Query 006807
Match_columns 630
No_of_seqs 195 out of 1364
Neff 5.0
Searched_HMMs 46136
Date Thu Mar 28 14:46:40 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/006807.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/006807hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG5260 TRF4 DNA polymerase si 100.0 2.7E-40 5.8E-45 356.2 20.7 236 370-626 50-286 (482)
2 KOG1906 DNA polymerase sigma [ 100.0 2.5E-33 5.5E-38 307.8 23.4 227 371-627 57-285 (514)
3 KOG2277 S-M checkpoint control 100.0 4.3E-28 9.4E-33 271.8 18.9 253 376-629 113-381 (596)
4 PTZ00418 Poly(A) polymerase; P 99.9 2E-25 4.4E-30 248.5 22.7 203 376-621 69-319 (593)
5 cd05402 NT_PAP_TUTase Nucleoti 99.9 8.7E-23 1.9E-27 183.0 13.0 113 397-509 1-114 (114)
6 KOG2245 Poly(A) polymerase and 99.9 1.9E-22 4.2E-27 218.2 17.9 203 376-621 32-281 (562)
7 COG5186 PAP1 Poly(A) polymeras 99.8 1.9E-17 4.2E-22 173.9 18.5 210 369-621 17-273 (552)
8 PF04928 PAP_central: Poly(A) 99.5 1.9E-14 4.1E-19 147.9 8.1 149 376-621 21-175 (254)
9 TIGR03671 cca_archaeal CCA-add 99.5 4.1E-13 8.9E-18 145.6 18.3 165 382-551 3-187 (408)
10 PRK13300 tRNA CCA-pyrophosphor 99.5 4.9E-13 1.1E-17 146.8 16.9 166 381-551 3-189 (447)
11 COG1746 CCA1 tRNA nucleotidylt 99.4 8.8E-12 1.9E-16 134.5 15.1 166 378-551 4-191 (443)
12 PF03828 PAP_assoc: Cid1 famil 98.5 1.1E-07 2.4E-12 76.6 3.2 32 598-629 1-32 (60)
13 PF01909 NTP_transf_2: Nucleot 98.1 9.8E-06 2.1E-10 69.4 6.8 44 402-445 1-44 (93)
14 cd05397 NT_Pol-beta-like Nucle 97.9 1.6E-05 3.4E-10 62.5 5.0 41 400-440 2-42 (49)
15 cd05400 NT_2-5OAS_ClassI-CCAas 97.9 9.8E-05 2.1E-09 68.8 10.8 93 397-491 8-106 (143)
16 cd05403 NT_KNTase_like Nucleot 97.7 0.00021 4.6E-09 60.6 8.1 45 401-445 3-48 (93)
17 PF03813 Nrap: Nrap protein; 97.0 0.014 3.1E-07 71.0 16.6 92 503-625 154-246 (972)
18 COG1708 Predicted nucleotidylt 97.0 0.0033 7.2E-08 56.1 8.0 37 405-441 16-52 (128)
19 COG1669 Predicted nucleotidylt 97.0 0.0049 1.1E-07 55.5 8.8 47 398-444 7-53 (97)
20 smart00572 DZF domain in DSRM 96.9 0.0076 1.6E-07 62.5 11.0 156 417-616 4-189 (246)
21 PRK13746 aminoglycoside resist 95.7 0.036 7.8E-07 58.1 8.1 43 402-444 13-57 (262)
22 PF07528 DZF: DZF domain; Int 95.4 0.075 1.6E-06 55.3 9.3 150 421-612 2-187 (248)
23 PF14091 DUF4269: Domain of un 94.8 0.44 9.5E-06 46.4 11.9 112 416-532 16-142 (152)
24 PF09249 tRNA_NucTransf2: tRNA 94.8 0.032 7E-07 51.6 4.0 33 519-551 3-37 (114)
25 PF10421 OAS1_C: 2'-5'-oligoad 94.3 0.08 1.7E-06 53.1 5.8 58 498-555 26-85 (190)
26 PF14792 DNA_pol_B_palm: DNA p 93.8 0.13 2.7E-06 47.3 5.6 65 399-464 8-75 (112)
27 cd00141 NT_POLXc Nucleotidyltr 91.6 2.5 5.5E-05 45.2 12.6 129 399-537 144-275 (307)
28 KOG3793 Transcription factor N 89.5 15 0.00031 39.3 15.4 68 376-443 40-115 (362)
29 PRK02098 phosphoribosyl-dephos 87.5 1.4 3E-05 45.4 6.5 40 402-443 109-154 (221)
30 TIGR03135 malonate_mdcG holo-A 87.4 1.4 3.1E-05 44.6 6.4 39 402-442 97-141 (202)
31 KOG2054 Nucleolar RNA-associat 82.9 3.8 8.1E-05 50.1 8.0 78 510-625 305-382 (1121)
32 PF03813 Nrap: Nrap protein; 80.8 7.9 0.00017 47.8 10.1 83 501-623 671-753 (972)
33 smart00483 POLXc DNA polymeras 80.4 13 0.00029 40.3 10.6 45 399-444 148-192 (334)
34 cd05401 NT_GlnE_GlnD_like Nucl 80.0 7.7 0.00017 37.4 7.9 30 415-444 55-84 (172)
35 KOG2534 DNA polymerase IV (fam 77.5 9.6 0.00021 41.4 8.2 63 400-463 156-218 (353)
36 KOG1924 RhoA GTPase effector D 74.7 10 0.00022 45.5 8.0 14 448-461 860-873 (1102)
37 PF03445 DUF294: Putative nucl 73.3 12 0.00027 35.3 7.1 29 415-443 49-77 (138)
38 PF10620 MdcG: Phosphoribosyl- 73.0 11 0.00025 38.3 7.2 42 400-443 103-150 (213)
39 COG2413 Predicted nucleotidylt 68.2 19 0.00042 36.9 7.4 45 396-443 21-65 (228)
40 PF10127 Nuc-transf: Predicted 65.0 6.3 0.00014 40.5 3.5 43 399-441 3-46 (247)
41 KOG1923 Rac1 GTPase effector F 63.4 28 0.0006 41.8 8.5 40 63-105 317-356 (830)
42 PRK08609 hypothetical protein; 59.0 1.1E+02 0.0023 35.9 12.3 119 400-537 160-281 (570)
43 KOG2054 Nucleolar RNA-associat 58.9 24 0.00051 43.6 7.1 79 501-619 807-885 (1121)
44 COG1796 POL4 DNA polymerase IV 57.9 74 0.0016 34.8 10.0 123 400-538 165-287 (326)
45 PRK01293 phosphoribosyl-dephos 55.7 37 0.00081 34.8 7.0 40 402-443 98-143 (207)
46 PRK04374 PII uridylyl-transfer 55.7 45 0.00097 41.0 8.9 28 416-443 73-100 (869)
47 PF04229 GrpB: GrpB protein; 51.5 61 0.0013 31.7 7.6 117 401-527 20-142 (167)
48 PRK00227 glnD PII uridylyl-tra 49.9 61 0.0013 38.9 8.6 48 396-443 6-55 (693)
49 PHA02603 nrdC.11 hypothetical 48.2 10 0.00022 41.4 1.7 21 418-438 6-26 (330)
50 PRK05007 PII uridylyl-transfer 44.5 88 0.0019 38.5 9.0 29 415-443 80-108 (884)
51 PF09970 DUF2204: Nucleotidyl 44.5 1.2E+02 0.0025 30.3 8.4 79 415-500 16-98 (181)
52 COG2320 GrpB Uncharacterized c 42.2 3E+02 0.0064 28.0 10.7 115 414-533 45-163 (185)
53 PRK01759 glnD PII uridylyl-tra 38.7 1E+02 0.0022 37.9 8.3 28 416-443 57-84 (854)
54 COG3541 Predicted nucleotidylt 38.6 16 0.00034 38.4 1.3 20 421-440 16-35 (248)
55 PRK00275 glnD PII uridylyl-tra 37.2 1.2E+02 0.0027 37.3 8.8 29 416-444 79-107 (895)
56 TIGR01693 UTase_glnD [Protein- 32.7 2.3E+02 0.005 34.6 10.0 30 414-443 42-71 (850)
57 cd05398 NT_ClassII-CCAase Nucl 31.7 2.5E+02 0.0053 26.6 8.1 70 414-495 15-86 (139)
58 COG3072 CyaA Adenylate cyclase 31.4 1.7E+02 0.0037 34.9 8.0 54 498-554 265-319 (853)
59 PRK03381 PII uridylyl-transfer 27.2 1.3E+02 0.0028 36.5 6.6 28 416-443 58-85 (774)
60 COG1665 Predicted nucleotidylt 26.1 67 0.0015 34.5 3.5 39 403-441 108-147 (315)
61 KOG4368 Predicted RNA binding 26.0 2.5E+02 0.0054 33.3 8.1 20 127-146 396-420 (757)
62 PHA02996 poly(A) polymerase la 25.7 1.2E+02 0.0025 34.3 5.3 96 374-480 122-226 (467)
63 KOG1924 RhoA GTPase effector D 25.7 1.5E+02 0.0032 36.3 6.4 7 83-89 589-595 (1102)
64 PF12633 Adenyl_cycl_N: Adenyl 25.2 1.1E+02 0.0023 31.5 4.7 28 416-443 98-125 (204)
65 PRK03059 PII uridylyl-transfer 24.8 2.6E+02 0.0057 34.4 8.6 29 415-443 61-89 (856)
66 PRK03333 coaE dephospho-CoA ki 22.6 1E+03 0.022 26.5 12.1 108 416-529 241-361 (395)
No 1
>COG5260 TRF4 DNA polymerase sigma [DNA replication, recombination, and repair]
Probab=100.00 E-value=2.7e-40 Score=356.22 Aligned_cols=236 Identities=33% Similarity=0.585 Sum_probs=203.9
Q ss_pred cchhhhcccHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhhCCCcEEEEecceecCCCCCCCCceEEeecCCC-ccch
Q 006807 370 CRADIGRLNAPFLAIYESLIPAEEEKAKQKKLLTLLEKLVCKEWPDARLYLYGSCANSFGVSKSDIDVCLAINDS-EINK 448 (630)
Q Consensus 370 c~~dId~L~~ell~~~~~l~PT~EE~~~Reqvl~~Le~iI~~~~P~a~V~~FGS~atGl~lp~SDIDI~L~~~~~-~i~k 448 (630)
...+.+.|+.+|.++|.+++|+.+|+++|.+++++|+.++.+.||++.+++|||+.+|++++.||||+||..+.. ..+.
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 356778899999999999999999999999999999999999999999999999999999999999999987542 2222
Q ss_pred HHHHHHHHHHHhhCCCcceEEeeeeeeceEEEecccCCeeeeEEeeccchhhchHHHHHHhhcChhhHHHHHHHHHHHHh
Q 006807 449 SEVLLKLADILQSDNLQNVQALTRARVPIVKLMDPVTGISCDICINNLLAVVNTKLLRDYAQIDVRLQQLAFIVKHWAKS 528 (630)
Q Consensus 449 ~eiL~~LakiLr~~~~~nV~~I~~ARVPIIKf~d~~tgI~~DISfnN~~Gv~nT~LL~~y~~~dPrlR~LvllVK~WAK~ 528 (630)
......+.-++.+..+..++++.+||||||||+++.+++.|||+|++..|+.+|++++.|...+|++|+|+++||||+++
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 22233334445567788899999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCcccCCCChHHHHHHHHHHhhhcCCCcccccccccccccceecCcccccccccccccCCCCCCcCCHHHHHHHHHH
Q 006807 529 RGVNVTYQGTLSSYAYVLMCIHFLQQRRPAILPCLQGMEKTYSVTVDDIECAYFDQVDKLHGFGSRNKESIGRLVWAFFN 608 (630)
Q Consensus 529 rGLnd~~~GgLSSYaLiLMVI~FLQ~~~PpILP~Lqel~~~~~~~Vd~~~~~f~d~~e~L~~~~s~N~~SLgeLLl~FF~ 608 (630)
|.|++++.|||+||++++||+.|||++.| .+..+.. . +.++ +...+..++|.||.+||+
T Consensus 210 R~ln~~~~GtL~sy~i~cmV~sfLq~~~~--~~~~~~~-----------~------~~~l--~~~~~~~~lgvLf~dFf~ 268 (482)
T COG5260 210 RALNDVATGTLSSYTISCMVLSFLQMHPP--FLFFDNG-----------L------LSPL--KYNKNIDNLGVLFDDFFE 268 (482)
T ss_pred HhhcccccCcchhhhhHHHHHHHHHhCCc--ccccccc-----------c------cchh--hccccccccchHHHHHHH
Confidence 99999999999999999999999999843 1111111 0 0111 234567899999999999
Q ss_pred HHhcCCCCCCceEEecCC
Q 006807 609 YWAYGHDYASNVISVRTG 626 (630)
Q Consensus 609 yYs~~FDy~~~VISIR~G 626 (630)
||+..|+|..-+|+|+.|
T Consensus 269 ~yG~~f~Y~~~~~si~~g 286 (482)
T COG5260 269 LYGKSFNYSLVVLSINSG 286 (482)
T ss_pred HhccccChhheEEEecCC
Confidence 999999999999999999
No 2
>KOG1906 consensus DNA polymerase sigma [Replication, recombination and repair]
Probab=100.00 E-value=2.5e-33 Score=307.79 Aligned_cols=227 Identities=30% Similarity=0.480 Sum_probs=194.3
Q ss_pred chhhhcccHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhhCCCcEEEEecceecCCCCCCCCceEEeecCCC-ccchH
Q 006807 371 RADIGRLNAPFLAIYESLIPAEEEKAKQKKLLTLLEKLVCKEWPDARLYLYGSCANSFGVSKSDIDVCLAINDS-EINKS 449 (630)
Q Consensus 371 ~~dId~L~~ell~~~~~l~PT~EE~~~Reqvl~~Le~iI~~~~P~a~V~~FGS~atGl~lp~SDIDI~L~~~~~-~i~k~ 449 (630)
....+.++.||+.+++++.|+.+|.+.|..++++|++.|.+.||++.|++|||+.||+++|+|||||++..... .....
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 45677899999999999999999999999999999999999999999999999999999999999999987632 22223
Q ss_pred HHHHHHHHHHhhCC-CcceEEeeeeeeceEEEecccCCeeeeEEeeccchhhchHHHHHHhhcChhhHHHHHHHHHHHHh
Q 006807 450 EVLLKLADILQSDN-LQNVQALTRARVPIVKLMDPVTGISCDICINNLLAVVNTKLLRDYAQIDVRLQQLAFIVKHWAKS 528 (630)
Q Consensus 450 eiL~~LakiLr~~~-~~nV~~I~~ARVPIIKf~d~~tgI~~DISfnN~~Gv~nT~LL~~y~~~dPrlR~LvllVK~WAK~ 528 (630)
.....++..++..+ -..|.+|..||||||||++..++|.||||||+.+|++.++++++|...+|.+++|++++|+|+..
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 33444555554332 34689999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCcccCCCChHHHHHHHHHHhhhcCCCcccccccccccccceecCcccccccccccccCCCCCCcCCHHHHHHHHHH
Q 006807 529 RGVNVTYQGTLSSYAYVLMCIHFLQQRRPAILPCLQGMEKTYSVTVDDIECAYFDQVDKLHGFGSRNKESIGRLVWAFFN 608 (630)
Q Consensus 529 rGLnd~~~GgLSSYaLiLMVI~FLQ~~~PpILP~Lqel~~~~~~~Vd~~~~~f~d~~e~L~~~~s~N~~SLgeLLl~FF~ 608 (630)
|++++++.||++||++++|++.|||++. .+. . ..+..+ ..++.||+.||+
T Consensus 217 r~ln~v~tGgisSyal~~Lv~~fl~l~~-~~~----s-----------------~~~~~~--------~~~~vll~~f~e 266 (514)
T KOG1906|consen 217 RRLNGVHTGGISSYALELLVLSFLQLHP-RSK----S-----------------GRLAVL--------KNLGVLLIKFFE 266 (514)
T ss_pred hcccccccccchHHHHHHHHHHHHhhcc-ccc----C-----------------Cccchh--------cccchHHHHHHH
Confidence 9999999999999999999999999972 110 0 011122 234589999999
Q ss_pred HHhcCCCCCCceEEecCCC
Q 006807 609 YWAYGHDYASNVISVRTGS 627 (630)
Q Consensus 609 yYs~~FDy~~~VISIR~G~ 627 (630)
||+.+|+|.+..|++..|+
T Consensus 267 ~yG~~f~~~k~~i~~~~~g 285 (514)
T KOG1906|consen 267 LYGRNFGYDKLGISLSLGG 285 (514)
T ss_pred HhccccCchhhceeccCCc
Confidence 9999999999999887664
No 3
>KOG2277 consensus S-M checkpoint control protein CID1 and related nucleotidyltransferases [Cell cycle control, cell division, chromosome partitioning]
Probab=99.96 E-value=4.3e-28 Score=271.85 Aligned_cols=253 Identities=36% Similarity=0.603 Sum_probs=212.8
Q ss_pred cccHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhhCCCcEEE--EecceecCCCCCCCCceEEeecCCCccc-----h
Q 006807 376 RLNAPFLAIYESLIPAEEEKAKQKKLLTLLEKLVCKEWPDARLY--LYGSCANSFGVSKSDIDVCLAINDSEIN-----K 448 (630)
Q Consensus 376 ~L~~ell~~~~~l~PT~EE~~~Reqvl~~Le~iI~~~~P~a~V~--~FGS~atGl~lp~SDIDI~L~~~~~~i~-----k 448 (630)
-|+..+...++...+.......+......++.++...+|..... +|||..++++...+|+|+|+.+.....+ .
