Query 008301
Match_columns 570
No_of_seqs 275 out of 760
Neff 5.5
Searched_HMMs 46136
Date Thu Mar 28 22:04:51 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/008301.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/008301hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2245 Poly(A) polymerase and 100.0 4E-129 9E-134 1025.9 38.8 491 55-564 9-522 (562)
2 PTZ00418 Poly(A) polymerase; P 100.0 2E-123 5E-128 1015.6 47.2 474 54-532 45-544 (593)
3 COG5186 PAP1 Poly(A) polymeras 100.0 1E-108 3E-113 841.4 33.2 465 59-529 5-528 (552)
4 PF04928 PAP_central: Poly(A) 100.0 2.8E-65 6.1E-70 515.6 21.6 245 59-402 2-254 (254)
5 COG5260 TRF4 DNA polymerase si 100.0 9.3E-33 2E-37 294.5 24.0 262 78-387 53-342 (482)
6 KOG1906 DNA polymerase sigma [ 100.0 8.9E-30 1.9E-34 276.9 23.6 257 81-387 62-341 (514)
7 PF04926 PAP_RNA-bind: Poly(A) 99.9 4.3E-28 9.3E-33 228.6 5.8 126 403-529 1-156 (157)
8 cd05402 NT_PAP_TUTase Nucleoti 99.8 1.5E-19 3.2E-24 160.8 12.8 98 104-217 1-100 (114)
9 KOG2277 S-M checkpoint control 99.8 3.5E-17 7.5E-22 183.2 22.1 262 82-388 114-431 (596)
10 PRK13300 tRNA CCA-pyrophosphor 99.6 2E-12 4.2E-17 140.6 30.1 298 87-446 4-318 (447)
11 TIGR03671 cca_archaeal CCA-add 99.6 3.3E-13 7.1E-18 144.7 23.1 295 88-446 4-315 (408)
12 PF03813 Nrap: Nrap protein; 99.2 7.5E-09 1.6E-13 122.9 27.3 332 146-492 1-426 (972)
13 COG1746 CCA1 tRNA nucleotidylt 99.2 3.9E-09 8.4E-14 112.9 22.0 300 85-447 6-320 (443)
14 KOG2054 Nucleolar RNA-associat 98.4 1E-05 2.2E-10 94.0 17.7 266 138-417 147-464 (1121)
15 smart00572 DZF domain in DSRM 98.3 5.6E-05 1.2E-09 76.8 18.5 214 140-385 4-229 (246)
16 cd05400 NT_2-5OAS_ClassI-CCAas 97.8 0.00016 3.4E-09 66.7 10.0 77 138-217 27-110 (143)
17 cd05397 NT_Pol-beta-like Nucle 97.7 4.5E-05 9.8E-10 58.9 4.9 26 138-163 17-42 (49)
18 PF03828 PAP_assoc: Cid1 famil 97.6 3.9E-05 8.4E-10 60.9 3.2 51 309-359 1-59 (60)
19 PF01909 NTP_transf_2: Nucleot 97.6 8E-05 1.7E-09 63.2 5.2 32 138-169 14-45 (93)
20 PF09249 tRNA_NucTransf2: tRNA 97.4 0.00048 1E-08 62.3 7.6 93 269-375 3-97 (114)
21 cd05403 NT_KNTase_like Nucleot 97.1 0.00084 1.8E-08 56.4 5.4 31 139-169 19-49 (93)
22 PF03813 Nrap: Nrap protein; 97.0 0.012 2.6E-07 70.9 16.0 151 248-402 668-840 (972)
23 PF07528 DZF: DZF domain; Int 96.3 0.24 5.1E-06 51.0 16.9 210 144-385 2-231 (248)
24 COG1669 Predicted nucleotidylt 96.3 0.02 4.3E-07 50.7 7.9 47 105-167 7-53 (97)
25 PF14091 DUF4269: Domain of un 95.7 0.092 2E-06 50.1 10.1 118 140-284 17-144 (152)
26 COG1708 Predicted nucleotidylt 95.4 0.087 1.9E-06 46.5 8.4 29 138-166 26-54 (128)
27 PRK13746 aminoglycoside resist 94.9 0.061 1.3E-06 55.7 6.9 31 139-169 29-59 (262)
28 PF10421 OAS1_C: 2'-5'-oligoad 92.6 0.094 2E-06 51.8 3.0 47 262-308 41-88 (190)
29 PRK02098 phosphoribosyl-dephos 92.3 0.34 7.4E-06 49.0 6.6 32 138-169 120-157 (221)
30 TIGR03135 malonate_mdcG holo-A 91.5 0.46 9.9E-06 47.4 6.5 32 138-169 108-145 (202)
31 cd00141 NT_POLXc Nucleotidyltr 90.9 1.9 4.1E-05 45.5 10.7 113 137-289 159-277 (307)
32 cd05401 NT_GlnE_GlnD_like Nucl 87.7 3 6.4E-05 39.7 8.6 48 137-184 54-101 (172)
33 PF14792 DNA_pol_B_palm: DNA p 87.3 1.1 2.4E-05 40.5 5.1 53 137-190 23-78 (112)
34 COG1665 Predicted nucleotidylt 86.5 0.51 1.1E-05 49.0 2.8 77 140-217 123-214 (315)
35 KOG2054 Nucleolar RNA-associat 84.9 7.8 0.00017 46.8 11.6 106 250-359 806-926 (1121)
36 KOG3793 Transcription factor N 84.6 22 0.00047 37.3 13.2 211 79-323 38-264 (362)
37 COG2844 GlnD UTP:GlnB (protein 83.6 4.3 9.4E-05 48.0 8.8 57 109-169 41-97 (867)
38 PF03445 DUF294: Putative nucl 82.1 17 0.00037 33.8 10.7 48 137-184 48-96 (138)
39 PRK05007 PII uridylyl-transfer 79.0 8.1 0.00018 46.6 9.3 56 108-167 54-109 (884)
40 PF10620 MdcG: Phosphoribosyl- 75.4 5.8 0.00013 39.9 5.7 43 137-180 115-163 (213)
41 PF09970 DUF2204: Nucleotidyl 71.9 18 0.00038 35.4 8.0 81 138-224 16-100 (181)
42 PRK00227 glnD PII uridylyl-tra 70.5 16 0.00034 43.1 8.5 51 102-166 5-55 (693)
43 PRK01759 glnD PII uridylyl-tra 68.8 20 0.00042 43.3 9.0 56 108-167 30-85 (854)
44 PF10127 Nuc-transf: Predicted 67.1 5 0.00011 40.7 3.2 28 139-166 21-48 (247)
45 PRK04374 PII uridylyl-transfer 66.3 58 0.0013 39.5 12.3 29 138-166 72-100 (869)
46 PF03710 GlnE: Glutamate-ammon 65.2 21 0.00045 36.6 7.2 61 124-184 112-179 (247)
47 PRK03059 PII uridylyl-transfer 64.4 26 0.00056 42.3 8.9 53 108-166 37-89 (856)
48 PRK08609 hypothetical protein; 63.1 27 0.00058 40.2 8.4 109 137-289 174-283 (570)
49 PRK03381 PII uridylyl-transfer 62.3 28 0.00061 41.5 8.6 30 137-166 56-85 (774)
50 PRK00275 glnD PII uridylyl-tra 60.9 34 0.00073 41.6 9.1 31 137-167 77-107 (895)
51 PRK01293 phosphoribosyl-dephos 60.7 24 0.00052 35.5 6.6 44 138-183 109-158 (207)
52 KOG2534 DNA polymerase IV (fam 57.5 43 0.00093 36.0 8.0 49 137-186 170-218 (353)
53 TIGR01693 UTase_glnD [Protein- 57.0 40 0.00088 40.5 8.8 31 137-167 42-72 (850)
54 COG2413 Predicted nucleotidylt 55.6 21 0.00046 36.0 5.1 28 140-167 39-66 (228)
55 PF03281 Mab-21: Mab-21 protei 55.5 2.4E+02 0.0052 29.0 13.2 94 262-380 190-289 (292)
56 smart00483 POLXc DNA polymeras 55.3 83 0.0018 33.7 10.0 31 137-168 163-193 (334)
57 PRK14109 bifunctional glutamin 54.5 36 0.00078 41.9 7.9 48 137-184 722-773 (1007)
58 PF03296 Pox_polyA_pol: Poxvir 53.5 17 0.00038 34.4 3.9 62 87-162 10-77 (149)
59 COG3541 Predicted nucleotidylt 44.1 11 0.00024 38.8 1.2 22 142-163 14-35 (248)
60 PRK14109 bifunctional glutamin 42.1 98 0.0021 38.2 8.9 48 137-184 214-265 (1007)
61 PHA02603 nrdC.11 hypothetical 40.2 15 0.00033 39.5 1.5 25 140-164 5-29 (330)
62 PF10281 Ish1: Putative stress 39.5 25 0.00055 25.6 2.2 31 83-114 6-36 (38)
63 COG1796 POL4 DNA polymerase IV 39.2 54 0.0012 35.2 5.4 70 139-217 181-250 (326)
64 PRK05092 PII uridylyl-transfer 35.2 2.9E+02 0.0062 33.9 11.4 30 137-166 104-133 (931)
65 PRK11072 bifunctional glutamin 30.9 1.6E+02 0.0034 36.2 8.2 60 125-184 667-736 (943)
66 PF07357 DRAT: Dinitrogenase r 30.7 18 0.0004 37.5 0.3 32 406-437 83-114 (262)
67 PHA02996 poly(A) polymerase la 29.0 63 0.0014 35.7 3.9 62 88-163 128-195 (467)
68 PRK14108 bifunctional glutamin 29.0 3.3E+02 0.0071 33.7 10.5 48 137-184 185-238 (986)
69 PRK11072 bifunctional glutamin 28.5 3.4E+02 0.0073 33.5 10.4 48 137-184 153-208 (943)
70 PF12633 Adenyl_cycl_N: Adenyl 26.1 1.2E+02 0.0025 30.7 5.0 31 139-169 98-128 (204)
71 COG1391 GlnE Glutamine synthet 23.6 5.4E+02 0.012 31.7 10.6 45 140-184 173-225 (963)
72 PRK14108 bifunctional glutamin 23.4 2.3E+02 0.005 35.0 7.8 48 137-184 700-757 (986)
No 1
>KOG2245 consensus Poly(A) polymerase and related nucleotidyltransferases [RNA processing and modification]
Probab=100.00 E-value=4e-129 Score=1025.92 Aligned_cols=491 Identities=38% Similarity=0.663 Sum_probs=443.1
Q ss_pred CCCCCccccCCCCCCCCCCCCChHHHHhhHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCchhh
Q 008301 55 PCNSPVFLVPSFNFPLNPSVLDQMDEERSLSLVQLMTNEGLVPSTEEEDKRRNVIQKLKEIVLAWVKRVAWQRRLPKEQI 134 (570)
Q Consensus 55 ~~~~p~l~v~~p~~~l~~e~~~~~d~~~s~~L~~~L~~~~~~ps~eE~~~R~~vl~~L~~iv~~w~~~v~~~~~~~~~~~ 134 (570)
.+.++.+||++|++..+ |++.|+++|.+|+++|+++|+||++||..+|++||++|+++|++|++++++++|++++++
T Consensus 9 ~~~~~~~Gvt~PiS~a~---p~~~d~~lt~~L~~~L~~~g~fEs~eEt~~R~~VL~~L~~iVk~wVk~vs~~k~~p~~~~ 85 (562)
T KOG2245|consen 9 SPSTKSYGVTQPISTAG---PTEADIALTQELIKTLKNEGLFESKEETQRREEVLGKLNQIVKEWVKKVSEQKGLPDGMI 85 (562)
T ss_pred CCccccccccCCcccCC---CcHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCChhhh
Confidence 35679999999976666 559999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCeEEEEecccccCCCCCCCceeEEeecCCCccchHHHHHHHHHHHhcCCCcceEEEeccCccceEEEEECCeeeccc
Q 008301 135 AETHATILTYGSYGLGVHGSESDIDALCLGPEFATMAEDFFVVLHNMLKSRPEVSEIHCVKDAKVPLMRFKFDGILIDLP 214 (570)
Q Consensus 135 ~~~~~~I~~FGSy~lGv~~p~SDID~l~v~p~~~~~~~~ff~~l~~~L~~~~~v~~l~~I~~A~VPIIKf~~~GI~vDLs 214 (570)
.+++|+|+||||||||||+||||||++||+|+|++ |+|||..|.++|+++++|+++++|++|+||||||+++||+|||.
T Consensus 86 ~~aggkIftfGSYRLGVhg~GADIDtLcV~Prhv~-R~DFF~sf~~mL~~~~eVteL~~V~dAfVPiikfKf~GI~IDll 164 (562)
T KOG2245|consen 86 ENAGGKIFTFGSYRLGVHGPGADIDTLCVGPRHVS-RSDFFTSFYDMLKERPEVTELHAVEDAFVPIIKFKFDGIEIDLL 164 (562)
T ss_pred hhcCceEEeccceeecccCCCCCcceeeecccccc-HHHHHHHHHHHHhcCccccccccccccccceEEEEecCeeeeee
Confidence 99999999999999999999999999999999999 57999999999999999999999999999999999999999999
Q ss_pred cccccccCCCccccCCCchhccccchhhhhccchhhhHHHHHHhcCCccchhHHHHHHHHHHHHhCcCCCCCCcccHHHH
Q 008301 215 YACLHVLSVPENVDVLNPFFLRDLDETSWKSLSGVRANKCILQLVPDLEKFQPVLRCIKLWAKRRGVYGNLHGFLGGVHL 294 (570)
Q Consensus 215 f~~l~~~~ip~~l~~~~~~lL~~ld~~s~rSLnG~Rv~~~Il~lvp~~~~Fr~llr~IK~WAk~RgIys~~~G~Lgg~s~ 294 (570)
||++++..+|+++|+.|+++|+++||+|+||||||||||+|++|||+.+.||.+|||||+|||+||||+|.+|||||++|
T Consensus 165 fArL~l~~VP~dldl~ddslLknlDe~~vrSLNGcRVtdqiL~LVPn~~~F~~tLRaiKlWAKrrgVYsN~~GF~GGV~w 244 (562)
T KOG2245|consen 165 FARLALPVVPEDLDLSDDSLLKNLDERCVRSLNGCRVTDQILKLVPNQENFRITLRAIKLWAKRRGVYSNVMGFLGGVAW 244 (562)
T ss_pred ehhcccccCCCcccccchHhhhcccHHHHHHhcCcCHHHHHHHhCCCHHHHHHHHHHHHHHHHhcccccccccccchHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCCCceeecCC---C--CCCCC----CCCCCCCcceeeCCCCCCCcccCc
Q 008301 295 AILVAHVCQNHPKGSLNTLVANFFKTYAYWPWPTPVMLQDP---M--LPAAG----YPSETRSLMPIRLPCSPHEYCHSN 365 (570)
Q Consensus 295 aiLva~vcQl~Pn~sl~~LL~~FF~~Ys~wdW~~pV~l~~g---~--~~~~~----~~~~~~~~MpIitP~~P~~N~a~n 365 (570)
||||||+||+||||+++.|+.+||.+|++|+||+||+|++. . .+.|+ ++|+ +|+|||||||||+||+|||
T Consensus 245 A~LVARiCQLYPNA~~s~Lv~kfF~ifs~W~WP~PVlL~~ie~~~L~~~VWdPr~n~~Dr-yHlMPIITPAyP~~nsthN 323 (562)
T KOG2245|consen 245 AMLVARICQLYPNASPSTLVAKFFRVFSQWNWPNPVLLKPIEEGNLNLPVWDPRVNPSDR-YHLMPIITPAYPQMNSTHN 323 (562)
T ss_pred HHHHHHHHccCCCcchHHHHHHHHHHHhhccCCCceEeccccccccCccccCCCCCCCCc-ceecccccCCccccccccc
Confidence 99999999999999999999999999999999999999764 2 24455 3455 5999999999999999999
Q ss_pred cChhhHHHHHHHHHHHHHHHHhhhCCCCChhhccCCCCchhhccceeEEEEEeCChhcccchhhhhHHHHHHHHHhhhhc
Q 008301 366 ITRSTFYKIRTEFLRGHNTTRDLMRPDFDWHFLFEPFPYSKKYARFVRVYLSASNQDDLGDWVGWVKSRFRSLILKLEEV 445 (570)
Q Consensus 366 Vs~stl~~I~~Ef~rA~~il~~i~~~~~~W~~Lf~~~~Ff~~y~~yl~i~v~a~~~~~~~~w~G~vESrlr~Lv~~LE~~ 445 (570)
||+||+++|.+||+||++|+++|+.++.+|++|||+++||.+|||||+|+++|.++|++.+|.||||||+|.|+.+||++
T Consensus 324 VS~ST~~Vi~~Ef~~g~~I~~~i~~~k~~W~~LFE~~~FF~rYk~yl~i~~~A~~~ed~l~w~G~vESriR~Lv~klE~~ 403 (562)
T KOG2245|consen 324 VSRSTLKVITEEFKRGLEICDDIELNKLDWSDLFELYNFFSRYKHYLQITASAATEEDLLKWVGWVESRIRQLVLKLERN 403 (562)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHhccccHHHHhhhhHHHHHHhhHheeeeeccChHHHhhhhhHHHHHHHHHHHHHHhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999997
Q ss_pred cC--ccCCCCCCCcCCCC----CCCceEEEEeEecCCCcccchHHHHHHHHHHHHcc-----CCCCC--ceEEEEEecCC
Q 008301 446 QG--LCDPNPTEYIDVDV----TEPHIVFYWGLQPGRTNLLDIVAVEKDFLKNIHNG-----FQGSP--GRMGLLVVQAS 512 (570)
Q Consensus 446 ~~--~~~p~P~~~~~~~~----~~~~~~~~iGL~~~~~~~~d~~~~~~~F~~~i~~~-----~~~~~--~~i~vs~vk~~ 512 (570)
+. +|||+|.+|.+... .++...++|||......++|++..+++|++.+..+ ..... +.+++.|+|++
T Consensus 404 ~~i~~ahp~P~~f~~~~~~~~~~~~~~~~~igl~~~e~~~~Dlt~~iq~f~~~v~~q~~~~~~~~~g~~~~~~~~~~krr 483 (562)
T KOG2245|consen 404 QVILIAHPNPKKFKDTYNCPLEEDPESLWFIGLEFDENVKIDLTKDIQSFKKNVERQAVNLTLIKAGCDVEIDFGHVKRR 483 (562)
T ss_pred cceEEecCCcccccccccCCcccchhHhhhhcccccccccchhhhhHHHhhhhhhhcceeeeeeeccccccccccccccc
Confidence 65 68999999987542 24567899999998787899999999999988743 11123 46677799999
Q ss_pred CCCCCcccCCCCccccccccccccCCCCCCCccCCCCCcceeeeccc-ccCCC
Q 008301 513 QLSKSSQLDFGSGRRTKACWKNLDYNLPRIPVYSQHLPNYIIGYVDA-KADSK 564 (570)
Q Consensus 513 ~Lp~~v~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~ 564 (570)
+|+.++... +-+.. +.++. +++++.+.+||+.+ +.++.
