Query 016396
Match_columns 390
No_of_seqs 308 out of 1548
Neff 6.3
Searched_HMMs 46136
Date Fri Mar 29 06:28:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/016396.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/016396hhsearch_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 5.1E-58 1.1E-62 474.4 21.5 277 79-381 15-297 (466)
2 KOG2159 tRNA nucleotidyltransf 100.0 1.1E-56 2.4E-61 446.9 20.2 245 73-326 10-255 (416)
3 PRK11623 pcnB poly(A) polymera 100.0 2E-55 4.3E-60 449.2 23.6 226 71-327 50-287 (472)
4 TIGR01942 pcnB poly(A) polymer 100.0 7.1E-54 1.5E-58 432.6 24.9 224 72-326 14-241 (410)
5 PRK13299 tRNA CCA-pyrophosphor 100.0 8.9E-54 1.9E-58 433.7 24.3 217 81-326 10-228 (394)
6 PRK13298 tRNA CCA-pyrophosphor 100.0 1.2E-52 2.6E-57 424.9 23.2 255 95-380 2-263 (417)
7 COG0617 PcnB tRNA nucleotidylt 100.0 5.3E-53 1.1E-57 430.8 20.7 219 81-326 12-231 (412)
8 PRK10885 cca multifunctional t 100.0 1.9E-51 4.1E-56 418.6 19.9 252 95-381 2-263 (409)
9 PRK13297 tRNA CCA-pyrophosphor 100.0 3.2E-49 7E-54 392.7 23.0 207 92-328 10-221 (364)
10 PRK13296 tRNA CCA-pyrophosphor 100.0 1.5E-47 3.3E-52 378.2 21.1 201 95-327 2-209 (360)
11 cd05398 NT_ClassII-CCAase Nucl 100.0 1.3E-34 2.7E-39 254.7 14.5 130 86-231 10-139 (139)
12 PF01743 PolyA_pol: Poly A pol 100.0 4.7E-34 1E-38 247.0 10.2 124 96-235 1-126 (126)
13 PHA01806 hypothetical protein 99.8 8.6E-20 1.9E-24 165.6 11.1 109 84-215 28-152 (200)
14 PRK03381 PII uridylyl-transfer 99.6 2.9E-16 6.4E-21 172.0 8.9 142 229-380 313-459 (774)
15 PRK00227 glnD PII uridylyl-tra 99.6 3.7E-16 7.9E-21 168.3 8.1 140 229-380 275-419 (693)
16 TIGR01693 UTase_glnD [Protein- 99.6 5.7E-16 1.2E-20 171.6 8.3 142 229-380 319-482 (850)
17 PRK00275 glnD PII uridylyl-tra 99.6 2.4E-15 5.1E-20 167.1 7.5 152 218-380 339-514 (895)
18 PRK03059 PII uridylyl-transfer 99.6 5.6E-15 1.2E-19 163.5 8.4 145 227-380 327-494 (856)
19 PRK05092 PII uridylyl-transfer 99.5 2E-14 4.4E-19 160.5 7.5 140 229-380 384-547 (931)
20 PRK01759 glnD PII uridylyl-tra 99.4 1.1E-13 2.4E-18 153.2 6.2 144 228-380 325-490 (854)
21 PRK05007 PII uridylyl-transfer 99.3 1.7E-12 3.7E-17 144.3 8.1 144 228-380 349-515 (884)
22 PF12627 PolyA_pol_RNAbd: Prob 99.2 2.4E-11 5.1E-16 92.5 5.3 60 262-326 1-60 (64)
23 PRK04374 PII uridylyl-transfer 99.1 1.4E-10 3E-15 128.8 7.9 141 230-380 340-503 (869)
24 COG2844 GlnD UTP:GlnB (protein 98.3 1.1E-06 2.5E-11 95.1 8.5 144 230-382 337-502 (867)
25 PF06042 DUF925: Bacterial pro 96.1 0.069 1.5E-06 48.5 10.6 116 85-236 2-133 (163)
26 cd05402 NT_PAP_TUTase Nucleoti 95.1 0.41 9E-06 39.9 11.3 90 77-175 3-98 (114)
27 COG3575 Uncharacterized protei 95.0 0.16 3.4E-06 46.5 8.8 126 81-237 18-156 (184)
28 cd07749 NT_Pol-beta-like_1 Nuc 94.3 0.33 7.2E-06 43.7 9.2 84 79-175 5-90 (156)
29 PF10706 Aminoglyc_resit: Amin 92.8 0.14 3.1E-06 46.4 4.2 57 77-139 6-65 (174)
30 cd05397 NT_Pol-beta-like Nucle 92.5 0.3 6.6E-06 35.2 4.8 40 79-120 3-42 (49)
31 PF09970 DUF2204: Nucleotidyl 90.2 1.4 3E-05 40.5 8.0 43 80-124 5-49 (181)
32 PF14792 DNA_pol_B_palm: DNA p 88.8 1.3 2.8E-05 37.6 6.2 59 75-137 6-72 (112)
33 COG1078 HD superfamily phospho 83.8 1.3 2.7E-05 46.2 4.2 78 295-380 20-100 (421)
34 TIGR03671 cca_archaeal CCA-add 82.9 6.8 0.00015 40.7 9.1 44 77-121 24-67 (408)
35 PRK13300 tRNA CCA-pyrophosphor 82.1 9.5 0.00021 40.1 9.9 44 77-121 25-68 (447)
36 PRK13480 3'-5' exoribonuclease 80.9 2.5 5.3E-05 42.4 4.9 24 357-380 177-200 (314)
37 PF01909 NTP_transf_2: Nucleot 74.2 4.4 9.4E-05 31.9 3.7 40 83-124 4-43 (93)
38 COG1746 CCA1 tRNA nucleotidylt 67.8 9.5 0.00021 39.7 5.3 92 78-177 30-123 (443)
39 PF01966 HD: HD domain; Inter 66.6 1.8 3.9E-05 35.1 -0.1 20 362-381 24-43 (122)
40 cd05400 NT_2-5OAS_ClassI-CCAas 65.2 88 0.0019 26.7 10.9 74 94-178 28-111 (143)
41 COG4849 Predicted nucleotidylt 58.5 17 0.00036 34.7 4.6 45 94-139 26-78 (269)
42 PF03458 UPF0126: UPF0126 doma 56.5 5.3 0.00011 31.8 0.9 15 98-112 39-53 (80)
43 PF14091 DUF4269: Domain of un 56.0 47 0.001 29.9 6.9 28 110-137 30-57 (152)
44 PF08843 DUF1814: Nucleotidyl 55.3 21 0.00045 32.6 4.9 31 92-122 11-44 (233)
45 PRK12703 tRNA 2'-O-methylase; 53.1 23 0.0005 35.9 5.1 23 69-91 32-54 (339)
46 cd05403 NT_KNTase_like Nucleot 53.0 21 0.00045 27.6 3.9 41 81-123 5-46 (93)
47 TIGR00277 HDIG uncharacterized 49.0 9.2 0.0002 28.7 1.2 16 365-380 29-44 (80)
48 KOG2681 Metal-dependent phosph 48.5 16 0.00035 38.2 3.1 76 297-380 44-124 (498)
49 COG2860 Predicted membrane pro 48.2 8.2 0.00018 36.4 0.9 15 98-112 44-58 (209)
50 cd00077 HDc Metal dependent ph 48.1 8 0.00017 31.3 0.8 19 362-380 27-45 (145)
51 PRK07152 nadD putative nicotin 42.1 59 0.0013 32.7 6.1 31 285-318 155-185 (342)
52 COG1708 Predicted nucleotidylt 41.0 57 0.0012 26.7 4.9 30 90-121 23-52 (128)
53 COG1669 Predicted nucleotidylt 39.8 79 0.0017 26.4 5.4 48 77-127 8-56 (97)
54 cd00141 NT_POLXc Nucleotidyltr 38.8 1E+02 0.0022 30.7 7.0 51 68-123 136-187 (307)
55 smart00471 HDc Metal dependent 38.4 15 0.00033 29.0 1.0 17 364-380 29-45 (124)
56 TIGR03401 cyanamide_fam HD dom 38.2 22 0.00047 34.0 2.1 18 362-379 81-98 (228)
57 COG1418 Predicted HD superfami 34.7 24 0.00053 33.5 1.9 21 362-382 58-78 (222)
58 PF04439 Adenyl_transf: Strept 34.7 1.1E+02 0.0024 30.2 6.5 53 75-127 3-55 (282)
59 COG2206 c-di-GMP phosphodieste 34.3 26 0.00057 35.3 2.1 23 358-380 169-191 (344)
60 TIGR00295 conserved hypothetic 31.1 25 0.00054 31.6 1.2 18 363-380 41-58 (164)
61 PRK10578 hypothetical protein; 29.9 24 0.00052 33.3 0.9 15 98-112 41-55 (207)
62 KOG1573 Aldehyde reductase [Ge 29.6 26 0.00057 32.0 1.1 32 344-379 99-131 (204)
63 TIGR03760 ICE_TraI_Pfluor inte 26.2 27 0.00059 33.1 0.6 15 365-379 107-121 (218)
64 PF14907 NTP_transf_5: Unchara 23.9 2.9E+02 0.0064 25.6 7.2 56 78-140 58-118 (249)
65 TIGR03276 Phn-HD phosphonate d 23.5 62 0.0013 29.9 2.4 16 364-379 44-59 (179)
66 COG4914 Predicted nucleotidylt 23.3 1.4E+02 0.0031 27.3 4.5 30 93-122 21-52 (190)
67 smart00483 POLXc DNA polymeras 22.0 2.3E+02 0.0051 28.4 6.4 45 77-125 148-193 (334)
68 PF07514 TraI_2: Putative heli 21.9 45 0.00098 33.6 1.3 14 367-380 108-121 (327)
69 PRK13746 aminoglycoside resist 21.5 1.8E+02 0.0038 28.5 5.2 40 80-121 13-54 (262)
70 PF05153 DUF706: Family of unk 20.9 61 0.0013 31.5 1.8 35 342-380 63-98 (253)
71 PRK10119 putative hydrolase; P 20.3 73 0.0016 30.5 2.3 16 362-377 47-62 (231)
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=5.1e-58 Score=474.41 Aligned_cols=277 Identities=27% Similarity=0.364 Sum_probs=225.2
Q ss_pred HHHHHHHHHHhcCCCceEEEEcchhhhhhhCCCCCCeEEEEcCCChHHHHHHHHHHHHhcCCcCCCceEEecCCCCCCce
Q 016396 79 IFSCLLNTLRHFNLETVLRVAGGWVRDKLLGKDCYDIDIALDNMMGSEFATKVAEYLSATGETAPSGFGVIPSNPDQSKH 158 (390)
Q Consensus 79 i~~~l~~~l~~~~~~~~~ylVGG~VRD~LLg~~~~DiDia~~~~~~~~f~~~l~~~l~~~g~~~~~~~~vi~~n~~~~~~ 158 (390)
.+..+.+.+++. |+++|+|||||||+|||++|+|+||+|++. ++++.+ .+...+.. ++.. ++.
T Consensus 15 ~~~~i~~~l~~~--g~~~y~VGG~VRD~llg~~~~D~Di~~~~~-~~~~~~----~~~~~~~~------~~~~----g~~ 77 (466)
T TIGR02692 15 LLAPLAAAFAAA--GHELYLVGGSVRDALLGRLGHDLDFTTDAR-PEETLA----ILRPWADA------VWDT----GIA 77 (466)
T ss_pred HHHHHHHHHHhC--CCEEEEeCcHHHHHHcCCCCCCEEEEeCCC-HHHHHH----HHHHhhhh------cccc----Ccc
Confidence 444456666666 478999999999999999999999999985 555444 34322211 1111 345
Q ss_pred eeEEEEEEcCEEEEeeecccccccCCCCCcccccC-CHHHHHhcCCCCccceeeecCCC---ceecCccccHHHhhCCCe
Q 016396 159 LETATMKLYDLWIDFVNLRCEDYSENSRIPTMRFG-TAEEDAYRRDLTINSLFYNINTS---SVEDLTGRGIADLKHGKI 234 (390)
Q Consensus 159 ~~t~~~~~~~~~iD~~~~R~e~y~~~~r~P~v~~g-ti~eDl~RRDFTINAla~~l~~~---~i~D~~g~G~~DL~~~~I 234 (390)
++|+++..+|..+||+++|+|.|..+++.|+|+++ ++++||.||||||||||||++++ .++||+| |++||++|+|
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 79999999999999999999999999999999986 89999999999999999999865 8999998 9999999999
Q ss_pred ecCCCCCcccccChhhHHHHHHHHhhcCCCCcHHHHHHhhcHHHHHHHhccCCHHHHHHHHHHHhcCCCHHHHHHHHHHc
Q 016396 235 VTPLPPKATFLDDPLRVLRAIRFGARFDFILDEELKKAAASDEVKAALAAKISRERVGTEIDLMVSGNQPVKAMTHICGL 314 (390)
Q Consensus 235 R~v~~p~~~F~eDPlRILRa~Rfaarlgf~Id~~T~~ai~~~~~~~~Ll~~vs~ERI~~El~kiL~~~~~~~~L~lL~~~ 314 (390)
|++++|.++|.|||+|||||+|||+++||+|+++|+++|+.. ..++..+|.|||+.||.|+|.++++..+++.|+++
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 999999999999999999999999999999999999999865 34567899999999999999999999999999999
Q ss_pred CcchHHhcCCCCCCcchhhhhhhcccchHHHHHHHHHHhcCC-CCCcccch-hHHHHhhhccccCceee
Q 016396 315 TLFWIVFKLPLQVEPEVLEGCEMFCTAYLDAAWDLTQLIGSS-TFNDDQRR-LSQYAALFLPFRNTTYK 381 (390)
Q Consensus 315 glL~~if~~Pe~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~-l~llAaLlhp~gk~~~~ 381 (390)
|+|..+| ||+..... .+ ..+.++.+.+.|++.++... .+...... ...|||||||+||+.+.
T Consensus 234 glL~~~~--Pe~~~~~~-~~--~~~~h~~~v~~Htl~vl~~~~~l~~~~~~~~l~lAaLLHDiGK~~t~ 297 (466)
T TIGR02692 234 GLADRVL--PEIPALRL-EI--DEHHQHKDVYEHSLTVLRQAIDLEDDGPDLVLRWAALLHDIGKPATR 297 (466)
T ss_pred hhhhhcC--chHHHHhc-cc--ccCCCCCcHHHHHHHHHHHHHhccccccCHHHHHHHHHhhccCCCCc
Confidence 9999999 99644331 11 12334467777888776521 11112222 34599999999999763
No 2
>KOG2159 consensus tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.1e-56 Score=446.91 Aligned_cols=245 Identities=46% Similarity=0.665 Sum_probs=212.7
Q ss_pred ChhhHHHHHHHHHHHHhcCCCceEEEEcchhhhhhhCCCCCCeEEEEcCCChHHHHHHHHHHHHhcCCcCCCceEEecCC
Q 016396 73 TDTETKIFSCLLNTLRHFNLETVLRVAGGWVRDKLLGKDCYDIDIALDNMMGSEFATKVAEYLSATGETAPSGFGVIPSN 152 (390)
Q Consensus 73 ~~~e~~i~~~l~~~l~~~~~~~~~ylVGG~VRD~LLg~~~~DiDia~~~~~~~~f~~~l~~~l~~~g~~~~~~~~vi~~n 152 (390)
+..+..+++.+++.+...| +++|||||||||+|||++|+|+||++++++++ +.+.+..+-...|... +..+++ .|
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 4556677777888777665 89999999999999999999999999999764 4444444333355444 345777 89
Q ss_pred CCCCceeeEEEEEEcCEEEEeeecccccccCCCCCcccccCCHHHHHhcCCCCccceeeecCCCceecCccccHHHhhCC
Q 016396 153 PDQSKHLETATMKLYDLWIDFVNLRCEDYSENSRIPTMRFGTAEEDAYRRDLTINSLFYNINTSSVEDLTGRGIADLKHG 232 (390)
Q Consensus 153 ~~~~~~~~t~~~~~~~~~iD~~~~R~e~y~~~~r~P~v~~gti~eDl~RRDFTINAla~~l~~~~i~D~~g~G~~DL~~~ 232 (390)
|++++|.+|+++++++..+||+++|.|.|+..+ +|.+++++.++|+.|||||||+++||+.+|.|+|++| |++||+++
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 CeecCCCCCcccccChhhHHHHHHHHhhcCCCCcHHHHHHhhcHHHHHHHhccCCHHHHHHHHHHHhcCCCHHHHHHHHH
Q 016396 233 KIVTPLPPKATFLDDPLRVLRAIRFGARFDFILDEELKKAAASDEVKAALAAKISRERVGTEIDLMVSGNQPVKAMTHIC 312 (390)
Q Consensus 233 ~IR~v~~p~~~F~eDPlRILRa~Rfaarlgf~Id~~T~~ai~~~~~~~~Ll~~vs~ERI~~El~kiL~~~~~~~~L~lL~ 312 (390)
+||+|+++.++|.|||+||||++|||+|+||+|++++.+++...++..++.+++|+|||+.|+.|||.++++..+|++|+
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 99999999999999999999999999999999977766666555556788899999999999999999999999999999
Q ss_pred H-cCcchHHhcCCCC
Q 016396 313 G-LTLFWIVFKLPLQ 326 (390)
Q Consensus 313 ~-~glL~~if~~Pe~ 326 (390)
+ .++...++ |-.