T Consensus 113 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~gs~~~~~~~~~~d~d~~~~~~~~~~~~~~~~~ 192 (596)
T KOG2277|consen 113 FLDPQLNELLESFKLPHSDVKTRKLILDKLRALASLLFPDSILSLYLFGSSDLGLGERSSDLDLCVDFTSSFLSFEKIKG 192 (596)
T ss_pred hhchhhhhhhhccCCCccccchHHHHHHHHHHHHHHhcCCCcceeeccCcccccccccccCcceeecccccccccchhhh
Confidence 47777888899999999999999999999999999999976655 9999999999999999988877654222 3
Q ss_pred HHHHHHHHHHHhhCC---CcceEEeeeeeeceEEEecccCCeeeeEEeeccchhhchHHHHHHhhcChhhHHHHHHHHHH
Q 006807 449 SEVLLKLADILQSDN---LQNVQALTRARVPIVKLMDPVTGISCDICINNLLAVVNTKLLRDYAQIDVRLQQLAFIVKHW 525 (630)
Q Consensus 449 ~eiL~~LakiLr~~~---~~nV~~I~~ARVPIIKf~d~~tgI~~DISfnN~~Gv~nT~LL~~y~~~dPrlR~LvllVK~W 525 (630)
..++..+++++.... +..++.+..|||||||+.|..++++||++++|..++.||.+++.|..+|+++++|+++||+|
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 456667777776532 67888999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhcCCCCcccCCCC-hHHHHHHHHHHhhhcCCCccccccccccccc----ceec-CcccccccccccccCCCCCCcCCH
Q 006807 526 AKSRGVNVTYQGTLS-SYAYVLMCIHFLQQRRPAILPCLQGMEKTYS----VTVD-DIECAYFDQVDKLHGFGSRNKESI 599 (630)
Q Consensus 526 AK~rGLnd~~~GgLS-SYaLiLMVI~FLQ~~~PpILP~Lqel~~~~~----~~Vd-~~~~~f~d~~e~L~~~~s~N~~SL 599 (630)
|++++++++..|+++ +|++++|||||||...|+|+|.+.++..... ..++ .+.|.+........ ....+..++
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 999999999999998 5999999999999999999999988765431 1122 23444433322221 245678899
Q ss_pred HHHHHHHHHHHhcCCCCCCceEEecCCCcC
Q 006807 600 GRLVWAFFNYWAYGHDYASNVISVRTGSTI 629 (630)
Q Consensus 600 geLLl~FF~yYs~~FDy~~~VISIR~G~il 629 (630)
++|+++||.||+..|||.+.+|++|.|..+
T Consensus 352 ~~l~~~f~~yy~~~Fdf~~~~I~~r~~~~l 381 (596)
T KOG2277|consen 352 GELLLGFFSYYASLFDFRKNAISIRRGRAL 381 (596)
T ss_pred HHHHHHHHHHHhhhcccccceeeeeecccc
Confidence 999999999999889999999999998765
No 4
>PTZ00418 Poly(A) polymerase; Provisional
Probab=99.94 E-value=2e-25 Score=248.46 Aligned_cols=203 Identities=23% Similarity=0.363 Sum_probs=176.4
Q ss_pred cccHHHHHHHHH--cCCCHHHHHHHHHHHHHHHHHHHhh---------C-------CCcEEEEecceecCCCCCCCCceE
Q 006807 376 RLNAPFLAIYES--LIPAEEEKAKQKKLLTLLEKLVCKE---------W-------PDARLYLYGSCANSFGVSKSDIDV 437 (630)
Q Consensus 376 ~L~~ell~~~~~--l~PT~EE~~~Reqvl~~Le~iI~~~---------~-------P~a~V~~FGS~atGl~lp~SDIDI 437 (630)
+.+.+|+++++. +.|++||.++|++++..|++++++. . ..++|++||||..|++.|+||||+
T Consensus 69 ~~s~~L~~~L~~~~~fes~ee~~kR~~vL~~L~~iv~~wv~~vs~~k~~~~~~~~~~~g~I~tfGSYrLGV~~pgSDID~ 148 (593)
T PTZ00418 69 KLSNELINLLKSYNLYETEEGKKKRERVLGSLNKLVREFVVEASIEQGINEEEASQISGKLFTFGSYRLGVVAPGSDIDT 148 (593)
T ss_pred hhhHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCChhHHhcCCeEEEEeccccccCCCCCCcccE
Confidence 467788888876 6799999999999999999999652 1 247999999999999999999998
Q ss_pred EeecCCCccchHHHHHHHHHHHhh-CCCcceEEeeeeeeceEEEecccCCeeeeEEeec---------------------
Q 006807 438 CLAINDSEINKSEVLLKLADILQS-DNLQNVQALTRARVPIVKLMDPVTGISCDICINN--------------------- 495 (630)
Q Consensus 438 ~L~~~~~~i~k~eiL~~LakiLr~-~~~~nV~~I~~ARVPIIKf~d~~tgI~~DISfnN--------------------- 495 (630)
+++.|.. +.+.+++..+.++|++ .+++++..|..|+||||||. ..||+|||.|..
T Consensus 149 L~V~P~~-vtredFF~~f~~~L~~~~~V~eL~~V~~A~VPiIk~~--~~GI~iDL~fa~l~~~~vp~~~~~l~d~~lL~n 225 (593)
T PTZ00418 149 LCLAPRH-ITRESFFSDFYAKLQQDPNITKLQPVPDAYTPVIKFV--YDGIDIDLLFANLPLPTIPDCLNSLDDDYILRN 225 (593)
T ss_pred EEECCCC-CCHHHHHHHHHHHHhcCCCcceeeccCccccCeEEEE--ECCEEEeeeecccCCCCCCccccccCchhhhhc
Confidence 8877753 5677888889998886 46888999999999999998 579999998851
Q ss_pred --------cchhhchHHHHHHhhcChhhHHHHHHHHHHHHhcCCCCcccCCCChHHHHHHHHHHhhhcCCCccccccccc
Q 006807 496 --------LLAVVNTKLLRDYAQIDVRLQQLAFIVKHWAKSRGVNVTYQGTLSSYAYVLMCIHFLQQRRPAILPCLQGME 567 (630)
Q Consensus 496 --------~~Gv~nT~LL~~y~~~dPrlR~LvllVK~WAK~rGLnd~~~GgLSSYaLiLMVI~FLQ~~~PpILP~Lqel~ 567 (630)
.+|++.+..|...+.....||.++++||+|||+||||.+..|+||+.+|++||...||.. |
T Consensus 226 lde~s~rSLNG~Rvtd~Il~lVPn~~~Fr~aLR~IKlWAkrRGIYsNv~GflGGV~wAILvARVCQLy-P---------- 294 (593)
T PTZ00418 226 VDEKTVRSLNGCRVADLILASVPNKDYFRTTLRFIKLWAKRRGIYSNVLGYLGGVSWAILTARICQLY-P---------- 294 (593)
T ss_pred CCHHHhhhhccHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccccccccccchHHHHHHHHHHHHhC-C----------
Confidence 167788889999888888999999999999999999999999999999999999999986 2
Q ss_pred ccccceecCcccccccccccccCCCCCCcCCHHHHHHHHHHHHhcCCCCCCceE
Q 006807 568 KTYSVTVDDIECAYFDQVDKLHGFGSRNKESIGRLVWAFFNYWAYGHDYASNVI 621 (630)
Q Consensus 568 ~~~~~~Vd~~~~~f~d~~e~L~~~~s~N~~SLgeLLl~FF~yYs~~FDy~~~VI 621 (630)
..+.+.|+..||.+|+ .|+|.+.|.
T Consensus 295 ----------------------------na~~s~Lv~~FF~iys-~W~Wp~PV~ 319 (593)
T PTZ00418 295 ----------------------------NFAPSQLIHKFFRVYS-IWNWKNPVL 319 (593)
T ss_pred ----------------------------CCCHHHHHHHHHHHhh-cCCCCCCeE
Confidence 1246689999999999 899999864
No 5
>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=8.7e-23 Score=182.96 Aligned_cols=113 Identities=40% Similarity=0.697 Sum_probs=104.0
Q ss_pred HHHHHHHHHHHHHHhhCCCcEEEEecceecCCCCCCCCceEEeecCCCccchHHHHHHHHHHHhhCC-CcceEEeeeeee
Q 006807 397 KQKKLLTLLEKLVCKEWPDARLYLYGSCANSFGVSKSDIDVCLAINDSEINKSEVLLKLADILQSDN-LQNVQALTRARV 475 (630)
Q Consensus 397 ~Reqvl~~Le~iI~~~~P~a~V~~FGS~atGl~lp~SDIDI~L~~~~~~i~k~eiL~~LakiLr~~~-~~nV~~I~~ARV 475 (630)
.|++++++|++++++.+|++++++|||+++|+++++||||++|..+.......+++..+++.|++.. +.++..|.+|||
T Consensus 1 ~r~~i~~~l~~~i~~~~~~~~v~~fGS~~~g~~~~~SDiDl~i~~~~~~~~~~~~l~~l~~~l~~~~~~~~~~~i~~ArV 80 (114)
T cd05402 1 KREEVLDRLQELIKEWFPGAKLYPFGSYVTGLGLPGSDIDLCLLGPNHRVDREDFLRKLAKLLKKSGEVVEVEPIINARV 80 (114)
T ss_pred CHHHHHHHHHHHHHHHCCCCEEEEecccccCCCCCCCCeeEEEEeCCCCccHHHHHHHHHHHHHhCCCceeeEEeccCCC
Confidence 3789999999999999999999999999999999999999999987643456789999999998765 678999999999
Q ss_pred ceEEEecccCCeeeeEEeeccchhhchHHHHHHh
Q 006807 476 PIVKLMDPVTGISCDICINNLLAVVNTKLLRDYA 509 (630)
Q Consensus 476 PIIKf~d~~tgI~~DISfnN~~Gv~nT~LL~~y~ 509 (630)
|||||++..+|+.|||||+|.+|+.||++++.|+
T Consensus 81 Piik~~~~~~~i~~Dis~~~~~g~~~s~li~~y~ 114 (114)
T cd05402 81 PIIKFVDKPTGIEVDISFNNLNGIRNTKLLRAYV 114 (114)
T ss_pred CEEEEEEcCCCeEEEEEcccchHHHHHHHHHHhC
Confidence 9999999999999999999999999999999985
No 6
>KOG2245 consensus Poly(A) polymerase and related nucleotidyltransferases [RNA processing and modification]
Probab=99.89 E-value=1.9e-22 Score=218.15 Aligned_cols=203 Identities=22% Similarity=0.368 Sum_probs=172.7
Q ss_pred cccHHHHHHHHH--cCCCHHHHHHHHHHHHHHHHHHHhh---------CC-------CcEEEEecceecCCCCCCCCceE
Q 006807 376 RLNAPFLAIYES--LIPAEEEKAKQKKLLTLLEKLVCKE---------WP-------DARLYLYGSCANSFGVSKSDIDV 437 (630)
Q Consensus 376 ~L~~ell~~~~~--l~PT~EE~~~Reqvl~~Le~iI~~~---------~P-------~a~V~~FGS~atGl~lp~SDIDI 437 (630)
+++.++++.++. +..++||...|..++..|+.++++. +| +++|+.||||..|+..+++|||-
T Consensus 32 ~lt~~L~~~L~~~g~fEs~eEt~~R~~VL~~L~~iVk~wVk~vs~~k~~p~~~~~~aggkIftfGSYRLGVhg~GADIDt 111 (562)
T KOG2245|consen 32 ALTQELIKTLKNEGLFESKEETQRREEVLGKLNQIVKEWVKKVSEQKGLPDGMIENAGGKIFTFGSYRLGVHGPGADIDT 111 (562)
T ss_pred HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCChhhhhhcCceEEeccceeecccCCCCCcce
Confidence 467777777664 6689999999999999999998643 23 47999999999999999999996
Q ss_pred EeecCCCccchHHHHHHHHHHHhh-CCCcceEEeeeeeeceEEEecccCCeeeeEEee----------------------
Q 006807 438 CLAINDSEINKSEVLLKLADILQS-DNLQNVQALTRARVPIVKLMDPVTGISCDICIN---------------------- 494 (630)
Q Consensus 438 ~L~~~~~~i~k~eiL~~LakiLr~-~~~~nV~~I~~ARVPIIKf~d~~tgI~~DISfn---------------------- 494 (630)
.++.|.. .++.+++..+.+.|++ ..++++..+..|.||||||. ..||++||-|.
T Consensus 112 LcV~Prh-v~R~DFF~sf~~mL~~~~eVteL~~V~dAfVPiikfK--f~GI~IDllfArL~l~~VP~dldl~ddslLknl 188 (562)
T KOG2245|consen 112 LCVGPRH-VSRSDFFTSFYDMLKERPEVTELHAVEDAFVPIIKFK--FDGIEIDLLFARLALPVVPEDLDLSDDSLLKNL 188 (562)
T ss_pred eeecccc-ccHHHHHHHHHHHHhcCccccccccccccccceEEEE--ecCeeeeeeehhcccccCCCcccccchHhhhcc
Confidence 5555543 5778999999999986 56889999999999999997 68999999553
Q ss_pred ------ccchhhchHHHHHHhhcChhhHHHHHHHHHHHHhcCCCCcccCCCChHHHHHHHHHHhhhcCCCcccccccccc
Q 006807 495 ------NLLAVVNTKLLRDYAQIDVRLQQLAFIVKHWAKSRGVNVTYQGTLSSYAYVLMCIHFLQQRRPAILPCLQGMEK 568 (630)
Q Consensus 495 ------N~~Gv~nT~LL~~y~~~dPrlR~LvllVK~WAK~rGLnd~~~GgLSSYaLiLMVI~FLQ~~~PpILP~Lqel~~ 568 (630)
..+|++-|.-|..++.....||..++.||+|||+||||.+..|+||+.+|.+||+..||.+ |..
T Consensus 189 De~~vrSLNGcRVtdqiL~LVPn~~~F~~tLRaiKlWAKrrgVYsN~~GF~GGV~wA~LVARiCQLY-PNA--------- 258 (562)
T KOG2245|consen 189 DERCVRSLNGCRVTDQILKLVPNQENFRITLRAIKLWAKRRGVYSNVMGFLGGVAWAMLVARICQLY-PNA--------- 258 (562)
T ss_pred cHHHHHHhcCcCHHHHHHHhCCCHHHHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHccC-CCc---------
Confidence 3367777777777777777999999999999999999999999999999999999999986 322
Q ss_pred cccceecCcccccccccccccCCCCCCcCCHHHHHHHHHHHHhcCCCCCCceE
Q 006807 569 TYSVTVDDIECAYFDQVDKLHGFGSRNKESIGRLVWAFFNYWAYGHDYASNVI 621 (630)
Q Consensus 569 ~~~~~Vd~~~~~f~d~~e~L~~~~s~N~~SLgeLLl~FF~yYs~~FDy~~~VI 621 (630)
+...|+..||.-|+ +|+|.+.|+
T Consensus 259 -----------------------------~~s~Lv~kfF~ifs-~W~WP~PVl 281 (562)
T KOG2245|consen 259 -----------------------------SPSTLVAKFFRVFS-QWNWPNPVL 281 (562)
T ss_pred -----------------------------chHHHHHHHHHHHh-hccCCCceE
Confidence 34579999999999 899999887
No 7
>COG5186 PAP1 Poly(A) polymerase [RNA processing and modification]
Probab=99.76 E-value=1.9e-17 Score=173.92 Aligned_cols=210 Identities=21% Similarity=0.314 Sum_probs=169.8
Q ss_pred ccchhhhcccHHHHHHHHH--cCCCHHHHHHHHHHHHHHHHHHHhhC----------------CCcEEEEecceecCCCC
Q 006807 369 ECRADIGRLNAPFLAIYES--LIPAEEEKAKQKKLLTLLEKLVCKEW----------------PDARLYLYGSCANSFGV 430 (630)
Q Consensus 369 ~c~~dId~L~~ell~~~~~--l~PT~EE~~~Reqvl~~Le~iI~~~~----------------P~a~V~~FGS~atGl~l 430 (630)
+.+++.-+|+.+++.-++. +.-++.|-+.|.+++..|+.++++.. .+.+++.||||..|+..
