Query 005380
Match_columns 699
No_of_seqs 206 out of 1357
Neff 5.2
Searched_HMMs 46136
Date Thu Mar 28 22:32:26 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005380.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005380hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG5260 TRF4 DNA polymerase si 100.0 3.6E-47 7.8E-52 413.7 26.2 291 370-685 50-343 (482)
2 KOG1906 DNA polymerase sigma [ 100.0 7.5E-41 1.6E-45 371.5 27.2 285 371-687 57-344 (514)
3 PTZ00418 Poly(A) polymerase; P 100.0 3.8E-33 8.2E-38 313.6 28.2 276 375-696 68-404 (593)
4 KOG2277 S-M checkpoint control 100.0 1.7E-30 3.7E-35 296.5 22.3 303 376-685 113-431 (596)
5 KOG2245 Poly(A) polymerase and 100.0 2.1E-29 4.5E-34 274.4 25.5 279 373-697 29-361 (562)
6 COG5186 PAP1 Poly(A) polymeras 99.9 6.6E-23 1.4E-27 216.4 22.1 282 368-695 16-351 (552)
7 cd05402 NT_PAP_TUTase Nucleoti 99.9 1.3E-22 2.7E-27 184.8 13.4 112 398-509 2-114 (114)
8 PF04928 PAP_central: Poly(A) 99.9 6.2E-23 1.3E-27 213.0 11.0 226 375-696 20-254 (254)
9 TIGR03671 cca_archaeal CCA-add 99.8 1.4E-16 3.1E-21 174.4 25.1 241 382-696 3-263 (408)
10 PRK13300 tRNA CCA-pyrophosphor 99.7 2.3E-16 4.9E-21 175.0 23.1 241 381-696 3-266 (447)
11 COG1746 CCA1 tRNA nucleotidylt 99.6 1.2E-14 2.6E-19 158.1 22.2 246 377-698 3-270 (443)
12 PF03828 PAP_assoc: Cid1 famil 99.3 5.8E-13 1.3E-17 108.7 3.5 60 598-657 1-60 (60)
13 PF09249 tRNA_NucTransf2: tRNA 98.6 1.6E-07 3.5E-12 86.6 8.2 109 519-695 3-114 (114)
14 PF03813 Nrap: Nrap protein; 98.4 1.8E-05 3.9E-10 96.8 20.9 153 504-693 155-309 (972)
15 smart00572 DZF domain in DSRM 98.3 1.1E-05 2.3E-10 84.1 13.1 198 417-685 4-232 (246)
16 PF01909 NTP_transf_2: Nucleot 98.1 6.8E-06 1.5E-10 71.6 7.2 44 402-445 1-44 (93)
17 cd05397 NT_Pol-beta-like Nucle 97.9 1.6E-05 3.5E-10 63.1 5.5 41 400-440 2-42 (49)
18 cd05400 NT_2-5OAS_ClassI-CCAas 97.9 7.6E-05 1.7E-09 70.6 11.1 77 414-492 26-107 (143)
19 cd05403 NT_KNTase_like Nucleot 97.7 0.00018 3.9E-09 62.0 7.8 44 401-444 3-47 (93)
20 PF10421 OAS1_C: 2'-5'-oligoad 97.6 0.00019 4.1E-09 72.3 7.9 58 498-555 26-85 (190)
21 PF07528 DZF: DZF domain; Int 97.4 0.0026 5.6E-08 66.9 13.1 196 421-685 2-234 (248)
22 COG1669 Predicted nucleotidylt 97.1 0.0031 6.8E-08 57.3 8.8 47 398-444 7-53 (97)
23 COG1708 Predicted nucleotidylt 97.0 0.0028 6.1E-08 57.6 8.0 37 405-441 16-52 (128)
24 PF03813 Nrap: Nrap protein; 96.9 0.15 3.2E-06 63.3 24.4 265 392-697 498-841 (972)
25 KOG2054 Nucleolar RNA-associat 96.0 0.06 1.3E-06 65.3 12.3 139 510-693 305-445 (1121)
26 PRK13746 aminoglycoside resist 95.7 0.032 7E-07 59.2 8.1 43 402-444 13-57 (262)
27 PF14091 DUF4269: Domain of un 95.7 0.18 4E-06 49.4 12.5 112 417-532 17-142 (152)
28 KOG3793 Transcription factor N 95.0 0.89 1.9E-05 48.4 15.4 68 376-443 40-115 (362)
29 PF14792 DNA_pol_B_palm: DNA p 92.9 0.21 4.4E-06 46.5 5.6 65 399-464 8-75 (112)
30 KOG2054 Nucleolar RNA-associat 91.1 6.5 0.00014 48.7 16.4 141 501-685 807-957 (1121)
31 PRK02098 phosphoribosyl-dephos 88.4 1.1 2.4E-05 46.7 6.5 40 402-443 109-154 (221)
32 TIGR03135 malonate_mdcG holo-A 88.1 1.2 2.6E-05 45.8 6.5 29 415-443 108-142 (202)
33 cd00141 NT_POLXc Nucleotidyltr 87.7 7.6 0.00017 42.2 12.7 126 399-534 144-272 (307)
34 cd05401 NT_GlnE_GlnD_like Nucl 79.9 7.6 0.00016 38.0 7.9 30 415-444 55-84 (172)
35 COG2413 Predicted nucleotidylt 73.5 13 0.00027 38.6 7.5 45 396-443 21-65 (228)
36 smart00483 POLXc DNA polymeras 73.3 39 0.00085 37.2 12.0 44 399-443 148-191 (334)
37 KOG1924 RhoA GTPase effector D 73.0 12 0.00025 45.4 8.0 14 448-461 860-873 (1102)
38 PF10127 Nuc-transf: Predicted 71.0 4 8.6E-05 42.6 3.5 43 399-441 3-46 (247)
39 KOG2534 DNA polymerase IV (fam 71.0 16 0.00036 40.1 8.1 64 399-463 155-218 (353)
40 PF10620 MdcG: Phosphoribosyl- 70.4 13 0.00029 38.3 7.1 42 400-443 103-150 (213)
41 PF03445 DUF294: Putative nucl 68.9 17 0.00036 34.9 7.0 49 415-463 49-102 (138)
42 KOG1923 Rac1 GTPase effector F 65.4 21 0.00046 43.2 8.1 40 63-105 317-356 (830)
43 PF04229 GrpB: GrpB protein; 63.4 34 0.00075 33.8 8.2 105 416-528 33-143 (167)
44 PRK05007 PII uridylyl-transfer 58.6 45 0.00097 41.6 9.7 29 415-443 80-108 (884)
45 PRK00227 glnD PII uridylyl-tra 58.0 37 0.00081 41.2 8.7 65 396-462 6-72 (693)
46 PRK01293 phosphoribosyl-dephos 57.7 31 0.00067 35.8 6.9 41 401-443 97-143 (207)
47 PRK04374 PII uridylyl-transfer 57.1 51 0.0011 41.1 9.8 88 374-461 27-119 (869)
48 PHA02996 poly(A) polymerase la 51.3 71 0.0015 36.3 8.7 110 374-494 122-243 (467)
49 PF09970 DUF2204: Nucleotidyl 50.4 74 0.0016 32.1 8.2 80 415-501 16-99 (181)
50 COG2320 GrpB Uncharacterized c 50.0 2.5E+02 0.0055 28.8 11.7 114 414-532 45-162 (185)
51 PHA02603 nrdC.11 hypothetical 49.4 9.4 0.0002 42.2 1.7 21 418-438 6-26 (330)
52 PRK00275 glnD PII uridylyl-tra 47.8 87 0.0019 39.2 9.8 29 416-444 79-107 (895)
53 PRK08609 hypothetical protein; 46.0 1.4E+02 0.0031 35.3 10.9 117 400-535 160-279 (570)
54 COG3541 Predicted nucleotidylt 44.7 11 0.00024 39.9 1.3 21 421-441 16-36 (248)
55 COG1796 POL4 DNA polymerase IV 44.5 2E+02 0.0043 32.0 10.7 120 402-537 167-286 (326)
56 PRK01759 glnD PII uridylyl-tra 42.2 54 0.0012 40.7 6.9 47 416-462 57-104 (854)
57 TIGR01693 UTase_glnD [Protein- 40.1 1.5E+02 0.0032 36.8 10.2 50 414-463 42-92 (850)
58 PRK03059 PII uridylyl-transfer 38.3 1.5E+02 0.0032 37.0 9.8 29 415-443 61-89 (856)
59 PF03281 Mab-21: Mab-21 protei 38.3 2.3E+02 0.005 30.1 10.1 119 484-675 169-287 (292)
60 PRK00286 xseA exodeoxyribonucl 34.8 24 0.00051 40.0 2.1 83 400-494 147-240 (438)
61 PRK03381 PII uridylyl-transfer 34.7 84 0.0018 38.6 6.8 29 415-443 57-85 (774)
62 PF02601 Exonuc_VII_L: Exonucl 31.0 22 0.00048 38.4 1.0 83 400-494 26-123 (319)
63 COG1665 Predicted nucleotidylt 30.8 50 0.0011 35.8 3.5 38 404-441 109-147 (315)
64 TIGR00237 xseA exodeoxyribonuc 28.6 34 0.00073 39.1 2.0 83 400-494 141-235 (432)
65 COG1570 XseA Exonuclease VII, 28.0 91 0.002 35.9 5.2 73 400-481 147-232 (440)
66 PRK03333 coaE dephospho-CoA ki 27.5 9.3E+02 0.02 27.2 14.0 122 402-529 225-361 (395)
67 PRK05092 PII uridylyl-transfer 25.4 3.5E+02 0.0076 34.1 10.1 28 416-443 106-133 (931)
68 PF04439 Adenyl_transf: Strept 25.0 54 0.0012 35.4 2.7 42 401-443 7-51 (282)
69 cd05398 NT_ClassII-CCAase Nucl 24.6 2.9E+02 0.0062 26.6 7.3 70 414-495 15-86 (139)
70 PF03710 GlnE: Glutamate-ammon 24.0 1.7E+02 0.0037 30.8 6.1 45 416-460 128-178 (247)
71 PF03296 Pox_polyA_pol: Poxvir 23.9 1.6E+02 0.0034 29.1 5.2 109 375-494 6-126 (149)
72 KOG4368 Predicted RNA binding 23.2 3E+02 0.0065 33.0 8.1 20 127-146 396-420 (757)
73 KOG1924 RhoA GTPase effector D 22.7 1.8E+02 0.004 35.9 6.4 16 601-618 957-972 (1102)
74 KOG0584 Serine/threonine prote 22.0 76 0.0016 37.9 3.2 64 477-560 103-167 (632)
75 PRK14109 bifunctional glutamin 21.7 2.3E+02 0.0049 36.1 7.5 44 416-459 724-771 (1007)
76 COG2844 GlnD UTP:GlnB (protein 21.6 2.9E+02 0.0062 34.5 7.9 29 416-444 67-95 (867)
77 COG3072 CyaA Adenylate cyclase 21.1 3.5E+02 0.0075 32.9 8.1 54 498-554 265-319 (853)
No 1
>COG5260 TRF4 DNA polymerase sigma [DNA replication, recombination, and repair]
Probab=100.00 E-value=3.6e-47 Score=413.72 Aligned_cols=291 Identities=33% Similarity=0.568 Sum_probs=250.9
Q ss_pred cchhhhhccHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhhCCCceEEEecceecCCCCCCCCceEEEeecCCc-cch
Q 005380 370 CRADIGRLNAPFLAIYESLIPAEEEKAKQKKLLTLLEKLVCKEWPDARLYLYGSCANSFGVSKSDIDVCLAINDSE-INK 448 (699)
Q Consensus 370 c~~did~L~~eI~~f~~~l~PT~eE~~~R~~ll~~L~~iI~~~~p~a~V~~FGS~aTGL~lp~SDIDLvL~~~~~~-i~k 448 (699)
-..+.+.|+.+|.++|.+++|+.+|.+.|+.++++|+.++.+.||++.+++|||+.+|+++|.|||||||..+... ...
T Consensus 50 ~~~~~~~lt~el~~~y~~I~ps~eEl~~R~~~leklr~~lk~~~pda~l~vFGS~~t~L~l~~SDiDl~I~s~~~~~~et 129 (482)
T COG5260 50 FNEESDELTSELLEFYDYIAPSDEELKRRKALLEKLRTLLKKEFPDADLKVFGSTETGLALPKSDIDLCIISDPRGYKET 129 (482)
T ss_pred hhhhHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHHHHhCCccceeEecccccccccCcccccEEEecCCcccccc
Confidence 3456788999999999999999999999999999999999999999999999999999999999999999885422 222
Q ss_pred HHHHHHHHHHHhcCCCcceEEeeeeeeceEEEecccCCeeEEEEEecchhhhhhHHHHHHhhcChhHHHHHHHHHHHHHh
Q 005380 449 SEVLLKLADILQSDNLQNVQALTRARVPIVKLMDPVTGISCDICINNLLAVVNTKLLRDYAQIDVRLQQLAFIVKHWAKS 528 (699)
Q Consensus 449 ~e~L~kLa~iL~s~~~~~V~~I~~ARVPIIKf~d~~tgI~VDISfnn~~Gi~nT~LIr~y~~~dPr~r~LvllLK~Wak~ 528 (699)
......+..++...++..++++.+||||||||+++.+++.|||+|++..|+.++++++.|...+|++|+|+++||+|+++
T Consensus 130 ~~~~~l~~~l~~~~~~~~~~~v~tarVPIIKl~d~~s~l~~Disfn~~~~~~~akl~~~~~~~~P~lrpLvliIKhwl~~ 209 (482)
T COG5260 130 RNAGSLASHLFKKNLAKEVVVVSTARVPIIKLVDPQSGLHCDISFNNTNGIVNAKLIRSYLKEDPRLRPLVLIIKHWLKR 209 (482)
T ss_pred ccHHHHHHHHHHhccCeeeEEEEecccceEEEecCccceEEEeecCchhHHHHHHHHHHHHhcCcccchHHHHHHHHHHH
Confidence 22233444555667788999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCccCCCCChHHHHHHHHHHhhhcCCCccccccccccccceeecCcccccccchhhhcCCCCCCcccHHHHHHHHHH
Q 005380 529 RGVNVTYQGTLSSYAYVLMCIHFLQQRRPAILPCLQGMEKTYSVTVDDIECAYFDQVDKLHGFGSRNKESIGRLVWAFFN 608 (699)
Q Consensus 529 rgLn~~~~GgLSSYaL~LMVI~FLQ~~~P~ILP~LQ~l~~~~~~~vdd~~~~f~~~~e~l~~~g~~n~~SLgeLLl~FF~ 608 (699)
|.|++++.|||+||++++||+.|||++.|. +.++.. . ..++ +...+..++|.||.+||+
T Consensus 210 R~ln~~~~GtL~sy~i~cmV~sfLq~~~~~--~~~~~~-----------~------~~~l--~~~~~~~~lgvLf~dFf~ 268 (482)
T COG5260 210 RALNDVATGTLSSYTISCMVLSFLQMHPPF--LFFDNG-----------L------LSPL--KYNKNIDNLGVLFDDFFE 268 (482)
T ss_pred HhhcccccCcchhhhhHHHHHHHHHhCCcc--cccccc-----------c------cchh--hccccccccchHHHHHHH
Confidence 999999999999999999999999998431 111110 0 0000 123456789999999999
Q ss_pred HhhcCCCCCCcEEEecCC-cccccccccccccCCCCCcceEEecCC-CCCCCccccCCHhhHHHHHHHHHHHHHHhhcC
Q 005380 609 YWAYGHDYASNVISVRTG-STISKQEKDWTRRIGNDRHLICIEDPF-EVTHDLGRVVDKFSIKVLREEFERAAEIMQHD 685 (699)
Q Consensus 609 yYs~~FD~~~~vISIr~G-~~isK~ek~w~~~~g~~~~~L~IeDPf-dp~~NlgrsVs~~~i~~Ir~eF~rA~~iL~~~ 685 (699)
||+..|+|...+|+++.| .+++|.++.|..... +..||||||+ +.++++++. ..++..|+.+|.+|+++|.+.
T Consensus 269 ~yG~~f~Y~~~~~si~~g~~~~~K~e~g~~~~~~--p~~LsiqdP~td~n~~~~a~--s~~ik~i~~~F~~aF~lls~~ 343 (482)
T COG5260 269 LYGKSFNYSLVVLSINSGDFYLPKYEKGWLKPSK--PNSLSIQDPGTDRNNDISAV--SFNIKDIKAAFIRAFELLSNK 343 (482)
T ss_pred HhccccChhheEEEecCCceeeehhhcccccccC--CCcEeecCCCCCcccccccc--cchHHHHHHHHHHHHHHHhhh
Confidence 999999999999999999 899999988876433 4789999999 888888887 789999999999999999964
No 2
>KOG1906 consensus DNA polymerase sigma [Replication, recombination and repair]
Probab=100.00 E-value=7.5e-41 Score=371.46 Aligned_cols=285 Identities=28% Similarity=0.452 Sum_probs=240.3
Q ss_pred chhhhhccHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhhCCCceEEEecceecCCCCCCCCceEEEeecCC-ccchH
Q 005380 371 RADIGRLNAPFLAIYESLIPAEEEKAKQKKLLTLLEKLVCKEWPDARLYLYGSCANSFGVSKSDIDVCLAINDS-EINKS 449 (699)
Q Consensus 371 ~~did~L~~eI~~f~~~l~PT~eE~~~R~~ll~~L~~iI~~~~p~a~V~~FGS~aTGL~lp~SDIDLvL~~~~~-~i~k~ 449 (699)
......++.||++||+++.||.+|.+.|..++++|+++|...||++.|++|||+.|||+||+|||||+|..... .....
T Consensus 57 ~~~s~~l~~eI~~fv~~l~pt~~e~~~R~~~~~~i~~~v~~~~~~a~v~~FGS~~tglyLP~sDIDl~v~~~~~~~~e~~ 136 (514)
T KOG1906|consen 57 NLVSERLRNEILDFVQYLIPTPEEIEVRSELVEKIRDVVKQKWPDASVYVFGSVPTGLYLPDSDIDLVVLSKFLNDKEDR 136 (514)
T ss_pred chhHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHHHhcccceeEEeeeeeccccccccceEEEEecccccCchhh
Confidence 34577899999999999999999999999999999999999999999999999999999999999999987632 22222
Q ss_pred HHHHHHHHHHhcCC-CcceEEeeeeeeceEEEecccCCeeEEEEEecchhhhhhHHHHHHhhcChhHHHHHHHHHHHHHh
Q 005380 450 EVLLKLADILQSDN-LQNVQALTRARVPIVKLMDPVTGISCDICINNLLAVVNTKLLRDYAQIDVRLQQLAFIVKHWAKS 528 (699)
Q Consensus 450 e~L~kLa~iL~s~~-~~~V~~I~~ARVPIIKf~d~~tgI~VDISfnn~~Gi~nT~LIr~y~~~dPr~r~LvllLK~Wak~ 528 (699)
.....++..++... -..|.+|..||||||||++..++|.||||||+.+|++.+++++.|.+.+|.++.|++++|+|+.+
T Consensus 137 ~~~~~l~~~~e~~~~~~~v~~v~karvpiik~~d~~s~i~vDISFn~~~G~~aa~~i~~~~~~~p~~~~lvlvlk~fl~~ 216 (514)
T KOG1906|consen 137 AVKLELALELEEDNSAFHVKVVQKARVPIIKFKDPVSNIHVDISFNQTNGVKAAKFIKDFLRDHPFLRSLVLVLKQFLYE 216 (514)
T ss_pred HHHHHHHHhhhhccccceEEEeeeeeeeeEEeecCccceEEEeeecccCchhHHHHHHHHHhcCccchhHHHHHHHHHHh
Confidence 23333444443332 35789999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCccCCCCChHHHHHHHHHHhhhcCCCccccccccccccceeecCcccccccchhhhcCCCCCCcccHHHHHHHHHH
Q 005380 529 RGVNVTYQGTLSSYAYVLMCIHFLQQRRPAILPCLQGMEKTYSVTVDDIECAYFDQVDKLHGFGSRNKESIGRLVWAFFN 608 (699)
Q Consensus 529 rgLn~~~~GgLSSYaL~LMVI~FLQ~~~P~ILP~LQ~l~~~~~~~vdd~~~~f~~~~e~l~~~g~~n~~SLgeLLl~FF~ 608 (699)
|+|+++++||++||++++||++|||++.. +.. ..+.. ...++.||+.||+
T Consensus 217 r~ln~v~tGgisSyal~~Lv~~fl~l~~~-----~~s-----------------~~~~~--------~~~~~vll~~f~e 266 (514)
T KOG1906|consen 217 RRLNGVHTGGISSYALELLVLSFLQLHPR-----SKS-----------------GRLAV--------LKNLGVLLIKFFE 266 (514)
T ss_pred hcccccccccchHHHHHHHHHHHHhhccc-----ccC-----------------Cccch--------hcccchHHHHHHH
Confidence 99999999999999999999999999721 100 00011 1245689999999
Q ss_pred HhhcCCCCCCcEEEecC-CcccccccccccccCCCCCcceEEecCCCCCCCccccCCHhhHHHHHHHHHHHHHHhhcCCC
Q 005380 609 YWAYGHDYASNVISVRT-GSTISKQEKDWTRRIGNDRHLICIEDPFEVTHDLGRVVDKFSIKVLREEFERAAEIMQHDPN 687 (699)
Q Consensus 609 yYs~~FD~~~~vISIr~-G~~isK~ek~w~~~~g~~~~~L~IeDPfdp~~NlgrsVs~~~i~~Ir~eF~rA~~iL~~~~n 687 (699)
|||.+|.|.+..|++.. |.++.+....|..........++|+||.+|.+|+||+ .+++..|+.+|..|+..|.....
T Consensus 267 ~yG~~f~~~k~~i~~~~~g~~~~~~~~~~~~~~~~~~~~LsieDP~~P~ndigr~--s~~~~~v~~~F~~af~~l~~~~~ 344 (514)
T KOG1906|consen 267 LYGRNFGYDKLGISLSLGGEYVSKELTGFFNNSLERPGSLSIEDPVDPTNDIGRS--SFNFSQVKGAFAYAFKVLTNAVF 344 (514)
T ss_pred HhccccCchhhceeccCCcccccHHhhhhhcccccCCCccccCCCCCcccccccc--cccHHHHHHHHHHHHHHHhhhhc
Confidence 99999999999998876 4567776666655434456679999999999999998 69999999999999999997533
No 3
>PTZ00418 Poly(A) polymerase; Provisional
Probab=100.00 E-value=3.8e-33 Score=313.61 Aligned_cols=276 Identities=24% Similarity=0.363 Sum_probs=232.8
Q ss_pred hhccHHHHHHHHH--cCCCHHHHHHHHHHHHHHHHHHHhh---------C-------CCceEEEecceecCCCCCCCCce
Q 005380 375 GRLNAPFLAIYES--LIPAEEEKAKQKKLLTLLEKLVCKE---------W-------PDARLYLYGSCANSFGVSKSDID 436 (699)
Q Consensus 375 d~L~~eI~~f~~~--l~PT~eE~~~R~~ll~~L~~iI~~~---------~-------p~a~V~~FGS~aTGL~lp~SDID 436 (699)
.+.+.+|.++++. +.|++||.++|++++..|+++|++. . ..++|++||||..|++.|+||||
T Consensus 68 ~~~s~~L~~~L~~~~~fes~ee~~kR~~vL~~L~~iv~~wv~~vs~~k~~~~~~~~~~~g~I~tfGSYrLGV~~pgSDID 147 (593)
T PTZ00418 68 LKLSNELINLLKSYNLYETEEGKKKRERVLGSLNKLVREFVVEASIEQGINEEEASQISGKLFTFGSYRLGVVAPGSDID 147 (593)
T ss_pred HhhhHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCChhHHhcCCeEEEEeccccccCCCCCCccc
Confidence 3567788888876 6799999999999999999999652 1 24789999999999999999999
Q ss_pred EEEeecCCccchHHHHHHHHHHHhc-CCCcceEEeeeeeeceEEEecccCCeeEEEEEec--------------------
Q 005380 437 VCLAINDSEINKSEVLLKLADILQS-DNLQNVQALTRARVPIVKLMDPVTGISCDICINN-------------------- 495 (699)
Q Consensus 437 LvL~~~~~~i~k~e~L~kLa~iL~s-~~~~~V~~I~~ARVPIIKf~d~~tgI~VDISfnn-------------------- 495 (699)
++++.|. .+++.+++..+.++|++ .+++++..|..|+||||||. ..||+|||.|..
