFLRLFNQPNAI 400 (854)
T ss_pred EEECCEEEecC--hhhhhhCHHHHHHHHHHHHHCCCCCcCHHHHHHHHHHHHhccchhccCHHHH--HHHHHHHcCCCch
Confidence 47788888763 479999999999999999999 699999999988753 00122233567777 899999999875
Q ss_pred HHHHHHHHHcCchhHHhhCCCCCchhhhhhccccccchhhhHH-HHHHHhhcc-CC-----------------CccchhH
Q 009892 305 VKAMTHICGLTLFWIVFKLPLQVEPEVLEGCEMFCTAYLDAAW-DLTQLIGSS-TF-----------------NDDQRRL 365 (523)
Q Consensus 305 ~~~L~lL~~~glL~~if~~Pe~~~~~~~~~~~q~~~~h~~tvd-h~l~~l~~~-~~-----------------~~e~~~l 365 (523)
..+|+.|+++|+|..+| ||+. . +.++.|++.||.|+|| |++.++... .+ ..+.+.+
T Consensus 401 ~~~l~~M~~~GvL~~~i--Pe~~-~--i~~~~Q~d~yH~ytVd~Htl~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~ 475 (854)
T PRK01759 401 KRALVPMHQYGVLTAYL--PQWK-G--IVGLMQFDLFHIYTVDEHTLRVMLKLESFLDEESAEQHPICHQIFSQLSDRTL 475 (854)
T ss_pred HHHHHHHHHhCCHHHhC--hHHH-h--eeeccCCcccccCcHHHHHHHHHHHHHHHhcccccccchhHHHHHHhcCCHHH
Confidence 78999999999999999 9974 2 4578899999999999 998887643 11 0134567
Q ss_pred HHHhccccccccccccCCCCCCchhHHHHHHHHhcC---CCCCHHHHHHHHHHHHHHHh
Q 009892 366 SQYAALFLPFRNTTYKDNKGKKIPVVNYTFRDSLKR---KASDAETVMNIHRVLEKFLS 421 (523)
Q Consensus 366 l~LAaLlhpi~k~~~~~~~~h~~~~~a~iare~Lk~---~~~d~~~v~~lv~~~~~~~~ 421 (523)
++||+||||+||+. +++| +.+|+.++++.+++ ++.+.+.|.+||++|..+..
T Consensus 476 L~lAaLlHDIGKG~---~~dH-s~~Ga~~a~~i~~rl~l~~~~~~~v~~LV~~Hl~ms~ 530 (854)
T PRK01759 476 LYIAALFHDIAKGR---GGDH-AELGAVDMRQFAQQHGFDQREIETMAWLVQQHLLMSV 530 (854)
T ss_pred HHHHHHHHhhcCCC---CCCh-hHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhhHHHH
Confidence 88999999999987 3478 68999999997775 67888999999999976543
No 20
>PRK05007 PII uridylyl-transferase; Provisional
Probab=99.79 E-value=1e-18 Score=201.99 Aligned_cols=182 Identities=12% Similarity=0.008 Sum_probs=145.7
Q ss_pred cHHHhhcCceecCCCCCCCCccCHHHHHHHHHHHhhcC--CCCcHHHHHHHHhhHHHHHHhc-cc-cHHHHHHHHHHhhc
Q 009892 225 GIADLKHGKIVTPLPPKATFLDDPLRVLRAIRFGARFD--FILDEELKKAAASDEVKAALAA-KI-SRERVGTEIDLMVS 300 (523)
Q Consensus 225 G~~DL~~g~IR~~~~p~~~F~eDPLRiLRa~RFAarlg--f~id~~t~~ai~~~~~~~~l~~-~i-s~ERI~~El~kiL~ 300 (523)
|+ -+.+|+|+++++ ..|.+||+||||+|||+++.+ ..|+++|+++|+.. ..++. .. ..++++.||.+||.
T Consensus 347 ~f-~~~~~~i~~~~~--~~f~~dp~~iLr~f~~aa~~~~i~~i~~~t~~~i~~~---~~~i~~~~~~~~~~~~~f~~iL~ 420 (884)
T PRK05007 347 EF-QLRGTLIDLRDE--TLFQRQPEAILRMFYLMARNSNITGIYSTTLRQLRHA---RRHLNQPLCEIPEARKLFMEILR 420 (884)
T ss_pred Ce-EEECCEEeecCh--hhhhhCHHHHHHHHHHHHhCCCcCCCCHHHHHHHHHH---HHhcCcccccCHHHHHHHHHHHc
Confidence 44 467888999864 469999999999999999965 35779999999874 23333 12 34569999999999
Q ss_pred CCCHH-HHHHHHHHcCchhHHhhCCCCCchhhhhhccccccchhhhHH-HHHHHhhccC-CC-----------------c
Q 009892 301 GNQPV-KAMTHICGLTLFWIVFKLPLQVEPEVLEGCEMFCTAYLDAAW-DLTQLIGSST-FN-----------------D 360 (523)
Q Consensus 301 ~~~~~-~~L~lL~~~glL~~if~~Pe~~~~~~~~~~~q~~~~h~~tvd-h~l~~l~~~~-~~-----------------~ 360 (523)
++++. .+|+.|+++|+|..+| ||+. . +.++.|++.||.|+|| |++.++.... +. .
T Consensus 421 ~~~~~~~~l~~m~~~GlL~~~i--Pe~~-~--i~~~~Q~d~~H~ytVd~Htl~~l~~l~~~~~~~~~~~~~~~~~~~~~~ 495 (884)
T PRK05007 421 HPGAVSRALLPMHRHSVLSAYM--PQWS-H--IVGQMQFDLFHAYTVDEHTIRVLLKLESFADEETRQRHPLCVELYPRL 495 (884)
T ss_pred CCCchHHHHHHHHHhCCHHHhC--chHh-h--eeeccccCccccCcHhHHHHHHHHHHHHHhcccccccchHHHHHHHhc
Confidence 98886 5999999999999999 9974 2 3488999999999999 9998886531 10 1
Q ss_pred cchhHHHHhccccccccccccCCCCCCchhHHHHHHHHhcC---CCCCHHHHHHHHHHHHHHHh
Q 009892 361 DQRRLSQYAALFLPFRNTTYKDNKGKKIPVVNYTFRDSLKR---KASDAETVMNIHRVLEKFLS 421 (523)
Q Consensus 361 e~~~ll~LAaLlhpi~k~~~~~~~~h~~~~~a~iare~Lk~---~~~d~~~v~~lv~~~~~~~~ 421 (523)
+.+.+++||+||||+||+. +++| +.+|+.++++.+++ ++.+.+.|.+||++|..+..
T Consensus 496 ~~~~lL~lAaLlHDIGKg~---~~dH-s~~Ga~~a~~il~rl~l~~~~~~~v~~LV~~Hl~~~~ 555 (884)
T PRK05007 496 PKKELLLLAALFHDIAKGR---GGDH-SILGAQDALEFAELHGLNSRETQLVAWLVRNHLLMSV 555 (884)
T ss_pred CChhHHHHHHHHHhhcCCC---CCCh-HHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhhH
Confidence 3456789999999999987 3478 78999999998876 66778889999999976543
No 21
>PHA01806 hypothetical protein
Probab=99.78 E-value=8.6e-19 Score=164.54 Aligned_cols=108 Identities=23% Similarity=0.214 Sum_probs=69.3
Q ss_pred CCCeEEEEchHHHHHHcCCCCCCeEEEEcCCChHHHHHHHHHHHHhcCCcc---CCceE-EecCCCCCCcceeeE----E
Q 009892 92 LETVLRVAGGWVRDKLLGKDCYDIDIALDNMMGSEFATKVAEYLSATGETA---PSGFG-VIPSNPDQSKHLETA----T 163 (523)
Q Consensus 92 ~~~~~yiVGG~VRD~LLg~~~~DiDi~~~~~~~~~f~~~l~~~l~~~g~~~---~~~~~-vi~~n~~~~k~~~t~----~ 163 (523)
.+.++|+|||||||+|||++|+|+||++.+..++++.. +.+.+...+-.. .++.. -...+.+..-..+.+ .
T Consensus 34 ~g~~aYlVGG~VRD~Llgr~~kDiDivt~~~~pe~v~~-L~~klG~k~V~~~~~~ggwr~~~~~~gd~~~~~~~~~l~g~ 112 (200)
T PHA01806 34 HSEGVALAGGAARDLMHGAEPKDIDIALYGMDDRQAEL-LIGCILPKLVSRFLRDGGWSQEYHDGGDGGIFKGVVSLKGC 112 (200)
T ss_pred CCcEEEEECchHHHHHcCCCCCceEEEccCCCHHHHHH-HHHHhCCcccccccccceeeeeccccccccccccceeeeee
Confidence 36889999999999999999999999998888876644 443322111000 00000 000011111111111 1
Q ss_pred EEEcCeEEEeeecccccccCCCCCcccccCCHHHHHhcCCCCcc--ceeeecC
Q 009892 164 MKLYDLWIDFVNLRCEDYSENSRIPTMRFGTAEEDAYRRDLTIN--SLFYNIN 214 (523)
Q Consensus 164 ~~~~g~~iD~~~~R~e~y~~~~r~p~v~~gt~~eDl~RRDFTIN--Ala~~l~ 214 (523)
..+.|..|||+..++ .++++||.||||||| ||||++.