T Consensus 17 ~aTe~En~Ln~~li~eLk~~g~FE~~~E~~~Rv~VL~~Lq~~~~eFV~~vs~~K~m~dgmar~aGGKIFTyGSYRLGVhg 96 (552)
T COG5186 17 EATEEENRLNGELIKELKERGFFEDDKEGQTRVRVLGKLQFMVREFVARVSRNKGMGDGMARPAGGKIFTYGSYRLGVHG 96 (552)
T ss_pred cccHHHhhhhHHHHHHHHHcCCcCCchhhhhHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCCceeeeecceeeeccC
Confidence 4556666788888876654 56688899999999999998886532 13689999999999999
Q ss_pred CCCCceEEeecCCCccchHHHHHHHHHHHhh-CCCcceEEeeeeeeceEEEecccCCeeeeEEeecc-------------
Q 006807 431 SKSDIDVCLAINDSEINKSEVLLKLADILQS-DNLQNVQALTRARVPIVKLMDPVTGISCDICINNL------------- 496 (630)
Q Consensus 431 p~SDIDI~L~~~~~~i~k~eiL~~LakiLr~-~~~~nV~~I~~ARVPIIKf~d~~tgI~~DISfnN~------------- 496 (630)
|+||||-.+++|.. .++.+++..+...|+. ..+.++..+..|-|||||+. ..||.+|+-|...
T Consensus 97 pGsDIDtLvvVPkH-VsR~dFFt~f~~~Lrer~ei~eva~vpDAfVPIIK~K--F~GIsIDLifARLs~P~Vp~~l~Lsd 173 (552)
T COG5186 97 PGSDIDTLVVVPKH-VSRSDFFTHFYEELRERPEIEEVAKVPDAFVPIIKLK--FQGISIDLIFARLSIPVVPDGLNLSD 173 (552)
T ss_pred CCCCcceEEEeccc-ccHHHHHHHHHHHhccCcchhhhccCCcccceeEEEE--ecCccceeeeeeccCCcCCCcccccc
Confidence 99999977767654 5778899999999986 46788999999999999997 6899999977532
Q ss_pred ---------------chhhchHHHHHHhhcChhhHHHHHHHHHHHHhcCCCCcccCCCChHHHHHHHHHHhhhcCCCccc
Q 006807 497 ---------------LAVVNTKLLRDYAQIDVRLQQLAFIVKHWAKSRGVNVTYQGTLSSYAYVLMCIHFLQQRRPAILP 561 (630)
Q Consensus 497 ---------------~Gv~nT~LL~~y~~~dPrlR~LvllVK~WAK~rGLnd~~~GgLSSYaLiLMVI~FLQ~~~PpILP 561 (630)
+|-+-|.-|..++..-..|+..++.||+||++|.++.+..|..++.+|.+||...||.. |.
T Consensus 174 ~nLLk~~dEkcilsLNGtRVTDeiL~LVP~~~vF~~ALRaIK~WAqRRavYaN~~GfpGGVAwam~VARiCQLY-PN--- 249 (552)
T COG5186 174 DNLLKSMDEKCILSLNGTRVTDEILNLVPSVKVFHSALRAIKYWAQRRAVYANPYGFPGGVAWAMCVARICQLY-PN--- 249 (552)
T ss_pred hhhhhcchHHHHHhhcCceehHHHHHhCCchHHHHHHHHHHHHHHHhhhhhccccCCcchHHHHHHHHHHHhhc-cC---
Confidence 23333444444444455789999999999999999999999999999999999999986 21
Q ss_pred ccccccccccceecCcccccccccccccCCCCCCcCCHHHHHHHHHHHHhcCCCCCCceE
Q 006807 562 CLQGMEKTYSVTVDDIECAYFDQVDKLHGFGSRNKESIGRLVWAFFNYWAYGHDYASNVI 621 (630)
Q Consensus 562 ~Lqel~~~~~~~Vd~~~~~f~d~~e~L~~~~s~N~~SLgeLLl~FF~yYs~~FDy~~~VI 621 (630)
.+-..++..||..++ .|+|...||
T Consensus 250 -----------------------------------A~S~vIv~kFF~ils-~WnWPqPvi 273 (552)
T COG5186 250 -----------------------------------ASSFVIVCKFFEILS-SWNWPQPVI 273 (552)
T ss_pred -----------------------------------cchHhHHHHHHHHHH-hcCCCCCeE
Confidence 112368999999999 899999988
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=99.52 E-value=1.9e-14 Score=147.91 Aligned_cols=149 Identities=21% Similarity=0.333 Sum_probs=109.1
Q ss_pred cccHHHHHHHHHc--CCCHHHHHHHHHHHHHHHHHHHhhCCCcEEEEecceecCCCCCCCCceEEeecCCCccchHHHHH
Q 006807 376 RLNAPFLAIYESL--IPAEEEKAKQKKLLTLLEKLVCKEWPDARLYLYGSCANSFGVSKSDIDVCLAINDSEINKSEVLL 453 (630)
Q Consensus 376 ~L~~ell~~~~~l--~PT~EE~~~Reqvl~~Le~iI~~~~P~a~V~~FGS~atGl~lp~SDIDI~L~~~~~~i~k~eiL~ 453 (630)
+.+.+|+++++.. .||+||.++|++++..|++++++....
T Consensus 21 ~~s~~L~~~l~~~~~~es~ee~~~R~~vl~~L~~iv~~wv~~-------------------------------------- 62 (254)
T PF04928_consen 21 KRSASLEEFLKDYGLFESEEEEQKREEVLRKLQQIVKEWVKQ-------------------------------------- 62 (254)
T ss_dssp HHHHHHHHHHHHCT-S--HHHHHHHHHHHHHHHHHHHHHHHH--------------------------------------
T ss_pred HhHHHHHHHHHHcCCCCChHHHhHHHHHHHHHHHHHHHHHHh--------------------------------------
Confidence 4567888888875 789999999999999999999876433
Q ss_pred HHHHHHhhCCCcceEEeeeeeec-eEEEecccCCeeee---EEeeccchhhchHHHHHHhhcChhhHHHHHHHHHHHHhc
Q 006807 454 KLADILQSDNLQNVQALTRARVP-IVKLMDPVTGISCD---ICINNLLAVVNTKLLRDYAQIDVRLQQLAFIVKHWAKSR 529 (630)
Q Consensus 454 ~LakiLr~~~~~nV~~I~~ARVP-IIKf~d~~tgI~~D---ISfnN~~Gv~nT~LL~~y~~~dPrlR~LvllVK~WAK~r 529 (630)
...++| .+.+.+. .+-.| .|+...+|++.+.+|...+.....||.++++||+|||+|
T Consensus 63 -----------------~~~~~p~~l~~~~~--~~l~~ld~~s~~sLnG~Rv~~~il~~Vp~~~~Fr~~lR~IK~WAk~R 123 (254)
T PF04928_consen 63 -----------------ALPRVPEDLDLLDD--DPLRNLDEASVRSLNGVRVTDYILRLVPNQETFRTALRFIKLWAKRR 123 (254)
T ss_dssp -----------------SSSSB-TT--TT-G--GGGTT--HHHHHHHHHHHHHHHHHCTSS-HHHHHHHHHHHHHHHHHT
T ss_pred -----------------hhcCCCcccccCCc--hhhhCCCHhhccCcccccHHHHHHHHCCCHHHHHHHHHHHHHHHHHc
Confidence 122222 2222211 11111 245567899999999999988899999999999999999
Q ss_pred CCCCcccCCCChHHHHHHHHHHhhhcCCCcccccccccccccceecCcccccccccccccCCCCCCcCCHHHHHHHHHHH
Q 006807 530 GVNVTYQGTLSSYAYVLMCIHFLQQRRPAILPCLQGMEKTYSVTVDDIECAYFDQVDKLHGFGSRNKESIGRLVWAFFNY 609 (630)
Q Consensus 530 GLnd~~~GgLSSYaLiLMVI~FLQ~~~PpILP~Lqel~~~~~~~Vd~~~~~f~d~~e~L~~~~s~N~~SLgeLLl~FF~y 609 (630)
||+++..|+||+++|++||+..||.. | ..+.+.||..||.+
T Consensus 124 GIYsn~~GylGGI~waILvArvcql~-P--------------------------------------n~~~~~ll~~FF~~ 164 (254)
T PF04928_consen 124 GIYSNVFGYLGGIHWAILVARVCQLY-P--------------------------------------NASPSTLLSRFFQI 164 (254)
T ss_dssp T-B-CCCTSB-HHHHHHHHHHHHHHS-T--------------------------------------T--HHHHHHHHHHH
T ss_pred cccchhhccchHHHHHHHHHHHHHHC-c--------------------------------------cccccchHHHHHHH
Confidence 99999999999999999999999996 2 12466899999999
Q ss_pred HhcCCCCCCceE
Q 006807 610 WAYGHDYASNVI 621 (630)
Q Consensus 610 Ys~~FDy~~~VI 621 (630)
|+ .|||.+.|+
T Consensus 165 ys-~W~W~~PV~ 175 (254)
T PF04928_consen 165 YS-QWDWPNPVV 175 (254)
T ss_dssp HH-CS-TTS-EE
T ss_pred hc-CCCCCCcee
Confidence 99 899999755
No 9
>TIGR03671 cca_archaeal CCA-adding enzyme.
Probab=99.51 E-value=4.1e-13 Score=145.62 Aligned_cols=165 Identities=25% Similarity=0.292 Sum_probs=122.0
Q ss_pred HHHHHHcCCCHHHHHHHHHHHHHHHHHH----HhhCCCcEEEEecceecCCCCC-CCCceEEeecCCCccchH---HHHH
Q 006807 382 LAIYESLIPAEEEKAKQKKLLTLLEKLV----CKEWPDARLYLYGSCANSFGVS-KSDIDVCLAINDSEINKS---EVLL 453 (630)
Q Consensus 382 l~~~~~l~PT~EE~~~Reqvl~~Le~iI----~~~~P~a~V~~FGS~atGl~lp-~SDIDI~L~~~~~~i~k~---eiL~ 453 (630)
.+.++.+.||++|.+..+.+.+.|...| .+..+.+++++|||++.|++++ +|||||+|.++.. .... +...
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 EEVLERIKPTEEEREKLKKVADELIARLEEIIEELGVDAEVVLVGSYARGTWLKGDRDIDIFILFPKD-TSREELEEYGL 81 (408)
T ss_pred HHHhhhcCCCHHHHHHHHHHHHHHHHHHHHHHHhcCCcceEEEEeeEecCCccCCCCceeEEEEeCCC-CCHHHHHHHHH
Confidence 4678899999999887776665555554 4555679999999999999999 8999999998643 2221 2223
Q ss_pred HHHHHHhhCCCcceEEeeeeeeceEEEecccCCeeeeE--Eeecc------chhhchHHHHHHhh--cChhhHHHHHHHH
Q 006807 454 KLADILQSDNLQNVQALTRARVPIVKLMDPVTGISCDI--CINNL------LAVVNTKLLRDYAQ--IDVRLQQLAFIVK 523 (630)
Q Consensus 454 ~LakiLr~~~~~nV~~I~~ARVPIIKf~d~~tgI~~DI--SfnN~------~Gv~nT~LL~~y~~--~dPrlR~LvllVK 523 (630)
.|+..+.+.+. . .....|..|.|+... .|++||| |+.-. .++.-|.+...|+. ++..++..|+++|
T Consensus 82 ~i~~~~~~~~~-~-~~~~yaeHpYv~~~~--~G~~VDiVPcy~v~~g~~~~taVDRtp~H~~fv~~rl~~~~~d~VRLlK 157 (408)
T TIGR03671 82 EIGHEVLKRGG-N-YEERYAEHPYVSGEI--EGFEVDVVPCYKVESGEEIISAVDRTPFHTRYVLERLDGKLRDDVRLLK 157 (408)
T ss_pred HHHHHHHhhCC-C-HhheeccCceEEEEE--ccEEEEEEeeEEccCcCeeeccccCchHHHHHHHHhhhhhHHHHHHHHH
Confidence 34444432221 1 126789999999974 4999999 44322 34445667666664 4556899999999
Q ss_pred HHHHhcCCCCc--ccCCCChHHHHHHHHHH
Q 006807 524 HWAKSRGVNVT--YQGTLSSYAYVLMCIHF 551 (630)
Q Consensus 524 ~WAK~rGLnd~--~~GgLSSYaLiLMVI~F 551 (630)
.|+|..|++++ +.+|||||.+-|||++|
T Consensus 158 ~f~k~igvYGsE~~~~GFSGYl~ELLv~~y 187 (408)
T TIGR03671 158 QFLKGIGVYGSELKTRGFSGYLCELLVIHY 187 (408)
T ss_pred HHHHhCCccchhhccCCccHHHHHHHHHHh
Confidence 99999999976 68899999999999997
No 10
>PRK13300 tRNA CCA-pyrophosphorylase; Provisional
Probab=99.49 E-value=4.9e-13 Score=146.76 Aligned_cols=166 Identities=26% Similarity=0.324 Sum_probs=121.7
Q ss_pred HHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhhC----CCcEEEEecceecCCCCC-CCCceEEeecCCCccchHHHHHH-
Q 006807 381 FLAIYESLIPAEEEKAKQKKLLTLLEKLVCKEW----PDARLYLYGSCANSFGVS-KSDIDVCLAINDSEINKSEVLLK- 454 (630)
Q Consensus 381 ll~~~~~l~PT~EE~~~Reqvl~~Le~iI~~~~----P~a~V~~FGS~atGl~lp-~SDIDI~L~~~~~~i~k~eiL~~- 454 (630)
+.++++.+.|+++|.+......+.|...|++.. .+++++++||++.|++++ +|||||+|.++.. ... +.|..