T Consensus 148 ~L~V~P~-~vtredFF~~f~~~L~~~~~V~eL~~V~~A~VPiIk~~--~~GI~iDL~fa~l~~~~vp~~~~~l~d~~lL~ 224 (593)
T PTZ00418 148 TLCLAPR-HITRESFFSDFYAKLQQDPNITKLQPVPDAYTPVIKFV--YDGIDIDLLFANLPLPTIPDCLNSLDDDYILR 224 (593)
T ss_pred EEEECCC-CCCHHHHHHHHHHHHhcCCCcceeeccCccccCeEEEE--ECCEEEeeeecccCCCCCCccccccCchhhhh
Confidence 8888765 35678899999999986 56889999999999999999 679999999861
Q ss_pred ---------chhhhhhHHHHHHhhcChhHHHHHHHHHHHHHhcCCCCccCCCCChHHHHHHHHHHhhhcCCCcccccccc
Q 005380 496 ---------LLAVVNTKLLRDYAQIDVRLQQLAFIVKHWAKSRGVNVTYQGTLSSYAYVLMCIHFLQQRRPAILPCLQGM 566 (699)
Q Consensus 496 ---------~~Gi~nT~LIr~y~~~dPr~r~LvllLK~Wak~rgLn~~~~GgLSSYaL~LMVI~FLQ~~~P~ILP~LQ~l 566 (699)
.+|++.+..|...+-....||.++++||+|||+|||+++..|+|++.+|+|||...||.+ |
T Consensus 225 nlde~s~rSLNG~Rvtd~Il~lVPn~~~Fr~aLR~IKlWAkrRGIYsNv~GflGGV~wAILvARVCQLy-P--------- 294 (593)
T PTZ00418 225 NVDEKTVRSLNGCRVADLILASVPNKDYFRTTLRFIKLWAKRRGIYSNVLGYLGGVSWAILTARICQLY-P--------- 294 (593)
T ss_pred cCCHHHhhhhccHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccccccccccchHHHHHHHHHHHHhC-C---------
Confidence 167888888888888788999999999999999999999999999999999999999996 2
Q ss_pred ccccceeecCcccccccchhhhcCCCCCCcccHHHHHHHHHHHhhcCCCCCCcEEEecC-------Cccccccccccccc
Q 005380 567 EKTYSVTVDDIECAYFDQVDKLHGFGSRNKESIGRLVWAFFNYWAYGHDYASNVISVRT-------GSTISKQEKDWTRR 639 (699)
Q Consensus 567 ~~~~~~~vdd~~~~f~~~~e~l~~~g~~n~~SLgeLLl~FF~yYs~~FD~~~~vISIr~-------G~~isK~ek~w~~~ 639 (699)
..+.+.|+..||.+|+ +|+|.+.++ +.. ++.+ .-..|+.+
T Consensus 295 -----------------------------na~~s~Lv~~FF~iys-~W~Wp~PV~-L~~i~~~~~~~g~~--~~~VWdPr 341 (593)
T PTZ00418 295 -----------------------------NFAPSQLIHKFFRVYS-IWNWKNPVL-LCKIKEVPNIPGLM--NFKVWDPR 341 (593)
T ss_pred -----------------------------CCCHHHHHHHHHHHhh-cCCCCCCeE-cccccccccCCccc--CCcccCCC
Confidence 1246789999999999 899999753 221 1111 11346553
Q ss_pred C--CCCCcceEEecCCCCCCCccccCCHhhHHHHHHHHHHHHHHhhc----CCCccccccccC
Q 005380 640 I--GNDRHLICIEDPFEVTHDLGRVVDKFSIKVLREEFERAAEIMQH----DPNPCVKLFEPY 696 (699)
Q Consensus 640 ~--g~~~~~L~IeDPfdp~~NlgrsVs~~~i~~Ir~eF~rA~~iL~~----~~n~~~~LfeP~ 696 (699)
. ....+.|.|+.|..|..|++++|+..++..|++||+||+++++. ...+|.+||||+
T Consensus 342 ~~~~dr~h~MPIITPayP~mNst~nVt~sT~~vI~~Ef~Ra~~i~~~i~~~~~~~W~~Lfep~ 404 (593)
T PTZ00418 342 VNPQDRAHLMPIITPAFPSMNSTHNVTYTTKRVITEEFKRAHEIIKYIEKNSENTWTNVLEPL 404 (593)
T ss_pred CCcccccccCCeecCCCCCccccccccHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHcCCc
Confidence 2 23468999999999999999999999999999999999999995 445899999996
No 4
>KOG2277 consensus S-M checkpoint control protein CID1 and related nucleotidyltransferases [Cell cycle control, cell division, chromosome partitioning]
Probab=99.97 E-value=1.7e-30 Score=296.54 Aligned_cols=303 Identities=34% Similarity=0.596 Sum_probs=254.5
Q ss_pred hccHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhhCCCceEE--EecceecCCCCCCCCceEEEeecCCcc-----ch
Q 005380 376 RLNAPFLAIYESLIPAEEEKAKQKKLLTLLEKLVCKEWPDARLY--LYGSCANSFGVSKSDIDVCLAINDSEI-----NK 448 (699)
Q Consensus 376 ~L~~eI~~f~~~l~PT~eE~~~R~~ll~~L~~iI~~~~p~a~V~--~FGS~aTGL~lp~SDIDLvL~~~~~~i-----~k 448 (699)
-|+..+...++...+.......+..+...++.++...+|..... +|||..++++...+|+|+++.+..... ..
T Consensus 113 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~gs~~~~~~~~~~d~d~~~~~~~~~~~~~~~~~ 192 (596)
T KOG2277|consen 113 FLDPQLNELLESFKLPHSDVKTRKLILDKLRALASLLFPDSILSLYLFGSSDLGLGERSSDLDLCVDFTSSFLSFEKIKG 192 (596)
T ss_pred hhchhhhhhhhccCCCccccchHHHHHHHHHHHHHHhcCCCcceeeccCcccccccccccCcceeecccccccccchhhh
Confidence 47788888999999999999999999999999999999976655 999999999999999998877655422 23
Q ss_pred HHHHHHHHHHHhcCC---CcceEEeeeeeeceEEEecccCCeeEEEEEecchhhhhhHHHHHHhhcChhHHHHHHHHHHH
Q 005380 449 SEVLLKLADILQSDN---LQNVQALTRARVPIVKLMDPVTGISCDICINNLLAVVNTKLLRDYAQIDVRLQQLAFIVKHW 525 (699)
Q Consensus 449 ~e~L~kLa~iL~s~~---~~~V~~I~~ARVPIIKf~d~~tgI~VDISfnn~~Gi~nT~LIr~y~~~dPr~r~LvllLK~W 525 (699)
...+..+++++.... +..++.+..|||||||+.|...+++||++++|..++.||.+++.|...|+++++|+++||+|
T Consensus 193 ~~~~~l~~~~~~~~~~~~~~~~~~i~~A~vPiik~~~~~~~~~~d~s~~n~~~~~nS~ll~~~~~~d~r~~~L~~~vk~w 272 (596)
T KOG2277|consen 193 LEILKLLAKCLASLLEEGVREVQQILSARVPIIKFNDSGSGLECDLSVNNSDAILNSQLLRNYSEIDPRVRPLVLLVKHW 272 (596)
T ss_pred HHHHHHHHHHHHhccccccceeeeeeecCCCEEEecCCCCCCceeeeeccchhhhhhHHHHHhHhcCCCcchHhHHHHHH
Confidence 456667777777533 77889999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhcCCCCccCCCCC-hHHHHHHHHHHhhhcCCCccccccccccccce----eecC-cccccccchhhhcCCCCCCcccH
Q 005380 526 AKSRGVNVTYQGTLS-SYAYVLMCIHFLQQRRPAILPCLQGMEKTYSV----TVDD-IECAYFDQVDKLHGFGSRNKESI 599 (699)
Q Consensus 526 ak~rgLn~~~~GgLS-SYaL~LMVI~FLQ~~~P~ILP~LQ~l~~~~~~----~vdd-~~~~f~~~~e~l~~~g~~n~~SL 599 (699)
|++++++++..|+++ +|++++|||||||+..|+|+|.+..+...... .+.+ +.|.+........ ....+..++
T Consensus 273 a~~~~~~d~~~g~~~s~ysl~lmvi~fLq~~~~~ilp~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~l 351 (596)
T KOG2277|consen 273 AKEKGLNDAKPGGLNSSYSLTLMVIHFLQTLSPPILPPLSKLLPESDSNDKPVVKKKVLCSFLRVFQRNP-SNSQNTGSL 351 (596)
T ss_pred HHhccCCCCCCCceeccccHHHHHHHHHHhcCCcCCCchhhhchhcccccccchhhhhhhcccccccccc-ccccccchH
Confidence 999999999999999 59999999999999999999999887653311 1111 3343333222211 245667889
Q ss_pred HHHHHHHHHHhhcCCCCCCcEEEecCCcccccccccccccCCCCCcceEEecCCCCCCCccccCCHhhHHHHHHHHHHHH
Q 005380 600 GRLVWAFFNYWAYGHDYASNVISVRTGSTISKQEKDWTRRIGNDRHLICIEDPFEVTHDLGRVVDKFSIKVLREEFERAA 679 (699)
Q Consensus 600 geLLl~FF~yYs~~FD~~~~vISIr~G~~isK~ek~w~~~~g~~~~~L~IeDPfdp~~NlgrsVs~~~i~~Ir~eF~rA~ 679 (699)
++|+++||.||+..|||.+.+|+++.|..+.+....|. ...++|+|||+..+|++.+++...+..|+.+|+.++
T Consensus 352 ~~l~~~f~~yy~~~Fdf~~~~I~~r~~~~l~~~~~~~~------~~~l~i~dp~~~~~n~~~~~~~~~~~~i~~~~~~~~ 425 (596)
T KOG2277|consen 352 GELLLGFFSYYASLFDFRKNAISIRRGRALKRAKKIKS------KKFLCIEDPFEVSHNADAGVTLKVLLLIQDEFQESR 425 (596)
T ss_pred HHHHHHHHHHHhhhcccccceeeeeecccccccchhhh------ccceeeccccccccCccccchHHHHHHHHHHHHHHH
Confidence 99999999999988999999999999877664323332 347999999999999999999999999999999999
Q ss_pred HHhhcC
Q 005380 680 EIMQHD 685 (699)
Q Consensus 680 ~iL~~~ 685 (699)
.++...
T Consensus 426 ~~~~~~ 431 (596)
T KOG2277|consen 426 RVFKDV 431 (596)
T ss_pred HHhhhh
Confidence 999975
No 5
>KOG2245 consensus Poly(A) polymerase and related nucleotidyltransferases [RNA processing and modification]
Probab=99.97 E-value=2.1e-29 Score=274.42 Aligned_cols=279 Identities=24% Similarity=0.361 Sum_probs=231.2
Q ss_pred hhhhccHHHHHHHHH--cCCCHHHHHHHHHHHHHHHHHHHhh---------CC-------CceEEEecceecCCCCCCCC
Q 005380 373 DIGRLNAPFLAIYES--LIPAEEEKAKQKKLLTLLEKLVCKE---------WP-------DARLYLYGSCANSFGVSKSD 434 (699)
Q Consensus 373 did~L~~eI~~f~~~--l~PT~eE~~~R~~ll~~L~~iI~~~---------~p-------~a~V~~FGS~aTGL~lp~SD 434 (699)
.--+++.++++.++. +.+++||...|..++..|+.+++.. +| +++|.+||||..|+..|+||
T Consensus 29 ~d~~lt~~L~~~L~~~g~fEs~eEt~~R~~VL~~L~~iVk~wVk~vs~~k~~p~~~~~~aggkIftfGSYRLGVhg~GAD 108 (562)
T KOG2245|consen 29 ADIALTQELIKTLKNEGLFESKEETQRREEVLGKLNQIVKEWVKKVSEQKGLPDGMIENAGGKIFTFGSYRLGVHGPGAD 108 (562)
T ss_pred HHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCChhhhhhcCceEEeccceeecccCCCCC
Confidence 334688888888766 6689999999999999999998653 23 47999999999999999999
Q ss_pred ceEEEeecCCccchHHHHHHHHHHHhc-CCCcceEEeeeeeeceEEEecccCCeeEEEEEec------------------
Q 005380 435 IDVCLAINDSEINKSEVLLKLADILQS-DNLQNVQALTRARVPIVKLMDPVTGISCDICINN------------------ 495 (699)
Q Consensus 435 IDLvL~~~~~~i~k~e~L~kLa~iL~s-~~~~~V~~I~~ARVPIIKf~d~~tgI~VDISfnn------------------ 495 (699)
||-.++.|. ..++.+++..+.++|++ ..++++..+..|.||||||+ ..||+|||-|..
T Consensus 109 IDtLcV~Pr-hv~R~DFF~sf~~mL~~~~eVteL~~V~dAfVPiikfK--f~GI~IDllfArL~l~~VP~dldl~ddslL 185 (562)
T KOG2245|consen 109 IDTLCVGPR-HVSRSDFFTSFYDMLKERPEVTELHAVEDAFVPIIKFK--FDGIEIDLLFARLALPVVPEDLDLSDDSLL 185 (562)
T ss_pred cceeeeccc-cccHHHHHHHHHHHHhcCccccccccccccccceEEEE--ecCeeeeeeehhcccccCCCcccccchHhh
Confidence 996555544 35778999999999987 56899999999999999999 789999997763
Q ss_pred ----------chhhhhhHHHHHHhhcChhHHHHHHHHHHHHHhcCCCCccCCCCChHHHHHHHHHHhhhcCCCccccccc
Q 005380 496 ----------LLAVVNTKLLRDYAQIDVRLQQLAFIVKHWAKSRGVNVTYQGTLSSYAYVLMCIHFLQQRRPAILPCLQG 565 (699)
Q Consensus 496 ----------~~Gi~nT~LIr~y~~~dPr~r~LvllLK~Wak~rgLn~~~~GgLSSYaL~LMVI~FLQ~~~P~ILP~LQ~ 565 (699)
.+|++-|+=|-.+.-....|+..++.||+|||.||++.+..|.|++.+|.|||+..||.+ |.
T Consensus 186 knlDe~~vrSLNGcRVtdqiL~LVPn~~~F~~tLRaiKlWAKrrgVYsN~~GF~GGV~wA~LVARiCQLY-PN------- 257 (562)
T KOG2245|consen 186 KNLDERCVRSLNGCRVTDQILKLVPNQENFRITLRAIKLWAKRRGVYSNVMGFLGGVAWAMLVARICQLY-PN------- 257 (562)
T ss_pred hcccHHHHHHhcCcCHHHHHHHhCCCHHHHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHccC-CC-------
Confidence 367776665555555556899999999999999999999999999999999999999997 21
Q ss_pred cccccceeecCcccccccchhhhcCCCCCCcccHHHHHHHHHHHhhcCCCCCCcEEE--ecCCcccccccccccccCCC-
Q 005380 566 MEKTYSVTVDDIECAYFDQVDKLHGFGSRNKESIGRLVWAFFNYWAYGHDYASNVIS--VRTGSTISKQEKDWTRRIGN- 642 (699)
Q Consensus 566 l~~~~~~~vdd~~~~f~~~~e~l~~~g~~n~~SLgeLLl~FF~yYs~~FD~~~~vIS--Ir~G~~isK~ek~w~~~~g~- 642 (699)
.+.+.|+..||..|+ +|.|.+.++- +..+. -....|+.+..+
T Consensus 258 -------------------------------A~~s~Lv~kfF~ifs-~W~WP~PVlL~~ie~~~---L~~~VWdPr~n~~ 302 (562)
T KOG2245|consen 258 -------------------------------ASPSTLVAKFFRVFS-QWNWPNPVLLKPIEEGN---LNLPVWDPRVNPS 302 (562)
T ss_pred -------------------------------cchHHHHHHHHHHHh-hccCCCceEeccccccc---cCccccCCCCCCC
Confidence 245689999999999 8999999763 22222 223467766433
Q ss_pred -CCcceEEecCCCCCCCccccCCHhhHHHHHHHHHHHHHHhhcC-CC--ccccccccCC
Q 005380 643 -DRHLICIEDPFEVTHDLGRVVDKFSIKVLREEFERAAEIMQHD-PN--PCVKLFEPYV 697 (699)
Q Consensus 643 -~~~~L~IeDPfdp~~NlgrsVs~~~i~~Ir~eF~rA~~iL~~~-~n--~~~~LfeP~~ 697 (699)
..|.|.|+.|..|..|.+.+|+..++..|.+||.+|..|+++- .+ +|.+|||+|.
T Consensus 303 DryHlMPIITPAyP~~nsthNVS~ST~~Vi~~Ef~~g~~I~~~i~~~k~~W~~LFE~~~ 361 (562)
T KOG2245|consen 303 DRYHLMPIITPAYPQMNSTHNVSRSTLKVITEEFKRGLEICDDIELNKLDWSDLFELYN 361 (562)
T ss_pred CcceecccccCCcccccccccccHHHHHHHHHHHHHHHHHHHHHHhccccHHHHhhhhH
Confidence 3478999999999999999999999999999999999999873 33 7899999873
No 6
>COG5186 PAP1 Poly(A) polymerase [RNA processing and modification]
Probab=99.91 E-value=6.6e-23 Score=216.42 Aligned_cols=282 Identities=21% Similarity=0.296 Sum_probs=222.4
Q ss_pred cccchhhhhccHHHHHHHHH--cCCCHHHHHHHHHHHHHHHHHHHhhC----------------CCceEEEecceecCCC
Q 005380 368 IECRADIGRLNAPFLAIYES--LIPAEEEKAKQKKLLTLLEKLVCKEW----------------PDARLYLYGSCANSFG 429 (699)
Q Consensus 368 ~~c~~did~L~~eI~~f~~~--l~PT~eE~~~R~~ll~~L~~iI~~~~----------------p~a~V~~FGS~aTGL~ 429 (699)
...+..-.+|+.+++.-++. +.-++.|-+.|.+++..|+.++++.. .+.+|..||||..|+.
T Consensus 16 ~~aTe~En~Ln~~li~eLk~~g~FE~~~E~~~Rv~VL~~Lq~~~~eFV~~vs~~K~m~dgmar~aGGKIFTyGSYRLGVh 95 (552)
T COG5186 16 REATEEENRLNGELIKELKERGFFEDDKEGQTRVRVLGKLQFMVREFVARVSRNKGMGDGMARPAGGKIFTYGSYRLGVH 95 (552)
T ss_pred ccccHHHhhhhHHHHHHHHHcCCcCCchhhhhHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCCceeeeecceeeecc
Confidence 34455566888888887765 55688899999999999998876531 1368999999999999
Q ss_pred CCCCCceEEEeecCCccchHHHHHHHHHHHhc-CCCcceEEeeeeeeceEEEecccCCeeEEEEEecc------------
Q 005380 430 VSKSDIDVCLAINDSEINKSEVLLKLADILQS-DNLQNVQALTRARVPIVKLMDPVTGISCDICINNL------------ 496 (699)
Q Consensus 430 lp~SDIDLvL~~~~~~i~k~e~L~kLa~iL~s-~~~~~V~~I~~ARVPIIKf~d~~tgI~VDISfnn~------------ 496 (699)
-|+||||-.++.+. ..++.+++..+...|+. ..+.++-.|..|-|||||++ ..||.+|+-|...
T Consensus 96 gpGsDIDtLvvVPk-HVsR~dFFt~f~~~Lrer~ei~eva~vpDAfVPIIK~K--F~GIsIDLifARLs~P~Vp~~l~Ls 172 (552)
T COG5186 96 GPGSDIDTLVVVPK-HVSRSDFFTHFYEELRERPEIEEVAKVPDAFVPIIKLK--FQGISIDLIFARLSIPVVPDGLNLS 172 (552)
T ss_pred CCCCCcceEEEecc-cccHHHHHHHHHHHhccCcchhhhccCCcccceeEEEE--ecCccceeeeeeccCCcCCCccccc
Confidence 99999997666655 35788999999999986 45889999999999999998 6899999987642
Q ss_pred ----------------hhhhhhHHHHHHhhcChhHHHHHHHHHHHHHhcCCCCccCCCCChHHHHHHHHHHhhhcCCCcc
Q 005380 497 ----------------LAVVNTKLLRDYAQIDVRLQQLAFIVKHWAKSRGVNVTYQGTLSSYAYVLMCIHFLQQRRPAIL 560 (699)
Q Consensus 497 ----------------~Gi~nT~LIr~y~~~dPr~r~LvllLK~Wak~rgLn~~~~GgLSSYaL~LMVI~FLQ~~~P~IL 560 (699)
+|-+-|.-|-.+.-.-..|+..++.||+||+.|.++.+..|..++.+|.+||..+||.+.
T Consensus 173 d~nLLk~~dEkcilsLNGtRVTDeiL~LVP~~~vF~~ALRaIK~WAqRRavYaN~~GfpGGVAwam~VARiCQLYP---- 248 (552)
T COG5186 173 DDNLLKSMDEKCILSLNGTRVTDEILNLVPSVKVFHSALRAIKYWAQRRAVYANPYGFPGGVAWAMCVARICQLYP---- 248 (552)
T ss_pred chhhhhcchHHHHHhhcCceehHHHHHhCCchHHHHHHHHHHHHHHHhhhhhccccCCcchHHHHHHHHHHHhhcc----
Confidence 233333333333333346899999999999999999999999999999999999999972
Q ss_pred ccccccccccceeecCcccccccchhhhcCCCCCCcccHHHHHHHHHHHhhcCCCCCCcEEE--ecCCcccccccccccc
Q 005380 561 PCLQGMEKTYSVTVDDIECAYFDQVDKLHGFGSRNKESIGRLVWAFFNYWAYGHDYASNVIS--VRTGSTISKQEKDWTR 638 (699)
Q Consensus 561 P~LQ~l~~~~~~~vdd~~~~f~~~~e~l~~~g~~n~~SLgeLLl~FF~yYs~~FD~~~~vIS--Ir~G~~isK~ek~w~~ 638 (699)
+ .+-..++..||+.++ +|+|...+|- |..|. + .-+.|+.
T Consensus 249 -N----------------------------------A~S~vIv~kFF~ils-~WnWPqPviLkPieDgp-l--qvrvWnP 289 (552)
T COG5186 249 -N----------------------------------ASSFVIVCKFFEILS-SWNWPQPVILKPIEDGP-L--QVRVWNP 289 (552)
T ss_pred -C----------------------------------cchHhHHHHHHHHHH-hcCCCCCeEeeeccCCC-e--eEEeeCC
Confidence 1 122368899999999 8999998773 33332 2 2245655
Q ss_pred c--CCCCCcceEEecCCCCCCCccccCCHhhHHHHHHHHHHHHHHhhcC-CC--cccccccc
Q 005380 639 R--IGNDRHLICIEDPFEVTHDLGRVVDKFSIKVLREEFERAAEIMQHD-PN--PCVKLFEP 695 (699)
Q Consensus 639 ~--~g~~~~~L~IeDPfdp~~NlgrsVs~~~i~~Ir~eF~rA~~iL~~~-~n--~~~~LfeP 695 (699)
+ ...+.|.|.|+.|.+|+...+.+|+..+-..|..||.||.+|+..- .| +|..|||.
T Consensus 290 KvYpsDk~HRMPvITPAYPSMCATHNit~STq~vIl~EfvRa~~I~~di~~n~~~w~~lFek 351 (552)
T COG5186 290 KVYPSDKYHRMPVITPAYPSMCATHNITNSTQHVILMEFVRAHKILSDIERNALDWRRLFEK 351 (552)
T ss_pred ccCcccccccCccccCCchhhhhhccccchhhhhHHHHHHHHHHhhhhHhhccccHHHHHHh
Confidence 3 2345688999999999999999998888899999999999999873 44 78888875
No 7
>cd05402 NT_PAP_TUTase Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases. Poly(A) polymerases (PAPs) catalyze mRNA poly(A) tail synthesis, and terminal uridylyl transferases (TUTases) uridylate RNA. PAPs in this subgroup include human PAP alpha, mouse testis-specific cytoplasmic PAP beta, human nuclear PAP gamma, Saccharomyces cerevisiae PAP1, TRF4 and-5, Schizosaccharomyces pombe caffeine-induced death proteins -1, and -14, Caenorhabditis elegans Germ Line Development-2, and Chlamydomonas reinhardtii MUT68. This family also includes human U6 snRNA-specific TUTase1, and Trypanosoma brucei 3'-TUTase-1,-2, and 4. This family belongs to the Pol beta-like NT superfamily. In the majority of enzymes in this superfamily, two carboxylates, Dx[D/E], together with a third more distal carboxylate, coordinate two divalent metal cations involved in a two-metal ion mechanism of nucleotide addition. For the majority of proteins in this family, these carboxyla
Probab=99.89 E-value=1.3e-22 Score=184.82 Aligned_cols=112 Identities=39% Similarity=0.694 Sum_probs=104.0
Q ss_pred HHHHHHHHHHHHHhhCCCceEEEecceecCCCCCCCCceEEEeecCCccchHHHHHHHHHHHhcCC-CcceEEeeeeeec
Q 005380 398 QKKLLTLLEKLVCKEWPDARLYLYGSCANSFGVSKSDIDVCLAINDSEINKSEVLLKLADILQSDN-LQNVQALTRARVP 476 (699)
Q Consensus 398 R~~ll~~L~~iI~~~~p~a~V~~FGS~aTGL~lp~SDIDLvL~~~~~~i~k~e~L~kLa~iL~s~~-~~~V~~I~~ARVP 476 (699)
|++++++|++++++.||++++++|||+++|+++++||||++|..+.......+++.++++.|++.. +.++..|.+||||
T Consensus 2 r~~i~~~l~~~i~~~~~~~~v~~fGS~~~g~~~~~SDiDl~i~~~~~~~~~~~~l~~l~~~l~~~~~~~~~~~i~~ArVP 81 (114)
T cd05402 2 REEVLDRLQELIKEWFPGAKLYPFGSYVTGLGLPGSDIDLCLLGPNHRVDREDFLRKLAKLLKKSGEVVEVEPIINARVP 81 (114)
T ss_pred HHHHHHHHHHHHHHHCCCCEEEEecccccCCCCCCCCeeEEEEeCCCCccHHHHHHHHHHHHHhCCCceeeEEeccCCCC
Confidence 789999999999999999999999999999999999999999987653466789999999998765 6789999999999
Q ss_pred eEEEecccCCeeEEEEEecchhhhhhHHHHHHh
Q 005380 477 IVKLMDPVTGISCDICINNLLAVVNTKLLRDYA 509 (699)
Q Consensus 477 IIKf~d~~tgI~VDISfnn~~Gi~nT~LIr~y~ 509 (699)
||||++..+|+.|||||+|.+|+.||++++.|+
T Consensus 82 iik~~~~~~~i~~Dis~~~~~g~~~s~li~~y~ 114 (114)
T cd05402 82 IIKFVDKPTGIEVDISFNNLNGIRNTKLLRAYV 114 (114)
T ss_pred EEEEEEcCCCeEEEEEcccchHHHHHHHHHHhC
Confidence 999999999999999999999999999999984
No 8
>PF04928 PAP_central: Poly(A) polymerase central domain; InterPro: IPR007012 In eukaryotes, polyadenylation of pre-mRNA plays an essential role in the initiation step of protein synthesis, as well as in the export and stability of mRNAs. Poly(A) polymerase, the enzyme at the heart of the polyadenylation machinery, is a template-independent RNA polymerase which specifically incorporates ATP at the 3' end of mRNA. The crystal structure of bovine poly(A) polymerase bound to an ATP analog at 2.5 A resolutio has been determined []. The structure revealed expected and unexpected similarities to other proteins. As expected, the catalytic domain of poly(A) polymerase shares substantial structural homology with other nucleotidyl transferases such as DNA polymerase beta and kanamycin transferase. The central domain of Poly(A) polymerase shares structural similarity with the allosteric activity domain of ribonucleotide reductase R1, which comprises a four-helix bundle and a three-stranded mixed beta-sheet. Even though the two enzymes bind ATP, the ATP-recognition motifs are different.; GO: 0004652 polynucleotide adenylyltransferase activity, 0006351 transcription, DNA-dependent; PDB: 1Q79_A 1Q78_A 1F5A_A 2O1P_A 2HHP_A 3C66_B 1FA0_A 2Q66_A.