T Consensus 113 ~vl~g~tvD~A~~~g--------------~sleeDL~rRDFTINq~AIA~~~~ 151 (200)
T PHA01806 113 RGLEGMDVDFNYYDT--------------DSVGEVMESFDYTINQVGIAYNWP 151 (200)
T ss_pred EEeCCeEEEeeeccC--------------CCHHHHHHHcCCccchhhhcccCC
Confidence 345688999998764 379999999999999 8889875
No 22
>PRK04374 PII uridylyl-transferase; Provisional
Probab=99.75 E-value=1.7e-17 Score=191.06 Aligned_cols=180 Identities=13% Similarity=0.057 Sum_probs=145.9
Q ss_pred hhcCceecCCCCCCCCccCHHHHHHHHHHHhhcC--CCCcHHHHHHHHhhHHHHHHhcc--ccHHHHHHHHHHhhcCCCH
Q 009892 229 LKHGKIVTPLPPKATFLDDPLRVLRAIRFGARFD--FILDEELKKAAASDEVKAALAAK--ISRERVGTEIDLMVSGNQP 304 (523)
Q Consensus 229 L~~g~IR~~~~p~~~F~eDPLRiLRa~RFAarlg--f~id~~t~~ai~~~~~~~~l~~~--is~ERI~~El~kiL~~~~~ 304 (523)
+.+|.|... .+..|.+||.+|||+|..+++.+ ..|++.|+.+++.. ..++.. ...+|++.||.+||.++++
T Consensus 339 ~~~~~i~~~--~~~~f~~~P~~il~lf~~~~~~~~~~~i~~~t~r~l~~~---~~~l~~~~~~~~ri~~ef~kiL~~~~~ 413 (869)
T PRK04374 339 LRRGYLAAD--ADSWPDGDVLQVFALFAQWAAHREVRGLHSLTARALAEV---LRDLPAYDVADATARERFMALLRGPRA 413 (869)
T ss_pred EECCEEeec--CcccchhCHHHHHHHHHHHHhCCCcCCCCHHHHHHHHHH---HHhcCccccCCHHHHHHHHHHHcCCCh
Confidence 445566553 24799999999999999999999 89999999999864 223332 2577999999999999999
Q ss_pred HHHHHHHHHcCchhHHhhCCCCCchhhhhhccccccchhhhHH-HHHHHhhccC-CC-----------------ccchhH
Q 009892 305 VKAMTHICGLTLFWIVFKLPLQVEPEVLEGCEMFCTAYLDAAW-DLTQLIGSST-FN-----------------DDQRRL 365 (523)
Q Consensus 305 ~~~L~lL~~~glL~~if~~Pe~~~~~~~~~~~q~~~~h~~tvd-h~l~~l~~~~-~~-----------------~e~~~l 365 (523)
..+|+.|+++|+|..+| ||+. .+.++.|++.||.|+|| |++.++.... +. .+.+.+
T Consensus 414 ~~~l~~m~~~GvL~~~l--PE~~---~i~~~~Q~d~yH~ytVd~Htl~~l~~l~~~~~~~~~~~~~~~~~~~~~l~~~~l 488 (869)
T PRK04374 414 VETLNRMARLGVLGQWI--PAFA---SVSGRMQFDLFHVYTVDQHTLMVLRNIALFAAGRADERFSIAHEVWPRLRKPEL 488 (869)
T ss_pred hHHHHHHHHhCCHHHHh--hhHH---HHhccccccCccCCcHHHHHHHHHHHHHHHhccccccccccHHHHHhccCCccH
Confidence 99999999999999999 9973 24588999999999999 9988876431 10 123567
Q ss_pred HHHhccccccccccccCCCCCCchhHHHHHHHHhcC---CCCCHHHHHHHHHHHHHHHhh
Q 009892 366 SQYAALFLPFRNTTYKDNKGKKIPVVNYTFRDSLKR---KASDAETVMNIHRVLEKFLSL 422 (523)
Q Consensus 366 l~LAaLlhpi~k~~~~~~~~h~~~~~a~iare~Lk~---~~~d~~~v~~lv~~~~~~~~~ 422 (523)
++||+||||+||+. +++| +.+|+.++++.+++ ++.+.+.|.+||++|..+..+
T Consensus 489 L~lAaLlHDIGKg~---~~dH-s~~Ga~~a~~i~~Rl~l~~~~~~~v~~LV~~Hl~m~~~ 544 (869)
T PRK04374 489 LLLAGLFHDIAKGR---GGDH-SELGAVDARAFCLAHRLSEGDTELVTWLVEQHLRMSVT 544 (869)
T ss_pred HHHHHHHHhccCCC---CCCh-HHHhHHHHHHHHHHcCCCHHHHHHHHHHHHHhhhHHHH
Confidence 89999999999997 3478 78999999998886 667788899999999765543
No 23
>COG2844 GlnD UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=99.74 E-value=2e-17 Score=182.83 Aligned_cols=179 Identities=13% Similarity=0.069 Sum_probs=143.7
Q ss_pred hhcCceecCCCCCCCCccCHHHHHHHHHHHhhcCCCC-cHHHHHHHHhhHHHHHHhc-cc-cHHHHHHHHHHhhcCC-CH
Q 009892 229 LKHGKIVTPLPPKATFLDDPLRVLRAIRFGARFDFIL-DEELKKAAASDEVKAALAA-KI-SRERVGTEIDLMVSGN-QP 304 (523)
Q Consensus 229 L~~g~IR~~~~p~~~F~eDPLRiLRa~RFAarlgf~i-d~~t~~ai~~~~~~~~l~~-~i-s~ERI~~El~kiL~~~-~~ 304 (523)
..+|.|.... +.-|..||..|||.|-.+++.|... +++|+.++... ..++. .+ ..+....-|..||+.+ ++
T Consensus 336 ~~~g~I~l~~--~~~f~~dP~~ilrlf~~~~~~~~~~~~~~Tlr~L~~a---~~~l~~~l~~~peA~~~Fl~il~~~~~~ 410 (867)
T COG2844 336 ERNGRIELRD--PDLFERDPEAILRLFAIMAQTGLITGHPDTLRQLRRA---LRLLNQPLREDPEARRLFLSILRSPNAI 410 (867)
T ss_pred eeCCEEEecC--chhhhhChHHHHHHHHHHHhcCCcccchHHHHHHHHh---ccccCcccccCHHHHHHHHHHHhCCCcH
Confidence 3567777653 4689999999999999999999888 79999988753 22222 22 2345666777888766 56
Q ss_pred HHHHHHHHHcCchhHHhhCCCCCchhhhhhccccccchhhhHH-HHHHHhhcc-CC-----------------CccchhH
Q 009892 305 VKAMTHICGLTLFWIVFKLPLQVEPEVLEGCEMFCTAYLDAAW-DLTQLIGSS-TF-----------------NDDQRRL 365 (523)
Q Consensus 305 ~~~L~lL~~~glL~~if~~Pe~~~~~~~~~~~q~~~~h~~tvd-h~l~~l~~~-~~-----------------~~e~~~l 365 (523)
.++|+.|+++|+|+.++ |++. + +.+.+|+++||.|||| |++.++... .+ .-+.+.+
T Consensus 411 ~r~l~~Mn~~GVLgryl--Pew~-~--Ivg~MQfdlfH~YTVDeH~lr~v~~l~~~a~~~~~~~hPl~~~l~~~~~~~el 485 (867)
T COG2844 411 RRTLRPMNRYGVLGRYL--PEWG-K--IVGLMQFDLFHIYTVDEHTLRVVLKLARFARGEARHEHPLASQLMPRLEKREL 485 (867)
T ss_pred HHHHHHHHHhhhHHHhc--ccHH-h--hhcccccCcceecchhHHHHHHHHHHHHhhcccccccCccHHhhccCCCChhH
Confidence 89999999999999999 9983 4 4599999999999999 999887643 11 1145689
Q ss_pred HHHhccccccccccccCCCCCCchhHHHHHHHHhcC---CCCCHHHHHHHHHHHHHHHh
Q 009892 366 SQYAALFLPFRNTTYKDNKGKKIPVVNYTFRDSLKR---KASDAETVMNIHRVLEKFLS 421 (523)
Q Consensus 366 l~LAaLlhpi~k~~~~~~~~h~~~~~a~iare~Lk~---~~~d~~~v~~lv~~~~~~~~ 421 (523)
+++|||||||+||+ +++| +.+|+.+++..+.+ ...+.++|+|||++|..+..
T Consensus 486 LylAaLfHDIaKGR---ggDH-s~lGA~~a~~fc~~hGL~~~e~~lvaWLVe~HLlMS~ 540 (867)
T COG2844 486 LYLAALFHDIAKGR---GGDH-SILGAEDARRFCERHGLNSRETELVAWLVENHLLMSV 540 (867)
T ss_pred HHHHHHHHHhhcCC---CCch-HHhhHHHHHHHHHHcCCCHHHhHHHHHHHHHHHHhHH
Confidence 99999999999999 4588 78999999998875 77999999999999986543
No 24
>PF12627 PolyA_pol_RNAbd: Probable RNA and SrmB- binding site of polymerase A; PDB: 1OU5_B 3H38_A 3H3A_B 3H39_B 3H37_A 3AQN_A 3AQK_A 3AQM_B 3AQL_B 1MIY_A ....
Probab=99.10 E-value=1.2e-10 Score=92.16 Aligned_cols=60 Identities=30% Similarity=0.491 Sum_probs=53.0
Q ss_pred CCCCcHHHHHHHHhhHHHHHHhccccHHHHHHHHHHhhcCCCHHHHHHHHHHcCchhHHhhCCCC
Q 009892 262 DFILDEELKKAAASDEVKAALAAKISRERVGTEIDLMVSGNQPVKAMTHICGLTLFWIVFKLPLQ 326 (523)
Q Consensus 262 gf~id~~t~~ai~~~~~~~~l~~~is~ERI~~El~kiL~~~~~~~~L~lL~~~glL~~if~~Pe~ 326 (523)
||+|+++|.++|++. ..++.++|+|||+.|+.|||.++++..+++.|+++|++..+| |+.
T Consensus 1 gF~ie~~t~~ai~~~---~~~L~~is~ERi~~El~kil~~~~~~~~~~~l~~~gll~~if--P~l 60 (64)
T PF12627_consen 1 GFKIEPETEEAIKEN---AELLSKISKERIREELEKILSSPNPSRAFKLLDELGLLEYIF--PEL 60 (64)
T ss_dssp T-EE-HHHHHHHHHH---GGGGGGS-HHHHHHHHHHHHTSTTHHHHHHHHHHTTCHHHHS--TTH
T ss_pred CCccCHHHHHHHHHH---HHHHhcCCHHHHHHHHHHHHcCCCHHHHHHHHHHcCCHHHHC--ccc
Confidence 899999999999975 457789999999999999999999999999999999999999 884
No 25
>cd07749 NT_Pol-beta-like_1 Nucleotidyltransferase (NT) domain of an uncharacterized subgroup of the Pol beta-like NT superfamily. The Pol beta-like NT superfamily includes DNA polymerase beta and other family X DNA Polymerases, as well as 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, Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins. Proteins belonging to this subgroup are uncharacterized. 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 essential for catalysis. These divalent metal ions are involved in a two-metal ion mechanism of nucleotide addition. These carboxylate residues are conserved in this subgroup.
Probab=94.32 E-value=0.28 Score=45.90 Aligned_cols=71 Identities=20% Similarity=0.230 Sum_probs=44.6
Q ss_pred CeEEEEchHHHHHHcCCC--CCCeEEEEcCCChHHHHHHHHHHHHhcCCccCCceEEecCCCCCCcceeeEEEEEcCeEE
Q 009892 94 TVLRVAGGWVRDKLLGKD--CYDIDIALDNMMGSEFATKVAEYLSATGETAPSGFGVIPSNPDQSKHLETATMKLYDLWI 171 (523)
Q Consensus 94 ~~~yiVGG~VRD~LLg~~--~~DiDi~~~~~~~~~f~~~l~~~l~~~g~~~~~~~~vi~~n~~~~k~~~t~~~~~~g~~i 171 (523)
...|.+||.+.=.+-|.+ |+||||-|+....++..+.|.++. .+.+. .....-..++|+- +.+.|..|
T Consensus 17 ~i~W~lgGS~~L~l~Gl~~~p~DIDI~~D~~d~e~i~~il~~~~----~~~~~----~~~~~~~ts~F~e--~~I~gv~V 86 (156)
T cd07749 17 NVNWALTGSLSFALQGVPVEPHDIDIQTDNEGAYEIERIFHEFV----NTEVR----FSESEGIRSHFGE--LQIDGIKV 86 (156)
T ss_pred CceEEehhhHHHHHcCCCCCCCcceEEEchhhHHHHHHHHHHhc----cCCCc----cCCCCceeeeeeE--EEECCEEE
Confidence 446999999999999974 899999999876555555555543 22210 0000111245543 45678888
Q ss_pred Eee
Q 009892 172 DFV 174 (523)
Q Consensus 172 D~~ 174 (523)
|+.
T Consensus 87 dvm 89 (156)
T cd07749 87 EIM 89 (156)
T ss_pred EEe
Confidence 875
No 26
>PF06042 DUF925: Bacterial protein of unknown function (DUF925); InterPro: IPR009267 This entry consists of several hypothetical bacterial proteins of unknown function.; PDB: 2LA3_A.
Probab=93.62 E-value=0.66 Score=43.83 Aligned_cols=116 Identities=22% Similarity=0.195 Sum_probs=56.8
Q ss_pred HHHHhcCCCCeEEEEchHHHHHH----cCCCC----CCeEEEEcCC--ChHHHHHHHHHHHHhcCCccCCceEEecCCCC
Q 009892 85 NTLRHFNLETVLRVAGGWVRDKL----LGKDC----YDIDIALDNM--MGSEFATKVAEYLSATGETAPSGFGVIPSNPD 154 (523)
Q Consensus 85 ~~~~~~~~~~~~yiVGG~VRD~L----Lg~~~----~DiDi~~~~~--~~~~f~~~l~~~l~~~g~~~~~~~~vi~~n~~ 154 (523)
+.+++.+.. ..||++|+||..+ -|+++ +|||++--.. ...+--..+.+.+...-.