T Consensus 484 ~l~~~~~~~-~l~~~-------k~~~~------~~~~s~~~~~~~~~~~~~~~ 522 (562)
T KOG2245|consen 484 SLIQTITKE-FLRLC-------KQYKK------STRLSGMVSGYRSVKNRDAP 522 (562)
T ss_pred ccccccCHH-HhhHH-------Hhhcc------cCCCCcccccccccccccCC
Confidence 999988322 11111 11111 45777777777763 34443
No 2
>PTZ00418 Poly(A) polymerase; Provisional
Probab=100.00 E-value=2.5e-123 Score=1015.63 Aligned_cols=474 Identities=30% Similarity=0.504 Sum_probs=439.6
Q ss_pred cCCCCCccccCCCCCCCCCCCCChHHHHhhHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCchh
Q 008301 54 VPCNSPVFLVPSFNFPLNPSVLDQMDEERSLSLVQLMTNEGLVPSTEEEDKRRNVIQKLKEIVLAWVKRVAWQRRLPKEQ 133 (570)
Q Consensus 54 ~~~~~p~l~v~~p~~~l~~e~~~~~d~~~s~~L~~~L~~~~~~ps~eE~~~R~~vl~~L~~iv~~w~~~v~~~~~~~~~~ 133 (570)
.++..+.+||++| +..+.|++.|++.+++|+++|+++|++||+||.++|++||++|+++|++|+++++.++|++++.
T Consensus 45 ~~~~~~~~Gvt~P---is~~~Pt~~d~~~s~~L~~~L~~~~~fes~ee~~kR~~vL~~L~~iv~~wv~~vs~~k~~~~~~ 121 (593)
T PTZ00418 45 SIECALSYGVTDP---ISLNGPTEEDLKLSNELINLLKSYNLYETEEGKKKRERVLGSLNKLVREFVVEASIEQGINEEE 121 (593)
T ss_pred ccCcccccCCCCC---ccCCCCChHHHhhhHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCChhH
Confidence 3556677899988 5666678999999999999999999999999999999999999999999999999999999999
Q ss_pred hccCCeEEEEecccccCCCCCCCceeEEeecCCCccchHHHHHHHHHHHhcCCCcceEEEeccCccceEEEEECCeeecc
Q 008301 134 IAETHATILTYGSYGLGVHGSESDIDALCLGPEFATMAEDFFVVLHNMLKSRPEVSEIHCVKDAKVPLMRFKFDGILIDL 213 (570)
Q Consensus 134 ~~~~~~~I~~FGSy~lGv~~p~SDID~l~v~p~~~~~~~~ff~~l~~~L~~~~~v~~l~~I~~A~VPIIKf~~~GI~vDL 213 (570)
+..++++|+|||||+||||+|+||||+||++|.+++ +++||..|+++|++.++|+++++|++|+||||||+++||+|||
T Consensus 122 ~~~~~g~I~tfGSYrLGV~~pgSDID~L~V~P~~vt-redFF~~f~~~L~~~~~V~eL~~V~~A~VPiIk~~~~GI~iDL 200 (593)
T PTZ00418 122 ASQISGKLFTFGSYRLGVVAPGSDIDTLCLAPRHIT-RESFFSDFYAKLQQDPNITKLQPVPDAYTPVIKFVYDGIDIDL 200 (593)
T ss_pred HhcCCeEEEEeccccccCCCCCCcccEEEECCCCCC-HHHHHHHHHHHHhcCCCcceeeccCccccCeEEEEECCEEEee
Confidence 989999999999999999999999999999999999 5899999999999999999999999999999999999999999
Q ss_pred ccccccccCCCccccCCCch-hccccchhhhhccchhhhHHHHHHhcCCccchhHHHHHHHHHHHHhCcCCCCCCcccHH
Q 008301 214 PYACLHVLSVPENVDVLNPF-FLRDLDETSWKSLSGVRANKCILQLVPDLEKFQPVLRCIKLWAKRRGVYGNLHGFLGGV 292 (570)
Q Consensus 214 sf~~l~~~~ip~~l~~~~~~-lL~~ld~~s~rSLnG~Rv~~~Il~lvp~~~~Fr~llr~IK~WAk~RgIys~~~G~Lgg~ 292 (570)
+||+++...+|+++++.|++ +|++||++++|||||+||+|+|+++||+.+.||.++|+||+|||+||||+|++||||||
T Consensus 201 ~fa~l~~~~vp~~~~~l~d~~lL~nlde~s~rSLNG~Rvtd~Il~lVPn~~~Fr~aLR~IKlWAkrRGIYsNv~GflGGV 280 (593)
T PTZ00418 201 LFANLPLPTIPDCLNSLDDDYILRNVDEKTVRSLNGCRVADLILASVPNKDYFRTTLRFIKLWAKRRGIYSNVLGYLGGV 280 (593)
T ss_pred eecccCCCCCCccccccCchhhhhcCCHHHhhhhccHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccccccccccchH
Confidence 99999999999999988886 99999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCCCceeecCC----------CCCCCCCC---CCCCCcceeeCCCCCC
Q 008301 293 HLAILVAHVCQNHPKGSLNTLVANFFKTYAYWPWPTPVMLQDP----------MLPAAGYP---SETRSLMPIRLPCSPH 359 (570)
Q Consensus 293 s~aiLva~vcQl~Pn~sl~~LL~~FF~~Ys~wdW~~pV~l~~g----------~~~~~~~~---~~~~~~MpIitP~~P~ 359 (570)
+|||||||+||+|||+++++||.+||.+|++|+||+||+|++. +.+.|++. ++++|+||||||+||+
T Consensus 281 ~wAILvARVCQLyPna~~s~Lv~~FF~iys~W~Wp~PV~L~~i~~~~~~~g~~~~~VWdPr~~~~dr~h~MPIITPayP~ 360 (593)
T PTZ00418 281 SWAILTARICQLYPNFAPSQLIHKFFRVYSIWNWKNPVLLCKIKEVPNIPGLMNFKVWDPRVNPQDRAHLMPIITPAFPS 360 (593)
T ss_pred HHHHHHHHHHHhCCCCCHHHHHHHHHHHhhcCCCCCCeEcccccccccCCcccCCcccCCCCCcccccccCCeecCCCCC
Confidence 9999999999999999999999999999999999999999642 12356652 2346999999999999
Q ss_pred CcccCccChhhHHHHHHHHHHHHHHHHhhhC-CCCChhhccCCCCchhhccceeEEEEEeCChhcccchhhhhHHHHHHH
Q 008301 360 EYCHSNITRSTFYKIRTEFLRGHNTTRDLMR-PDFDWHFLFEPFPYSKKYARFVRVYLSASNQDDLGDWVGWVKSRFRSL 438 (570)
Q Consensus 360 ~N~a~nVs~stl~~I~~Ef~rA~~il~~i~~-~~~~W~~Lf~~~~Ff~~y~~yl~i~v~a~~~~~~~~w~G~vESrlr~L 438 (570)
||+|+|||.+|+++|++||+||++|++++.. ++.+|++||+|++||.+|++||+|++.|.+++++.+|.||||||||.|
T Consensus 361 mNst~nVt~sT~~vI~~Ef~Ra~~i~~~i~~~~~~~W~~Lfep~~Ff~~Yk~yl~V~v~a~~~~~~~~w~G~VESRlR~L 440 (593)
T PTZ00418 361 MNSTHNVTYTTKRVITEEFKRAHEIIKYIEKNSENTWTNVLEPLDFFTSYKHFLVIQVYATNEHVHNKWEGWIESKIRFL 440 (593)
T ss_pred ccccccccHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHcCCcchhhhcceEEEEEEEECCHHHhhhhhhHHHHHHHHH
Confidence 9999999999999999999999999999987 889999999999999999999999999999999999999999999999
Q ss_pred HHhhhhccC-ccCCCCCCCcCCC-CCCCceEEEEeEecCCC-----cccchHHHHHHHHHHHHcc--C--CCCCceEEEE
Q 008301 439 ILKLEEVQG-LCDPNPTEYIDVD-VTEPHIVFYWGLQPGRT-----NLLDIVAVEKDFLKNIHNG--F--QGSPGRMGLL 507 (570)
Q Consensus 439 v~~LE~~~~-~~~p~P~~~~~~~-~~~~~~~~~iGL~~~~~-----~~~d~~~~~~~F~~~i~~~--~--~~~~~~i~vs 507 (570)
+.+||+.+. .+||||.+|.+.+ ..+++++|||||++++. .++||+.++++|++.|+++ + +...+||+|+
T Consensus 441 v~~LE~~~~i~~~p~P~~f~~~~~~~~~~~~ffIGL~~~~~~~~~~~~~Dl~~~~~~F~~~i~~~~~~~~~~~~~~i~v~ 520 (593)
T PTZ00418 441 IKKLETLNNLKIRPYPKFFKYQDDGWDYASSFFIGLVFFSKNVYNNSTFDLRYAIRDFVDIINNWPEMEKYPDQIDINIK 520 (593)
T ss_pred HHHhhccCCceEeecCcccccCCCCceeEEEEEEeEeeccCCCCCCceEecHHHHHHHHHHHHhhhhcccCCCCceEEEE
Confidence 999999875 4899999998765 34678899999998542 3799999999999999873 2 3345799999
Q ss_pred EecCCCCCCCcccCCCCcccccccc
Q 008301 508 VVQASQLSKSSQLDFGSGRRTKACW 532 (570)
Q Consensus 508 ~vk~~~Lp~~v~~~~g~~~~~~~~~ 532 (570)
|||+++||++| +++|++++++..-
T Consensus 521 ~Vk~~~Lp~~v-~~~~~~~~~~~~~ 544 (593)
T PTZ00418 521 YLKKSQLPAFV-LSQTPEEPVKTKA 544 (593)
T ss_pred EeehHhCCHhh-ccCCCcCCCcccc
Confidence 99999999999 8889999966554
No 3
>COG5186 PAP1 Poly(A) polymerase [RNA processing and modification]
Probab=100.00 E-value=1.3e-108 Score=841.38 Aligned_cols=465 Identities=31% Similarity=0.508 Sum_probs=429.2
Q ss_pred CccccCCCCCCCCCCCCChHHHHhhHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCchhhccCC
Q 008301 59 PVFLVPSFNFPLNPSVLDQMDEERSLSLVQLMTNEGLVPSTEEEDKRRNVIQKLKEIVLAWVKRVAWQRRLPKEQIAETH 138 (570)
Q Consensus 59 p~l~v~~p~~~l~~e~~~~~d~~~s~~L~~~L~~~~~~ps~eE~~~R~~vl~~L~~iv~~w~~~v~~~~~~~~~~~~~~~ 138 (570)
..+|++.|.+. .-.++.+.+++.+|+++|+++|.|+++.|.+.|.+||+.|+.++++++++++.++++.+.++..++
T Consensus 5 k~~GiTgP~ST---~~aTe~En~Ln~~li~eLk~~g~FE~~~E~~~Rv~VL~~Lq~~~~eFV~~vs~~K~m~dgmar~aG 81 (552)
T COG5186 5 KKYGITGPLST---REATEEENRLNGELIKELKERGFFEDDKEGQTRVRVLGKLQFMVREFVARVSRNKGMGDGMARPAG 81 (552)
T ss_pred ccccccCCccc---ccccHHHhhhhHHHHHHHHHcCCcCCchhhhhHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCC
Confidence 34688888544 446799999999999999999999999999999999999999999999999999999999999999
Q ss_pred eEEEEecccccCCCCCCCceeEEeecCCCccchHHHHHHHHHHHhcCCCcceEEEeccCccceEEEEECCeeeccccccc
Q 008301 139 ATILTYGSYGLGVHGSESDIDALCLGPEFATMAEDFFVVLHNMLKSRPEVSEIHCVKDAKVPLMRFKFDGILIDLPYACL 218 (570)
Q Consensus 139 ~~I~~FGSy~lGv~~p~SDID~l~v~p~~~~~~~~ff~~l~~~L~~~~~v~~l~~I~~A~VPIIKf~~~GI~vDLsf~~l 218 (570)
++|++||||+||||+||||||++|+.|.|++ |++||+.|..+||+.++++++..|++|+|||||++++||+|||.|+++
T Consensus 82 GKIFTyGSYRLGVhgpGsDIDtLvvVPkHVs-R~dFFt~f~~~Lrer~ei~eva~vpDAfVPIIK~KF~GIsIDLifARL 160 (552)
T COG5186 82 GKIFTYGSYRLGVHGPGSDIDTLVVVPKHVS-RSDFFTHFYEELRERPEIEEVAKVPDAFVPIIKLKFQGISIDLIFARL 160 (552)
T ss_pred ceeeeecceeeeccCCCCCcceEEEeccccc-HHHHHHHHHHHhccCcchhhhccCCcccceeEEEEecCccceeeeeec
Confidence 9999999999999999999999999999998 589999999999999999999999999999999999999999999999
Q ss_pred cccCCCccccCCCchhccccchhhhhccchhhhHHHHHHhcCCccchhHHHHHHHHHHHHhCcCCCCCCcccHHHHHHHH
Q 008301 219 HVLSVPENVDVLNPFFLRDLDETSWKSLSGVRANKCILQLVPDLEKFQPVLRCIKLWAKRRGVYGNLHGFLGGVHLAILV 298 (570)
Q Consensus 219 ~~~~ip~~l~~~~~~lL~~ld~~s~rSLnG~Rv~~~Il~lvp~~~~Fr~llr~IK~WAk~RgIys~~~G~Lgg~s~aiLv 298 (570)
+.+.+|.++.+.|+++|++|||+|++||||.||+|+|+++||+...|+.+||+||+||++|.+|.|.+||.||++|+|||
T Consensus 161 s~P~Vp~~l~Lsd~nLLk~~dEkcilsLNGtRVTDeiL~LVP~~~vF~~ALRaIK~WAqRRavYaN~~GfpGGVAwam~V 240 (552)
T COG5186 161 SIPVVPDGLNLSDDNLLKSMDEKCILSLNGTRVTDEILNLVPSVKVFHSALRAIKYWAQRRAVYANPYGFPGGVAWAMCV 240 (552)
T ss_pred cCCcCCCcccccchhhhhcchHHHHHhhcCceehHHHHHhCCchHHHHHHHHHHHHHHHhhhhhccccCCcchHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhCCCCCHHHHHHHHHHHhhcCCCCCceeecC---CCC--CCCC----CCCCCCCcceeeCCCCCCCcccCccChh
Q 008301 299 AHVCQNHPKGSLNTLVANFFKTYAYWPWPTPVMLQD---PML--PAAG----YPSETRSLMPIRLPCSPHEYCHSNITRS 369 (570)
Q Consensus 299 a~vcQl~Pn~sl~~LL~~FF~~Ys~wdW~~pV~l~~---g~~--~~~~----~~~~~~~~MpIitP~~P~~N~a~nVs~s 369 (570)
||+||+|||++...++.+||+++++|+||+||+|++ |.+ +.|+ ++|+ .|.||||||+||+||.|||||.|
T Consensus 241 ARiCQLYPNA~S~vIv~kFF~ils~WnWPqPviLkPieDgplqvrvWnPKvYpsDk-~HRMPvITPAYPSMCATHNit~S 319 (552)
T COG5186 241 ARICQLYPNASSFVIVCKFFEILSSWNWPQPVILKPIEDGPLQVRVWNPKVYPSDK-YHRMPVITPAYPSMCATHNITNS 319 (552)
T ss_pred HHHHhhccCcchHhHHHHHHHHHHhcCCCCCeEeeeccCCCeeEEeeCCccCcccc-cccCccccCCchhhhhhccccch
Confidence 999999999999999999999999999999999974 322 3344 4565 59999999999999999999999
Q ss_pred hHHHHHHHHHHHHHHHHhhhCCCCChhhccCCCCchhhccceeEEEEEeCChhcccchhhhhHHHHHHHHHhhhhccC--
Q 008301 370 TFYKIRTEFLRGHNTTRDLMRPDFDWHFLFEPFPYSKKYARFVRVYLSASNQDDLGDWVGWVKSRFRSLILKLEEVQG-- 447 (570)
Q Consensus 370 tl~~I~~Ef~rA~~il~~i~~~~~~W~~Lf~~~~Ff~~y~~yl~i~v~a~~~~~~~~w~G~vESrlr~Lv~~LE~~~~-- 447 (570)
|..+|..||-||++|+++|..+..+|..||+.+|||.+||+||.|++.+.++|++.+|.|+||||+|.|+.+||....