Probab=99.88 E-value=6.2e-23 Score=212.97 Aligned_cols=226 Identities=23% Similarity=0.328 Sum_probs=151.8
Q ss_pred hhccHHHHHHHHHc--CCCHHHHHHHHHHHHHHHHHHHhhCCCceEEEecceecCCCCCCCCceEEEeecCCccchHHHH
Q 005380 375 GRLNAPFLAIYESL--IPAEEEKAKQKKLLTLLEKLVCKEWPDARLYLYGSCANSFGVSKSDIDVCLAINDSEINKSEVL 452 (699)
Q Consensus 375 d~L~~eI~~f~~~l--~PT~eE~~~R~~ll~~L~~iI~~~~p~a~V~~FGS~aTGL~lp~SDIDLvL~~~~~~i~k~e~L 452 (699)
.+.+.+|.++++.. .||+||.++|+.+++.|+++|++....
T Consensus 20 l~~s~~L~~~l~~~~~~es~ee~~~R~~vl~~L~~iv~~wv~~------------------------------------- 62 (254)
T PF04928_consen 20 LKRSASLEEFLKDYGLFESEEEEQKREEVLRKLQQIVKEWVKQ------------------------------------- 62 (254)
T ss_dssp HHHHHHHHHHHHHCT-S--HHHHHHHHHHHHHHHHHHHHHHHH-------------------------------------
T ss_pred HHhHHHHHHHHHHcCCCCChHHHhHHHHHHHHHHHHHHHHHHh-------------------------------------
Confidence 35678888888885 789999999999999999999876433
Q ss_pred HHHHHHHhcCCCcceEEeeeeeec-eEEEecccCCeeEE-EEEecchhhhhhHHHHHHhhcChhHHHHHHHHHHHHHhcC
Q 005380 453 LKLADILQSDNLQNVQALTRARVP-IVKLMDPVTGISCD-ICINNLLAVVNTKLLRDYAQIDVRLQQLAFIVKHWAKSRG 530 (699)
Q Consensus 453 ~kLa~iL~s~~~~~V~~I~~ARVP-IIKf~d~~tgI~VD-ISfnn~~Gi~nT~LIr~y~~~dPr~r~LvllLK~Wak~rg 530 (699)
...++| .+.+.+...=..+| .|+.+.+|++.++.|...+.....||.++++||+||++||
T Consensus 63 ------------------~~~~~p~~l~~~~~~~l~~ld~~s~~sLnG~Rv~~~il~~Vp~~~~Fr~~lR~IK~WAk~RG 124 (254)
T PF04928_consen 63 ------------------ALPRVPEDLDLLDDDPLRNLDEASVRSLNGVRVTDYILRLVPNQETFRTALRFIKLWAKRRG 124 (254)
T ss_dssp ------------------SSSSB-TT--TT-GGGGTT--HHHHHHHHHHHHHHHHHCTSS-HHHHHHHHHHHHHHHHHTT
T ss_pred ------------------hhcCCCcccccCCchhhhCCCHhhccCcccccHHHHHHHHCCCHHHHHHHHHHHHHHHHHcc
Confidence 112222 22221110000111 2445568999999999988877899999999999999999
Q ss_pred CCCccCCCCChHHHHHHHHHHhhhcCCCccccccccccccceeecCcccccccchhhhcCCCCCCcccHHHHHHHHHHHh
Q 005380 531 VNVTYQGTLSSYAYVLMCIHFLQQRRPAILPCLQGMEKTYSVTVDDIECAYFDQVDKLHGFGSRNKESIGRLVWAFFNYW 610 (699)
Q Consensus 531 Ln~~~~GgLSSYaL~LMVI~FLQ~~~P~ILP~LQ~l~~~~~~~vdd~~~~f~~~~e~l~~~g~~n~~SLgeLLl~FF~yY 610 (699)
|+++..|+|||++|++||+..||... ..+.+.||..||.+|
T Consensus 125 IYsn~~GylGGI~waILvArvcql~P---------------------------------------n~~~~~ll~~FF~~y 165 (254)
T PF04928_consen 125 IYSNVFGYLGGIHWAILVARVCQLYP---------------------------------------NASPSTLLSRFFQIY 165 (254)
T ss_dssp -B-CCCTSB-HHHHHHHHHHHHHHST---------------------------------------T--HHHHHHHHHHHH
T ss_pred ccchhhccchHHHHHHHHHHHHHHCc---------------------------------------cccccchHHHHHHHh
Confidence 99999999999999999999999972 124668999999999
Q ss_pred hcCCCCCCcEEEecCCcccccccccccccC--CCCCcceEEecCCCCCCCccccCCHhhHHHHHHHHHHHHHHhhc---C
Q 005380 611 AYGHDYASNVISVRTGSTISKQEKDWTRRI--GNDRHLICIEDPFEVTHDLGRVVDKFSIKVLREEFERAAEIMQH---D 685 (699)
Q Consensus 611 s~~FD~~~~vISIr~G~~isK~ek~w~~~~--g~~~~~L~IeDPfdp~~NlgrsVs~~~i~~Ir~eF~rA~~iL~~---~ 685 (699)
+ +|||.+.+ .+.....-....+.|+... ...++.|.|.+|..|..|+|++|+..++..|++||+||++++++ .
T Consensus 166 s-~W~W~~PV-~l~~~~~~~~~~~~w~p~~~~~~~~~~MpIiTP~yP~~Nst~nVt~st~~~i~~Ef~ra~~i~~~~~~~ 243 (254)
T PF04928_consen 166 S-QWDWPNPV-VLDPIEDGPLGFKVWNPRLYPRDRRHLMPIITPAYPSMNSTYNVTRSTLRIIREEFQRAHEILSEILKG 243 (254)
T ss_dssp H-CS-TTS-E-ESS-----SSSCGS--TTT-HHHHC-SS-EE-SSSS--BTTTT--HHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred c-CCCCCCce-eecccccCcccccCCCCCCCCCCcccceeEccCCCCccccccccCHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 9 89999974 3432111111223454321 12357899999999999999999999999999999999999998 3
Q ss_pred CCccccccccC
Q 005380 686 PNPCVKLFEPY 696 (699)
Q Consensus 686 ~n~~~~LfeP~ 696 (699)
...|.+||||+
T Consensus 244 ~~~W~~L~e~~ 254 (254)
T PF04928_consen 244 GASWSDLFEPH 254 (254)
T ss_dssp SS-HHHCT---
T ss_pred CCCHHHHcCCC
Confidence 57899999995
No 9
>TIGR03671 cca_archaeal CCA-adding enzyme.
Probab=99.75 E-value=1.4e-16 Score=174.38 Aligned_cols=241 Identities=22% Similarity=0.263 Sum_probs=158.7
Q ss_pred HHHHHHcCCCHHHHHHHHHHHHHHHHHH----HhhCCCceEEEecceecCCCCC-CCCceEEEeecCCccchH---HHHH
Q 005380 382 LAIYESLIPAEEEKAKQKKLLTLLEKLV----CKEWPDARLYLYGSCANSFGVS-KSDIDVCLAINDSEINKS---EVLL 453 (699)
Q Consensus 382 ~~f~~~l~PT~eE~~~R~~ll~~L~~iI----~~~~p~a~V~~FGS~aTGL~lp-~SDIDLvL~~~~~~i~k~---e~L~ 453 (699)
.+.++.+.||++|.+..+.+.+.|...| .+..+++++++|||++-|++++ +|||||+|.++... ... +...
T Consensus 3 ~~vl~~i~Ps~eE~~~~~~~~~~l~~~l~~~~~e~~~~~~v~~~GS~ArgT~L~G~sDIDIfi~f~~~~-~~e~l~~~gl 81 (408)
T TIGR03671 3 EEVLERIKPTEEEREKLKKVADELIARLEEIIEELGVDAEVVLVGSYARGTWLKGDRDIDIFILFPKDT-SREELEEYGL 81 (408)
T ss_pred HHHhhhcCCCHHHHHHHHHHHHHHHHHHHHHHHhcCCcceEEEEeeEecCCccCCCCceeEEEEeCCCC-CHHHHHHHHH
Confidence 4677889999999888776665555554 4556679999999999999999 99999999985432 221 2223
Q ss_pred HHHHHHhcCCCcceEEeeeeeeceEEEecccCCeeEEEE--Eecc------hhhhhhHHHHHHhh--cChhHHHHHHHHH
Q 005380 454 KLADILQSDNLQNVQALTRARVPIVKLMDPVTGISCDIC--INNL------LAVVNTKLLRDYAQ--IDVRLQQLAFIVK 523 (699)
Q Consensus 454 kLa~iL~s~~~~~V~~I~~ARVPIIKf~d~~tgI~VDIS--fnn~------~Gi~nT~LIr~y~~--~dPr~r~LvllLK 523 (699)
.++..+.+.+ ... ....|.-|-|+.. ..|++|||. +.-. .++.-|.+--.|+. ++..++..|+++|
T Consensus 82 ~i~~~~~~~~-~~~-~~~yaeHpYv~~~--~~G~~VDiVPcy~v~~g~~~~taVDRtp~H~~fv~~rl~~~~~d~VRLlK 157 (408)
T TIGR03671 82 EIGHEVLKRG-GNY-EERYAEHPYVSGE--IEGFEVDVVPCYKVESGEEIISAVDRTPFHTRYVLERLDGKLRDDVRLLK 157 (408)
T ss_pred HHHHHHHhhC-CCH-hheeccCceEEEE--EccEEEEEEeeEEccCcCeeeccccCchHHHHHHHHhhhhhHHHHHHHHH
Confidence 3443333221 111 2567888999887 459999993 3321 23222344434432 3445899999999
Q ss_pred HHHHhcCCCCc--cCCCCChHHHHHHHHHHhhhcCCCccccccccccccceeecCcccccccchhhhcCCCCCCcccHHH
Q 005380 524 HWAKSRGVNVT--YQGTLSSYAYVLMCIHFLQQRRPAILPCLQGMEKTYSVTVDDIECAYFDQVDKLHGFGSRNKESIGR 601 (699)
Q Consensus 524 ~Wak~rgLn~~--~~GgLSSYaL~LMVI~FLQ~~~P~ILP~LQ~l~~~~~~~vdd~~~~f~~~~e~l~~~g~~n~~SLge 601 (699)
.|+|..|++++ +++|||||.+-|||++|-- ...
T Consensus 158 ~f~k~igvYGsE~~~~GFSGYl~ELLv~~yG~---------------------------------------------F~~ 192 (408)
T TIGR03671 158 QFLKGIGVYGSELKTRGFSGYLCELLVIHYGS---------------------------------------------FEN 192 (408)
T ss_pred HHHHhCCccchhhccCCccHHHHHHHHHHhCC---------------------------------------------HHH
Confidence 99999999975 7899999999999999511 112
Q ss_pred HHHHHHHHhhcCCCCCCcEEEecCCcccccccccccccCCCCCcceEEecCCCCCCCccccCCHhhHHHHHHHHHHHHHH
Q 005380 602 LVWAFFNYWAYGHDYASNVISVRTGSTISKQEKDWTRRIGNDRHLICIEDPFEVTHDLGRVVDKFSIKVLREEFERAAEI 681 (699)
Q Consensus 602 LLl~FF~yYs~~FD~~~~vISIr~G~~isK~ek~w~~~~g~~~~~L~IeDPfdp~~NlgrsVs~~~i~~Ir~eF~rA~~i 681 (699)
++..+- .|... ..|.+.. ...+ .+ ..+|.|.||.|+.+|+|+.++..++..|..+ |.+.
T Consensus 193 ~l~~a~-----~wk~~-~~id~~~--~~~~---~f-------~~PlvViDPvDp~RNVAaalS~~~~~~fv~a---ar~f 251 (408)
T TIGR03671 193 VLKAAS-----KWKPG-VVIDIEE--HGTK---KF-------DDPLVVIDPVDPKRNVAAALSLENLARFILA---ARMF 251 (408)
T ss_pred HHHHHH-----hcCCC-eEEecCc--cccc---cC-------CCCEEEeCCCCCcchHHHHcCHHHHHHHHHH---HHHH
Confidence 222221 12111 1222211 1111 11 3479999999999999999998888777744 4445
Q ss_pred hhcCCCccccccccC
Q 005380 682 MQHDPNPCVKLFEPY 696 (699)
Q Consensus 682 L~~~~n~~~~LfeP~ 696 (699)
|+ +|..+.|.|.
T Consensus 252 l~---~Ps~~fF~p~ 263 (408)
T TIGR03671 252 LK---NPSLEFFFPP 263 (408)
T ss_pred HH---CCCHHHcCCC
Confidence 55 6777788765
No 10
>PRK13300 tRNA CCA-pyrophosphorylase; Provisional
Probab=99.73 E-value=2.3e-16 Score=175.00 Aligned_cols=241 Identities=21% Similarity=0.246 Sum_probs=161.3
Q ss_pred HHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhhC----CCceEEEecceecCCCCC-CCCceEEEeecCCccchHHHHHH-
Q 005380 381 FLAIYESLIPAEEEKAKQKKLLTLLEKLVCKEW----PDARLYLYGSCANSFGVS-KSDIDVCLAINDSEINKSEVLLK- 454 (699)
Q Consensus 381 I~~f~~~l~PT~eE~~~R~~ll~~L~~iI~~~~----p~a~V~~FGS~aTGL~lp-~SDIDLvL~~~~~~i~k~e~L~k- 454 (699)
+.++++.+.||.+|.+.....++.|...|++.. .+++++++||++.|++++ +|||||+|.++... . .+.|..
T Consensus 3 ~~evl~~i~Ps~eE~~~l~~~~~~l~~~L~~~~~~~~~~~~V~l~GS~ArgT~L~GdsDIDIFv~fp~~~-~-~e~L~~~ 80 (447)
T PRK13300 3 LEEVLERIKPTEEEREKLKKVAEELIERLEEAIKELGLDAEVELVGSTARGTWLSGDRDIDIFVLFPKDT-S-REELEEK 80 (447)
T ss_pred HHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHhcCCceEEEEEeeecCCcccCCCCceeEEEEeCCCC-C-HHHHHHH
Confidence 456789999999998888877777777766542 249999999999999999 88999999986532 2 223332
Q ss_pred ---HHHHH-hc-CCCcceEEeeeeeeceEEEecccCCeeEEEE--Eecc------hhhhhhHHHHHHhh--cChhHHHHH
Q 005380 455 ---LADIL-QS-DNLQNVQALTRARVPIVKLMDPVTGISCDIC--INNL------LAVVNTKLLRDYAQ--IDVRLQQLA 519 (699)
Q Consensus 455 ---La~iL-~s-~~~~~V~~I~~ARVPIIKf~d~~tgI~VDIS--fnn~------~Gi~nT~LIr~y~~--~dPr~r~Lv 519 (699)
++..+ +. .+-.. +..|.-|-|+.. ..|++|||. +.-. .++.-|.+--.|+. ++..++..|
T Consensus 81 gl~i~~~~~~~~~~~~~---~~yaeHpyv~~~--~~G~~VDiVPcy~v~~~~~~~saVDRtp~H~~fv~~rl~~~~~d~V 155 (447)
T PRK13300 81 GLEIGKEVAKELLGDYE---ERYAEHPYVTGE--IDGFEVDIVPCYKVESGEEIISAVDRTPFHTKYVKERLKGKLEDEV 155 (447)
T ss_pred HHHHHHHHHHhhCCcce---eeeccCceEEEE--ECCEEEEEEeeEEccCcCcccccccCchHHHHHHHHhhhhhHHHHH
Confidence 33222 22 11112 235999999988 459999993 3321 23333444444432 345699999
Q ss_pred HHHHHHHHhcCCCCc--cCCCCChHHHHHHHHHHhhhcCCCccccccccccccceeecCcccccccchhhhcCCCCCCcc
Q 005380 520 FIVKHWAKSRGVNVT--YQGTLSSYAYVLMCIHFLQQRRPAILPCLQGMEKTYSVTVDDIECAYFDQVDKLHGFGSRNKE 597 (699)
Q Consensus 520 llLK~Wak~rgLn~~--~~GgLSSYaL~LMVI~FLQ~~~P~ILP~LQ~l~~~~~~~vdd~~~~f~~~~e~l~~~g~~n~~ 597 (699)
+++|.|+|..|++++ +++|||||.+-|||++|=-
T Consensus 156 RLlK~f~k~~gvYGsE~k~~GFSGYl~ELLv~~yG~-------------------------------------------- 191 (447)
T PRK13300 156 RLLKQFLKGIGVYGSELKTRGFSGYLCELLIIHYGS-------------------------------------------- 191 (447)
T ss_pred HHHHHHHHhCCccchhhccCCccHHHHHHHHHHhCC--------------------------------------------
Confidence 999999999999976 7899999999999999511
Q ss_pred cHHHHHHHHHHHhhcCCCCCCcEEEecCCcccccccccccccCCCCCcceEEecCCCCCCCccccCCHhhHHHHHHHHHH
Q 005380 598 SIGRLVWAFFNYWAYGHDYASNVISVRTGSTISKQEKDWTRRIGNDRHLICIEDPFEVTHDLGRVVDKFSIKVLREEFER 677 (699)
Q Consensus 598 SLgeLLl~FF~yYs~~FD~~~~vISIr~G~~isK~ek~w~~~~g~~~~~L~IeDPfdp~~NlgrsVs~~~i~~Ir~eF~r 677 (699)
...++-.+- .|.. ...|.+...... .. -..+|.|.||.|+.+|+|++|+..++..|. ..
T Consensus 192 -F~~~l~~a~-----~w~~-~~~I~~~~~~~~----~~-------f~~PlvViDPvDp~RNVAaa~S~~~~~~fv---~a 250 (447)
T PRK13300 192 -FENVLKAAS-----KWKP-PVKIDLEKHGKE----YK-------FDDPLVVIDPVDPNRNVAAALSLENLATFI---LA 250 (447)
T ss_pred -HHHHHHHHH-----hCCC-CceEeccccCcc----cc-------CCCCEEEeCCCCCcchHHHHcCHHHHHHHH---HH
Confidence 112222221 2222 233444322110 01 135799999999999999999888876665 45
Q ss_pred HHHHhhcCCCccccccccC
Q 005380 678 AAEIMQHDPNPCVKLFEPY 696 (699)
Q Consensus 678 A~~iL~~~~n~~~~LfeP~ 696 (699)
|.+.|+ +|..+.|.|.
T Consensus 251 ar~fL~---~Ps~~fF~~~ 266 (447)
T PRK13300 251 AREFLK---NPSLEFFFPS 266 (447)
T ss_pred HHHHHh---CCCHHhcCCC
Confidence 556677 6667777665
No 11
>COG1746 CCA1 tRNA nucleotidyltransferase (CCA-adding enzyme) [Translation, ribosomal structure and biogenesis]
Probab=99.65 E-value=1.2e-14 Score=158.06 Aligned_cols=246 Identities=23% Similarity=0.299 Sum_probs=169.5
Q ss_pred ccHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHh----hCCCceEEEecceecCCCCC-CCCceEEEeecCCccchHHH
Q 005380 377 LNAPFLAIYESLIPAEEEKAKQKKLLTLLEKLVCK----EWPDARLYLYGSCANSFGVS-KSDIDVCLAINDSEINKSEV 451 (699)
Q Consensus 377 L~~eI~~f~~~l~PT~eE~~~R~~ll~~L~~iI~~----~~p~a~V~~FGS~aTGL~lp-~SDIDLvL~~~~~~i~k~e~ 451 (699)
+...+.++++.+.|+++|.++-+.+.+.|+..+++ .-.++.+.++||++-|+||+ +.||||.|.++... . .+.
T Consensus 3 ~~~~l~evl~~i~P~~eE~~~~~~~~e~l~~~~~~~~~e~~~~aev~lVGS~AkgTwL~gd~DIDvFi~Fp~d~-~-~ee 80 (443)
T COG1746 3 LEEVLEEVLKRIKPTEEERKKLKEVAEELRERINEIIEELGIDAEVVLVGSYAKGTWLRGDHDIDVFIAFPKDT-S-EEE 80 (443)
T ss_pred hHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHhcCCcceEEEEeecccCcccCCCcceeEEEECCCCC-C-HHH
Confidence 34456788999999999988888777776666654 44689999999999999999 78999999987642 2 223
Q ss_pred HHHH-----HHHHhcCCCcceEEeeeeeeceEEEecccCCeeEEEE--Eec------chhhhhhHHHHHHhh--cChhHH
Q 005380 452 LLKL-----ADILQSDNLQNVQALTRARVPIVKLMDPVTGISCDIC--INN------LLAVVNTKLLRDYAQ--IDVRLQ 516 (699)
Q Consensus 452 L~kL-----a~iL~s~~~~~V~~I~~ARVPIIKf~d~~tgI~VDIS--fnn------~~Gi~nT~LIr~y~~--~dPr~r 516 (699)
+... ..+|.. + + -.+..|.-|-|... ..|++|||. +.- ..++.-|-|-..|.. ++.+.+
T Consensus 81 l~~~GL~ig~~~l~~-~--~-~~~~YAeHPYV~g~--v~G~eVDvVPCy~v~~~~~~~sAVDRTplHt~yv~e~L~~~~~ 154 (443)
T COG1746 81 LEEKGLEIGREVLKR-G--N-YEERYAEHPYVTGE--VDGYEVDVVPCYKVEDGEKIISAVDRTPLHTRYVEEHLKGRQK 154 (443)
T ss_pred HHHHHHHHHHHHhcC-C--c-hhhhhccCCeeEEE--EccEEEEEEecccccCcccccccccCcchhHHHHHHHhcccch
Confidence 3322 233332 1 1 13567999999987 569999994 321 245555555555543 556777
Q ss_pred HHHHHHHHHHHhcCCCCc--cCCCCChHHHHHHHHHHhhhcCCCccccccccccccceeecCcccccccchhhhcCCCCC
Q 005380 517 QLAFIVKHWAKSRGVNVT--YQGTLSSYAYVLMCIHFLQQRRPAILPCLQGMEKTYSVTVDDIECAYFDQVDKLHGFGSR 594 (699)
Q Consensus 517 ~LvllLK~Wak~rgLn~~--~~GgLSSYaL~LMVI~FLQ~~~P~ILP~LQ~l~~~~~~~vdd~~~~f~~~~e~l~~~g~~ 594 (699)
.=|+++|.|+|.-|++++ +++|||+|..-||||+|=--
T Consensus 155 deVrLLK~FlK~iGvYGaE~rt~GFSGYL~ELLII~yGsF---------------------------------------- 194 (443)
T COG1746 155 DEVRLLKQFLKGIGVYGAELRTQGFSGYLCELLIIHYGSF---------------------------------------- 194 (443)
T ss_pred hHHHHHHHHHhccCccceeeeeccchHHHHHHHHhhhccH----------------------------------------
Confidence 889999999999999997 78999999999999996111
Q ss_pred CcccHHHHHHHHHHHhhcCCCCCCcEEEecCCcccccccccccccCCCCCcceEEecCCCCCCCccccCCHhhHHHHHHH
Q 005380 595 NKESIGRLVWAFFNYWAYGHDYASNVISVRTGSTISKQEKDWTRRIGNDRHLICIEDPFEVTHDLGRVVDKFSIKVLREE 674 (699)
Q Consensus 595 n~~SLgeLLl~FF~yYs~~FD~~~~vISIr~G~~isK~ek~w~~~~g~~~~~L~IeDPfdp~~NlgrsVs~~~i~~Ir~e 674 (699)
-..| +..+ .|--. .+|.+... +.+ . ....+|.|.||.||.+|+|++||..++.+++
T Consensus 195 -----e~vl----~~a~-~wrp~-~~ID~~~~----~~e-~------f~d~PliVvDPVDP~RNVAAalSl~~la~f~-- 250 (443)
T COG1746 195 -----ENVL----KAAS-RWRPG-KIIDLEGH----KRE-R------FEDEPLIVVDPVDPKRNVAAALSLENLARFV-- 250 (443)
T ss_pred -----HHHH----HHHh-ccCCC-eEEeccch----hhh-c------cCCCCeEecCCCCCccchhhhcCHHHHHHHH--
Confidence 1111 1222 23222 34444422 111 1 1123799999999999999999887776554
Q ss_pred HHHHHHHhhcCCCccccccccCCC
Q 005380 675 FERAAEIMQHDPNPCVKLFEPYVP 698 (699)
Q Consensus 675 F~rA~~iL~~~~n~~~~LfeP~~~ 698 (699)
-.|...|+ ||..+.|.|.-|
T Consensus 251 -~aar~FL~---~PS~efF~p~~~ 270 (443)
T COG1746 251 -HAAREFLK---NPSPEFFFPRKP 270 (443)
T ss_pred -HHHHHHhc---CCChhhcCCCCc
Confidence 44556676 677788877654
No 12
>PF03828 PAP_assoc: Cid1 family poly A polymerase; InterPro: IPR002058 These PAP/25A associated domains are found in uncharacterised eukaryotic proteins, a number of which are described as 'topoisomerase 1-related' though they appear to have little or no homology to topoisomerase 1. The signatures that define this group of sequences often occur towards the C terminus after the PAP/25A core domain IPR001201 from INTERPRO.; PDB: 2B4V_A 2B56_A 2B51_A 4EP7_B 2NOM_B 2Q0G_B 2Q0D_B 2Q0C_A 2Q0F_A 2Q0E_A ....
Probab=99.34 E-value=5.8e-13 Score=108.73 Aligned_cols=60 Identities=40% Similarity=0.888 Sum_probs=51.0
Q ss_pred cHHHHHHHHHHHhhcCCCCCCcEEEecCCcccccccccccccCCCCCcceEEecCCCCCC
Q 005380 598 SIGRLVWAFFNYWAYGHDYASNVISVRTGSTISKQEKDWTRRIGNDRHLICIEDPFEVTH 657 (699)
Q Consensus 598 SLgeLLl~FF~yYs~~FD~~~~vISIr~G~~isK~ek~w~~~~g~~~~~L~IeDPfdp~~ 657 (699)
|||+||++||+||+..|||.+.+|||+.|++++|.++.|..........|+|||||+++|
T Consensus 1 slg~Ll~~Ff~~Y~~~Fd~~~~~Isi~~g~~~~k~~~~~~~~~~~~~~~l~IeDP~~~~n 60 (60)
T PF03828_consen 1 SLGELLLGFFEYYGRKFDYENNVISIRNGGYFPKEEKNWSKSRNQRKKRLCIEDPFDPSN 60 (60)
T ss_dssp -HHHHHHHHHHHHHHTS-TTTEEEESSSSSEEEHHHHTGCHCCCCECSSSEBBESSSTTE
T ss_pred CHHHHHHHHHHHhCCcCCCCceEEEecCCceEEhhhccccccccCCCCeEEEECCCCCCC
Confidence 589999999999999999999999999999999998888743334567899999999865
No 13
>PF09249 tRNA_NucTransf2: tRNA nucleotidyltransferase, second domain; InterPro: IPR015329 This domain adopts a structure consisting of a five helical bundle core. It is predominantly found in Archaeal tRNA nucleotidyltransferases, following the catalytic nucleotidyltransferase domain []. ; GO: 0004810 tRNA adenylyltransferase activity, 0016437 tRNA cytidylyltransferase activity; PDB: 3OUY_B 2ZHB_A 2ZH1_A 2ZH2_A 1UET_A 2ZH7_A 1R8B_A 2DR5_A 1TFW_C 3OVA_A ....