T Consensus 3 ~~evl~~i~Ps~eE~~~l~~~~~~l~~~L~~~~~~~~~~~~V~l~GS~ArgT~L~GdsDIDIFv~fp~~-~~~-e~L~~~ 80 (447)
T PRK13300 3 LEEVLERIKPTEEEREKLKKVAEELIERLEEAIKELGLDAEVELVGSTARGTWLSGDRDIDIFVLFPKD-TSR-EELEEK 80 (447)
T ss_pred HHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHhcCCceEEEEEeeecCCcccCCCCceeEEEEeCCC-CCH-HHHHHH
Confidence 456889999999999887777777666665532 249999999999999999 7899999998653 222 23333
Q ss_pred ---HHHHHhhCCCcceEEeeeeeeceEEEecccCCeeeeE--Eeecc------chhhchHHHHHHhh--cChhhHHHHHH
Q 006807 455 ---LADILQSDNLQNVQALTRARVPIVKLMDPVTGISCDI--CINNL------LAVVNTKLLRDYAQ--IDVRLQQLAFI 521 (630)
Q Consensus 455 ---LakiLr~~~~~nV~~I~~ARVPIIKf~d~~tgI~~DI--SfnN~------~Gv~nT~LL~~y~~--~dPrlR~Lvll 521 (630)
++..+.+.-..+- .+..|..|.|+..- .|++||| |+.-. .++.-|.+...|+. ++..++..|++
T Consensus 81 gl~i~~~~~~~~~~~~-~~~yaeHpyv~~~~--~G~~VDiVPcy~v~~~~~~~saVDRtp~H~~fv~~rl~~~~~d~VRL 157 (447)
T PRK13300 81 GLEIGKEVAKELLGDY-EERYAEHPYVTGEI--DGFEVDIVPCYKVESGEEIISAVDRTPFHTKYVKERLKGKLEDEVRL 157 (447)
T ss_pred HHHHHHHHHHhhCCcc-eeeeccCceEEEEE--CCEEEEEEeeEEccCcCcccccccCchHHHHHHHHhhhhhHHHHHHH
Confidence 3333322101111 23369999999974 5999999 34322 34555677777764 45569999999
Q ss_pred HHHHHHhcCCCCc--ccCCCChHHHHHHHHHH
Q 006807 522 VKHWAKSRGVNVT--YQGTLSSYAYVLMCIHF 551 (630)
Q Consensus 522 VK~WAK~rGLnd~--~~GgLSSYaLiLMVI~F 551 (630)
+|.|+|..|++++ +.+|||||.+-|||++|
T Consensus 158 lK~f~k~~gvYGsE~k~~GFSGYl~ELLv~~y 189 (447)
T PRK13300 158 LKQFLKGIGVYGSELKTRGFSGYLCELLIIHY 189 (447)
T ss_pred HHHHHHhCCccchhhccCCccHHHHHHHHHHh
Confidence 9999999999976 68999999999999997
No 11
>COG1746 CCA1 tRNA nucleotidyltransferase (CCA-adding enzyme) [Translation, ribosomal structure and biogenesis]
Probab=99.36 E-value=8.8e-12 Score=134.51 Aligned_cols=166 Identities=26% Similarity=0.330 Sum_probs=128.7
Q ss_pred cHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHh----hCCCcEEEEecceecCCCCC-CCCceEEeecCCCccchHHHH
Q 006807 378 NAPFLAIYESLIPAEEEKAKQKKLLTLLEKLVCK----EWPDARLYLYGSCANSFGVS-KSDIDVCLAINDSEINKSEVL 452 (630)
Q Consensus 378 ~~ell~~~~~l~PT~EE~~~Reqvl~~Le~iI~~----~~P~a~V~~FGS~atGl~lp-~SDIDI~L~~~~~~i~k~eiL 452 (630)
...+.++++.+.|++||.++-+.+.+.|...+++ .-.++.+.++||++-|++++ +.||||.|.++.. ..+ +.|
T Consensus 4 ~~~l~evl~~i~P~~eE~~~~~~~~e~l~~~~~~~~~e~~~~aev~lVGS~AkgTwL~gd~DIDvFi~Fp~d-~~~-eel 81 (443)
T COG1746 4 EEVLEEVLKRIKPTEEERKKLKEVAEELRERINEIIEELGIDAEVVLVGSYAKGTWLRGDHDIDVFIAFPKD-TSE-EEL 81 (443)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHhcCCcceEEEEeecccCcccCCCcceeEEEECCCC-CCH-HHH
Confidence 3456788999999999999888777766666554 44589999999999999999 6799999999764 232 333
Q ss_pred HHH-----HHHHhhCCCcceEEeeeeeeceEEEecccCCeeeeE--Eeec------cchhhchHHHHHHhh--cChhhHH
Q 006807 453 LKL-----ADILQSDNLQNVQALTRARVPIVKLMDPVTGISCDI--CINN------LLAVVNTKLLRDYAQ--IDVRLQQ 517 (630)
Q Consensus 453 ~~L-----akiLr~~~~~nV~~I~~ARVPIIKf~d~~tgI~~DI--SfnN------~~Gv~nT~LL~~y~~--~dPrlR~ 517 (630)
... ..+|.. + --.+..|..|.|... ..|++||| |+.- ..++.-|.|...|+. ++.+.+.
T Consensus 82 ~~~GL~ig~~~l~~-~---~~~~~YAeHPYV~g~--v~G~eVDvVPCy~v~~~~~~~sAVDRTplHt~yv~e~L~~~~~d 155 (443)
T COG1746 82 EEKGLEIGREVLKR-G---NYEERYAEHPYVTGE--VDGYEVDVVPCYKVEDGEKIISAVDRTPLHTRYVEEHLKGRQKD 155 (443)
T ss_pred HHHHHHHHHHHhcC-C---chhhhhccCCeeEEE--EccEEEEEEecccccCcccccccccCcchhHHHHHHHhcccchh
Confidence 322 233432 1 124679999999987 46999999 3332 356777888888874 6678888
Q ss_pred HHHHHHHHHHhcCCCCc--ccCCCChHHHHHHHHHH
Q 006807 518 LAFIVKHWAKSRGVNVT--YQGTLSSYAYVLMCIHF 551 (630)
Q Consensus 518 LvllVK~WAK~rGLnd~--~~GgLSSYaLiLMVI~F 551 (630)
=|+++|.++|.-|++++ +.+|||+|.+-||||+|
T Consensus 156 eVrLLK~FlK~iGvYGaE~rt~GFSGYL~ELLII~y 191 (443)
T COG1746 156 EVRLLKQFLKGIGVYGAELRTQGFSGYLCELLIIHY 191 (443)
T ss_pred HHHHHHHHHhccCccceeeeeccchHHHHHHHHhhh
Confidence 99999999999999997 68999999999999997
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=98.46 E-value=1.1e-07 Score=76.56 Aligned_cols=32 Identities=44% Similarity=0.865 Sum_probs=28.5
Q ss_pred CHHHHHHHHHHHHhcCCCCCCceEEecCCCcC
Q 006807 598 SIGRLVWAFFNYWAYGHDYASNVISVRTGSTI 629 (630)
Q Consensus 598 SLgeLLl~FF~yYs~~FDy~~~VISIR~G~il 629 (630)
|||+||++||+||+.+|||.+++||||.|+++
T Consensus 1 slg~Ll~~Ff~~Y~~~Fd~~~~~Isi~~g~~~ 32 (60)
T PF03828_consen 1 SLGELLLGFFEYYGRKFDYENNVISIRNGGYF 32 (60)
T ss_dssp -HHHHHHHHHHHHHHTS-TTTEEEESSSSSEE
T ss_pred CHHHHHHHHHHHhCCcCCCCceEEEecCCceE
Confidence 68999999999999999999999999999864
No 13
>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=98.07 E-value=9.8e-06 Score=69.45 Aligned_cols=44 Identities=25% Similarity=0.484 Sum_probs=38.7
Q ss_pred HHHHHHHHHhhCCCcEEEEecceecCCCCCCCCceEEeecCCCc
Q 006807 402 LTLLEKLVCKEWPDARLYLYGSCANSFGVSKSDIDVCLAINDSE 445 (630)
Q Consensus 402 l~~Le~iI~~~~P~a~V~~FGS~atGl~lp~SDIDI~L~~~~~~ 445 (630)
++.|.+.+++.++...|++|||+++|.+.++||||++|..+...
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 45677888888889999999999999999999999999987653
No 14
>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=97.93 E-value=1.6e-05 Score=62.50 Aligned_cols=41 Identities=27% Similarity=0.405 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHhhCCCcEEEEecceecCCCCCCCCceEEee
Q 006807 400 KLLTLLEKLVCKEWPDARLYLYGSCANSFGVSKSDIDVCLA 440 (630)
Q Consensus 400 qvl~~Le~iI~~~~P~a~V~~FGS~atGl~lp~SDIDI~L~ 440 (630)
++++.+.+.+++.++..++++|||++.|.+.+.|||||++.
T Consensus 2 ~~l~~i~~~l~~~~~~~~v~lfGS~arg~~~~~SDIDi~v~ 42 (49)
T cd05397 2 ELLDIIKERLKKLVPGYEIVVYGSLVRGLLKKSSDIDLACV 42 (49)
T ss_pred HHHHHHHHHHHhhcCCcEEEEECCcCCCCCCCCCCEEEEEE
Confidence 56777888888888889999999999999999999999876
No 15
>cd05400 NT_2-5OAS_ClassI-CCAase Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme. In vertebrates, 2-5OASs are induced by interferon during the innate immune response to protect against RNA virus infections. In the presence of an RNA activator, 2-5OASs catalyze the oligomerization of ATP into 2-5A. 2-5A activates endoribonuclease L, which leads to degradation of the viral RNA. 2-5OASs are also implicated in cell growth control, differentiation, and apoptosis. This family includes human OAS1, -2, -3, and OASL. CCA-adding enzymes add the sequence [cytidine(C)-cytidine-adenosine (A)], one nucleotide at a time, onto the 3' end of tRNA, in a template-independent reaction. This class I group includes the archaeal Sulfolobus shibatae and Archeoglobus fulgidus CCA-adding enzymes. It belongs to the Pol beta-like NT superfamily. In the majority of enzymes in this superfamily, two carboxylates, Dx[D/E], together with a third more dis
Probab=97.91 E-value=9.8e-05 Score=68.76 Aligned_cols=93 Identities=20% Similarity=0.260 Sum_probs=60.3
Q ss_pred HHHHHHHHHHHHHHhh-CCCcEEEEecceecCCCCC-CCCceEEeecCCCc----cchHHHHHHHHHHHhhCCCcceEEe
Q 006807 397 KQKKLLTLLEKLVCKE-WPDARLYLYGSCANSFGVS-KSDIDVCLAINDSE----INKSEVLLKLADILQSDNLQNVQAL 470 (630)
Q Consensus 397 ~Reqvl~~Le~iI~~~-~P~a~V~~FGS~atGl~lp-~SDIDI~L~~~~~~----i~k~eiL~~LakiLr~~~~~nV~~I 470 (630)
..+.+.+.|++-.... ++...+++|||++.|++++ .||||++|.++... ....+++..|.+.|....-....+.
T Consensus 8 ~~~~i~~~L~~~~~~~~~~~~~~~~~GS~a~~T~i~~~sDiD~~v~~~~~~~~~~~~~~~~~~~l~~~L~~~~~~~~~~~ 87 (143)
T cd05400 8 RYREIREALKESLSELAGRVAEVFLQGSYARGTALRGDSDIDLVVVLPDDTSFAEYGPAELLDELGEALKEYYGANEEVK 87 (143)
T ss_pred HHHHHHHHHHHhcccccccccEEEEEcceeCCCCCCCCCceeEEEEEcCcccccccCHHHHHHHHHHHHHHhcCcccccc
Confidence 3444444455444321 2357999999999999987 89999999887543 3456788888888876432122222
Q ss_pred eeeeeceEEEecccCCeeeeE
Q 006807 471 TRARVPIVKLMDPVTGISCDI 491 (630)
Q Consensus 471 ~~ARVPIIKf~d~~tgI~~DI 491 (630)
... +-|++.....++++||
T Consensus 88 ~~~--~~v~v~~~~~~~~vDv 106 (143)
T cd05400 88 AQH--RSVTVKFKGQGFHVDV 106 (143)
T ss_pred cCc--eEEEEEEcCCCeEEEE
Confidence 334 4454443335899999
No 16
>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=0.00021 Score=60.56 Aligned_cols=45 Identities=24% Similarity=0.378 Sum_probs=36.2
Q ss_pred HHHHHHHHHHhhCC-CcEEEEecceecCCCCCCCCceEEeecCCCc
Q 006807 401 LLTLLEKLVCKEWP-DARLYLYGSCANSFGVSKSDIDVCLAINDSE 445 (630)
Q Consensus 401 vl~~Le~iI~~~~P-~a~V~~FGS~atGl~lp~SDIDI~L~~~~~~ 445 (630)
.+..+...+++.+. -..+++|||++.|-+.++|||||+|......
T Consensus 3 ~~~~i~~~l~~~~~~i~~i~LfGS~arg~~~~~SDiDl~vi~~~~~ 48 (93)
T cd05403 3 ILEEILEILRELLGGVEKVYLFGSYARGDARPDSDIDLLVIFDDPL 48 (93)
T ss_pred hHHHHHHHHHHHhCCccEEEEEeeeecCCCCCCCCeeEEEEeCCCC
Confidence 34556666666665 6899999999999999999999999886543
No 17
>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=97.02 E-value=0.014 Score=71.00 Aligned_cols=92 Identities=18% Similarity=0.330 Sum_probs=68.1
Q ss_pred HHHHHHhhcChhhHHHHHHHHHHHHhcCCCCcc-cCCCChHHHHHHHHHHhhhcCCCcccccccccccccceecCccccc
Q 006807 503 KLLRDYAQIDVRLQQLAFIVKHWAKSRGVNVTY-QGTLSSYAYVLMCIHFLQQRRPAILPCLQGMEKTYSVTVDDIECAY 581 (630)
Q Consensus 503 ~LL~~y~~~dPrlR~LvllVK~WAK~rGLnd~~-~GgLSSYaLiLMVI~FLQ~~~PpILP~Lqel~~~~~~~Vd~~~~~f 581 (630)
+++....+..|.|+.-++++|.|+++||+.... .|||++|-|++|+++.++.-.+. +.
T Consensus 154 ~~l~~~~~~~p~f~dA~iLlkvWl~QRg~~~~~~~~Gf~~f~~s~lla~Ll~~g~~~----------~~----------- 212 (972)
T PF03813_consen 154 KYLHEASKSSPAFRDACILLKVWLRQRGFGSGISQGGFGGFEWSMLLAYLLQGGGRN----------GK----------- 212 (972)
T ss_pred HHHHHHHhcCHHHHHHHHHHHHHHhcCCCCcccCCCCcchHHHHHHHHHHHcCCCcc----------CC-----------
Confidence 345556667899999999999999999998764 58999999999888888872110 00
Q ss_pred ccccccccCCCCCCcCCHHHHHHHHHHHHhcCCCCCCceEEecC
Q 006807 582 FDQVDKLHGFGSRNKESIGRLVWAFFNYWAYGHDYASNVISVRT 625 (630)
Q Consensus 582 ~d~~e~L~~~~s~N~~SLgeLLl~FF~yYs~~FDy~~~VISIR~ 625 (630)
.++ ....|--+++..+++|-+ .-||.+..|.+..
T Consensus 213 ----~~l-----~~~mSsyQlFr~~l~fLA-~~d~~~~~l~~~~ 246 (972)
T PF03813_consen 213 ----KKL-----SKSMSSYQLFRAVLQFLA-TTDLSKKPLFFKS 246 (972)
T ss_pred ----ccc-----CCCCCHHHHHHHHHHHHh-ccccccCceEEec
Confidence 000 122445589999999999 7899888776653
No 18
>COG1708 Predicted nucleotidyltransferases [General function prediction only]
Probab=96.95 E-value=0.0033 Score=56.10 Aligned_cols=37 Identities=38% Similarity=0.393 Sum_probs=30.3
Q ss_pred HHHHHHhhCCCcEEEEecceecCCCCCCCCceEEeec
Q 006807 405 LEKLVCKEWPDARLYLYGSCANSFGVSKSDIDVCLAI 441 (630)
Q Consensus 405 Le~iI~~~~P~a~V~~FGS~atGl~lp~SDIDI~L~~ 441 (630)
+............+++|||++.|-+.+.||||+++.+
T Consensus 16 ~~~~~~~~~~~~~v~LfGS~arG~~~~~SDiDv~vv~ 52 (128)
T COG1708 16 LEAIEKKLGGDLLIYLFGSYARGDFVKESDIDLLVVS 52 (128)
T ss_pred HHHHHHhcCCCeEEEEEccCcccccccCCCeeEEEEc
Confidence 3334444555789999999999999999999999986
No 19
>COG1669 Predicted nucleotidyltransferases [General function prediction only]
Probab=96.95 E-value=0.0049 Score=55.49 Aligned_cols=47 Identities=23% Similarity=0.342 Sum_probs=40.2
Q ss_pred HHHHHHHHHHHHHhhCCCcEEEEecceecCCCCCCCCceEEeecCCC
Q 006807 398 QKKLLTLLEKLVCKEWPDARLYLYGSCANSFGVSKSDIDVCLAINDS 444 (630)
Q Consensus 398 Reqvl~~Le~iI~~~~P~a~V~~FGS~atGl~lp~SDIDI~L~~~~~ 444 (630)
.+.+++.+...+++.+.-.++-+|||++-|-..++|||||.|.+...
T Consensus 7 ~~~~lr~~~~~l~~k~gv~~~~vFGS~aRgE~~~~SDIDILVef~~~ 53 (97)
T COG1669 7 LKKILRKIKPELKEKYGVKRVAVFGSYARGEQKPDSDIDILVEFEPG 53 (97)
T ss_pred HHHHHHHHHHHHHHHhCCceEEEeeeeecCCCCCCCCceeEEeecCC
Confidence 33447778888888888899999999999999999999999988654
No 20
>smart00572 DZF domain in DSRM or ZnF_C2H2 domain containing proteins.