T Consensus 243 ~~~~~~~i~l--p~~ 255 (416)
T KOG2159|consen 243 RLFGFEYIFL--PIE 255 (416)
T ss_pred HhcCceEEec--cch
Confidence 9 55554444 653
No 3
>PRK11623 pcnB poly(A) polymerase I; Provisional
Probab=100.00 E-value=2e-55 Score=449.15 Aligned_cols=226 Identities=29% Similarity=0.442 Sum_probs=194.2
Q ss_pred ecChhhHHHHHHHHHHHHhcCCCceEEEEcchhhhhhhCCCCCCeEEEEcCCChHHHHHHHHHHHHhcCCcCCCceEEec
Q 016396 71 ELTDTETKIFSCLLNTLRHFNLETVLRVAGGWVRDKLLGKDCYDIDIALDNMMGSEFATKVAEYLSATGETAPSGFGVIP 150 (390)
Q Consensus 71 ~l~~~e~~i~~~l~~~l~~~~~~~~~ylVGG~VRD~LLg~~~~DiDia~~~~~~~~f~~~l~~~l~~~g~~~~~~~~vi~ 150 (390)
.+++.-.++++ .|++. |+++|||||||||+|||++|+|+||+|++. + +++.+.|... ..|
T Consensus 50 ~i~~~a~~Vl~----~L~~~--G~eaYLVGG~VRDlLLG~~pkD~DIaT~A~-p----eev~~lf~~~--------r~i- 109 (472)
T PRK11623 50 DISENALKVLY----RLNKA--GYEAYLVGGGVRDLLLGKKPKDFDVTTNAT-P----EQVRKLFRNC--------RLV- 109 (472)
T ss_pred cCCHHHHHHHH----HHHHC--CCeEEEeChHHHHHHcCCCCCCEEEecCCC-H----HHHHHHhhhC--------eee-
Confidence 55666556544 45555 578999999999999999999999999985 4 4455555421 112
Q ss_pred CCCCCCceeeEEEEEEcCEEEEeeecccccccCCCCCcc------------cccCCHHHHHhcCCCCccceeeecCCCce
Q 016396 151 SNPDQSKHLETATMKLYDLWIDFVNLRCEDYSENSRIPT------------MRFGTAEEDAYRRDLTINSLFYNINTSSV 218 (390)
Q Consensus 151 ~n~~~~~~~~t~~~~~~~~~iD~~~~R~e~y~~~~r~P~------------v~~gti~eDl~RRDFTINAla~~l~~~~i 218 (390)
++.|+++.+.+++..+||+++|++.+..+++.|. +.+||++|||.||||||||||||+.++.|
T Consensus 110 -----GrrF~~~hV~~~~~~iEVaTfR~~~~~~~~~~~~~~~~~~g~~~rdn~~gtieeDl~RRDFTINALayd~~~~~I 184 (472)
T PRK11623 110 -----GRRFRLAHVMFGPEIIEVATFRGHHEGNESDRNTSQRGQNGMLLRDNIFGSIEEDAQRRDFTINSLYYSVADFTV 184 (472)
T ss_pred -----cCCCCEEEEEECCceEEEeccccccccccccccccccCCCCceecccCCCCHHHHHHhccccHHHheecCCCCeE
Confidence 3467888999999999999999987665554442 35789999999999999999999999999
Q ss_pred ecCccccHHHhhCCCeecCCCCCcccccChhhHHHHHHHHhhcCCCCcHHHHHHhhcHHHHHHHhccCCHHHHHHHHHHH
Q 016396 219 EDLTGRGIADLKHGKIVTPLPPKATFLDDPLRVLRAIRFGARFDFILDEELKKAAASDEVKAALAAKISRERVGTEIDLM 298 (390)
Q Consensus 219 ~D~~g~G~~DL~~~~IR~v~~p~~~F~eDPlRILRa~Rfaarlgf~Id~~T~~ai~~~~~~~~Ll~~vs~ERI~~El~ki 298 (390)
+||+| |++||++|+||++|+|.++|.|||+|||||+|||++|||+|+++|.++|+.. ..++.++|+|||++|+.||
T Consensus 185 iD~~g-G~~DLk~riLR~IGdp~~rf~EDPlRmLRAvRFAArLgF~Ie~~T~~aI~~~---a~lL~~vs~eRI~~El~Kl 260 (472)
T PRK11623 185 RDYVG-GMKDLKEGVIRLIGNPETRYREDPVRMLRAVRFAAKLDMRISPETAEPIPRL---ATLLNDIPPARLFEESLKL 260 (472)
T ss_pred ecCCC-CHHHHhCCceeecCChHhhcccchHHHHHHHHHHHHhCCCcCHHHHHHHHHH---HHHhhcCCHHHHHHHHHHH
Confidence 99998 9999999999999999999999999999999999999999999999999864 5677899999999999999
Q ss_pred hcCCCHHHHHHHHHHcCcchHHhcCCCCC
Q 016396 299 VSGNQPVKAMTHICGLTLFWIVFKLPLQV 327 (390)
Q Consensus 299 L~~~~~~~~L~lL~~~glL~~if~~Pe~~ 327 (390)
|.++++..++++|.++|+|..+| |+..
T Consensus 261 L~~~~~~~~~~lL~e~GLl~~lf--Pel~ 287 (472)
T PRK11623 261 LQAGYGYETYKLLCEYHLFQPLF--PTIT 287 (472)
T ss_pred HcCCCHHHHHHHHHHcCCHHHHh--HhHH
Confidence 99999999999999999999999 8843
No 4
>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=7.1e-54 Score=432.61 Aligned_cols=224 Identities=26% Similarity=0.463 Sum_probs=193.3
Q ss_pred cChhhHHHHHHHHHHHHhcCCCceEEEEcchhhhhhhCCCCCCeEEEEcCCChHHHHHHHHHHHHhcCCcCCCceEEecC
Q 016396 72 LTDTETKIFSCLLNTLRHFNLETVLRVAGGWVRDKLLGKDCYDIDIALDNMMGSEFATKVAEYLSATGETAPSGFGVIPS 151 (390)
Q Consensus 72 l~~~e~~i~~~l~~~l~~~~~~~~~ylVGG~VRD~LLg~~~~DiDia~~~~~~~~f~~~l~~~l~~~g~~~~~~~~vi~~ 151 (390)
+++...++++. |++. |+++|||||||||+|||++|+|+||+|++. + +++.+.|... ..+
T Consensus 14 i~~~a~~Vl~~----L~~~--G~~aYlVGG~VRDlLLG~~pkD~DIat~a~-p----eei~~lf~~~--------~~i-- 72 (410)
T TIGR01942 14 FSAHALNVVER----LKGA--GYQAYIVGGAVRDLLLGIEPKDFDVVTSAT-P----EEVRKLFRNS--------RIV-- 72 (410)
T ss_pred CCHHHHHHHHH----HHHC--CCcEEEECHHHHHHHcCCCCCCEEEEcCCC-H----HHHHHHhhhC--------eec--
Confidence 56777776554 4444 578999999999999999999999999885 4 4455555421 112
Q ss_pred CCCCCceeeEEEEEEcCEEEEeeecccccc---cCCCCCcc-cccCCHHHHHhcCCCCccceeeecCCCceecCccccHH
Q 016396 152 NPDQSKHLETATMKLYDLWIDFVNLRCEDY---SENSRIPT-MRFGTAEEDAYRRDLTINSLFYNINTSSVEDLTGRGIA 227 (390)
Q Consensus 152 n~~~~~~~~t~~~~~~~~~iD~~~~R~e~y---~~~~r~P~-v~~gti~eDl~RRDFTINAla~~l~~~~i~D~~g~G~~ 227 (390)
++.|+++.+.+++..+||+++|+|.+ ..+|+.+. ..+||+++||.||||||||||||+.+++|+||+| |++
T Consensus 73 ----G~rf~~~~v~~~~~~iEvatfR~~~~~~~~~~g~~~~d~~~gtieeDl~RRDFTINALayd~~~~~IiD~~g-G~~ 147 (410)
T TIGR01942 73 ----GRRFRLVHVSFGRQIIEVATFRSGHKSSVNAEGRILKDNVYGTLEEDAWRRDFTVNALYYDPSREVIIDYVG-GME 147 (410)
T ss_pred ----CCCCCEEEEEECCEEEEEecccccccCCCCCCCCcccccccCCHHHHhhcCCchhhheeecCCCCeeeCCCC-cHH
Confidence 35678999999999999999999753 34566555 4568999999999999999999999999999997 999
Q ss_pred HhhCCCeecCCCCCcccccChhhHHHHHHHHhhcCCCCcHHHHHHhhcHHHHHHHhccCCHHHHHHHHHHHhcCCCHHHH
Q 016396 228 DLKHGKIVTPLPPKATFLDDPLRVLRAIRFGARFDFILDEELKKAAASDEVKAALAAKISRERVGTEIDLMVSGNQPVKA 307 (390)
Q Consensus 228 DL~~~~IR~v~~p~~~F~eDPlRILRa~Rfaarlgf~Id~~T~~ai~~~~~~~~Ll~~vs~ERI~~El~kiL~~~~~~~~ 307 (390)
||++|+||++++|.++|.|||+|||||+|||++|||+|+++|.++|+.. ..++.++|+|||++|+.|+|.++++..+
T Consensus 148 DL~~~~LR~igdp~~rf~EDPlRiLRAvRFaa~LgF~Ie~~T~~~I~~~---a~~L~~vs~eRI~~El~Kll~~~~~~~~ 224 (410)
T TIGR01942 148 DLKNRRLRLIGDPRSRYQEDPVRMLRALRFSVKLEFTIDESTARPIRES---APLLKGIPPARLFEEILKLLFSGRSAAL 224 (410)
T ss_pred HHHCCceeecCChhhcccccHHHHHHHHHHHHHhCCCcCHHHHHHHHHH---HHHHhcCCHHHHHHHHHHHHcCCCHHHH
Confidence 9999999999999999999999999999999999999999999999864 4567899999999999999999999999
Q ss_pred HHHHHHcCcchHHhcCCCC
Q 016396 308 MTHICGLTLFWIVFKLPLQ 326 (390)
Q Consensus 308 L~lL~~~glL~~if~~Pe~ 326 (390)
+++|.++|++..+| |+.
T Consensus 225 l~~L~~~gll~~lf--Pel 241 (410)
T TIGR01942 225 FRMLCGYQLLEPLF--PSV 241 (410)
T ss_pred HHHHHHcCCHHHHh--HhH
Confidence 99999999999999 884
No 5
>PRK13299 tRNA CCA-pyrophosphorylase; Provisional
Probab=100.00 E-value=8.9e-54 Score=433.72 Aligned_cols=217 Identities=29% Similarity=0.359 Sum_probs=188.5
Q ss_pred HHHHHHHHhcCCCceEEEEcchhhhhhhCCCCCCeEEEEcCCChHHHHHHHHHHHHhcCCcCCCceEEecCCCCCCceee
Q 016396 81 SCLLNTLRHFNLETVLRVAGGWVRDKLLGKDCYDIDIALDNMMGSEFATKVAEYLSATGETAPSGFGVIPSNPDQSKHLE 160 (390)
Q Consensus 81 ~~l~~~l~~~~~~~~~ylVGG~VRD~LLg~~~~DiDia~~~~~~~~f~~~l~~~l~~~g~~~~~~~~vi~~n~~~~~~~~ 160 (390)
..+++.+++. |+++|+|||||||+|||++|+|+||+|++. +++ +.+.+... . . .+++++
T Consensus 10 ~~i~~~l~~~--g~~~ylVGG~VRD~LLg~~~~DiDi~~~~~-~~~----~~~~~~~~---~-------~----~g~~~g 68 (394)
T PRK13299 10 LPILEKIKEA--GFEAYFVGGSVRDYLLGRPIHDVDIATSAY-PEE----VKAIFPRT---V-------D----VGIEHG 68 (394)
T ss_pred HHHHHHHHHc--CCeEeeccchHHHHHcCCCCCCEEEecCCC-HHH----HHHHhhhh---h-------h----ccccCC
Confidence 3456677766 478999999999999999999999999884 444 44444311 0 0 124568
Q ss_pred EEEEEEcCEEEEeeecccccccCCCCCcc-ccc-CCHHHHHhcCCCCccceeeecCCCceecCccccHHHhhCCCeecCC
Q 016396 161 TATMKLYDLWIDFVNLRCEDYSENSRIPT-MRF-GTAEEDAYRRDLTINSLFYNINTSSVEDLTGRGIADLKHGKIVTPL 238 (390)
Q Consensus 161 t~~~~~~~~~iD~~~~R~e~y~~~~r~P~-v~~-gti~eDl~RRDFTINAla~~l~~~~i~D~~g~G~~DL~~~~IR~v~ 238 (390)
|+++..+|..+||+++|+|.++.++++|. |.+ +++++||.|||||||||||+++ |.++||+| |++||++|+||+++
T Consensus 69 t~~v~~~~~~~ei~t~R~e~~~~d~~~p~~~~~~~~i~eDl~RRDFTINAma~~~~-g~liDpf~-G~~DL~~~~iR~v~ 146 (394)
T PRK13299 69 TVLVLENGEEYEVTTFRTESEYVDYRRPSEVTFVRSLEEDLKRRDFTINAIAMDEN-GEIIDLFD-GLEDLKNRLIRAVG 146 (394)
T ss_pred EEEEEECCEEEEEEeeccccCccCCCCCccccCCCCHHHHHHhccccHHHhhcCCC-CCEeeCCC-CHHHHhCCceeecC
Confidence 99999999999999999997777888886 666 5999999999999999999995 78999998 99999999999999
Q ss_pred CCCcccccChhhHHHHHHHHhhcCCCCcHHHHHHhhcHHHHHHHhccCCHHHHHHHHHHHhcCCCHHHHHHHHHHcCcch
Q 016396 239 PPKATFLDDPLRVLRAIRFGARFDFILDEELKKAAASDEVKAALAAKISRERVGTEIDLMVSGNQPVKAMTHICGLTLFW 318 (390)
Q Consensus 239 ~p~~~F~eDPlRILRa~Rfaarlgf~Id~~T~~ai~~~~~~~~Ll~~vs~ERI~~El~kiL~~~~~~~~L~lL~~~glL~ 318 (390)
+|.++|.|||+|||||+|||++|||+|+++|+++|+.. ..++..+|+|||+.|+.|+|.++++..+++.|.++|++.
T Consensus 147 ~~~~~f~eDplRiLRa~Rfaa~l~f~i~~~t~~~i~~~---~~~l~~vs~eRI~~El~kll~~~~~~~~l~~l~~~gll~ 223 (394)
T PRK13299 147 NAEERFQEDALRMMRAVRFASQLGFDLETETFEAMKTQ---APLLEKISVERIFVEFEKLLLGPFWRKGLKLLIETGLYN 223 (394)
T ss_pred CHHHhhccCHHHHHHHHHHHHHHCCCCCHHHHHHHHHH---HHHHhcCCHHHHHHHHHHHHcCCCHHHHHHHHHHCChHH
Confidence 99899999999999999999999999999999999875 456789999999999999999999999999999999998
Q ss_pred HHhcCCCC
Q 016396 319 IVFKLPLQ 326 (390)
Q Consensus 319 ~if~~Pe~ 326 (390)
. | |+.
T Consensus 224 ~-~--p~l 228 (394)
T PRK13299 224 Y-L--PGL 228 (394)
T ss_pred h-C--ccc
Confidence 7 7 885
No 6
>PRK13298 tRNA CCA-pyrophosphorylase; Provisional
Probab=100.00 E-value=1.2e-52 Score=424.92 Aligned_cols=255 Identities=20% Similarity=0.136 Sum_probs=194.0
Q ss_pred eEEEEcchhhhhhhCCCCCCeEEEEcCCChHHHHHHHHHHHHhcCCcCCCceEEecCCCCCCceeeEEEEEEcCEEEEee
Q 016396 95 VLRVAGGWVRDKLLGKDCYDIDIALDNMMGSEFATKVAEYLSATGETAPSGFGVIPSNPDQSKHLETATMKLYDLWIDFV 174 (390)
Q Consensus 95 ~~ylVGG~VRD~LLg~~~~DiDia~~~~~~~~f~~~l~~~l~~~g~~~~~~~~vi~~n~~~~~~~~t~~~~~~~~~iD~~ 174 (390)
++|+|||||||.|||++++|+|++|++..++++. ...+...|.. |++.. ..+...|++
T Consensus 2 ~~YlVGGaVRD~LLg~~~~D~D~vv~g~~~~~~~---~~~~~~vG~~-----------------f~v~l--~~~~~~e~a 59 (417)
T PRK13298 2 KIYLVGGAVRDSLLNLPVKDKDWVVVGGTPKILL---SINFQQVGKD-----------------FPVFL--HPETHEEYA 59 (417)
T ss_pred cEEEEccHHHHHHcCCCCCCeeEEecCCCHHHHH---HHHHHHhCCe-----------------eEEEE--eCceeEEEE
Confidence 6899999999999999999999999887655432 2223333322 22222 123456889
Q ss_pred ecccccccCCCCC---cccc-cCCHHHHHhcCCCCccceeeecCCCceecCccccHHHhhCCCeecCCCCCcccccChhh
Q 016396 175 NLRCEDYSENSRI---PTMR-FGTAEEDAYRRDLTINSLFYNINTSSVEDLTGRGIADLKHGKIVTPLPPKATFLDDPLR 250 (390)
Q Consensus 175 ~~R~e~y~~~~r~---P~v~-~gti~eDl~RRDFTINAla~~l~~~~i~D~~g~G~~DL~~~~IR~v~~p~~~F~eDPlR 250 (390)
.+|+|.|+++|.. +.+. ..|++|||.||||||||||||+. |.++||+| |++||++|+||+++ ++|.|||+|
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 9999988776543 2232 25999999999999999999985 77999997 99999999999995 379999999
Q ss_pred HHHHHHHHhhc---CCCCcHHHHHHhhcHHHHHHHhccCCHHHHHHHHHHHhcCCCHHHHHHHHHHcCcchHHhcCCCCC
Q 016396 251 VLRAIRFGARF---DFILDEELKKAAASDEVKAALAAKISRERVGTEIDLMVSGNQPVKAMTHICGLTLFWIVFKLPLQV 327 (390)
Q Consensus 251 ILRa~Rfaarl---gf~Id~~T~~ai~~~~~~~~Ll~~vs~ERI~~El~kiL~~~~~~~~L~lL~~~glL~~if~~Pe~~ 327 (390)
||||+|||++| ||+|+++|.++|+.. .....+..+|+||||.|+.|+|.+++|..+++.|.++|+|..+| ||..