Probab=98.59 E-value=1.6e-07 Score=86.60 Aligned_cols=109 Identities=20% Similarity=0.329 Sum_probs=66.4
Q ss_pred HHHHHHHHHhcCCCCc--cCCCCChHHHHHHHHHHhhhcCCCccccccccccccceeecCcccccccchhhhcCCCCCCc
Q 005380 519 AFIVKHWAKSRGVNVT--YQGTLSSYAYVLMCIHFLQQRRPAILPCLQGMEKTYSVTVDDIECAYFDQVDKLHGFGSRNK 596 (699)
Q Consensus 519 vllLK~Wak~rgLn~~--~~GgLSSYaL~LMVI~FLQ~~~P~ILP~LQ~l~~~~~~~vdd~~~~f~~~~e~l~~~g~~n~ 596 (699)
|+++|.|+|..|++++ +++|||+|..-+|||+|=-
T Consensus 3 VrLLK~FlK~igvYGse~~~~GFSGYL~ELLii~yGs------------------------------------------- 39 (114)
T PF09249_consen 3 VRLLKQFLKGIGVYGSELKTRGFSGYLCELLIIHYGS------------------------------------------- 39 (114)
T ss_dssp HHHHHHHHHHTT-B-SSTTT-SB-HHHHHHHHHHHSS-------------------------------------------
T ss_pred hHHHHHHHhcCCCcchhhhcCcchHHHHHHHHHHHCC-------------------------------------------
Confidence 7899999999999997 7899999999999999711
Q ss_pred ccHHHHHHHHHHHhhcCCCCCC-cEEEecCCcccccccccccccCCCCCcceEEecCCCCCCCccccCCHhhHHHHHHHH
Q 005380 597 ESIGRLVWAFFNYWAYGHDYAS-NVISVRTGSTISKQEKDWTRRIGNDRHLICIEDPFEVTHDLGRVVDKFSIKVLREEF 675 (699)
Q Consensus 597 ~SLgeLLl~FF~yYs~~FD~~~-~vISIr~G~~isK~ek~w~~~~g~~~~~L~IeDPfdp~~NlgrsVs~~~i~~Ir~eF 675 (699)
+...++.-+ +|+. .+|.+....... +.+ ..+|.|.||.|+.+|+|++|+..++.++.
T Consensus 40 ------F~~~l~~a~---~W~~~~~Id~~~~~~~~---~~f-------~~PlvviDPvDp~RNVAAalS~~~~~~fv--- 97 (114)
T PF09249_consen 40 ------FENVLEAAA---KWKPPVVIDLEDHGEPS---KKF-------DDPLVVIDPVDPNRNVAAALSLENLAEFV--- 97 (114)
T ss_dssp ------HHHHHHHHT---T--TTEEEETT-TTE-----EEE--------SS-EEEETTEEEEETTTTS-HHHHHHHH---
T ss_pred ------HHHHHHHHH---hcCCCeEEccCccchhh---hhc-------CCCeEEcCCCCCCchHhHhcCHHHHHHHH---
Confidence 112233333 3333 345544211101 111 24799999999999999999888776655
Q ss_pred HHHHHHhhcCCCcccccccc
Q 005380 676 ERAAEIMQHDPNPCVKLFEP 695 (699)
Q Consensus 676 ~rA~~iL~~~~n~~~~LfeP 695 (699)
..|...|+ +|..+.|.|
T Consensus 98 ~~ar~fl~---~Ps~~fF~p 114 (114)
T PF09249_consen 98 HAAREFLK---NPSIEFFFP 114 (114)
T ss_dssp HHHHHHHH---S--GGGGS-
T ss_pred HHHHHHHH---CcCHHhcCC
Confidence 45556666 677788876
No 14
>PF03813 Nrap: Nrap protein; InterPro: IPR005554 Members of this family are nucleolar RNA-associated proteins (Nrap) which are highly conserved from yeast (Saccharomyces cerevisiae) to human. In the mouse, Nrap is ubiquitously expressed and is specifically localized in the nucleolus []. Nrap is a large nucleolar protein (of more than 1000 amino acids). Nrap appears to be associated with ribosome biogenesis by interacting with pre-rRNA primary transcript [].
Probab=98.38 E-value=1.8e-05 Score=96.82 Aligned_cols=153 Identities=16% Similarity=0.236 Sum_probs=110.2
Q ss_pred HHHHHhhcChhHHHHHHHHHHHHHhcCCCCcc-CCCCChHHHHHHHHHHhhhcCCCccccccccccccceeecCcccccc
Q 005380 504 LLRDYAQIDVRLQQLAFIVKHWAKSRGVNVTY-QGTLSSYAYVLMCIHFLQQRRPAILPCLQGMEKTYSVTVDDIECAYF 582 (699)
Q Consensus 504 LIr~y~~~dPr~r~LvllLK~Wak~rgLn~~~-~GgLSSYaL~LMVI~FLQ~~~P~ILP~LQ~l~~~~~~~vdd~~~~f~ 582 (699)
++....+..|.|+..++++|.|+++||+.... .|||++|-|.+|+++.++.-...=-.
T Consensus 155 ~l~~~~~~~p~f~dA~iLlkvWl~QRg~~~~~~~~Gf~~f~~s~lla~Ll~~g~~~~~~--------------------- 213 (972)
T PF03813_consen 155 YLHEASKSSPAFRDACILLKVWLRQRGFGSGISQGGFGGFEWSMLLAYLLQGGGRNGKK--------------------- 213 (972)
T ss_pred HHHHHHhcCHHHHHHHHHHHHHHhcCCCCcccCCCCcchHHHHHHHHHHHcCCCccCCc---------------------
Confidence 45556667899999999999999999998764 58999999999999988872110000
Q ss_pred cchhhhcCCCCCCcccHHHHHHHHHHHhhcCCCCCCcEEEecCCcccccccccccccCCCCCcceEEecCCCCCCCcccc
Q 005380 583 DQVDKLHGFGSRNKESIGRLVWAFFNYWAYGHDYASNVISVRTGSTISKQEKDWTRRIGNDRHLICIEDPFEVTHDLGRV 662 (699)
Q Consensus 583 ~~~e~l~~~g~~n~~SLgeLLl~FF~yYs~~FD~~~~vISIr~G~~isK~ek~w~~~~g~~~~~L~IeDPfdp~~Nlgrs 662 (699)
+ -....|--+++..++.|-+ .-||.+..|.+..-.--......| ...+..++.||-- ..|++..
T Consensus 214 ----~-----l~~~mSsyQlFr~~l~fLA-~~d~~~~~l~~~~~~~~~~~~~~~-----~~~~~~vf~D~sg-~~Nl~~~ 277 (972)
T PF03813_consen 214 ----K-----LSKSMSSYQLFRAVLQFLA-TTDLSKKPLFFKSSSDSTESLEEF-----HSAFDPVFVDPSG-GLNLLAK 277 (972)
T ss_pred ----c-----cCCCCCHHHHHHHHHHHHh-ccccccCceEEecCCCccchhhhh-----hccCCeEEEeCCC-CEEEEEc
Confidence 0 0112344589999999999 799988877766422100011112 1235678889977 6999999
Q ss_pred CCHhhHHHHHHHHHHHHHHhhcC-CCcccccc
Q 005380 663 VDKFSIKVLREEFERAAEIMQHD-PNPCVKLF 693 (699)
Q Consensus 663 Vs~~~i~~Ir~eF~rA~~iL~~~-~n~~~~Lf 693 (699)
++...++.++.|-+.+..+|... .+.+..+|
T Consensus 278 ms~~s~~~L~~eA~~tl~lL~~~~~d~F~~lF 309 (972)
T PF03813_consen 278 MSPSSYEELQHEAKLTLELLDDSSDDGFDSLF 309 (972)
T ss_pred CCHHHHHHHHHHHHHHHHHhccccccchhhhh
Confidence 99999999999999999999864 34454544
No 15
>smart00572 DZF domain in DSRM or ZnF_C2H2 domain containing proteins.
Probab=98.27 E-value=1.1e-05 Score=84.12 Aligned_cols=198 Identities=15% Similarity=0.164 Sum_probs=134.5
Q ss_pred eEEEecceecCCCCCCC-CceEEEeecCCccchHHHHHHHHHHH----hcCCCcce-EEeeeeeeceEEEecccCC--ee
Q 005380 417 RLYLYGSCANSFGVSKS-DIDVCLAINDSEINKSEVLLKLADIL----QSDNLQNV-QALTRARVPIVKLMDPVTG--IS 488 (699)
Q Consensus 417 ~V~~FGS~aTGL~lp~S-DIDLvL~~~~~~i~k~e~L~kLa~iL----~s~~~~~V-~~I~~ARVPIIKf~d~~tg--I~ 488 (699)
.|.-.||++.|+.+.+. ++||||.+...+ ..+.+..+++.| +...-.+. ..+..+.+|.+++....++ ..
T Consensus 4 gV~rVG~~aKG~ll~Gd~~~~lVv~c~~~P--T~~ll~~v~~~l~e~l~~~~~~e~~~~~~~~~~~~~~~~i~ltSp~~r 81 (246)
T smart00572 4 GVMRVGSFAKGTLLKGDNVAELVLLCKEKP--TSELVARLARKLPEQLKAVTEDEALIIVTSTKEPTMEVGILITSPLAR 81 (246)
T ss_pred ceEEeeeeccCceecCCCceeEEEEecCCC--cHHHHHHHHHHHHHHHhhcCcccceeeeeccCCCceeEEEEEeccccc
Confidence 46788999999999965 899999876533 345555555444 33211121 2344455565554321211 11
Q ss_pred EEE----------------------EEecchhhhhhHHHHHHhhcChhHHHHHHHHHHHHHhcCCCCccCCCCChHHHHH
Q 005380 489 CDI----------------------CINNLLAVVNTKLLRDYAQIDVRLQQLAFIVKHWAKSRGVNVTYQGTLSSYAYVL 546 (699)
Q Consensus 489 VDI----------------------Sfnn~~Gi~nT~LIr~y~~~dPr~r~LvllLK~Wak~rgLn~~~~GgLSSYaL~L 546 (699)
+++ |.....+++.++++++-+.--..++.+++++|-|++....- ..|+||.+-+
T Consensus 82 ~~~~~~~~~~~~~~~~p~~~ld~~~cl~aLAalRhakWFq~~a~~l~s~~iviRilKd~~~R~~~~----~pL~~w~iEL 157 (246)
T smart00572 82 VELLITTVPENLRKLDPEDHLDRKKCLSALASLRHAKWFQARASGLQSCVIVIRVLRDLCNRVPTW----QPLSGWPLEL 157 (246)
T ss_pred ccccccccCcccccCCccccCCHHHHHHHHHHHHHhHHHHHhccCCcchhhHHHHHHHHHHhcccc----cccccccHHH
Confidence 111 22233567788888887776668999999999999886442 3599999999
Q ss_pred HHHHHhhhcCCCccccccccccccceeecCcccccccchhhhcCCCCCCcccHHHHHHHHHHHhhcCCCCCCcEEEecCC
Q 005380 547 MCIHFLQQRRPAILPCLQGMEKTYSVTVDDIECAYFDQVDKLHGFGSRNKESIGRLVWAFFNYWAYGHDYASNVISVRTG 626 (699)
Q Consensus 547 MVI~FLQ~~~P~ILP~LQ~l~~~~~~~vdd~~~~f~~~~e~l~~~g~~n~~SLgeLLl~FF~yYs~~FD~~~~vISIr~G 626 (699)
++-+.+-.. ....++++.|..||+|-+. |
T Consensus 158 l~~~~i~~~--------------------------------------~~~l~~~~a~RR~fe~lAs-------------G 186 (246)
T smart00572 158 LVEKAIGSA--------------------------------------RQPLGLGDAFRRVFECLAS-------------G 186 (246)
T ss_pred HHHHHhccC--------------------------------------CCCCCHHHHHHHHHHHHHh-------------c
Confidence 986654321 1234789999999999993 2
Q ss_pred cccccccccccccCCCCCcceEEecCCCC-CCCccccCCHhhHHHHHHHHHHHHHHhhcC
Q 005380 627 STISKQEKDWTRRIGNDRHLICIEDPFEV-THDLGRVVDKFSIKVLREEFERAAEIMQHD 685 (699)
Q Consensus 627 ~~isK~ek~w~~~~g~~~~~L~IeDPfdp-~~NlgrsVs~~~i~~Ir~eF~rA~~iL~~~ 685 (699)
..++. ...|.||.+. .+|++..+|....+.|...-+.|++++...
T Consensus 187 ~l~p~--------------~~gI~DPce~~~~nv~~~lT~qqrd~It~sAQ~alRl~Afg 232 (246)
T smart00572 187 ILLPG--------------SPGLTDPCEKDNTDALTALTLQQREDVTASAQTALRLLAFG 232 (246)
T ss_pred cCcCC--------------CCCCcCCCCCCcccHHHhcCHHHHHHHHHHHHHHHHHHHhc
Confidence 22221 1568899997 899999999999999999999999998863
No 16
>PF01909 NTP_transf_2: Nucleotidyltransferase domain A subset of this Pfam family; InterPro: IPR002934 A small region that overlaps with a nuclear localization signal and binds to the RNA primer contains three aspartates that are essential for catalysis. Sequence and secondary structure comparisons of regions surrounding these aspartates with sequences of other polymerases revealed a significant homology to the palm structure of DNA polymerase beta, terminal deoxynucleotidyltransferase and DNA polymerase IV of Saccharomyces cerevisiae, all members of the family X of polymerases. This homology extends as far as cca: tRNA nucleotidyltransferase and streptomycin adenylyltransferase, an antibiotic resistance factor [, ]. Proteins containing this domain include kanamycin nucleotidyltransferase (KNTase) which is a plasmid-coded enzyme responsible for some types of bacterial resistance to aminoglycosides. KNTase inactivates antibiotics by catalysing the addition of a nucleotidyl group onto the drug. In experiments, Mn2+ strongly stimulated this reaction due to a 50-fold lower Ki for 8-azido-ATP in the presence of Mn2+. Mutations of the highly conserved Asp residues 113, 115, and 167, critical for metal binding in the catalytic domain of bovine poly(A) polymerase, led to a strong reduction of cross-linking efficiency, and Mn2+ no longer stimulated the reaction. Mutations in the region of the "helical turn motif" (a domain binding the triphosphate moiety of the nucleotide) and in the suspected nucleotide-binding helix of bovine poly(A) polymerase impaired ATP binding and catalysis. The results indicate that ATP is bound in part by the helical turn motif and in part by a region that may be a structural analogue of the fingers domain found in many polymerases.; GO: 0016779 nucleotidyltransferase activity; PDB: 4EBK_B 4EBJ_A 1KNY_A 2B4V_A 2B56_A 2B51_A 1NO5_B 1Q79_A 1Q78_A 1F5A_A ....
Probab=98.13 E-value=6.8e-06 Score=71.57 Aligned_cols=44 Identities=25% Similarity=0.484 Sum_probs=39.0
Q ss_pred HHHHHHHHHhhCCCceEEEecceecCCCCCCCCceEEEeecCCc
Q 005380 402 LTLLEKLVCKEWPDARLYLYGSCANSFGVSKSDIDVCLAINDSE 445 (699)
Q Consensus 402 l~~L~~iI~~~~p~a~V~~FGS~aTGL~lp~SDIDLvL~~~~~~ 445 (699)
+++|.+.+++.++...+++|||+++|.+.++|||||+|..+...
T Consensus 1 i~~i~~~l~~~~~~~~v~lfGS~a~g~~~~~SDIDl~i~~~~~~ 44 (93)
T PF01909_consen 1 IEEIKEILKELFGVAEVYLFGSYARGDATPDSDIDLLIILDEPE 44 (93)
T ss_dssp HHHHHHHHHHHHTTEEEEEEHHHHHTSSCTTSCEEEEEEESSTS
T ss_pred CHHHHHHHHHHCCCCEEEEECCcccCcCCCCCCEEEEEEeCCcc
Confidence 46778888888889999999999999999999999999987643
No 17
>cd05397 NT_Pol-beta-like Nucleotidyltransferase (NT) domain of DNA polymerase beta and similar proteins. This superfamily includes the NT domains of DNA polymerase beta and other family X DNA polymerases, as well as the NT domains of Class I and Class II CCA-adding enzymes, RelA- and SpoT-like ppGpp synthetases and hydrolases, 2'5'-oligoadenylate (2-5A)synthetases, Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), poly (A) polymerases, terminal uridylyl transferases, and Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins. The Escherichia coli CCA-adding enzyme belongs to this superfamily but is not included as this enzyme lacks the N-terminal helix conserved in the remainder of the superfamily. In the majority of the Pol beta-like superfamily NTs, two carboxylates, Dx[D/E], together with a third more distal carboxylate coordinate two divalent metal cations that are essential for catalysis. These divalent metal ions are
Probab=97.95 E-value=1.6e-05 Score=63.13 Aligned_cols=41 Identities=27% Similarity=0.405 Sum_probs=37.1
Q ss_pred HHHHHHHHHHHhhCCCceEEEecceecCCCCCCCCceEEEe
Q 005380 400 KLLTLLEKLVCKEWPDARLYLYGSCANSFGVSKSDIDVCLA 440 (699)
Q Consensus 400 ~ll~~L~~iI~~~~p~a~V~~FGS~aTGL~lp~SDIDLvL~ 440 (699)
++++.+++.+++.++..++++|||++.|.+.+.|||||++.
T Consensus 2 ~~l~~i~~~l~~~~~~~~v~lfGS~arg~~~~~SDIDi~v~ 42 (49)
T cd05397 2 ELLDIIKERLKKLVPGYEIVVYGSLVRGLLKKSSDIDLACV 42 (49)
T ss_pred HHHHHHHHHHHhhcCCcEEEEECCcCCCCCCCCCCEEEEEE
Confidence 46778888888888889999999999999999999999885
No 18
>cd05400 NT_2-5OAS_ClassI-CCAase Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme. In vertebrates, 2-5OASs are induced by interferon during the innate immune response to protect against RNA virus infections. In the presence of an RNA activator, 2-5OASs catalyze the oligomerization of ATP into 2-5A. 2-5A activates endoribonuclease L, which leads to degradation of the viral RNA. 2-5OASs are also implicated in cell growth control, differentiation, and apoptosis. This family includes human OAS1, -2, -3, and OASL. CCA-adding enzymes add the sequence [cytidine(C)-cytidine-adenosine (A)], one nucleotide at a time, onto the 3' end of tRNA, in a template-independent reaction. This class I group includes the archaeal Sulfolobus shibatae and Archeoglobus fulgidus CCA-adding enzymes. It belongs to the Pol beta-like NT superfamily. In the majority of enzymes in this superfamily, two carboxylates, Dx[D/E], together with a third more dis
Probab=97.95 E-value=7.6e-05 Score=70.62 Aligned_cols=77 Identities=25% Similarity=0.316 Sum_probs=54.4
Q ss_pred CCceEEEecceecCCCCC-CCCceEEEeecCCc----cchHHHHHHHHHHHhcCCCcceEEeeeeeeceEEEecccCCee
Q 005380 414 PDARLYLYGSCANSFGVS-KSDIDVCLAINDSE----INKSEVLLKLADILQSDNLQNVQALTRARVPIVKLMDPVTGIS 488 (699)
Q Consensus 414 p~a~V~~FGS~aTGL~lp-~SDIDLvL~~~~~~----i~k~e~L~kLa~iL~s~~~~~V~~I~~ARVPIIKf~d~~tgI~ 488 (699)
+..++++|||++.|++++ .||||++|+++... ....+++..|.+.|....-....+ ..+-+.|++.....++.
T Consensus 26 ~~~~~~~~GS~a~~T~i~~~sDiD~~v~~~~~~~~~~~~~~~~~~~l~~~L~~~~~~~~~~--~~~~~~v~v~~~~~~~~ 103 (143)
T cd05400 26 RVAEVFLQGSYARGTALRGDSDIDLVVVLPDDTSFAEYGPAELLDELGEALKEYYGANEEV--KAQHRSVTVKFKGQGFH 103 (143)
T ss_pred cccEEEEEcceeCCCCCCCCCceeEEEEEcCcccccccCHHHHHHHHHHHHHHhcCccccc--ccCceEEEEEEcCCCeE
Confidence 357899999999999988 89999999987653 345678888888887642211222 23445556554345899
Q ss_pred EEEE
Q 005380 489 CDIC 492 (699)
Q Consensus 489 VDIS 492 (699)
+||.
T Consensus 104 vDvv 107 (143)
T cd05400 104 VDVV 107 (143)
T ss_pred EEEE
Confidence 9994
No 19
>cd05403 NT_KNTase_like Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins. S. aureus KNTase is a plasmid encoded enzyme which confers resistance to a wide range of aminoglycoside antibiotics which have a 4'- or 4''-hydroxyl group in the equatorial position, such as kanamycin A. This enzyme transfers a nucleoside monophosphate group from a nucleotide (ATP,GTP, or UTP) to the 4'-hydroxyl group of kanamycin A. This enzyme is a homodimer, having two NT active sites. The nucleotide and antibiotic binding sites of each active site include residues from each monomer. Included in this subgroup is Escherichia coli AadA5 which confers resistance to the antibiotic spectinomycin and is a putative aminoglycoside-3'-adenylyltransferase. It is part of the aadA5 cassette of a class 1 integron. This subgroup also includes Haemophilus influenzae HI0073 which forms a 2:2 heterotetramer with an unrelated protein HI0074. Structurally HI0074 is
Probab=97.66 E-value=0.00018 Score=62.05 Aligned_cols=44 Identities=25% Similarity=0.407 Sum_probs=36.2
Q ss_pred HHHHHHHHHHhhCC-CceEEEecceecCCCCCCCCceEEEeecCC
Q 005380 401 LLTLLEKLVCKEWP-DARLYLYGSCANSFGVSKSDIDVCLAINDS 444 (699)
Q Consensus 401 ll~~L~~iI~~~~p-~a~V~~FGS~aTGL~lp~SDIDLvL~~~~~ 444 (699)
.++.+...+++.+. -..+++|||++.|-+.++|||||+|+....
T Consensus 3 ~~~~i~~~l~~~~~~i~~i~LfGS~arg~~~~~SDiDl~vi~~~~ 47 (93)
T cd05403 3 ILEEILEILRELLGGVEKVYLFGSYARGDARPDSDIDLLVIFDDP 47 (93)
T ss_pred hHHHHHHHHHHHhCCccEEEEEeeeecCCCCCCCCeeEEEEeCCC
Confidence 45566666666666 688999999999999999999999988654
No 20
>PF10421 OAS1_C: 2'-5'-oligoadenylate synthetase 1, domain 2, C-terminus ; InterPro: IPR018952 This is the largely alpha-helical, C-terminal half of 2'-5'-oligoadenylate synthetase 1, being described as domain 2 of the enzyme and homologous to a tandem ubiquitin repeat. It carries the region of enzymic activity between residues 320 and 344 at the extreme C-terminal end []. Oligoadenylate synthetases are antiviral enzymes that counteract viral attack by degrading viral RNA. The enzyme uses ATP in 2'-specific nucleotidyl transfer reactions to synthesise 2'.5'-oligoadenylates, which activate latent ribonuclease, resulting in degradation of viral RNA and inhibition of virus replication []. This domain is often associated with IPR002934 from INTERPRO. ; PDB: 1PX5_B.
Probab=97.59 E-value=0.00019 Score=72.28 Aligned_cols=58 Identities=26% Similarity=0.325 Sum_probs=43.3
Q ss_pred hhhhhHHHHHHhhcCh-hHHHHHHHHHHHHHhcCCCCccC-CCCChHHHHHHHHHHhhhc
Q 005380 498 AVVNTKLLRDYAQIDV-RLQQLAFIVKHWAKSRGVNVTYQ-GTLSSYAYVLMCIHFLQQR 555 (699)
Q Consensus 498 Gi~nT~LIr~y~~~dP-r~r~LvllLK~Wak~rgLn~~~~-GgLSSYaL~LMVI~FLQ~~ 555 (699)
.+..|++-+.|++..| .++.|+++||+|.++..-..... +-.++|+|.||+|+.-.+.
T Consensus 26 S~cftelQ~~Fvk~rP~klK~LIrLVKhWy~~~~~~~~~~~~lPpsYaLELLtIyAWE~g 85 (190)
T PF10421_consen 26 SACFTELQRNFVKHRPTKLKNLIRLVKHWYQQCKKKKCGGGSLPPSYALELLTIYAWEQG 85 (190)
T ss_dssp GGGGHHHHHHHHHTS-HHHHHHHHHHHHHHHHHHCC--HTT-S--HHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhccCCCCCcHHHHHHHHHHHHHHhc
Confidence 4567889999998777 79999999999998876663333 4466899999999987763
No 21
>PF07528 DZF: DZF domain; InterPro: IPR006561 This domain is found in proteins containing the double-stranded RNA-binding motif, DSRM (IPR001159 from INTERPRO), or the zinc finger domain C2H2 (IPR007087 from INTERPRO). This domain is found exclusively in the metazoa.
Probab=97.35 E-value=0.0026 Score=66.87 Aligned_cols=196 Identities=17% Similarity=0.198 Sum_probs=125.7
Q ss_pred ecceecCCCCCCC-CceEEEeecCCccchHHHHHHHHHHH----hcCCCcce-------EEeeeeeeceEEEecccC--C
Q 005380 421 YGSCANSFGVSKS-DIDVCLAINDSEINKSEVLLKLADIL----QSDNLQNV-------QALTRARVPIVKLMDPVT--G 486 (699)
Q Consensus 421 FGS~aTGL~lp~S-DIDLvL~~~~~~i~k~e~L~kLa~iL----~s~~~~~V-------~~I~~ARVPIIKf~d~~t--g 486 (699)
.||++.|+.+.+. ++|+||.+...+ ..+++.++++.| +...-.+| .++...+.|.+.+....+ .