T Consensus 320 Tq~vIl~EfvRa~~I~~di~~n~~~w~~lFek~DFF~RYk~yleitA~s~~~E~~lKW~GlvESKiR~Lv~klE~vd~i~ 399 (552)
T COG5186 320 TQHVILMEFVRAHKILSDIERNALDWRRLFEKSDFFSRYKLYLEITAMSSCEEDFLKWEGLVESKIRILVSKLEAVDDIL 399 (552)
T ss_pred hhhhHHHHHHHHHHhhhhHhhccccHHHHHHhhhHHHHHhHhhhhhhhhcchhhhhhhhhHHHHHHHHHHHHHHHhhhhh
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999999865
Q ss_pred ccCCCCCCCcC----------------------------------CCC--------C-CCceEEEEeEecC---CCcccc
Q 008301 448 LCDPNPTEYID----------------------------------VDV--------T-EPHIVFYWGLQPG---RTNLLD 481 (570)
Q Consensus 448 ~~~p~P~~~~~----------------------------------~~~--------~-~~~~~~~iGL~~~---~~~~~d 481 (570)
++||+|+.|-. +.. . -+.+.|||||+.. +.+.+|
T Consensus 400 ~AhPF~K~F~~~y~c~~Ee~~e~i~~~~~~~~a~~s~d~~kl~~d~~~eees~~d~~k~y~tt~yIgld~~~~~~~kkvd 479 (552)
T COG5186 400 YAHPFPKAFRKVYNCVAEESIEKIGSGVTLEVAYESTDHEKLANDTVPEEESMEDGMKVYCTTFYIGLDVIPVKPGKKVD 479 (552)
T ss_pred hcCcCChhhhhhcCCccHHHHHHHhcccceeehhhccchhhhccccCchhhhhccccceeeeEEEEEEEeeecCCCceee
Confidence 46888765420 000 0 1456799999863 468899
Q ss_pred hHHHHHHHHHHHHcc-CCCC-CceEEEEEecCCCCCCCcccCCCCccccc
Q 008301 482 IVAVEKDFLKNIHNG-FQGS-PGRMGLLVVQASQLSKSSQLDFGSGRRTK 529 (570)
Q Consensus 482 ~~~~~~~F~~~i~~~-~~~~-~~~i~vs~vk~~~Lp~~v~~~~g~~~~~~ 529 (570)
++.++++|.+.|++. +++. .+.+.+..+|+.+||+.| |++||.+|++
T Consensus 480 i~~p~~EF~elcr~~d~gd~~~mni~v~~~K~~dlpdeV-F~~geerPs~ 528 (552)
T COG5186 480 IEQPVKEFIELCREYDEGDASGMNIEVNSLKRKDLPDEV-FYPGEERPSN 528 (552)
T ss_pred eeccHHHHHHHHHHhhccccceeeeehhhccccCCchhh-cCCCccCccc
Confidence 999999999999984 4444 458999999999999999 8999999976
No 4
>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=100.00 E-value=2.8e-65 Score=515.65 Aligned_cols=245 Identities=44% Similarity=0.731 Sum_probs=192.6
Q ss_pred CccccCCCCCCCCCCCCChHHHHhhHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCchhhccCC
Q 008301 59 PVFLVPSFNFPLNPSVLDQMDEERSLSLVQLMTNEGLVPSTEEEDKRRNVIQKLKEIVLAWVKRVAWQRRLPKEQIAETH 138 (570)
Q Consensus 59 p~l~v~~p~~~l~~e~~~~~d~~~s~~L~~~L~~~~~~ps~eE~~~R~~vl~~L~~iv~~w~~~v~~~~~~~~~~~~~~~ 138 (570)
..+||+.| ++.+.|++.|++.+++|+++|++++++||+||.++|++||++|++++++|+++
T Consensus 2 ~~~Gvt~P---IS~~~Pt~~Dl~~s~~L~~~l~~~~~~es~ee~~~R~~vl~~L~~iv~~wv~~---------------- 62 (254)
T PF04928_consen 2 KQYGVTKP---ISLAPPTEKDLKRSASLEEFLKDYGLFESEEEEQKREEVLRKLQQIVKEWVKQ---------------- 62 (254)
T ss_dssp GGGSTT-----S------HHHHHHHHHHHHHHHHCT-S--HHHHHHHHHHHHHHHHHHHHHHHH----------------
T ss_pred CccCCCCC---ccCCCCChhhHHhHHHHHHHHHHcCCCCChHHHhHHHHHHHHHHHHHHHHHHh----------------
Confidence 46789988 66677889999999999999999999999999999999999999999999953
Q ss_pred eEEEEecccccCCCCCCCceeEEeecCCCccchHHHHHHHHHHHhcCCCcceEEEeccCccceEEEEECCeeeccccccc
Q 008301 139 ATILTYGSYGLGVHGSESDIDALCLGPEFATMAEDFFVVLHNMLKSRPEVSEIHCVKDAKVPLMRFKFDGILIDLPYACL 218 (570)
Q Consensus 139 ~~I~~FGSy~lGv~~p~SDID~l~v~p~~~~~~~~ff~~l~~~L~~~~~v~~l~~I~~A~VPIIKf~~~GI~vDLsf~~l 218 (570)
T Consensus 63 -------------------------------------------------------------------------------- 62 (254)
T PF04928_consen 63 -------------------------------------------------------------------------------- 62 (254)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred cccCCCccccCCCchhccccchhhhhccchhhhHHHHHHhcCCccchhHHHHHHHHHHHHhCcCCCCCCcccHHHHHHHH
Q 008301 219 HVLSVPENVDVLNPFFLRDLDETSWKSLSGVRANKCILQLVPDLEKFQPVLRCIKLWAKRRGVYGNLHGFLGGVHLAILV 298 (570)
Q Consensus 219 ~~~~ip~~l~~~~~~lL~~ld~~s~rSLnG~Rv~~~Il~lvp~~~~Fr~llr~IK~WAk~RgIys~~~G~Lgg~s~aiLv 298 (570)
....+|+++++.++++|++||++|++||||+|++++|+++||+.+.||.++|+||+|||+||||+|++||||||+|||||
T Consensus 63 ~~~~~p~~l~~~~~~~l~~ld~~s~~sLnG~Rv~~~il~~Vp~~~~Fr~~lR~IK~WAk~RGIYsn~~GylGGI~waILv 142 (254)
T PF04928_consen 63 ALPRVPEDLDLLDDDPLRNLDEASVRSLNGVRVTDYILRLVPNQETFRTALRFIKLWAKRRGIYSNVFGYLGGIHWAILV 142 (254)
T ss_dssp SSSSB-TT--TT-GGGGTT--HHHHHHHHHHHHHHHHHCTSS-HHHHHHHHHHHHHHHHHTT-B-CCCTSB-HHHHHHHH
T ss_pred hhcCCCcccccCCchhhhCCCHhhccCcccccHHHHHHHHCCCHHHHHHHHHHHHHHHHHccccchhhccchHHHHHHHH
Confidence 45688999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhCCCCCHHHHHHHHHHHhhcCCCCCceeecCCC-----CCCCCCCC---CCCCcceeeCCCCCCCcccCccChhh
Q 008301 299 AHVCQNHPKGSLNTLVANFFKTYAYWPWPTPVMLQDPM-----LPAAGYPS---ETRSLMPIRLPCSPHEYCHSNITRST 370 (570)
Q Consensus 299 a~vcQl~Pn~sl~~LL~~FF~~Ys~wdW~~pV~l~~g~-----~~~~~~~~---~~~~~MpIitP~~P~~N~a~nVs~st 370 (570)
|++||+|||+++++||.+||.+|++|+|++||.|++.. .+.|++.. ..+|+|||+||+||++|+|+|||+||
T Consensus 143 Arvcql~Pn~~~~~ll~~FF~~ys~W~W~~PV~l~~~~~~~~~~~~w~p~~~~~~~~~~MpIiTP~yP~~Nst~nVt~st 222 (254)
T PF04928_consen 143 ARVCQLYPNASPSTLLSRFFQIYSQWDWPNPVVLDPIEDGPLGFKVWNPRLYPRDRRHLMPIITPAYPSMNSTYNVTRST 222 (254)
T ss_dssp HHHHHHSTT--HHHHHHHHHHHHHCS-TTS-EESS-----SSSCGS--TTT-HHHHC-SS-EE-SSSS--BTTTT--HHH
T ss_pred HHHHHHCccccccchHHHHHHHhcCCCCCCceeecccccCcccccCCCCCCCCCCcccceeEccCCCCccccccccCHHH
Confidence 99999999999999999999999999999999997542 24455542 23599999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHhhhCCCCChhhccCCC
Q 008301 371 FYKIRTEFLRGHNTTRDLMRPDFDWHFLFEPF 402 (570)
Q Consensus 371 l~~I~~Ef~rA~~il~~i~~~~~~W~~Lf~~~ 402 (570)
+++|++||+||+++++++..++.+|++||+|+
T Consensus 223 ~~~i~~Ef~ra~~i~~~~~~~~~~W~~L~e~~ 254 (254)
T PF04928_consen 223 LRIIREEFQRAHEILSEILKGGASWSDLFEPH 254 (254)
T ss_dssp HHHHHHHHHHHHHHHHHHHTTSS-HHHCT---
T ss_pred HHHHHHHHHHHHHHHHHHHcCCCCHHHHcCCC
Confidence 99999999999999999999999999999985
No 5
>COG5260 TRF4 DNA polymerase sigma [DNA replication, recombination, and repair]
Probab=100.00 E-value=9.3e-33 Score=294.54 Aligned_cols=262 Identities=20% Similarity=0.354 Sum_probs=211.1
Q ss_pred HHHHhhHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHHHH-HHHHHHHhhCCCchhhccCCeEEEEecccccCCCCCCC
Q 008301 78 MDEERSLSLVQLMTNEGLVPSTEEEDKRRNVIQKLKEIVLA-WVKRVAWQRRLPKEQIAETHATILTYGSYGLGVHGSES 156 (570)
Q Consensus 78 ~d~~~s~~L~~~L~~~~~~ps~eE~~~R~~vl~~L~~iv~~-w~~~v~~~~~~~~~~~~~~~~~I~~FGSy~lGv~~p~S 156 (570)
..-.++.+|.++... +.|+.+|.++|...+++|++++++ | +++.+++|||+.+|+++|+|
T Consensus 53 ~~~~lt~el~~~y~~--I~ps~eEl~~R~~~leklr~~lk~~~-----------------pda~l~vFGS~~t~L~l~~S 113 (482)
T COG5260 53 ESDELTSELLEFYDY--IAPSDEELKRRKALLEKLRTLLKKEF-----------------PDADLKVFGSTETGLALPKS 113 (482)
T ss_pred hHHHHHHHHHHHHHh--hCCCHHHHHHHHHHHHHHHHHHHHhC-----------------CccceeEecccccccccCcc
Confidence 344567788888874 899999999999999999999985 4 36799999999999999999
Q ss_pred ceeEEeecCCCccchHHHHHHHHHHHhcCCCcceEEEeccCccceEEEEE--CCeeeccccccccccCCCccccCCCchh
Q 008301 157 DIDALCLGPEFATMAEDFFVVLHNMLKSRPEVSEIHCVKDAKVPLMRFKF--DGILIDLPYACLHVLSVPENVDVLNPFF 234 (570)
Q Consensus 157 DID~l~v~p~~~~~~~~ff~~l~~~L~~~~~v~~l~~I~~A~VPIIKf~~--~GI~vDLsf~~l~~~~ip~~l~~~~~~l 234 (570)
|||+|++.+........-...++..|.......++.+|.+||||||||.. .|+.|||+|++.
T Consensus 114 DiDl~I~s~~~~~~et~~~~~l~~~l~~~~~~~~~~~v~tarVPIIKl~d~~s~l~~Disfn~~---------------- 177 (482)
T COG5260 114 DIDLCIISDPRGYKETRNAGSLASHLFKKNLAKEVVVVSTARVPIIKLVDPQSGLHCDISFNNT---------------- 177 (482)
T ss_pred cccEEEecCCccccccccHHHHHHHHHHhccCeeeEEEEecccceEEEecCccceEEEeecCch----------------
Confidence 99999998665432111111445555555677889999999999999987 699999999984
Q ss_pred ccccchhhhhccchhhhHHHHHHhcCCccchhHHHHHHHHHHHHhCcCCCCCCcccHHHHHHHHHHHHhhCCC-------
Q 008301 235 LRDLDETSWKSLSGVRANKCILQLVPDLEKFQPVLRCIKLWAKRRGVYGNLHGFLGGVHLAILVAHVCQNHPK------- 307 (570)
Q Consensus 235 L~~ld~~s~rSLnG~Rv~~~Il~lvp~~~~Fr~llr~IK~WAk~RgIys~~~G~Lgg~s~aiLva~vcQl~Pn------- 307 (570)
+|++.+..++.++..++++|+|+.+||+||++|.++++..|+|+||++++||..++|++|.