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 22356689999999999999999999999999999999999999 9965
Q ss_pred CcchhhhhhhcccchHHHHHHHHHHhcCCCCCcccchhHHHHhhhccccCcee
Q 016396 328 EPEVLEGCEMFCTAYLDAAWDLTQLIGSSTFNDDQRRLSQYAALFLPFRNTTY 380 (390)
Q Consensus 328 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~l~llAaLlhp~gk~~~ 380 (390)
.....++......++.+.+.|++.++..... ...+..+.|||||||+||+.+
T Consensus 212 ~~~g~~q~~~~~~~~~d~~~htl~~l~~~~~-~~~~l~lR~AaLlHDiGK~~t 263 (417)
T PRK13298 212 FLYEKPYFLNSFFKKFNLGNYILMGLSKISK-LTKDIDIRFSYLCQFLGSMIP 263 (417)
T ss_pred HHcCCCCCccccCCchhHHHHHHHHHHHHHh-cCCCHHHHHHHHHhhhcCCCC
Confidence 4433332210112335666677776653210 011233459999999999864
No 7
>COG0617 PcnB tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=5.3e-53 Score=430.76 Aligned_cols=219 Identities=34% Similarity=0.473 Sum_probs=188.9
Q ss_pred HHHHHHHHhcCCCceEEEEcchhhhhhhCCCCCCeEEEEcCCChHHHHHHHHHHHHhcCCcCCCceEEecCCCCCCceee
Q 016396 81 SCLLNTLRHFNLETVLRVAGGWVRDKLLGKDCYDIDIALDNMMGSEFATKVAEYLSATGETAPSGFGVIPSNPDQSKHLE 160 (390)
Q Consensus 81 ~~l~~~l~~~~~~~~~ylVGG~VRD~LLg~~~~DiDia~~~~~~~~f~~~l~~~l~~~g~~~~~~~~vi~~n~~~~~~~~ 160 (390)
..+++.++..| +++|+|||||||+|||++++|+||||++. +++ +.+.+... .+. ++.|+
T Consensus 12 ~~v~~~l~~~g--~eaylVGGaVRD~LLG~~~~D~Diat~~~-p~~----~~~~~~~~---~~~-----------G~~f~ 70 (412)
T COG0617 12 LKVLSKLKEAG--YEAYLVGGAVRDLLLGRPPKDVDIATNAT-PEE----VKKLFRNT---RPV-----------GRKFG 70 (412)
T ss_pred HHHHHHHHhCC--CeEEEeCcHHHHHHcCCCCcceeeeCCCC-CHH----HHHHHhhh---hhh-----------hhhcC
Confidence 34455565554 89999999999999999999999999997 444 44444310 001 24578
Q ss_pred EEEEEEcCEEEEeeecccccccCCCCC-cccccCCHHHHHhcCCCCccceeeecCCCceecCccccHHHhhCCCeecCCC
Q 016396 161 TATMKLYDLWIDFVNLRCEDYSENSRI-PTMRFGTAEEDAYRRDLTINSLFYNINTSSVEDLTGRGIADLKHGKIVTPLP 239 (390)
Q Consensus 161 t~~~~~~~~~iD~~~~R~e~y~~~~r~-P~v~~gti~eDl~RRDFTINAla~~l~~~~i~D~~g~G~~DL~~~~IR~v~~ 239 (390)
|+++..+|..+|++++|+|.|...++. |.+.++|+++||.||||||||||||+.+|+|+||+| |+.||++|+||++++
T Consensus 71 t~~v~~~~~~~ev~T~R~~~~~~~~~~~~~~~~~tleeDl~RRDFTINAla~~~~~~~iiD~~g-G~~DL~~~~lR~i~~ 149 (412)
T COG0617 71 TVTVPFNGEIIEVTTFRKEGYGYNGRPLPVVFPGTLEEDLKRRDFTINALAYDPEDGEIIDPFG-GLKDLENRVLRHIGD 149 (412)
T ss_pred eEEeccCCEEEEEEEeecCCCCcCCCcCCcCCCCCHHHHHHHhcccHHhhccCCCCCeEEeCCC-CHHHHhcCceeccCC
Confidence 999998889999999999998555554 446668999999999999999999999999999998 999999999999999
Q ss_pred CCcccccChhhHHHHHHHHhhcCCCCcHHHHHHhhcHHHHHHHhccCCHHHHHHHHHHHhcCCCHHHHHHHHHHcCcchH
Q 016396 240 PKATFLDDPLRVLRAIRFGARFDFILDEELKKAAASDEVKAALAAKISRERVGTEIDLMVSGNQPVKAMTHICGLTLFWI 319 (390)
Q Consensus 240 p~~~F~eDPlRILRa~Rfaarlgf~Id~~T~~ai~~~~~~~~Ll~~vs~ERI~~El~kiL~~~~~~~~L~lL~~~glL~~ 319 (390)
|+++|.|||+||||++|||++|||.++++|.++|+.. ..++..+|+|||+.|+.|||.+++|..++++|.++|++..
T Consensus 150 ~~~rf~EDplRiLRa~RFaa~l~f~i~~~t~~~i~~~---~~~~~~is~ERi~~El~KlL~~~~~~~~l~~l~~~g~l~~ 226 (412)
T COG0617 150 ASERFREDPLRILRAARFAARLGFTIEPETEEAIRLM---APLLAKISRERLWDELKKLLLSPNPREALQLLREYGALKI 226 (412)
T ss_pred HHHhcccchHHHHHHHHHHHHcCCCCChhHHHHHHHH---HHHhhcCCHHHHHHHHHHHHcCCCHHHHHHHHHHcCChhh
Confidence 9999999999999999999999999999999999864 4455679999999999999999999999999999999999
Q ss_pred HhcCCCC
Q 016396 320 VFKLPLQ 326 (390)
Q Consensus 320 if~~Pe~ 326 (390)
+| |+.
T Consensus 227 l~--p~~ 231 (412)
T COG0617 227 LF--PEL 231 (412)
T ss_pred cC--hhH
Confidence 99 874
No 8
>PRK10885 cca multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed
Probab=100.00 E-value=1.9e-51 Score=418.57 Aligned_cols=252 Identities=23% Similarity=0.214 Sum_probs=192.8
Q ss_pred eEEEEcchhhhhhhCCCCCCeEEEEcCCChHHHHHHHHHHHHhcCCcCCCceEEecCCCCCCceeeEEEEEEcCEEEEee
Q 016396 95 VLRVAGGWVRDKLLGKDCYDIDIALDNMMGSEFATKVAEYLSATGETAPSGFGVIPSNPDQSKHLETATMKLYDLWIDFV 174 (390)
Q Consensus 95 ~~ylVGG~VRD~LLg~~~~DiDia~~~~~~~~f~~~l~~~l~~~g~~~~~~~~vi~~n~~~~~~~~t~~~~~~~~~iD~~ 174 (390)
++|+|||||||+|||++|+|+||+|++..++++.. ..+... ++.|++. ...+...|++
T Consensus 2 ~~ylVGG~VRD~Llg~~~~D~D~vv~~~~~~~~~~---~~~~~~-----------------g~~f~v~--~~~~~~~e~~ 59 (409)
T PRK10885 2 KIYLVGGAVRDALLGLPVKDRDWVVVGATPEEMLA---QGYQQV-----------------GKDFPVF--LHPKTHEEYA 59 (409)
T ss_pred cEEEeccHHHHHHcCCCCCCeeEEeeCChHHHHHh---CCCeec-----------------CceeEEE--EeCCceEEEE
Confidence 68999999999999999999999988765543211 101111 2334433 2234567999
Q ss_pred ecccccccCCCCCcc-cc---cCCHHHHHhcCCCCccceeeecCCCceecCccccHHHhhCCCeecCCCCCcccccChhh
Q 016396 175 NLRCEDYSENSRIPT-MR---FGTAEEDAYRRDLTINSLFYNINTSSVEDLTGRGIADLKHGKIVTPLPPKATFLDDPLR 250 (390)
Q Consensus 175 ~~R~e~y~~~~r~P~-v~---~gti~eDl~RRDFTINAla~~l~~~~i~D~~g~G~~DL~~~~IR~v~~p~~~F~eDPlR 250 (390)
.+|+|.|+++|...- +. ..|++|||.||||||||||||. +|.++||+| |++||++|+||++++ +|.|||+|
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 999999887765321 11 1499999999999999999995 688999997 999999999999964 69999999
Q ss_pred HHHHHHHHhhc---CCCCcHHHHHHhhcHHHHHHHhccCCHHHHHHHHHHHhcCCCHHHHHHHHHHcCcchHHhcCCCCC
Q 016396 251 VLRAIRFGARF---DFILDEELKKAAASDEVKAALAAKISRERVGTEIDLMVSGNQPVKAMTHICGLTLFWIVFKLPLQV 327 (390)
Q Consensus 251 ILRa~Rfaarl---gf~Id~~T~~ai~~~~~~~~Ll~~vs~ERI~~El~kiL~~~~~~~~L~lL~~~glL~~if~~Pe~~ 327 (390)
|||++|||++| ||+|+++|+.+|+... ....+..+++||||.|+.|+|.+++|..+++.|+++|+|..+| ||+.
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 VLRVARFAARFAHLGFRIAPETLALMREMV-ASGELDALTPERVWKETERALMERNPQVFFQVLRDCGALAVLL--PEID 211 (409)
T ss_pred HHHHHHHHHHhccCCCCcCHHHHHHHHHhh-hhchhhhCCHHHHHHHHHHHHcCCCHHHHHHHHHHhhHHHHHh--hHHH
Confidence 99999999999 9999999999998642 2225667999999999999999999999999999999999999 9964
Q ss_pred Ccchhhhhhhcccch--HHHHHHHHHHhcCC-CCCcccchhHHHHhhhccccCceee
Q 016396 328 EPEVLEGCEMFCTAY--LDAAWDLTQLIGSS-TFNDDQRRLSQYAALFLPFRNTTYK 381 (390)
Q Consensus 328 ~~~~~~~~~~~~~~~--~~~~~~~~~~l~~~-~~~~~~~~l~llAaLlhp~gk~~~~ 381 (390)
......+ ...+| ++...|++.++... ..+ ....+.|||||||+||+.+.
T Consensus 212 ~l~~~~Q---~~~~H~e~dv~~Htl~~l~~~~~l~--~~l~lr~AaLlHDlGK~~t~ 263 (409)
T PRK10885 212 ALFGVPQ---PAKWHPEIDTGIHTLMVLDQAAKLS--PSLDVRFAALCHDLGKGLTP 263 (409)
T ss_pred HHhcCCC---CcCCCCCCcHHHHHHHHHHHHHhcC--CCHHHHHHHHhccccCCCCC
Confidence 4332222 22233 45667777766421 111 12245589999999998753
No 9
>PRK13297 tRNA CCA-pyrophosphorylase; Provisional
Probab=100.00 E-value=3.2e-49 Score=392.74 Aligned_cols=207 Identities=25% Similarity=0.274 Sum_probs=171.1
Q ss_pred CCceEEEEcchhhhhhhCCCCCCeEEEEcCCChHHHHHHHHHHHHhcCCcCCCceEEecCCCCCCceeeEEEEEEcCEEE
Q 016396 92 LETVLRVAGGWVRDKLLGKDCYDIDIALDNMMGSEFATKVAEYLSATGETAPSGFGVIPSNPDQSKHLETATMKLYDLWI 171 (390)
Q Consensus 92 ~~~~~ylVGG~VRD~LLg~~~~DiDia~~~~~~~~f~~~l~~~l~~~g~~~~~~~~vi~~n~~~~~~~~t~~~~~~~~~i 171 (390)
.|.++|+|||||||+|||++++|+|++|++.+++++.+ . +.. .+ ++.|.+. ...+..+
T Consensus 10 ~G~~~YlVGGaVRD~LLg~~~~D~D~vv~ga~pe~l~~----~----~~~-----~v-------G~~f~v~--l~~~~~~ 67 (364)
T PRK13297 10 AGLQVYIVGGAVRDALLGLPAGDRDWVVVGATPEDMAR----R----GFI-----PV-------GGDFPVF--LHPRTKE 67 (364)
T ss_pred CCCEEEEeCcHHHHHHcCCCCCCeeeeccCChHHHHHh----c----Cce-----ee-------CCEEEEE--EeCCceE
Confidence 46899999999999999999999999887765554332 1 100 00 1223321 2234567
Q ss_pred EeeecccccccCCCCCccccc----CCHHHHHhcCCCCccceeeecCCCceecCccccHHHhhCCCeecCCCCCcccccC
Q 016396 172 DFVNLRCEDYSENSRIPTMRF----GTAEEDAYRRDLTINSLFYNINTSSVEDLTGRGIADLKHGKIVTPLPPKATFLDD 247 (390)
Q Consensus 172 D~~~~R~e~y~~~~r~P~v~~----gti~eDl~RRDFTINAla~~l~~~~i~D~~g~G~~DL~~~~IR~v~~p~~~F~eD 247 (390)
|++.+|+|.|+++|..+.+.. .|++|||.||||||||||||.. |.++||+| |++||++|+||+++ ++|.||
T Consensus 68 e~a~aRterk~g~g~~~f~~~~~~~~tLeeDL~RRDFTINAmA~~~~-g~liDpfg-G~~DL~~riLR~v~---~~F~ED 142 (364)
T PRK13297 68 EYALARTERKSGRGYKGFTFYTGADVTLEQDLQRRDLTVNAIARTPQ-GELVDPLD-GVADVRARVLRHVG---EAFAED 142 (364)
T ss_pred EEEEEEEeeccCCCCceeEEeCCCCCCHHHHHHhccceeeeeEECCC-CCEEECCC-CHHHHhCCCeeeCc---cccccC
Confidence 999999999999888765443 3999999999999999999974 78999997 99999999999996 389999
Q ss_pred hhhHHHHHHHHhhcC-CCCcHHHHHHhhcHHHHHHHhccCCHHHHHHHHHHHhcCCCHHHHHHHHHHcCcchHHhcCCCC
Q 016396 248 PLRVLRAIRFGARFD-FILDEELKKAAASDEVKAALAAKISRERVGTEIDLMVSGNQPVKAMTHICGLTLFWIVFKLPLQ 326 (390)
Q Consensus 248 PlRILRa~Rfaarlg-f~Id~~T~~ai~~~~~~~~Ll~~vs~ERI~~El~kiL~~~~~~~~L~lL~~~glL~~if~~Pe~ 326 (390)
|+||||++|||++|| |+|+++|.++|+.. +....+..+|+||||.|+.|+|.+++|..+++.|.++|+|..+| ||.
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 22234578999999999999999999999999999999999999 995
Q ss_pred CC
Q 016396 327 VE 328 (390)
Q Consensus 327 ~~ 328 (390)
..
T Consensus 220 ~~ 221 (364)
T PRK13297 220 HD 221 (364)
T ss_pred cc
Confidence 43
No 10
>PRK13296 tRNA CCA-pyrophosphorylase; Provisional
Probab=100.00 E-value=1.5e-47 Score=378.16 Aligned_cols=201 Identities=28% Similarity=0.363 Sum_probs=166.2
Q ss_pred eEEEEcchhhhhhhCCCCCCeEEEEcCCChHHHHHHHHHHHHhcCCcCCCceEEecCCCCCCceeeEEEEEEcCEEEEee
Q 016396 95 VLRVAGGWVRDKLLGKDCYDIDIALDNMMGSEFATKVAEYLSATGETAPSGFGVIPSNPDQSKHLETATMKLYDLWIDFV 174 (390)
Q Consensus 95 ~~ylVGG~VRD~LLg~~~~DiDia~~~~~~~~f~~~l~~~l~~~g~~~~~~~~vi~~n~~~~~~~~t~~~~~~~~~iD~~ 174 (390)
++|+|||||||+|||++|+|+||+|++...+++ +...+...| +. +.+ +...+..+|++
T Consensus 2 ~vYLVGGaVRD~LLgr~p~DiDivV~g~~~~~~---l~~~~~~vg----~~-------------f~V--~~~~~~~~Eia 59 (360)
T PRK13296 2 KFYLVGGAVRDMLLGITPKDKDWVVVGATEDEM---LANGFIKIA----AN-------------FPV--FIHPQTKQEYA 59 (360)
T ss_pred cEEEeccHHHHHHcCCCCCCeeEEecCCcHHHH---HHhhhhhcC----Cc-------------eEE--EEECCeeEEEe
Confidence 589999999999999999999999987643222 211222211 11 222 12245679999
Q ss_pred ecccccccCCCCCc-ccccC---CHHHHHhcCCCCccceeeecCCCceecCccccHHHhhCCCeecCCCCCcccccChhh
Q 016396 175 NLRCEDYSENSRIP-TMRFG---TAEEDAYRRDLTINSLFYNINTSSVEDLTGRGIADLKHGKIVTPLPPKATFLDDPLR 250 (390)
Q Consensus 175 ~~R~e~y~~~~r~P-~v~~g---ti~eDl~RRDFTINAla~~l~~~~i~D~~g~G~~DL~~~~IR~v~~p~~~F~eDPlR 250 (390)
++|+|.|+.+|++| +|.++ |+++||.||||||||||||+. |.++||+| |++||++|+||+++ .+|.|||+|
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 99999999999987 47764 799999999999999999985 78999997 99999999999983 489999999
Q ss_pred HHHHHHHHhhc---CCCCcHHHHHHhhcHHHHHHHhccCCHHHHHHHHHHHhcCCCHHHHHHHHHHcCcchHHhcCCCCC
Q 016396 251 VLRAIRFGARF---DFILDEELKKAAASDEVKAALAAKISRERVGTEIDLMVSGNQPVKAMTHICGLTLFWIVFKLPLQV 327 (390)
Q Consensus 251 ILRa~Rfaarl---gf~Id~~T~~ai~~~~~~~~Ll~~vs~ERI~~El~kiL~~~~~~~~L~lL~~~glL~~if~~Pe~~ 327 (390)
||||+|||++| ||+|+++|.++|+.. +....+..+|+|||+.|+.|+|.+ |..+++.|.++|+|..+| ||..
T Consensus 135 ILRa~RFaarL~~~gF~ie~eT~~~i~~~-~~~~~L~~vs~ERI~~El~kiL~~--p~~~l~~L~~~glL~~lf--Pel~ 209 (360)
T PRK13296 135 VVRLARFKAQLSNFNFSIAQEMLALIKEL-VKTGELNHLTRERLHIEFVKALNN--PKIFFTTLKELEALKIIF--PNIS 209 (360)
T ss_pred HHHHHHHHHHhccCCCCcCHHHHHHHHHh-hhhhhhhcCCHHHHHHHHHHHHhC--hHHHHHHHHHcCCHHHhC--cchH
Confidence 99999999986 999999999999863 223566899999999999999984 668999999999999999 9853
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=1.3e-34 Score=254.66 Aligned_cols=130 Identities=38% Similarity=0.493 Sum_probs=107.4
Q ss_pred HHHhcCCCceEEEEcchhhhhhhCCCCCCeEEEEcCCChHHHHHHHHHHHHhcCCcCCCceEEecCCCCCCceeeEEEEE
Q 016396 86 TLRHFNLETVLRVAGGWVRDKLLGKDCYDIDIALDNMMGSEFATKVAEYLSATGETAPSGFGVIPSNPDQSKHLETATMK 165 (390)
Q Consensus 86 ~l~~~~~~~~~ylVGG~VRD~LLg~~~~DiDia~~~~~~~~f~~~l~~~l~~~g~~~~~~~~vi~~n~~~~~~~~t~~~~ 165 (390)
.++.. .|.++|+|||||||+|||++|+|+||+|++.. .++++.+.+. .+ ..++.. .++|+|+++.