Probab=96.90 E-value=0.0076 Score=62.47 Aligned_cols=156 Identities=15% Similarity=0.163 Sum_probs=98.8
Q ss_pred EEEEecceecCCCCCCC-CceEEeecCCCccchHHHHHHHHHHHh----hCCCcce-EEeeeeeeceEEEecccCC----
Q 006807 417 RLYLYGSCANSFGVSKS-DIDVCLAINDSEINKSEVLLKLADILQ----SDNLQNV-QALTRARVPIVKLMDPVTG---- 486 (630)
Q Consensus 417 ~V~~FGS~atGl~lp~S-DIDI~L~~~~~~i~k~eiL~~LakiLr----~~~~~nV-~~I~~ARVPIIKf~d~~tg---- 486 (630)
.|.-+||++.|+.+.+. ++|++|.....+ ..+.+..+++.+. ...-.+. ..+..+.+|.+++...-++
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 46788999999999865 899998876533 3466776665543 2211121 2344455565554321111
Q ss_pred eee--------------------eEEeeccchhhchHHHHHHhhcChhhHHHHHHHHHHHHhcCCCCcccCCCChHHHHH
Q 006807 487 ISC--------------------DICINNLLAVVNTKLLRDYAQIDVRLQQLAFIVKHWAKSRGVNVTYQGTLSSYAYVL 546 (630)
Q Consensus 487 I~~--------------------DISfnN~~Gv~nT~LL~~y~~~dPrlR~LvllVK~WAK~rGLnd~~~GgLSSYaLiL 546 (630)
.++ +.|.....+++.++++.+-+.--..++.+++++|-|+.+...- ..|+||.+-+
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 1223333456667776666555568999999999999987442 3499999999
Q ss_pred HHHHHhhhcCCCcccccccccccccceecCcccccccccccccCCCCCCcCCHHHHHHHHHHHHhcCCCC
Q 006807 547 MCIHFLQQRRPAILPCLQGMEKTYSVTVDDIECAYFDQVDKLHGFGSRNKESIGRLVWAFFNYWAYGHDY 616 (630)
Q Consensus 547 MVI~FLQ~~~PpILP~Lqel~~~~~~~Vd~~~~~f~d~~e~L~~~~s~N~~SLgeLLl~FF~yYs~~FDy 616 (630)
++-+.+-.. ....++++.|..||+|.+..+=|
T Consensus 158 l~~~~i~~~--------------------------------------~~~l~~~~a~RR~fe~lAsG~l~ 189 (246)
T smart00572 158 LVEKAIGSA--------------------------------------RQPLGLGDAFRRVFECLASGILL 189 (246)
T ss_pred HHHHHhccC--------------------------------------CCCCCHHHHHHHHHHHHHhccCc
Confidence 987655321 12357889999999999954334
No 21
>PRK13746 aminoglycoside resistance protein; Provisional
Probab=95.69 E-value=0.036 Score=58.10 Aligned_cols=43 Identities=21% Similarity=0.264 Sum_probs=33.5
Q ss_pred HHHHHHHHHhhCCCc--EEEEecceecCCCCCCCCceEEeecCCC
Q 006807 402 LTLLEKLVCKEWPDA--RLYLYGSCANSFGVSKSDIDVCLAINDS 444 (630)
Q Consensus 402 l~~Le~iI~~~~P~a--~V~~FGS~atGl~lp~SDIDI~L~~~~~ 444 (630)
++.+..+++....+. .||+|||.+.|-..+.||||+.|++...
T Consensus 13 l~~~~~~l~~~l~~~l~~vyLfGS~~~G~~~p~SDIDllvvv~~~ 57 (262)
T PRK13746 13 LSEACAVIERHLEPTLLAIHLYGSAVDGGLKPHSDIDLLVTVAVP 57 (262)
T ss_pred HHHHHHHHHHhCcccEEEEEEECCcccCCCCCCCceeEEEEeCCC
Confidence 334456666666643 7999999999999999999999988654
No 22
>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=95.44 E-value=0.075 Score=55.34 Aligned_cols=150 Identities=18% Similarity=0.211 Sum_probs=89.7
Q ss_pred ecceecCCCCCCC-CceEEeecCCCccchHHHHHHHHHHHh----hCCCcce-------EEeeeeeeceEEEecccCC--
Q 006807 421 YGSCANSFGVSKS-DIDVCLAINDSEINKSEVLLKLADILQ----SDNLQNV-------QALTRARVPIVKLMDPVTG-- 486 (630)
Q Consensus 421 FGS~atGl~lp~S-DIDI~L~~~~~~i~k~eiL~~LakiLr----~~~~~nV-------~~I~~ARVPIIKf~d~~tg-- 486 (630)
.||++.|+-+.+. ++|++|.....+ ..+++.++++.|. ...-.+| ..+...+.|.+...-..++
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 899998876543 3466666665543 2111111 1111222233333211111
Q ss_pred eee----------------------eEEeeccchhhchHHHHHHhhcChhhHHHHHHHHHHHHhcCCCCcccCCCChHHH
Q 006807 487 ISC----------------------DICINNLLAVVNTKLLRDYAQIDVRLQQLAFIVKHWAKSRGVNVTYQGTLSSYAY 544 (630)
Q Consensus 487 I~~----------------------DISfnN~~Gv~nT~LL~~y~~~dPrlR~LvllVK~WAK~rGLnd~~~GgLSSYaL 544 (630)
+.+ +.|..+..+++.++++..-+..-+.++.+++++|-.+.+. +....|++|.+
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 111 1223333456667777776666667888999999887766 33567999999
Q ss_pred HHHHHHHhhhcCCCcccccccccccccceecCcccccccccccccCCCCCCcCCHHHHHHHHHHHHhc
Q 006807 545 VLMCIHFLQQRRPAILPCLQGMEKTYSVTVDDIECAYFDQVDKLHGFGSRNKESIGRLVWAFFNYWAY 612 (630)
Q Consensus 545 iLMVI~FLQ~~~PpILP~Lqel~~~~~~~Vd~~~~~f~d~~e~L~~~~s~N~~SLgeLLl~FF~yYs~ 612 (630)
-+|+-+.+-.. + .....++|+.|..||+..+.
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 99887655421 0 12345788899999998884
No 23
>PF14091 DUF4269: Domain of unknown function (DUF4269)
Probab=94.82 E-value=0.44 Score=46.39 Aligned_cols=112 Identities=14% Similarity=0.158 Sum_probs=71.9
Q ss_pred cEEEEecceecCCCCCCCCceEEeecCCCccchHHHHHHHHHHHhh-CCCcceEEeeeeeeceEEEecccCCeeeeEEee
Q 006807 416 ARLYLYGSCANSFGVSKSDIDVCLAINDSEINKSEVLLKLADILQS-DNLQNVQALTRARVPIVKLMDPVTGISCDICIN 494 (630)
Q Consensus 416 a~V~~FGS~atGl~lp~SDIDI~L~~~~~~i~k~eiL~~LakiLr~-~~~~nV~~I~~ARVPIIKf~d~~tgI~~DISfn 494 (630)
..-.+.|...-|+..++|||||++..+. ...+...+.+.... .+|+ +..-.-...|.+.+.....|..+.|-..
T Consensus 16 ~~PiL~GTiPi~Idi~~SDLDIic~~~d----~~~F~~~l~~~f~~~~~f~-~~~~~i~~~~~~~~~F~~~~~~~EiF~Q 90 (152)
T PF14091_consen 16 YDPILVGTIPIGIDIPGSDLDIICEVPD----PEAFEQLLQSLFGQFEGFT-IKEKTIRGEPSIVANFRYEGFPFEIFGQ 90 (152)
T ss_pred CCCEEecccccccCCCCCCccEEEEeCC----HHHHHHHHHHHhccCCCce-eeeceeCCceeEEEEEEECCceEEEeec
Confidence 3566889999999999999999988764 23444445554443 2232 2212223345554444467888888664
Q ss_pred c-----cchhhchHHHHHHhhcC-hhhHHHHHHHH--------HHHHhcCCC
Q 006807 495 N-----LLAVVNTKLLRDYAQID-VRLQQLAFIVK--------HWAKSRGVN 532 (630)
Q Consensus 495 N-----~~Gv~nT~LL~~y~~~d-PrlR~LvllVK--------~WAK~rGLn 532 (630)
+ .+|.+.-.+-....... |.+|.=++-+| +||+..||.
T Consensus 91 ~~Pv~~QnayrHm~iE~rLL~~~g~~~r~~Ii~LK~~GlKTEPAFa~lLgL~ 142 (152)
T PF14091_consen 91 PIPVEEQNAYRHMLIEHRLLELHGPSFREEIIELKESGLKTEPAFAKLLGLE 142 (152)
T ss_pred CCChhhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHcCCcchHHHHHHhCCC
Confidence 3 35666555555555555 99999999888 477777775
No 24
>PF09249 tRNA_NucTransf2: tRNA nucleotidyltransferase, second domain; InterPro: IPR015329 This domain adopts a structure consisting of a five helical bundle core. It is predominantly found in Archaeal tRNA nucleotidyltransferases, following the catalytic nucleotidyltransferase domain []. ; GO: 0004810 tRNA adenylyltransferase activity, 0016437 tRNA cytidylyltransferase activity; PDB: 3OUY_B 2ZHB_A 2ZH1_A 2ZH2_A 1UET_A 2ZH7_A 1R8B_A 2DR5_A 1TFW_C 3OVA_A ....
Probab=94.81 E-value=0.032 Score=51.59 Aligned_cols=33 Identities=27% Similarity=0.422 Sum_probs=27.2
Q ss_pred HHHHHHHHHhcCCCCc--ccCCCChHHHHHHHHHH
Q 006807 519 AFIVKHWAKSRGVNVT--YQGTLSSYAYVLMCIHF 551 (630)
Q Consensus 519 vllVK~WAK~rGLnd~--~~GgLSSYaLiLMVI~F 551 (630)
|+++|.++|..|++++ +.+|||+|.+.+|||+|
T Consensus 3 VrLLK~FlK~igvYGse~~~~GFSGYL~ELLii~y 37 (114)
T PF09249_consen 3 VRLLKQFLKGIGVYGSELKTRGFSGYLCELLIIHY 37 (114)
T ss_dssp HHHHHHHHHHTT-B-SSTTT-SB-HHHHHHHHHHH
T ss_pred hHHHHHHHhcCCCcchhhhcCcchHHHHHHHHHHH
Confidence 7899999999999997 58899999999999997
No 25
>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=94.32 E-value=0.08 Score=53.10 Aligned_cols=58 Identities=28% Similarity=0.377 Sum_probs=43.7
Q ss_pred hhhchHHHHHHhhcCh-hhHHHHHHHHHHHHhcCCCCcccCC-CChHHHHHHHHHHhhhc
Q 006807 498 AVVNTKLLRDYAQIDV-RLQQLAFIVKHWAKSRGVNVTYQGT-LSSYAYVLMCIHFLQQR 555 (630)
Q Consensus 498 Gv~nT~LL~~y~~~dP-rlR~LvllVK~WAK~rGLnd~~~Gg-LSSYaLiLMVI~FLQ~~ 555 (630)
++..|++-+.|++..| .++.|+++||||-+...-.....+. .++|+|.||+|+.-.+.
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 4456888899998777 8999999999999987776444444 56899999999998763
No 26
>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=93.82 E-value=0.13 Score=47.25 Aligned_cols=65 Identities=20% Similarity=0.250 Sum_probs=48.7
Q ss_pred HHHHHHHHHHHHhhCCCcEEEEecceecCCCCCCCCceEEeecCCCccc---hHHHHHHHHHHHhhCCC
Q 006807 399 KKLLTLLEKLVCKEWPDARLYLYGSCANSFGVSKSDIDVCLAINDSEIN---KSEVLLKLADILQSDNL 464 (630)
Q Consensus 399 eqvl~~Le~iI~~~~P~a~V~~FGS~atGl~lp~SDIDI~L~~~~~~i~---k~eiL~~LakiLr~~~~ 464 (630)
+++.+.|++.+++..|++.+.+-|||.-|-.+. +||||.|+.+..... ...++.++...|.+.++
T Consensus 8 ~~i~~~V~~~~~~i~p~~~v~i~GSyRRGK~~~-gDiDiLIt~~~~~~~~~~~~~~l~~lv~~L~~~g~ 75 (112)
T PF14792_consen 8 EEIEEIVKEALEKIDPGLEVEICGSYRRGKETS-GDIDILITHPDPSSVSKKLEGLLEKLVKRLEEKGF 75 (112)
T ss_dssp HHHHHHHHHHHHCCSTT-EEEEEHHHHTT-SEE-SSEEEEEEETTCSTTTCSTTCHHHHHHHHHHHTTS
T ss_pred HHHHHHHHHHHHhcCCCcEEEEccccccCCCcC-CCeEEEEeCCCcCcchhhHHHHHHHHHHHHHhCCe
Confidence 455667778888899999999999999987664 499999988765432 24578888888887665
No 27
>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=91.59 E-value=2.5 Score=45.17 Aligned_cols=129 Identities=19% Similarity=0.210 Sum_probs=71.0
Q ss_pred HHHHHHHHHHHHhhCCCcEEEEecceecCCCCCCCCceEEeecCCCccchHHHHHHHHHHHhhCCCc-ceE--Eeeeeee
Q 006807 399 KKLLTLLEKLVCKEWPDARLYLYGSCANSFGVSKSDIDVCLAINDSEINKSEVLLKLADILQSDNLQ-NVQ--ALTRARV 475 (630)
Q Consensus 399 eqvl~~Le~iI~~~~P~a~V~~FGS~atGl~lp~SDIDI~L~~~~~~i~k~eiL~~LakiLr~~~~~-nV~--~I~~ARV 475 (630)
..+.+.|...++..-+.++|.+-||+.-|..+ .+||||+|..+.... ..++..+...|...++- .+. -....++
T Consensus 144 ~~~a~~i~~~l~~~~~~~~v~i~GS~RRg~et-~gDiDilv~~~~~~~--~~~~~~v~~~l~~~~~~~~~~~~g~~k~~~ 220 (307)
T cd00141 144 LAIAEIIKEALREVDPVLQVEIAGSYRRGKET-VGDIDILVTHPDATS--RGLLEKVVDALVELGFVTEVLSKGDTKASG 220 (307)
T ss_pred HHHHHHHHHHHHhCCCceEEEEcccccCCCCc-cCCEEEEEecCCccc--cccHHHHHHHHHhCCCeehhhhCCCceEEE
Confidence 34455666666666788999999999877655 579999997754321 23345555555543321 100 0011111
Q ss_pred ceEEEecccCCeeeeEEeeccchhhchHHHHHHhhcChhhHHHHHHHHHHHHhcCCCCcccC
Q 006807 476 PIVKLMDPVTGISCDICINNLLAVVNTKLLRDYAQIDVRLQQLAFIVKHWAKSRGVNVTYQG 537 (630)
Q Consensus 476 PIIKf~d~~tgI~~DISfnN~~Gv~nT~LL~~y~~~dPrlR~LvllVK~WAK~rGLnd~~~G 537 (630)
+++.-+...++.|||-+......-.+-+- |--. ....+.++.||+++|..=+..|
T Consensus 221 -~~~~~~~~~~~rVDl~~~p~~~~~~all~--fTGs----~~~nr~lR~~A~~~G~~L~~~G 275 (307)
T cd00141 221 -ILKLPGGWKGRRVDLRVVPPEEFGAALLY--FTGS----KQFNRALRRLAKEKGLKLNEYG 275 (307)
T ss_pred -EEecCCCCCceEEEEEEeCHHHHHHHHHH--hhCC----HHHHHHHHHHHHHcCCeeeccc
Confidence 22222234578999988754333222221 1111 2233445999999988544333
No 28
>KOG3793 consensus Transcription factor NFAT, subunit NF45 [Transcription]
Probab=89.46 E-value=15 Score=39.25 Aligned_cols=68 Identities=15% Similarity=0.202 Sum_probs=52.5
Q ss_pred cccHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhhCC-C------cEEEEecceecCCCCCCCC-ceEEeecCC
Q 006807 376 RLNAPFLAIYESLIPAEEEKAKQKKLLTLLEKLVCKEWP-D------ARLYLYGSCANSFGVSKSD-IDVCLAIND 443 (630)
Q Consensus 376 ~L~~ell~~~~~l~PT~EE~~~Reqvl~~Le~iI~~~~P-~------a~V~~FGS~atGl~lp~SD-IDI~L~~~~ 443 (630)
.|.+++++=.+.+.|+.+|.+.-..++.++..++..... + ..|.-+||+.+|+-+.++| -|++|....
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 467788888889999999999988888888888876532 2 3577789999999777654 467666543
No 29
>PRK02098 phosphoribosyl-dephospho-CoA transferase; Provisional
Probab=87.49 E-value=1.4 Score=45.39 Aligned_cols=40 Identities=23% Similarity=0.300 Sum_probs=29.6
Q ss_pred HHHHHHHHHhhCCCcEEEEeccee----cCC--CCCCCCceEEeecCC
Q 006807 402 LTLLEKLVCKEWPDARLYLYGSCA----NSF--GVSKSDIDVCLAIND 443 (630)
Q Consensus 402 l~~Le~iI~~~~P~a~V~~FGS~a----tGl--~lp~SDIDI~L~~~~ 443 (630)
++.|..+.... ++.+.+|||+. ||+ -..+||||+.+-.+.