T Consensus 178 ------------~~~~~akl~~~~~~~~P~lrpLvliIKhwl~~R~ln~~~~GtL~sy~i~cmV~sfLq~~~~~~~~~~~ 245 (482)
T COG5260 178 ------------NGIVNAKLIRSYLKEDPRLRPLVLIIKHWLKRRALNDVATGTLSSYTISCMVLSFLQMHPPFLFFDNG 245 (482)
T ss_pred ------------hHHHHHHHHHHHHhcCcccchHHHHHHHHHHHHhhcccccCcchhhhhHHHHHHHHHhCCcccccccc
Confidence 6889999999999999999999999999999999999999999999999999999999982
Q ss_pred -----------CCHHHHHHHHHHHhh-cCCCCCc-eeecCC-CC---CCCCCCCCCC-CcceeeCCCCCCCcccCccChh
Q 008301 308 -----------GSLNTLVANFFKTYA-YWPWPTP-VMLQDP-ML---PAAGYPSETR-SLMPIRLPCSPHEYCHSNITRS 369 (570)
Q Consensus 308 -----------~sl~~LL~~FF~~Ys-~wdW~~p-V~l~~g-~~---~~~~~~~~~~-~~MpIitP~~P~~N~a~nVs~s 369 (570)
.+++.|+.+||++|+ .|+|..- +.+..| .+ ..|+.....+ ..+.|++|. ...|.......-
T Consensus 246 ~~~~l~~~~~~~~lgvLf~dFf~~yG~~f~Y~~~~~si~~g~~~~~K~e~g~~~~~~p~~LsiqdP~-td~n~~~~a~s~ 324 (482)
T COG5260 246 LLSPLKYNKNIDNLGVLFDDFFELYGKSFNYSLVVLSINSGDFYLPKYEKGWLKPSKPNSLSIQDPG-TDRNNDISAVSF 324 (482)
T ss_pred ccchhhccccccccchHHHHHHHHhccccChhheEEEecCCceeeehhhcccccccCCCcEeecCCC-CCcccccccccc
Confidence 378999999999999 6999874 446555 21 1122211111 678999999 333333334445
Q ss_pred hHHHHHHHHHHHHHHHHh
Q 008301 370 TFYKIRTEFLRGHNTTRD 387 (570)
Q Consensus 370 tl~~I~~Ef~rA~~il~~ 387 (570)
+.+.|+.+|.+|.+++.+
T Consensus 325 ~ik~i~~~F~~aF~lls~ 342 (482)
T COG5260 325 NIKDIKAAFIRAFELLSN 342 (482)
T ss_pred hHHHHHHHHHHHHHHHhh
Confidence 788999999999999864
No 6
>KOG1906 consensus DNA polymerase sigma [Replication, recombination and repair]
Probab=99.97 E-value=8.9e-30 Score=276.93 Aligned_cols=257 Identities=23% Similarity=0.378 Sum_probs=207.3
Q ss_pred HhhHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHHHH-HHHHHHHhhCCCchhhccCCeEEEEecccccCCCCCCCcee
Q 008301 81 ERSLSLVQLMTNEGLVPSTEEEDKRRNVIQKLKEIVLA-WVKRVAWQRRLPKEQIAETHATILTYGSYGLGVHGSESDID 159 (570)
Q Consensus 81 ~~s~~L~~~L~~~~~~ps~eE~~~R~~vl~~L~~iv~~-w~~~v~~~~~~~~~~~~~~~~~I~~FGSy~lGv~~p~SDID 159 (570)
.+.++++++++. +.||.+|.+.|.++++++++.|++ | ..++|+.||||.+|+++|+||||
T Consensus 62 ~l~~eI~~fv~~--l~pt~~e~~~R~~~~~~i~~~v~~~~-----------------~~a~v~~FGS~~tglyLP~sDID 122 (514)
T KOG1906|consen 62 RLRNEILDFVQY--LIPTPEEIEVRSELVEKIRDVVKQKW-----------------PDASVYVFGSVPTGLYLPDSDID 122 (514)
T ss_pred HHHHHHHHHHHH--hcCCchHHHHHHHHHHHHHHHHHHhc-----------------ccceeEEeeeeeccccccccceE
Confidence 346788888884 899999999999999999999983 4 47999999999999999999999
Q ss_pred EEeecCCCccchHHHHHHHHHHHhc--CCCcceEEEeccCccceEEEEE--CCeeeccccccccccCCCccccCCCchhc
Q 008301 160 ALCLGPEFATMAEDFFVVLHNMLKS--RPEVSEIHCVKDAKVPLMRFKF--DGILIDLPYACLHVLSVPENVDVLNPFFL 235 (570)
Q Consensus 160 ~l~v~p~~~~~~~~ff~~l~~~L~~--~~~v~~l~~I~~A~VPIIKf~~--~GI~vDLsf~~l~~~~ip~~l~~~~~~lL 235 (570)
+++.++.... +++....+.-++.. ...-..+..|..|+||||||+. .+|.|||+|++.
T Consensus 123 l~v~~~~~~~-~e~~~~~~~l~~~~e~~~~~~~v~~v~karvpiik~~d~~s~i~vDISFn~~----------------- 184 (514)
T KOG1906|consen 123 LVVLSKFLND-KEDRAVKLELALELEEDNSAFHVKVVQKARVPIIKFKDPVSNIHVDISFNQT----------------- 184 (514)
T ss_pred EEEecccccC-chhhHHHHHHHHhhhhccccceEEEeeeeeeeeEEeecCccceEEEeeeccc-----------------
Confidence 9999996554 34554444444333 3444668889999999999986 799999999984
Q ss_pred cccchhhhhccchhhhHHHHHHhcCCccchhHHHHHHHHHHHHhCcCCCCCCcccHHHHHHHHHHHHhhCCCC-------
Q 008301 236 RDLDETSWKSLSGVRANKCILQLVPDLEKFQPVLRCIKLWAKRRGVYGNLHGFLGGVHLAILVAHVCQNHPKG------- 308 (570)
Q Consensus 236 ~~ld~~s~rSLnG~Rv~~~Il~lvp~~~~Fr~llr~IK~WAk~RgIys~~~G~Lgg~s~aiLva~vcQl~Pn~------- 308 (570)
|||+.++.|..++.+++.+|.++.++|+|..+|++++...|+++||++++||..++|++|..
T Consensus 185 -----------~G~~aa~~i~~~~~~~p~~~~lvlvlk~fl~~r~ln~v~tGgisSyal~~Lv~~fl~l~~~~~s~~~~~ 253 (514)
T KOG1906|consen 185 -----------NGVKAAKFIKDFLRDHPFLRSLVLVLKQFLYERRLNGVHTGGISSYALELLVLSFLQLHPRSKSGRLAV 253 (514)
T ss_pred -----------CchhHHHHHHHHHhcCccchhHHHHHHHHHHhhcccccccccchHHHHHHHHHHHHhhcccccCCccch
Confidence 69999999999999999999999999999999999999999999999999999999999973
Q ss_pred --CHHHHHHHHHHHhh-cCCCCC-ceeecCCC-CC----CCC--CCCCCCCcceeeCCCCCCCcccCccChhhHHHHHHH
Q 008301 309 --SLNTLVANFFKTYA-YWPWPT-PVMLQDPM-LP----AAG--YPSETRSLMPIRLPCSPHEYCHSNITRSTFYKIRTE 377 (570)
Q Consensus 309 --sl~~LL~~FF~~Ys-~wdW~~-pV~l~~g~-~~----~~~--~~~~~~~~MpIitP~~P~~N~a~nVs~stl~~I~~E 377 (570)
.++.|+.+||++|| +|.+.. .|.+..+. .. .+. ..-.+...+.|++|..|..+.++ +...+..|+.+
T Consensus 254 ~~~~~vll~~f~e~yG~~f~~~k~~i~~~~~g~~~~~~~~~~~~~~~~~~~~LsieDP~~P~ndigr--~s~~~~~v~~~ 331 (514)
T KOG1906|consen 254 LKNLGVLLIKFFELYGRNFGYDKLGISLSLGGEYVSKELTGFFNNSLERPGSLSIEDPVDPTNDIGR--SSFNFSQVKGA 331 (514)
T ss_pred hcccchHHHHHHHHhccccCchhhceeccCCcccccHHhhhhhcccccCCCccccCCCCCccccccc--ccccHHHHHHH
Confidence 57889999999999 677764 66654432 10 011 10111256899999999655542 22346689999
Q ss_pred HHHHHHHHHh
Q 008301 378 FLRGHNTTRD 387 (570)
Q Consensus 378 f~rA~~il~~ 387 (570)
|..|+.++..
T Consensus 332 F~~af~~l~~ 341 (514)
T KOG1906|consen 332 FAYAFKVLTN 341 (514)
T ss_pred HHHHHHHHhh
Confidence 9999988743
No 7
>PF04926 PAP_RNA-bind: Poly(A) polymerase predicted RNA binding domain; InterPro: IPR007010 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 that specifically incorporates ATP at the 3' end of mRNA. The crystal structure of bovine poly(A) polymerase bound to an ATP analogue at 2.5 A resolution 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 C-terminal domain unexpectedly folds into a compact domain reminiscent of the RNA-recognition motif fold. The three invariant aspartates of the catalytic triad ligate two of the three active site metals. One of these metals also contacts the adenine ring. Furthermore, conserved, catalytically important residues contact the nucleotide. These contacts, taken together with metal coordination of the adenine base, provide a structural basis for ATP selection by poly(A) polymerase. ; GO: 0003723 RNA binding, 0004652 polynucleotide adenylyltransferase activity, 0043631 RNA polyadenylation, 0005634 nucleus; PDB: 2O1P_A 2HHP_A 3C66_B 1FA0_A 2Q66_A 1Q79_A 1Q78_A 1F5A_A.
Probab=99.94 E-value=4.3e-28 Score=228.61 Aligned_cols=126 Identities=28% Similarity=0.492 Sum_probs=98.0
Q ss_pred CchhhccceeEEEEEeCChhcccchhhhhHHHHHHHHHhhhhccC--ccCCCCCCCc------------------CCCCC
Q 008301 403 PYSKKYARFVRVYLSASNQDDLGDWVGWVKSRFRSLILKLEEVQG--LCDPNPTEYI------------------DVDVT 462 (570)
Q Consensus 403 ~Ff~~y~~yl~i~v~a~~~~~~~~w~G~vESrlr~Lv~~LE~~~~--~~~p~P~~~~------------------~~~~~ 462 (570)
+||.+|||||+|+++|.+++++.+|.||||||||.||.+||+... ++||||.+|. +....
T Consensus 1 ~FF~~Yk~yl~I~~~a~~~~~~~~W~G~VESrlR~Lv~~LE~~~~i~~ahp~pk~f~~~~~~~~~~~~~~~~~~~~~~~~ 80 (157)
T PF04926_consen 1 DFFSRYKHYLQIDVSAKNEEDHRKWSGWVESRLRHLVQKLERNPGIKLAHPFPKRFERVYECSEQADENNDEEEEEDPEN 80 (157)
T ss_dssp -HHHH-SEEEEEEEEECSHHHHHHHHHHHHCCHHHHHHHHHTSTTEEEEEE-SS-EEEEEE-EBECTTCTTSHHCHCTSE
T ss_pred ChhHhCceeEEEEEEeCCHHHHHHhhhHHHHHHHHHHHHHccCCCeeEecCCCCccccccccccccccccccccccCCCc
Confidence 699999999999999999999999999999999999999999876 5799999997 11223
Q ss_pred CCceEEEEeEecCCC------cccchHHHHHHHHHHHHcc----CCCCCceEEEEEecCCCCCCCcccCCCCccccc
Q 008301 463 EPHIVFYWGLQPGRT------NLLDIVAVEKDFLKNIHNG----FQGSPGRMGLLVVQASQLSKSSQLDFGSGRRTK 529 (570)
Q Consensus 463 ~~~~~~~iGL~~~~~------~~~d~~~~~~~F~~~i~~~----~~~~~~~i~vs~vk~~~Lp~~v~~~~g~~~~~~ 529 (570)
.+.++|||||++... +++||+.++++|++.|+++ ++...|+|+|+|||+++||++| +++|++|+.|
T Consensus 81 ~~~~~~fIGL~~~~~~~~~~~~~~dL~~~i~~F~~~v~~~~~~~~~~~~m~i~i~~vk~~~Lp~~v-~~~~~~r~~k 156 (157)
T PF04926_consen 81 EYTSSFFIGLEFDSKESNEGSKKLDLTYAIQEFKDLVRNWEKYYYDEEGMDISISHVKRSQLPDFV-FEEGEKRPKK 156 (157)
T ss_dssp EEEEEEEEEEEE--SSSS---S-EE-HHHHHHHHHHHHCCCCTTC-TTTEEEEEEEEEHHHHGGGG-S-TTS-----
T ss_pred eeEEEEEEEEEECCCCccccceEEehHHHHHHHHHHHHhhhccccCCCccEEEEEEechHHCChhh-hcccCcCCCC
Confidence 467899999998542 3699999999999999993 3334679999999999999999 8888888865
No 8
>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=99.81 E-value=1.5e-19 Score=160.77 Aligned_cols=98 Identities=35% Similarity=0.620 Sum_probs=88.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhCCCchhhccCCeEEEEecccccCCCCCCCceeEEeecCCCccchHHHHHHHHHHHh
Q 008301 104 KRRNVIQKLKEIVLAWVKRVAWQRRLPKEQIAETHATILTYGSYGLGVHGSESDIDALCLGPEFATMAEDFFVVLHNMLK 183 (570)
Q Consensus 104 ~R~~vl~~L~~iv~~w~~~v~~~~~~~~~~~~~~~~~I~~FGSy~lGv~~p~SDID~l~v~p~~~~~~~~ff~~l~~~L~ 183 (570)
.|++++++|++++++|. +++++++|||+++|+++|+||||+++..|........++..+.+.|+
T Consensus 1 ~r~~i~~~l~~~i~~~~----------------~~~~v~~fGS~~~g~~~~~SDiDl~i~~~~~~~~~~~~l~~l~~~l~ 64 (114)
T cd05402 1 KREEVLDRLQELIKEWF----------------PGAKLYPFGSYVTGLGLPGSDIDLCLLGPNHRVDREDFLRKLAKLLK 64 (114)
T ss_pred CHHHHHHHHHHHHHHHC----------------CCCEEEEecccccCCCCCCCCeeEEEEeCCCCccHHHHHHHHHHHHH
Confidence 48999999999999873 47899999999999999999999999999862225789999999999
Q ss_pred cCCCcceEEEeccCccceEEEEEC--Ceeecccccc
Q 008301 184 SRPEVSEIHCVKDAKVPLMRFKFD--GILIDLPYAC 217 (570)
Q Consensus 184 ~~~~v~~l~~I~~A~VPIIKf~~~--GI~vDLsf~~ 217 (570)
+...+.++..|.+|+||||||.+. |++|||+|++
T Consensus 65 ~~~~~~~~~~i~~ArVPiik~~~~~~~i~~Dis~~~ 100 (114)
T cd05402 65 KSGEVVEVEPIINARVPIIKFVDKPTGIEVDISFNN 100 (114)
T ss_pred hCCCceeeEEeccCCCCEEEEEEcCCCeEEEEEccc
Confidence 988888999999999999999997 9999999997
No 9
>KOG2277 consensus S-M checkpoint control protein CID1 and related nucleotidyltransferases [Cell cycle control, cell division, chromosome partitioning]
Probab=99.76 E-value=3.5e-17 Score=183.18 Aligned_cols=262 Identities=21% Similarity=0.364 Sum_probs=197.2
Q ss_pred hhHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCchhhccCCeEEEEecccccCCCCCCCceeEE
Q 008301 82 RSLSLVQLMTNEGLVPSTEEEDKRRNVIQKLKEIVLAWVKRVAWQRRLPKEQIAETHATILTYGSYGLGVHGSESDIDAL 161 (570)
Q Consensus 82 ~s~~L~~~L~~~~~~ps~eE~~~R~~vl~~L~~iv~~w~~~v~~~~~~~~~~~~~~~~~I~~FGSy~lGv~~p~SDID~l 161 (570)
....+.+.+.. ..+...+...|......++.++..- .+. ....+..|||..+|+....+|+| +
T Consensus 114 l~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~---------~p~-----~~~~~~~~gs~~~~~~~~~~d~d-~ 176 (596)
T KOG2277|consen 114 LDPQLNELLES--FKLPHSDVKTRKLILDKLRALASLL---------FPD-----SILSLYLFGSSDLGLGERSSDLD-L 176 (596)
T ss_pred hchhhhhhhhc--cCCCccccchHHHHHHHHHHHHHHh---------cCC-----CcceeeccCcccccccccccCcc-e
Confidence 44445555553 4456677777777777777777642 221 22336799999999999999999 5
Q ss_pred eecCCCc--c----chHHHHHHHHHHHhcCCC--cceEEEeccCccceEEEEE--CCeeeccccccccccCCCccccCCC
Q 008301 162 CLGPEFA--T----MAEDFFVVLHNMLKSRPE--VSEIHCVKDAKVPLMRFKF--DGILIDLPYACLHVLSVPENVDVLN 231 (570)
Q Consensus 162 ~v~p~~~--~----~~~~ff~~l~~~L~~~~~--v~~l~~I~~A~VPIIKf~~--~GI~vDLsf~~l~~~~ip~~l~~~~ 231 (570)
|+.-... . ....++..+.+.+....+ +..+..|..|+|||||+.. .|+++|+++.+..