T Consensus 10 ~l~~~-~g~~~ylVGG~VRD~Llg~~~~DiDi~v~~~~-~~~~~~l~~~---~~------~~~v~~----~~~f~t~~v~ 74 (139)
T cd05398 10 ELKKA-LGYEAYLVGGAVRDLLLGRPPKDIDIATDADG-PEFAEALFKK---IG------GRVVGL----GEEFGTATVV 74 (139)
T ss_pred HHHhc-cCceEEEECChHHHHHcCCCCCCceEEEeCCC-HHHHHHHHHh---cC------CcEEec----CCcccEEEEE
Confidence 34443 35789999999999999999999999999853 4444444332 11 123332 2468999999
Q ss_pred EcCEEEEeeecccccccCCCCCcccccCCHHHHHhcCCCCccceeeecCCCceecCccccHHHhhC
Q 016396 166 LYDLWIDFVNLRCEDYSENSRIPTMRFGTAEEDAYRRDLTINSLFYNINTSSVEDLTGRGIADLKH 231 (390)
Q Consensus 166 ~~~~~iD~~~~R~e~y~~~~r~P~v~~gti~eDl~RRDFTINAla~~l~~~~i~D~~g~G~~DL~~ 231 (390)
+++..+||+++|+|.|+.++++|.+...++++||.|||||||||||++.++.++||+| |++||++
T Consensus 75 ~~~~~~di~~~R~e~~~~~~~~p~~~~~~~~~Dl~RRDFTINAmA~~~~~~~liDp~~-G~~DL~~ 139 (139)
T cd05398 75 INGLTIDVATLRTETYTDPGRRPPVVGFTIEEDLLRRDFTINAMAYDLDDGELIDPFG-GLKDLEN 139 (139)
T ss_pred ECCEEEEEcccccccccCCCCCCcccCCCCHHHHhhcCcchhheEecCCCCEEEeCCC-CHHHHhC
Confidence 9999999999999999999999998888999999999999999999999899999997 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=4.7e-34 Score=246.96 Aligned_cols=124 Identities=38% Similarity=0.470 Sum_probs=96.4
Q ss_pred EEEEcchhhhhhhCCCCCCeEEEEcCCChHHHHHHHHHHHHhcCCcCCCceEEecCCCCCCceeeEEEEEEcCEEEEeee
Q 016396 96 LRVAGGWVRDKLLGKDCYDIDIALDNMMGSEFATKVAEYLSATGETAPSGFGVIPSNPDQSKHLETATMKLYDLWIDFVN 175 (390)
Q Consensus 96 ~ylVGG~VRD~LLg~~~~DiDia~~~~~~~~f~~~l~~~l~~~g~~~~~~~~vi~~n~~~~~~~~t~~~~~~~~~iD~~~ 175 (390)
+|+|||||||+|||++++|+||+|++. ++++++.+.+. . +..++. .++++++++...+..+|+++
T Consensus 1 ~ylVGG~VRD~Llg~~~~DiDi~~~~~-~~~~~~~l~~~----~-----~~~~~~-----~~~~~~~~~~~~~~~~di~~ 65 (126)
T PF01743_consen 1 AYLVGGAVRDLLLGRPPKDIDIVTNAD-PEEFAKLLAKK----L-----GGVFVV-----GKRFGTVRVVFGGGSIDIAS 65 (126)
T ss_dssp EEEETHHHHHHHHTS--SEEEEEESS--HHHHHHHHCTT----C-----CEEEEE-----ETTTTEEEEEETTCEEEEEE
T ss_pred CEEecHHHHHHHcCCCCCCeEEEEeCC-HHHHHHHHHhh----c-----cccccc-----ccccceeeecCCCccccccc
Confidence 699999999999999999999999864 65555444332 1 111221 24578999999998899999
Q ss_pred cccccccCCCCCccc-cc-CCHHHHHhcCCCCccceeeecCCCceecCccccHHHhhCCCee
Q 016396 176 LRCEDYSENSRIPTM-RF-GTAEEDAYRRDLTINSLFYNINTSSVEDLTGRGIADLKHGKIV 235 (390)
Q Consensus 176 ~R~e~y~~~~r~P~v-~~-gti~eDl~RRDFTINAla~~l~~~~i~D~~g~G~~DL~~~~IR 235 (390)
+|.|.|..+++.|.+ .+ .++++||.|||||||||||++.+++++||+| |++||++|+||
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 33 3999999999999999999999999999998 99999999998
No 13
>PHA01806 hypothetical protein
Probab=99.81 E-value=8.6e-20 Score=165.60 Aligned_cols=109 Identities=23% Similarity=0.181 Sum_probs=71.1
Q ss_pred HHHHHhcCCCceEEEEcchhhhhhhCCCCCCeEEEEcCCChHHHHHHHHHHHHhcCCcCCCceEEec----------CCC
Q 016396 84 LNTLRHFNLETVLRVAGGWVRDKLLGKDCYDIDIALDNMMGSEFATKVAEYLSATGETAPSGFGVIP----------SNP 153 (390)
Q Consensus 84 ~~~l~~~~~~~~~ylVGG~VRD~LLg~~~~DiDia~~~~~~~~f~~~l~~~l~~~g~~~~~~~~vi~----------~n~ 153 (390)
+..+++. +.++|+|||||||+|||++|+|+||++.+..++++ +.+.+.+ |. +++.... .+.
T Consensus 28 ~~~l~~~--g~~aYlVGG~VRD~Llgr~~kDiDivt~~~~pe~v-~~L~~kl---G~---k~V~~~~~~ggwr~~~~~~g 98 (200)
T PHA01806 28 LYSDARH--SEGVALAGGAARDLMHGAEPKDIDIALYGMDDRQA-ELLIGCI---LP---KLVSRFLRDGGWSQEYHDGG 98 (200)
T ss_pred HHHHHHC--CcEEEEECchHHHHHcCCCCCceEEEccCCCHHHH-HHHHHHh---CC---cccccccccceeeeeccccc
Confidence 3444444 57899999999999999999999999988776544 3343322 21 1111110 000
Q ss_pred CCCceeeE----EEEEEcCEEEEeeecccccccCCCCCcccccCCHHHHHhcCCCCcc--ceeeecCC
Q 016396 154 DQSKHLET----ATMKLYDLWIDFVNLRCEDYSENSRIPTMRFGTAEEDAYRRDLTIN--SLFYNINT 215 (390)
Q Consensus 154 ~~~~~~~t----~~~~~~~~~iD~~~~R~e~y~~~~r~P~v~~gti~eDl~RRDFTIN--Ala~~l~~ 215 (390)
+..-.++. ....+++..+||+..++ .++++||.||||||| ||||++.+
T Consensus 99 d~~~~~~~~~l~g~~vl~g~tvD~A~~~g--------------~sleeDL~rRDFTINq~AIA~~~~~ 152 (200)
T PHA01806 99 DGGIFKGVVSLKGCRGLEGMDVDFNYYDT--------------DSVGEVMESFDYTINQVGIAYNWPD 152 (200)
T ss_pred cccccccceeeeeeEEeCCeEEEeeeccC--------------CCHHHHHHHcCCccchhhhcccCCC
Confidence 00000011 11456789999998764 379999999999999 88888753
No 14
>PRK03381 PII uridylyl-transferase; Provisional
Probab=99.64 E-value=2.9e-16 Score=171.99 Aligned_cols=142 Identities=13% Similarity=0.047 Sum_probs=104.9
Q ss_pred hhCCCeecCCCCCcccccChhhHHHHHHHHhhcCCCCcHHHHHHhhcHHHHHHHhccCCHHHHHHHHHHHhcCCCH-HHH
Q 016396 229 LKHGKIVTPLPPKATFLDDPLRVLRAIRFGARFDFILDEELKKAAASDEVKAALAAKISRERVGTEIDLMVSGNQP-VKA 307 (390)
Q Consensus 229 L~~~~IR~v~~p~~~F~eDPlRILRa~Rfaarlgf~Id~~T~~ai~~~~~~~~Ll~~vs~ERI~~El~kiL~~~~~-~~~ 307 (390)
+.+|.|-+. ....|.+||+||||++|||+++||.|+++|+++|+.. ...+..++.||++.||.|+|.++++ ..+
T Consensus 313 ~~~~~l~~~--~~~~~~~DplRiLRa~rfaa~lgf~I~~~T~~~i~~~---~~~l~~~~~eri~~ef~kiL~~~~~~~~~ 387 (774)
T PRK03381 313 EHAGEVVLA--RDARPARDPGLVLRVAAAAATTGLPIAAATLSRLAAS---APPLPTPWPAEARDDLLVLLGAGPAAVAV 387 (774)
T ss_pred EECCEEEeC--CccccccCHHHHHHHHHHHHhcCCCcCHHHHHHHHHH---HHhcCccccHHHHHHHHHHHcCCCchHHH
Confidence 455667654 2368999999999999999999999999999999864 3467788999999999999998755 579
Q ss_pred HHHHHHcCcchHHhcCCCCCCcchhhhhhhcccch-HHHHHHHHHHhcCC-C-CCc-ccchhHHHHhhhccccCcee
Q 016396 308 MTHICGLTLFWIVFKLPLQVEPEVLEGCEMFCTAY-LDAAWDLTQLIGSS-T-FND-DQRRLSQYAALFLPFRNTTY 380 (390)
Q Consensus 308 L~lL~~~glL~~if~~Pe~~~~~~~~~~~~~~~~~-~~~~~~~~~~l~~~-~-~~~-~~~~l~llAaLlhp~gk~~~ 380 (390)
++.|+++|+|..+| ||+.......+ ...+| ++...|++.++... . +.. ....++.|||||||+||...
T Consensus 388 l~~m~~~GvL~~~i--PE~~~i~~~~Q---~~~~H~ytVd~Htl~~l~~~~~~~~~~~~~~lL~lAaLlHDiGKg~~ 459 (774)
T PRK03381 388 IEALDRTGLWGRLL--PEWEAVRDLPP---RDPVHRWTVDRHLVETAVRAAALTRRVARPDLLLLGALLHDIGKGRG 459 (774)
T ss_pred HHHHHHhCCHHHhc--hhHHHhhCCCC---CCCCccChHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCC
Confidence 99999999999999 99754433222 22222 44555776665421 0 011 12234569999999999764
No 15
>PRK00227 glnD PII uridylyl-transferase; Provisional
Probab=99.63 E-value=3.7e-16 Score=168.31 Aligned_cols=140 Identities=14% Similarity=0.054 Sum_probs=105.4
Q ss_pred hhCCCeecCCCCCcccccChhhHHHHHHHHhhcCCCCcHHHHHHhhcHHHHHHHhccCCHHHHHHHHHHHhcCC-CHHHH
Q 016396 229 LKHGKIVTPLPPKATFLDDPLRVLRAIRFGARFDFILDEELKKAAASDEVKAALAAKISRERVGTEIDLMVSGN-QPVKA 307 (390)
Q Consensus 229 L~~~~IR~v~~p~~~F~eDPlRILRa~Rfaarlgf~Id~~T~~ai~~~~~~~~Ll~~vs~ERI~~El~kiL~~~-~~~~~ 307 (390)
+.+|.|++++++. + |||+||||+||||+++||.|+++|+++|+.. .. +.....||++.||.|+|.++ ++..+
T Consensus 275 ~~~~~I~~~~~~~--~-eDPlRiLRafrfAa~~gf~I~~~Tl~~i~~~---~~-L~~~~~er~~~ef~kiL~s~~~~~~~ 347 (693)
T PRK00227 275 DANGTIALSRTPD--L-DDPALPLRVAAAAARTGLPVSESVWKRLEEC---PE-LPEPWPASAAGDFFRLLSSPVNSRRV 347 (693)
T ss_pred EECCEEEeCCCCc--c-cCHHHHHHHHHHHHhcCCCcCHHHHHHHHhh---hh-cchhhHHHHHHHHHHHHcCCCChHHH
Confidence 5788999987643 4 8999999999999999999999999999853 23 34567889999999999986 88999
Q ss_pred HHHHHHcCcchHHhcCCCCCCcchhhhhhhcccch-HHHHHHHHHHhcCC--CCCc-ccchhHHHHhhhccccCcee
Q 016396 308 MTHICGLTLFWIVFKLPLQVEPEVLEGCEMFCTAY-LDAAWDLTQLIGSS--TFND-DQRRLSQYAALFLPFRNTTY 380 (390)
Q Consensus 308 L~lL~~~glL~~if~~Pe~~~~~~~~~~~~~~~~~-~~~~~~~~~~l~~~--~~~~-~~~~l~llAaLlhp~gk~~~ 380 (390)
++.|+++|+|..+| ||+.......+ ...+| ++...|++.++... .+.. ..+.+.+|||||||+||...
T Consensus 348 L~~M~~~GvL~~ll--PE~~~i~g~~Q---~d~yH~ytVDeHTL~~l~~~~~~~~~~~~~~lL~LAALlHDIGKg~g 419 (693)
T PRK00227 348 IKQMDRHGLWERIV--PEWDRIRGLMP---REPSHIHTIDEHSLNTVANCALETVTVARPDLLLLGALYHDIGKGYP 419 (693)
T ss_pred HHHHHHcCCHHHHh--HHHHHHhCCCC---CCCCCCCcHHHHHHHHHHHHHHhhhccCccHHHHHHHHHHhhcCCCC
Confidence 99999999999999 99643332222 22223 35555777766532 1111 23445569999999999864
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=99.62 E-value=5.7e-16 Score=171.55 Aligned_cols=142 Identities=14% Similarity=0.079 Sum_probs=106.0
Q ss_pred hhCCCeecCCCCCcccccChhhHHHHHHHHhhcCCCCcHHHHHHhhcHHHHHHHhccCCH--HHHHHHHHHHhcCC-CHH
Q 016396 229 LKHGKIVTPLPPKATFLDDPLRVLRAIRFGARFDFILDEELKKAAASDEVKAALAAKISR--ERVGTEIDLMVSGN-QPV 305 (390)
Q Consensus 229 L~~~~IR~v~~p~~~F~eDPlRILRa~Rfaarlgf~Id~~T~~ai~~~~~~~~Ll~~vs~--ERI~~El~kiL~~~-~~~ 305 (390)
+.+|.|++.. ..+|.+||+||||+||||+++||.|+++|+++|+.. ..++..++. ||++.||.+||.++ ++.
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 7889999873 479999999999999999999999999999999864 345677877 99999999999975 678
Q ss_pred HHHHHHHHcCcchHHhcCCCCCCcchhhhhhhcccch-HHHHHHHHHHhcCC-CCC----------------c-ccchhH
Q 016396 306 KAMTHICGLTLFWIVFKLPLQVEPEVLEGCEMFCTAY-LDAAWDLTQLIGSS-TFN----------------D-DQRRLS 366 (390)
Q Consensus 306 ~~L~lL~~~glL~~if~~Pe~~~~~~~~~~~~~~~~~-~~~~~~~~~~l~~~-~~~----------------~-~~~~l~ 366 (390)
.+++.|+++|+|..+| ||+.......+ .+.+| ++...|++.++... .+. . ..+.++
T Consensus 394 ~~l~~m~~~gvL~~~i--Pe~~~i~~~~Q---~~~~H~~tVd~Htl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L 468 (850)
T TIGR01693 394 RALRAMNRAGVLGRFL--PEWGRIVGQMQ---FDLFHVYTVDEHTLRTVVHLAPFARGRLAREHPLASELMPKIEDPELL 468 (850)
T ss_pred HHHHHHHHhCCHHHhC--chHhhheeccc---cCceeecchhHHHHHHHHHHHHHhccccccccccHHHHHhccCCHHHH
Confidence 8999999999999999 99754432222 22222 34444665554311 000 0 122344
Q ss_pred HHHhhhccccCcee
Q 016396 367 QYAALFLPFRNTTY 380 (390)
Q Consensus 367 llAaLlhp~gk~~~ 380 (390)
.|||||||+||...
T Consensus 469 ~lAaLlHDiGKg~~ 482 (850)
T TIGR01693 469 YLAALLHDIGKGRG 482 (850)
T ss_pred HHHHHHHHHhcCCC
Confidence 58999999999753
No 17
>PRK00275 glnD PII uridylyl-transferase; Provisional
Probab=99.57 E-value=2.4e-15 Score=167.08 Aligned_cols=152 Identities=11% Similarity=-0.003 Sum_probs=114.3
Q ss_pred eecCccccHHHhhCCCeecCCCCCcccccChhhHHHHHHHHhhcC--CCCcHHHHHHhhcHHHHHHHhccC--CHHHHHH
Q 016396 218 VEDLTGRGIADLKHGKIVTPLPPKATFLDDPLRVLRAIRFGARFD--FILDEELKKAAASDEVKAALAAKI--SRERVGT 293 (390)
Q Consensus 218 i~D~~g~G~~DL~~~~IR~v~~p~~~F~eDPlRILRa~Rfaarlg--f~Id~~T~~ai~~~~~~~~Ll~~v--s~ERI~~ 293 (390)
..||++ |..|+++|.|+++++ ..|.+||+||||+|||+++.+ ..|+++|+.+|+.. ..++..+ +.+|++.
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 468886 999999999999864 579999999999999999954 45779999999865 3455665 6778999
Q ss_pred HHHHHhcCCC-HHHHHHHHHHcCcchHHhcCCCCCCcchhhhhhhcccch-HHHHHHHHHHhcCC-CCC-----------
Q 016396 294 EIDLMVSGNQ-PVKAMTHICGLTLFWIVFKLPLQVEPEVLEGCEMFCTAY-LDAAWDLTQLIGSS-TFN----------- 359 (390)
Q Consensus 294 El~kiL~~~~-~~~~L~lL~~~glL~~if~~Pe~~~~~~~~~~~~~~~~~-~~~~~~~~~~l~~~-~~~----------- 359 (390)
||.+||.+++ +..+|+.|+++|+|..+| ||+.......+ .+.+| +++..|++.++..- .+.
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--PEFGHIVGQMQ---HDLFHIYTVDAHTLNLIKNLRKLRYPEVSEKFPLA 487 (895)
T ss_pred HHHHHHcCCCchHHHHHHHHHcCCHHHhC--chHhhEeeecc---CcccccCcHHHHHHHHHHHHHHhhcccccccCchH
Confidence 9999999987 568899999999999999 99765543332 23333 45556776665421 110
Q ss_pred -----cccch-hHHHHhhhccccCcee
Q 016396 360 -----DDQRR-LSQYAALFLPFRNTTY 380 (390)
Q Consensus 360 -----~~~~~-l~llAaLlhp~gk~~~ 380 (390)
...+. ++.|||||||+||...