T Consensus 2 ~~~~~L~Lp-d~~l~AG~vrn~VWn~L~g~~~~~~i~DiDviYfD~~d~s~e~e~~~e~~l~~~~p-------------- 66 (163)
T PF06042_consen 2 EIVRSLGLP-DWWLAAGFVRNTVWNHLHGRPPSTPINDIDVIYFDPSDLSYEAEDAIEARLRALFP-------------- 66 (163)
T ss_dssp HHHHHT--S-S-EEETHHHHHHHHGGGTTS-TT---SEEEEEE--T-TS-HHHHHHHHHHHHHH-T--------------
T ss_pred chHhhCCCC-ceEeehhhHHHHHHHHhcCCCCCCCCCceeEEEeCCCCCCHHHHHHHHHHHHHhCC--------------
Confidence 445555543 5799999999765 56665 8999987432 222222233333332211
Q ss_pred CCcceeeEEEEEcCeEEEeeec-ccccccCCCCCcc-cccCCHHHHHhcCCC-CccceeeecC-CC--ceecCccccHHH
Q 009892 155 QSKHLETATMKLYDLWIDFVNL-RCEDYSENSRIPT-MRFGTAEEDAYRRDL-TINSLFYNIN-TS--SVEDLTGRGIAD 228 (523)
Q Consensus 155 ~~k~~~t~~~~~~g~~iD~~~~-R~e~y~~~~r~p~-v~~gt~~eDl~RRDF-TINAla~~l~-~~--~i~D~~g~G~~D 228 (523)
++.+|+.|- |-.. +++. -.+ +--+|+..+-- |--|++..++ .| +|+=|+ |++|
T Consensus 67 -------------~~~weVkNQArmHl-----~~~~~~py-~S~~dAi~~wpe~~Tavgvrl~~~~~~~l~AP~--GL~d 125 (163)
T PF06042_consen 67 -------------GYPWEVKNQARMHL-----WNGDKPPY-TSTEDAISRWPETATAVGVRLNEDGQLELYAPF--GLDD 125 (163)
T ss_dssp -------------TSEEEEEESTTTTS-----SSSS-----SSHHHHHTTSSSTTTS-EEE--TTS--EEE-TT---THH
T ss_pred -------------CCCEEEEeeeeeee-----ecCCCCCc-ccHHHHHHhcchhheEEEEEECCCCcEEEEccc--ChHH
Confidence 112222221 1111 1111 111 23567777774 7889998887 33 577887 8999
Q ss_pred hhcCceec
Q 009892 229 LKHGKIVT 236 (523)
Q Consensus 229 L~~g~IR~ 236 (523)
|-+++||.
T Consensus 126 lf~~~vrp 133 (163)
T PF06042_consen 126 LFALRVRP 133 (163)
T ss_dssp HHTTEE--
T ss_pred HhCCEEee
Confidence 99999995
No 27
>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=93.42 E-value=0.84 Score=39.68 Aligned_cols=89 Identities=18% Similarity=0.191 Sum_probs=58.4
Q ss_pred HHHHHHHHHHHHhcCCCCeEEEEchHHHHHHcCCCCCCeEEEEcCCC----hHHHHHHHHHHHHhcCCccCCceEEecCC
Q 009892 77 TKIFSCLLNTLRHFNLETVLRVAGGWVRDKLLGKDCYDIDIALDNMM----GSEFATKVAEYLSATGETAPSGFGVIPSN 152 (523)
Q Consensus 77 ~~i~~~l~~~~~~~~~~~~~yiVGG~VRD~LLg~~~~DiDi~~~~~~----~~~f~~~l~~~l~~~g~~~~~~~~vi~~n 152 (523)
+++++.+.+.+++.....++|+.|-++...- .+..|+|+++.... ..++...+.+.+...+.. ..+..+.
T Consensus 3 ~~i~~~l~~~i~~~~~~~~v~~fGS~~~g~~--~~~SDiDl~i~~~~~~~~~~~~l~~l~~~l~~~~~~--~~~~~i~-- 76 (114)
T cd05402 3 EEVLDRLQELIKEWFPGAKLYPFGSYVTGLG--LPGSDIDLCLLGPNHRVDREDFLRKLAKLLKKSGEV--VEVEPII-- 76 (114)
T ss_pred HHHHHHHHHHHHHHCCCCEEEEecccccCCC--CCCCCeeEEEEeCCCCccHHHHHHHHHHHHHhCCCc--eeeEEec--
Confidence 5678888888888766789999999999764 45679999997653 355666677777654421 1222221
Q ss_pred CCCCcceeeEEEEEc--CeEEEee
Q 009892 153 PDQSKHLETATMKLY--DLWIDFV 174 (523)
Q Consensus 153 ~~~~k~~~t~~~~~~--g~~iD~~ 174 (523)
....-..++... |+.+|++
T Consensus 77 ---~ArVPiik~~~~~~~i~~Dis 97 (114)
T cd05402 77 ---NARVPIIKFVDKPTGIEVDIS 97 (114)
T ss_pred ---cCCCCEEEEEEcCCCeEEEEE
Confidence 112234555555 7778876
No 28
>COG3575 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=91.67 E-value=2.2 Score=40.59 Aligned_cols=126 Identities=24% Similarity=0.316 Sum_probs=64.9
Q ss_pred HHHHHHHHhcCCCCeEEEEchHHHHHH----cCCC----CCCeEEEEcC--CChHHHHHHHHHHHHhcCCccCCceEEec
Q 009892 81 SCLLNTLRHFNLETVLRVAGGWVRDKL----LGKD----CYDIDIALDN--MMGSEFATKVAEYLSATGETAPSGFGVIP 150 (523)
Q Consensus 81 ~~l~~~~~~~~~~~~~yiVGG~VRD~L----Lg~~----~~DiDi~~~~--~~~~~f~~~l~~~l~~~g~~~~~~~~vi~ 150 (523)
-.+++++...|.. ..||++|+||... -|+. .+|||++.-. ..-.+-...+.+.+...-...+--+-|
T Consensus 18 ~~~L~~v~~L~LP-~~~laaGsV~n~VWn~l~gn~~~~~ikDiDv~yFD~~dls~e~e~~~~kkl~~~f~~~~~~~ev-- 94 (184)
T COG3575 18 MAILDTVRQLGLP-DWWLAAGSVRNTVWNHLFGNNPMTGIKDIDVIYFDDADLSYEAEAALEKKLAEQFPQLRYPWEV-- 94 (184)
T ss_pred HHHHHHHHHcCCc-hhhhhhhHHHHHHHHHhcCCCCCCCcccceEEEecCcccChHHHHHHHHHHHHhccCCCCceee--
Confidence 3455666666654 3699999999654 5665 4899998632 222222222333332211110000000
Q ss_pred CCCCCCcceeeEEEEEcCeEEEeeecccccccCCCCCcccccCCHHHHHhcCCCCccceeeecCC-C--ceecCccccHH
Q 009892 151 SNPDQSKHLETATMKLYDLWIDFVNLRCEDYSENSRIPTMRFGTAEEDAYRRDLTINSLFYNINT-S--SVEDLTGRGIA 227 (523)
Q Consensus 151 ~n~~~~k~~~t~~~~~~g~~iD~~~~R~e~y~~~~r~p~v~~gt~~eDl~RRDFTINAla~~l~~-~--~i~D~~g~G~~ 227 (523)
| .-++|.+- .++..| +.+-++-..+==-|.-|+...++. | +++-|+ |++
T Consensus 95 ------k--NQArmHlw---------------~~~~~~---ytst~~ais~w~~~~taVGvRl~~~g~~E~~aPy--GLe 146 (184)
T COG3575 95 ------K--NQARMHLW---------------SNGKFP---YTSTEEAISYWLETATAVGVRLNAQGQIELFAPY--GLE 146 (184)
T ss_pred ------e--cceeeeee---------------cCCCCC---cccHHHHHHHHHhhheeEEEEecCCCcEEEEecc--CHH
Confidence 0 12222211 122222 233444444444667777765543 4 566777 899
Q ss_pred HhhcCceecC
Q 009892 228 DLKHGKIVTP 237 (523)
Q Consensus 228 DL~~g~IR~~ 237 (523)
||-+|.||..
T Consensus 147 dlfa~~irpn 156 (184)
T COG3575 147 DLFAGTIRPN 156 (184)
T ss_pred HHhhceeecC
Confidence 9999999953
No 29
>PF10706 Aminoglyc_resit: Aminoglycoside-2''-adenylyltransferase; InterPro: IPR019646 Aminoglycoside-2''-adenylyltransferase is conserved in Bacteria. It confers resistance to kanamycin, gentamicin, and tobramycin []. The protein is also produced by plasmids in various bacterial species and confers resistance to essentially all clinically available aminoglycosides except streptomycin, and it eliminates the synergism between aminoglycosides and cell-wall active agents []. ; PDB: 4E8I_A 4E8J_B.
Probab=91.55 E-value=0.28 Score=46.11 Aligned_cols=55 Identities=27% Similarity=0.480 Sum_probs=32.0
Q ss_pred HHHHHHHHHHhcCCCCeEEEEchHHHHHHcCCC---CCCeEEEEcCCChHHHHHHHHHHHHhcC
Q 009892 79 IFSCLLNTLRHFNLETVLRVAGGWVRDKLLGKD---CYDIDIALDNMMGSEFATKVAEYLSATG 139 (523)
Q Consensus 79 i~~~l~~~~~~~~~~~~~yiVGG~VRD~LLg~~---~~DiDi~~~~~~~~~f~~~l~~~l~~~g 139 (523)
+...+++++... +...||.|||==|.++|+. -.||||.+...--. .+.+.|...|
T Consensus 8 ~I~~Il~~~~~~--~i~~wi~GGWaiD~~lG~qTReH~DiDi~~~~~~~~----~l~~~L~~~G 65 (174)
T PF10706_consen 8 LIHEILDAADEL--GIPWWIAGGWAIDALLGRQTREHRDIDIFVPREDQA----ELRALLKELG 65 (174)
T ss_dssp --------HHHT--T--EEEEHHHHHHHHHTS--S--SEEEEEEEGGGHH----HHHHHHHHTT
T ss_pred cchhhhhhHhhC--CCCEEEECceeeeEeccccccCcCCeEEEEEcchhH----HHHHHHHHCC
Confidence 445566677766 4778999999999999985 46999999864322 3445555544
No 30
>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=88.64 E-value=0.54 Score=35.20 Aligned_cols=40 Identities=28% Similarity=0.337 Sum_probs=28.3
Q ss_pred HHHHHHHHHHhcCCCCeEEEEchHHHHHHcCCCCCCeEEEEc
Q 009892 79 IFSCLLNTLRHFNLETVLRVAGGWVRDKLLGKDCYDIDIALD 120 (523)
Q Consensus 79 i~~~l~~~~~~~~~~~~~yiVGG~VRD~LLg~~~~DiDi~~~ 120 (523)
+++.+.+.++.......+|+.|.++|... .+..||||++.
T Consensus 3 ~l~~i~~~l~~~~~~~~v~lfGS~arg~~--~~~SDIDi~v~ 42 (49)
T cd05397 3 LLDIIKERLKKLVPGYEIVVYGSLVRGLL--KKSSDIDLACV 42 (49)
T ss_pred HHHHHHHHHHhhcCCcEEEEECCcCCCCC--CCCCCEEEEEE
Confidence 34445555554434678999999999654 45679999985
No 31
>PRK13480 3'-5' exoribonuclease YhaM; Provisional
Probab=87.66 E-value=1.6 Score=45.48 Aligned_cols=49 Identities=12% Similarity=0.163 Sum_probs=31.4
Q ss_pred cchhHHHHhccccccccccc---------c-CC--CCCCchhHHHHHHHHhcCCCCCHHHHH
Q 009892 361 DQRRLSQYAALFLPFRNTTY---------K-DN--KGKKIPVVNYTFRDSLKRKASDAETVM 410 (523)
Q Consensus 361 e~~~ll~LAaLlhpi~k~~~---------~-~~--~~h~~~~~a~iare~Lk~~~~d~~~v~ 410 (523)
-++.+++.+|||||+||... . .| -+| ...|..++.+.++....+.+.+.