T Consensus 177 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~i~~A~vPiik~~~~~~~~~~d~s~~n~~------------ 244 (596)
T KOG2277|consen 177 CVDFTSSFLSFEKIKGLEILKLLAKCLASLLEEGVREVQQILSARVPIIKFNDSGSGLECDLSVNNSD------------ 244 (596)
T ss_pred eecccccccccchhhhHHHHHHHHHHHHhccccccceeeeeeecCCCEEEecCCCCCCceeeeeccch------------
Confidence 5432211 1 123556777888887543 8889999999999999955 5999999999742
Q ss_pred chhccccchhhhhccchhhhHHHHHHhcCCccchhHHHHHHHHHHHHhCcCCCCCCccc-HHHHHHHHHHHHhhCCC---
Q 008301 232 PFFLRDLDETSWKSLSGVRANKCILQLVPDLEKFQPVLRCIKLWAKRRGVYGNLHGFLG-GVHLAILVAHVCQNHPK--- 307 (570)
Q Consensus 232 ~~lL~~ld~~s~rSLnG~Rv~~~Il~lvp~~~~Fr~llr~IK~WAk~RgIys~~~G~Lg-g~s~aiLva~vcQl~Pn--- 307 (570)
|.+.+..+......+++|++|...||.||+++++++...|++. +|++++||++++|..+.
T Consensus 245 ----------------~~~nS~ll~~~~~~d~r~~~L~~~vk~wa~~~~~~d~~~g~~~s~ysl~lmvi~fLq~~~~~il 308 (596)
T KOG2277|consen 245 ----------------AILNSQLLRNYSEIDPRVRPLVLLVKHWAKEKGLNDAKPGGLNSSYSLTLMVIHFLQTLSPPIL 308 (596)
T ss_pred ----------------hhhhhHHHHHhHhcCCCcchHhHHHHHHHHhccCCCCCCCceeccccHHHHHHHHHHhcCCcCC
Confidence 3444555555666677999999999999999999999999988 69999999999998631
Q ss_pred ----------------------------------------CCHHHHHHHHHHHhh-cCCCCCc-eeecCCCCCCCCCCCC
Q 008301 308 ----------------------------------------GSLNTLVANFFKTYA-YWPWPTP-VMLQDPMLPAAGYPSE 345 (570)
Q Consensus 308 ----------------------------------------~sl~~LL~~FF~~Ys-~wdW~~p-V~l~~g~~~~~~~~~~ 345 (570)
.+++.|+..||.||+ .|+|++- |.++.+..........
T Consensus 309 p~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~f~~yy~~~Fdf~~~~I~~r~~~~l~~~~~~~ 388 (596)
T KOG2277|consen 309 PPLSKLLPESDSNDKPVVKKKVLCSFLRVFQRNPSNSQNTGSLGELLLGFFSYYASLFDFRKNAISIRRGRALKRAKKIK 388 (596)
T ss_pred CchhhhchhcccccccchhhhhhhccccccccccccccccchHHHHHHHHHHHHhhhcccccceeeeeecccccccchhh
Confidence 146799999999999 7999974 5576653222111111
Q ss_pred CCCcceeeCCCCCCCcccCccChhhHHHHHHHHHHHHHHHHhh
Q 008301 346 TRSLMPIRLPCSPHEYCHSNITRSTFYKIRTEFLRGHNTTRDL 388 (570)
Q Consensus 346 ~~~~MpIitP~~P~~N~a~nVs~stl~~I~~Ef~rA~~il~~i 388 (570)
....+.|.+|+....|.+..++......|+.+|+.+..++...
T Consensus 389 ~~~~l~i~dp~~~~~n~~~~~~~~~~~~i~~~~~~~~~~~~~~ 431 (596)
T KOG2277|consen 389 SKKFLCIEDPFEVSHNADAGVTLKVLLLIQDEFQESRRVFKDV 431 (596)
T ss_pred hccceeeccccccccCccccchHHHHHHHHHHHHHHHHHhhhh
Confidence 1256889999999999999999999999999999999998765
No 10
>PRK13300 tRNA CCA-pyrophosphorylase; Provisional
Probab=99.57 E-value=2e-12 Score=140.56 Aligned_cols=298 Identities=18% Similarity=0.216 Sum_probs=185.8
Q ss_pred HHHHHhCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCchhhccCCeEEEEecccccCCCCC-CCceeEEeecC
Q 008301 87 VQLMTNEGLVPSTEEEDKRRNVIQKLKEIVLAWVKRVAWQRRLPKEQIAETHATILTYGSYGLGVHGS-ESDIDALCLGP 165 (570)
Q Consensus 87 ~~~L~~~~~~ps~eE~~~R~~vl~~L~~iv~~w~~~v~~~~~~~~~~~~~~~~~I~~FGSy~lGv~~p-~SDID~l~v~p 165 (570)
.+.|+. +.||+||.++-.++.++|...+++++++ .+ ..++++.+|||+-|.|++ +||||+.++.|
T Consensus 4 ~evl~~--i~Ps~eE~~~l~~~~~~l~~~L~~~~~~----~~--------~~~~V~l~GS~ArgT~L~GdsDIDIFv~fp 69 (447)
T PRK13300 4 EEVLER--IKPTEEEREKLKKVAEELIERLEEAIKE----LG--------LDAEVELVGSTARGTWLSGDRDIDIFVLFP 69 (447)
T ss_pred HHHHHh--cCCCHHHHHHHHHHHHHHHHHHHHHHHh----cC--------CceEEEEEeeecCCcccCCCCceeEEEEeC
Confidence 444553 7899999999999999999999887642 12 137999999999999999 78999999998
Q ss_pred CCccchHHHH----HHHHHHHhcCCCcceEEEeccCccceEEEEECCeeeccccccccccCCCccccCCCc-hhccccch
Q 008301 166 EFATMAEDFF----VVLHNMLKSRPEVSEIHCVKDAKVPLMRFKFDGILIDLPYACLHVLSVPENVDVLNP-FFLRDLDE 240 (570)
Q Consensus 166 ~~~~~~~~ff----~~l~~~L~~~~~v~~l~~I~~A~VPIIKf~~~GI~vDLsf~~l~~~~ip~~l~~~~~-~lL~~ld~ 240 (570)
....+ +++= ....+.++....-.+++ -|.=|-++..+.|++|||.=|- ++.+. .+...+|-
T Consensus 70 ~~~~~-e~L~~~gl~i~~~~~~~~~~~~~~~---yaeHpyv~~~~~G~~VDiVPcy----------~v~~~~~~~saVDR 135 (447)
T PRK13300 70 KDTSR-EELEEKGLEIGKEVAKELLGDYEER---YAEHPYVTGEIDGFEVDIVPCY----------KVESGEEIISAVDR 135 (447)
T ss_pred CCCCH-HHHHHHHHHHHHHHHHhhCCcceee---eccCceEEEEECCEEEEEEeeE----------EccCcCcccccccC
Confidence 87652 3321 22222333311122333 4888999999999999996441 11111 11122221
Q ss_pred hhhhccchhhhHHHHHHhcCCccchhHHHHHHHHHHHHhCcCC--CCCCcccHHHHHHHHHHHHhhCCCCCHHHHHHHHH
Q 008301 241 TSWKSLSGVRANKCILQLVPDLEKFQPVLRCIKLWAKRRGVYG--NLHGFLGGVHLAILVAHVCQNHPKGSLNTLVANFF 318 (570)
Q Consensus 241 ~s~rSLnG~Rv~~~Il~lvp~~~~Fr~llr~IK~WAk~RgIys--~~~G~Lgg~s~aiLva~vcQl~Pn~sl~~LL~~FF 318 (570)
.. .=++++++-.. +.++..+|++|.|+|.-|+|+ -+.++++||..-||++++ -+-..++..+
T Consensus 136 tp-------~H~~fv~~rl~--~~~~d~VRLlK~f~k~~gvYGsE~k~~GFSGYl~ELLv~~y------G~F~~~l~~a- 199 (447)
T PRK13300 136 TP-------FHTKYVKERLK--GKLEDEVRLLKQFLKGIGVYGSELKTRGFSGYLCELLIIHY------GSFENVLKAA- 199 (447)
T ss_pred ch-------HHHHHHHHhhh--hhHHHHHHHHHHHHHhCCccchhhccCCccHHHHHHHHHHh------CCHHHHHHHH-
Confidence 11 12455554442 238899999999999999995 568999999999999995 4555555544
Q ss_pred HHhhcCCCCCceeecCCCCCCCCCCCCCCCcceeeCCCCCCCcccCccChhhHHHHHHHHHHHHHHHHhhhCCCCChhhc
Q 008301 319 KTYAYWPWPTPVMLQDPMLPAAGYPSETRSLMPIRLPCSPHEYCHSNITRSTFYKIRTEFLRGHNTTRDLMRPDFDWHFL 398 (570)
Q Consensus 319 ~~Ys~wdW~~pV~l~~g~~~~~~~~~~~~~~MpIitP~~P~~N~a~nVs~stl~~I~~Ef~rA~~il~~i~~~~~~W~~L 398 (570)
++|.-+..|.+.+.+ .... ..+++-|++|.+|..|+|.++|..++..+... |.+-|++ +. .++
T Consensus 200 ---~~w~~~~~I~~~~~~--~~~~---f~~PlvViDPvDp~RNVAaa~S~~~~~~fv~a---ar~fL~~---Ps---~~f 262 (447)
T PRK13300 200 ---SKWKPPVKIDLEKHG--KEYK---FDDPLVVIDPVDPNRNVAAALSLENLATFILA---AREFLKN---PS---LEF 262 (447)
T ss_pred ---HhCCCCceEeccccC--cccc---CCCCEEEeCCCCCcchHHHHcCHHHHHHHHHH---HHHHHhC---CC---HHh
Confidence 345332333332211 1111 12689999999999999999998887665532 2222321 11 344
Q ss_pred cCCCC--------chh-hccceeEEEEEeCChhcccchhhhhHHHHHHHHHhhhhcc
Q 008301 399 FEPFP--------YSK-KYARFVRVYLSASNQDDLGDWVGWVKSRFRSLILKLEEVQ 446 (570)
Q Consensus 399 f~~~~--------Ff~-~y~~yl~i~v~a~~~~~~~~w~G~vESrlr~Lv~~LE~~~ 446 (570)
|.|.+ -+. +=.+.+.|....++.-+-.-| |-++-=.+.|...||+.+
T Consensus 263 F~~~~~~~~~~~~~l~~R~t~~~~v~f~~p~~v~Dil~-pQl~r~~~~i~~~L~~~g 318 (447)
T PRK13300 263 FFPSDLSPEEILEELERRGTTVLALEFPRPDIVEDILY-PQLERSLRSIVKLLEREG 318 (447)
T ss_pred cCCCCCChHHHHHHHhhcCceEEEEEeCCCCCCccchh-HHHHHHHHHHHHHHHHCC
Confidence 44433 111 122444455444443333334 666666666667777654
No 11
>TIGR03671 cca_archaeal CCA-adding enzyme.
Probab=99.57 E-value=3.3e-13 Score=144.73 Aligned_cols=295 Identities=18% Similarity=0.224 Sum_probs=186.9
Q ss_pred HHHHhCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCchhhccCCeEEEEecccccCCCCC-CCceeEEeecCC
Q 008301 88 QLMTNEGLVPSTEEEDKRRNVIQKLKEIVLAWVKRVAWQRRLPKEQIAETHATILTYGSYGLGVHGS-ESDIDALCLGPE 166 (570)
Q Consensus 88 ~~L~~~~~~ps~eE~~~R~~vl~~L~~iv~~w~~~v~~~~~~~~~~~~~~~~~I~~FGSy~lGv~~p-~SDID~l~v~p~ 166 (570)
+.|+ .+.||+||.++-+++.++|...++++.++. + ..++++.|||++-|.|++ +||||++++.|.
T Consensus 4 ~vl~--~i~Ps~eE~~~~~~~~~~l~~~l~~~~~e~------~------~~~~v~~~GS~ArgT~L~G~sDIDIfi~f~~ 69 (408)
T TIGR03671 4 EVLE--RIKPTEEEREKLKKVADELIARLEEIIEEL------G------VDAEVVLVGSYARGTWLKGDRDIDIFILFPK 69 (408)
T ss_pred HHhh--hcCCCHHHHHHHHHHHHHHHHHHHHHHHhc------C------CcceEEEEeeEecCCccCCCCceeEEEEeCC
Confidence 4444 378999999999999999999998876422 1 357999999999999999 899999999987
Q ss_pred CccchHHHHH---HHHHHHhcC-CCcceEEEeccCccceEEEEECCeeeccccccccccCCCccccCCCc-hhccccchh
Q 008301 167 FATMAEDFFV---VLHNMLKSR-PEVSEIHCVKDAKVPLMRFKFDGILIDLPYACLHVLSVPENVDVLNP-FFLRDLDET 241 (570)
Q Consensus 167 ~~~~~~~ff~---~l~~~L~~~-~~v~~l~~I~~A~VPIIKf~~~GI~vDLsf~~l~~~~ip~~l~~~~~-~lL~~ld~~ 241 (570)
... ++++=. .+...+.+. +.. -..-|.=|-++..+.|++|||.=|-- +.+. .+...+|-.