T Consensus 2 VG~~aKGllL~Gd~~~eLVVlck~kP--T~~lL~~v~~~L~~~L~~~~~~ev~~~~e~~~~~~~~~~~~~~~~~~lts~~ 79 (248)
T PF07528_consen 2 VGSFAKGLLLKGDNDVELVVLCKEKP--TKELLNRVAEKLPEQLKKVTPEEVTNSVEAAIIIDSCKEPKLEVGIDLTSPV 79 (248)
T ss_pred cceecCCceecCCceEeEEEEcCCCC--cHHHHHHHHHHHHHHHhhhCccccccchhhhhhhcccccccceeeEEecCCc
Confidence 5999999999876 899999876533 345566555544 32111111 111122223333221111 1
Q ss_pred eeEEE----------------------EEecchhhhhhHHHHHHhhcChhHHHHHHHHHHHHHhcCCCCccCCCCChHHH
Q 005380 487 ISCDI----------------------CINNLLAVVNTKLLRDYAQIDVRLQQLAFIVKHWAKSRGVNVTYQGTLSSYAY 544 (699)
Q Consensus 487 I~VDI----------------------Sfnn~~Gi~nT~LIr~y~~~dPr~r~LvllLK~Wak~rgLn~~~~GgLSSYaL 544 (699)
+.+.+ +.....+++.++++++-+..-+.++.+++++|-.+... +....|++|++
T Consensus 80 ~r~~~~~~~~~~~~~~~dp~~~Ld~~~cl~aLaalRhakWFq~~a~~l~s~~~viRIlrDl~~R~----p~w~~L~~W~l 155 (248)
T PF07528_consen 80 MRVRVLITTIPENLSKLDPEDHLDRKKCLSALAALRHAKWFQARANGLQSCVIVIRILRDLRQRV----PTWQPLSSWAL 155 (248)
T ss_pred eEEEEeccccCccccccChhhcCCHHHHHHHHHHHHHhHHHHHHhccCCCcceehhhHHHHHHhC----CCCCCCChhHH
Confidence 22222 22233567788888887777778899999999987764 33567999999
Q ss_pred HHHHHHHhhhcCCCccccccccccccceeecCcccccccchhhhcCCCCCCcccHHHHHHHHHHHhhcCCCCCCcEEEec
Q 005380 545 VLMCIHFLQQRRPAILPCLQGMEKTYSVTVDDIECAYFDQVDKLHGFGSRNKESIGRLVWAFFNYWAYGHDYASNVISVR 624 (699)
Q Consensus 545 ~LMVI~FLQ~~~P~ILP~LQ~l~~~~~~~vdd~~~~f~~~~e~l~~~g~~n~~SLgeLLl~FF~yYs~~FD~~~~vISIr 624 (699)
-+|+-+.+-.. + .....++|+.|..||+.-+.
T Consensus 156 eLL~~~~i~~~-~-----------------------------------~~~~l~~g~a~RRvle~las------------ 187 (248)
T PF07528_consen 156 ELLVEKAISNN-S-----------------------------------SRQPLSPGDAFRRVLECLAS------------ 187 (248)
T ss_pred HHHHHHHeeeC-C-----------------------------------CCCCCChHHHHHHHHHHHhC------------
Confidence 99886544421 0 11235789999999999982
Q ss_pred CCcccccccccccccCCCCCcceEEecCCC-CCCCccccCCHhhHHHHHHHHHHHHHHhhcC
Q 005380 625 TGSTISKQEKDWTRRIGNDRHLICIEDPFE-VTHDLGRVVDKFSIKVLREEFERAAEIMQHD 685 (699)
Q Consensus 625 ~G~~isK~ek~w~~~~g~~~~~L~IeDPfd-p~~NlgrsVs~~~i~~Ir~eF~rA~~iL~~~ 685 (699)
|-.++.. --|.||.+ ...|+...++....+.|....+.+.++|...
T Consensus 188 -Gillp~~--------------~gl~DPcE~~~~~~~~~lt~qq~e~it~sAQ~~LRllafg 234 (248)
T PF07528_consen 188 -GILLPGS--------------PGLRDPCEKDPVDVLDTLTLQQREDITSSAQTALRLLAFG 234 (248)
T ss_pred -ceecCCC--------------CCCcCCCCCCCceeeccCCHHHHHHHHHHHHHHHHHHHhc
Confidence 2222221 23578998 6788999999988899999999999988863
No 22
>COG1669 Predicted nucleotidyltransferases [General function prediction only]
Probab=97.07 E-value=0.0031 Score=57.27 Aligned_cols=47 Identities=23% Similarity=0.342 Sum_probs=40.6
Q ss_pred HHHHHHHHHHHHHhhCCCceEEEecceecCCCCCCCCceEEEeecCC
Q 005380 398 QKKLLTLLEKLVCKEWPDARLYLYGSCANSFGVSKSDIDVCLAINDS 444 (699)
Q Consensus 398 R~~ll~~L~~iI~~~~p~a~V~~FGS~aTGL~lp~SDIDLvL~~~~~ 444 (699)
.+.+++.+...+++.+.-.++.+|||++-|-..|+|||||.|.+...
T Consensus 7 ~~~~lr~~~~~l~~k~gv~~~~vFGS~aRgE~~~~SDIDILVef~~~ 53 (97)
T COG1669 7 LKKILRKIKPELKEKYGVKRVAVFGSYARGEQKPDSDIDILVEFEPG 53 (97)
T ss_pred HHHHHHHHHHHHHHHhCCceEEEeeeeecCCCCCCCCceeEEeecCC
Confidence 34457888888888888899999999999999999999999987553
No 23
>COG1708 Predicted nucleotidyltransferases [General function prediction only]
Probab=96.99 E-value=0.0028 Score=57.56 Aligned_cols=37 Identities=38% Similarity=0.393 Sum_probs=30.7
Q ss_pred HHHHHHhhCCCceEEEecceecCCCCCCCCceEEEee
Q 005380 405 LEKLVCKEWPDARLYLYGSCANSFGVSKSDIDVCLAI 441 (699)
Q Consensus 405 L~~iI~~~~p~a~V~~FGS~aTGL~lp~SDIDLvL~~ 441 (699)
+............+++|||++.|-+.+.||||++|++
T Consensus 16 ~~~~~~~~~~~~~v~LfGS~arG~~~~~SDiDv~vv~ 52 (128)
T COG1708 16 LEAIEKKLGGDLLIYLFGSYARGDFVKESDIDLLVVS 52 (128)
T ss_pred HHHHHHhcCCCeEEEEEccCcccccccCCCeeEEEEc
Confidence 3444445556789999999999999999999999987
No 24
>PF03813 Nrap: Nrap protein; InterPro: IPR005554 Members of this family are nucleolar RNA-associated proteins (Nrap) which are highly conserved from yeast (Saccharomyces cerevisiae) to human. In the mouse, Nrap is ubiquitously expressed and is specifically localized in the nucleolus []. Nrap is a large nucleolar protein (of more than 1000 amino acids). Nrap appears to be associated with ribosome biogenesis by interacting with pre-rRNA primary transcript [].
Probab=96.93 E-value=0.15 Score=63.32 Aligned_cols=265 Identities=17% Similarity=0.187 Sum_probs=158.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhhC--CC--ceEEEecce--ecCCCCCC--------CCceEEEeecCCc--------c--c
Q 005380 392 EEEKAKQKKLLTLLEKLVCKEW--PD--ARLYLYGSC--ANSFGVSK--------SDIDVCLAINDSE--------I--N 447 (699)
Q Consensus 392 ~eE~~~R~~ll~~L~~iI~~~~--p~--a~V~~FGS~--aTGL~lp~--------SDIDLvL~~~~~~--------i--~ 447 (699)
.+....-.++++.|.+.|+..- |= ..|.+..+. .|.+.-|. --||++|..+.+. + .
T Consensus 498 ~~~~~~~~~af~~L~k~lr~L~~LPL~I~~v~p~sp~lRyts~~pp~p~~~~~~~~p~~vvl~fE~S~kWPddl~AI~~~ 577 (972)
T PF03813_consen 498 EESFQSVMRAFDELEKDLRSLEDLPLSITSVQPASPALRYTSVFPPVPHAVPRYIPPIEVVLQFESSGKWPDDLEAIQKT 577 (972)
T ss_pred hHHHHHHHHHHHHHHHHHhcCccCCcceeeeccCCHhhhcCCCCCCCCccccCCCCCEEEEEEEecCCCCCCCHHHHHHH
Confidence 3445566677788888887653 31 234554444 23333333 3688888876531 1 1
Q ss_pred hHHHHHHHHHHHhc-CC--CcceEEeeeeeece-----EEEecccCCeeEEEEEecc-----------------------
Q 005380 448 KSEVLLKLADILQS-DN--LQNVQALTRARVPI-----VKLMDPVTGISCDICINNL----------------------- 496 (699)
Q Consensus 448 k~e~L~kLa~iL~s-~~--~~~V~~I~~ARVPI-----IKf~d~~tgI~VDISfnn~----------------------- 496 (699)
|..++.+|++.|++ .+ +..-..+...-.++ +-+.. ..|+-+.+.+...
T Consensus 578 K~Af~lkiae~L~~~~~~~~~~~v~~~~~~~~~~~~~~ldV~~-~~G~~FRl~I~~~rE~~Ll~~~~~~~~~~~k~~~~~ 656 (972)
T PF03813_consen 578 KTAFLLKIAEELEKQYGDGIKARVGLDNSLSPIANQAFLDVLY-PEGYVFRLRIYHDREETLLKRQLKTEDGQLKQEATE 656 (972)
T ss_pred HHHHHHHHHHHHHHhhCCcceeeecccccccceeccceEEEEe-cCccEEEEEEecchhHHHHHHhhcccCcccchhhhH
Confidence 44578899999983 22 21101111111111 11111 1455554443321
Q ss_pred ----------hhhhhhHHHHHHhhcChhHHHHHHHHHHHHHhcCCCCccCCCCChHHHHHHHHHHhhhcCCCcccccccc
Q 005380 497 ----------LAVVNTKLLRDYAQIDVRLQQLAFIVKHWAKSRGVNVTYQGTLSSYAYVLMCIHFLQQRRPAILPCLQGM 566 (699)
Q Consensus 497 ----------~Gi~nT~LIr~y~~~dPr~r~LvllLK~Wak~rgLn~~~~GgLSSYaL~LMVI~FLQ~~~P~ILP~LQ~l 566 (699)
.....+..|+.+...+|.|-+-++++|.|+..+-| .+.++.-++-|||++.+-.-.|--.
T Consensus 657 ~~~~~~~~~~~~p~h~~~i~~l~~~~p~fs~tvRL~KrW~~shlL----s~~i~~E~vELlva~vfl~~~p~~~------ 726 (972)
T PF03813_consen 657 ALASLERRFIHLPKHTSAIHGLHTRFPSFSPTVRLAKRWLSSHLL----SGHISEEAVELLVASVFLSPAPWSP------ 726 (972)
T ss_pred HHHHHHHHHHhhHHHHHHHHHHHhhCCchhHHHHHHHHHHHhccC----cccCCHHHHHHHHHHHhcCCCCCCC------
Confidence 11134456777888999999999999999999977 4688999999999998765322111
Q ss_pred ccccceeecCcccccccchhhhcCCCCCCcccHHHHHHHHHHHhhcCCCCCCcEEEecCCccccccc-----cccc--cc
Q 005380 567 EKTYSVTVDDIECAYFDQVDKLHGFGSRNKESIGRLVWAFFNYWAYGHDYASNVISVRTGSTISKQE-----KDWT--RR 639 (699)
Q Consensus 567 ~~~~~~~vdd~~~~f~~~~e~l~~~g~~n~~SLgeLLl~FF~yYs~~FD~~~~vISIr~G~~isK~e-----k~w~--~~ 639 (699)
..|.-.=|+.|+++-+ .|||.+.-+-|....-++..+ ..+. |.
T Consensus 727 -----------------------------P~S~~~GFlRfL~lLs-~~dW~~~PLiVd~~~~l~~~~~~~i~~~f~~~R~ 776 (972)
T PF03813_consen 727 -----------------------------PSSPQTGFLRFLHLLS-TWDWREEPLIVDFNNELTEEDRAEIETNFDAWRK 776 (972)
T ss_pred -----------------------------CCCHhHHHHHHHHHHH-hCCCCcCCEEEECCCCCCHHHHHHHHHHHHHhhc
Confidence 1234467889999999 899998744333322222211 1111 11
Q ss_pred --CCCCCcceEEecCCCCCCCccc--cCCHhhHHHHHHHHHHHHHHhhcC---CCccccccccCC
Q 005380 640 --IGNDRHLICIEDPFEVTHDLGR--VVDKFSIKVLREEFERAAEIMQHD---PNPCVKLFEPYV 697 (699)
Q Consensus 640 --~g~~~~~L~IeDPfdp~~Nlgr--sVs~~~i~~Ir~eF~rA~~iL~~~---~n~~~~LfeP~~ 697 (699)
.......|+|-.|.|+.--... +-+..-+.+|+..-+.|+++|+.. ...+..||.|..
T Consensus 777 ~dp~~~~p~~~IaT~~D~~g~~wT~~~Ps~~v~~Rl~~LAk~sl~~l~~~~~~~~~~~~lF~~~l 841 (972)
T PF03813_consen 777 IDPAMNLPAMFIATPYDPEGSLWTRNGPSKVVAKRLTALAKASLKLLEEQGLSDLDWKSLFRPPL 841 (972)
T ss_pred cCccccCCcEEEEeCCCCCCCEeECCCCCHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHhcCCCc
Confidence 1123457999999997654322 445567789998889999999963 346778888753
No 25
>KOG2054 consensus Nucleolar RNA-associated protein (NRAP) [Function unknown]
Probab=95.96 E-value=0.06 Score=65.32 Aligned_cols=139 Identities=15% Similarity=0.235 Sum_probs=99.5
Q ss_pred hcChhHHHHHHHHHHHHHhcCCCCccCCCCChHHHHHHHHHHhhhcCCCccccccccccccceeecCcccccccchhhhc
Q 005380 510 QIDVRLQQLAFIVKHWAKSRGVNVTYQGTLSSYAYVLMCIHFLQQRRPAILPCLQGMEKTYSVTVDDIECAYFDQVDKLH 589 (699)
Q Consensus 510 ~~dPr~r~LvllLK~Wak~rgLn~~~~GgLSSYaL~LMVI~FLQ~~~P~ILP~LQ~l~~~~~~~vdd~~~~f~~~~e~l~ 589 (699)
+..+.|+..+.++|.|+++|.+.. ..|||+++-|+++|++.+... +|
T Consensus 305 s~~~~f~da~~Llk~WlrqRs~~~-~~~gfg~f~~s~lvv~L~s~~---ki----------------------------- 351 (1121)
T KOG2054|consen 305 SSAKGFKDALALLKVWLRQRSLDI-GQGGFGGFLLSALVVYLVSTR---KI----------------------------- 351 (1121)
T ss_pred hhhhhHHHHHHHHHHHHHhhhhhc-ccCcchHHHHHHHHHHHHhcC---ch-----------------------------
Confidence 456789999999999999995532 468999999999988876653 11
Q ss_pred CCCCCCcccHHHHHHHHHHHhhcCCCCCCcEEEecCCccccccc-ccccccCCCCCcceEEecCCCCCCCccccCCHhhH
Q 005380 590 GFGSRNKESIGRLVWAFFNYWAYGHDYASNVISVRTGSTISKQE-KDWTRRIGNDRHLICIEDPFEVTHDLGRVVDKFSI 668 (699)
Q Consensus 590 ~~g~~n~~SLgeLLl~FF~yYs~~FD~~~~vISIr~G~~isK~e-k~w~~~~g~~~~~L~IeDPfdp~~NlgrsVs~~~i 668 (699)
....|.-+++..-++|.+ .+|+..+.|++.... .+-.+ .++. . .+..++.|--- ..|+...++...+
T Consensus 352 ----~~~~S~yqvfR~vl~fla-t~dlt~~~~~l~~~~-~s~~~~~~f~----e-~~~~~f~D~s~-~~NLc~~mt~s~y 419 (1121)
T KOG2054|consen 352 ----HTTLSAYQVFRSVLQFLA-TTDLTVNGISLVPSS-PSLPALADFH----E-GQLVTFIDSSG-HLNLCANMTASTY 419 (1121)
T ss_pred ----hhcchHHHHHHHHHHHHh-hhhhhccceEeccCC-CCchhhhhhh----h-cceeeEeccCC-cchhhhhccHHHH
Confidence 112356689999999999 899999888876532 11111 1111 1 13466666433 6899999999999
Q ss_pred HHHHHHHHHHHHHhhcC-CCcccccc
Q 005380 669 KVLREEFERAAEIMQHD-PNPCVKLF 693 (699)
Q Consensus 669 ~~Ir~eF~rA~~iL~~~-~n~~~~Lf 693 (699)
++++++.+-++.+|.+. .+.+..+|
T Consensus 420 ~~~q~ea~ltl~lL~~~~~~~F~~IF 445 (1121)
T KOG2054|consen 420 EQVQEEARLTLMLLDSRADDGFSLIF 445 (1121)
T ss_pred HHHHHHHHHHHHHHhhhhhcCcceee
Confidence 99999999999999974 23444444
No 26
>PRK13746 aminoglycoside resistance protein; Provisional
Probab=95.75 E-value=0.032 Score=59.21 Aligned_cols=43 Identities=21% Similarity=0.250 Sum_probs=34.0
Q ss_pred HHHHHHHHHhhCCC--ceEEEecceecCCCCCCCCceEEEeecCC
Q 005380 402 LTLLEKLVCKEWPD--ARLYLYGSCANSFGVSKSDIDVCLAINDS 444 (699)
Q Consensus 402 l~~L~~iI~~~~p~--a~V~~FGS~aTGL~lp~SDIDLvL~~~~~ 444 (699)
++.+..+++...++ ..|++|||++.|-+-|.|||||.|++...
T Consensus 13 l~~~~~~l~~~l~~~l~~vyLfGS~~~G~~~p~SDIDllvvv~~~ 57 (262)
T PRK13746 13 LSEACAVIERHLEPTLLAIHLYGSAVDGGLKPHSDIDLLVTVAVP 57 (262)
T ss_pred HHHHHHHHHHhCcccEEEEEEECCcccCCCCCCCceeEEEEeCCC
Confidence 44455666666664 37999999999999999999999988653
No 27
>PF14091 DUF4269: Domain of unknown function (DUF4269)
Probab=95.72 E-value=0.18 Score=49.45 Aligned_cols=112 Identities=14% Similarity=0.125 Sum_probs=74.5
Q ss_pred eEEEecceecCCCCCCCCceEEEeecCCccchHHHHHHHHHHHhcCCCcceEEeeeeeeceEEEecccCCeeEEEEE---
Q 005380 417 RLYLYGSCANSFGVSKSDIDVCLAINDSEINKSEVLLKLADILQSDNLQNVQALTRARVPIVKLMDPVTGISCDICI--- 493 (699)
Q Consensus 417 ~V~~FGS~aTGL~lp~SDIDLvL~~~~~~i~k~e~L~kLa~iL~s~~~~~V~~I~~ARVPIIKf~d~~tgI~VDISf--- 493 (699)
.-.+.|....|+..++|||||++..+. ...+...+.+...+..-.++..-.-...|.+.+.....|..+.|-.
T Consensus 17 ~PiL~GTiPi~Idi~~SDLDIic~~~d----~~~F~~~l~~~f~~~~~f~~~~~~i~~~~~~~~~F~~~~~~~EiF~Q~~ 92 (152)
T PF14091_consen 17 DPILVGTIPIGIDIPGSDLDIICEVPD----PEAFEQLLQSLFGQFEGFTIKEKTIRGEPSIVANFRYEGFPFEIFGQPI 92 (152)
T ss_pred CCEEecccccccCCCCCCccEEEEeCC----HHHHHHHHHHHhccCCCceeeeceeCCceeEEEEEEECCceEEEeecCC
Confidence 556789999999999999999988753 3334444554444321112221222334544444447788888865
Q ss_pred --ecchhhhhhHHHHHHhhcC-hhHHHHHHHHH--------HHHHhcCCC
Q 005380 494 --NNLLAVVNTKLLRDYAQID-VRLQQLAFIVK--------HWAKSRGVN 532 (699)
Q Consensus 494 --nn~~Gi~nT~LIr~y~~~d-Pr~r~LvllLK--------~Wak~rgLn 532 (699)
...+|++.-.+-..+.... |.||.=++-+| +||+..||.
T Consensus 93 Pv~~QnayrHm~iE~rLL~~~g~~~r~~Ii~LK~~GlKTEPAFa~lLgL~ 142 (152)
T PF14091_consen 93 PVEEQNAYRHMLIEHRLLELHGPSFREEIIELKESGLKTEPAFAKLLGLE 142 (152)
T ss_pred ChhhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHcCCcchHHHHHHhCCC
Confidence 3457888888877777777 99999999998 466666665
No 28
>KOG3793 consensus Transcription factor NFAT, subunit NF45 [Transcription]
Probab=94.97 E-value=0.89 Score=48.39 Aligned_cols=68 Identities=16% Similarity=0.257 Sum_probs=52.7
Q ss_pred hccHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhhC-CC------ceEEEecceecCCCCCCCCc-eEEEeecC
Q 005380 376 RLNAPFLAIYESLIPAEEEKAKQKKLLTLLEKLVCKEW-PD------ARLYLYGSCANSFGVSKSDI-DVCLAIND 443 (699)
Q Consensus 376 ~L~~eI~~f~~~l~PT~eE~~~R~~ll~~L~~iI~~~~-p~------a~V~~FGS~aTGL~lp~SDI-DLvL~~~~ 443 (699)
.|+++|.+=-..+.|+.+|+..-..++.++..++.+.. |+ ..|.-.||+.+|+.+.++|+ |+||....
T Consensus 40 ~f~~alLkRnqdL~P~~~~q~~I~~~vtKV~~vLdn~~~~~L~~~~ieevrqVGSF~k~T~~tg~~~advVViLkT 115 (362)
T KOG3793|consen 40 SFSEALLKRNQDLAPNSAEQASILSLVTKVNNVLDNLVAPGLFEVQIEEVRQVGSFKKGTMTTGHNVADLVVILKT 115 (362)
T ss_pred HHHHHHHhhhccCCCCHHHHHHHHHHHHHHHHHHHhhccCCceEeehhhhhhccceeccccccCCcccceEEEeec
Confidence 47788888888899999999888888888888887653 22 35778899999999887765 67666544
No 29
>PF14792 DNA_pol_B_palm: DNA polymerase beta palm ; PDB: 1RZT_A 3PML_A 2PFN_A 3HX0_K 3HWT_A 2GWS_E 2BCQ_A 3UPQ_A 2BCS_A 3UQ2_A ....
Probab=92.94 E-value=0.21 Score=46.47 Aligned_cols=65 Identities=20% Similarity=0.243 Sum_probs=49.2
Q ss_pred HHHHHHHHHHHHhhCCCceEEEecceecCCCCCCCCceEEEeecCCccc---hHHHHHHHHHHHhcCCC
Q 005380 399 KKLLTLLEKLVCKEWPDARLYLYGSCANSFGVSKSDIDVCLAINDSEIN---KSEVLLKLADILQSDNL 464 (699)
Q Consensus 399 ~~ll~~L~~iI~~~~p~a~V~~FGS~aTGL~lp~SDIDLvL~~~~~~i~---k~e~L~kLa~iL~s~~~ 464 (699)
+++.+.|++.+++..|++.+.+-|||.-|-...+ |||++|..+..... ...++.++...|.+.++
T Consensus 8 ~~i~~~V~~~~~~i~p~~~v~i~GSyRRGK~~~g-DiDiLIt~~~~~~~~~~~~~~l~~lv~~L~~~g~ 75 (112)
T PF14792_consen 8 EEIEEIVKEALEKIDPGLEVEICGSYRRGKETSG-DIDILITHPDPSSVSKKLEGLLEKLVKRLEEKGF 75 (112)
T ss_dssp HHHHHHHHHHHHCCSTT-EEEEEHHHHTT-SEES-SEEEEEEETTCSTTTCSTTCHHHHHHHHHHHTTS
T ss_pred HHHHHHHHHHHHhcCCCcEEEEccccccCCCcCC-CeEEEEeCCCcCcchhhHHHHHHHHHHHHHhCCe
Confidence 4566777788888999999999999999877654 99999988764432 24578888888887664
No 30
>KOG2054 consensus Nucleolar RNA-associated protein (NRAP) [Function unknown]
Probab=91.06 E-value=6.5 Score=48.68 Aligned_cols=141 Identities=13% Similarity=0.239 Sum_probs=86.9
Q ss_pred hhHHHHHHhhcChhHHHHHHHHHHHHHhcCCCCccCCCCChHHHHHHHHHHhhhcCCCccccccccccccceeecCcccc
Q 005380 501 NTKLLRDYAQIDVRLQQLAFIVKHWAKSRGVNVTYQGTLSSYAYVLMCIHFLQQRRPAILPCLQGMEKTYSVTVDDIECA 580 (699)
Q Consensus 501 nT~LIr~y~~~dPr~r~LvllLK~Wak~rgLn~~~~GgLSSYaL~LMVI~FLQ~~~P~ILP~LQ~l~~~~~~~vdd~~~~ 580 (699)
.|..|+.+.+.++.+-..|++.|.|+..+=|. |++-=-++-|+|++.++...|...|.