T Consensus 488 ~~l~~~l~~~~lL~lAaLlHDIGKg~~ 514 (895)
T PRK00275 488 SKLMGRLPKPELLYIAGLYHDIGKGRG 514 (895)
T ss_pred HHHHHhcCCHHHHHHHHHHHhhhcCCC
Confidence 01123 4458999999999864
No 18
>PRK03059 PII uridylyl-transferase; Provisional
Probab=99.55 E-value=5.6e-15 Score=163.45 Aligned_cols=145 Identities=11% Similarity=-0.002 Sum_probs=108.2
Q ss_pred HHhhCCCeecCCCCCcccccChhhHHHHHHHHhhc-C-CCCcHHHHHHhhcHHHHHHHhccC--CHHHHHHHHHHHhcCC
Q 016396 227 ADLKHGKIVTPLPPKATFLDDPLRVLRAIRFGARF-D-FILDEELKKAAASDEVKAALAAKI--SRERVGTEIDLMVSGN 302 (390)
Q Consensus 227 ~DL~~~~IR~v~~p~~~F~eDPlRILRa~Rfaarl-g-f~Id~~T~~ai~~~~~~~~Ll~~v--s~ERI~~El~kiL~~~ 302 (390)
-.+.+|.|+++++ ..|.+||+||||+|||++++ | +.|+++|+.+|+.. ..++..+ +.||++.||.+||.++
T Consensus 327 f~~~~~~i~~~~~--~~f~~dP~riLr~fr~aa~~~~~~~i~~~T~~~i~~~---~~~i~~~~~~~er~~~ef~~iL~~~ 401 (856)
T PRK03059 327 FVEKQGMLEIASD--DLFERHPHAILEAFLLYQQTPGLKGLSARTLRALYNA---RDVMNAAFRRDPVNRALFMQILQQP 401 (856)
T ss_pred eEEECCEEEecCc--hhhhcCHHHHHHHHHHHHhcCCccCcCHHHHHHHHHH---HHhcCcccccCHHHHHHHHHHHcCC
Confidence 3578999999853 57999999999999999999 5 69999999999864 3455666 6799999999999998
Q ss_pred CH-HHHHHHHHHcCcchHHhcCCCCCCcchhhhhhhcccchHHHHHHHHHHhcCC------CCC-----------c-ccc
Q 016396 303 QP-VKAMTHICGLTLFWIVFKLPLQVEPEVLEGCEMFCTAYLDAAWDLTQLIGSS------TFN-----------D-DQR 363 (390)
Q Consensus 303 ~~-~~~L~lL~~~glL~~if~~Pe~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~------~~~-----------~-~~~ 363 (390)
++ ..+++.|+++|+|..+| ||+.......+.. ..+.+++..|++.++..- ... . ..+
T Consensus 402 ~~~~~~l~~m~~~GlL~~~l--Pe~~~i~~~~Q~~--~~H~ytVd~Htl~~v~~l~~~~~~~~~~~~p~~~~~~~~~~~~ 477 (856)
T PRK03059 402 RGITHALRLMNQTSVLGRYL--PNFRRIVGQMQHD--LFHVYTVDQHILMVLRNLRRFAMAEHAHEYPFCSQLIANFDRP 477 (856)
T ss_pred CchHHHHHHHHHhCCHHHhC--chHhheeeeeccc--ccccCcHhHHHHHHHHHHHHhhccccccccchHHHHHHhcCCh
Confidence 75 68999999999999999 9976554332221 122245555776665421 000 0 112
Q ss_pred hhHHHHhhhccccCcee
Q 016396 364 RLSQYAALFLPFRNTTY 380 (390)
Q Consensus 364 ~l~llAaLlhp~gk~~~ 380 (390)
.++.|||||||+||...
T Consensus 478 ~lL~LAaLlHDIGKg~~ 494 (856)
T PRK03059 478 WLLYVAALFHDIAKGRG 494 (856)
T ss_pred hHHHHHHHHHhhccCCC
Confidence 34458999999999764
No 19
>PRK05092 PII uridylyl-transferase; Provisional
Probab=99.50 E-value=2e-14 Score=160.55 Aligned_cols=140 Identities=14% Similarity=0.162 Sum_probs=99.5
Q ss_pred hhCCCeecCCCCCcccccChhhHHHHHHHHhhcCCCCcHHHHHHhhcHHHHHHHhcc-----CCHHHHHHHHHHHhcCCC
Q 016396 229 LKHGKIVTPLPPKATFLDDPLRVLRAIRFGARFDFILDEELKKAAASDEVKAALAAK-----ISRERVGTEIDLMVSGNQ 303 (390)
Q Consensus 229 L~~~~IR~v~~p~~~F~eDPlRILRa~Rfaarlgf~Id~~T~~ai~~~~~~~~Ll~~-----vs~ERI~~El~kiL~~~~ 303 (390)
+.+|.|+++. ...|.+||+||||+||||+++||.|+++|+.+|+.. ..++.. .+.+|++.|+ ++..++
T Consensus 384 ~~~~~i~~~~--~~~f~edPlriLR~fr~aa~~~~~i~~~T~~~i~~~---~~~i~~~~~~~~~~~r~f~ei--l~~~~~ 456 (931)
T PRK05092 384 VDNGRINLAD--PDVFERDPVNLIRLFHLADRHGLDIHPDAMRLVTRS---LRLIDAALREDPEANRLFLDI--LTSRRN 456 (931)
T ss_pred EECCEEEecC--hhhhhhCHHHHHHHHHHHHhcCCCCCHHHHHHHHHH---HHhcChhhccCHHHHHHHHHH--HcCCCc
Confidence 5788899874 368999999999999999999999999999999865 223333 5779999885 344458
Q ss_pred HHHHHHHHHHcCcchHHhcCCCCCCcchhhhhhhcccch-HHHHHHHHHHhcCC------CCC------------cccch
Q 016396 304 PVKAMTHICGLTLFWIVFKLPLQVEPEVLEGCEMFCTAY-LDAAWDLTQLIGSS------TFN------------DDQRR 364 (390)
Q Consensus 304 ~~~~L~lL~~~glL~~if~~Pe~~~~~~~~~~~~~~~~~-~~~~~~~~~~l~~~------~~~------------~~~~~ 364 (390)
+..+++.|+++|+|..+| ||+.......+ ...+| +++..|++.++..- ... ...+.
T Consensus 457 ~~~~l~~m~~~GvL~~~i--Pef~~i~~~~Q---~d~~H~ytVd~Htl~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~ 531 (931)
T PRK05092 457 PERVLRRMNEAGVLGRFI--PDFGRIVAMMQ---FNMYHHYTVDEHTIRAIGVLAEIERGELADEHPLASELMPKIESRR 531 (931)
T ss_pred hHHHHHHHHHhCChHHhc--ccHHhcccccc---cccceeccHhHHHHHHHHHHHHHhcccccccchhHHHHHHhcCCHH
Confidence 899999999999999999 99754433222 22223 34444666555311 000 01123
Q ss_pred hHHHHhhhccccCcee
Q 016396 365 LSQYAALFLPFRNTTY 380 (390)
Q Consensus 365 l~llAaLlhp~gk~~~ 380 (390)
+..|||||||+||...
T Consensus 532 ~L~lAaLlHDIGKg~~ 547 (931)
T PRK05092 532 ALYVAVLLHDIAKGRP 547 (931)
T ss_pred HHHHHHHHHHhhcCCC
Confidence 4458999999999753
No 20
>PRK01759 glnD PII uridylyl-transferase; Provisional
Probab=99.43 E-value=1.1e-13 Score=153.20 Aligned_cols=144 Identities=11% Similarity=0.039 Sum_probs=101.9
Q ss_pred HhhCCCeecCCCCCcccccChhhHHHHHHHHhhc-CCCCcHHHHHHhhcHH-HHHHHhccCCHHHHHHHHHHHhcCCCH-
Q 016396 228 DLKHGKIVTPLPPKATFLDDPLRVLRAIRFGARF-DFILDEELKKAAASDE-VKAALAAKISRERVGTEIDLMVSGNQP- 304 (390)
Q Consensus 228 DL~~~~IR~v~~p~~~F~eDPlRILRa~Rfaarl-gf~Id~~T~~ai~~~~-~~~~Ll~~vs~ERI~~El~kiL~~~~~- 304 (390)
.+.+|.|.+.. ...|.+||+||||+|||++++ ||.|+++|+++++... .....+..++.|| .||.+||.++++
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 46778887753 369999999999999999999 6999999999886431 0122234677887 899999998765
Q ss_pred HHHHHHHHHcCcchHHhcCCCCCCcchhhhhhhcccch-HHHHHHHHHHhcCC----------CC-------Cc-ccchh
Q 016396 305 VKAMTHICGLTLFWIVFKLPLQVEPEVLEGCEMFCTAY-LDAAWDLTQLIGSS----------TF-------ND-DQRRL 365 (390)
Q Consensus 305 ~~~L~lL~~~glL~~if~~Pe~~~~~~~~~~~~~~~~~-~~~~~~~~~~l~~~----------~~-------~~-~~~~l 365 (390)
..+++.|+++|+|..+| ||+.......+ .+.+| +++..|++.++..- .+ .. ..+.+
T Consensus 401 ~~~l~~M~~~GvL~~~i--Pe~~~i~~~~Q---~d~yH~ytVd~Htl~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~ 475 (854)
T PRK01759 401 KRALVPMHQYGVLTAYL--PQWKGIVGLMQ---FDLFHIYTVDEHTLRVMLKLESFLDEESAEQHPICHQIFSQLSDRTL 475 (854)
T ss_pred HHHHHHHHHhCCHHHhC--hHHHheeeccC---CcccccCcHHHHHHHHHHHHHHHhcccccccchhHHHHHHhcCCHHH
Confidence 68999999999999999 99765443222 22333 45555666655410 00 01 12234
Q ss_pred HHHHhhhccccCcee
Q 016396 366 SQYAALFLPFRNTTY 380 (390)
Q Consensus 366 ~llAaLlhp~gk~~~ 380 (390)
..|||||||+||...
T Consensus 476 L~lAaLlHDIGKG~~ 490 (854)
T PRK01759 476 LYIAALFHDIAKGRG 490 (854)
T ss_pred HHHHHHHHhhcCCCC
Confidence 458999999999654
No 21
>PRK05007 PII uridylyl-transferase; Provisional
Probab=99.33 E-value=1.7e-12 Score=144.33 Aligned_cols=144 Identities=12% Similarity=0.005 Sum_probs=101.3
Q ss_pred HhhCCCeecCCCCCcccccChhhHHHHHHHHhhcC--CCCcHHHHHHhhcHHHHHHHhc-cC-CHHHHHHHHHHHhcCCC
Q 016396 228 DLKHGKIVTPLPPKATFLDDPLRVLRAIRFGARFD--FILDEELKKAAASDEVKAALAA-KI-SRERVGTEIDLMVSGNQ 303 (390)
Q Consensus 228 DL~~~~IR~v~~p~~~F~eDPlRILRa~Rfaarlg--f~Id~~T~~ai~~~~~~~~Ll~-~v-s~ERI~~El~kiL~~~~ 303 (390)
-+.+|.|+++++ ..|.+||+||||+|||+++.+ ..|+++|+++|+.. ..++. .. ..++++.||.+||.+++
T Consensus 349 ~~~~~~i~~~~~--~~f~~dp~~iLr~f~~aa~~~~i~~i~~~t~~~i~~~---~~~i~~~~~~~~~~~~~f~~iL~~~~ 423 (884)
T PRK05007 349 QLRGTLIDLRDE--TLFQRQPEAILRMFYLMARNSNITGIYSTTLRQLRHA---RRHLNQPLCEIPEARKLFMEILRHPG 423 (884)
T ss_pred EEECCEEeecCh--hhhhhCHHHHHHHHHHHHhCCCcCCCCHHHHHHHHHH---HHhcCcccccCHHHHHHHHHHHcCCC
Confidence 357888999865 469999999999999999965 35779999999864 22333 11 34569999999999988
Q ss_pred HH-HHHHHHHHcCcchHHhcCCCCCCcchhhhhhhcccchHHHHHHHHHHhcCC-CC-----C-----------c-ccch
Q 016396 304 PV-KAMTHICGLTLFWIVFKLPLQVEPEVLEGCEMFCTAYLDAAWDLTQLIGSS-TF-----N-----------D-DQRR 364 (390)
Q Consensus 304 ~~-~~L~lL~~~glL~~if~~Pe~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~-~~-----~-----------~-~~~~ 364 (390)
+. .+++.|+++|+|..+| ||+.......+. ...+.+++..|++.++..- .+ . . ..+.
T Consensus 424 ~~~~~l~~m~~~GlL~~~i--Pe~~~i~~~~Q~--d~~H~ytVd~Htl~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~ 499 (884)
T PRK05007 424 AVSRALLPMHRHSVLSAYM--PQWSHIVGQMQF--DLFHAYTVDEHTIRVLLKLESFADEETRQRHPLCVELYPRLPKKE 499 (884)
T ss_pred chHHHHHHHHHhCCHHHhC--chHhheeecccc--CccccCcHhHHHHHHHHHHHHHhcccccccchHHHHHHHhcCChh
Confidence 76 5999999999999999 997654432221 1122245555666655421 00 0 0 1233
Q ss_pred hHHHHhhhccccCcee
Q 016396 365 LSQYAALFLPFRNTTY 380 (390)
Q Consensus 365 l~llAaLlhp~gk~~~ 380 (390)
++.|||||||+||...
T Consensus 500 lL~lAaLlHDIGKg~~ 515 (884)
T PRK05007 500 LLLLAALFHDIAKGRG 515 (884)
T ss_pred HHHHHHHHHhhcCCCC
Confidence 4458999999999764
No 22
>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=99.19 E-value=2.4e-11 Score=92.50 Aligned_cols=60 Identities=30% Similarity=0.491 Sum_probs=52.8
Q ss_pred CCCCcHHHHHHhhcHHHHHHHhccCCHHHHHHHHHHHhcCCCHHHHHHHHHHcCcchHHhcCCCC
Q 016396 262 DFILDEELKKAAASDEVKAALAAKISRERVGTEIDLMVSGNQPVKAMTHICGLTLFWIVFKLPLQ 326 (390)
Q Consensus 262 gf~Id~~T~~ai~~~~~~~~Ll~~vs~ERI~~El~kiL~~~~~~~~L~lL~~~glL~~if~~Pe~ 326 (390)
||+|+++|..+|++. ..++.++|+|||+.|+.|||.++++..+++.|+++|+++.+| |+.
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 899999999999864 447789999999999999999999999999999999999999 874
No 23
>PRK04374 PII uridylyl-transferase; Provisional
Probab=99.10 E-value=1.4e-10 Score=128.78 Aligned_cols=141 Identities=13% Similarity=0.048 Sum_probs=100.9
Q ss_pred hCCCeecCCCCCcccccChhhHHHHHHHHhhcC--CCCcHHHHHHhhcHHHHHHHhcc--CCHHHHHHHHHHHhcCCCHH
Q 016396 230 KHGKIVTPLPPKATFLDDPLRVLRAIRFGARFD--FILDEELKKAAASDEVKAALAAK--ISRERVGTEIDLMVSGNQPV 305 (390)
Q Consensus 230 ~~~~IR~v~~p~~~F~eDPlRILRa~Rfaarlg--f~Id~~T~~ai~~~~~~~~Ll~~--vs~ERI~~El~kiL~~~~~~ 305 (390)
.+|.|-.. ....|.+||.+|||+|..+++.+ ..|++.|+..++.. ...+.. ...+|++.||.|||.++++.
T Consensus 340 ~~~~i~~~--~~~~f~~~P~~il~lf~~~~~~~~~~~i~~~t~r~l~~~---~~~l~~~~~~~~ri~~ef~kiL~~~~~~ 414 (869)
T PRK04374 340 RRGYLAAD--ADSWPDGDVLQVFALFAQWAAHREVRGLHSLTARALAEV---LRDLPAYDVADATARERFMALLRGPRAV 414 (869)
T ss_pred ECCEEeec--CcccchhCHHHHHHHHHHHHhCCCcCCCCHHHHHHHHHH---HHhcCccccCCHHHHHHHHHHHcCCChh
Confidence 34455443 23689999999999999999999 89999999999864 122322 25779999999999999999
Q ss_pred HHHHHHHHcCcchHHhcCCCCCCcchhhhhhhcccch-HHHHHHHHHHhcCC-C---------CCc--------ccchhH
Q 016396 306 KAMTHICGLTLFWIVFKLPLQVEPEVLEGCEMFCTAY-LDAAWDLTQLIGSS-T---------FND--------DQRRLS 366 (390)
Q Consensus 306 ~~L~lL~~~glL~~if~~Pe~~~~~~~~~~~~~~~~~-~~~~~~~~~~l~~~-~---------~~~--------~~~~l~ 366 (390)
.+++.|+++|+|..+| ||+.......+ ...+| +++..|++.++..- . ++. ..+.+.
T Consensus 415 ~~l~~m~~~GvL~~~l--PE~~~i~~~~Q---~d~yH~ytVd~Htl~~l~~l~~~~~~~~~~~~~~~~~~~~~l~~~~lL 489 (869)
T PRK04374 415 ETLNRMARLGVLGQWI--PAFASVSGRMQ---FDLFHVYTVDQHTLMVLRNIALFAAGRADERFSIAHEVWPRLRKPELL 489 (869)
T ss_pred HHHHHHHHhCCHHHHh--hhHHHHhcccc---ccCccCCcHHHHHHHHHHHHHHHhccccccccccHHHHHhccCCccHH
Confidence 9999999999999999 99754433222 22333 45556776655411 0 000 112344
Q ss_pred HHHhhhccccCcee
Q 016396 367 QYAALFLPFRNTTY 380 (390)
Q Consensus 367 llAaLlhp~gk~~~ 380 (390)
.||+||||+||...
T Consensus 490 ~lAaLlHDIGKg~~ 503 (869)
T PRK04374 490 LLAGLFHDIAKGRG 503 (869)
T ss_pred HHHHHHHhccCCCC
Confidence 58999999999764
No 24
>COG2844 GlnD UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=98.35 E-value=1.1e-06 Score=95.06 Aligned_cols=144 Identities=13% Similarity=0.063 Sum_probs=89.7
Q ss_pred hCCCeecCCCCCcccccChhhHHHHHHHHhhcCCCC-cHHHHHHhhcHHHHHHHhc-cCC-HHHHHHHHHHHhcCC-CHH
Q 016396 230 KHGKIVTPLPPKATFLDDPLRVLRAIRFGARFDFIL-DEELKKAAASDEVKAALAA-KIS-RERVGTEIDLMVSGN-QPV 305 (390)
Q Consensus 230 ~~~~IR~v~~p~~~F~eDPlRILRa~Rfaarlgf~I-d~~T~~ai~~~~~~~~Ll~-~vs-~ERI~~El~kiL~~~-~~~ 305 (390)
.+|.|-.-. ..-|..||..|||.|-++++.|... +++|+.++... -.++. ... -+.-..-|..||..+ ++.