T Consensus 109 l~~l~~~~~~~--g~~~gv~GS~a~qlaTG~~~l~~~SDLDLLi~~~~ 154 (221)
T PRK02098 109 LRALLALAAAH--GVDCRVFGSLAWQALTGLPYLSASSDLDLLWPLPA 154 (221)
T ss_pred HHHHHHHHHhC--CCcEEEeeehHHHHhhCCcccCCCCCeeEEEecCC
Confidence 34444444442 57999999999 998 668999999887653
No 30
>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=87.38 E-value=1.4 Score=44.63 Aligned_cols=39 Identities=26% Similarity=0.298 Sum_probs=28.8
Q ss_pred HHHHHHHHHhhCCCcEEEEecce----ecCC--CCCCCCceEEeecC
Q 006807 402 LTLLEKLVCKEWPDARLYLYGSC----ANSF--GVSKSDIDVCLAIN 442 (630)
Q Consensus 402 l~~Le~iI~~~~P~a~V~~FGS~----atGl--~lp~SDIDI~L~~~ 442 (630)
++.|....... ++.+.+|||+ +||+ -.++||||+.+..+
T Consensus 97 l~~l~~~~~~~--~~~~gv~GS~~~qlaTg~~~~~~~SDLDLLi~~~ 141 (202)
T TIGR03135 97 LRALDALLDAL--GVPWGVYGSAGWQLLTGLPYLHASSDLDLLLRAP 141 (202)
T ss_pred HHHHHHHHHhC--CCcEEEecchHHHHhcCCcccCCCCCeeEEEcCC
Confidence 33444444432 5799999999 8998 66899999988765
No 31
>KOG2054 consensus Nucleolar RNA-associated protein (NRAP) [Function unknown]
Probab=82.86 E-value=3.8 Score=50.08 Aligned_cols=78 Identities=15% Similarity=0.279 Sum_probs=59.7
Q ss_pred hcChhhHHHHHHHHHHHHhcCCCCcccCCCChHHHHHHHHHHhhhcCCCcccccccccccccceecCccccccccccccc
Q 006807 510 QIDVRLQQLAFIVKHWAKSRGVNVTYQGTLSSYAYVLMCIHFLQQRRPAILPCLQGMEKTYSVTVDDIECAYFDQVDKLH 589 (630)
Q Consensus 510 ~~dPrlR~LvllVK~WAK~rGLnd~~~GgLSSYaLiLMVI~FLQ~~~PpILP~Lqel~~~~~~~Vd~~~~~f~d~~e~L~ 589 (630)
+..+.|+.-+.++|.|+++|.+. -..|||+++.++++|++-+... +|
T Consensus 305 s~~~~f~da~~Llk~WlrqRs~~-~~~~gfg~f~~s~lvv~L~s~~---ki----------------------------- 351 (1121)
T KOG2054|consen 305 SSAKGFKDALALLKVWLRQRSLD-IGQGGFGGFLLSALVVYLVSTR---KI----------------------------- 351 (1121)
T ss_pred hhhhhHHHHHHHHHHHHHhhhhh-cccCcchHHHHHHHHHHHHhcC---ch-----------------------------
Confidence 46678999999999999999442 3578999999999988766653 11
Q ss_pred CCCCCCcCCHHHHHHHHHHHHhcCCCCCCceEEecC
Q 006807 590 GFGSRNKESIGRLVWAFFNYWAYGHDYASNVISVRT 625 (630)
Q Consensus 590 ~~~s~N~~SLgeLLl~FF~yYs~~FDy~~~VISIR~ 625 (630)
+...|.-+++..-|+|.+ +.|+..+.|++-.
T Consensus 352 ----~~~~S~yqvfR~vl~fla-t~dlt~~~~~l~~ 382 (1121)
T KOG2054|consen 352 ----HTTLSAYQVFRSVLQFLA-TTDLTVNGISLVP 382 (1121)
T ss_pred ----hhcchHHHHHHHHHHHHh-hhhhhccceEecc
Confidence 123566788999999999 7888887776543
No 32
>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=80.82 E-value=7.9 Score=47.77 Aligned_cols=83 Identities=16% Similarity=0.169 Sum_probs=63.0
Q ss_pred chHHHHHHhhcChhhHHHHHHHHHHHHhcCCCCcccCCCChHHHHHHHHHHhhhcCCCcccccccccccccceecCcccc
Q 006807 501 NTKLLRDYAQIDVRLQQLAFIVKHWAKSRGVNVTYQGTLSSYAYVLMCIHFLQQRRPAILPCLQGMEKTYSVTVDDIECA 580 (630)
Q Consensus 501 nT~LL~~y~~~dPrlR~LvllVK~WAK~rGLnd~~~GgLSSYaLiLMVI~FLQ~~~PpILP~Lqel~~~~~~~Vd~~~~~ 580 (630)
.+..|..+...+|.|-+-++++|+|+.++=| .+.++.-++-|||++.+-.-.|-.
T Consensus 671 h~~~i~~l~~~~p~fs~tvRL~KrW~~shlL----s~~i~~E~vELlva~vfl~~~p~~--------------------- 725 (972)
T PF03813_consen 671 HTSAIHGLHTRFPSFSPTVRLAKRWLSSHLL----SGHISEEAVELLVASVFLSPAPWS--------------------- 725 (972)
T ss_pred HHHHHHHHHhhCCchhHHHHHHHHHHHhccC----cccCCHHHHHHHHHHHhcCCCCCC---------------------
Confidence 3456777788999999999999999999977 357899999999999876532210
Q ss_pred cccccccccCCCCCCcCCHHHHHHHHHHHHhcCCCCCCceEEe
Q 006807 581 YFDQVDKLHGFGSRNKESIGRLVWAFFNYWAYGHDYASNVISV 623 (630)
Q Consensus 581 f~d~~e~L~~~~s~N~~SLgeLLl~FF~yYs~~FDy~~~VISI 623 (630)
-..|.-.=++.|+++-+ +|||.+.-+-|
T Consensus 726 --------------~P~S~~~GFlRfL~lLs-~~dW~~~PLiV 753 (972)
T PF03813_consen 726 --------------PPSSPQTGFLRFLHLLS-TWDWREEPLIV 753 (972)
T ss_pred --------------CCCCHhHHHHHHHHHHH-hCCCCcCCEEE
Confidence 12344467888999999 89999874433
No 33
>smart00483 POLXc DNA polymerase X family. includes vertebrate polymerase beta and terminal deoxynucleotidyltransferases
Probab=80.44 E-value=13 Score=40.28 Aligned_cols=45 Identities=22% Similarity=0.234 Sum_probs=35.7
Q ss_pred HHHHHHHHHHHHhhCCCcEEEEecceecCCCCCCCCceEEeecCCC
Q 006807 399 KKLLTLLEKLVCKEWPDARLYLYGSCANSFGVSKSDIDVCLAINDS 444 (630)
Q Consensus 399 eqvl~~Le~iI~~~~P~a~V~~FGS~atGl~lp~SDIDI~L~~~~~ 444 (630)
..+.+.|...++...|.++|.+-||+.-|-.+ ..||||++..+..
T Consensus 148 ~~i~~~i~~~l~~~~~~~~v~i~GSyRRgket-~gDIDili~~~~~ 192 (334)
T smart00483 148 FAVEYIVKRAVRKILPDAIVTLTGSFRRGKET-GHDVDFLITSPHP 192 (334)
T ss_pred HHHHHHHHHHHHhhCCCcEEEEecccccCCCc-CCCeeEEEecCCc
Confidence 45666777777778889999999999988655 5699999987653
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=80.05 E-value=7.7 Score=37.36 Aligned_cols=30 Identities=27% Similarity=0.204 Sum_probs=26.5
Q ss_pred CcEEEEecceecCCCCCCCCceEEeecCCC
Q 006807 415 DARLYLYGSCANSFGVSKSDIDVCLAINDS 444 (630)
Q Consensus 415 ~a~V~~FGS~atGl~lp~SDIDI~L~~~~~ 444 (630)
...+..+||+..+=-.+.||+|+.++.+..
T Consensus 55 ~~~~la~Gs~GR~E~~~~SD~D~~~v~~~~ 84 (172)
T cd05401 55 PFALLALGSYGRGELNPSSDQDLLLLYDDD 84 (172)
T ss_pred cEEEEEeCCcccCCcCCCcCcceEEEeCCC
Confidence 468999999999999999999999988653
No 35
>KOG2534 consensus DNA polymerase IV (family X) [Replication, recombination and repair]
Probab=77.50 E-value=9.6 Score=41.41 Aligned_cols=63 Identities=17% Similarity=0.180 Sum_probs=46.9
Q ss_pred HHHHHHHHHHHhhCCCcEEEEecceecCCCCCCCCceEEeecCCCccchHHHHHHHHHHHhhCC
Q 006807 400 KLLTLLEKLVCKEWPDARLYLYGSCANSFGVSKSDIDVCLAINDSEINKSEVLLKLADILQSDN 463 (630)
Q Consensus 400 qvl~~Le~iI~~~~P~a~V~~FGS~atGl~lp~SDIDI~L~~~~~~i~k~eiL~~LakiLr~~~ 463 (630)
++.+.+++.+....|++.|.+-||+.-|-. ...|||+.|..|...-....++..|...+++.+
T Consensus 156 ~i~~~V~~av~~~~p~~~vt~~GsfRRGk~-~ggDvD~LithP~~~s~~~~~~~~l~~~le~~g 218 (353)
T KOG2534|consen 156 AIQQTVQEAVWAFDPEAFVTVTGSFRRGKK-MGGDVDFLITHPGSTSTEAKLLQLLMILLEKKG 218 (353)
T ss_pred HHHHHHHHHHhhcCCCcEEEEeccccCCcc-cCCCeeEEEeCCCCCchhhhHHHHHHHHHHhcC
Confidence 455667778888889999999999988854 367999999887654334556667766666544
No 36
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=74.71 E-value=10 Score=45.48 Aligned_cols=14 Identities=36% Similarity=0.446 Sum_probs=7.9
Q ss_pred hHHHHHHHHHHHhh
Q 006807 448 KSEVLLKLADILQS 461 (630)
Q Consensus 448 k~eiL~~LakiLr~ 461 (630)
+..+|..|+++.++
T Consensus 860 k~TLLHfLae~~e~ 873 (1102)
T KOG1924|consen 860 KTTLLHFLAEICEE 873 (1102)
T ss_pred hhHHHHHHHHHHHH
Confidence 34456666666653
No 37
>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=73.32 E-value=12 Score=35.28 Aligned_cols=29 Identities=24% Similarity=0.151 Sum_probs=26.4
Q ss_pred CcEEEEecceecCCCCCCCCceEEeecCC
Q 006807 415 DARLYLYGSCANSFGVSKSDIDVCLAIND 443 (630)
Q Consensus 415 ~a~V~~FGS~atGl~lp~SDIDI~L~~~~ 443 (630)
...+.++||+.-+=.++.||+|..|+...
T Consensus 49 ~~a~lalGS~GR~E~~~~sDqD~alv~~d 77 (138)
T PF03445_consen 49 PFAWLALGSYGRREQTLYSDQDNALVFED 77 (138)
T ss_pred CEEEEEECcccccCCCcCccccceeeecC
Confidence 57899999999999999999999998876
No 38
>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=73.04 E-value=11 Score=38.34 Aligned_cols=42 Identities=24% Similarity=0.265 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHhhCCCcEEEEeccee----cCC--CCCCCCceEEeecCC
Q 006807 400 KLLTLLEKLVCKEWPDARLYLYGSCA----NSF--GVSKSDIDVCLAIND 443 (630)
Q Consensus 400 qvl~~Le~iI~~~~P~a~V~~FGS~a----tGl--~lp~SDIDI~L~~~~ 443 (630)
..+..|...... -+....+|||.. ||+ -.++|||||.+..+.
T Consensus 103 ~~l~~l~~~~~~--~~~~~gv~GS~g~qlaTGl~~l~~~SDLDLli~~~~ 150 (213)
T PF10620_consen 103 PALQALRALLDA--LGLRWGVYGSLGFQLATGLPYLHADSDLDLLIRPPS 150 (213)
T ss_pred HHHHHHHHHHHH--cCCCEEEehhHHHHHHhCccccCCCCCceEEEeCCC
Confidence 344455555522 378999999985 676 346899999887654
No 39
>COG2413 Predicted nucleotidyltransferase [General function prediction only]
Probab=68.21 E-value=19 Score=36.91 Aligned_cols=45 Identities=27% Similarity=0.247 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHHHHhhCCCcEEEEecceecCCCCCCCCceEEeecCC
Q 006807 396 AKQKKLLTLLEKLVCKEWPDARLYLYGSCANSFGVSKSDIDVCLAIND 443 (630)
Q Consensus 396 ~~Reqvl~~Le~iI~~~~P~a~V~~FGS~atGl~lp~SDIDI~L~~~~ 443 (630)
.+|+++...++.+.+.. ..-++|||.+-|=-.++||+|++|..+-
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 34555555555444432 3667999999998889999999987643
No 40
>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=65.04 E-value=6.3 Score=40.48 Aligned_cols=43 Identities=21% Similarity=0.113 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHhhCCC-cEEEEecceecCCCCCCCCceEEeec
Q 006807 399 KKLLTLLEKLVCKEWPD-ARLYLYGSCANSFGVSKSDIDVCLAI 441 (630)
Q Consensus 399 eqvl~~Le~iI~~~~P~-a~V~~FGS~atGl~lp~SDIDI~L~~ 441 (630)
+.|.+.|+++-++.-.. .-+...||.+.||..++||.|+..+.
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 45556666666554222 34577899999999999999976543
No 41
>KOG1923 consensus Rac1 GTPase effector FRL [Signal transduction mechanisms; Cytoskeleton]
Probab=63.38 E-value=28 Score=41.82 Aligned_cols=40 Identities=23% Similarity=0.200 Sum_probs=27.1
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCChhhhhhhh
Q 006807 63 PQWPSNGCDLPPTWPRTPLPLNFLGFPQNPWASSSTENQQQRL 105 (630)
Q Consensus 63 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 105 (630)
|..++|+.-.+|.=|++ |-.+++|+.|-|+|..-+++..+
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 56667777555544433 66679999998888876666553
No 42
>PRK08609 hypothetical protein; Provisional
Probab=59.02 E-value=1.1e+02 Score=35.93 Aligned_cols=119 Identities=20% Similarity=0.247 Sum_probs=63.7
Q ss_pred HHHHHHHHHHHhhCCCcEEEEecceecCCCCCCCCceEEeecCCCccchHHHHHH---HHHHHhhCCCcceEEeeeeeec
Q 006807 400 KLLTLLEKLVCKEWPDARLYLYGSCANSFGVSKSDIDVCLAINDSEINKSEVLLK---LADILQSDNLQNVQALTRARVP 476 (630)
Q Consensus 400 qvl~~Le~iI~~~~P~a~V~~FGS~atGl~lp~SDIDI~L~~~~~~i~k~eiL~~---LakiLr~~~~~nV~~I~~ARVP 476 (630)
.+.+.|...++..-+.++|.+-||+.-|-.+ -.||||++..+... .-.+.+.. +.+++.. +.. .++
T Consensus 160 ~~a~~i~~~l~~~~~~~~v~~~GS~RR~~et-~gDiDili~~~~~~-~~~~~l~~~~~v~~~~~~-g~~------~~~-- 228 (570)
T PRK08609 160 PIAQEIEEYLATIDEIIRFSRAGSLRRARET-VKDLDFIIATDEPE-AVREQLLQLPNIVEVIAA-GDT------KVS-- 228 (570)
T ss_pred HHHHHHHHHHHhCCCccEEEeccchhccccc-cCCeeEEEecCCHH-HHHHHHHcCccHHHHHhc-CCc------eEE--
Confidence 4455666666666677899999999888655 46999999765421 00112211 1222221 111 111
Q ss_pred eEEEecccCCeeeeEEeeccchhhchHHHHHHhhcChhhHHHHHHHHHHHHhcCCCCcccC
Q 006807 477 IVKLMDPVTGISCDICINNLLAVVNTKLLRDYAQIDVRLQQLAFIVKHWAKSRGVNVTYQG 537 (630)
Q Consensus 477 IIKf~d~~tgI~~DISfnN~~Gv~nT~LL~~y~~~dPrlR~LvllVK~WAK~rGLnd~~~G 537 (630)
+.+.. ..++.|||-+......-.+ + ..|--. +...+-++.||+++|+.=+..|
T Consensus 229 -~~~~~-~~~~~vDl~~v~~~~~~~a-L-~yfTGS----~~hn~~lr~~A~~~g~~l~e~g 281 (570)
T PRK08609 229 -VELEY-EYTISVDFRLVEPEAFATT-L-HHFTGS----KDHNVRMRQLAKERGEKISEYG 281 (570)
T ss_pred -EEEec-CCCeEEEEEEeCHHHHHHH-H-HHHhcc----HHHHHHHHHHHHHcCCcccccc
Confidence 11211 2489999988764333222 2 122222 2233344889988888644433
No 43
>KOG2054 consensus Nucleolar RNA-associated protein (NRAP) [Function unknown]
Probab=58.88 E-value=24 Score=43.60 Aligned_cols=79 Identities=18% Similarity=0.231 Sum_probs=58.8
Q ss_pred chHHHHHHhhcChhhHHHHHHHHHHHHhcCCCCcccCCCChHHHHHHHHHHhhhcCCCcccccccccccccceecCcccc
Q 006807 501 NTKLLRDYAQIDVRLQQLAFIVKHWAKSRGVNVTYQGTLSSYAYVLMCIHFLQQRRPAILPCLQGMEKTYSVTVDDIECA 580 (630)
Q Consensus 501 nT~LL~~y~~~dPrlR~LvllVK~WAK~rGLnd~~~GgLSSYaLiLMVI~FLQ~~~PpILP~Lqel~~~~~~~Vd~~~~~ 580 (630)
.|.-|..+.+.++.+-+.|++.|+|...+=|. |++-=-++-++|++.++...|...|.