T Consensus 807 ht~aL~~l~qsh~~ys~vvrLaKrWl~shLL~----~h~~De~iELLva~lf~~p~p~~~ps------------------ 864 (1121)
T KOG2054|consen 807 HTLALQSLSQSHPFYSSVVRLAKRWLGSHLLS----GHHLDEAIELLVAALFLKPGPLVPPS------------------ 864 (1121)
T ss_pred HHHHHHHHhhcccchhHHHHHHHHHHHHHhhc----cchHHHHHHHHHHHHhcCccCCCCCC------------------
Confidence 34456778889999999999999999998765 45557899999999888864433332
Q ss_pred cccchhhhcCCCCCCcccHHHHHHHHHHHhhcCCCCCCc--EEEecCCccccccc-----ccccccCCCCCcceEEecCC
Q 005380 581 YFDQVDKLHGFGSRNKESIGRLVWAFFNYWAYGHDYASN--VISVRTGSTISKQE-----KDWTRRIGNDRHLICIEDPF 653 (699)
Q Consensus 581 f~~~~e~l~~~g~~n~~SLgeLLl~FF~yYs~~FD~~~~--vISIr~G~~isK~e-----k~w~~~~g~~~~~L~IeDPf 653 (699)
|.-.=++.|+.+-+ +|||..+ +|.+.++ ++..+ ..+.. ....-..|.|..|+
T Consensus 865 -----------------S~~~gFlRfL~llS-~~dW~~~PLIvd~nn~--~~ed~~~e~~e~f~s-~R~~lp~m~vit~y 923 (1121)
T KOG2054|consen 865 -----------------SPENGFLRFLSLLS-TWDWKFDPLIVDFNNG--FPEDERSELEEKFIS-ARKQLPPMVVITPY 923 (1121)
T ss_pred -----------------CcchhHHHHHHHHh-cCcccCCceEEEcCCC--CcHHHHHHHHHHHhh-hcccCCceEEeecc
Confidence 12234788999999 8999877 4455432 11111 11100 00112369999999
Q ss_pred CCCCC-ccccCCHhh--HHHHHHHHHHHHHHhhcC
Q 005380 654 EVTHD-LGRVVDKFS--IKVLREEFERAAEIMQHD 685 (699)
Q Consensus 654 dp~~N-lgrsVs~~~--i~~Ir~eF~rA~~iL~~~ 685 (699)
|-.++ .++- +... ..++...-+.+..+|.++
T Consensus 924 D~~~~~~t~~-~P~~~v~~r~~alar~sl~ll~k~ 957 (1121)
T KOG2054|consen 924 DHLGSKFTRT-SPNQIVLNRLVALARESLKLLEKQ 957 (1121)
T ss_pred cccccccccc-CchHHHHHHHHHhhhhhHHhhccc
Confidence 96443 2222 2222 234444445566666663
No 31
>PRK02098 phosphoribosyl-dephospho-CoA transferase; Provisional
Probab=88.44 E-value=1.1 Score=46.69 Aligned_cols=40 Identities=23% Similarity=0.287 Sum_probs=29.7
Q ss_pred HHHHHHHHHhhCCCceEEEeccee----cCC--CCCCCCceEEEeecC
Q 005380 402 LTLLEKLVCKEWPDARLYLYGSCA----NSF--GVSKSDIDVCLAIND 443 (699)
Q Consensus 402 l~~L~~iI~~~~p~a~V~~FGS~a----TGL--~lp~SDIDLvL~~~~ 443 (699)
++.|..+... -++.+.+|||++ ||+ -.++|||||+|..+.
T Consensus 109 l~~l~~~~~~--~g~~~gv~GS~a~qlaTG~~~l~~~SDLDLLi~~~~ 154 (221)
T PRK02098 109 LRALLALAAA--HGVDCRVFGSLAWQALTGLPYLSASSDLDLLWPLPA 154 (221)
T ss_pred HHHHHHHHHh--CCCcEEEeeehHHHHhhCCcccCCCCCeeEEEecCC
Confidence 3444444443 246999999999 999 778999999887653
No 32
>TIGR03135 malonate_mdcG holo-ACP synthase, malonate decarboxylase-specific. Malonate decarboxylase, like citrate lyase, has a unique acyl carrier protein subunit with a prosthetic group derived from, and distinct from, coenzyme A. Members of this protein family are the phosphoribosyl-dephospho-CoA transferase specific to the malonate decarboxylase system. This enzyme can also be designated holo-ACP synthase (2.7.7.61). The corresponding component of the citrate lyase system, CitX, shows little or no sequence similarity to this family.
Probab=88.10 E-value=1.2 Score=45.77 Aligned_cols=29 Identities=24% Similarity=0.311 Sum_probs=25.1
Q ss_pred CceEEEecce----ecCC--CCCCCCceEEEeecC
Q 005380 415 DARLYLYGSC----ANSF--GVSKSDIDVCLAIND 443 (699)
Q Consensus 415 ~a~V~~FGS~----aTGL--~lp~SDIDLvL~~~~ 443 (699)
++.+.+|||+ +||+ -.++|||||+|..+.
T Consensus 108 ~~~~gv~GS~~~qlaTg~~~~~~~SDLDLLi~~~~ 142 (202)
T TIGR03135 108 GVPWGVYGSAGWQLLTGLPYLHASSDLDLLLRAPS 142 (202)
T ss_pred CCcEEEecchHHHHhcCCcccCCCCCeeEEEcCCC
Confidence 4699999999 9999 778999999887653
No 33
>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=87.69 E-value=7.6 Score=42.18 Aligned_cols=126 Identities=19% Similarity=0.194 Sum_probs=70.5
Q ss_pred HHHHHHHHHHHHhhCCCceEEEecceecCCCCCCCCceEEEeecCCccchHHHHHHHHHHHhcCCC-cceE--Eeeeeee
Q 005380 399 KKLLTLLEKLVCKEWPDARLYLYGSCANSFGVSKSDIDVCLAINDSEINKSEVLLKLADILQSDNL-QNVQ--ALTRARV 475 (699)
Q Consensus 399 ~~ll~~L~~iI~~~~p~a~V~~FGS~aTGL~lp~SDIDLvL~~~~~~i~k~e~L~kLa~iL~s~~~-~~V~--~I~~ARV 475 (699)
..+.+.|...++..-+.+++.+-||+.-|..+ .+||||+|..+... ....+.++...|...++ ..+. -....++
T Consensus 144 ~~~a~~i~~~l~~~~~~~~v~i~GS~RRg~et-~gDiDilv~~~~~~--~~~~~~~v~~~l~~~~~~~~~~~~g~~k~~~ 220 (307)
T cd00141 144 LAIAEIIKEALREVDPVLQVEIAGSYRRGKET-VGDIDILVTHPDAT--SRGLLEKVVDALVELGFVTEVLSKGDTKASG 220 (307)
T ss_pred HHHHHHHHHHHHhCCCceEEEEcccccCCCCc-cCCEEEEEecCCcc--ccccHHHHHHHHHhCCCeehhhhCCCceEEE
Confidence 34566666677777788999999999877654 56999998765421 13344555555554332 1110 0011111
Q ss_pred ceEEEecccCCeeEEEEEecchhhhhhHHHHHHhhcChhHHHHHHHHHHHHHhcCCCCc
Q 005380 476 PIVKLMDPVTGISCDICINNLLAVVNTKLLRDYAQIDVRLQQLAFIVKHWAKSRGVNVT 534 (699)
Q Consensus 476 PIIKf~d~~tgI~VDISfnn~~Gi~nT~LIr~y~~~dPr~r~LvllLK~Wak~rgLn~~ 534 (699)
+++.-+...++.|||-+........+-+--+ -=+...+.++.||+++|..=+
T Consensus 221 -~~~~~~~~~~~rVDl~~~p~~~~~~all~fT------Gs~~~nr~lR~~A~~~G~~L~ 272 (307)
T cd00141 221 -ILKLPGGWKGRRVDLRVVPPEEFGAALLYFT------GSKQFNRALRRLAKEKGLKLN 272 (307)
T ss_pred -EEecCCCCCceEEEEEEeCHHHHHHHHHHhh------CCHHHHHHHHHHHHHcCCeee
Confidence 1122123358999998876544333322211 112334455999998887543
No 34
>cd05401 NT_GlnE_GlnD_like Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins. Escherichia coli GlnD and -E participate in the Glutamine synthetase (GS)/Glutamate synthase (GOGAT) pathway for the assimilation of ammonium nitrogen. In nitrogen sufficiency, GlnE adenylates GS, reducing GS activity; when nitrogen is limiting, GlnE deadenylates GS-AMP, restoring GS activity. When nitrogen is limiting, GlnD uridylylates the nitrogen regulatory protein PII to PII-UTP, and in nitrogen sufficiency, it removes the modifying groups. The activity of Escherichia coli GlnE is modulated by PII-proteins. PII-UMP promotes GlnE deadenylation activity, and PII promotes GlnE adenylation activity. Escherichia coli GlnE has two separate NT domains. The N-terminal NT domain catalyzes the deadenylylation of GS, and the C-terminal NT domain the adenylylation reaction. The majority of proteins in this family conta
Probab=79.87 E-value=7.6 Score=37.98 Aligned_cols=30 Identities=27% Similarity=0.204 Sum_probs=26.6
Q ss_pred CceEEEecceecCCCCCCCCceEEEeecCC
Q 005380 415 DARLYLYGSCANSFGVSKSDIDVCLAINDS 444 (699)
Q Consensus 415 ~a~V~~FGS~aTGL~lp~SDIDLvL~~~~~ 444 (699)
..-+..+||+..+=..+.||+|+.++.+..
T Consensus 55 ~~~~la~Gs~GR~E~~~~SD~D~~~v~~~~ 84 (172)
T cd05401 55 PFALLALGSYGRGELNPSSDQDLLLLYDDD 84 (172)
T ss_pred cEEEEEeCCcccCCcCCCcCcceEEEeCCC
Confidence 467999999999999999999999988653
No 35
>COG2413 Predicted nucleotidyltransferase [General function prediction only]
Probab=73.47 E-value=13 Score=38.60 Aligned_cols=45 Identities=27% Similarity=0.247 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHHHHhhCCCceEEEecceecCCCCCCCCceEEEeecC
Q 005380 396 AKQKKLLTLLEKLVCKEWPDARLYLYGSCANSFGVSKSDIDVCLAIND 443 (699)
Q Consensus 396 ~~R~~ll~~L~~iI~~~~p~a~V~~FGS~aTGL~lp~SDIDLvL~~~~ 443 (699)
.+|+++...++.+.... ..-+.|||.+-|=-.|+||+||+|..+-
T Consensus 21 ekRe~A~~i~e~l~~f~---ie~~v~gSvarGDV~p~SDvDV~I~~~v 65 (228)
T COG2413 21 EKREKARKIMEGLSDFG---IEAVVYGSVARGDVRPGSDVDVAIPEPV 65 (228)
T ss_pred HHHHHHHHHHHHHHHhc---chhEEEeeeeccCcCCCCCceEEEecCC
Confidence 45566665555554432 3567899999999999999999987643
No 36
>smart00483 POLXc DNA polymerase X family. includes vertebrate polymerase beta and terminal deoxynucleotidyltransferases
Probab=73.31 E-value=39 Score=37.22 Aligned_cols=44 Identities=23% Similarity=0.236 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHHhhCCCceEEEecceecCCCCCCCCceEEEeecC
Q 005380 399 KKLLTLLEKLVCKEWPDARLYLYGSCANSFGVSKSDIDVCLAIND 443 (699)
Q Consensus 399 ~~ll~~L~~iI~~~~p~a~V~~FGS~aTGL~lp~SDIDLvL~~~~ 443 (699)
..+.+.|...++...|.+.|.+-|||.-|..+ ..||||+|..+.
T Consensus 148 ~~i~~~i~~~l~~~~~~~~v~i~GSyRRgket-~gDIDili~~~~ 191 (334)
T smart00483 148 FAVEYIVKRAVRKILPDAIVTLTGSFRRGKET-GHDVDFLITSPH 191 (334)
T ss_pred HHHHHHHHHHHHhhCCCcEEEEecccccCCCc-CCCeeEEEecCC
Confidence 45667777777888889999999999987654 469999997755
No 37
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=72.95 E-value=12 Score=45.42 Aligned_cols=14 Identities=36% Similarity=0.446 Sum_probs=8.0
Q ss_pred hHHHHHHHHHHHhc
Q 005380 448 KSEVLLKLADILQS 461 (699)
Q Consensus 448 k~e~L~kLa~iL~s 461 (699)
+..+|..|+++.++
T Consensus 860 k~TLLHfLae~~e~ 873 (1102)
T KOG1924|consen 860 KTTLLHFLAEICEE 873 (1102)
T ss_pred hhHHHHHHHHHHHH
Confidence 44456666666654
No 38
>PF10127 Nuc-transf: Predicted nucleotidyltransferase; InterPro: IPR018775 Proteins in this entry are predicted to catalyse the transfer of nucleotide residues from nucleoside diphosphates or triphosphates into dimer or polymer forms.
Probab=70.99 E-value=4 Score=42.62 Aligned_cols=43 Identities=21% Similarity=0.113 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHhhCCC-ceEEEecceecCCCCCCCCceEEEee
Q 005380 399 KKLLTLLEKLVCKEWPD-ARLYLYGSCANSFGVSKSDIDVCLAI 441 (699)
Q Consensus 399 ~~ll~~L~~iI~~~~p~-a~V~~FGS~aTGL~lp~SDIDLvL~~ 441 (699)
..|.+.|+++-++.-.. +-+...||.+-|+..++||.|+..++
T Consensus 3 ~~i~~~l~~ie~~~~~~il~~~~sGS~a~G~~s~dSD~D~r~vy 46 (247)
T PF10127_consen 3 ETIQEKLNEIEKEHNVKILYACESGSRAYGFASPDSDYDVRGVY 46 (247)
T ss_pred hHHHHHHHHHHHhcCCcEEEEecccccccCCCCCCcCcccchhc
Confidence 45666666666654222 34667899999999999999976654
No 39
>KOG2534 consensus DNA polymerase IV (family X) [Replication, recombination and repair]
Probab=70.97 E-value=16 Score=40.09 Aligned_cols=64 Identities=17% Similarity=0.178 Sum_probs=47.6
Q ss_pred HHHHHHHHHHHHhhCCCceEEEecceecCCCCCCCCceEEEeecCCccchHHHHHHHHHHHhcCC
Q 005380 399 KKLLTLLEKLVCKEWPDARLYLYGSCANSFGVSKSDIDVCLAINDSEINKSEVLLKLADILQSDN 463 (699)
Q Consensus 399 ~~ll~~L~~iI~~~~p~a~V~~FGS~aTGL~lp~SDIDLvL~~~~~~i~k~e~L~kLa~iL~s~~ 463 (699)
..+.+.|++.+....|++.|.+-|||.-|-. ...|||++|..|....+...++..|...+.+.+
T Consensus 155 ~~i~~~V~~av~~~~p~~~vt~~GsfRRGk~-~ggDvD~LithP~~~s~~~~~~~~l~~~le~~g 218 (353)
T KOG2534|consen 155 TAIQQTVQEAVWAFDPEAFVTVTGSFRRGKK-MGGDVDFLITHPGSTSTEAKLLQLLMILLEKKG 218 (353)
T ss_pred HHHHHHHHHHHhhcCCCcEEEEeccccCCcc-cCCCeeEEEeCCCCCchhhhHHHHHHHHHHhcC
Confidence 3556677788888889999999999998854 467999999877654445556666666666554
No 40
>PF10620 MdcG: Phosphoribosyl-dephospho-CoA transferase MdcG; InterPro: IPR017557 Malonate decarboxylase, like citrate lyase, has a unique acyl carrier protein subunit with a prosthetic group derived from, and distinct from, coenzyme A. Members of this protein family are the phosphoribosyl-dephospho-CoA transferase specific to the malonate decarboxylase system. This enzyme can also be designated holo-ACP synthase (2.7.7.61 from EC). The corresponding component of the citrate lyase system, CitX, shows little or no sequence similarity to this family.; GO: 0016779 nucleotidyltransferase activity
Probab=70.43 E-value=13 Score=38.34 Aligned_cols=42 Identities=24% Similarity=0.240 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHhhCCCceEEEeccee----cCC--CCCCCCceEEEeecC
Q 005380 400 KLLTLLEKLVCKEWPDARLYLYGSCA----NSF--GVSKSDIDVCLAIND 443 (699)
Q Consensus 400 ~ll~~L~~iI~~~~p~a~V~~FGS~a----TGL--~lp~SDIDLvL~~~~ 443 (699)
..+..|..... .-++...+|||+. ||+ -.++|||||+|..+.
T Consensus 103 ~~l~~l~~~~~--~~~~~~gv~GS~g~qlaTGl~~l~~~SDLDLli~~~~ 150 (213)
T PF10620_consen 103 PALQALRALLD--ALGLRWGVYGSLGFQLATGLPYLHADSDLDLLIRPPS 150 (213)
T ss_pred HHHHHHHHHHH--HcCCCEEEehhHHHHHHhCccccCCCCCceEEEeCCC
Confidence 34555555542 2378999999975 666 346899999887654
No 41
>PF03445 DUF294: Putative nucleotidyltransferase DUF294; InterPro: IPR005105 This domain is found associated with an N-terminal cyclic nucleotide-binding domain (IPR000595 from INTERPRO) and two CBS domains (IPR000644 from INTERPRO). This domain, normally represents the C-terminal region, is uncharacterised; however, it seems to be similar to the nucleotidyltransferase domain (IPR002934 from INTERPRO), conserving the DXD motif, which strongly suggests that proteins containing this domain are also nucleotidyltransferases.; GO: 0008773 [protein-PII] uridylyltransferase activity
Probab=68.91 E-value=17 Score=34.92 Aligned_cols=49 Identities=22% Similarity=0.163 Sum_probs=34.4
Q ss_pred CceEEEecceecCCCCCCCCceEEEeecCCc-cchHHHHHHHH----HHHhcCC
Q 005380 415 DARLYLYGSCANSFGVSKSDIDVCLAINDSE-INKSEVLLKLA----DILQSDN 463 (699)
Q Consensus 415 ~a~V~~FGS~aTGL~lp~SDIDLvL~~~~~~-i~k~e~L~kLa----~iL~s~~ 463 (699)
..-+..+||+.-+=.++.||+|..|+..... ......+..++ ..|...+
T Consensus 49 ~~a~lalGS~GR~E~~~~sDqD~alv~~d~~~~~~~~~f~~~a~~~~~~L~~~G 102 (138)
T PF03445_consen 49 PFAWLALGSYGRREQTLYSDQDNALVFEDEESEEDRAYFEAFAERLVDALDECG 102 (138)
T ss_pred CEEEEEECcccccCCCcCccccceeeecCccchhHHHHHHHHHHHHHHHHHHcC
Confidence 5678999999999999999999999887621 12334444444 4444444
No 42
>KOG1923 consensus Rac1 GTPase effector FRL [Signal transduction mechanisms; Cytoskeleton]
Probab=65.45 E-value=21 Score=43.17 Aligned_cols=40 Identities=23% Similarity=0.200 Sum_probs=27.1
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCchhhhhhh
Q 005380 63 PQWPSNGCDLPPTWPRTPLPLNFLGFPQNPWASSSTENQQQRL 105 (699)
Q Consensus 63 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 105 (699)
|..++|+.-.+|.=|++ |-.+++|+.|-|+|+.-+++..+
T Consensus 317 ~~ln~~~s~~~p~pp~~---p~l~~~~espvpp~~~~~~~a~~ 356 (830)
T KOG1923|consen 317 GPLNSNLSSGAPQPPGV---PFLLTFPESPVPPPQRLMIPAEL 356 (830)
T ss_pred CCCCCCCcCCCCCCCCC---CcccCCCCCCCCCCcccccchHh
Confidence 56667777555444433 66679999998888876666553
No 43
>PF04229 GrpB: GrpB protein; InterPro: IPR007344 This family of uncharacterised proteins is also known as GrpB.; PDB: 2NRK_A.
Probab=63.40 E-value=34 Score=33.83 Aligned_cols=105 Identities=17% Similarity=0.123 Sum_probs=57.0
Q ss_pred ceEEEecceec-CCCCCCCCceEEEeecCCccchHHHHHHHHHHHhcCCCcceEEeeeeeec----eEE-EecccCCeeE
Q 005380 416 ARLYLYGSCAN-SFGVSKSDIDVCLAINDSEINKSEVLLKLADILQSDNLQNVQALTRARVP----IVK-LMDPVTGISC 489 (699)
Q Consensus 416 a~V~~FGS~aT-GL~lp~SDIDLvL~~~~~~i~k~e~L~kLa~iL~s~~~~~V~~I~~ARVP----IIK-f~d~~tgI~V 489 (699)
+.|.=+||++. |+.-+ -.|||.|.++..... ..+...|...++..+ .....+| ..| ..+....+.+
T Consensus 33 ~~IeHIGSTsVpgl~AK-piIDI~v~V~~~~~~-----~~~~~~L~~~Gy~~~--~~~~~~~~~~~f~k~~~~~~~~~hl 104 (167)
T PF04229_consen 33 LRIEHIGSTSVPGLAAK-PIIDILVGVEDLEDL-----DAYIEALEALGYVYN--RGEPGIPGRRFFRKGDEDGERTHHL 104 (167)
T ss_dssp EEEEEESGGGSTT--B--S-EEEEEEES-SGGG-----GGGHHHHHHTT-EE----TTTTSTTEEEEEE---SSS--EEE
T ss_pred hEEEEeccceeCCcccC-CeeeEEeccCChHHH-----HHHHHHHHHcCCEec--CCCCCCccceeeEccCCCCCccEEE
Confidence 47999999986 55444 488888877653211 122334444333221 0112222 122 1222334556
Q ss_pred EEEEecchhhhhhHHHHHHhhcChhHHHHHHHHHHHHHh
Q 005380 490 DICINNLLAVVNTKLLRDYAQIDVRLQQLAFIVKHWAKS 528 (699)
Q Consensus 490 DISfnn~~Gi~nT~LIr~y~~~dPr~r~LvllLK~Wak~ 528 (699)
-|+..+.......-+++.|+..+|..+.-.--+|.=+.+
T Consensus 105 hv~~~~~~~~~~~l~FRDyLr~~p~~~~~Y~~lK~~la~ 143 (167)
T PF04229_consen 105 HVCPAGSPEWRRHLLFRDYLRAHPELRREYEALKRELAK 143 (167)
T ss_dssp EEEETT-HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHT
T ss_pred EEEeCCCHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHH
Confidence 666665556778888999999999999999999986553
No 44
>PRK05007 PII uridylyl-transferase; Provisional
Probab=58.58 E-value=45 Score=41.56 Aligned_cols=29 Identities=24% Similarity=0.182 Sum_probs=26.3
Q ss_pred CceEEEecceecCCCCCCCCceEEEeecC
Q 005380 415 DARLYLYGSCANSFGVSKSDIDVCLAIND 443 (699)
Q Consensus 415 ~a~V~~FGS~aTGL~lp~SDIDLvL~~~~ 443 (699)
.+.|...|+|.-|--.|.|||||+++.+.
T Consensus 80 ~~alvAvGgyGR~EL~p~SDiDll~l~~~ 108 (884)
T PRK05007 80 DLALVAVGGYGRGELHPLSDIDLLILSRK 108 (884)
T ss_pred ceEEEecCCCCCcccCCcccceEEEEeCC
Confidence 46899999999999999999999999874
No 45
>PRK00227 glnD PII uridylyl-transferase; Provisional
Probab=57.96 E-value=37 Score=41.18 Aligned_cols=65 Identities=17% Similarity=0.044 Sum_probs=45.7
Q ss_pred HHHHHHHHHHHHHHHhh-CC-CceEEEecceecCCCCCCCCceEEEeecCCccchHHHHHHHHHHHhcC
Q 005380 396 AKQKKLLTLLEKLVCKE-WP-DARLYLYGSCANSFGVSKSDIDVCLAINDSEINKSEVLLKLADILQSD 462 (699)
Q Consensus 396 ~~R~~ll~~L~~iI~~~-~p-~a~V~~FGS~aTGL~lp~SDIDLvL~~~~~~i~k~e~L~kLa~iL~s~ 462 (699)
+.|+.+...-..+++.. +| ++.|...|+|.-|--.|.|||||.|+.+... . .+.+..+-..|...
T Consensus 6 ~~~~~~~~~~~~~~~~~~~~~~~aLvAvGGYGR~EL~P~SDIDLLiL~~~~~-~-~~~i~~~~~~LWD~ 72 (693)
T PRK00227 6 QLREDAEASALALLGSLQLPPGTALAATGSLARREMTPYSDLDLILLHPPGA-T-PDGVEDLWYPIWDA 72 (693)
T ss_pred HHHHHHHHHHHHHHHhcCCCCCeEEEEeccccccCcCCCcCceEEEEeCCcc-c-HHHHHHHHHHHHhc
Confidence 34666666666666654 33 5789999999999999999999999987432 2 45555555555543
No 46
>PRK01293 phosphoribosyl-dephospho-CoA transferase; Provisional
Probab=57.71 E-value=31 Score=35.77 Aligned_cols=41 Identities=20% Similarity=0.173 Sum_probs=27.7
Q ss_pred HHHHHHHHHHhhCCCceEEEeccee----cCC--CCCCCCceEEEeecC
Q 005380 401 LLTLLEKLVCKEWPDARLYLYGSCA----NSF--GVSKSDIDVCLAIND 443 (699)
Q Consensus 401 ll~~L~~iI~~~~p~a~V~~FGS~a----TGL--~lp~SDIDLvL~~~~ 443 (699)
.++.|..+.... ....-+|||.. ||+ ..++|||||+|..+.
T Consensus 97 al~~l~~~~~~~--~~~wgv~GS~g~qlaTGl~~l~~~SDLDLlir~~~ 143 (207)
T PRK01293 97 ALQALAALLDAL--GLAWGVTGSAGFELATGIPVLHADSDLDLLIRAPQ 143 (207)
T ss_pred HHHHHHHHHHhC--CCceeeehhHHHHHhhCCccccCCCCccEeecCCC
Confidence 344444444442 67889999986 555 346899999887654
No 47
>PRK04374 PII uridylyl-transferase; Provisional
Probab=57.08 E-value=51 Score=41.06 Aligned_cols=88 Identities=14% Similarity=0.149 Sum_probs=49.9
Q ss_pred hhhccHHHHHHHHHcCCCHHHHHHHHHHHHH-HHHHHHhhCC---CceEEEecceecCCCCCCCCceEEEeecCCc-cch
Q 005380 374 IGRLNAPFLAIYESLIPAEEEKAKQKKLLTL-LEKLVCKEWP---DARLYLYGSCANSFGVSKSDIDVCLAINDSE-INK 448 (699)
Q Consensus 374 id~L~~eI~~f~~~l~PT~eE~~~R~~ll~~-L~~iI~~~~p---~a~V~~FGS~aTGL~lp~SDIDLvL~~~~~~-i~k 448 (699)
+......+..-+..-.+..+-...|..+++. |+.+.+...| .+.|...|+|.-|--.|.|||||+++.+... ...