T Consensus 70 ~~~-~e~l~~~gl~i~~~~~~~~~~~----~~~yaeHpYv~~~~~G~~VDiVPcy~----------v~~g~~~~taVDRt 134 (408)
T TIGR03671 70 DTS-REELEEYGLEIGHEVLKRGGNY----EERYAEHPYVSGEIEGFEVDVVPCYK----------VESGEEIISAVDRT 134 (408)
T ss_pred CCC-HHHHHHHHHHHHHHHHhhCCCH----hheeccCceEEEEEccEEEEEEeeEE----------ccCcCeeeccccCc
Confidence 665 334322 222223221 111 14577889999999999999964421 1111 111122211
Q ss_pred hhhccchhhhHHHHHHhcCCccchhHHHHHHHHHHHHhCcCC--CCCCcccHHHHHHHHHHHHhhCCCCCHHHHHHHHHH
Q 008301 242 SWKSLSGVRANKCILQLVPDLEKFQPVLRCIKLWAKRRGVYG--NLHGFLGGVHLAILVAHVCQNHPKGSLNTLVANFFK 319 (570)
Q Consensus 242 s~rSLnG~Rv~~~Il~lvp~~~~Fr~llr~IK~WAk~RgIys--~~~G~Lgg~s~aiLva~vcQl~Pn~sl~~LL~~FF~ 319 (570)
. .=++++++-... .++..+|++|.|+|.-|+|+ -+.++++||..-||++++ -+...++..+
T Consensus 135 p-------~H~~fv~~rl~~--~~~d~VRLlK~f~k~igvYGsE~~~~GFSGYl~ELLv~~y------G~F~~~l~~a-- 197 (408)
T TIGR03671 135 P-------FHTRYVLERLDG--KLRDDVRLLKQFLKGIGVYGSELKTRGFSGYLCELLVIHY------GSFENVLKAA-- 197 (408)
T ss_pred h-------HHHHHHHHhhhh--hHHHHHHHHHHHHHhCCccchhhccCCccHHHHHHHHHHh------CCHHHHHHHH--
Confidence 1 124555544422 38899999999999999995 568999999999999995 3444454443
Q ss_pred HhhcCCCCCceeecCCCCCCCCCCCCCCCcceeeCCCCCCCcccCccChhhHHHHHHHHHHHHHHHHhhhCCCCChhhcc
Q 008301 320 TYAYWPWPTPVMLQDPMLPAAGYPSETRSLMPIRLPCSPHEYCHSNITRSTFYKIRTEFLRGHNTTRDLMRPDFDWHFLF 399 (570)
Q Consensus 320 ~Ys~wdW~~pV~l~~g~~~~~~~~~~~~~~MpIitP~~P~~N~a~nVs~stl~~I~~Ef~rA~~il~~i~~~~~~W~~Lf 399 (570)
++ |..++.+........ . ..+++-|++|.+|..|+|.++|..++..+...-++++ ++ +. ..+|
T Consensus 198 --~~--wk~~~~id~~~~~~~-~---f~~PlvViDPvDp~RNVAaalS~~~~~~fv~aar~fl---~~---Ps---~~fF 260 (408)
T TIGR03671 198 --SK--WKPGVVIDIEEHGTK-K---FDDPLVVIDPVDPKRNVAAALSLENLARFILAARMFL---KN---PS---LEFF 260 (408)
T ss_pred --Hh--cCCCeEEecCccccc-c---CCCCEEEeCCCCCcchHHHHcCHHHHHHHHHHHHHHH---HC---CC---HHHc
Confidence 33 455666622111111 1 1268999999999999999999988877775544442 21 11 3455
Q ss_pred CCC-----C---chhh-ccceeEEEEEeCChhcccchhhhhHHHHHHHHHhhhhcc
Q 008301 400 EPF-----P---YSKK-YARFVRVYLSASNQDDLGDWVGWVKSRFRSLILKLEEVQ 446 (570)
Q Consensus 400 ~~~-----~---Ff~~-y~~yl~i~v~a~~~~~~~~w~G~vESrlr~Lv~~LE~~~ 446 (570)
.|. + -+.+ -.+.+.|....++.-+- ..-|-++-=.+.|...||+.+
T Consensus 261 ~p~~~~~~~~~~~l~~r~t~~~~~~f~~p~~v~D-il~pQl~r~~~~i~~~L~~~g 315 (408)
T TIGR03671 261 FPPEIEPEEFLERLERRGTTLLAIVFRTPDVVDD-ILYPQLERSGRSLVKLLEREG 315 (408)
T ss_pred CCCCCChHHHHHHHhhcCcEEEEEEeCCCCCCcc-chhHHHHHHHHHHHHHHHHCC
Confidence 442 1 1122 22344444444443233 333566666666666777654
No 12
>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=99.17 E-value=7.5e-09 Score=122.91 Aligned_cols=332 Identities=15% Similarity=0.156 Sum_probs=205.8
Q ss_pred ccccCCCC---CCCceeEEeecCCCccchHHH------------HHHHHHHH--hcCCCcceEEE---eccCccceEEEE
Q 008301 146 SYGLGVHG---SESDIDALCLGPEFATMAEDF------------FVVLHNML--KSRPEVSEIHC---VKDAKVPLMRFK 205 (570)
Q Consensus 146 Sy~lGv~~---p~SDID~l~v~p~~~~~~~~f------------f~~l~~~L--~~~~~v~~l~~---I~~A~VPIIKf~ 205 (570)
||.++... ++-.||+.+.-|...-.++|+ ...++..| ++.....++.. -.+.+-||+.+.
T Consensus 1 S~~l~t~~k~~~~~~VDl~v~mP~~~fq~KDyln~RY~~KRA~YLa~iA~~L~~~~~~~~~~v~~~~~~gd~~kPil~l~ 80 (972)
T PF03813_consen 1 SYALKTMIKSKPNLTVDLAVEMPKSLFQEKDYLNYRYFHKRALYLAYIAAHLQKKKSKLFVDVSFEYLNGDPLKPILVLR 80 (972)
T ss_pred CcccccccccCCCCeeEEEEeCChhhcCchhhccchHHHHHHHHHHHHHHHHhhhccccceeEEEEeCCCCCCCCeEEEE
Confidence 56666544 578999999999765323343 44677778 33333333332 347788999887
Q ss_pred EC-----C------eeecccccccc----c---------cC----------CCccccCCCchhccccchhhhhccchhhh
Q 008301 206 FD-----G------ILIDLPYACLH----V---------LS----------VPENVDVLNPFFLRDLDETSWKSLSGVRA 251 (570)
Q Consensus 206 ~~-----G------I~vDLsf~~l~----~---------~~----------ip~~l~~~~~~lL~~ld~~s~rSLnG~Rv 251 (570)
-. + +.|-|..+... . .+ ...--+..|..+|.++-. ..-
T Consensus 81 p~~~~~~~~~~~~~~~iRi~~~~~~~~F~~~rl~P~rnnvR~~~~~~~~~~~~~pTP~YNssIL~D~~~--------~~~ 152 (972)
T PF03813_consen 81 PKGKKDSDDFSKTKFRIRIIPSIPSDTFPLSRLAPSRNNVRPSWFDEEDSSSLPPTPHYNSSILEDMLM--------EEH 152 (972)
T ss_pred ECCccccccccCCcEEEEEEecCCcccCCHHhcCCCCCccCcCcccccccCCCCCCCcchHHHHHHHhH--------HHH
Confidence 42 2 34444333210 0 00 001124456666655432 122
Q ss_pred HHHHHHhcCCccchhHHHHHHHHHHHHhCcCCCC-CCcccHHHHHHHHHHHHhh---------CCCCCHHHHHHHHHHHh
Q 008301 252 NKCILQLVPDLEKFQPVLRCIKLWAKRRGVYGNL-HGFLGGVHLAILVAHVCQN---------HPKGSLNTLVANFFKTY 321 (570)
Q Consensus 252 ~~~Il~lvp~~~~Fr~llr~IK~WAk~RgIys~~-~G~Lgg~s~aiLva~vcQl---------~Pn~sl~~LL~~FF~~Y 321 (570)
.+.+.+...+.+.|+.+++++|.||++||+.+.. .|++||+-|++|+++.+|. .+..|.-+|+..+.++.
T Consensus 153 l~~l~~~~~~~p~f~dA~iLlkvWl~QRg~~~~~~~~Gf~~f~~s~lla~Ll~~g~~~~~~~l~~~mSsyQlFr~~l~fL 232 (972)
T PF03813_consen 153 LKYLHEASKSSPAFRDACILLKVWLRQRGFGSGISQGGFGGFEWSMLLAYLLQGGGRNGKKKLSKSMSSYQLFRAVLQFL 232 (972)
T ss_pred HHHHHHHHhcCHHHHHHHHHHHHHHhcCCCCcccCCCCcchHHHHHHHHHHHcCCCccCCcccCCCCCHHHHHHHHHHHH
Confidence 4455666667899999999999999999998765 5899999999999999987 34578899999999999
Q ss_pred hcCCC-CCceeecCCC--CCC-CCCCCCCCCcceeeCCCCCCCcccCccChhhHHHHHHHHHHHHHHHHhhhCCCCChhh
Q 008301 322 AYWPW-PTPVMLQDPM--LPA-AGYPSETRSLMPIRLPCSPHEYCHSNITRSTFYKIRTEFLRGHNTTRDLMRPDFDWHF 397 (570)
Q Consensus 322 s~wdW-~~pV~l~~g~--~~~-~~~~~~~~~~MpIitP~~P~~N~a~nVs~stl~~I~~Ef~rA~~il~~i~~~~~~W~~ 397 (570)
|..|| .+|+.+.... .+. ..... .+....++|.. ..|.+.++|.++++.|+.|-+++.++|++- .....+.
T Consensus 233 A~~d~~~~~l~~~~~~~~~~~~~~~~~--~~~~vf~D~sg-~~Nl~~~ms~~s~~~L~~eA~~tl~lL~~~--~~d~F~~ 307 (972)
T PF03813_consen 233 ATTDLSKKPLFFKSSSDSTESLEEFHS--AFDPVFVDPSG-GLNLLAKMSPSSYEELQHEAKLTLELLDDS--SDDGFDS 307 (972)
T ss_pred hccccccCceEEecCCCccchhhhhhc--cCCeEEEeCCC-CEEEEEcCCHHHHHHHHHHHHHHHHHhccc--cccchhh
Confidence 99999 6799885432 111 11111 13444556655 689999999999999999999999998763 2345777
Q ss_pred ccC-C-CCchhhccceeEEE---EE----eCChhcccchhhhhHHHHHHHHH-hhhh-ccCc------cCCCCCCCcCCC
Q 008301 398 LFE-P-FPYSKKYARFVRVY---LS----ASNQDDLGDWVGWVKSRFRSLIL-KLEE-VQGL------CDPNPTEYIDVD 460 (570)
Q Consensus 398 Lf~-~-~~Ff~~y~~yl~i~---v~----a~~~~~~~~w~G~vESrlr~Lv~-~LE~-~~~~------~~p~P~~~~~~~ 460 (570)
+|- + .++..+|.+++.|. .. .....+...|...++.++-.|+. .|.. ...+ +.+||-.- ..
T Consensus 308 lFl~~~~~~~~~fD~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~lL~raLgdR~~~i~v~~~~~~~w~i~~--~~ 385 (972)
T PF03813_consen 308 LFLTKVDPPALRFDHVLRISPDSLLSSFSPDESLDFLSFSNYLLRKIYRLLKRALGDRAKLIRVLRPSQPPWSISS--KP 385 (972)
T ss_pred hhcccCCcccccCCEEEEEcchhhcccccccccccccchhHHHHHHHHHHHHHHHHHHHHeEEEeCCCCCCcccCC--CC
Confidence 774 3 36778999999992 11 11222333444455666665543 4533 2211 12233211 11
Q ss_pred CCCCceEEEEeEecCCC---ccc------chHHHHHHHHHH
Q 008301 461 VTEPHIVFYWGLQPGRT---NLL------DIVAVEKDFLKN 492 (570)
Q Consensus 461 ~~~~~~~~~iGL~~~~~---~~~------d~~~~~~~F~~~ 492 (570)
.........|||..... +.+ |-.....+|.+.
T Consensus 386 ~~~~~~~l~vGl~ln~~~~~r~vd~GP~a~d~~ea~~FR~F 426 (972)
T PF03813_consen 386 PKSKPKTLTVGLILNPENAFRLVDRGPSAEDKEEAAAFREF 426 (972)
T ss_pred CCCCCceEEEEEEEchhhceeeeeeCcCCcCcHHHHHHHHH
Confidence 11112378899987531 122 224556666654
No 13
>COG1746 CCA1 tRNA nucleotidyltransferase (CCA-adding enzyme) [Translation, ribosomal structure and biogenesis]
Probab=99.16 E-value=3.9e-09 Score=112.87 Aligned_cols=300 Identities=18% Similarity=0.247 Sum_probs=183.4
Q ss_pred HHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCchhhccCCeEEEEecccccCCCCC-CCceeEEee
Q 008301 85 SLVQLMTNEGLVPSTEEEDKRRNVIQKLKEIVLAWVKRVAWQRRLPKEQIAETHATILTYGSYGLGVHGS-ESDIDALCL 163 (570)
Q Consensus 85 ~L~~~L~~~~~~ps~eE~~~R~~vl~~L~~iv~~w~~~v~~~~~~~~~~~~~~~~~I~~FGSy~lGv~~p-~SDID~l~v 163 (570)
.|.+.|+. +.||+||.++=+.+.+.|...+.+-. .+.+ .++.+...||++=|.|++ +.|||+.|.
T Consensus 6 ~l~evl~~--i~P~~eE~~~~~~~~e~l~~~~~~~~----~e~~--------~~aev~lVGS~AkgTwL~gd~DIDvFi~ 71 (443)
T COG1746 6 VLEEVLKR--IKPTEEERKKLKEVAEELRERINEII----EELG--------IDAEVVLVGSYAKGTWLRGDHDIDVFIA 71 (443)
T ss_pred HHHHHHHH--cCCCHHHHHHHHHHHHHHHHHHHHHH----HhcC--------CcceEEEEeecccCcccCCCcceeEEEE
Confidence 35566664 77999999998888888877777643 3444 368999999999999999 799999999
Q ss_pred cCCCccchHHH----HHHHHHHHhcCCCcceEEEeccCccceEEEEECCeeeccccccccccCCCccccCCCchhccccc
Q 008301 164 GPEFATMAEDF----FVVLHNMLKSRPEVSEIHCVKDAKVPLMRFKFDGILIDLPYACLHVLSVPENVDVLNPFFLRDLD 239 (570)
Q Consensus 164 ~p~~~~~~~~f----f~~l~~~L~~~~~v~~l~~I~~A~VPIIKf~~~GI~vDLsf~~l~~~~ip~~l~~~~~~lL~~ld 239 (570)
-|....+ +.. .......|.+. - -.+.-|-=|-+.-.+.|++||+.=|-... -++ .+...+|
T Consensus 72 Fp~d~~~-eel~~~GL~ig~~~l~~~--~---~~~~YAeHPYV~g~v~G~eVDvVPCy~v~--~~~-------~~~sAVD 136 (443)
T COG1746 72 FPKDTSE-EELEEKGLEIGREVLKRG--N---YEERYAEHPYVTGEVDGYEVDVVPCYKVE--DGE-------KIISAVD 136 (443)
T ss_pred CCCCCCH-HHHHHHHHHHHHHHhcCC--c---hhhhhccCCeeEEEEccEEEEEEeccccc--Ccc-------ccccccc
Confidence 9987652 222 22333444430 1 13557888999999999999996553100 000 0111122
Q ss_pred hhhhhccchhhhHHHHHHhcCCccchhHHHHHHHHHHHHhCcCCC--CCCcccHHHHHHHHHHHHhhCCCCCHHHHHHHH
Q 008301 240 ETSWKSLSGVRANKCILQLVPDLEKFQPVLRCIKLWAKRRGVYGN--LHGFLGGVHLAILVAHVCQNHPKGSLNTLVANF 317 (570)
Q Consensus 240 ~~s~rSLnG~Rv~~~Il~lvp~~~~Fr~llr~IK~WAk~RgIys~--~~G~Lgg~s~aiLva~vcQl~Pn~sl~~LL~~F 317 (570)
-+-. =+.++..-+.. +-+.=+|++|+|.|.-|+|++ +.+++|||.--||++++ -|--..|..+
T Consensus 137 RTpl-------Ht~yv~e~L~~--~~~deVrLLK~FlK~iGvYGaE~rt~GFSGYL~ELLII~y------GsFe~vl~~a 201 (443)
T COG1746 137 RTPL-------HTRYVEEHLKG--RQKDEVRLLKQFLKGIGVYGAELRTQGFSGYLCELLIIHY------GSFENVLKAA 201 (443)
T ss_pred Ccch-------hHHHHHHHhcc--cchhHHHHHHHHHhccCccceeeeeccchHHHHHHHHhhh------ccHHHHHHHH
Confidence 1110 12333333322 122457999999999999985 57999999999999987 2333333322
Q ss_pred HHHhhcCCCCCceeecCCCCCCCCCCCCCCCcceeeCCCCCCCcccCccChhhHHHHHHHHHHHHHHHHhhhCCCCChhh
Q 008301 318 FKTYAYWPWPTPVMLQDPMLPAAGYPSETRSLMPIRLPCSPHEYCHSNITRSTFYKIRTEFLRGHNTTRDLMRPDFDWHF 397 (570)
Q Consensus 318 F~~Ys~wdW~~pV~l~~g~~~~~~~~~~~~~~MpIitP~~P~~N~a~nVs~stl~~I~~Ef~rA~~il~~i~~~~~~W~~ 397 (570)
+ +|..+++|..-........| .+|-+++|.+|..|+|.++|..++.. |..|.+.. ++ +-+ ..