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 34567778889999999999999999988665 35557889999999888865433332
Q ss_pred cccccccccCCCCCCcCCHHHHHHHHHHHHhcCCCCCCc
Q 006807 581 YFDQVDKLHGFGSRNKESIGRLVWAFFNYWAYGHDYASN 619 (630)
Q Consensus 581 f~d~~e~L~~~~s~N~~SLgeLLl~FF~yYs~~FDy~~~ 619 (630)
|.-.=++.|+.+-+ .|||..+
T Consensus 865 -----------------S~~~gFlRfL~llS-~~dW~~~ 885 (1121)
T KOG2054|consen 865 -----------------SPENGFLRFLSLLS-TWDWKFD 885 (1121)
T ss_pred -----------------CcchhHHHHHHHHh-cCcccCC
Confidence 11235778888888 7888776
No 44
>COG1796 POL4 DNA polymerase IV (family X) [DNA replication, recombination, and repair]
Probab=57.91 E-value=74 Score=34.81 Aligned_cols=123 Identities=20% Similarity=0.258 Sum_probs=72.1
Q ss_pred HHHHHHHHHHHhhCCCcEEEEecceecCCCCCCCCceEEeecCCCccchHHHHHHHHHHHhhCCCcceEEeeeeeeceEE
Q 006807 400 KLLTLLEKLVCKEWPDARLYLYGSCANSFGVSKSDIDVCLAINDSEINKSEVLLKLADILQSDNLQNVQALTRARVPIVK 479 (630)
Q Consensus 400 qvl~~Le~iI~~~~P~a~V~~FGS~atGl~lp~SDIDI~L~~~~~~i~k~eiL~~LakiLr~~~~~nV~~I~~ARVPIIK 479 (630)
.+...|+..+.+.-+-.++.+-||..-+-.+ .+|||+++...... .+ +...+.-.++..+.+--..++-++.
T Consensus 165 ~ia~ei~~yl~~~~~~~~~~~aGs~RR~ret-v~DiD~~~s~~~~~----~v---~~~~~~~~~~~~vi~~G~~k~s~~~ 236 (326)
T COG1796 165 PIAQEIEGYLEELTPIIQASIAGSLRRGRET-VGDIDILISTSHPE----SV---LEELLEMPNVQEVIAKGETKVSMLL 236 (326)
T ss_pred HHHHHHHHHHHhccchheeeeccchhhcccc-ccceeeEeccCCcH----HH---HHHHhcCCCcceeeecCCceeeEEE
Confidence 3344555555555555778889999877665 67999988765432 12 2233333445555555556666555
Q ss_pred EecccCCeeeeEEeeccchhhchHHHHHHhhcChhhHHHHHHHHHHHHhcCCCCcccCC
Q 006807 480 LMDPVTGISCDICINNLLAVVNTKLLRDYAQIDVRLQQLAFIVKHWAKSRGVNVTYQGT 538 (630)
Q Consensus 480 f~d~~tgI~~DISfnN~~Gv~nT~LL~~y~~~dPrlR~LvllVK~WAK~rGLnd~~~Gg 538 (630)
-. ..|+.|||-+...-..-.+.. .|. -=+.--.-|+..|+.+|..-+..|-
T Consensus 237 ~~--~~~~svD~r~v~~e~fGaal~--~fT----GSkehNi~iR~lA~~kg~klseyGl 287 (326)
T COG1796 237 IL--DEGTSVDFRVVPPEAFGAALQ--HFT----GSKEHNIKIRQLAKAKGEKLSEYGL 287 (326)
T ss_pred Ee--cCCCeeEEEEcCHHHhhhhhh--hcc----cchhhhHHHHHHHHHhCcchhhcce
Confidence 44 468889998775444433322 221 1122334567778899887766663
No 45
>PRK01293 phosphoribosyl-dephospho-CoA transferase; Provisional
Probab=55.75 E-value=37 Score=34.77 Aligned_cols=40 Identities=20% Similarity=0.188 Sum_probs=27.2
Q ss_pred HHHHHHHHHhhCCCcEEEEeccee----cCC--CCCCCCceEEeecCC
Q 006807 402 LTLLEKLVCKEWPDARLYLYGSCA----NSF--GVSKSDIDVCLAIND 443 (630)
Q Consensus 402 l~~Le~iI~~~~P~a~V~~FGS~a----tGl--~lp~SDIDI~L~~~~ 443 (630)
++.|....... +...-+|||.. ||+ ..++||||++|..+.
T Consensus 98 l~~l~~~~~~~--~~~wgv~GS~g~qlaTGl~~l~~~SDLDLlir~~~ 143 (207)
T PRK01293 98 LQALAALLDAL--GLAWGVTGSAGFELATGIPVLHADSDLDLLIRAPQ 143 (207)
T ss_pred HHHHHHHHHhC--CCceeeehhHHHHHhhCCccccCCCCccEeecCCC
Confidence 34444444442 78889999985 666 346899999886643
No 46
>PRK04374 PII uridylyl-transferase; Provisional
Probab=55.67 E-value=45 Score=40.96 Aligned_cols=28 Identities=18% Similarity=0.153 Sum_probs=25.0
Q ss_pred cEEEEecceecCCCCCCCCceEEeecCC
Q 006807 416 ARLYLYGSCANSFGVSKSDIDVCLAIND 443 (630)
Q Consensus 416 a~V~~FGS~atGl~lp~SDIDI~L~~~~ 443 (630)
..|...|+|.-|--.|.|||||.++.+.
T Consensus 73 ~alvAvGgYGR~EL~p~SDIDLliL~~~ 100 (869)
T PRK04374 73 LSLHAVGGYGRGELFPRSDVDLLVLGET 100 (869)
T ss_pred EEEEEcCCccccccCCcccceEEEEecC
Confidence 5788999999999999999999998864
No 47
>PF04229 GrpB: GrpB protein; InterPro: IPR007344 This family of uncharacterised proteins is also known as GrpB.; PDB: 2NRK_A.
Probab=51.52 E-value=61 Score=31.65 Aligned_cols=117 Identities=17% Similarity=0.122 Sum_probs=61.4
Q ss_pred HHHHHHHHHHhhCCCcEEEEecceec-CCCCCCCCceEEeecCCCccchHHHHHHHHHHHhhCCCcceEEeeeeeec---
Q 006807 401 LLTLLEKLVCKEWPDARLYLYGSCAN-SFGVSKSDIDVCLAINDSEINKSEVLLKLADILQSDNLQNVQALTRARVP--- 476 (630)
Q Consensus 401 vl~~Le~iI~~~~P~a~V~~FGS~at-Gl~lp~SDIDI~L~~~~~~i~k~eiL~~LakiLr~~~~~nV~~I~~ARVP--- 476 (630)
....|..++... -+.|.=+||++- |+..+ -.|||.|.++.... +..+...|+..++.-+ .....+|
T Consensus 20 ~~~~l~~~l~~~--~~~IeHIGSTsVpgl~AK-piIDI~v~V~~~~~-----~~~~~~~L~~~Gy~~~--~~~~~~~~~~ 89 (167)
T PF04229_consen 20 EKKRLREALGDP--ALRIEHIGSTSVPGLAAK-PIIDILVGVEDLED-----LDAYIEALEALGYVYN--RGEPGIPGRR 89 (167)
T ss_dssp HHHHHHHHHGGG--EEEEEEESGGGSTT--B--S-EEEEEEES-SGG-----GGGGHHHHHHTT-EE----TTTTSTTEE
T ss_pred HHHHHHHHhchh--hhEEEEeccceeCCcccC-CeeeEEeccCChHH-----HHHHHHHHHHcCCEec--CCCCCCccce
Confidence 334444444322 247888999975 65554 48888888765321 1122344444443211 1122222
Q ss_pred -eEE-EecccCCeeeeEEeeccchhhchHHHHHHhhcChhhHHHHHHHHHHHH
Q 006807 477 -IVK-LMDPVTGISCDICINNLLAVVNTKLLRDYAQIDVRLQQLAFIVKHWAK 527 (630)
Q Consensus 477 -IIK-f~d~~tgI~~DISfnN~~Gv~nT~LL~~y~~~dPrlR~LvllVK~WAK 527 (630)
..| ..+....+.+-|+..+.....+--+++.|+..+|.++.-.--+|.=+.
T Consensus 90 ~f~k~~~~~~~~~hlhv~~~~~~~~~~~l~FRDyLr~~p~~~~~Y~~lK~~la 142 (167)
T PF04229_consen 90 FFRKGDEDGERTHHLHVCPAGSPEWRRHLLFRDYLRAHPELRREYEALKRELA 142 (167)
T ss_dssp EEEE---SSS--EEEEEEETT-HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHH
T ss_pred eeEccCCCCCccEEEEEEeCCCHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHH
Confidence 222 122233355556655555567788899999999999999999998544
No 48
>PRK00227 glnD PII uridylyl-transferase; Provisional
Probab=49.93 E-value=61 Score=38.89 Aligned_cols=48 Identities=21% Similarity=0.090 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHHHHHhh-CC-CcEEEEecceecCCCCCCCCceEEeecCC
Q 006807 396 AKQKKLLTLLEKLVCKE-WP-DARLYLYGSCANSFGVSKSDIDVCLAIND 443 (630)
Q Consensus 396 ~~Reqvl~~Le~iI~~~-~P-~a~V~~FGS~atGl~lp~SDIDI~L~~~~ 443 (630)
..|+.+...-..+++.. +| ++.|...|+|.-|--.|.|||||.++.+.
T Consensus 6 ~~~~~~~~~~~~~~~~~~~~~~~aLvAvGGYGR~EL~P~SDIDLLiL~~~ 55 (693)
T PRK00227 6 QLREDAEASALALLGSLQLPPGTALAATGSLARREMTPYSDLDLILLHPP 55 (693)
T ss_pred HHHHHHHHHHHHHHHhcCCCCCeEEEEeccccccCcCCCcCceEEEEeCC
Confidence 34566666666666554 33 57899999999999999999999998874
No 49
>PHA02603 nrdC.11 hypothetical protein; Provisional
Probab=48.23 E-value=10 Score=41.42 Aligned_cols=21 Identities=29% Similarity=0.302 Sum_probs=19.0
Q ss_pred EEEecceecCCCCCCCCceEE
Q 006807 418 LYLYGSCANSFGVSKSDIDVC 438 (630)
Q Consensus 418 V~~FGS~atGl~lp~SDIDI~ 438 (630)
+.++||.+.|+.+++||+|+-
T Consensus 6 ~~~~GShaYG~~tp~SD~D~r 26 (330)
T PHA02603 6 KGLFGSHLYGTSTPESDVDYK 26 (330)
T ss_pred EEecccceeCCCCCCcccccc
Confidence 578999999999999999954
No 50
>PRK05007 PII uridylyl-transferase; Provisional
Probab=44.53 E-value=88 Score=38.52 Aligned_cols=29 Identities=24% Similarity=0.182 Sum_probs=25.8
Q ss_pred CcEEEEecceecCCCCCCCCceEEeecCC
Q 006807 415 DARLYLYGSCANSFGVSKSDIDVCLAIND 443 (630)
Q Consensus 415 ~a~V~~FGS~atGl~lp~SDIDI~L~~~~ 443 (630)
++.|...|+|.-|--.|.|||||.++.+.
T Consensus 80 ~~alvAvGgyGR~EL~p~SDiDll~l~~~ 108 (884)
T PRK05007 80 DLALVAVGGYGRGELHPLSDIDLLILSRK 108 (884)
T ss_pred ceEEEecCCCCCcccCCcccceEEEEeCC
Confidence 46889999999999999999999998864
No 51
>PF09970 DUF2204: Nucleotidyl transferase of unknown function (DUF2204); InterPro: IPR018700 This family of hypothetical prokaryotic proteins has no known function.
Probab=44.50 E-value=1.2e+02 Score=30.26 Aligned_cols=79 Identities=14% Similarity=0.140 Sum_probs=42.5
Q ss_pred CcEEEEecceec----CCCCCCCCceEEeecCCCccchHHHHHHHHHHHhhCCCcceEEeeeeeeceEEEecccCCeeee
Q 006807 415 DARLYLYGSCAN----SFGVSKSDIDVCLAINDSEINKSEVLLKLADILQSDNLQNVQALTRARVPIVKLMDPVTGISCD 490 (630)
Q Consensus 415 ~a~V~~FGS~at----Gl~lp~SDIDI~L~~~~~~i~k~eiL~~LakiLr~~~~~nV~~I~~ARVPIIKf~d~~tgI~~D 490 (630)
++++++.|+++. |..-...|||+.+..+... ...+++..++. ..++.....-....-.++++. ...+.+|
T Consensus 16 gv~~~ivGG~av~l~~g~~r~T~DIDlfi~~~~~~-~~~~~~~~~a~---~~g~~~~~~~~~~~~~~~~~~--~~~v~ID 89 (181)
T PF09970_consen 16 GVEYVIVGGAAVNLAYGRRRTTKDIDLFIENPSPN-LEADALREVAE---ENGWDLGWTDFGTPRYVVKVG--GEDVRID 89 (181)
T ss_pred CCeEEEECHHHHHHHhCCCCCCCCeEEEeCCCchH-HHHHHHHHHHH---HcCCCcCccccCCCceEEEeC--CCCeEEE
Confidence 568999999974 4445578999988654322 22234444443 333311111111222334443 4678888
Q ss_pred EEeeccchhh
Q 006807 491 ICINNLLAVV 500 (630)
Q Consensus 491 ISfnN~~Gv~ 500 (630)
+ +.|..++.
T Consensus 90 l-~~ni~~~~ 98 (181)
T PF09970_consen 90 L-LENIGDFY 98 (181)
T ss_pred c-hhccCCcc
Confidence 8 55555554
No 52
>COG2320 GrpB Uncharacterized conserved protein [Function unknown]
Probab=42.20 E-value=3e+02 Score=28.03 Aligned_cols=115 Identities=16% Similarity=0.131 Sum_probs=70.2
Q ss_pred CCcEEEEecceecCCCCCCCCceEEeecCCCccchHHHHHHHHHHHhhCCCcceEEe-eeeeec-eEEEecccCCeeeeE
Q 006807 414 PDARLYLYGSCANSFGVSKSDIDVCLAINDSEINKSEVLLKLADILQSDNLQNVQAL-TRARVP-IVKLMDPVTGISCDI 491 (630)
Q Consensus 414 P~a~V~~FGS~atGl~lp~SDIDI~L~~~~~~i~k~eiL~~LakiLr~~~~~nV~~I-~~ARVP-IIKf~d~~tgI~~DI 491 (630)
|.+.|.=.||++-.-.-..-.|||.+.... .+..-.+++-|...++..+... ..-+.+ -.|..+...+-..++
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 578999999998764344567887766522 2344556666776666533322 122222 223334433333444
Q ss_pred --EeeccchhhchHHHHHHhhcChhhHHHHHHHHHHHHhcCCCC
Q 006807 492 --CINNLLAVVNTKLLRDYAQIDVRLQQLAFIVKHWAKSRGVNV 533 (630)
Q Consensus 492 --SfnN~~Gv~nT~LL~~y~~~dPrlR~LvllVK~WAK~rGLnd 533 (630)
+........-.-+++.|++..|..+.-..-+|.=+..+-..+
T Consensus 120 hv~~~G~~~~~~~l~FrD~Lra~P~~~~~Y~~lKr~laa~~~~e 163 (185)
T COG2320 120 HVVTRGSPEIEFALLFRDWLRANPEIREAYAELKRELAAQEDDE 163 (185)
T ss_pred EEEeCCChHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHhchHH
Confidence 444334566777899999999999998888888776664443
No 53
>PRK01759 glnD PII uridylyl-transferase; Provisional
Probab=38.70 E-value=1e+02 Score=37.87 Aligned_cols=28 Identities=18% Similarity=0.194 Sum_probs=25.1
Q ss_pred cEEEEecceecCCCCCCCCceEEeecCC
Q 006807 416 ARLYLYGSCANSFGVSKSDIDVCLAIND 443 (630)
Q Consensus 416 a~V~~FGS~atGl~lp~SDIDI~L~~~~ 443 (630)
+.|...|+|.-|--.|.|||||.++.+.