T Consensus 27 l~~~~~~l~~~~~~~~~~~~~~~~~s~~~D~~l~~~~~~~~~~~~~~alvAvGgYGR~EL~p~SDIDLliL~~~~~~~~~ 106 (869)
T PRK04374 27 LVHADMRLCKRFDQGEPIERLLALRARAVDQLMRNAWTRCIPADSGLSLHAVGGYGRGELFPRSDVDLLVLGETAAQQRH 106 (869)
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHhCCCcCCEEEEEcCCccccccCCcccceEEEEecCCCCchH
Confidence 3344444444333333333334444444432 2333333334 2579999999999999999999999986432 223
Q ss_pred HHHHHHHHHHHhc
Q 005380 449 SEVLLKLADILQS 461 (699)
Q Consensus 449 ~e~L~kLa~iL~s 461 (699)
...+.++-..|..
T Consensus 107 ~~~i~~~i~~LWD 119 (869)
T PRK04374 107 EQALARLFALLWD 119 (869)
T ss_pred HHHHHHHHHHHHh
Confidence 3445555555543
No 48
>PHA02996 poly(A) polymerase large subunit; Provisional
Probab=51.31 E-value=71 Score=36.29 Aligned_cols=110 Identities=22% Similarity=0.251 Sum_probs=64.9
Q ss_pred hhhccHHHHHHHHHcCCCHHHHHHH---HHHHHHHHHHHHhhC--CCceEEEecceecCCCCCC---CCceEEEeecCCc
Q 005380 374 IGRLNAPFLAIYESLIPAEEEKAKQ---KKLLTLLEKLVCKEW--PDARLYLYGSCANSFGVSK---SDIDVCLAINDSE 445 (699)
Q Consensus 374 id~L~~eI~~f~~~l~PT~eE~~~R---~~ll~~L~~iI~~~~--p~a~V~~FGS~aTGL~lp~---SDIDLvL~~~~~~ 445 (699)
+.++..++.+-|.-..|++ ...-| ..++..+.+++++.. .+-.+.+||||..-+-.|+ .|||+.=.
T Consensus 122 m~~la~~~L~synv~~~~~-kvmgrh~VSdLV~~V~klmeEyLrrhNk~CicYGSySlhllNp~I~YgDIDilqT----- 195 (467)
T PHA02996 122 MEKLARDALNSYNVAVISE-KVMGRHNVSDLVGNVNKLMEEYLRRHNKSCICYGSYSLHLLNPEIEYGDIDILQT----- 195 (467)
T ss_pred HHHHHHHHHHhccccCCCc-cccccccccHHHHHHHHHHHHHHHhcCCceEEeeceeeeecCCccccCCcceeee-----
Confidence 5566677788787777774 31222 234555555555543 3567889999998776665 79997532
Q ss_pred cchHHHHHHHHHHHhcCCCcceEEeeeeeeceEEE----ecccCCeeEEEEEe
Q 005380 446 INKSEVLLKLADILQSDNLQNVQALTRARVPIVKL----MDPVTGISCDICIN 494 (699)
Q Consensus 446 i~k~e~L~kLa~iL~s~~~~~V~~I~~ARVPIIKf----~d~~tgI~VDISfn 494 (699)
+...+|..+|-+++--.=.+ +.--+||-+|= .|...+.-+| ||+
T Consensus 196 -Nar~fLInlaflI~fitG~~---v~LlkVPyLknyivlkdee~~hIiD-sfn 243 (467)
T PHA02996 196 -NSRTFLINLAFLIKFITGRN---VVLLKVPYLKNYMVLKDEEDNHIID-SFN 243 (467)
T ss_pred -ccHHHHHHHHHHHhhhcCce---EEEEEcccccceEEEEecCCCEEEE-ecc
Confidence 34567777777766311112 22358887763 3443344444 454
No 49
>PF09970 DUF2204: Nucleotidyl transferase of unknown function (DUF2204); InterPro: IPR018700 This family of hypothetical prokaryotic proteins has no known function.
Probab=50.38 E-value=74 Score=32.06 Aligned_cols=80 Identities=14% Similarity=0.114 Sum_probs=43.7
Q ss_pred CceEEEecceec----CCCCCCCCceEEEeecCCccchHHHHHHHHHHHhcCCCcceEEeeeeeeceEEEecccCCeeEE
Q 005380 415 DARLYLYGSCAN----SFGVSKSDIDVCLAINDSEINKSEVLLKLADILQSDNLQNVQALTRARVPIVKLMDPVTGISCD 490 (699)
Q Consensus 415 ~a~V~~FGS~aT----GL~lp~SDIDLvL~~~~~~i~k~e~L~kLa~iL~s~~~~~V~~I~~ARVPIIKf~d~~tgI~VD 490 (699)
++++.+.|+++. |.--.+.|||+++..+.. ....+.+..++. ..++.....-..+.-.++++. ...+.||
T Consensus 16 gv~~~ivGG~av~l~~g~~r~T~DIDlfi~~~~~-~~~~~~~~~~a~---~~g~~~~~~~~~~~~~~~~~~--~~~v~ID 89 (181)
T PF09970_consen 16 GVEYVIVGGAAVNLAYGRRRTTKDIDLFIENPSP-NLEADALREVAE---ENGWDLGWTDFGTPRYVVKVG--GEDVRID 89 (181)
T ss_pred CCeEEEECHHHHHHHhCCCCCCCCeEEEeCCCch-HHHHHHHHHHHH---HcCCCcCccccCCCceEEEeC--CCCeEEE
Confidence 578999999974 455568899998855432 222234444443 333311111111122234443 5678899
Q ss_pred EEEecchhhhh
Q 005380 491 ICINNLLAVVN 501 (699)
Q Consensus 491 ISfnn~~Gi~n 501 (699)
+ +.|..++.-
T Consensus 90 l-~~ni~~~~v 99 (181)
T PF09970_consen 90 L-LENIGDFYV 99 (181)
T ss_pred c-hhccCCccc
Confidence 8 666666643
No 50
>COG2320 GrpB Uncharacterized conserved protein [Function unknown]
Probab=49.95 E-value=2.5e+02 Score=28.83 Aligned_cols=114 Identities=16% Similarity=0.138 Sum_probs=70.8
Q ss_pred CCceEEEecceecCCCCCCCCceEEEeecCCccchHHHHHHHHHHHhcCCCcceEEe-eeeeec-eEEEecccCCeeEEE
Q 005380 414 PDARLYLYGSCANSFGVSKSDIDVCLAINDSEINKSEVLLKLADILQSDNLQNVQAL-TRARVP-IVKLMDPVTGISCDI 491 (699)
Q Consensus 414 p~a~V~~FGS~aTGL~lp~SDIDLvL~~~~~~i~k~e~L~kLa~iL~s~~~~~V~~I-~~ARVP-IIKf~d~~tgI~VDI 491 (699)
|.+.|+=.||++-.-.-..-.|||.+.... .+...++++-|...++..+... ..-+.+ -.+..+...+-..++
T Consensus 45 ~~l~veHIGSTAVpgl~aKpiiDILv~v~~-----l~~a~~~~~~l~~~Gy~h~~~~~~~~~~r~~~~r~~~~~~~p~~~ 119 (185)
T COG2320 45 PALRVEHIGSTAVPGLPAKPIIDILVVVES-----LDAADELAEPLSAAGYPHVTNDGRTLRFRLWLKRVHASAREPTHV 119 (185)
T ss_pred cccceeeecccCcCCcccccceeEEEeecc-----hhhHHHHhhHHHhcCCCcccccCcccccchheeeccccCCCCeeE
Confidence 678999999999774444567777666522 2344566666777776533322 111222 122334333333444
Q ss_pred --EEecchhhhhhHHHHHHhhcChhHHHHHHHHHHHHHhcCCC
Q 005380 492 --CINNLLAVVNTKLLRDYAQIDVRLQQLAFIVKHWAKSRGVN 532 (699)
Q Consensus 492 --Sfnn~~Gi~nT~LIr~y~~~dPr~r~LvllLK~Wak~rgLn 532 (699)
+......+.-.-+++.|++..|..+.-+.-+|.=+..+...
T Consensus 120 hv~~~G~~~~~~~l~FrD~Lra~P~~~~~Y~~lKr~laa~~~~ 162 (185)
T COG2320 120 HVVTRGSPEIEFALLFRDWLRANPEIREAYAELKRELAAQEDD 162 (185)
T ss_pred EEEeCCChHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHhchH
Confidence 44433356677789999999999999999999877666444
No 51
>PHA02603 nrdC.11 hypothetical protein; Provisional
Probab=49.41 E-value=9.4 Score=42.17 Aligned_cols=21 Identities=29% Similarity=0.302 Sum_probs=18.9
Q ss_pred EEEecceecCCCCCCCCceEE
Q 005380 418 LYLYGSCANSFGVSKSDIDVC 438 (699)
Q Consensus 418 V~~FGS~aTGL~lp~SDIDLv 438 (699)
+.++||.+.|+.+|+||+|+-
T Consensus 6 ~~~~GShaYG~~tp~SD~D~r 26 (330)
T PHA02603 6 KGLFGSHLYGTSTPESDVDYK 26 (330)
T ss_pred EEecccceeCCCCCCcccccc
Confidence 568999999999999999953
No 52
>PRK00275 glnD PII uridylyl-transferase; Provisional
Probab=47.83 E-value=87 Score=39.18 Aligned_cols=29 Identities=21% Similarity=0.220 Sum_probs=25.9
Q ss_pred ceEEEecceecCCCCCCCCceEEEeecCC
Q 005380 416 ARLYLYGSCANSFGVSKSDIDVCLAINDS 444 (699)
Q Consensus 416 a~V~~FGS~aTGL~lp~SDIDLvL~~~~~ 444 (699)
+.|...|.|.-|--.|.|||||+++.+..
T Consensus 79 ~alvAvGgyGR~EL~p~SDiDll~l~~~~ 107 (895)
T PRK00275 79 IALVAVGGYGRGELHPYSDIDLLILLDSA 107 (895)
T ss_pred EEEEEcCCccccCcCCCCCceEEEEecCC
Confidence 57899999999999999999999998643
No 53
>PRK08609 hypothetical protein; Provisional
Probab=46.02 E-value=1.4e+02 Score=35.33 Aligned_cols=117 Identities=19% Similarity=0.222 Sum_probs=63.0
Q ss_pred HHHHHHHHHHHhhCCCceEEEecceecCCCCCCCCceEEEeecCCccchHHHHHH---HHHHHhcCCCcceEEeeeeeec
Q 005380 400 KLLTLLEKLVCKEWPDARLYLYGSCANSFGVSKSDIDVCLAINDSEINKSEVLLK---LADILQSDNLQNVQALTRARVP 476 (699)
Q Consensus 400 ~ll~~L~~iI~~~~p~a~V~~FGS~aTGL~lp~SDIDLvL~~~~~~i~k~e~L~k---La~iL~s~~~~~V~~I~~ARVP 476 (699)
.+.+.|...++..-+.++|.+-||+.-|-.+ ..||||+|..+... .-.+.+.. +.+++.+ +.... +
T Consensus 160 ~~a~~i~~~l~~~~~~~~v~~~GS~RR~~et-~gDiDili~~~~~~-~~~~~l~~~~~v~~~~~~-g~~~~------~-- 228 (570)
T PRK08609 160 PIAQEIEEYLATIDEIIRFSRAGSLRRARET-VKDLDFIIATDEPE-AVREQLLQLPNIVEVIAA-GDTKV------S-- 228 (570)
T ss_pred HHHHHHHHHHHhCCCccEEEeccchhccccc-cCCeeEEEecCCHH-HHHHHHHcCccHHHHHhc-CCceE------E--
Confidence 4456666667776677899999999987655 45999998764421 11122221 1122221 11111 1
Q ss_pred eEEEecccCCeeEEEEEecchhhhhhHHHHHHhhcChhHHHHHHHHHHHHHhcCCCCcc
Q 005380 477 IVKLMDPVTGISCDICINNLLAVVNTKLLRDYAQIDVRLQQLAFIVKHWAKSRGVNVTY 535 (699)
Q Consensus 477 IIKf~d~~tgI~VDISfnn~~Gi~nT~LIr~y~~~dPr~r~LvllLK~Wak~rgLn~~~ 535 (699)
+ .+.. ..|+.|||-+......-.+- ..+.- =+...+-++.||+++|+.=+.
T Consensus 229 ~-~~~~-~~~~~vDl~~v~~~~~~~aL--~yfTG----S~~hn~~lr~~A~~~g~~l~e 279 (570)
T PRK08609 229 V-ELEY-EYTISVDFRLVEPEAFATTL--HHFTG----SKDHNVRMRQLAKERGEKISE 279 (570)
T ss_pred E-EEec-CCCeEEEEEEeCHHHHHHHH--HHHhc----cHHHHHHHHHHHHHcCCcccc
Confidence 1 1211 24899999888654433221 11211 233344458888888775443
No 54
>COG3541 Predicted nucleotidyltransferase [General function prediction only]
Probab=44.65 E-value=11 Score=39.95 Aligned_cols=21 Identities=33% Similarity=0.229 Sum_probs=18.2
Q ss_pred ecceecCCCCCCCCceEEEee
Q 005380 421 YGSCANSFGVSKSDIDVCLAI 441 (699)
Q Consensus 421 FGS~aTGL~lp~SDIDLvL~~ 441 (699)
=||.+.|+..|+||+||--+.
T Consensus 16 sGS~~yGf~spdSDyDvR~V~ 36 (248)
T COG3541 16 SGSHLYGFPSPDSDYDVRGVH 36 (248)
T ss_pred ccccccCCCCCCCccceeeEE
Confidence 399999999999999986554
No 55
>COG1796 POL4 DNA polymerase IV (family X) [DNA replication, recombination, and repair]
Probab=44.45 E-value=2e+02 Score=31.98 Aligned_cols=120 Identities=19% Similarity=0.253 Sum_probs=71.1
Q ss_pred HHHHHHHHHhhCCCceEEEecceecCCCCCCCCceEEEeecCCccchHHHHHHHHHHHhcCCCcceEEeeeeeeceEEEe
Q 005380 402 LTLLEKLVCKEWPDARLYLYGSCANSFGVSKSDIDVCLAINDSEINKSEVLLKLADILQSDNLQNVQALTRARVPIVKLM 481 (699)
Q Consensus 402 l~~L~~iI~~~~p~a~V~~FGS~aTGL~lp~SDIDLvL~~~~~~i~k~e~L~kLa~iL~s~~~~~V~~I~~ARVPIIKf~ 481 (699)
...|...+.+.-+-.++..-||..-+-.+ .+|||+++...... . .+...+...++..+.+--..+|-.+...
T Consensus 167 a~ei~~yl~~~~~~~~~~~aGs~RR~ret-v~DiD~~~s~~~~~-----~--v~~~~~~~~~~~~vi~~G~~k~s~~~~~ 238 (326)
T COG1796 167 AQEIEGYLEELTPIIQASIAGSLRRGRET-VGDIDILISTSHPE-----S--VLEELLEMPNVQEVIAKGETKVSMLLIL 238 (326)
T ss_pred HHHHHHHHHhccchheeeeccchhhcccc-ccceeeEeccCCcH-----H--HHHHHhcCCCcceeeecCCceeeEEEEe
Confidence 34455555554444677788998876654 57999988764432 1 3334455555666666666676655555
Q ss_pred cccCCeeEEEEEecchhhhhhHHHHHHhhcChhHHHHHHHHHHHHHhcCCCCccCC
Q 005380 482 DPVTGISCDICINNLLAVVNTKLLRDYAQIDVRLQQLAFIVKHWAKSRGVNVTYQG 537 (699)
Q Consensus 482 d~~tgI~VDISfnn~~Gi~nT~LIr~y~~~dPr~r~LvllLK~Wak~rgLn~~~~G 537 (699)
..|++||+-+......-++. ..|. --+.--+-|+..|+.+|.--+..|
T Consensus 239 --~~~~svD~r~v~~e~fGaal--~~fT----GSkehNi~iR~lA~~kg~klseyG 286 (326)
T COG1796 239 --DEGTSVDFRVVPPEAFGAAL--QHFT----GSKEHNIKIRQLAKAKGEKLSEYG 286 (326)
T ss_pred --cCCCeeEEEEcCHHHhhhhh--hhcc----cchhhhHHHHHHHHHhCcchhhcc
Confidence 46889999887654443332 2221 112233446667788877655555
No 56
>PRK01759 glnD PII uridylyl-transferase; Provisional
Probab=42.15 E-value=54 Score=40.71 Aligned_cols=47 Identities=15% Similarity=0.121 Sum_probs=33.4
Q ss_pred ceEEEecceecCCCCCCCCceEEEeecCCcc-chHHHHHHHHHHHhcC
Q 005380 416 ARLYLYGSCANSFGVSKSDIDVCLAINDSEI-NKSEVLLKLADILQSD 462 (699)
Q Consensus 416 a~V~~FGS~aTGL~lp~SDIDLvL~~~~~~i-~k~e~L~kLa~iL~s~ 462 (699)
+.+...|+|.-|--.|.|||||.|+.+.... +..+.+..+-..|...
T Consensus 57 iaLvAvGGYGR~eL~P~SDIDlliL~~~~~~~~~~~~i~~~~~~LWD~ 104 (854)
T PRK01759 57 LALIAVGGYGRREMFPLSDLDILILTEQPPDEETEEKINQFFQFLWDC 104 (854)
T ss_pred eEEEEeCCcccccCCCcccceEEEEeCCCCChHHHHHHHHHHHHHHhc
Confidence 5799999999999999999999999864321 2234445555555443
No 57
>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=40.06 E-value=1.5e+02 Score=36.82 Aligned_cols=50 Identities=14% Similarity=0.046 Sum_probs=33.9
Q ss_pred CCceEEEecceecCCCCCCCCceEEEeecCCccc-hHHHHHHHHHHHhcCC
Q 005380 414 PDARLYLYGSCANSFGVSKSDIDVCLAINDSEIN-KSEVLLKLADILQSDN 463 (699)
Q Consensus 414 p~a~V~~FGS~aTGL~lp~SDIDLvL~~~~~~i~-k~e~L~kLa~iL~s~~ 463 (699)
..+.+...|||.-|--.|.||||++++.+..... -.+.+.++-..|...+
T Consensus 42 ~~~aliA~GgyGR~El~p~SDiDll~l~~~~~~~~~~~~~~~~~~~LwD~g 92 (850)
T TIGR01693 42 SGIALVAVGGYGRGELAPYSDIDLLFLHDGKPAEEVEPKIERFLYPLWDLG 92 (850)
T ss_pred CCeEEEEeCCccccCcCCCCCCeEEEEeCCCCChHHHHHHHHHHHHHHhcC
Confidence 3578999999999999999999999988643211 1233444444444333
No 58
>PRK03059 PII uridylyl-transferase; Provisional
Probab=38.34 E-value=1.5e+02 Score=36.98 Aligned_cols=29 Identities=24% Similarity=0.260 Sum_probs=25.9
Q ss_pred CceEEEecceecCCCCCCCCceEEEeecC
Q 005380 415 DARLYLYGSCANSFGVSKSDIDVCLAIND 443 (699)
Q Consensus 415 ~a~V~~FGS~aTGL~lp~SDIDLvL~~~~ 443 (699)
++.|...|+|.-|--.|.|||||+++.+.
T Consensus 61 ~~alvAvGgyGR~EL~p~SDiDll~l~~~ 89 (856)
T PRK03059 61 GAALVAVGGYGRGELFPYSDVDLLVLLPD 89 (856)
T ss_pred CeEEEEcCCCCCcccCCCCCCEEEEEecC
Confidence 46789999999999999999999998854
No 59
>PF03281 Mab-21: Mab-21 protein
Probab=38.30 E-value=2.3e+02 Score=30.06 Aligned_cols=119 Identities=13% Similarity=0.173 Sum_probs=77.6
Q ss_pred cCCeeEEEEEecchhhhhhHHHHHHhhcChhHHHHHHHHHHHHHhcCCCCccCCCCChHHHHHHHHHHhhhcCCCccccc
Q 005380 484 VTGISCDICINNLLAVVNTKLLRDYAQIDVRLQQLAFIVKHWAKSRGVNVTYQGTLSSYAYVLMCIHFLQQRRPAILPCL 563 (699)
Q Consensus 484 ~tgI~VDISfnn~~Gi~nT~LIr~y~~~dPr~r~LvllLK~Wak~rgLn~~~~GgLSSYaL~LMVI~FLQ~~~P~ILP~L 563 (699)
..+...-+||.. .-..+++.+ ....+..+.++|....... ...+.|+||.|-.++++.|..... .
T Consensus 169 ~~~~~Wrlsf~~----~E~~ll~~~---~~~~~~~l~llk~l~~~~~---~~~~~l~syhLkt~ll~~~~~~p~-----~ 233 (292)
T PF03281_consen 169 DSENSWRLSFSV----AERQLLKNL---NGCRKKCLRLLKALRDRHL---TNLSGLSSYHLKTVLLWLCEKHPS-----S 233 (292)
T ss_pred CCCceEEEehHH----HHHHHHHhc---cccHHHHHHHHHHHHHhcc---ccCCCccHHHHHHHHHHHHHcCCC-----C
Confidence 345667777742 223444443 5677889999999987776 556789999999999998887621 0
Q ss_pred cccccccceeecCcccccccchhhhcCCCCCCcccHHHHHHHHHHHhhcCCCCCCcEEEecCCcccccccccccccCCCC
Q 005380 564 QGMEKTYSVTVDDIECAYFDQVDKLHGFGSRNKESIGRLVWAFFNYWAYGHDYASNVISVRTGSTISKQEKDWTRRIGND 643 (699)
Q Consensus 564 Q~l~~~~~~~vdd~~~~f~~~~e~l~~~g~~n~~SLgeLLl~FF~yYs~~FD~~~~vISIr~G~~isK~ek~w~~~~g~~ 643 (699)
.+| ....+++.|++++.+.-. ++..|..
T Consensus 234 -----------~~W-----------------~~~~l~~~l~~~l~~L~~---------~L~~~~L--------------- 261 (292)
T PF03281_consen 234 -----------SDW-----------------SEENLGERLLDLLDFLIK---------CLQEGRL--------------- 261 (292)
T ss_pred -----------CCC-----------------ChHHHHHHHHHHHHHHHH---------HHhcCCC---------------
Confidence 122 235788999999988773 2222211
Q ss_pred CcceEEecCCCCCCCccccCCHhhHHHHHHHH
Q 005380 644 RHLICIEDPFEVTHDLGRVVDKFSIKVLREEF 675 (699)
Q Consensus 644 ~~~L~IeDPfdp~~NlgrsVs~~~i~~Ir~eF 675 (699)
-.-|.+..|+=..++...+..+.+.+
T Consensus 262 ------phff~~~~NLf~~~~~~~~~~~~~~~ 287 (292)
T PF03281_consen 262 ------PHFFIPNLNLFQHLSPEELDELARKL 287 (292)
T ss_pred ------CccCCCCcccCCCCCHHHHHHHHHHH
Confidence 13455688887777666655555443
No 60
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=34.82 E-value=24 Score=40.04 Aligned_cols=83 Identities=13% Similarity=0.299 Sum_probs=52.0
Q ss_pred HHHHHHHHHHHhhCCCceEEEecceecCCCCCC-----------CCceEEEeecCCccchHHHHHHHHHHHhcCCCcceE
Q 005380 400 KLLTLLEKLVCKEWPDARLYLYGSCANSFGVSK-----------SDIDVCLAINDSEINKSEVLLKLADILQSDNLQNVQ 468 (699)
Q Consensus 400 ~ll~~L~~iI~~~~p~a~V~~FGS~aTGL~lp~-----------SDIDLvL~~~~~~i~k~e~L~kLa~iL~s~~~~~V~ 468 (699)
.++..+.+.++..||.+++++|-..+-|-.-+. ..+|++|+..+.- +..++ ..+- ...-+.
T Consensus 147 Aa~~D~~~~~~~r~p~~~~~~~~~~vQG~~A~~~i~~al~~~~~~~~Dviii~RGGG-S~eDL-~~Fn------~e~v~~ 218 (438)
T PRK00286 147 AAIRDILTVLRRRFPLVEVIIYPTLVQGEGAAASIVAAIERANARGEDVLIVARGGG-SLEDL-WAFN------DEAVAR 218 (438)
T ss_pred HHHHHHHHHHHhcCCCCeEEEecCcCcCccHHHHHHHHHHHhcCCCCCEEEEecCCC-CHHHh-hccC------cHHHHH
Confidence 467788888888999999999988887764332 2479998886632 11111 1110 001123
Q ss_pred EeeeeeeceEEEecccCCeeEEEEEe
Q 005380 469 ALTRARVPIVKLMDPVTGISCDICIN 494 (699)
Q Consensus 469 ~I~~ARVPIIKf~d~~tgI~VDISfn 494 (699)
.|..+++|||.-+ |-+.|.++.
T Consensus 219 ai~~~~~Pvis~I----GHE~D~tl~ 240 (438)
T PRK00286 219 AIAASRIPVISAV----GHETDFTIA 240 (438)
T ss_pred HHHcCCCCEEEec----cCCCCccHH
Confidence 4667899999987 445555443
No 61
>PRK03381 PII uridylyl-transferase; Provisional
Probab=34.68 E-value=84 Score=38.64 Aligned_cols=29 Identities=21% Similarity=0.200 Sum_probs=25.9
Q ss_pred CceEEEecceecCCCCCCCCceEEEeecC
Q 005380 415 DARLYLYGSCANSFGVSKSDIDVCLAIND 443 (699)
Q Consensus 415 ~a~V~~FGS~aTGL~lp~SDIDLvL~~~~ 443 (699)
.+.|...|+|.-|--.|.|||||.++.+.
T Consensus 57 ~~alvAvg~~gr~el~p~SD~Dll~l~~~ 85 (774)
T PRK03381 57 GVALVAVGGLGRRELLPYSDLDLVLLHDG 85 (774)
T ss_pred CeEEEEeCCcCCcCcCCCCCCeEEEEeCC
Confidence 35789999999999999999999999863
No 62
>PF02601 Exonuc_VII_L: Exonuclease VII, large subunit; InterPro: IPR020579 Exonuclease VII 3.1.11.6 from EC is composed of two nonidentical subunits; one large subunit and 4 small ones []. Exonuclease VII catalyses exonucleolytic cleavage in either 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. The large subunit also contains the OB-fold domains (IPR004365 from INTERPRO) that bind to nucleic acids at the N terminus. This entry represents Exonuclease VII, large subunit, C-terminal. ; GO: 0008855 exodeoxyribonuclease VII activity
Probab=31.02 E-value=22 Score=38.36 Aligned_cols=83 Identities=17% Similarity=0.330 Sum_probs=52.8
Q ss_pred HHHHHHHHHHHhhCCCceEEEecceecCCCCCC---------------CCceEEEeecCCccchHHHHHHHHHHHhcCCC
Q 005380 400 KLLTLLEKLVCKEWPDARLYLYGSCANSFGVSK---------------SDIDVCLAINDSEINKSEVLLKLADILQSDNL 464 (699)
Q Consensus 400 ~ll~~L~~iI~~~~p~a~V~~FGS~aTGL~lp~---------------SDIDLvL~~~~~~i~k~e~L~kLa~iL~s~~~ 464 (699)
..+..+...++..||.+++.+|-+.+-|-.-+. -++|++|++.+.- +..++ ..+-+ .