T Consensus 181 ~n~dll~agalLHDiGKi~E~~~~~~~~yT~eG~LlGH-i~lg~~~i~~~~~~l~~~~e~~~ 241 (314)
T PRK13480 181 LNKDLLYAGIILHDLGKVIELSGPVSTTYTLEGNLLGH-ISIMVNEIAKAADELQIDGEEVL 241 (314)
T ss_pred cCHHHHHHHHHHHHhhhHHHhcCCCccCccccCEeccH-HHHHHHHHHHHHHHcCCCHHHHH
Confidence 35677888999999999521 1 11 145 56777777777665455555443
No 32
>PF09970 DUF2204: Nucleotidyl transferase of unknown function (DUF2204); InterPro: IPR018700 This family of hypothetical prokaryotic proteins has no known function.
Probab=86.44 E-value=3.9 Score=39.22 Aligned_cols=56 Identities=20% Similarity=0.220 Sum_probs=37.5
Q ss_pred HHHHHHHHHhcCCCCeEEEEchHHHHHHcCCC--CCCeEEEEcCCChHHHHHHHHHHHHh
Q 009892 80 FSCLLNTLRHFNLETVLRVAGGWVRDKLLGKD--CYDIDIALDNMMGSEFATKVAEYLSA 137 (523)
Q Consensus 80 ~~~l~~~~~~~~~~~~~yiVGG~VRD~LLg~~--~~DiDi~~~~~~~~~f~~~l~~~l~~ 137 (523)
+..+.+.++.. |.+.++|||.+=.+..|.+ .+|+|+.+....+.--++.+.+....
T Consensus 5 l~~~~~~L~~~--gv~~~ivGG~av~l~~g~~r~T~DIDlfi~~~~~~~~~~~~~~~a~~ 62 (181)
T PF09970_consen 5 LKEILEELNKR--GVEYVIVGGAAVNLAYGRRRTTKDIDLFIENPSPNLEADALREVAEE 62 (181)
T ss_pred HHHHHHHHHHc--CCeEEEECHHHHHHHhCCCCCCCCeEEEeCCCchHHHHHHHHHHHHH
Confidence 44555566655 4688999999999888864 79999999765443333334444333
No 33
>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=85.45 E-value=2.2 Score=37.66 Aligned_cols=60 Identities=22% Similarity=0.305 Sum_probs=41.6
Q ss_pred hhHHHHHHHHHHHHhcCCCCeEEEEchHHHHHHcCCC-CCCeEEEEcCCChHH-------HHHHHHHHHHhc
Q 009892 75 TETKIFSCLLNTLRHFNLETVLRVAGGWVRDKLLGKD-CYDIDIALDNMMGSE-------FATKVAEYLSAT 138 (523)
Q Consensus 75 ~e~~i~~~l~~~~~~~~~~~~~yiVGG~VRD~LLg~~-~~DiDi~~~~~~~~~-------f~~~l~~~l~~~ 138 (523)
+-.++.+.+.+.++....+..+.++||+=| |++ ++|+||.+....+.. +.+.+...|.+.
T Consensus 6 Ev~~i~~~V~~~~~~i~p~~~v~i~GSyRR----GK~~~gDiDiLIt~~~~~~~~~~~~~~l~~lv~~L~~~ 73 (112)
T PF14792_consen 6 EVEEIEEIVKEALEKIDPGLEVEICGSYRR----GKETSGDIDILITHPDPSSVSKKLEGLLEKLVKRLEEK 73 (112)
T ss_dssp HHHHHHHHHHHHHHCCSTT-EEEEEHHHHT----T-SEESSEEEEEEETTCSTTTCSTTCHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHhcCCCcEEEEcccccc----CCCcCCCeEEEEeCCCcCcchhhHHHHHHHHHHHHHhC
Confidence 345678888899999888899999999887 765 789999886543322 444454555553
No 34
>PF01966 HD: HD domain; InterPro: IPR006674 This domain is found in a superfamily of enzymes with a predicted or known phosphohydrolase activity []. These enzymes appear to be involved in the nucleic acid metabolism, signal transduction and possibly other functions in bacteria, archaea and eukaryotes. The fact that all the highly conserved residues in the HD superfamily are histidines or aspartates suggests that coordination of divalent cations is essential for the activity of these proteins [].; GO: 0008081 phosphoric diester hydrolase activity, 0046872 metal ion binding; PDB: 2CQZ_A 2Q14_C 3CCG_A 2PAU_A 2PAQ_B 2PAR_B 3BG2_A 3NQW_A 2QGS_B 2DQB_D ....
Probab=85.07 E-value=0.16 Score=43.48 Aligned_cols=56 Identities=20% Similarity=0.147 Sum_probs=40.1
Q ss_pred chhHHHHhccccccccccccC--------C---CCCCchhHHHHHHHHhcCCCCCHHHHHHHHHHHHH
Q 009892 362 QRRLSQYAALFLPFRNTTYKD--------N---KGKKIPVVNYTFRDSLKRKASDAETVMNIHRVLEK 418 (523)
Q Consensus 362 ~~~ll~LAaLlhpi~k~~~~~--------~---~~h~~~~~a~iare~Lk~~~~d~~~v~~lv~~~~~ 418 (523)
...++.+||||||+||..... . ..| ...|+.++++.++....+.+.+..++..|..
T Consensus 24 ~~~~l~~aaLlHDiGk~~~~~~~~~~~~~~~~~~~H-~~~g~~~~~~~~~~~~~~~~~i~~~i~~H~~ 90 (122)
T PF01966_consen 24 DRELLRIAALLHDIGKIPTPDFIEKKPEERGKFYRH-EEIGAEILKEFLKELGLPIEIIANAIRYHHG 90 (122)
T ss_dssp HHHHHHHHHHHTTTTHHSTHHHHHHHHHHHCHHHHH-HHHHHHHHHHHHHHHCHCHHHHHHHHHHTTT
T ss_pred hHHHHHHHHHHHhcCCCCCchHHHHhHhhhchhhhh-HHHHHHHHHHhhhhcchHHHHHHHHHHHhcc
Confidence 456788899999999986431 0 123 4678889999888754447788888887743
No 35
>PRK13300 tRNA CCA-pyrophosphorylase; Provisional
Probab=85.02 E-value=4.2 Score=44.50 Aligned_cols=52 Identities=25% Similarity=0.432 Sum_probs=36.7
Q ss_pred cceecChhhH--------HHHHHHHHHHHhcCCCCeEEEEchHHHHHHcCCCCCCeEEEEc
Q 009892 68 DKIELTDTET--------KIFSCLLNTLRHFNLETVLRVAGGWVRDKLLGKDCYDIDIALD 120 (523)
Q Consensus 68 ~~i~l~~~e~--------~i~~~l~~~~~~~~~~~~~yiVGG~VRD~LLg~~~~DiDi~~~ 120 (523)
..|.-|++|+ .+.+.|.+.++..+...+++++|-+.|+-.|--. +||||.+-
T Consensus 8 ~~i~Ps~eE~~~l~~~~~~l~~~L~~~~~~~~~~~~V~l~GS~ArgT~L~Gd-sDIDIFv~ 67 (447)
T PRK13300 8 ERIKPTEEEREKLKKVAEELIERLEEAIKELGLDAEVELVGSTARGTWLSGD-RDIDIFVL 67 (447)
T ss_pred HhcCCCHHHHHHHHHHHHHHHHHHHHHHHhcCCceEEEEEeeecCCcccCCC-CceeEEEE
Confidence 4455566665 3556666666665545889999999999988533 59999773
No 36
>TIGR03401 cyanamide_fam HD domain protein, cyanamide hydratase family. Members of this protein family are known, so far, in the Ascomycota, a branch of the Fungi, and contain an HD domain (pfam01966), found typically in various metal-dependent phosphohydrolases. The only characterized member of this family, from the soil fungus Myrothecium verrucaria, is cyanamide hydratase (EC 4.2.1.69), a zinc-containing homohexamer that adds water to the fertilizer cyanamide (NCNH2), a nitrile compound, to produce urea (NH2-CO-NH2). Homologs are likely to be nitrile hydratases.
Probab=84.19 E-value=2.6 Score=42.00 Aligned_cols=79 Identities=11% Similarity=-0.016 Sum_probs=45.4
Q ss_pred cccchhhhHHHHHHHhhccCCC--ccchhHHHHhccccccccccccCCCCCC--chhHHHHHHHHhcCC-CCCHHHHHHH
Q 009892 338 FCTAYLDAAWDLTQLIGSSTFN--DDQRRLSQYAALFLPFRNTTYKDNKGKK--IPVVNYTFRDSLKRK-ASDAETVMNI 412 (523)
Q Consensus 338 ~~~~h~~tvdh~l~~l~~~~~~--~e~~~ll~LAaLlhpi~k~~~~~~~~h~--~~~~a~iare~Lk~~-~~d~~~v~~l 412 (523)
+..+|...|+..-..+....+. .-...++++||||||+|......+..+. ...|+..+++.|+.. +.+.+.+..+
T Consensus 55 ~~~~Hs~RV~~~a~~ia~~e~~~~~~D~evl~lAALLHDIG~~~~~~~~~~~~fe~~ga~~A~~~L~~~~G~~~~~~~~V 134 (228)
T TIGR03401 55 ETYNHSLRVYYYGLAIARDQFPEWDLSDETWFLTCLLHDIGTTDENMTATKMSFEFYGGILALDVLKEQTGANQDQAEAV 134 (228)
T ss_pred hhhHHHHHHHHHHHHHHHHhccccCCCHHHHHHHHHHHhhccccccCCcccCCHHHHHHHHHHHHHHHCCCCCHHHHHHH
Confidence 3455665555443333221111 1235678899999999985321111111 356888999999876 6666666665
Q ss_pred HHHH
Q 009892 413 HRVL 416 (523)
Q Consensus 413 v~~~ 416 (523)
....
T Consensus 135 ~~aI 138 (228)
T TIGR03401 135 AEAI 138 (228)
T ss_pred HHHH
Confidence 4443
No 37
>COG1418 Predicted HD superfamily hydrolase [General function prediction only]
Probab=80.51 E-value=1.6 Score=43.21 Aligned_cols=63 Identities=13% Similarity=-0.016 Sum_probs=41.0
Q ss_pred cccccchhhhHHHHHHHhhccCCCccchhHHHHhccccccccccccC-CCCCCchhHHHHHHHHhcC
Q 009892 336 EMFCTAYLDAAWDLTQLIGSSTFNDDQRRLSQYAALFLPFRNTTYKD-NKGKKIPVVNYTFRDSLKR 401 (523)
Q Consensus 336 ~q~~~~h~~tvdh~l~~l~~~~~~~e~~~ll~LAaLlhpi~k~~~~~-~~~h~~~~~a~iare~Lk~ 401 (523)
.|++..|...|+.+-..+... ..-+..+...||||||||+..... ++.| ...|+.+++..+.-
T Consensus 34 ~~~~l~H~~~Va~lA~~Ia~~--~g~D~~l~~~aaLLHDIg~~~~~~~~~~h-~~~gae~a~~~~~~ 97 (222)
T COG1418 34 GQHVLEHSLRVAYLAYRIAEE--EGVDPDLALRAALLHDIGKAIDHEPGGSH-AEIGAEIARKFLED 97 (222)
T ss_pred cchHHHHHHHHHHHHHHHHHH--cCCCHHHHHHHHHHHhhccccccCCccch-HHHHHHHHHHHccc
Confidence 456667776666543333221 112456777899999999996543 2245 68899999887765
No 38
>PRK10119 putative hydrolase; Provisional
Probab=79.16 E-value=4.5 Score=40.40 Aligned_cols=78 Identities=12% Similarity=0.134 Sum_probs=44.5
Q ss_pred ccccchhhhHHHHHHHhhccCCCccchhHHHHhccccccccc-cccCCCCCCchhHHHHHHHHhcC--CCCCHHHHHHHH
Q 009892 337 MFCTAYLDAAWDLTQLIGSSTFNDDQRRLSQYAALFLPFRNT-TYKDNKGKKIPVVNYTFRDSLKR--KASDAETVMNIH 413 (523)
Q Consensus 337 q~~~~h~~tvdh~l~~l~~~~~~~e~~~ll~LAaLlhpi~k~-~~~~~~~h~~~~~a~iare~Lk~--~~~d~~~v~~lv 413 (523)
.++.+|...|+.+-..|... ......++.+||+|||++.. ............++..+++.|+. .+.+.+.+..+.