T Consensus 57 iaLvAvGGYGR~eL~P~SDIDlliL~~~ 84 (854)
T PRK01759 57 LALIAVGGYGRREMFPLSDLDILILTEQ 84 (854)
T ss_pred eEEEEeCCcccccCCCcccceEEEEeCC
Confidence 5789999999999999999999998864
No 54
>COG3541 Predicted nucleotidyltransferase [General function prediction only]
Probab=38.63 E-value=16 Score=38.45 Aligned_cols=20 Identities=35% Similarity=0.277 Sum_probs=17.3
Q ss_pred ecceecCCCCCCCCceEEee
Q 006807 421 YGSCANSFGVSKSDIDVCLA 440 (630)
Q Consensus 421 FGS~atGl~lp~SDIDI~L~ 440 (630)
=||.+.||..|+||+|+--+
T Consensus 16 sGS~~yGf~spdSDyDvR~V 35 (248)
T COG3541 16 SGSHLYGFPSPDSDYDVRGV 35 (248)
T ss_pred ccccccCCCCCCCccceeeE
Confidence 39999999999999997543
No 55
>PRK00275 glnD PII uridylyl-transferase; Provisional
Probab=37.25 E-value=1.2e+02 Score=37.33 Aligned_cols=29 Identities=21% Similarity=0.220 Sum_probs=25.3
Q ss_pred cEEEEecceecCCCCCCCCceEEeecCCC
Q 006807 416 ARLYLYGSCANSFGVSKSDIDVCLAINDS 444 (630)
Q Consensus 416 a~V~~FGS~atGl~lp~SDIDI~L~~~~~ 444 (630)
..|...|+|.-|--.|.|||||.++.+..
T Consensus 79 ~alvAvGgyGR~EL~p~SDiDll~l~~~~ 107 (895)
T PRK00275 79 IALVAVGGYGRGELHPYSDIDLLILLDSA 107 (895)
T ss_pred EEEEEcCCccccCcCCCCCceEEEEecCC
Confidence 57888999999999999999999988643
No 56
>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=32.65 E-value=2.3e+02 Score=34.65 Aligned_cols=30 Identities=20% Similarity=0.161 Sum_probs=26.3
Q ss_pred CCcEEEEecceecCCCCCCCCceEEeecCC
Q 006807 414 PDARLYLYGSCANSFGVSKSDIDVCLAIND 443 (630)
Q Consensus 414 P~a~V~~FGS~atGl~lp~SDIDI~L~~~~ 443 (630)
..+.+...||+.-|--.+.||||++++.+.
T Consensus 42 ~~~aliA~GgyGR~El~p~SDiDll~l~~~ 71 (850)
T TIGR01693 42 SGIALVAVGGYGRGELAPYSDIDLLFLHDG 71 (850)
T ss_pred CCeEEEEeCCccccCcCCCCCCeEEEEeCC
Confidence 356899999999999999999999988764
No 57
>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=31.74 E-value=2.5e+02 Score=26.64 Aligned_cols=70 Identities=17% Similarity=0.227 Sum_probs=40.4
Q ss_pred CCcEEEEecceecCC--CCCCCCceEEeecCCCccchHHHHHHHHHHHhhCCCcceEEeeeeeeceEEEecccCCeeeeE
Q 006807 414 PDARLYLYGSCANSF--GVSKSDIDVCLAINDSEINKSEVLLKLADILQSDNLQNVQALTRARVPIVKLMDPVTGISCDI 491 (630)
Q Consensus 414 P~a~V~~FGS~atGl--~lp~SDIDI~L~~~~~~i~k~eiL~~LakiLr~~~~~nV~~I~~ARVPIIKf~d~~tgI~~DI 491 (630)
.+.+++++|-++-.+ +.+..||||++.... .+.+.++.+.+. ..-+. ...+..++++.. .+..+||
T Consensus 15 ~g~~~ylVGG~VRD~Llg~~~~DiDi~v~~~~-----~~~~~~l~~~~~---~~~v~--~~~~f~t~~v~~--~~~~~di 82 (139)
T cd05398 15 LGYEAYLVGGAVRDLLLGRPPKDIDIATDADG-----PEFAEALFKKIG---GRVVG--LGEEFGTATVVI--NGLTIDV 82 (139)
T ss_pred cCceEEEECChHHHHHcCCCCCCceEEEeCCC-----HHHHHHHHHhcC---CcEEe--cCCcccEEEEEE--CCEEEEE
Confidence 478999999998654 557789999886531 233444433321 11111 123445555542 3677888
Q ss_pred Eeec
Q 006807 492 CINN 495 (630)
Q Consensus 492 SfnN 495 (630)
+.-.
T Consensus 83 ~~~R 86 (139)
T cd05398 83 ATLR 86 (139)
T ss_pred cccc
Confidence 7543
No 58
>COG3072 CyaA Adenylate cyclase [Nucleotide transport and metabolism]
Probab=31.45 E-value=1.7e+02 Score=34.93 Aligned_cols=54 Identities=22% Similarity=0.196 Sum_probs=39.0
Q ss_pred hhhchHHHHHHhhcChhhHHHHHHHHHHHHhcCCCCcccCCCChHHHHHH-HHHHhhh
Q 006807 498 AVVNTKLLRDYAQIDVRLQQLAFIVKHWAKSRGVNVTYQGTLSSYAYVLM-CIHFLQQ 554 (630)
Q Consensus 498 Gv~nT~LL~~y~~~dPrlR~LvllVK~WAK~rGLnd~~~GgLSSYaLiLM-VI~FLQ~ 554 (630)
++..+-++.+|...+|..+-+.+-+|.=...-.++. -+|-+|+.++= |..||-.
T Consensus 265 svLK~LLlEAYs~EyPnt~llA~~fK~~l~ag~~~~---~~lDpY~~ml~~vtrYL~~ 319 (853)
T COG3072 265 SVLKTLLLEAYSWEYPNTRLLARDFKERLHAGELVS---FGLDPYCMMLERVTRYLTA 319 (853)
T ss_pred HHHHHHHHHHHhhcCCCceeehHHHHHHHhcCCccc---cccCHHHHHHHHHHHHHHH
Confidence 345667888899999999999999998877766662 36777766542 4445544
No 59
>PRK03381 PII uridylyl-transferase; Provisional
Probab=27.16 E-value=1.3e+02 Score=36.50 Aligned_cols=28 Identities=21% Similarity=0.205 Sum_probs=25.0
Q ss_pred cEEEEecceecCCCCCCCCceEEeecCC
Q 006807 416 ARLYLYGSCANSFGVSKSDIDVCLAIND 443 (630)
Q Consensus 416 a~V~~FGS~atGl~lp~SDIDI~L~~~~ 443 (630)
..|...|+|.-|--.|.|||||.++.+.
T Consensus 58 ~alvAvg~~gr~el~p~SD~Dll~l~~~ 85 (774)
T PRK03381 58 VALVAVGGLGRRELLPYSDLDLVLLHDG 85 (774)
T ss_pred eEEEEeCCcCCcCcCCCCCCeEEEEeCC
Confidence 5788999999999999999999998863
No 60
>COG1665 Predicted nucleotidyltransferase [General function prediction only]
Probab=26.11 E-value=67 Score=34.54 Aligned_cols=39 Identities=18% Similarity=0.107 Sum_probs=29.1
Q ss_pred HHHHHHHHh-hCCCcEEEEecceecCCCCCCCCceEEeec
Q 006807 403 TLLEKLVCK-EWPDARLYLYGSCANSFGVSKSDIDVCLAI 441 (630)
Q Consensus 403 ~~Le~iI~~-~~P~a~V~~FGS~atGl~lp~SDIDI~L~~ 441 (630)
..|-.++.. -.|--+.=+-||...|+.-.+||||++|..
T Consensus 108 rai~~~led~gVp~~~mGVTGSiL~gl~~~nSDIDfVVYG 147 (315)
T COG1665 108 RAIVEFLEDAGVPVNSMGVTGSILLGLYDENSDIDFVVYG 147 (315)
T ss_pred HHHHHHHHHcCCchhhccccccccccccCCCCCceEEEEc
Confidence 334444444 345566778899999999999999999986
No 61
>KOG4368 consensus Predicted RNA binding protein, contains SWAP, RPR and G-patch domains [General function prediction only]
Probab=25.98 E-value=2.5e+02 Score=33.25 Aligned_cols=20 Identities=30% Similarity=0.476 Sum_probs=9.4
Q ss_pred hcCccccccccee-----ccccccc
Q 006807 127 IQQPNHQQQQNLR-----FGSFQVQ 146 (630)
Q Consensus 127 ~~~~~~~~~~~~~-----~~~~~~~ 146 (630)
+++++||++++.+ |--||..
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 62
>PHA02996 poly(A) polymerase large subunit; Provisional
Probab=25.71 E-value=1.2e+02 Score=34.30 Aligned_cols=96 Identities=21% Similarity=0.263 Sum_probs=53.8
Q ss_pred hhcccHHHHHHHHHcCCCHHH--HH----HHHHHHHHHHHHHHhhCCCcEEEEecceecCCCC---CCCCceEEeecCCC
Q 006807 374 IGRLNAPFLAIYESLIPAEEE--KA----KQKKLLTLLEKLVCKEWPDARLYLYGSCANSFGV---SKSDIDVCLAINDS 444 (630)
Q Consensus 374 Id~L~~ell~~~~~l~PT~EE--~~----~Reqvl~~Le~iI~~~~P~a~V~~FGS~atGl~l---p~SDIDI~L~~~~~ 444 (630)
+.++..++++-|.-..|++.- .. ....+...+++.++. .+-.+.+|||+..-+-- +-.|||+.=+
T Consensus 122 m~~la~~~L~synv~~~~~kvmgrh~VSdLV~~V~klmeEyLrr--hNk~CicYGSySlhllNp~I~YgDIDilqT---- 195 (467)
T PHA02996 122 MEKLARDALNSYNVAVISEKVMGRHNVSDLVGNVNKLMEEYLRR--HNKSCICYGSYSLHLLNPEIEYGDIDILQT---- 195 (467)
T ss_pred HHHHHHHHHHhccccCCCccccccccccHHHHHHHHHHHHHHHh--cCCceEEeeceeeeecCCccccCCcceeee----
Confidence 344555666666666666420 11 222333444444444 35678899999876543 4589998542
Q ss_pred ccchHHHHHHHHHHHhhCCCcceEEeeeeeeceEEE
Q 006807 445 EINKSEVLLKLADILQSDNLQNVQALTRARVPIVKL 480 (630)
Q Consensus 445 ~i~k~eiL~~LakiLr~~~~~nV~~I~~ARVPIIKf 480 (630)
+...+|-.||-++.=-.=.+ +.--+||.+|=
T Consensus 196 --Nar~fLInlaflI~fitG~~---v~LlkVPyLkn 226 (467)
T PHA02996 196 --NSRTFLINLAFLIKFITGRN---VVLLKVPYLKN 226 (467)
T ss_pred --ccHHHHHHHHHHHhhhcCce---EEEEEcccccc
Confidence 23457777777765211112 23457888774
No 63
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=25.67 E-value=1.5e+02 Score=36.26 Aligned_cols=7 Identities=57% Similarity=0.762 Sum_probs=3.0
Q ss_pred CCCCCCC
Q 006807 83 LNFLGFP 89 (630)
Q Consensus 83 ~~~~~~~ 89 (630)
++|+|-|
T Consensus 589 ~g~~Gg~ 595 (1102)
T KOG1924|consen 589 GGFLGGP 595 (1102)
T ss_pred CCCCCCC
Confidence 4444443
No 64
>PF12633 Adenyl_cycl_N: Adenylate cyclase NT domain; InterPro: IPR024685 Adenylate cyclase is the enzyme responsible for the synthesis of cAMP from ATP. On the basis of sequence similarity, it has been proposed that there are three different classes of adenylate cyclases [, ]. Class I cyclases are found in enterobacteria and related Gram-negative bacteria. This entry represents the N-terminal domain of class-I adenylate cyclases.
Probab=25.20 E-value=1.1e+02 Score=31.50 Aligned_cols=28 Identities=29% Similarity=0.354 Sum_probs=23.9
Q ss_pred cEEEEecceecCCCCCCCCceEEeecCC
Q 006807 416 ARLYLYGSCANSFGVSKSDIDVCLAIND 443 (630)
Q Consensus 416 a~V~~FGS~atGl~lp~SDIDI~L~~~~ 443 (630)
.-||.-||..+=--++.||+||=||...
T Consensus 98 ~GlY~MGS~gSi~Qs~~SDlDiWvCh~~ 125 (204)
T PF12633_consen 98 LGLYSMGSTGSIGQSSSSDLDIWVCHDS 125 (204)
T ss_pred EEEEecCCCccccCCCCCCCeEEEEcCC
Confidence 4689999998877889999999988864
No 65
>PRK03059 PII uridylyl-transferase; Provisional
Probab=24.78 E-value=2.6e+02 Score=34.40 Aligned_cols=29 Identities=24% Similarity=0.260 Sum_probs=25.3
Q ss_pred CcEEEEecceecCCCCCCCCceEEeecCC
Q 006807 415 DARLYLYGSCANSFGVSKSDIDVCLAIND 443 (630)
Q Consensus 415 ~a~V~~FGS~atGl~lp~SDIDI~L~~~~ 443 (630)
+..|...|+|.-|--.+.|||||.++.+.
T Consensus 61 ~~alvAvGgyGR~EL~p~SDiDll~l~~~ 89 (856)
T PRK03059 61 GAALVAVGGYGRGELFPYSDVDLLVLLPD 89 (856)
T ss_pred CeEEEEcCCCCCcccCCCCCCEEEEEecC
Confidence 46788899999999999999999998853
No 66
>PRK03333 coaE dephospho-CoA kinase/protein folding accessory domain-containing protein; Provisional
Probab=22.64 E-value=1e+03 Score=26.46 Aligned_cols=108 Identities=19% Similarity=0.227 Sum_probs=63.5
Q ss_pred cEEEEeccee-cCCCCCCCCceEEeecCCCccchHHHHHHHHHHHhhCCCcceEE------eeeeeeceE--EEec-cc-
Q 006807 416 ARLYLYGSCA-NSFGVSKSDIDVCLAINDSEINKSEVLLKLADILQSDNLQNVQA------LTRARVPIV--KLMD-PV- 484 (630)
Q Consensus 416 a~V~~FGS~a-tGl~lp~SDIDI~L~~~~~~i~k~eiL~~LakiLr~~~~~nV~~------I~~ARVPII--Kf~d-~~- 484 (630)
..|.=+||++ -|+.-+. .|||.+.+... ..+..+...|...++.-... .....+|-. ++.. ..
T Consensus 241 ~~IeHIGSTsVpGl~AKP-iIDI~v~V~~~-----~~~~~~~~~l~~~Gy~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 314 (395)
T PRK03333 241 LRVDHIGSTAVPGLDAKD-VIDIQVTVESL-----AVADELAEPLAAAGFPRLPGITQDTPKPDDPDPALWGKRLHASAD 314 (395)
T ss_pred eEEEEeccCCCCCCccCC-eeeEEEeeCCh-----HHHHHHHHHHHHCCCcccccccccCCCcCCCCCcccceeeeccCC
Confidence 5788899995 4766544 78877766532 12234555666555432110 011123321 2211 11
Q ss_pred --CCeeeeEEeeccchhhchHHHHHHhhcChhhHHHHHHHHHHHHhc
Q 006807 485 --TGISCDICINNLLAVVNTKLLRDYAQIDVRLQQLAFIVKHWAKSR 529 (630)
Q Consensus 485 --tgI~~DISfnN~~Gv~nT~LL~~y~~~dPrlR~LvllVK~WAK~r 529 (630)
.-..+-++......+.+.-+++.|+..+|..+.-.--+|.=+...
T Consensus 315 ~~r~~~lHv~~~~~~~~~~~l~FRDyLr~~p~~~~~Y~~lK~~la~~ 361 (395)
T PRK03333 315 PGRPVNLHVRVDGWPGQRFALLFRDWLRADPAARAEYLAVKRRAARR 361 (395)
T ss_pred CCCcEEEEEecCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHh
Confidence 124555555544556777889999999999999999998876654
Done!