T Consensus 202 ----~--~wrp~~~ID~~~~~~e~f~d---~PliVvDPVDP~RNVAAalSl~~la~----f~~aar~F---L~-~PS-~e 263 (443)
T COG1746 202 ----S--RWRPGKIIDLEGHKRERFED---EPLIVVDPVDPKRNVAAALSLENLAR----FVHAAREF---LK-NPS-PE 263 (443)
T ss_pred ----h--ccCCCeEEeccchhhhccCC---CCeEecCCCCCccchhhhcCHHHHHH----HHHHHHHH---hc-CCC-hh
Confidence 2 38777777432221112222 38999999999999999999877554 33443322 11 111 23
Q ss_pred ccCCC---C-----chhhccceeEEEEEeCChhcccchhhhhHHHHHHHHHhhhhccC
Q 008301 398 LFEPF---P-----YSKKYARFVRVYLSASNQDDLGDWVGWVKSRFRSLILKLEEVQG 447 (570)
Q Consensus 398 Lf~~~---~-----Ff~~y~~yl~i~v~a~~~~~~~~w~G~vESrlr~Lv~~LE~~~~ 447 (570)
.|.|. + ...+=.+=+.+.+-.++.-+- ..-|-++---+.|...||..+.
T Consensus 264 fF~p~~~~~~~~~~~~~rgt~v~~l~~~~pd~vdD-ilypQl~r~~~~l~r~Le~~gF 320 (443)
T COG1746 264 FFFPRKPKPLLLSKLRRRGTHVLALVFPKPDLVDD-ILYPQLERTARSLFRALEEEGF 320 (443)
T ss_pred hcCCCCcCcccccchhhcCceEEEEEeCCCCCCcc-hhhHHHHHHHHHHHHHHHHcCC
Confidence 33222 1 222222334444444553333 3447777777778888887553
No 14
>KOG2054 consensus Nucleolar RNA-associated protein (NRAP) [Function unknown]
Probab=98.38 E-value=1e-05 Score=93.97 Aligned_cols=266 Identities=17% Similarity=0.168 Sum_probs=168.2
Q ss_pred CeEEE-EecccccCC-CCCCCceeEEeecCCCccchH------------HHHHHHHHHHhcCCCcceEEEe---ccCccc
Q 008301 138 HATIL-TYGSYGLGV-HGSESDIDALCLGPEFATMAE------------DFFVVLHNMLKSRPEVSEIHCV---KDAKVP 200 (570)
Q Consensus 138 ~~~I~-~FGSy~lGv-~~p~SDID~l~v~p~~~~~~~------------~ff~~l~~~L~~~~~v~~l~~I---~~A~VP 200 (570)
.++|. ..||+.+|. ..|+.-+|+++..|+..-..+ -+++.+...|-+.+....+... .+-.-|
T Consensus 147 p~~v~~vv~sal~~~~~~P~i~vDvll~mP~e~~~~kd~ln~Ryf~kra~yla~~~~hl~e~l~~~~~~f~~~n~d~~~p 226 (1121)
T KOG2054|consen 147 PAQVTKVVGSALLGTCLRPDISVDVLLTMPREILQQKDGLNQRYFRKRALYLAYLAHHLLEDLLFGSLEFSYTNGDHLKP 226 (1121)
T ss_pred ccccceeeeecccCcccCCcchhhhhhhhhHHhhcCcccccccccchHHHHHHHHHHHHHhccccceeeecccCCccccc
Confidence 34555 556666554 568899999999887542122 3344455555554433333222 245568
Q ss_pred eEEEEECCeeeccccccccccCCCc---------------------------cccCCCchhccccchhhhhccchhhhHH
Q 008301 201 LMRFKFDGILIDLPYACLHVLSVPE---------------------------NVDVLNPFFLRDLDETSWKSLSGVRANK 253 (570)
Q Consensus 201 IIKf~~~GI~vDLsf~~l~~~~ip~---------------------------~l~~~~~~lL~~ld~~s~rSLnG~Rv~~ 253 (570)
|+.+.-.|-..|+.-.+.+.--+|- .-+.+|..+|...-.. -..+
T Consensus 227 il~i~~~~~~~~~~~~~~~~~li~~~~~~f~~~kllp~~~~ir~~~e~~e~ppTP~yN~svL~~~~le--------~~~q 298 (1121)
T KOG2054|consen 227 ILLIRPRGKDERLVTVRPPDFLIPCRLLPFKNNKLLPWYNGIRPAGEGSEEPPTPRYNTSVLEDQVLE--------EYLQ 298 (1121)
T ss_pred hhhccccCCccccccccCccccccccccccccccccchhcccCccccCCCCCCCCccchhHHHHHHHH--------HHHH
Confidence 8877655544444333211111111 1223344333321111 1123
Q ss_pred HHHHhcCCccchhHHHHHHHHHHHHhCcCCCCCCcccHHHHHHHHHHHHh---hCCCCCHHHHHHHHHHHhhcCCCCC-c
Q 008301 254 CILQLVPDLEKFQPVLRCIKLWAKRRGVYGNLHGFLGGVHLAILVAHVCQ---NHPKGSLNTLVANFFKTYAYWPWPT-P 329 (570)
Q Consensus 254 ~Il~lvp~~~~Fr~llr~IK~WAk~RgIys~~~G~Lgg~s~aiLva~vcQ---l~Pn~sl~~LL~~FF~~Ys~wdW~~-p 329 (570)
++.+.....+.|+.++...|.|+++|.. +-..|++||+-|++++++... ++-+.|..+++..-+++.+.|||.. .
T Consensus 299 ~L~K~~s~~~~f~da~~Llk~WlrqRs~-~~~~~gfg~f~~s~lvv~L~s~~ki~~~~S~yqvfR~vl~flat~dlt~~~ 377 (1121)
T KOG2054|consen 299 LLSKTLSSAKGFKDALALLKVWLRQRSL-DIGQGGFGGFLLSALVVYLVSTRKIHTTLSAYQVFRSVLQFLATTDLTVNG 377 (1121)
T ss_pred HHHHHHhhhhhHHHHHHHHHHHHHhhhh-hcccCcchHHHHHHHHHHHHhcCchhhcchHHHHHHHHHHHHhhhhhhccc
Confidence 4445556678999999999999999922 225689999999999998875 4567789999999999999999986 7
Q ss_pred eeecCCCCC---CCCCCCCCCCcceeeCCCCCCCcccCccChhhHHHHHHHHHHHHHHHHhhhCCCCChhhcc-CCCCch
Q 008301 330 VMLQDPMLP---AAGYPSETRSLMPIRLPCSPHEYCHSNITRSTFYKIRTEFLRGHNTTRDLMRPDFDWHFLF-EPFPYS 405 (570)
Q Consensus 330 V~l~~g~~~---~~~~~~~~~~~MpIitP~~P~~N~a~nVs~stl~~I~~Ef~rA~~il~~i~~~~~~W~~Lf-~~~~Ff 405 (570)
|.+....+. ..+. .+. +....++ +.-..|...|++.++++.+++|.+.++.+|++...+ ..+.+| ++.+.|
T Consensus 378 ~~l~~~~~s~~~~~~f-~e~-~~~~f~D-~s~~~NLc~~mt~s~y~~~q~ea~ltl~lL~~~~~~--~F~~IFmtkip~~ 452 (1121)
T KOG2054|consen 378 ISLVPSSPSLPALADF-HEG-QLVTFID-SSGHLNLCANMTASTYEQVQEEARLTLMLLDSRADD--GFSLIFMTKIPVF 452 (1121)
T ss_pred eEeccCCCCchhhhhh-hhc-ceeeEec-cCCcchhhhhccHHHHHHHHHHHHHHHHHHhhhhhc--CcceeeeecCCch
Confidence 777543211 1111 111 2222222 334578889999999999999999999999876433 467766 677999
Q ss_pred hhccceeEEEEE
Q 008301 406 KKYARFVRVYLS 417 (570)
Q Consensus 406 ~~y~~yl~i~v~ 417 (570)
..|.|=+.+.-.
T Consensus 453 ~~yDh~l~l~~~ 464 (1121)
T KOG2054|consen 453 RAYDHVLHLSPL 464 (1121)
T ss_pred hhhheeeecccc
Confidence 999998877654
No 15
>smart00572 DZF domain in DSRM or ZnF_C2H2 domain containing proteins.
Probab=98.28 E-value=5.6e-05 Score=76.82 Aligned_cols=214 Identities=20% Similarity=0.215 Sum_probs=151.8
Q ss_pred EEEEecccccCCCCCC-CceeEEeecCCCccchHHHHHH----HHHHHhcCCCcceEEEeccCccceEEEEEC----Cee
Q 008301 140 TILTYGSYGLGVHGSE-SDIDALCLGPEFATMAEDFFVV----LHNMLKSRPEVSEIHCVKDAKVPLMRFKFD----GIL 210 (570)
Q Consensus 140 ~I~~FGSy~lGv~~p~-SDID~l~v~p~~~~~~~~ff~~----l~~~L~~~~~v~~l~~I~~A~VPIIKf~~~----GI~ 210 (570)
.|.-.||+.-|+.+.| -+.|+++++....| .+..+. +.+-|+...+=.....+..+.+|.++..++ -..
T Consensus 4 gV~rVG~~aKG~ll~Gd~~~~lVv~c~~~PT--~~ll~~v~~~l~e~l~~~~~~e~~~~~~~~~~~~~~~~i~ltSp~~r 81 (246)
T smart00572 4 GVMRVGSFAKGTLLKGDNVAELVLLCKEKPT--SELVARLARKLPEQLKAVTEDEALIIVTSTKEPTMEVGILITSPLAR 81 (246)
T ss_pred ceEEeeeeccCceecCCCceeEEEEecCCCc--HHHHHHHHHHHHHHHhhcCcccceeeeeccCCCceeEEEEEeccccc
Confidence 4677999999999986 67899999877666 234443 444455432222233466777788888652 233
Q ss_pred eccccccccccCCCccccCCCchhccccc-hhhhhccchhhhHHHHHHhcCCccchhHHHHHHHHHHHHhCcCCCCCCcc
Q 008301 211 IDLPYACLHVLSVPENVDVLNPFFLRDLD-ETSWKSLSGVRANKCILQLVPDLEKFQPVLRCIKLWAKRRGVYGNLHGFL 289 (570)
Q Consensus 211 vDLsf~~l~~~~ip~~l~~~~~~lL~~ld-~~s~rSLnG~Rv~~~Il~lvp~~~~Fr~llr~IK~WAk~RgIys~~~G~L 289 (570)
.+...+ .+|+++...++... +| ..|..+|-.+|-+.++.+-......|+.++|++|-|+++-...+. |
T Consensus 82 ~~~~~~-----~~~~~~~~~~p~~~--ld~~~cl~aLAalRhakWFq~~a~~l~s~~iviRilKd~~~R~~~~~p----L 150 (246)
T smart00572 82 VELLIT-----TVPENLRKLDPEDH--LDRKKCLSALASLRHAKWFQARASGLQSCVIVIRVLRDLCNRVPTWQP----L 150 (246)
T ss_pred cccccc-----ccCcccccCCcccc--CCHHHHHHHHHHHHHhHHHHHhccCCcchhhHHHHHHHHHHhcccccc----c
Confidence 333332 34555544443321 22 347888888999999988888888999999999999998765443 8
Q ss_pred cHHHHHHHHHHHHhhCCC-CCHHHHHHHHHHHhhcCCCCCceeecCCCCCCCCCCCCCCCcceeeCCCCC-CCcccCccC
Q 008301 290 GGVHLAILVAHVCQNHPK-GSLNTLVANFFKTYAYWPWPTPVMLQDPMLPAAGYPSETRSLMPIRLPCSP-HEYCHSNIT 367 (570)
Q Consensus 290 gg~s~aiLva~vcQl~Pn-~sl~~LL~~FF~~Ys~wdW~~pV~l~~g~~~~~~~~~~~~~~MpIitP~~P-~~N~a~nVs 367 (570)
.++.+-+++++.+--... .++++-+.+||++.|+=.. +. +. --|++|+.+ ..|++...|
T Consensus 151 ~~w~iELl~~~~i~~~~~~l~~~~a~RR~fe~lAsG~l-----~p----------~~----~gI~DPce~~~~nv~~~lT 211 (246)
T smart00572 151 SGWPLELLVEKAIGSARQPLGLGDAFRRVFECLASGIL-----LP----------GS----PGLTDPCEKDNTDALTALT 211 (246)
T ss_pred ccccHHHHHHHHhccCCCCCCHHHHHHHHHHHHHhccC-----cC----------CC----CCCcCCCCCCcccHHHhcC
Confidence 999999999999863322 5899999999999984111 10 10 137899997 788989999
Q ss_pred hhhHHHHHHHHHHHHHHH
Q 008301 368 RSTFYKIRTEFLRGHNTT 385 (570)
Q Consensus 368 ~stl~~I~~Ef~rA~~il 385 (570)
....+.|...-+.|.+++
T Consensus 212 ~qqrd~It~sAQ~alRl~ 229 (246)
T smart00572 212 LQQREDVTASAQTALRLL 229 (246)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 999999999988888886
No 16
>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=97.78 E-value=0.00016 Score=66.71 Aligned_cols=77 Identities=25% Similarity=0.279 Sum_probs=56.6
Q ss_pred CeEEEEecccccCCCCC-CCceeEEeecCCCcc----chHHHHHHHHHHHhcCCCcceEEEeccCccceEEEEEC--Cee
Q 008301 138 HATILTYGSYGLGVHGS-ESDIDALCLGPEFAT----MAEDFFVVLHNMLKSRPEVSEIHCVKDAKVPLMRFKFD--GIL 210 (570)
Q Consensus 138 ~~~I~~FGSy~lGv~~p-~SDID~l~v~p~~~~----~~~~ff~~l~~~L~~~~~v~~l~~I~~A~VPIIKf~~~--GI~ 210 (570)
...++.||||+.|...+ .||||++++.+.... ...++...+.+.|.+...- ..-....-|-+.+++. |++
T Consensus 27 ~~~~~~~GS~a~~T~i~~~sDiD~~v~~~~~~~~~~~~~~~~~~~l~~~L~~~~~~---~~~~~~~~~~v~v~~~~~~~~ 103 (143)
T cd05400 27 VAEVFLQGSYARGTALRGDSDIDLVVVLPDDTSFAEYGPAELLDELGEALKEYYGA---NEEVKAQHRSVTVKFKGQGFH 103 (143)
T ss_pred ccEEEEEcceeCCCCCCCCCceeEEEEEcCcccccccCHHHHHHHHHHHHHHhcCc---ccccccCceEEEEEEcCCCeE
Confidence 46899999999999977 899999999876532 3457777888888875321 1112445577888876 899
Q ss_pred ecccccc
Q 008301 211 IDLPYAC 217 (570)
Q Consensus 211 vDLsf~~ 217 (570)
+||.-+.
T Consensus 104 vDvvP~~ 110 (143)
T cd05400 104 VDVVPAF 110 (143)
T ss_pred EEEEEEe
Confidence 9996554
No 17
>cd05397 NT_Pol-beta-like Nucleotidyltransferase (NT) domain of DNA polymerase beta and similar proteins. This superfamily includes the NT domains of DNA polymerase beta and other family X DNA polymerases, as well as the NT domains of Class I and Class II CCA-adding enzymes, RelA- and SpoT-like ppGpp synthetases and hydrolases, 2'5'-oligoadenylate (2-5A)synthetases, Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), poly (A) polymerases, terminal uridylyl transferases, and Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins. The Escherichia coli CCA-adding enzyme belongs to this superfamily but is not included as this enzyme lacks the N-terminal helix conserved in the remainder of the superfamily. In the majority of the Pol beta-like superfamily NTs, two carboxylates, Dx[D/E], together with a third more distal carboxylate coordinate two divalent metal cations that are essential for catalysis. These divalent metal ions are
Probab=97.75 E-value=4.5e-05 Score=58.90 Aligned_cols=26 Identities=38% Similarity=0.583 Sum_probs=24.4
Q ss_pred CeEEEEecccccCCCCCCCceeEEee
Q 008301 138 HATILTYGSYGLGVHGSESDIDALCL 163 (570)
Q Consensus 138 ~~~I~~FGSy~lGv~~p~SDID~l~v 163 (570)
..+++.|||++.|.+.+.||||++|+
T Consensus 17 ~~~v~lfGS~arg~~~~~SDIDi~v~ 42 (49)
T cd05397 17 GYEIVVYGSLVRGLLKKSSDIDLACV 42 (49)
T ss_pred CcEEEEECCcCCCCCCCCCCEEEEEE
Confidence 46899999999999999999999987
No 18
>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=97.64 E-value=3.9e-05 Score=60.92 Aligned_cols=51 Identities=18% Similarity=0.329 Sum_probs=35.8
Q ss_pred CHHHHHHHHHHHhh-cCCCCC-ceeecCCCC-----CCCC-CCCCCCCcceeeCCCCCC
Q 008301 309 SLNTLVANFFKTYA-YWPWPT-PVMLQDPML-----PAAG-YPSETRSLMPIRLPCSPH 359 (570)
Q Consensus 309 sl~~LL~~FF~~Ys-~wdW~~-pV~l~~g~~-----~~~~-~~~~~~~~MpIitP~~P~ 359 (570)
|+++||.+||+||| .|||.+ -|.++.|.. ..|. ........|.|++|..|.