T Consensus 24 ~HD~~Hi~RV~~lA~~Ia~~--e~~D~~vv~lAAlLHDv~d~~k~~~~~~~~~~~~a~~a~~~L~~~~~g~~~~~i~~V~ 101 (231)
T PRK10119 24 AHDICHFRRVWATAQKLAAD--DDVDMLVVLTACYFHDIVSLAKNHPQRHRSSILAAEETRRILREDFPDFPAEKIEAVC 101 (231)
T ss_pred ccChHHHHHHHHHHHHHHHh--cCCCHHHHHHHHHHhhcchhhhcCccccchhhHHHHHHHHHHHHcccCcCHHHHHHHH
Confidence 45666766666443333211 11244577889999999753 11100010134577788888876 577777777665
Q ss_pred HHH
Q 009892 414 RVL 416 (523)
Q Consensus 414 ~~~ 416 (523)
...
T Consensus 102 ~iI 104 (231)
T PRK10119 102 HAI 104 (231)
T ss_pred HHH
Confidence 554
No 39
>TIGR03671 cca_archaeal CCA-adding enzyme.
Probab=77.24 E-value=8.1 Score=41.75 Aligned_cols=42 Identities=21% Similarity=0.400 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHhcCCCCeEEEEchHHHHHHcCCCCCCeEEEEc
Q 009892 78 KIFSCLLNTLRHFNLETVLRVAGGWVRDKLLGKDCYDIDIALD 120 (523)
Q Consensus 78 ~i~~~l~~~~~~~~~~~~~yiVGG~VRD~LLg~~~~DiDi~~~ 120 (523)
.+.+.|.+.+.+.+...+++++|.+.|+-.|--. .||||.+-
T Consensus 25 ~l~~~l~~~~~e~~~~~~v~~~GS~ArgT~L~G~-sDIDIfi~ 66 (408)
T TIGR03671 25 ELIARLEEIIEELGVDAEVVLVGSYARGTWLKGD-RDIDIFIL 66 (408)
T ss_pred HHHHHHHHHHHhcCCcceEEEEeeEecCCccCCC-CceeEEEE
Confidence 3455666666666556899999999999888533 49999873
No 40
>TIGR00277 HDIG uncharacterized domain HDIG. This domain is found in a few known nucleotidyltransferes and in a large number of uncharacterized proteins. It contains four widely separated His residues, the second of which is part of an invariant dipeptide His-Asp in a region matched approximately by the motif HDIG.
Probab=71.21 E-value=3.2 Score=32.78 Aligned_cols=34 Identities=15% Similarity=0.127 Sum_probs=22.0
Q ss_pred hhHHHHhccccccccccccCC---CCCCchhHHHHHHH
Q 009892 363 RRLSQYAALFLPFRNTTYKDN---KGKKIPVVNYTFRD 397 (523)
Q Consensus 363 ~~ll~LAaLlhpi~k~~~~~~---~~h~~~~~a~iare 397 (523)
...+.+|+||||+|+...... .+| ...|+.+++.
T Consensus 27 ~~~l~~AalLHDiG~~~~~~~~~~~~H-~~~g~~~l~~ 63 (80)
T TIGR00277 27 VELARRGALLHDIGKPITREGVIFESH-AVVGAEIARK 63 (80)
T ss_pred HHHHHHHHHHHccCCcccchHHHHHch-HHHHHHHHHH
Confidence 345778999999999854221 244 4566666653
No 41
>COG1078 HD superfamily phosphohydrolases [General function prediction only]
Probab=71.20 E-value=2.7 Score=45.64 Aligned_cols=73 Identities=15% Similarity=0.230 Sum_probs=43.6
Q ss_pred HHhhcCCCHHHHHHHHHHcCchhHHhhCCCCCchhhhhhccccccchhhhHHHH----HHHhhcc---CCCccchhHHHH
Q 009892 296 DLMVSGNQPVKAMTHICGLTLFWIVFKLPLQVEPEVLEGCEMFCTAYLDAAWDL----TQLIGSS---TFNDDQRRLSQY 368 (523)
Q Consensus 296 ~kiL~~~~~~~~L~lL~~~glL~~if~~Pe~~~~~~~~~~~q~~~~h~~tvdh~----l~~l~~~---~~~~e~~~ll~L 368 (523)
.+++.. .+.+=|+.+.++|+-..+| |... . .+ ..|.--|+|+ ++.+... .+..+++.+..+
T Consensus 21 ~~LIdT-~~FQRLRrIkQLG~a~lvy--PgAn---H----TR--FeHSLGV~~la~~~~~~l~~~~~~~~~~~~~~~~~~ 88 (421)
T COG1078 21 LELIDT-PEFQRLRRIKQLGLAYLVY--PGAN---H----TR--FEHSLGVYHLARRLLEHLEKNSEEEIDEEERLLVRL 88 (421)
T ss_pred HHHhCC-HHHHHHHHhhhccceeEec--CCCc---c----cc--cchhhHHHHHHHHHHHHHhhccccccchHHHHHHHH
Confidence 344444 3777899999999998888 8731 1 11 1233333433 2222211 112234557889
Q ss_pred hccccccccccc
Q 009892 369 AALFLPFRNTTY 380 (523)
Q Consensus 369 AaLlhpi~k~~~ 380 (523)
||||||+|.+++
T Consensus 89 AALLHDIGHgPF 100 (421)
T COG1078 89 AALLHDIGHGPF 100 (421)
T ss_pred HHHHHccCCCcc
Confidence 999999999865
No 42
>PRK12703 tRNA 2'-O-methylase; Reviewed
Probab=63.47 E-value=27 Score=36.92 Aligned_cols=27 Identities=7% Similarity=0.166 Sum_probs=21.0
Q ss_pred cceecChhhHHHHHHHHHHHHhcCCCC
Q 009892 68 DKIELTDTETKIFSCLLNTLRHFNLET 94 (523)
Q Consensus 68 ~~i~l~~~e~~i~~~l~~~~~~~~~~~ 94 (523)
..|-|+.....+.+.+.++....|-.+
T Consensus 31 ~~~~~~~~d~~~~~~~~~v~~~~gg~f 57 (339)
T PRK12703 31 SSILVDERDETLENTIKKVVDNFGGSF 57 (339)
T ss_pred CeeEecCCcHhHHHHHHHHHHhcCCCe
Confidence 457788888899999999988876333
No 43
>PRK00106 hypothetical protein; Provisional
Probab=63.37 E-value=43 Score=37.66 Aligned_cols=51 Identities=10% Similarity=0.048 Sum_probs=33.6
Q ss_pred chhHHHHhccccccccccccC-CCCCCchhHHHHHHHHhcCCCCCHHHHHHHHHHHH
Q 009892 362 QRRLSQYAALFLPFRNTTYKD-NKGKKIPVVNYTFRDSLKRKASDAETVMNIHRVLE 417 (523)
Q Consensus 362 ~~~ll~LAaLlhpi~k~~~~~-~~~h~~~~~a~iare~Lk~~~~d~~~v~~lv~~~~ 417 (523)
+...++.|+||||+||..... .++| +.+|+.+++.. +.+...+..+..||.
T Consensus 372 d~e~a~~AGLLHDIGK~v~~e~~g~H-a~iGa~ll~~~----~~~~~v~~aI~~HH~ 423 (535)
T PRK00106 372 NVALARRAGFLHDMGKAIDREVEGSH-VEIGMEFARKY----KEHPVVVNTIASHHG 423 (535)
T ss_pred CHHHHHHHHHHHhccCccCccccCCh-HHHHHHHHHHc----CCCHHHHHHHHHhCC
Confidence 456788999999999995421 2367 67888888632 345555555555553
No 44
>TIGR00295 conserved hypothetical protein TIGR00295. This set of orthologs is narrowly defined, comprising proteins found in three Archaea but not in Pyrococcus horikoshii. The closest homologs are other archaeal proteins that appear to be represent distinct orthologous clusters.
Probab=59.72 E-value=13 Score=34.89 Aligned_cols=48 Identities=15% Similarity=0.050 Sum_probs=30.5
Q ss_pred chhHHHHhccccccccccccCCCCCCchhHHHHHHHHhcCCCCCHHHHHHHHHHH
Q 009892 362 QRRLSQYAALFLPFRNTTYKDNKGKKIPVVNYTFRDSLKRKASDAETVMNIHRVL 416 (523)
Q Consensus 362 ~~~ll~LAaLlhpi~k~~~~~~~~h~~~~~a~iare~Lk~~~~d~~~v~~lv~~~ 416 (523)
+...+.+||||||+||.... +..| ...|+.++++ .+ .+ +.+..++..|
T Consensus 40 d~~~l~~aaLLHDIGK~~~~-~~~H-~~~G~~iL~~-~g---~~-~~i~~iI~~H 87 (164)
T TIGR00295 40 DMDLVLKGALLHDIGRARTH-GFEH-FVKGAEILRK-EG---VD-EKIVRIAERH 87 (164)
T ss_pred CHHHHHHHHHHhcCCcccCC-CCCH-HHHHHHHHHH-cC---CC-HHHHHHHHHH
Confidence 45678889999999998643 2356 5677776664 22 33 3344455544
No 45
>PRK07152 nadD putative nicotinate-nucleotide adenylyltransferase; Validated
Probab=58.75 E-value=19 Score=37.79 Aligned_cols=81 Identities=14% Similarity=0.022 Sum_probs=40.0
Q ss_pred cccHHHHHHHHHHhhcCCCHHHHHHHHHHcCchhHHhhCCCCCchhhhhhccccccchhhhHHHHHHHhhccCCCccchh
Q 009892 285 KISRERVGTEIDLMVSGNQPVKAMTHICGLTLFWIVFKLPLQVEPEVLEGCEMFCTAYLDAAWDLTQLIGSSTFNDDQRR 364 (523)
Q Consensus 285 ~is~ERI~~El~kiL~~~~~~~~L~lL~~~glL~~if~~Pe~~~~~~~~~~~q~~~~h~~tvdh~l~~l~~~~~~~e~~~ 364 (523)
.+|...|+.-+. .+.=|......+.+.||+..-+ +-.........|...|..+...+... .. -.+.
T Consensus 155 ~iSST~IR~~~~---~~~vP~~V~~YI~~~~LY~e~~---------l~~~~~~~~~~HSl~VA~~A~~LA~~-~g-~d~~ 220 (342)
T PRK07152 155 NISSTKIRKGNL---LGKLDPKVNDYINENFLYLEDI---------LKSFLDEYRYKHCLRVAQLAAELAKK-NN-LDPK 220 (342)
T ss_pred ccCHHHHHHHHH---cCCCCHHHHHHHHHcCccccHH---------HHHHhhHHHHHHHHHHHHHHHHHHHH-hC-cCHH
Confidence 355555655443 2334566788888888874222 00011111123333332222222110 01 1236
Q ss_pred HHHHhcccccccccc
Q 009892 365 LSQYAALFLPFRNTT 379 (523)
Q Consensus 365 ll~LAaLlhpi~k~~ 379 (523)
.+++|+||||+||..
T Consensus 221 ~a~~AGLLHDIGK~~ 235 (342)
T PRK07152 221 KAYYAGLYHDITKEW 235 (342)
T ss_pred HHHHHHHHHHhhccC
Confidence 778899999999963
No 46
>TIGR01596 cas3_HD CRISPR-associated endonuclease Cas3-HD. CRISPR/Cas systems are widespread, mobile systems for host defense against invasive elements such as phage. In these systems, Cas3 designates one of the core proteins shared widely by multiple types of CRISPR/Cas system. This model represents an HD-like endonuclease that occurs either separately or as the N-terminal region of Cas3, the helicase-containing CRISPR-associated protein.