T Consensus 26 Aa~~D~~~~~~~r~~~~~~~~~p~~vQG~~A~~~I~~al~~~~~~~~~~~~Dviii~RGGG-s~eDL-~~FN~------e 97 (319)
T PF02601_consen 26 AAIQDFLRTLKRRNPIVEIILYPASVQGEGAAASIVSALRKANEMGQADDFDVIIIIRGGG-SIEDL-WAFND------E 97 (319)
T ss_pred HHHHHHHHHHHHhCCCcEEEEEeccccccchHHHHHHHHHHHHhccccccccEEEEecCCC-ChHHh-cccCh------H
Confidence 356677777777999999999999988876554 1589999886632 11111 11100 0
Q ss_pred cceEEeeeeeeceEEEecccCCeeEEEEEe
Q 005380 465 QNVQALTRARVPIVKLMDPVTGISCDICIN 494 (699)
Q Consensus 465 ~~V~~I~~ARVPIIKf~d~~tgI~VDISfn 494 (699)
.-+..|..+++|||.-+ |-+.|.++.
T Consensus 98 ~varai~~~~~PvisaI----GHe~D~ti~ 123 (319)
T PF02601_consen 98 EVARAIAASPIPVISAI----GHETDFTIA 123 (319)
T ss_pred HHHHHHHhCCCCEEEec----CCCCCchHH
Confidence 01124567889999987 556666654
No 63
>COG1665 Predicted nucleotidyltransferase [General function prediction only]
Probab=30.81 E-value=50 Score=35.80 Aligned_cols=38 Identities=18% Similarity=0.112 Sum_probs=27.9
Q ss_pred HHHHHHHh-hCCCceEEEecceecCCCCCCCCceEEEee
Q 005380 404 LLEKLVCK-EWPDARLYLYGSCANSFGVSKSDIDVCLAI 441 (699)
Q Consensus 404 ~L~~iI~~-~~p~a~V~~FGS~aTGL~lp~SDIDLvL~~ 441 (699)
.|-.++.. -.|--++=+-||...|+.-.+||||++|..
T Consensus 109 ai~~~led~gVp~~~mGVTGSiL~gl~~~nSDIDfVVYG 147 (315)
T COG1665 109 AIVEFLEDAGVPVNSMGVTGSILLGLYDENSDIDFVVYG 147 (315)
T ss_pred HHHHHHHHcCCchhhccccccccccccCCCCCceEEEEc
Confidence 33334444 345555667799999999999999999876
No 64
>TIGR00237 xseA exodeoxyribonuclease VII, large subunit. This family consist of exodeoxyribonuclease VII, large subunit XseA which catalyses exonucleolytic cleavage in either the 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. Exonuclease VII consists of one large subunit and four small subunits.
Probab=28.62 E-value=34 Score=39.07 Aligned_cols=83 Identities=14% Similarity=0.293 Sum_probs=51.9
Q ss_pred HHHHHHHHHHHhhCCCceEEEecceecCCCCCC------------CCceEEEeecCCccchHHHHHHHHHHHhcCCCcce
Q 005380 400 KLLTLLEKLVCKEWPDARLYLYGSCANSFGVSK------------SDIDVCLAINDSEINKSEVLLKLADILQSDNLQNV 467 (699)
Q Consensus 400 ~ll~~L~~iI~~~~p~a~V~~FGS~aTGL~lp~------------SDIDLvL~~~~~~i~k~e~L~kLa~iL~s~~~~~V 467 (699)
.++..+.+.++..||.+++.+|-..+-|-.-+. -|+|++|+..+.- +..++ ..+- ...-+
T Consensus 141 aa~~D~~~~~~~r~p~~~~~~~~~~vQG~~a~~~i~~al~~~~~~~~~dviii~RGGG-s~eDL-~~Fn------~e~~~ 212 (432)
T TIGR00237 141 AALADILHILKRRDPSLKVVIYPTLVQGEGAVQSIVESIELANTKNECDVLIVGRGGG-SLEDL-WSFN------DEKVA 212 (432)
T ss_pred HHHHHHHHHHHhhCCCceEEEecccccCccHHHHHHHHHHHhhcCCCCCEEEEecCCC-CHHHh-hhcC------cHHHH
Confidence 356777788888999999999987777754322 3689998886532 11111 1110 00112
Q ss_pred EEeeeeeeceEEEecccCCeeEEEEEe
Q 005380 468 QALTRARVPIVKLMDPVTGISCDICIN 494 (699)
Q Consensus 468 ~~I~~ARVPIIKf~d~~tgI~VDISfn 494 (699)
..|..+++|||.-+ |-+.|.++.
T Consensus 213 rai~~~~~Pvis~i----GHe~D~ti~ 235 (432)
T TIGR00237 213 RAIFLSKIPIISAV----GHETDFTIS 235 (432)
T ss_pred HHHHcCCCCEEEec----CcCCCccHH
Confidence 24667899999987 556666654
No 65
>COG1570 XseA Exonuclease VII, large subunit [DNA replication, recombination, and repair]
Probab=27.98 E-value=91 Score=35.92 Aligned_cols=73 Identities=18% Similarity=0.400 Sum_probs=48.4
Q ss_pred HHHHHHHHHHHhhCCCceEEEecceecCCC------------CCCCCceEEEeecCCccchHHHHHHHH-HHHhcCCCcc
Q 005380 400 KLLTLLEKLVCKEWPDARLYLYGSCANSFG------------VSKSDIDVCLAINDSEINKSEVLLKLA-DILQSDNLQN 466 (699)
Q Consensus 400 ~ll~~L~~iI~~~~p~a~V~~FGS~aTGL~------------lp~SDIDLvL~~~~~~i~k~e~L~kLa-~iL~s~~~~~ 466 (699)
.++..|-..++..||.++|++|=-.+-|-. ....|+|+.|+..+.- +.|-|..+. +.+
T Consensus 147 AairDIl~~~~rR~P~~~viv~pt~VQG~~A~~eIv~aI~~an~~~~~DvlIVaRGGG--SiEDLW~FNdE~v------- 217 (440)
T COG1570 147 AALRDILHTLSRRFPSVEVIVYPTLVQGEGAAEEIVEAIERANQRGDVDVLIVARGGG--SIEDLWAFNDEIV------- 217 (440)
T ss_pred HHHHHHHHHHHhhCCCCeEEEEeccccCCCcHHHHHHHHHHhhccCCCCEEEEecCcc--hHHHHhccChHHH-------
Confidence 467888888999999999999976666643 3346899988876532 112222221 111
Q ss_pred eEEeeeeeeceEEEe
Q 005380 467 VQALTRARVPIVKLM 481 (699)
Q Consensus 467 V~~I~~ARVPIIKf~ 481 (699)
+..|..+++|||.-+
T Consensus 218 aRAi~~s~iPvISAV 232 (440)
T COG1570 218 ARAIAASRIPVISAV 232 (440)
T ss_pred HHHHHhCCCCeEeec
Confidence 224677899999987
No 66
>PRK03333 coaE dephospho-CoA kinase/protein folding accessory domain-containing protein; Provisional
Probab=27.55 E-value=9.3e+02 Score=27.18 Aligned_cols=122 Identities=17% Similarity=0.176 Sum_probs=72.5
Q ss_pred HHHHHHHHHhhCCC--ceEEEeccee-cCCCCCCCCceEEEeecCCccchHHHHHHHHHHHhcCCCcceEE------eee
Q 005380 402 LTLLEKLVCKEWPD--ARLYLYGSCA-NSFGVSKSDIDVCLAINDSEINKSEVLLKLADILQSDNLQNVQA------LTR 472 (699)
Q Consensus 402 l~~L~~iI~~~~p~--a~V~~FGS~a-TGL~lp~SDIDLvL~~~~~~i~k~e~L~kLa~iL~s~~~~~V~~------I~~ 472 (699)
++..+..|....++ +.|+=+||++ -|+.-+. .|||.|.+... ..+..+...|...++.-... ...
T Consensus 225 f~~e~~~l~~~l~~~~~~IeHIGSTsVpGl~AKP-iIDI~v~V~~~-----~~~~~~~~~l~~~Gy~~~~~~~~~~~~~~ 298 (395)
T PRK03333 225 AQRIVARLKTAAGHKALRVDHIGSTAVPGLDAKD-VIDIQVTVESL-----AVADELAEPLAAAGFPRLPGITQDTPKPD 298 (395)
T ss_pred HHHHHHHHHHhcCccceEEEEeccCCCCCCccCC-eeeEEEeeCCh-----HHHHHHHHHHHHCCCcccccccccCCCcC
Confidence 55666666666553 5788999987 5665544 77776666432 22234455555555432210 011
Q ss_pred eeeceE--E-Eeccc---CCeeEEEEEecchhhhhhHHHHHHhhcChhHHHHHHHHHHHHHhc
Q 005380 473 ARVPIV--K-LMDPV---TGISCDICINNLLAVVNTKLLRDYAQIDVRLQQLAFIVKHWAKSR 529 (699)
Q Consensus 473 ARVPII--K-f~d~~---tgI~VDISfnn~~Gi~nT~LIr~y~~~dPr~r~LvllLK~Wak~r 529 (699)
..+|-. + +.... .-..+-++......+...-+++.|+..+|..+.-+--+|.=+...
T Consensus 299 ~~~~~~~~~~~~~~~~~~r~~~lHv~~~~~~~~~~~l~FRDyLr~~p~~~~~Y~~lK~~la~~ 361 (395)
T PRK03333 299 DPDPALWGKRLHASADPGRPVNLHVRVDGWPGQRFALLFRDWLRADPAARAEYLAVKRRAARR 361 (395)
T ss_pred CCCCcccceeeeccCCCCCcEEEEEecCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHh
Confidence 122311 2 21111 125566666655567778899999999999999999999877655
No 67
>PRK05092 PII uridylyl-transferase; Provisional
Probab=25.37 E-value=3.5e+02 Score=34.05 Aligned_cols=28 Identities=18% Similarity=0.148 Sum_probs=25.4
Q ss_pred ceEEEecceecCCCCCCCCceEEEeecC
Q 005380 416 ARLYLYGSCANSFGVSKSDIDVCLAIND 443 (699)
Q Consensus 416 a~V~~FGS~aTGL~lp~SDIDLvL~~~~ 443 (699)
+.|...|.|.-|=-.|.|||||+++.+.
T Consensus 106 ~alvA~GgyGr~EL~p~SDiDLl~l~~~ 133 (931)
T PRK05092 106 LAVLAVGGYGRGELAPGSDIDLLFLLPY 133 (931)
T ss_pred eEEEEecCcCCcccCCCCCceEEEEeCC
Confidence 5789999999999999999999999864
No 68
>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=24.96 E-value=54 Score=35.41 Aligned_cols=42 Identities=24% Similarity=0.314 Sum_probs=15.9
Q ss_pred HHHHHHHHHHhhCCCce-EEEecceecCCCCC--CCCceEEEeecC
Q 005380 401 LLTLLEKLVCKEWPDAR-LYLYGSCANSFGVS--KSDIDVCLAIND 443 (699)
Q Consensus 401 ll~~L~~iI~~~~p~a~-V~~FGS~aTGL~lp--~SDIDLvL~~~~ 443 (699)
+++.|-.+.+ .-+.++ |.+-||.++--.-+ -||+||++++..
T Consensus 7 m~~~Il~~A~-~d~rIraV~l~GSR~n~~~~~D~fqDyDIv~~v~d 51 (282)
T PF04439_consen 7 MMDLILEFAK-QDERIRAVILNGSRANPNAPKDEFQDYDIVYVVTD 51 (282)
T ss_dssp HHHHHHHHHH-H-TTEEEEEE----------------EEEEEEES-
T ss_pred HHHHHHHHHh-cCCcEEEEEEecCCCCCCCCccccccccEEEEecc
Confidence 3444444333 334565 67789999887664 589999998854
No 69
>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=24.61 E-value=2.9e+02 Score=26.55 Aligned_cols=70 Identities=17% Similarity=0.211 Sum_probs=39.9
Q ss_pred CCceEEEecceecCC--CCCCCCceEEEeecCCccchHHHHHHHHHHHhcCCCcceEEeeeeeeceEEEecccCCeeEEE
Q 005380 414 PDARLYLYGSCANSF--GVSKSDIDVCLAINDSEINKSEVLLKLADILQSDNLQNVQALTRARVPIVKLMDPVTGISCDI 491 (699)
Q Consensus 414 p~a~V~~FGS~aTGL--~lp~SDIDLvL~~~~~~i~k~e~L~kLa~iL~s~~~~~V~~I~~ARVPIIKf~d~~tgI~VDI 491 (699)
.+.++++.|=++-.+ +.+..||||++.... .+.+.++.+.+. ..-+ -...+-.++++.. .+..+||
T Consensus 15 ~g~~~ylVGG~VRD~Llg~~~~DiDi~v~~~~-----~~~~~~l~~~~~---~~~v--~~~~~f~t~~v~~--~~~~~di 82 (139)
T cd05398 15 LGYEAYLVGGAVRDLLLGRPPKDIDIATDADG-----PEFAEALFKKIG---GRVV--GLGEEFGTATVVI--NGLTIDV 82 (139)
T ss_pred cCceEEEECChHHHHHcCCCCCCceEEEeCCC-----HHHHHHHHHhcC---CcEE--ecCCcccEEEEEE--CCEEEEE
Confidence 468899999888555 457789999886521 233333333221 1111 1123455555552 3778888
Q ss_pred EEec
Q 005380 492 CINN 495 (699)
Q Consensus 492 Sfnn 495 (699)
+...
T Consensus 83 ~~~R 86 (139)
T cd05398 83 ATLR 86 (139)
T ss_pred cccc
Confidence 7653
No 70
>PF03710 GlnE: Glutamate-ammonia ligase adenylyltransferase; InterPro: IPR005190 This is a conserved repeated domain found in GlnE proteins. These proteins adenylate and deadenylate glutamine synthases: ATP + {L-Glutamate:ammonia ligase (ADP-forming)} = Diphosphate + Adenylyl-{L-Glutamate:Ammonia ligase (ADP-forming)}. The domain is related to the nucleotidyltransferase domain IPR002934 from INTERPRO.; GO: 0008882 [glutamate-ammonia-ligase] adenylyltransferase activity; PDB: 1V4A_A 3K7D_A.
Probab=24.02 E-value=1.7e+02 Score=30.76 Aligned_cols=45 Identities=22% Similarity=0.219 Sum_probs=25.1
Q ss_pred ceEEEecceecCCCCCCCCceEEEeecCCc------cchHHHHHHHHHHHh
Q 005380 416 ARLYLYGSCANSFGVSKSDIDVCLAINDSE------INKSEVLLKLADILQ 460 (699)
Q Consensus 416 a~V~~FGS~aTGL~lp~SDIDLvL~~~~~~------i~k~e~L~kLa~iL~ 460 (699)
.-|.-.|-+-.+=-...|||||+++.+... +...+++.++++.+.
T Consensus 128 ~~ViamGKlGg~ELny~SDiDLifvy~~~~~~~~~~~~~~~~~~rl~~~~~ 178 (247)
T PF03710_consen 128 FAVIAMGKLGGRELNYSSDIDLIFVYDPDGETGRRSISNQEFFTRLAQRLI 178 (247)
T ss_dssp EEEEE-HHHHTT---TT--EEEEEEE---TT-SSS-SBHHHHHHHHHHHHH
T ss_pred eEEEEeccccccccCCccCCceEEEeccccccccChhhHHHHHHHHHHHHH
Confidence 457777777777778899999999886532 334567777765543
No 71
>PF03296 Pox_polyA_pol: Poxvirus poly(A) polymerase nucleotidyltransferase domain; InterPro: IPR024231 Poly(A) polymerase (2.7.7.19 from EC) catalyses template-independent extension of the 3'-end of a DNA or RNA strand by one nucleotide at a time. The Poxvirus enzyme creates the 3'(poly)A tail of mRNAs, and is a heterodimer of a catalytic and a regulatory subunit. This entry represents the nucleotidyltransferase domain of the catalytic subunit [].; PDB: 3ERC_C 3ER8_D 3OWG_A 2GA9_D 2GAF_D 3ER9_B.
Probab=23.94 E-value=1.6e+02 Score=29.08 Aligned_cols=109 Identities=21% Similarity=0.284 Sum_probs=51.1
Q ss_pred hhccHHHHHHHHHcCCCHHHHHHHHHH---HHHHHHHHHhhC--CCceEEEecceecCCCCCC---CCceEEEeecCCcc
Q 005380 375 GRLNAPFLAIYESLIPAEEEKAKQKKL---LTLLEKLVCKEW--PDARLYLYGSCANSFGVSK---SDIDVCLAINDSEI 446 (699)
Q Consensus 375 d~L~~eI~~f~~~l~PT~eE~~~R~~l---l~~L~~iI~~~~--p~a~V~~FGS~aTGL~lp~---SDIDLvL~~~~~~i 446 (699)
.++..++..-++-..|+. +...|..+ +..+.+++++.. .+-.+.+||||..-+-.|+ .|||+.= .
T Consensus 6 ~~ia~~~l~s~~v~~~~~-~~~grh~vS~lV~~V~klmeEyLrrhNk~CicYGSyslhllN~~I~YgDIDilq------T 78 (149)
T PF03296_consen 6 EKIASDYLNSYNVANPSG-KVMGRHNVSDLVENVNKLMEEYLRRHNKSCICYGSYSLHLLNPNIKYGDIDILQ------T 78 (149)
T ss_dssp HHHHHHHHHHH--S--------------THHHHHHHHHHHHHHH-TTTEEEESHHHHHTTSTTS--SS-EEEE------S
T ss_pred HHHHHHHHHHhcccccCc-cccccccCcHHHHHHHHHHHHHHHhhCCCeEEeeeeeEEecCCCcccCcchhhh------c
Confidence 344455555555555554 44445443 344444444332 3566889999998776665 7999743 1
Q ss_pred chHHHHHHHHHHHhcCCCcceEEeeeeeeceEE----EecccCCeeEEEEEe
Q 005380 447 NKSEVLLKLADILQSDNLQNVQALTRARVPIVK----LMDPVTGISCDICIN 494 (699)
Q Consensus 447 ~k~e~L~kLa~iL~s~~~~~V~~I~~ARVPIIK----f~d~~tgI~VDISfn 494 (699)
+...++-.++-+++--.=.++ .--+||.+| ++|...+.-+| ||+
T Consensus 79 Nar~flI~laflI~fitG~~~---~L~kvPyLknyivlkd~~~~hIiD-sfn 126 (149)
T PF03296_consen 79 NARTFLINLAFLIKFITGRDV---VLLKVPYLKNYIVLKDEEDNHIID-SFN 126 (149)
T ss_dssp THHHHHHHHHHHHHHHCSS-E---EEEEETTSTTEEEEEETTS-EEEE-EEE
T ss_pred ccHHHHHHHHHHHhhhcCcce---EEEEchhhhceEEEEecCCCEEEE-eec
Confidence 455677777777763111122 224777654 34444444444 454
No 72
>KOG4368 consensus Predicted RNA binding protein, contains SWAP, RPR and G-patch domains [General function prediction only]
Probab=23.24 E-value=3e+02 Score=32.96 Aligned_cols=20 Identities=30% Similarity=0.476 Sum_probs=9.4
Q ss_pred hcCccccccccee-----ccccccc
Q 005380 127 IQQPNHQQQQNLR-----FGSFQVQ 146 (699)
Q Consensus 127 ~~~~~~~~~~~~~-----~~~~~~~ 146 (699)
+++++||++++.+ |--||..
T Consensus 396 ~~~~~~qq~~Q~~qp~hp~n~~ppg 420 (757)
T KOG4368|consen 396 GPFPPHQQHPQFNQPPHPFNRFPPR 420 (757)
T ss_pred CcCchhhhccccCCCCCccccCChh
Confidence 4444444444444 5555544
No 73
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=22.68 E-value=1.8e+02 Score=35.89 Aligned_cols=16 Identities=25% Similarity=0.326 Sum_probs=7.7
Q ss_pred HHHHHHHHHhhcCCCCCC
Q 005380 601 RLVWAFFNYWAYGHDYAS 618 (699)
Q Consensus 601 eLLl~FF~yYs~~FD~~~ 618 (699)
.|+-..-+||+ ||-.+
T Consensus 957 ~lye~L~eYya--Fd~kk 972 (1102)
T KOG1924|consen 957 KLYESLGEYYA--FDPKK 972 (1102)
T ss_pred HHHHHHHHHee--cCccc
Confidence 34445555555 44443
No 74
>KOG0584 consensus Serine/threonine protein kinase [General function prediction only]
Probab=22.02 E-value=76 Score=37.94 Aligned_cols=64 Identities=23% Similarity=0.522 Sum_probs=38.7
Q ss_pred eEEEecccCCeeEE-EEEecchhhhhhHHHHHHhhcChhHHHHHHHHHHHHHhcCCCCccCCCCChHHHHHHHHHHhhhc
Q 005380 477 IVKLMDPVTGISCD-ICINNLLAVVNTKLLRDYAQIDVRLQQLAFIVKHWAKSRGVNVTYQGTLSSYAYVLMCIHFLQQR 555 (699)
Q Consensus 477 IIKf~d~~tgI~VD-ISfnn~~Gi~nT~LIr~y~~~dPr~r~LvllLK~Wak~rgLn~~~~GgLSSYaL~LMVI~FLQ~~ 555 (699)
||||.+ +.++++ -+++-..-+.++--++.|.+.+-++. +.+||.||++ +|.-++||-.+
T Consensus 103 Iirfy~--SW~d~~n~~in~iTEL~TSGtLr~Y~kk~~~vn--~kaik~W~RQ----------------ILkGL~yLHs~ 162 (632)
T KOG0584|consen 103 IIRFYD--SWVDTDNKTINFITELFTSGTLREYRKKHRRVN--IKAIKSWCRQ----------------ILKGLVYLHSQ 162 (632)
T ss_pred eeeeee--heecCCCceeeeeeecccCCcHHHHHHHhccCC--HHHHHHHHHH----------------HHHHhhhhhcC
Confidence 678864 233222 24444456666666788877665443 2499999987 34456677666
Q ss_pred CCCcc
Q 005380 556 RPAIL 560 (699)
Q Consensus 556 ~P~IL 560 (699)
.|||+
T Consensus 163 ~PPII 167 (632)
T KOG0584|consen 163 DPPII 167 (632)
T ss_pred CCCcc
Confidence 66554
No 75
>PRK14109 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional
Probab=21.70 E-value=2.3e+02 Score=36.14 Aligned_cols=44 Identities=16% Similarity=0.017 Sum_probs=31.9
Q ss_pred ceEEEecceecCCCCCCCCceEEEeecCCc----cchHHHHHHHHHHH
Q 005380 416 ARLYLYGSCANSFGVSKSDIDVCLAINDSE----INKSEVLLKLADIL 459 (699)
Q Consensus 416 a~V~~FGS~aTGL~lp~SDIDLvL~~~~~~----i~k~e~L~kLa~iL 459 (699)
.-|..+|++.-+=-.+.||||++++..... ....+++.++++.+
T Consensus 724 ~avia~Gk~Gr~EL~~~SDlDl~fl~~~~~~~~~~~~~~~~~rlaq~l 771 (1007)
T PRK14109 724 IAVIGMGRLGGRELGYGSDADVMFVHEPAPGADEAEAVRWATAVAEEL 771 (1007)
T ss_pred EEEEEeccccccccCCCCCCcEEEEeCCCCCCCchhHHHHHHHHHHHH
Confidence 578999999999999999999999986422 12234555555444
No 76
>COG2844 GlnD UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=21.65 E-value=2.9e+02 Score=34.47 Aligned_cols=29 Identities=24% Similarity=0.134 Sum_probs=26.3
Q ss_pred ceEEEecceecCCCCCCCCceEEEeecCC
Q 005380 416 ARLYLYGSCANSFGVSKSDIDVCLAINDS 444 (699)
Q Consensus 416 a~V~~FGS~aTGL~lp~SDIDLvL~~~~~ 444 (699)
+-+...|.|.-|--.|-||||+.++.+..
T Consensus 67 ~aLvAVGGyGRgEL~P~SDiDlL~L~p~~ 95 (867)
T COG2844 67 LALVAVGGYGRGELHPLSDIDLLLLSPQK 95 (867)
T ss_pred eEEEEeccccccccCCCccceEEEecCCC
Confidence 67999999999999999999999988764
No 77
>COG3072 CyaA Adenylate cyclase [Nucleotide transport and metabolism]
Probab=21.08 E-value=3.5e+02 Score=32.86 Aligned_cols=54 Identities=22% Similarity=0.203 Sum_probs=37.0
Q ss_pred hhhhhHHHHHHhhcChhHHHHHHHHHHHHHhcCCCCccCCCCChHHHHHH-HHHHhhh
Q 005380 498 AVVNTKLLRDYAQIDVRLQQLAFIVKHWAKSRGVNVTYQGTLSSYAYVLM-CIHFLQQ 554 (699)
Q Consensus 498 Gi~nT~LIr~y~~~dPr~r~LvllLK~Wak~rgLn~~~~GgLSSYaL~LM-VI~FLQ~ 554 (699)
.+..+-++.+|...||..+-+.+-+|.=+..-.++ .-+|-.|+.++= |..||-.
T Consensus 265 svLK~LLlEAYs~EyPnt~llA~~fK~~l~ag~~~---~~~lDpY~~ml~~vtrYL~~ 319 (853)
T COG3072 265 SVLKTLLLEAYSWEYPNTRLLARDFKERLHAGELV---SFGLDPYCMMLERVTRYLTA 319 (853)
T ss_pred HHHHHHHHHHHhhcCCCceeehHHHHHHHhcCCcc---ccccCHHHHHHHHHHHHHHH
Confidence 44556678889999999998888888877666665 236677755443 4455544
Done!