T Consensus 337 ~~g~I~l~~--~~~f~~dP~~ilrlf~~~~~~~~~~~~~~Tlr~L~~a---~~~l~~~l~~~peA~~~Fl~il~~~~~~~ 411 (867)
T COG2844 337 RNGRIELRD--PDLFERDPEAILRLFAIMAQTGLITGHPDTLRQLRRA---LRLLNQPLREDPEARRLFLSILRSPNAIR 411 (867)
T ss_pred eCCEEEecC--chhhhhChHHHHHHHHHHHhcCCcccchHHHHHHHHh---ccccCcccccCHHHHHHHHHHHhCCCcHH
Confidence 456665432 3689999999999999999999887 89999988743 11221 111 122334444567655 788
Q ss_pred HHHHHHHHcCcchHHhcCCCCCCcchhhhhhhcccchHHHHHHHHHHhcCC----------C-------CCc-ccchhHH
Q 016396 306 KAMTHICGLTLFWIVFKLPLQVEPEVLEGCEMFCTAYLDAAWDLTQLIGSS----------T-------FND-DQRRLSQ 367 (390)
Q Consensus 306 ~~L~lL~~~glL~~if~~Pe~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~----------~-------~~~-~~~~l~l 367 (390)
.+|+.|+++|+|..++ |++-.....-++ .-.+++..=.|++.++... . ++. +++.+.+
T Consensus 412 r~l~~Mn~~GVLgryl--Pew~~Ivg~MQf--dlfH~YTVDeH~lr~v~~l~~~a~~~~~~~hPl~~~l~~~~~~~elLy 487 (867)
T COG2844 412 RTLRPMNRYGVLGRYL--PEWGKIVGLMQF--DLFHIYTVDEHTLRVVLKLARFARGEARHEHPLASQLMPRLEKRELLY 487 (867)
T ss_pred HHHHHHHHhhhHHHhc--ccHHhhhccccc--CcceecchhHHHHHHHHHHHHhhcccccccCccHHhhccCCCChhHHH
Confidence 9999999999999999 996432221111 1122222223443333210 0 111 2334656
Q ss_pred HHhhhccccCceeec
Q 016396 368 YAALFLPFRNTTYKD 382 (390)
Q Consensus 368 lAaLlhp~gk~~~~~ 382 (390)
+|||||||+|....|
T Consensus 488 lAaLfHDIaKGRggD 502 (867)
T COG2844 488 LAALFHDIAKGRGGD 502 (867)
T ss_pred HHHHHHHhhcCCCCc
Confidence 899999999987643
No 25
>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=96.06 E-value=0.069 Score=48.49 Aligned_cols=116 Identities=23% Similarity=0.218 Sum_probs=57.1
Q ss_pred HHHHhcCCCceEEEEcchhhhh----hhCCCC----CCeEEEEcCC--ChHHHHHHHHHHHHhcCCcCCCceEEecCCCC
Q 016396 85 NTLRHFNLETVLRVAGGWVRDK----LLGKDC----YDIDIALDNM--MGSEFATKVAEYLSATGETAPSGFGVIPSNPD 154 (390)
Q Consensus 85 ~~l~~~~~~~~~ylVGG~VRD~----LLg~~~----~DiDia~~~~--~~~~f~~~l~~~l~~~g~~~~~~~~vi~~n~~ 154 (390)
+.+++.+.. +.||++|+||.. |-|+++ +|||++--.. ...+--..+.+.+...-. +
T Consensus 2 ~~~~~L~Lp-d~~l~AG~vrn~VWn~L~g~~~~~~i~DiDviYfD~~d~s~e~e~~~e~~l~~~~p----~--------- 67 (163)
T PF06042_consen 2 EIVRSLGLP-DWWLAAGFVRNTVWNHLHGRPPSTPINDIDVIYFDPSDLSYEAEDAIEARLRALFP----G--------- 67 (163)
T ss_dssp HHHHHT--S-S-EEETHHHHHHHHGGGTTS-TT---SEEEEEE--T-TS-HHHHHHHHHHHHHH-T----T---------
T ss_pred chHhhCCCC-ceEeehhhHHHHHHHHhcCCCCCCCCCceeEEEeCCCCCCHHHHHHHHHHHHHhCC----C---------
Confidence 456666653 689999999965 567765 8999988543 222222233333332110 1
Q ss_pred CCceeeEEEEEEcCEEEEeeec-ccccccCCCCCcc-cccCCHHHHHhcCC-CCccceeeecC-CC--ceecCccccHHH
Q 016396 155 QSKHLETATMKLYDLWIDFVNL-RCEDYSENSRIPT-MRFGTAEEDAYRRD-LTINSLFYNIN-TS--SVEDLTGRGIAD 228 (390)
Q Consensus 155 ~~~~~~t~~~~~~~~~iD~~~~-R~e~y~~~~r~P~-v~~gti~eDl~RRD-FTINAla~~l~-~~--~i~D~~g~G~~D 228 (390)
+..|+.+- |-.. +++. -.+ +--+|+..+- =|.-|++..++ .| +++=|+ |++|
T Consensus 68 --------------~~weVkNQArmHl-----~~~~~~py-~S~~dAi~~wpe~~Tavgvrl~~~~~~~l~AP~--GL~d 125 (163)
T PF06042_consen 68 --------------YPWEVKNQARMHL-----WNGDKPPY-TSTEDAISRWPETATAVGVRLNEDGQLELYAPF--GLDD 125 (163)
T ss_dssp --------------SEEEEEESTTTTS-----SSSS-----SSHHHHHTTSSSTTTS-EEE--TTS--EEE-TT---THH
T ss_pred --------------CCEEEEeeeeeee-----ecCCCCCc-ccHHHHHHhcchhheEEEEEECCCCcEEEEccc--ChHH
Confidence 11222221 2111 1111 112 2246666666 47889999987 33 578887 8999
Q ss_pred hhCCCeec
Q 016396 229 LKHGKIVT 236 (390)
Q Consensus 229 L~~~~IR~ 236 (390)
|-+++||.
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 26
>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=95.10 E-value=0.41 Score=39.85 Aligned_cols=90 Identities=19% Similarity=0.200 Sum_probs=59.9
Q ss_pred HHHHHHHHHHHHhcCCCceEEEEcchhhhhhhCCCCCCeEEEEcCCC----hHHHHHHHHHHHHhcCCcCCCceEEecCC
Q 016396 77 TKIFSCLLNTLRHFNLETVLRVAGGWVRDKLLGKDCYDIDIALDNMM----GSEFATKVAEYLSATGETAPSGFGVIPSN 152 (390)
Q Consensus 77 ~~i~~~l~~~l~~~~~~~~~ylVGG~VRD~LLg~~~~DiDia~~~~~----~~~f~~~l~~~l~~~g~~~~~~~~vi~~n 152 (390)
+.+++.+.+.+++.....++|+.|-++..+.+ +..|+|+++.... ..++...+.+.++..+.. ..+..+.
T Consensus 3 ~~i~~~l~~~i~~~~~~~~v~~fGS~~~g~~~--~~SDiDl~i~~~~~~~~~~~~l~~l~~~l~~~~~~--~~~~~i~-- 76 (114)
T cd05402 3 EEVLDRLQELIKEWFPGAKLYPFGSYVTGLGL--PGSDIDLCLLGPNHRVDREDFLRKLAKLLKKSGEV--VEVEPII-- 76 (114)
T ss_pred HHHHHHHHHHHHHHCCCCEEEEecccccCCCC--CCCCeeEEEEeCCCCccHHHHHHHHHHHHHhCCCc--eeeEEec--
Confidence 56778888888886667889999999997754 5679999998753 355566676767654421 1122221
Q ss_pred CCCCceeeEEEEEEc--CEEEEeee
Q 016396 153 PDQSKHLETATMKLY--DLWIDFVN 175 (390)
Q Consensus 153 ~~~~~~~~t~~~~~~--~~~iD~~~ 175 (390)
.......++... |..+|++-
T Consensus 77 ---~ArVPiik~~~~~~~i~~Dis~ 98 (114)
T cd05402 77 ---NARVPIIKFVDKPTGIEVDISF 98 (114)
T ss_pred ---cCCCCEEEEEEcCCCeEEEEEc
Confidence 122356666666 78888873
No 27
>COG3575 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=94.98 E-value=0.16 Score=46.55 Aligned_cols=126 Identities=24% Similarity=0.316 Sum_probs=66.8
Q ss_pred HHHHHHHHhcCCCceEEEEcchhhhhh----hCCC----CCCeEEEEcC--CChHHHHHHHHHHHHhcCCcCCCceEEec
Q 016396 81 SCLLNTLRHFNLETVLRVAGGWVRDKL----LGKD----CYDIDIALDN--MMGSEFATKVAEYLSATGETAPSGFGVIP 150 (390)
Q Consensus 81 ~~l~~~l~~~~~~~~~ylVGG~VRD~L----Lg~~----~~DiDia~~~--~~~~~f~~~l~~~l~~~g~~~~~~~~vi~ 150 (390)
..+++++++.|.. ..||++|+||... -|.. .+|||++.-. ....+-...+.+.+...-...+-.+-|
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 3456677777764 5799999999654 5654 4899998743 122222222333222110000000000
Q ss_pred CCCCCCceeeEEEEEEcCEEEEeeecccccccCCCCCcccccCCHHHHHhcCCCCccceeeecCC-C--ceecCccccHH
Q 016396 151 SNPDQSKHLETATMKLYDLWIDFVNLRCEDYSENSRIPTMRFGTAEEDAYRRDLTINSLFYNINT-S--SVEDLTGRGIA 227 (390)
Q Consensus 151 ~n~~~~~~~~t~~~~~~~~~iD~~~~R~e~y~~~~r~P~v~~gti~eDl~RRDFTINAla~~l~~-~--~i~D~~g~G~~ 227 (390)
+ .-++|.+- .++..| ..+-++-..+==-|.-|....++. | +++-|+ |++
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 11222210 112222 223444455545677777775544 3 577887 899
Q ss_pred HhhCCCeecC
Q 016396 228 DLKHGKIVTP 237 (390)
Q Consensus 228 DL~~~~IR~v 237 (390)
||-+|.||..
T Consensus 147 dlfa~~irpn 156 (184)
T COG3575 147 DLFAGTIRPN 156 (184)
T ss_pred HHhhceeecC
Confidence 9999999953
No 28
>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=94.33 E-value=0.33 Score=43.74 Aligned_cols=84 Identities=17% Similarity=0.196 Sum_probs=50.8
Q ss_pred HHHHHHHHHHhcCCCceEEEEcchhhhhhhCCC--CCCeEEEEcCCChHHHHHHHHHHHHhcCCcCCCceEEecCCCCCC
Q 016396 79 IFSCLLNTLRHFNLETVLRVAGGWVRDKLLGKD--CYDIDIALDNMMGSEFATKVAEYLSATGETAPSGFGVIPSNPDQS 156 (390)
Q Consensus 79 i~~~l~~~l~~~~~~~~~ylVGG~VRD~LLg~~--~~DiDia~~~~~~~~f~~~l~~~l~~~g~~~~~~~~vi~~n~~~~ 156 (390)
++..+...++.. .-.|.+||.+.=.+-|.+ |+||||-|+... ++++.+.|...+...+. .....-.-
T Consensus 5 ~L~~i~~~ln~~---~i~W~lgGS~~L~l~Gl~~~p~DIDI~~D~~d----~e~i~~il~~~~~~~~~----~~~~~~~t 73 (156)
T cd07749 5 ALRKFYERLKNI---NVNWALTGSLSFALQGVPVEPHDIDIQTDNEG----AYEIERIFHEFVNTEVR----FSESEGIR 73 (156)
T ss_pred HHHHHHHHhccC---CceEEehhhHHHHHcCCCCCCCcceEEEchhh----HHHHHHHHHHhccCCCc----cCCCCcee
Confidence 344444444433 346999999999999975 899999998754 35566666655543211 00000012
Q ss_pred ceeeEEEEEEcCEEEEeee
Q 016396 157 KHLETATMKLYDLWIDFVN 175 (390)
Q Consensus 157 ~~~~t~~~~~~~~~iD~~~ 175 (390)
++|+ .+.++|..+|+..
T Consensus 74 s~F~--e~~I~gv~Vdvmg 90 (156)
T cd07749 74 SHFG--ELQIDGIKVEIMG 90 (156)
T ss_pred eeee--EEEECCEEEEEee
Confidence 3443 3467888888763
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=92.81 E-value=0.14 Score=46.38 Aligned_cols=57 Identities=26% Similarity=0.464 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHHhcCCCceEEEEcchhhhhhhCCC---CCCeEEEEcCCChHHHHHHHHHHHHhcC
Q 016396 77 TKIFSCLLNTLRHFNLETVLRVAGGWVRDKLLGKD---CYDIDIALDNMMGSEFATKVAEYLSATG 139 (390)
Q Consensus 77 ~~i~~~l~~~l~~~~~~~~~ylVGG~VRD~LLg~~---~~DiDia~~~~~~~~f~~~l~~~l~~~g 139 (390)
..++..|++++...+ ...||.|||==|+++|+. -.||||.+....- ..+.+.+...|
T Consensus 6 i~~I~~Il~~~~~~~--i~~wi~GGWaiD~~lG~qTReH~DiDi~~~~~~~----~~l~~~L~~~G 65 (174)
T PF10706_consen 6 ITLIHEILDAADELG--IPWWIAGGWAIDALLGRQTREHRDIDIFVPREDQ----AELRALLKELG 65 (174)
T ss_dssp ----------HHHTT----EEEEHHHHHHHHHTS--S--SEEEEEEEGGGH----HHHHHHHHHTT
T ss_pred cccchhhhhhHhhCC--CCEEEECceeeeEeccccccCcCCeEEEEEcchh----HHHHHHHHHCC
Confidence 345566778887775 678999999999999974 5799999976432 34556666544
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=92.46 E-value=0.3 Score=35.18 Aligned_cols=40 Identities=28% Similarity=0.337 Sum_probs=28.9
Q ss_pred HHHHHHHHHHhcCCCceEEEEcchhhhhhhCCCCCCeEEEEc
Q 016396 79 IFSCLLNTLRHFNLETVLRVAGGWVRDKLLGKDCYDIDIALD 120 (390)
Q Consensus 79 i~~~l~~~l~~~~~~~~~ylVGG~VRD~LLg~~~~DiDia~~ 120 (390)
+++.+.+.+++......+|+.|.++|... .+..|+||++.
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 44555556655434578999999999765 55689999985
No 31
>PF09970 DUF2204: Nucleotidyl transferase of unknown function (DUF2204); InterPro: IPR018700 This family of hypothetical prokaryotic proteins has no known function.
Probab=90.22 E-value=1.4 Score=40.52 Aligned_cols=43 Identities=21% Similarity=0.303 Sum_probs=33.4
Q ss_pred HHHHHHHHHhcCCCceEEEEcchhhhhhhCCC--CCCeEEEEcCCCh
Q 016396 80 FSCLLNTLRHFNLETVLRVAGGWVRDKLLGKD--CYDIDIALDNMMG 124 (390)
Q Consensus 80 ~~~l~~~l~~~~~~~~~ylVGG~VRD~LLg~~--~~DiDia~~~~~~ 124 (390)
+..+.+.|++.| .+.++|||++=.+..|.+ .+|+|+.+....+
T Consensus 5 l~~~~~~L~~~g--v~~~ivGG~av~l~~g~~r~T~DIDlfi~~~~~ 49 (181)
T PF09970_consen 5 LKEILEELNKRG--VEYVIVGGAAVNLAYGRRRTTKDIDLFIENPSP 49 (181)
T ss_pred HHHHHHHHHHcC--CeEEEECHHHHHHHhCCCCCCCCeEEEeCCCch
Confidence 455667777664 578999999999888865 7999999976543
No 32
>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=88.84 E-value=1.3 Score=37.56 Aligned_cols=59 Identities=22% Similarity=0.310 Sum_probs=41.3
Q ss_pred hhHHHHHHHHHHHHhcCCCceEEEEcchhhhhhhCCC-CCCeEEEEcCCChHH-------HHHHHHHHHHh
Q 016396 75 TETKIFSCLLNTLRHFNLETVLRVAGGWVRDKLLGKD-CYDIDIALDNMMGSE-------FATKVAEYLSA 137 (390)
Q Consensus 75 ~e~~i~~~l~~~l~~~~~~~~~ylVGG~VRD~LLg~~-~~DiDia~~~~~~~~-------f~~~l~~~l~~ 137 (390)
+-.++.+.+.+.+++...+.++.++||+=| |++ +.|+||.+....+.. +.+.+...+..
T Consensus 6 Ev~~i~~~V~~~~~~i~p~~~v~i~GSyRR----GK~~~gDiDiLIt~~~~~~~~~~~~~~l~~lv~~L~~ 72 (112)
T PF14792_consen 6 EVEEIEEIVKEALEKIDPGLEVEICGSYRR----GKETSGDIDILITHPDPSSVSKKLEGLLEKLVKRLEE 72 (112)
T ss_dssp HHHHHHHHHHHHHHCCSTT-EEEEEHHHHT----T-SEESSEEEEEEETTCSTTTCSTTCHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhcCCCcEEEEcccccc----CCCcCCCeEEEEeCCCcCcchhhHHHHHHHHHHHHHh
Confidence 445677888889998888899999999887 765 789999986643332 44445555554
No 33
>COG1078 HD superfamily phosphohydrolases [General function prediction only]
Probab=83.82 E-value=1.3 Score=46.24 Aligned_cols=78 Identities=17% Similarity=0.263 Sum_probs=47.4
Q ss_pred HHHHhcCCCHHHHHHHHHHcCcchHHhcCCCCCCcchhhhhhhcccchHHHHHHHHHHhcCC---CCCcccchhHHHHhh
Q 016396 295 IDLMVSGNQPVKAMTHICGLTLFWIVFKLPLQVEPEVLEGCEMFCTAYLDAAWDLTQLIGSS---TFNDDQRRLSQYAAL 371 (390)
Q Consensus 295 l~kiL~~~~~~~~L~lL~~~glL~~if~~Pe~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~---~~~~~~~~l~llAaL 371 (390)
+.+++..+ +.+=|+.+.++|+-..+| |...-.. - ..|.+.++-+..+.+.+... ....++..+..+|||
T Consensus 20 i~~LIdT~-~FQRLRrIkQLG~a~lvy--PgAnHTR-F----eHSLGV~~la~~~~~~l~~~~~~~~~~~~~~~~~~AAL 91 (421)
T COG1078 20 ILELIDTP-EFQRLRRIKQLGLAYLVY--PGANHTR-F----EHSLGVYHLARRLLEHLEKNSEEEIDEEERLLVRLAAL 91 (421)
T ss_pred HHHHhCCH-HHHHHHHhhhccceeEec--CCCcccc-c----chhhHHHHHHHHHHHHHhhccccccchHHHHHHHHHHH
Confidence 34566654 778899999999999888 7721111 0 12444444445555544321 112233446668999
Q ss_pred hccccCcee
Q 016396 372 FLPFRNTTY 380 (390)
Q Consensus 372 lhp~gk~~~ 380 (390)
|||+|...+
T Consensus 92 LHDIGHgPF 100 (421)
T COG1078 92 LHDIGHGPF 100 (421)
T ss_pred HHccCCCcc
Confidence 999998764
No 34
>TIGR03671 cca_archaeal CCA-adding enzyme.