Probab=58.63 E-value=9.2 Score=35.43 Aligned_cols=54 Identities=11% Similarity=-0.077 Sum_probs=33.8
Q ss_pred chhHHHHhcccccccccccc--------------CCCCCCchhHHHHHHHHhcCCC---CCHHHHHHHHHHH
Q 009892 362 QRRLSQYAALFLPFRNTTYK--------------DNKGKKIPVVNYTFRDSLKRKA---SDAETVMNIHRVL 416 (523)
Q Consensus 362 ~~~ll~LAaLlhpi~k~~~~--------------~~~~h~~~~~a~iare~Lk~~~---~d~~~v~~lv~~~ 416 (523)
.+.++.+++++||+||.... ...+| ..+|+.++...++... .....+..++.+|
T Consensus 30 ~~~~~~~~~~lHDiGK~~~~FQ~~~~~~~~~~~~~~~~H-~~~s~~~~~~~~~~~~~~~~~~~~~~~~I~~H 100 (177)
T TIGR01596 30 LRELLDLLALLHDIGKINPGFQAKLMKAYKRGRRVASRH-SLLSAKLLDALLIKKGYEEEVFKLLALAVIGH 100 (177)
T ss_pred HHHHHHHHHHHccCccCCHHHHHHhhcccccccCCCCCH-HHHHHHHHHHHHHHccccHHHHHHHHHHHHHh
Confidence 35677889999999997321 11234 5678888888766533 3344555555544
No 47
>COG4849 Predicted nucleotidyltransferase [General function prediction only]
Probab=56.86 E-value=23 Score=34.92 Aligned_cols=45 Identities=20% Similarity=0.165 Sum_probs=31.5
Q ss_pred CeEEEEchHHHHHHc--------CCCCCCeEEEEcCCChHHHHHHHHHHHHhcC
Q 009892 94 TVLRVAGGWVRDKLL--------GKDCYDIDIALDNMMGSEFATKVAEYLSATG 139 (523)
Q Consensus 94 ~~~yiVGG~VRD~LL--------g~~~~DiDi~~~~~~~~~f~~~l~~~l~~~g 139 (523)
....+||.-.||.|. |+.++|+||+..-.+-..| +.++..++..|
T Consensus 26 e~~mlVGA~cRDil~~~~~~~~~~Rat~D~DfA~alesWd~F-~~lr~tfrp~g 78 (269)
T COG4849 26 ERYMLVGAQCRDILHWRFCRGVPPRATNDTDFAGALESWDHF-EALRATFRPLG 78 (269)
T ss_pred hhheeehhhHHHHHHHHHhcCCCCCCCCccchhhhhcchhhH-HHHHHhccccC
Confidence 345799999999995 6678999998865555555 44554444433
No 48
>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=56.51 E-value=10 Score=31.14 Aligned_cols=40 Identities=15% Similarity=0.110 Sum_probs=25.9
Q ss_pred HHHHHHhcCCCCeEEEEchHHHHHHcCCCCCCeEEEEcCCCh
Q 009892 83 LLNTLRHFNLETVLRVAGGWVRDKLLGKDCYDIDIALDNMMG 124 (523)
Q Consensus 83 l~~~~~~~~~~~~~yiVGG~VRD~LLg~~~~DiDi~~~~~~~ 124 (523)
+.+.+++......+++.|..+|... .+..|+|+++....+
T Consensus 4 i~~~l~~~~~~~~v~lfGS~a~g~~--~~~SDIDl~i~~~~~ 43 (93)
T PF01909_consen 4 IKEILKELFGVAEVYLFGSYARGDA--TPDSDIDLLIILDEP 43 (93)
T ss_dssp HHHHHHHHHTTEEEEEEHHHHHTSS--CTTSCEEEEEEESST
T ss_pred HHHHHHHHCCCCEEEEECCcccCcC--CCCCCEEEEEEeCCc
Confidence 3344443222578899999999442 345899999876544
No 49
>TIGR03276 Phn-HD phosphonate degradation operons associated HDIG domain protein. This small clade of proteins are found adjacent to other genes implicated in the catabolism of phosphonates. They are members of the TIGR00277 domain family and contain a series of five invariant histidines (the domain in general has only four).
Probab=52.98 E-value=17 Score=34.89 Aligned_cols=53 Identities=9% Similarity=0.020 Sum_probs=33.6
Q ss_pred hhHHHHhccccccccccccC---------CCCCCchhHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhh
Q 009892 363 RRLSQYAALFLPFRNTTYKD---------NKGKKIPVVNYTFRDSLKRKASDAETVMNIHRVLEKFLSL 422 (523)
Q Consensus 363 ~~ll~LAaLlhpi~k~~~~~---------~~~h~~~~~a~iare~Lk~~~~d~~~v~~lv~~~~~~~~~ 422 (523)
..-+..||||||||...... ..+| ..+++.+++..+ .+.|.++|+.|..++..
T Consensus 43 d~elvvAALLHDIGhll~~~~~~~~~~g~~~~H-e~iga~~Lr~~F------~~~V~~lV~~Hv~aKry 104 (179)
T TIGR03276 43 DDELIVAAFLHDIGHLLADEGATPMGRGGDDHH-EELAADYLRELF------SPSVTEPIRLHVQAKRY 104 (179)
T ss_pred CHHHHHHHHHHhcchhhhcccccccccCCCccH-HHHHHHHHHHHc------CHHHHHHHHHHHHHHHH
Confidence 45568899999998753211 1124 345555555553 35789999999776544
No 50
>smart00471 HDc Metal dependent phosphohydrolases with conserved 'HD' motif. Includes eukaryotic cyclic nucleotide phosphodiesterases (PDEc). This profile/HMM does not detect HD homologues in bacterial glycine aminoacyl-tRNA synthetases (beta subunit).
Probab=52.32 E-value=6.7 Score=32.73 Aligned_cols=19 Identities=21% Similarity=0.095 Sum_probs=15.2
Q ss_pred chhHHHHhccccccccccc
Q 009892 362 QRRLSQYAALFLPFRNTTY 380 (523)
Q Consensus 362 ~~~ll~LAaLlhpi~k~~~ 380 (523)
....+.+|+||||+|+...
T Consensus 27 ~~~~~~~a~LlHDig~~~~ 45 (124)
T smart00471 27 DIELLLLAALLHDIGKPGT 45 (124)
T ss_pred HHHHHHHHHHHHcccCccC
Confidence 3456788999999999864
No 51
>PF08843 DUF1814: Nucleotidyl transferase of unknown function (DUF1814); InterPro: IPR014942 This large group of proteins are largely uncharacterised. Some are annotated as abortive infective proteins but support for this annotation could not be found.
Probab=49.21 E-value=35 Score=32.70 Aligned_cols=32 Identities=25% Similarity=0.293 Sum_probs=26.1
Q ss_pred CCCCeEEEEchHHHHHHcC---CCCCCeEEEEcCC
Q 009892 91 NLETVLRVAGGWVRDKLLG---KDCYDIDIALDNM 122 (523)
Q Consensus 91 ~~~~~~yiVGG~VRD~LLg---~~~~DiDi~~~~~ 122 (523)
..+..+.+.||..-.+..+ |.+.|||+++...
T Consensus 10 ~~~~~~~l~GGtal~l~~~~~~R~S~DiD~~~~~~ 44 (233)
T PF08843_consen 10 SLGDPFVLKGGTALSLRYGGSHRFSEDIDFVVDRD 44 (233)
T ss_pred ccCCCEEEECHHHHHHhcCCCcEecCcccEEEecc
Confidence 3456789999999999943 6799999999764
No 52
>cd00077 HDc Metal dependent phosphohydrolases with conserved 'HD' motif
Probab=48.59 E-value=16 Score=31.06 Aligned_cols=51 Identities=18% Similarity=0.112 Sum_probs=30.4
Q ss_pred chhHHHHhccccccccccccC---------CCCCCchhHHHHHHH--HhcCCCCCHHHHHHHH
Q 009892 362 QRRLSQYAALFLPFRNTTYKD---------NKGKKIPVVNYTFRD--SLKRKASDAETVMNIH 413 (523)
Q Consensus 362 ~~~ll~LAaLlhpi~k~~~~~---------~~~h~~~~~a~iare--~Lk~~~~d~~~v~~lv 413 (523)
++..+++||||||+|+..... ...| ...|..+++. ..+..+...+.+..+.
T Consensus 27 ~~~~l~~aaLlHDig~~~~~~~~~~~~~~~~~~h-~~~g~~~~~~~~~~~~~~~~~~~~~~~~ 88 (145)
T cd00077 27 DIELLRLAALLHDIGKPGTPDAITEEESELEKDH-AIVGAEILRELLLEEVIKLIDELILAVD 88 (145)
T ss_pred HHHHHHHHHHHHhcCCccCccccCHHHHHHHHhh-HHHHHHHHHHhhhcccccccHHHHHHHH
Confidence 456788999999999974311 1233 3566777765 3334444555544444
No 53
>PF03458 UPF0126: UPF0126 domain; InterPro: IPR005115 This domain is duplicated in bacterial membrane proteins of unknown function and each domain contains three transmembrane helices. The conserved glycines are suggestive of an ion channel.
Probab=48.17 E-value=11 Score=31.27 Aligned_cols=15 Identities=53% Similarity=0.866 Sum_probs=13.1
Q ss_pred EEchHHHHHHcCCCC
Q 009892 98 VAGGWVRDKLLGKDC 112 (523)
Q Consensus 98 iVGG~VRD~LLg~~~ 112 (523)
+-||-+||.|+|+.|
T Consensus 39 ~GGG~lRDvll~~~P 53 (80)
T PF03458_consen 39 VGGGILRDVLLGRTP 53 (80)
T ss_pred hhcHHHHHHHcCCCC
Confidence 359999999999966
No 54
>PF14091 DUF4269: Domain of unknown function (DUF4269)
Probab=45.89 E-value=72 Score=29.92 Aligned_cols=28 Identities=14% Similarity=0.122 Sum_probs=21.6
Q ss_pred CCCCCCeEEEEcCCChHHHHHHHHHHHH
Q 009892 109 GKDCYDIDIALDNMMGSEFATKVAEYLS 136 (523)
Q Consensus 109 g~~~~DiDi~~~~~~~~~f~~~l~~~l~ 136 (523)
..+..|+||++.....+.|...+.+.+.
T Consensus 29 di~~SDLDIic~~~d~~~F~~~l~~~f~ 56 (152)
T PF14091_consen 29 DIPGSDLDIICEVPDPEAFEQLLQSLFG 56 (152)
T ss_pred CCCCCCccEEEEeCCHHHHHHHHHHHhc
Confidence 3457899999998888888877776543
No 55
>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=42.22 E-value=2e+02 Score=25.61 Aligned_cols=74 Identities=19% Similarity=0.211 Sum_probs=43.5
Q ss_pred CCeEEEEchHHHHHHcCCCCCCeEEEEcCC--------ChHHHHHHHHHHHHhcCCccCCceEEecCCCCCCcceeeEEE
Q 009892 93 ETVLRVAGGWVRDKLLGKDCYDIDIALDNM--------MGSEFATKVAEYLSATGETAPSGFGVIPSNPDQSKHLETATM 164 (523)
Q Consensus 93 ~~~~yiVGG~VRD~LLg~~~~DiDi~~~~~--------~~~~f~~~l~~~l~~~g~~~~~~~~vi~~n~~~~k~~~t~~~ 164 (523)
...+|+.|.+.|+-.+.- ..|||+++--. ...++...+.+.|....... ..+. .++ ..+++
T Consensus 27 ~~~~~~~GS~a~~T~i~~-~sDiD~~v~~~~~~~~~~~~~~~~~~~l~~~L~~~~~~~----~~~~-----~~~-~~v~v 95 (143)
T cd05400 27 VAEVFLQGSYARGTALRG-DSDIDLVVVLPDDTSFAEYGPAELLDELGEALKEYYGAN----EEVK-----AQH-RSVTV 95 (143)
T ss_pred ccEEEEEcceeCCCCCCC-CCceeEEEEEcCcccccccCHHHHHHHHHHHHHHhcCcc----cccc-----cCc-eEEEE
Confidence 367899999999876643 68999987332 23334445555554432100 0111 111 35666
Q ss_pred EEc--CeEEEeeecc
Q 009892 165 KLY--DLWIDFVNLR 177 (523)
Q Consensus 165 ~~~--g~~iD~~~~R 177 (523)
.+. ++.+|++...