Probab=82.92 E-value=6.8 Score=40.67 Aligned_cols=44 Identities=20% Similarity=0.359 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHHhcCCCceEEEEcchhhhhhhCCCCCCeEEEEcC
Q 016396 77 TKIFSCLLNTLRHFNLETVLRVAGGWVRDKLLGKDCYDIDIALDN 121 (390)
Q Consensus 77 ~~i~~~l~~~l~~~~~~~~~ylVGG~VRD~LLg~~~~DiDia~~~ 121 (390)
..+.+.|.+.+.+.+...+++++|.+.|+-.|--. .||||.+--
T Consensus 24 ~~l~~~l~~~~~e~~~~~~v~~~GS~ArgT~L~G~-sDIDIfi~f 67 (408)
T TIGR03671 24 DELIARLEEIIEELGVDAEVVLVGSYARGTWLKGD-RDIDIFILF 67 (408)
T ss_pred HHHHHHHHHHHHhcCCcceEEEEeeEecCCccCCC-CceeEEEEe
Confidence 34455555555555555799999999999888633 499998843
No 35
>PRK13300 tRNA CCA-pyrophosphorylase; Provisional
Probab=82.14 E-value=9.5 Score=40.10 Aligned_cols=44 Identities=23% Similarity=0.359 Sum_probs=32.0
Q ss_pred HHHHHHHHHHHHhcCCCceEEEEcchhhhhhhCCCCCCeEEEEcC
Q 016396 77 TKIFSCLLNTLRHFNLETVLRVAGGWVRDKLLGKDCYDIDIALDN 121 (390)
Q Consensus 77 ~~i~~~l~~~l~~~~~~~~~ylVGG~VRD~LLg~~~~DiDia~~~ 121 (390)
..+.+.|.+.+++.+...+++++|-+.|+-.|--. +||||.+--
T Consensus 25 ~~l~~~L~~~~~~~~~~~~V~l~GS~ArgT~L~Gd-sDIDIFv~f 68 (447)
T PRK13300 25 EELIERLEEAIKELGLDAEVELVGSTARGTWLSGD-RDIDIFVLF 68 (447)
T ss_pred HHHHHHHHHHHHhcCCceEEEEEeeecCCcccCCC-CceeEEEEe
Confidence 34555566666655545789999999999988644 599998844
No 36
>PRK13480 3'-5' exoribonuclease YhaM; Provisional
Probab=80.91 E-value=2.5 Score=42.38 Aligned_cols=24 Identities=4% Similarity=0.015 Sum_probs=17.9
Q ss_pred CCCcccchhHHHHhhhccccCcee
Q 016396 357 TFNDDQRRLSQYAALFLPFRNTTY 380 (390)
Q Consensus 357 ~~~~~~~~l~llAaLlhp~gk~~~ 380 (390)
.++.-++.+.+.+|||||+||...
T Consensus 177 ~y~~~n~dll~agalLHDiGKi~E 200 (314)
T PRK13480 177 LYPSLNKDLLYAGIILHDLGKVIE 200 (314)
T ss_pred hccccCHHHHHHHHHHHHhhhHHH
Confidence 455556667677999999999753
No 37
>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=74.17 E-value=4.4 Score=31.93 Aligned_cols=40 Identities=15% Similarity=0.098 Sum_probs=26.9
Q ss_pred HHHHHHhcCCCceEEEEcchhhhhhhCCCCCCeEEEEcCCCh
Q 016396 83 LLNTLRHFNLETVLRVAGGWVRDKLLGKDCYDIDIALDNMMG 124 (390)
Q Consensus 83 l~~~l~~~~~~~~~ylVGG~VRD~LLg~~~~DiDia~~~~~~ 124 (390)
+.+.+++......+|+.|..+|.... +..|+|+++....+
T Consensus 4 i~~~l~~~~~~~~v~lfGS~a~g~~~--~~SDIDl~i~~~~~ 43 (93)
T PF01909_consen 4 IKEILKELFGVAEVYLFGSYARGDAT--PDSDIDLLIILDEP 43 (93)
T ss_dssp HHHHHHHHHTTEEEEEEHHHHHTSSC--TTSCEEEEEEESST
T ss_pred HHHHHHHHCCCCEEEEECCcccCcCC--CCCCEEEEEEeCCc
Confidence 44444443225789999999995532 34899999976544
No 38
>COG1746 CCA1 tRNA nucleotidyltransferase (CCA-adding enzyme) [Translation, ribosomal structure and biogenesis]
Probab=67.84 E-value=9.5 Score=39.71 Aligned_cols=92 Identities=13% Similarity=0.147 Sum_probs=52.0
Q ss_pred HHHHHHHHHHHhcCCCceEEEEcchhhhhhhCCCCCCeEEEEcCC--ChHHHHHHHHHHHHhcCCcCCCceEEecCCCCC
Q 016396 78 KIFSCLLNTLRHFNLETVLRVAGGWVRDKLLGKDCYDIDIALDNM--MGSEFATKVAEYLSATGETAPSGFGVIPSNPDQ 155 (390)
Q Consensus 78 ~i~~~l~~~l~~~~~~~~~ylVGG~VRD~LLg~~~~DiDia~~~~--~~~~f~~~l~~~l~~~g~~~~~~~~vi~~n~~~ 155 (390)
.|.+.+-+++++.|...++.+||-.-|+-.|--. +|||+-+--+ .+. +++.+.--..|....++ -..+-.-
T Consensus 30 ~l~~~~~~~~~e~~~~aev~lVGS~AkgTwL~gd-~DIDvFi~Fp~d~~~---eel~~~GL~ig~~~l~~---~~~~~~Y 102 (443)
T COG1746 30 ELRERINEIIEELGIDAEVVLVGSYAKGTWLRGD-HDIDVFIAFPKDTSE---EELEEKGLEIGREVLKR---GNYEERY 102 (443)
T ss_pred HHHHHHHHHHHhcCCcceEEEEeecccCcccCCC-cceeEEEECCCCCCH---HHHHHHHHHHHHHHhcC---Cchhhhh
Confidence 3444555556666777899999999999888644 7999876432 222 33333321222111000 0000011
Q ss_pred CceeeEEEEEEcCEEEEeeecc
Q 016396 156 SKHLETATMKLYDLWIDFVNLR 177 (390)
Q Consensus 156 ~~~~~t~~~~~~~~~iD~~~~R 177 (390)
.+| .-++..++|+.+|++++-
T Consensus 103 AeH-PYV~g~v~G~eVDvVPCy 123 (443)
T COG1746 103 AEH-PYVTGEVDGYEVDVVPCY 123 (443)
T ss_pred ccC-CeeEEEEccEEEEEEecc
Confidence 223 446677889999999864
No 39
>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=66.64 E-value=1.8 Score=35.06 Aligned_cols=20 Identities=25% Similarity=0.247 Sum_probs=15.5
Q ss_pred cchhHHHHhhhccccCceee
Q 016396 362 QRRLSQYAALFLPFRNTTYK 381 (390)
Q Consensus 362 ~~~l~llAaLlhp~gk~~~~ 381 (390)
+...+.+||||||+||..+.
T Consensus 24 ~~~~l~~aaLlHDiGk~~~~ 43 (122)
T PF01966_consen 24 DRELLRIAALLHDIGKIPTP 43 (122)
T ss_dssp HHHHHHHHHHHTTTTHHSTH
T ss_pred hHHHHHHHHHHHhcCCCCCc
Confidence 33455589999999999864
No 40
>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=65.16 E-value=88 Score=26.72 Aligned_cols=74 Identities=19% Similarity=0.206 Sum_probs=44.1
Q ss_pred ceEEEEcchhhhhhhCCCCCCeEEEEcCC--------ChHHHHHHHHHHHHhcCCcCCCceEEecCCCCCCceeeEEEEE
Q 016396 94 TVLRVAGGWVRDKLLGKDCYDIDIALDNM--------MGSEFATKVAEYLSATGETAPSGFGVIPSNPDQSKHLETATMK 165 (390)
Q Consensus 94 ~~~ylVGG~VRD~LLg~~~~DiDia~~~~--------~~~~f~~~l~~~l~~~g~~~~~~~~vi~~n~~~~~~~~t~~~~ 165 (390)
..+|+.|.+.|+-.+.. ..|+|+++... ...++...+.+.+....... ..+. .++ ..+++.
T Consensus 28 ~~~~~~GS~a~~T~i~~-~sDiD~~v~~~~~~~~~~~~~~~~~~~l~~~L~~~~~~~----~~~~-----~~~-~~v~v~ 96 (143)
T cd05400 28 AEVFLQGSYARGTALRG-DSDIDLVVVLPDDTSFAEYGPAELLDELGEALKEYYGAN----EEVK-----AQH-RSVTVK 96 (143)
T ss_pred cEEEEEcceeCCCCCCC-CCceeEEEEEcCcccccccCHHHHHHHHHHHHHHhcCcc----cccc-----cCc-eEEEEE
Confidence 57899999999877654 58999988432 22334444555554422100 0111 111 356667
Q ss_pred Ec--CEEEEeeeccc
Q 016396 166 LY--DLWIDFVNLRC 178 (390)
Q Consensus 166 ~~--~~~iD~~~~R~ 178 (390)
+. ++.+|+++...
T Consensus 97 ~~~~~~~vDvvP~~~ 111 (143)
T cd05400 97 FKGQGFHVDVVPAFE 111 (143)
T ss_pred EcCCCeEEEEEEEee
Confidence 76 78999988763
No 41
>COG4849 Predicted nucleotidyltransferase [General function prediction only]
Probab=58.51 E-value=17 Score=34.72 Aligned_cols=45 Identities=20% Similarity=0.165 Sum_probs=31.5
Q ss_pred ceEEEEcchhhhhhh--------CCCCCCeEEEEcCCChHHHHHHHHHHHHhcC
Q 016396 94 TVLRVAGGWVRDKLL--------GKDCYDIDIALDNMMGSEFATKVAEYLSATG 139 (390)
Q Consensus 94 ~~~ylVGG~VRD~LL--------g~~~~DiDia~~~~~~~~f~~~l~~~l~~~g 139 (390)
.+..+||.-.||++. ++..+|+||+..-.+-..| +.++.-|+..|
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 355799999999986 5667999998865554445 44555555443
No 42
>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=56.47 E-value=5.3 Score=31.83 Aligned_cols=15 Identities=53% Similarity=0.866 Sum_probs=13.1
Q ss_pred EEcchhhhhhhCCCC
Q 016396 98 VAGGWVRDKLLGKDC 112 (390)
Q Consensus 98 lVGG~VRD~LLg~~~ 112 (390)
+-||-+||.|+|+.|
T Consensus 39 ~GGG~lRDvll~~~P 53 (80)
T PF03458_consen 39 VGGGILRDVLLGRTP 53 (80)
T ss_pred hhcHHHHHHHcCCCC
Confidence 459999999999966
No 43
>PF14091 DUF4269: Domain of unknown function (DUF4269)
Probab=55.97 E-value=47 Score=29.92 Aligned_cols=28 Identities=14% Similarity=0.119 Sum_probs=22.3
Q ss_pred CCCCCeEEEEcCCChHHHHHHHHHHHHh
Q 016396 110 KDCYDIDIALDNMMGSEFATKVAEYLSA 137 (390)
Q Consensus 110 ~~~~DiDia~~~~~~~~f~~~l~~~l~~ 137 (390)
.+..|+||++.......|.+.+.+.+..
T Consensus 30 i~~SDLDIic~~~d~~~F~~~l~~~f~~ 57 (152)
T PF14091_consen 30 IPGSDLDIICEVPDPEAFEQLLQSLFGQ 57 (152)
T ss_pred CCCCCccEEEEeCCHHHHHHHHHHHhcc
Confidence 4568999999998888888877776643
No 44
>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=55.31 E-value=21 Score=32.64 Aligned_cols=31 Identities=26% Similarity=0.293 Sum_probs=25.4
Q ss_pred CCceEEEEcchhhhhhhC---CCCCCeEEEEcCC
Q 016396 92 LETVLRVAGGWVRDKLLG---KDCYDIDIALDNM 122 (390)
Q Consensus 92 ~~~~~ylVGG~VRD~LLg---~~~~DiDia~~~~ 122 (390)
.+....+.||..-.+..+ |.+.|||+++...
T Consensus 11 ~~~~~~l~GGtal~l~~~~~~R~S~DiD~~~~~~ 44 (233)
T PF08843_consen 11 LGDPFVLKGGTALSLRYGGSHRFSEDIDFVVDRD 44 (233)
T ss_pred cCCCEEEECHHHHHHhcCCCcEecCcccEEEecc
Confidence 456789999999999843 6689999999764
No 45
>PRK12703 tRNA 2'-O-methylase; Reviewed
Probab=53.12 E-value=23 Score=35.93 Aligned_cols=23 Identities=9% Similarity=0.280 Sum_probs=16.8
Q ss_pred ceecChhhHHHHHHHHHHHHhcC
Q 016396 69 KIELTDTETKIFSCLLNTLRHFN 91 (390)
Q Consensus 69 ~i~l~~~e~~i~~~l~~~l~~~~ 91 (390)
.|-|+.....+.+.+.++....|
T Consensus 32 ~~~~~~~d~~~~~~~~~v~~~~g 54 (339)
T PRK12703 32 SILVDERDETLENTIKKVVDNFG 54 (339)
T ss_pred eeEecCCcHhHHHHHHHHHHhcC
Confidence 46667777788888888777765
No 46
>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=52.97 E-value=21 Score=27.63 Aligned_cols=41 Identities=20% Similarity=0.124 Sum_probs=26.4
Q ss_pred HHHHHHHHhcCC-CceEEEEcchhhhhhhCCCCCCeEEEEcCCC
Q 016396 81 SCLLNTLRHFNL-ETVLRVAGGWVRDKLLGKDCYDIDIALDNMM 123 (390)
Q Consensus 81 ~~l~~~l~~~~~-~~~~ylVGG~VRD~LLg~~~~DiDia~~~~~ 123 (390)
+.+.+.+++... -..+|+-|-++|.--- +-.|+||++-...
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 334444444332 3578999998885443 4679999997654
No 47
>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=48.97 E-value=9.2 Score=28.72 Aligned_cols=16 Identities=19% Similarity=0.200 Sum_probs=13.3
Q ss_pred hHHHHhhhccccCcee
Q 016396 365 LSQYAALFLPFRNTTY 380 (390)
Q Consensus 365 l~llAaLlhp~gk~~~ 380 (390)
.+.+|+||||+|+...
T Consensus 29 ~l~~AalLHDiG~~~~ 44 (80)
T TIGR00277 29 LARRGALLHDIGKPIT 44 (80)
T ss_pred HHHHHHHHHccCCccc
Confidence 4558999999999875
No 48
>KOG2681 consensus Metal-dependent phosphohydrolase [Function unknown]
Probab=48.49 E-value=16 Score=38.18 Aligned_cols=76 Identities=16% Similarity=0.200 Sum_probs=41.6
Q ss_pred HHhcCCCHHHHHHHHHHcCcchHHhcCCCCCCcchhhhhhhcccchHHHHHHHHHHhcCCCCCc-----ccchhHHHHhh
Q 016396 297 LMVSGNQPVKAMTHICGLTLFWIVFKLPLQVEPEVLEGCEMFCTAYLDAAWDLTQLIGSSTFND-----DQRRLSQYAAL 371 (390)
Q Consensus 297 kiL~~~~~~~~L~lL~~~glL~~if~~Pe~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----~~~~l~llAaL 371 (390)
+++..+ -.+-|+.+.++|+...++ |...... -+ .|.+.+.-+..+.+.+..++.++ .+...+-+|||
T Consensus 44 ~lidt~-~FqRLr~vkQlGl~~~vy--p~A~HsR-fe----HsLG~~~lA~~~v~~L~~~q~~El~It~~d~~~vqvA~L 115 (498)
T KOG2681|consen 44 KLIDTP-LFQRLRHVKQLGLRYLVY--PGANHSR-FE----HSLGTYTLAGILVNALNKNQCPELCITEVDLQAVQVAAL 115 (498)
T ss_pred HHhccH-HHHHHHHHHHhCceeeec--cCCccch-hh----hhhhhHHHHHHHHHHHhhcCCCCCCCCHHHHHHHHHHHH
Confidence 344432 345677888999998777 7622111 11 23333333444555555432111 12223348999
Q ss_pred hccccCcee
Q 016396 372 FLPFRNTTY 380 (390)
Q Consensus 372 lhp~gk~~~ 380 (390)
|||+|...+
T Consensus 116 LHDIGHGPf 124 (498)
T KOG2681|consen 116 LHDIGHGPF 124 (498)
T ss_pred HhhcCCCch
Confidence 999998754
No 49
>COG2860 Predicted membrane protein [Function unknown]
Probab=48.20 E-value=8.2 Score=36.42 Aligned_cols=15 Identities=47% Similarity=0.733 Sum_probs=12.7
Q ss_pred EEcchhhhhhhCCCC
Q 016396 98 VAGGWVRDKLLGKDC 112 (390)
Q Consensus 98 lVGG~VRD~LLg~~~ 112 (390)
+-||.+||+|||+-|
T Consensus 44 iGGGtiRDlLLG~~P 58 (209)
T COG2860 44 IGGGTIRDLLLGHYP 58 (209)
T ss_pred hcchHHHHHHccCCC
Confidence 459999999999655
No 50
>cd00077 HDc Metal dependent phosphohydrolases with conserved 'HD' motif
Probab=48.14 E-value=8 Score=31.29 Aligned_cols=19 Identities=21% Similarity=0.149 Sum_probs=14.6
Q ss_pred cchhHHHHhhhccccCcee
Q 016396 362 QRRLSQYAALFLPFRNTTY 380 (390)
Q Consensus 362 ~~~l~llAaLlhp~gk~~~ 380 (390)
+...+++||||||+|+...
T Consensus 27 ~~~~l~~aaLlHDig~~~~ 45 (145)
T cd00077 27 DIELLRLAALLHDIGKPGT 45 (145)
T ss_pred HHHHHHHHHHHHhcCCccC
Confidence 3445568999999999764
No 51
>PRK07152 nadD putative nicotinate-nucleotide adenylyltransferase; Validated
Probab=42.07 E-value=59 Score=32.66 Aligned_cols=31 Identities=19% Similarity=0.096 Sum_probs=19.8
Q ss_pred cCCHHHHHHHHHHHhcCCCHHHHHHHHHHcCcch
Q 016396 285 KISRERVGTEIDLMVSGNQPVKAMTHICGLTLFW 318 (390)
Q Consensus 285 ~vs~ERI~~El~kiL~~~~~~~~L~lL~~~glL~ 318 (390)
.+|.-.|+.-+. .+.=|....+.+.+.|+..
T Consensus 155 ~iSST~IR~~~~---~~~vP~~V~~YI~~~~LY~ 185 (342)
T PRK07152 155 NISSTKIRKGNL---LGKLDPKVNDYINENFLYL 185 (342)
T ss_pred ccCHHHHHHHHH---cCCCCHHHHHHHHHcCccc
Confidence 456666665543 2335667888888888874
No 52
>COG1708 Predicted nucleotidyltransferases [General function prediction only]
Probab=41.02 E-value=57 Score=26.65 Aligned_cols=30 Identities=17% Similarity=0.344 Sum_probs=22.6
Q ss_pred cCCCceEEEEcchhhhhhhCCCCCCeEEEEcC
Q 016396 90 FNLETVLRVAGGWVRDKLLGKDCYDIDIALDN 121 (390)
Q Consensus 90 ~~~~~~~ylVGG~VRD~LLg~~~~DiDia~~~ 121 (390)
.+.-..+|+.|.++|--... -.|+|+++-.
T Consensus 23 ~~~~~~v~LfGS~arG~~~~--~SDiDv~vv~ 52 (128)
T COG1708 23 LGGDLLIYLFGSYARGDFVK--ESDIDLLVVS 52 (128)
T ss_pred cCCCeEEEEEccCccccccc--CCCeeEEEEc
Confidence 33346899999999965544 5799998874
No 53
>COG1669 Predicted nucleotidyltransferases [General function prediction only]
Probab=39.79 E-value=79 Score=26.38 Aligned_cols=48 Identities=25% Similarity=0.393 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHH-hcCCCceEEEEcchhhhhhhCCCCCCeEEEEcCCChHHH
Q 016396 77 TKIFSCLLNTLR-HFNLETVLRVAGGWVRDKLLGKDCYDIDIALDNMMGSEF 127 (390)
Q Consensus 77 ~~i~~~l~~~l~-~~~~~~~~ylVGG~VRD~LLg~~~~DiDia~~~~~~~~f 127 (390)
+.++..+...++ .+|. .++.|-|-.+|+- ..+-.||||.|+..++..+
T Consensus 8 ~~~lr~~~~~l~~k~gv-~~~~vFGS~aRgE--~~~~SDIDILVef~~~~~l 56 (97)
T COG1669 8 KKILRKIKPELKEKYGV-KRVAVFGSYARGE--QKPDSDIDILVEFEPGKTL 56 (97)
T ss_pred HHHHHHHHHHHHHHhCC-ceEEEeeeeecCC--CCCCCCceeEEeecCCccH
Confidence 344677777777 4543 4788999999875 3456899999998765333
No 54
>cd00141 NT_POLXc Nucleotidyltransferase (NT) domain of family X DNA Polymerases. X family polymerases fill in short gaps during DNA repair. They are relatively inaccurate enzymes and play roles in base excision repair, in non-homologous end joining (NHEJ) which acts mainly to repair damage due to ionizing radiation, and in V(D)J recombination. This family includes eukaryotic Pol beta, Pol lambda, Pol mu, and terminal deoxyribonucleotidyl transferase (TdT). Pol beta and Pol lambda are primarily DNA template-dependent polymerases. TdT is a DNA template-independent polymerase. Pol mu has both template dependent and template independent activities. This subgroup belongs to the Pol beta-like NT superfamily. In the majority of enzymes in this superfamily, two carboxylates, Dx[D/E], together with a third more distal carboxylate, coordinate two divalent metal cations involved in a two-metal ion mechanism of nucleotide addition. These three carboxylate residues are fairly well conserved in this
Probab=38.78 E-value=1e+02 Score=30.67 Aligned_cols=51 Identities=25% Similarity=0.356 Sum_probs=34.3
Q ss_pred cceecChhhHHHHHHHHHHHHhcCCCceEEEEcchhhhhhhCCC-CCCeEEEEcCCC
Q 016396 68 DKIELTDTETKIFSCLLNTLRHFNLETVLRVAGGWVRDKLLGKD-CYDIDIALDNMM 123 (390)
Q Consensus 68 ~~i~l~~~e~~i~~~l~~~l~~~~~~~~~ylVGG~VRD~LLg~~-~~DiDia~~~~~ 123 (390)
..|.+. +-..+.+.|.+.++......++.++|++=| |++ +.|+||++....
T Consensus 136 ~ri~r~-ea~~~a~~i~~~l~~~~~~~~v~i~GS~RR----g~et~gDiDilv~~~~ 187 (307)
T cd00141 136 QRIPRE-EALAIAEIIKEALREVDPVLQVEIAGSYRR----GKETVGDIDILVTHPD 187 (307)
T ss_pred CCeEHH-HHHHHHHHHHHHHHhCCCceEEEEcccccC----CCCccCCEEEEEecCC
Confidence 344443 334566778888887755677778887633 554 789999997643
No 55
>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=38.36 E-value=15 Score=29.02 Aligned_cols=17 Identities=24% Similarity=0.135 Sum_probs=14.0
Q ss_pred hhHHHHhhhccccCcee
Q 016396 364 RLSQYAALFLPFRNTTY 380 (390)
Q Consensus 364 ~l~llAaLlhp~gk~~~ 380 (390)
..+.+|+||||+|+...
T Consensus 29 ~~~~~a~LlHDig~~~~ 45 (124)
T smart00471 29 ELLLLAALLHDIGKPGT 45 (124)
T ss_pred HHHHHHHHHHcccCccC
Confidence 34558999999999876
No 56
>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=38.25 E-value=22 Score=34.01 Aligned_cols=18 Identities=11% Similarity=0.014 Sum_probs=13.6
Q ss_pred cchhHHHHhhhccccCce
Q 016396 362 QRRLSQYAALFLPFRNTT 379 (390)
Q Consensus 362 ~~~l~llAaLlhp~gk~~ 379 (390)
+..++.+||||||+|...
T Consensus 81 D~evl~lAALLHDIG~~~ 98 (228)
T TIGR03401 81 SDETWFLTCLLHDIGTTD 98 (228)
T ss_pred CHHHHHHHHHHHhhcccc
Confidence 344566899999999843
No 57
>COG1418 Predicted HD superfamily hydrolase [General function prediction only]
Probab=34.73 E-value=24 Score=33.47 Aligned_cols=21 Identities=19% Similarity=0.175 Sum_probs=15.8
Q ss_pred cchhHHHHhhhccccCceeec
Q 016396 362 QRRLSQYAALFLPFRNTTYKD 382 (390)
Q Consensus 362 ~~~l~llAaLlhp~gk~~~~~ 382 (390)
+..+...||||||+|+....+
T Consensus 58 D~~l~~~aaLLHDIg~~~~~~ 78 (222)
T COG1418 58 DPDLALRAALLHDIGKAIDHE 78 (222)
T ss_pred CHHHHHHHHHHHhhccccccC
Confidence 334556799999999998643
No 58
>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=34.70 E-value=1.1e+02 Score=30.15 Aligned_cols=53 Identities=15% Similarity=0.127 Sum_probs=23.0
Q ss_pred hhHHHHHHHHHHHHhcCCCceEEEEcchhhhhhhCCCCCCeEEEEcCCChHHH
Q 016396 75 TETKIFSCLLNTLRHFNLETVLRVAGGWVRDKLLGKDCYDIDIALDNMMGSEF 127 (390)
Q Consensus 75 ~e~~i~~~l~~~l~~~~~~~~~ylVGG~VRD~LLg~~~~DiDia~~~~~~~~f 127 (390)
.|+.+++.|+++++.-..=--+++.|--++--.---.-.|+||+.-....+.|
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 47889999999997643212355667767644433445799998765443333
No 59
>COG2206 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]
Probab=34.28 E-value=26 Score=35.25 Aligned_cols=23 Identities=9% Similarity=0.109 Sum_probs=16.4
Q ss_pred CCcccchhHHHHhhhccccCcee
Q 016396 358 FNDDQRRLSQYAALFLPFRNTTY 380 (390)
Q Consensus 358 ~~~~~~~l~llAaLlhp~gk~~~ 380 (390)
++.++-....+||+|||+||...
T Consensus 169 l~~~~i~~l~~aalLHDIGKi~i 191 (344)
T COG2206 169 LSEEKIEELALAGLLHDIGKIGI 191 (344)
T ss_pred CCHHHHHHHHHHHHHhhcccccC
Confidence 34444444458999999999886
No 60
>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=31.09 E-value=25 Score=31.61 Aligned_cols=18 Identities=17% Similarity=0.047 Sum_probs=14.2
Q ss_pred chhHHHHhhhccccCcee
Q 016396 363 RRLSQYAALFLPFRNTTY 380 (390)
Q Consensus 363 ~~l~llAaLlhp~gk~~~ 380 (390)
...+..||||||+||...
T Consensus 41 ~~~l~~aaLLHDIGK~~~ 58 (164)
T TIGR00295 41 MDLVLKGALLHDIGRART 58 (164)
T ss_pred HHHHHHHHHHhcCCcccC
Confidence 345568999999999764
No 61
>PRK10578 hypothetical protein; Provisional
Probab=29.94 E-value=24 Score=33.34 Aligned_cols=15 Identities=40% Similarity=0.565 Sum_probs=13.0
Q ss_pred EEcchhhhhhhCCCC
Q 016396 98 VAGGWVRDKLLGKDC 112 (390)
Q Consensus 98 lVGG~VRD~LLg~~~ 112 (390)
+=||-+||.++|+.|
T Consensus 41 ~GGG~iRDill~~~P 55 (207)
T PRK10578 41 VGGGTIRDMALDNGP 55 (207)
T ss_pred hhcHHHHHHHcCCCC
Confidence 449999999999976
No 62
>KOG1573 consensus Aldehyde reductase [General function prediction only]
Probab=29.55 E-value=26 Score=31.99 Aligned_cols=32 Identities=16% Similarity=0.126 Sum_probs=21.0
Q ss_pred HHHHHHHHHhcCCCCCcccchhHH-HHhhhccccCce
Q 016396 344 DAAWDLTQLIGSSTFNDDQRRLSQ-YAALFLPFRNTT 379 (390)
Q Consensus 344 ~~~~~~~~~l~~~~~~~~~~~l~l-lAaLlhp~gk~~ 379 (390)
.++..+.+.+.+ .++. ..|+ |+||.||+||..
T Consensus 99 ~Ha~QtAE~iR~-~~Pd---~dWlHLtaLiHDLGKvl 131 (204)
T KOG1573|consen 99 QHALQTAEAIRK-DYPD---EDWLHLTALIHDLGKVL 131 (204)
T ss_pred HHHHHHHHHHHH-hCCC---ccHHHHHHHHHHHHHHH
Confidence 345566666643 3333 3466 899999999974
No 63
>TIGR03760 ICE_TraI_Pfluor integrating conjugative element relaxase, PFL_4751 family. Members of this protein family are the TraI putative relaxases required for transfer by a subclass of integrating conjugative elements (ICE) as found in Pseudomonas fluorescens Pf-5, and understood from study of two related ICE, SXT and R391. This model represents the N-terminal domain. Note that no homology is detected to the similarly named TraI relaxase of the F plasmid.
Probab=26.18 E-value=27 Score=33.14 Aligned_cols=15 Identities=27% Similarity=0.275 Sum_probs=12.3
Q ss_pred hHHHHhhhccccCce
Q 016396 365 LSQYAALFLPFRNTT 379 (390)
Q Consensus 365 l~llAaLlhp~gk~~ 379 (390)
+.++||||||+||+.
T Consensus 107 ~~~~aaLlHDlgK~~ 121 (218)
T TIGR03760 107 AVFYAALLHDLGKLA 121 (218)
T ss_pred HHHHHHHHHhhhhhh
Confidence 445799999999984
No 64
>PF14907 NTP_transf_5: Uncharacterised nucleotidyltransferase
Probab=23.92 E-value=2.9e+02 Score=25.56 Aligned_cols=56 Identities=18% Similarity=0.217 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHhcCCCceEEEEcch-hhhhhhC----CCCCCeEEEEcCCChHHHHHHHHHHHHhcCC
Q 016396 78 KIFSCLLNTLRHFNLETVLRVAGGW-VRDKLLG----KDCYDIDIALDNMMGSEFATKVAEYLSATGE 140 (390)
Q Consensus 78 ~i~~~l~~~l~~~~~~~~~ylVGG~-VRD~LLg----~~~~DiDia~~~~~~~~f~~~l~~~l~~~g~ 140 (390)
..+..|.+.+++.| .++.+.+|. +.+ +-+ |...||||.|... ++ +.+.+.+...|-
T Consensus 58 ~~~~~i~~~l~~~g--I~~~~lKG~~l~~-~Y~~~~~R~~~DiDlLV~~~---d~-~~a~~~L~~~Gy 118 (249)
T PF14907_consen 58 AELQEILAALNANG--IPVILLKGAALAQ-LYPDPGLRPMGDIDLLVPPE---DL-ERAVELLEELGY 118 (249)
T ss_pred HHHHHHHHHHHHcC--CCEEEEchHHHHH-hCCCCCCCCCCCeEEEEeCC---cH-HHHHHHHHHcCC
Confidence 44456667777665 555666555 455 554 4579999999743 22 445666666553
No 65
>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=23.49 E-value=62 Score=29.90 Aligned_cols=16 Identities=13% Similarity=-0.068 Sum_probs=12.6
Q ss_pred hhHHHHhhhccccCce
Q 016396 364 RLSQYAALFLPFRNTT 379 (390)
Q Consensus 364 ~l~llAaLlhp~gk~~ 379 (390)
..+..||||||+|...
T Consensus 44 ~elvvAALLHDIGhll 59 (179)
T TIGR03276 44 DELIVAAFLHDIGHLL 59 (179)
T ss_pred HHHHHHHHHHhcchhh
Confidence 3456899999999864
No 66
>COG4914 Predicted nucleotidyltransferase [General function prediction only]
Probab=23.28 E-value=1.4e+02 Score=27.26 Aligned_cols=30 Identities=23% Similarity=0.211 Sum_probs=25.4
Q ss_pred CceEEEEcchhhhhhhCCC--CCCeEEEEcCC
Q 016396 93 ETVLRVAGGWVRDKLLGKD--CYDIDIALDNM 122 (390)
Q Consensus 93 ~~~~ylVGG~VRD~LLg~~--~~DiDia~~~~ 122 (390)
|++.-|+||.|=+..||+. +.|+|+-....
T Consensus 21 g~~FviIG~tvv~~~l~~~~~~~DVDLF~~~~ 52 (190)
T COG4914 21 GVEFVIIGSTVVPFVLNIDYDPRDVDLFIINK 52 (190)
T ss_pred CeEEEEECCeEEEEEeccCCCccccceeeccC
Confidence 5788899999999999985 89999866543
No 67
>smart00483 POLXc DNA polymerase X family. includes vertebrate polymerase beta and terminal deoxynucleotidyltransferases
Probab=21.96 E-value=2.3e+02 Score=28.44 Aligned_cols=45 Identities=16% Similarity=0.304 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHhcCCCceEEEEcchhhhhhhCCC-CCCeEEEEcCCChH
Q 016396 77 TKIFSCLLNTLRHFNLETVLRVAGGWVRDKLLGKD-CYDIDIALDNMMGS 125 (390)
Q Consensus 77 ~~i~~~l~~~l~~~~~~~~~ylVGG~VRD~LLg~~-~~DiDia~~~~~~~ 125 (390)
..+.+.|.+.++.......+-++|++=| |++ +.||||++....+.
T Consensus 148 ~~i~~~i~~~l~~~~~~~~v~i~GSyRR----gket~gDIDili~~~~~~ 193 (334)
T smart00483 148 FAVEYIVKRAVRKILPDAIVTLTGSFRR----GKETGHDVDFLITSPHPA 193 (334)
T ss_pred HHHHHHHHHHHHhhCCCcEEEEeccccc----CCCcCCCeeEEEecCCcc
Confidence 4556677777777655566666777655 654 79999999765443
No 68
>PF07514 TraI_2: Putative helicase; InterPro: IPR011119 The members of this family are restricted to the proteobacteria. Some members have been annotated as helicase, conjugative relaxase or nickase. The majority contain an HD domain, which 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.
Probab=21.95 E-value=45 Score=33.57 Aligned_cols=14 Identities=29% Similarity=0.290 Sum_probs=11.6
Q ss_pred HHHhhhccccCcee
Q 016396 367 QYAALFLPFRNTTY 380 (390)
Q Consensus 367 llAaLlhp~gk~~~ 380 (390)
.+||||||+||+.+
T Consensus 108 f~AALlhdlgk~l~ 121 (327)
T PF07514_consen 108 FYAALLHDLGKPLT 121 (327)
T ss_pred HHHHHHhccCccee
Confidence 37999999999654
No 69
>PRK13746 aminoglycoside resistance protein; Provisional
Probab=21.45 E-value=1.8e+02 Score=28.48 Aligned_cols=40 Identities=20% Similarity=0.163 Sum_probs=26.5
Q ss_pred HHHHHHHHHhcCCCc--eEEEEcchhhhhhhCCCCCCeEEEEcC
Q 016396 80 FSCLLNTLRHFNLET--VLRVAGGWVRDKLLGKDCYDIDIALDN 121 (390)
Q Consensus 80 ~~~l~~~l~~~~~~~--~~ylVGG~VRD~LLg~~~~DiDia~~~ 121 (390)
+..+.+.++++-.+. .+|+-|-.|+.-+- +-.|||+++..
T Consensus 13 l~~~~~~l~~~l~~~l~~vyLfGS~~~G~~~--p~SDIDllvvv 54 (262)
T PRK13746 13 LSEACAVIERHLEPTLLAIHLYGSAVDGGLK--PHSDIDLLVTV 54 (262)
T ss_pred HHHHHHHHHHhCcccEEEEEEECCcccCCCC--CCCceeEEEEe
Confidence 444556666653222 57999999995432 46899998854
No 70
>PF05153 DUF706: Family of unknown function (DUF706) ; InterPro: IPR007828 Inositol oxygenase (1.13.99.1 from EC) is involved in the biosynthesis of UDP-glucuronic acid (UDP-GlcA), providing nucleotide sugars for cell-wall polymers. It may be also involved in plant ascorbate biosynthesis [, ].; GO: 0005506 iron ion binding, 0050113 inositol oxygenase activity, 0019310 inositol catabolic process, 0055114 oxidation-reduction process, 0005737 cytoplasm; PDB: 2HUO_A 3BXD_A 2IBN_A.
Probab=20.92 E-value=61 Score=31.49 Aligned_cols=35 Identities=11% Similarity=0.037 Sum_probs=23.0
Q ss_pred hHHHHHHHHHHhcCCCCCcccchhHH-HHhhhccccCcee
Q 016396 342 YLDAAWDLTQLIGSSTFNDDQRRLSQ-YAALFLPFRNTTY 380 (390)
Q Consensus 342 ~~~~~~~~~~~l~~~~~~~~~~~l~l-lAaLlhp~gk~~~ 380 (390)
.+.++..|++.+.. ..-+..|+ |.+|+||+||.-+
T Consensus 63 ~i~H~lQTAEaiR~----d~~~~dW~~LtGLiHDLGKvl~ 98 (253)
T PF05153_consen 63 QIQHALQTAEAIRR----DHPDPDWMQLTGLIHDLGKVLA 98 (253)
T ss_dssp HHHHHHHHHHHHHH----HSTT-HHHHHHHHHTTGGGHHH
T ss_pred HHHHHHHHHHHHHH----hCCCcchhhheehhccchhhhh
Confidence 35566677777652 11234566 8999999999754
No 71
>PRK10119 putative hydrolase; Provisional
Probab=20.28 E-value=73 Score=30.54 Aligned_cols=16 Identities=13% Similarity=0.034 Sum_probs=12.0
Q ss_pred cchhHHHHhhhccccC
Q 016396 362 QRRLSQYAALFLPFRN 377 (390)
Q Consensus 362 ~~~l~llAaLlhp~gk 377 (390)
+..++.+||+|||++.
T Consensus 47 D~~vv~lAAlLHDv~d 62 (231)
T PRK10119 47 DMLVVLTACYFHDIVS 62 (231)
T ss_pred CHHHHHHHHHHhhcch
Confidence 3345558999999975
Done!