T Consensus 96 ~~~~~~~~vDvvP~~ 110 (143)
T cd05400 96 KFKGQGFHVDVVPAF 110 (143)
T ss_pred EEcCCCeEEEEEEEe
Confidence 666 7899998766
No 56
>KOG0564 consensus 5,10-methylenetetrahydrofolate reductase [Amino acid transport and metabolism]
Probab=41.66 E-value=1.8e+02 Score=32.46 Aligned_cols=197 Identities=15% Similarity=0.192 Sum_probs=113.7
Q ss_pred cChhhHHHHHHHHHHHHhcCCCCeEEEEchHHHHHHcCCCCCCeEEEEcCCChHHHHHHHHHHHHhcCCccCCceEEecC
Q 009892 72 LTDTETKIFSCLLNTLRHFNLETVLRVAGGWVRDKLLGKDCYDIDIALDNMMGSEFATKVAEYLSATGETAPSGFGVIPS 151 (523)
Q Consensus 72 l~~~e~~i~~~l~~~~~~~~~~~~~yiVGG~VRD~LLg~~~~DiDi~~~~~~~~~f~~~l~~~l~~~g~~~~~~~~vi~~ 151 (523)
.|-....+.+.-++.+.+.|... .+ .|.|-+|++=|=-++...+.+.|.-+.+|.+.....+ -.++| ..
T Consensus 86 Ctn~~~~~Id~aLe~a~~~GirN--IL-------ALRGDpP~g~d~~~~~e~gF~yA~DLVr~Irs~YGDy-F~IgV-Ag 154 (590)
T KOG0564|consen 86 CTNMPKEMIDKALEQAKALGIRN--IL-------ALRGDPPIGQDKWVEEEGGFRYAVDLVRYIRSKYGDY-FCIGV-AG 154 (590)
T ss_pred ccCccHHHHHHHHHHHHHhCchh--hh-------hhcCCCCCCccccccccCCchhHHHHHHHHHHHhCCe-EEEEe-cc
Confidence 44556677777778888776433 22 2568899987744444445555666667776542222 13333 22
Q ss_pred CCCCCcceeeEEEEEcCeEEEeeecccccccCCCCCcccccCCHHHHHh--------cCCCCccceeeecCCCceecCcc
Q 009892 152 NPDQSKHLETATMKLYDLWIDFVNLRCEDYSENSRIPTMRFGTAEEDAY--------RRDLTINSLFYNINTSSVEDLTG 223 (523)
Q Consensus 152 n~~~~k~~~t~~~~~~g~~iD~~~~R~e~y~~~~r~p~v~~gt~~eDl~--------RRDFTINAla~~l~~~~i~D~~g 223 (523)
.|+. +|++...+++.||. --||-|--|||+..+ ++-|
T Consensus 155 YPEg-------------------------------hpe~~~~~~~~Dl~yLk~KvdaGaDFIiTQlFYd~e~--flkf-- 199 (590)
T KOG0564|consen 155 YPEG-------------------------------HPEAPSHDYLADLPYLKEKVDAGADFIITQLFYDVET--FLKF-- 199 (590)
T ss_pred CCCC-------------------------------CcCCcccchhhhhHHHHHhhcccchhhhhhhhcCHHH--HHHH--
Confidence 3332 22221222334432 368999999999753 4444
Q ss_pred ccHHHhhcCceecCCCCCCCCccCHHHHHHHHHHHhhc-CCCCcHHHHHHHHhhHHHHHHhccccHHHHHHHHHHhhcCC
Q 009892 224 RGIADLKHGKIVTPLPPKATFLDDPLRVLRAIRFGARF-DFILDEELKKAAASDEVKAALAAKISRERVGTEIDLMVSGN 302 (523)
Q Consensus 224 ~G~~DL~~g~IR~~~~p~~~F~eDPLRiLRa~RFAarl-gf~id~~t~~ai~~~~~~~~l~~~is~ERI~~El~kiL~~~ 302 (523)
..|.++.-|.+|.-|.-. |.--.++|.-++++ +.+|-++..+.+..-+-....++.+-.|.+-.-..|+|...
T Consensus 200 --v~~cR~~gi~~PIvPGIM----PI~~Y~sf~R~~kls~~~IP~~~~~~L~piKddDeaVr~~Gvel~vemc~kll~~g 273 (590)
T KOG0564|consen 200 --VKDCRAAGINVPIVPGIM----PIQSYRSFLRIAKLSGVSIPQHLMDRLEPIKDDDEAVRNYGVELIVEMCRKLLDSG 273 (590)
T ss_pred --HHHHHHhCCCCCcccccc----cchhHHHHHHHHHHhCCCCCHHHHHhcccCCCcHHHHHHHhHHHHHHHHHHHHhcC
Confidence 468888778887766543 44445566556666 57888777665431111133444555666666667888655
Q ss_pred ----------CH-HHHHHHHHHcCchhHH
Q 009892 303 ----------QP-VKAMTHICGLTLFWIV 320 (523)
Q Consensus 303 ----------~~-~~~L~lL~~~glL~~i 320 (523)
|- -.+...|.++|++...
T Consensus 274 ~v~~lHfyTlNlEksv~~IL~~lgll~~~ 302 (590)
T KOG0564|consen 274 VVPGLHFYTLNLEKSVAAILKRLGLLDEL 302 (590)
T ss_pred ccceeEEEEecHHHHHHHHHHhcCccccc
Confidence 22 2345677789999775
No 57
>PRK12705 hypothetical protein; Provisional
Probab=41.17 E-value=29 Score=38.71 Aligned_cols=50 Identities=12% Similarity=0.118 Sum_probs=32.3
Q ss_pred hhHHHHhccccccccccccC-CCCCCchhHHHHHHHHhcCCCCCHHHHHHHHHHHH
Q 009892 363 RRLSQYAALFLPFRNTTYKD-NKGKKIPVVNYTFRDSLKRKASDAETVMNIHRVLE 417 (523)
Q Consensus 363 ~~ll~LAaLlhpi~k~~~~~-~~~h~~~~~a~iare~Lk~~~~d~~~v~~lv~~~~ 417 (523)
+..++.|+||||+||..... .+.| ..+|+.+++.. +.....+..+..||.
T Consensus 346 ~d~a~~AGLLHDIGK~ie~e~~~~H-~~iGaeLlkk~----~~p~~Vv~aI~~HHe 396 (508)
T PRK12705 346 PALAKRAGLLHDIGKSIDRESDGNH-VEIGAELARKF----NEPDEVINAIASHHN 396 (508)
T ss_pred HHHHHHHHHHHHcCCcchhhhcccH-HHHHHHHHHhc----CCCHHHHHHHHHhCC
Confidence 45667899999999984322 3356 57788877653 344455555555553
No 58
>COG2860 Predicted membrane protein [Function unknown]
Probab=41.11 E-value=15 Score=36.11 Aligned_cols=15 Identities=47% Similarity=0.733 Sum_probs=12.6
Q ss_pred EEchHHHHHHcCCCC
Q 009892 98 VAGGWVRDKLLGKDC 112 (523)
Q Consensus 98 iVGG~VRD~LLg~~~ 112 (523)
+-||.+||.|||+-|
T Consensus 44 iGGGtiRDlLLG~~P 58 (209)
T COG2860 44 IGGGTIRDLLLGHYP 58 (209)
T ss_pred hcchHHHHHHccCCC
Confidence 459999999999655
No 59
>COG1746 CCA1 tRNA nucleotidyltransferase (CCA-adding enzyme) [Translation, ribosomal structure and biogenesis]
Probab=40.99 E-value=32 Score=37.36 Aligned_cols=52 Identities=17% Similarity=0.355 Sum_probs=35.9
Q ss_pred cceecChhhHH--------HHHHHHHHHHhcCCCCeEEEEchHHHHHHcCCCCCCeEEEEc
Q 009892 68 DKIELTDTETK--------IFSCLLNTLRHFNLETVLRVAGGWVRDKLLGKDCYDIDIALD 120 (523)
Q Consensus 68 ~~i~l~~~e~~--------i~~~l~~~~~~~~~~~~~yiVGG~VRD~LLg~~~~DiDi~~~ 120 (523)
..|.=|++|.+ |...+.+.+++.|...++.+||-.-|+-.|- .-+||||-+-
T Consensus 12 ~~i~P~~eE~~~~~~~~e~l~~~~~~~~~e~~~~aev~lVGS~AkgTwL~-gd~DIDvFi~ 71 (443)
T COG1746 12 KRIKPTEEERKKLKEVAEELRERINEIIEELGIDAEVVLVGSYAKGTWLR-GDHDIDVFIA 71 (443)
T ss_pred HHcCCCHHHHHHHHHHHHHHHHHHHHHHHhcCCcceEEEEeecccCcccC-CCcceeEEEE
Confidence 34444566654 3445555566667778999999999998884 3589998663
No 60
>PRK12704 phosphodiesterase; Provisional
Probab=40.48 E-value=34 Score=38.34 Aligned_cols=35 Identities=9% Similarity=0.074 Sum_probs=24.8
Q ss_pred chhHHHHhcccccccccccc-CCCCCCchhHHHHHHH
Q 009892 362 QRRLSQYAALFLPFRNTTYK-DNKGKKIPVVNYTFRD 397 (523)
Q Consensus 362 ~~~ll~LAaLlhpi~k~~~~-~~~~h~~~~~a~iare 397 (523)
+...+.+|+||||+||.... ..++| ..+|+.+++.
T Consensus 357 d~~~a~~AgLLHDIGK~~~~e~~~~H-~~iGa~il~~ 392 (520)
T PRK12704 357 DVKLAKRAGLLHDIGKALDHEVEGSH-VEIGAELAKK 392 (520)
T ss_pred CHHHHHHHHHHHccCcCccccccCCH-HHHHHHHHHH
Confidence 34557789999999998532 13456 5778888775
No 61
>COG2206 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]
Probab=40.34 E-value=49 Score=34.83 Aligned_cols=24 Identities=8% Similarity=0.090 Sum_probs=18.4
Q ss_pred CCCccchhHHHHhccccccccccc
Q 009892 357 TFNDDQRRLSQYAALFLPFRNTTY 380 (523)
Q Consensus 357 ~~~~e~~~ll~LAaLlhpi~k~~~ 380 (523)
.++.+.-..+.+|++||||||...
T Consensus 168 gl~~~~i~~l~~aalLHDIGKi~i 191 (344)
T COG2206 168 GLSEEKIEELALAGLLHDIGKIGI 191 (344)
T ss_pred CCCHHHHHHHHHHHHHhhcccccC
Confidence 345555677889999999999854
No 62
>TIGR03319 YmdA_YtgF conserved hypothetical protein YmdA/YtgF.
Probab=37.99 E-value=36 Score=38.10 Aligned_cols=50 Identities=12% Similarity=0.074 Sum_probs=30.7
Q ss_pred chhHHHHhcccccccccccc-CCCCCCchhHHHHHHHHhcCCCCCHHHHHHHHHHH
Q 009892 362 QRRLSQYAALFLPFRNTTYK-DNKGKKIPVVNYTFRDSLKRKASDAETVMNIHRVL 416 (523)
Q Consensus 362 ~~~ll~LAaLlhpi~k~~~~-~~~~h~~~~~a~iare~Lk~~~~d~~~v~~lv~~~ 416 (523)
.+..++.|+||||+||.... ..++| +.+|+.+++.. +.+...+..+..||
T Consensus 351 d~~~a~~AGLLHDIGK~~~~e~~~~H-~~~Ga~ll~~~----~~~~~V~~aI~~HH 401 (514)
T TIGR03319 351 DVKLAKRAGLLHDIGKAVDHEVEGSH-VEIGAELAKKY----KESPEVVNAIAAHH 401 (514)
T ss_pred CHHHHHHHHHHHhcCcccchhhcccH-HHHHHHHHHHc----CCCHHHHHHHHHhC
Confidence 34566789999999998432 12356 57788877652 23444444444444
No 63
>PF04439 Adenyl_transf: Streptomycin adenylyltransferase; InterPro: IPR007530 Also known as aminoglycoside 6-adenylyltransferase (2.7.7 from EC), this protein confers resistance to aminoglycoside antibiotics.; PDB: 2PBE_A.
Probab=35.59 E-value=1.1e+02 Score=31.44 Aligned_cols=53 Identities=15% Similarity=0.127 Sum_probs=23.7
Q ss_pred hhHHHHHHHHHHHHhcCCCCeEEEEchHHHHHHcCCCCCCeEEEEcCCChHHH
Q 009892 75 TETKIFSCLLNTLRHFNLETVLRVAGGWVRDKLLGKDCYDIDIALDNMMGSEF 127 (523)
Q Consensus 75 ~e~~i~~~l~~~~~~~~~~~~~yiVGG~VRD~LLg~~~~DiDi~~~~~~~~~f 127 (523)
.|+.++++++++++.-..=--+++.|--++--.---.-.|+||+.-....+.|
T Consensus 3 te~em~~~Il~~A~~d~rIraV~l~GSR~n~~~~~D~fqDyDIv~~v~d~~~f 55 (282)
T PF04439_consen 3 TEQEMMDLILEFAKQDERIRAVILNGSRANPNAPKDEFQDYDIVYVVTDIESF 55 (282)
T ss_dssp -HHHHHHHHHHHHHH-TTEEEEEE----------------EEEEEEES-HHHH
T ss_pred CHHHHHHHHHHHHhcCCcEEEEEEecCCCCCCCCccccccccEEEEecchhhh
Confidence 58899999999997643212467778888765554556799997654434444
No 64
>TIGR00488 putative HD superfamily hydrolase of NAD metabolism. The function of this protein family is unknown. Members of this family of uncharacterized proteins from the Mycoplasmas are longer at the amino end, fused to a region of nicotinamide nucleotide adenylyltransferase, an NAD salvage biosynthesis enzyme. Members are putative metal-dependent phosphohydrolases for NAD metabolism.
Probab=35.42 E-value=28 Score=32.23 Aligned_cols=16 Identities=6% Similarity=0.142 Sum_probs=13.5
Q ss_pred hhHHHHhccccccccc
Q 009892 363 RRLSQYAALFLPFRNT 378 (523)
Q Consensus 363 ~~ll~LAaLlhpi~k~ 378 (523)
....++|+||||+||.
T Consensus 31 ~e~a~~AGLLHDIGk~ 46 (158)
T TIGR00488 31 SKKAEIAGAYHDLAKF 46 (158)
T ss_pred HHHHHHHHHHHHHhcc
Confidence 4567899999999985
No 65
>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=33.14 E-value=37 Score=27.42 Aligned_cols=41 Identities=20% Similarity=0.124 Sum_probs=25.8
Q ss_pred HHHHHHHHhcCC-CCeEEEEchHHHHHHcCCCCCCeEEEEcCCC
Q 009892 81 SCLLNTLRHFNL-ETVLRVAGGWVRDKLLGKDCYDIDIALDNMM 123 (523)
Q Consensus 81 ~~l~~~~~~~~~-~~~~yiVGG~VRD~LLg~~~~DiDi~~~~~~ 123 (523)
+.+.+.++++.. -..+|+-|-++|..-- +-.||||++-...
T Consensus 5 ~~i~~~l~~~~~~i~~i~LfGS~arg~~~--~~SDiDl~vi~~~ 46 (93)
T cd05403 5 EEILEILRELLGGVEKVYLFGSYARGDAR--PDSDIDLLVIFDD 46 (93)
T ss_pred HHHHHHHHHHhCCccEEEEEeeeecCCCC--CCCCeeEEEEeCC
Confidence 334444443332 4678999998884433 4679999986543
No 66
>KOG2681 consensus Metal-dependent phosphohydrolase [Function unknown]
Probab=32.92 E-value=32 Score=37.42 Aligned_cols=69 Identities=16% Similarity=0.124 Sum_probs=38.7
Q ss_pred HHHHHHHHHcCchhHHhhCCCCCchhhhhhccccccchhhhHHHHHHHhhccC---CCccc--hhHHHHhcccccccccc
Q 009892 305 VKAMTHICGLTLFWIVFKLPLQVEPEVLEGCEMFCTAYLDAAWDLTQLIGSST---FNDDQ--RRLSQYAALFLPFRNTT 379 (523)
Q Consensus 305 ~~~L~lL~~~glL~~if~~Pe~~~~~~~~~~~q~~~~h~~tvdh~l~~l~~~~---~~~e~--~~ll~LAaLlhpi~k~~ 379 (523)
.+-|+.+.++|+...+| |.-. .. ...+|..-.+-+..+.++++..+ +...+ ....-+|+||||+|.|.
T Consensus 51 FqRLr~vkQlGl~~~vy--p~A~---Hs--RfeHsLG~~~lA~~~v~~L~~~q~~El~It~~d~~~vqvA~LLHDIGHGP 123 (498)
T KOG2681|consen 51 FQRLRHVKQLGLRYLVY--PGAN---HS--RFEHSLGTYTLAGILVNALNKNQCPELCITEVDLQAVQVAALLHDIGHGP 123 (498)
T ss_pred HHHHHHHHHhCceeeec--cCCc---cc--hhhhhhhhHHHHHHHHHHHhhcCCCCCCCCHHHHHHHHHHHHHhhcCCCc
Confidence 45688889999998888 7621 11 11122221122234556665431 11122 23456899999999986
Q ss_pred c
Q 009892 380 Y 380 (523)
Q Consensus 380 ~ 380 (523)
+
T Consensus 124 f 124 (498)
T KOG2681|consen 124 F 124 (498)
T ss_pred h
Confidence 5
No 67
>COG1708 Predicted nucleotidyltransferases [General function prediction only]
Probab=30.69 E-value=71 Score=27.32 Aligned_cols=33 Identities=15% Similarity=0.318 Sum_probs=23.6
Q ss_pred HHhcCCCCeEEEEchHHHHHHcCCCCCCeEEEEcC
Q 009892 87 LRHFNLETVLRVAGGWVRDKLLGKDCYDIDIALDN 121 (523)
Q Consensus 87 ~~~~~~~~~~yiVGG~VRD~LLg~~~~DiDi~~~~ 121 (523)
....+.-..+|+.|.++|-.... -.|||+++-.
T Consensus 20 ~~~~~~~~~v~LfGS~arG~~~~--~SDiDv~vv~ 52 (128)
T COG1708 20 EKKLGGDLLIYLFGSYARGDFVK--ESDIDLLVVS 52 (128)
T ss_pred HHhcCCCeEEEEEccCccccccc--CCCeeEEEEc
Confidence 33334457899999999965443 5799998864
No 68
>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=25.72 E-value=1.8e+02 Score=30.26 Aligned_cols=50 Identities=26% Similarity=0.383 Sum_probs=33.7
Q ss_pred cceecChhhHHHHHHHHHHHHhcCCCCeEEEEchHHHHHHcCCC-CCCeEEEEcCC
Q 009892 68 DKIELTDTETKIFSCLLNTLRHFNLETVLRVAGGWVRDKLLGKD-CYDIDIALDNM 122 (523)
Q Consensus 68 ~~i~l~~~e~~i~~~l~~~~~~~~~~~~~yiVGG~VRD~LLg~~-~~DiDi~~~~~ 122 (523)
.+|.+. +-..+.+.+.+.++....+..+-++|++=| |++ +.|+||++...
T Consensus 136 ~ri~r~-ea~~~a~~i~~~l~~~~~~~~v~i~GS~RR----g~et~gDiDilv~~~ 186 (307)
T cd00141 136 QRIPRE-EALAIAEIIKEALREVDPVLQVEIAGSYRR----GKETVGDIDILVTHP 186 (307)
T ss_pred CCeEHH-HHHHHHHHHHHHHHhCCCceEEEEcccccC----CCCccCCEEEEEecC
Confidence 344442 233567777788877655677888887643 554 78999999764
No 69
>PRK10578 hypothetical protein; Provisional
Probab=23.02 E-value=47 Score=32.70 Aligned_cols=15 Identities=40% Similarity=0.565 Sum_probs=13.0
Q ss_pred EEchHHHHHHcCCCC
Q 009892 98 VAGGWVRDKLLGKDC 112 (523)
Q Consensus 98 iVGG~VRD~LLg~~~ 112 (523)
+=||-+||.|+|+.|
T Consensus 41 ~GGG~iRDill~~~P 55 (207)
T PRK10578 41 VGGGTIRDMALDNGP 55 (207)
T ss_pred hhcHHHHHHHcCCCC
Confidence 349999999999876
No 70
>KOG4022 consensus Dihydropteridine reductase DHPR/QDPR [Amino acid transport and metabolism]
Probab=23.02 E-value=1e+02 Score=29.52 Aligned_cols=53 Identities=23% Similarity=0.435 Sum_probs=38.3
Q ss_pred eecccceecChhhHHHHHHHHHHHHhcCCCCeEEEEchHHHHHHcCCCCCCeEEEEcC
Q 009892 64 VQVRDKIELTDTETKIFSCLLNTLRHFNLETVLRVAGGWVRDKLLGKDCYDIDIALDN 121 (523)
Q Consensus 64 ~~~~~~i~l~~~e~~i~~~l~~~~~~~~~~~~~yiVGG~VRD~LLg~~~~DiDi~~~~ 121 (523)
+-+...-..|++|+.+.+..-+.++.......+.++|||- |-..+--|++-|+
T Consensus 45 I~V~~~~swtEQe~~v~~~vg~sL~gekvDav~CVAGGWA-----GGnAksKdl~KNa 97 (236)
T KOG4022|consen 45 ILVDGNKSWTEQEQSVLEQVGSSLQGEKVDAVFCVAGGWA-----GGNAKSKDLVKNA 97 (236)
T ss_pred EEecCCcchhHHHHHHHHHHHHhhcccccceEEEeecccc-----CCCcchhhhhhch
Confidence 4555666789999999999988887655567788999996 5544444555444
No 71
>COG1669 Predicted nucleotidyltransferases [General function prediction only]
Probab=20.26 E-value=1.7e+02 Score=25.43 Aligned_cols=47 Identities=26% Similarity=0.374 Sum_probs=32.4
Q ss_pred HHHHHHHHHHH-hcCCCCeEEEEchHHHHHHcCCCCCCeEEEEcCCChHHH
Q 009892 78 KIFSCLLNTLR-HFNLETVLRVAGGWVRDKLLGKDCYDIDIALDNMMGSEF 127 (523)
Q Consensus 78 ~i~~~l~~~~~-~~~~~~~~yiVGG~VRD~LLg~~~~DiDi~~~~~~~~~f 127 (523)
.++..+...++ .+| -.++.|-|-.+|+- ..+-.||||.|+...+..+
T Consensus 9 ~~lr~~~~~l~~k~g-v~~~~vFGS~aRgE--~~~~SDIDILVef~~~~~l 56 (97)
T COG1669 9 KILRKIKPELKEKYG-VKRVAVFGSYARGE--QKPDSDIDILVEFEPGKTL 56 (97)
T ss_pred HHHHHHHHHHHHHhC-CceEEEeeeeecCC--CCCCCCceeEEeecCCccH
Confidence 44666666666 444 35788999999864 3456899999998765333
Done!