T Consensus 1 slg~Ll~~Ff~~Y~~~Fd~~~~~Isi~~g~~~~k~~~~~~~~~~~~~~~l~IeDP~~~~ 59 (60)
T PF03828_consen 1 SLGELLLGFFEYYGRKFDYENNVISIRNGGYFPKEEKNWSKSRNQRKKRLCIEDPFDPS 59 (60)
T ss_dssp -HHHHHHHHHHHHHHTS-TTTEEEESSSSSEEEHHHHTGCHCCCCECSSSEBBESSSTT
T ss_pred CHHHHHHHHHHHhCCcCCCCceEEEecCCceEEhhhccccccccCCCCeEEEECCCCCC
Confidence 68999999999999 899998 566777642 1222 111123789999999985
No 19
>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=97.63 E-value=8e-05 Score=63.17 Aligned_cols=32 Identities=34% Similarity=0.436 Sum_probs=29.5
Q ss_pred CeEEEEecccccCCCCCCCceeEEeecCCCcc
Q 008301 138 HATILTYGSYGLGVHGSESDIDALCLGPEFAT 169 (570)
Q Consensus 138 ~~~I~~FGSy~lGv~~p~SDID~l~v~p~~~~ 169 (570)
...|+.|||++.|.+.|+||||++++.+....
T Consensus 14 ~~~v~lfGS~a~g~~~~~SDIDl~i~~~~~~~ 45 (93)
T PF01909_consen 14 VAEVYLFGSYARGDATPDSDIDLLIILDEPED 45 (93)
T ss_dssp TEEEEEEHHHHHTSSCTTSCEEEEEEESSTSC
T ss_pred CCEEEEECCcccCcCCCCCCEEEEEEeCCccc
Confidence 57999999999999999999999999998754
No 20
>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=97.44 E-value=0.00048 Score=62.28 Aligned_cols=93 Identities=19% Similarity=0.327 Sum_probs=59.4
Q ss_pred HHHHHHHHHHhCcCCC--CCCcccHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCCCceeecCCCCCCCCCCCCC
Q 008301 269 LRCIKLWAKRRGVYGN--LHGFLGGVHLAILVAHVCQNHPKGSLNTLVANFFKTYAYWPWPTPVMLQDPMLPAAGYPSET 346 (570)
Q Consensus 269 lr~IK~WAk~RgIys~--~~G~Lgg~s~aiLva~vcQl~Pn~sl~~LL~~FF~~Ys~wdW~~pV~l~~g~~~~~~~~~~~ 346 (570)
+|++|+++|.-|+|++ +.++++||.--+|++++ -+.-.+|.. -+ +|..|+.|...... ....+.
T Consensus 3 VrLLK~FlK~igvYGse~~~~GFSGYL~ELLii~y------GsF~~~l~~----a~--~W~~~~~Id~~~~~--~~~~~f 68 (114)
T PF09249_consen 3 VRLLKQFLKGIGVYGSELKTRGFSGYLCELLIIHY------GSFENVLEA----AA--KWKPPVVIDLEDHG--EPSKKF 68 (114)
T ss_dssp HHHHHHHHHHTT-B-SSTTT-SB-HHHHHHHHHHH------SSHHHHHHH----HT--T--TTEEEETT-TT--E--EEE
T ss_pred hHHHHHHHhcCCCcchhhhcCcchHHHHHHHHHHH------CCHHHHHHH----HH--hcCCCeEEccCccc--hhhhhc
Confidence 5899999999999975 57999999999999988 343334332 23 77778887432110 001111
Q ss_pred CCcceeeCCCCCCCcccCccChhhHHHHH
Q 008301 347 RSLMPIRLPCSPHEYCHSNITRSTFYKIR 375 (570)
Q Consensus 347 ~~~MpIitP~~P~~N~a~nVs~stl~~I~ 375 (570)
.+++-|++|.+|..|+|.++|..++..+.
T Consensus 69 ~~PlvviDPvDp~RNVAAalS~~~~~~fv 97 (114)
T PF09249_consen 69 DDPLVVIDPVDPNRNVAAALSLENLAEFV 97 (114)
T ss_dssp -SS-EEEETTEEEEETTTTS-HHHHHHHH
T ss_pred CCCeEEcCCCCCCchHhHhcCHHHHHHHH
Confidence 36899999999999999999988765543
No 21
>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=97.12 E-value=0.00084 Score=56.36 Aligned_cols=31 Identities=29% Similarity=0.430 Sum_probs=28.5
Q ss_pred eEEEEecccccCCCCCCCceeEEeecCCCcc
Q 008301 139 ATILTYGSYGLGVHGSESDIDALCLGPEFAT 169 (570)
Q Consensus 139 ~~I~~FGSy~lGv~~p~SDID~l~v~p~~~~ 169 (570)
..++.|||++.|-+.++||||++++++....
T Consensus 19 ~~i~LfGS~arg~~~~~SDiDl~vi~~~~~~ 49 (93)
T cd05403 19 EKVYLFGSYARGDARPDSDIDLLVIFDDPLD 49 (93)
T ss_pred cEEEEEeeeecCCCCCCCCeeEEEEeCCCCC
Confidence 5899999999999999999999999987654
No 22
>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=97.04 E-value=0.012 Score=70.87 Aligned_cols=151 Identities=21% Similarity=0.296 Sum_probs=108.8
Q ss_pred hhhhHHHHHHhcCCccchhHHHHHHHHHHHHhCcCCCCCCcccHHHHHHHHHHHHh-hCC---CCCHHHHHHHHHHHhhc
Q 008301 248 GVRANKCILQLVPDLEKFQPVLRCIKLWAKRRGVYGNLHGFLGGVHLAILVAHVCQ-NHP---KGSLNTLVANFFKTYAY 323 (570)
Q Consensus 248 G~Rv~~~Il~lvp~~~~Fr~llr~IK~WAk~RgIys~~~G~Lgg~s~aiLva~vcQ-l~P---n~sl~~LL~~FF~~Ys~ 323 (570)
..+-+..|..+--.++.|.+++|.+|.|+-.+-+ .|.+.--.+-+|||++.- -+| ..|+..=+.+|.++-++
T Consensus 668 ~p~h~~~i~~l~~~~p~fs~tvRL~KrW~~shlL----s~~i~~E~vELlva~vfl~~~p~~~P~S~~~GFlRfL~lLs~ 743 (972)
T PF03813_consen 668 LPKHTSAIHGLHTRFPSFSPTVRLAKRWLSSHLL----SGHISEEAVELLVASVFLSPAPWSPPSSPQTGFLRFLHLLST 743 (972)
T ss_pred hHHHHHHHHHHHhhCCchhHHHHHHHHHHHhccC----cccCCHHHHHHHHHHHhcCCCCCCCCCCHhHHHHHHHHHHHh
Confidence 4445666767777889999999999999999977 567889999999999874 334 46777778888888999
Q ss_pred CCCC-CceeecC-CCCC------------CCCCCC--CCCCcceeeCCCCCCCcc--cCccChhhHHHHHHHHHHHHHHH
Q 008301 324 WPWP-TPVMLQD-PMLP------------AAGYPS--ETRSLMPIRLPCSPHEYC--HSNITRSTFYKIRTEFLRGHNTT 385 (570)
Q Consensus 324 wdW~-~pV~l~~-g~~~------------~~~~~~--~~~~~MpIitP~~P~~N~--a~nVs~stl~~I~~Ef~rA~~il 385 (570)
|||. +|+++.- +.++ .++..| .....|-|.||.+|.-.. ...-+..-+++|+.--+.+.+++
T Consensus 744 ~dW~~~PLiVd~~~~l~~~~~~~i~~~f~~~R~~dp~~~~p~~~IaT~~D~~g~~wT~~~Ps~~v~~Rl~~LAk~sl~~l 823 (972)
T PF03813_consen 744 WDWREEPLIVDFNNELTEEDRAEIETNFDAWRKIDPAMNLPAMFIATPYDPEGSLWTRNGPSKVVAKRLTALAKASLKLL 823 (972)
T ss_pred CCCCcCCEEEECCCCCCHHHHHHHHHHHHHhhccCccccCCcEEEEeCCCCCCCEeECCCCCHHHHHHHHHHHHHHHHHH
Confidence 9998 5988753 2211 122211 123689999999987542 23455566778888778888888
Q ss_pred HhhhCCCCChhhccCCC
Q 008301 386 RDLMRPDFDWHFLFEPF 402 (570)
Q Consensus 386 ~~i~~~~~~W~~Lf~~~ 402 (570)
+.-..+..+|..||.+.
T Consensus 824 ~~~~~~~~~~~~lF~~~ 840 (972)
T PF03813_consen 824 EEQGLSDLDWKSLFRPP 840 (972)
T ss_pred HhcCCCCCCHHHhcCCC
Confidence 73323477999999763
No 23
>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=96.27 E-value=0.24 Score=50.96 Aligned_cols=210 Identities=19% Similarity=0.229 Sum_probs=136.7
Q ss_pred ecccccCCCCCC-CceeEEeecCCCccchHHHHHHHHHH----HhcCCCcceEEEe------ccCccceEEEEE--C--C
Q 008301 144 YGSYGLGVHGSE-SDIDALCLGPEFATMAEDFFVVLHNM----LKSRPEVSEIHCV------KDAKVPLMRFKF--D--G 208 (570)
Q Consensus 144 FGSy~lGv~~p~-SDID~l~v~p~~~~~~~~ff~~l~~~----L~~~~~v~~l~~I------~~A~VPIIKf~~--~--G 208 (570)
.||+.-|+.+.| -+.|+|+++..-.| .++.+.+.+. |+....-+-...+ ...+.|.+...+ . .
T Consensus 2 VG~~aKGllL~Gd~~~eLVVlck~kPT--~~lL~~v~~~L~~~L~~~~~~ev~~~~e~~~~~~~~~~~~~~~~~~lts~~ 79 (248)
T PF07528_consen 2 VGSFAKGLLLKGDNDVELVVLCKEKPT--KELLNRVAEKLPEQLKKVTPEEVTNSVEAAIIIDSCKEPKLEVGIDLTSPV 79 (248)
T ss_pred cceecCCceecCCceEeEEEEcCCCCc--HHHHHHHHHHHHHHHhhhCccccccchhhhhhhcccccccceeeEEecCCc
Confidence 599999999986 67899999887766 3555554444 4442211111112 233335555543 2 2
Q ss_pred eeeccccccccccCCCccccCCCchhccccch-hhhhccchhhhHHHHHHhcCCccchhHHHHHHHHHHHHhCcCCCCCC
Q 008301 209 ILIDLPYACLHVLSVPENVDVLNPFFLRDLDE-TSWKSLSGVRANKCILQLVPDLEKFQPVLRCIKLWAKRRGVYGNLHG 287 (570)
Q Consensus 209 I~vDLsf~~l~~~~ip~~l~~~~~~lL~~ld~-~s~rSLnG~Rv~~~Il~lvp~~~~Fr~llr~IK~WAk~RgIys~~~G 287 (570)
+.+.+... ..+++....++.. .||. .|..+|-.+|=+.++.+-.......+.++|++|-..+|--- ++
T Consensus 80 ~r~~~~~~-----~~~~~~~~~dp~~--~Ld~~~cl~aLaalRhakWFq~~a~~l~s~~~viRIlrDl~~R~p~----w~ 148 (248)
T PF07528_consen 80 MRVRVLIT-----TIPENLSKLDPED--HLDRKKCLSALAALRHAKWFQARANGLQSCVIVIRILRDLRQRVPT----WQ 148 (248)
T ss_pred eEEEEecc-----ccCccccccChhh--cCCHHHHHHHHHHHHHhHHHHHHhccCCCcceehhhHHHHHHhCCC----CC
Confidence 33333322 2334433333322 2343 57888888999999998888888899999999998877532 56
Q ss_pred cccHHHHHHHHHHHHhhCCC---CCHHHHHHHHHHHhhcCCCCCceeecCCCCCCCCCCCCCCCcceeeCCCC-CCCccc
Q 008301 288 FLGGVHLAILVAHVCQNHPK---GSLNTLVANFFKTYAYWPWPTPVMLQDPMLPAAGYPSETRSLMPIRLPCS-PHEYCH 363 (570)
Q Consensus 288 ~Lgg~s~aiLva~vcQl~Pn---~sl~~LL~~FF~~Ys~wdW~~pV~l~~g~~~~~~~~~~~~~~MpIitP~~-P~~N~a 363 (570)
-|+++.+-+|+-+..---|+ .++++-+.++|+..|. .+.+ +|. + =|.||+. ...++.
T Consensus 149 ~L~~W~leLL~~~~i~~~~~~~~l~~g~a~RRvle~las-----Gill-p~~------~-------gl~DPcE~~~~~~~ 209 (248)
T PF07528_consen 149 PLSSWALELLVEKAISNNSSRQPLSPGDAFRRVLECLAS-----GILL-PGS------P-------GLRDPCEKDPVDVL 209 (248)
T ss_pred CCChhHHHHHHHHHeeeCCCCCCCChHHHHHHHHHHHhC-----ceec-CCC------C-------CCcCCCCCCCceee
Confidence 69999999988877663333 6899999999999872 2222 110 0 1567887 567777
Q ss_pred CccChhhHHHHHHHHHHHHHHH
Q 008301 364 SNITRSTFYKIRTEFLRGHNTT 385 (570)
Q Consensus 364 ~nVs~stl~~I~~Ef~rA~~il 385 (570)
.+.|...+..|..--+.+.+++
T Consensus 210 ~~lt~qq~e~it~sAQ~~LRll 231 (248)
T PF07528_consen 210 DTLTLQQREDITSSAQTALRLL 231 (248)
T ss_pred ccCCHHHHHHHHHHHHHHHHHH
Confidence 8888888888887777777665
No 24
>COG1669 Predicted nucleotidyltransferases [General function prediction only]
Probab=96.27 E-value=0.02 Score=50.68 Aligned_cols=47 Identities=23% Similarity=0.290 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhCCCchhhccCCeEEEEecccccCCCCCCCceeEEeecCCC
Q 008301 105 RRNVIQKLKEIVLAWVKRVAWQRRLPKEQIAETHATILTYGSYGLGVHGSESDIDALCLGPEF 167 (570)
Q Consensus 105 R~~vl~~L~~iv~~w~~~v~~~~~~~~~~~~~~~~~I~~FGSy~lGv~~p~SDID~l~v~p~~ 167 (570)
.+++++++...+++|. | -.++-.||||+=|=..|+||||+++-....
T Consensus 7 ~~~~lr~~~~~l~~k~-------g---------v~~~~vFGS~aRgE~~~~SDIDILVef~~~ 53 (97)
T COG1669 7 LKKILRKIKPELKEKY-------G---------VKRVAVFGSYARGEQKPDSDIDILVEFEPG 53 (97)
T ss_pred HHHHHHHHHHHHHHHh-------C---------CceEEEeeeeecCCCCCCCCceeEEeecCC
Confidence 3444666666666653 2 358999999999999999999999976543
No 25
>PF14091 DUF4269: Domain of unknown function (DUF4269)
Probab=95.69 E-value=0.092 Score=50.12 Aligned_cols=118 Identities=17% Similarity=0.260 Sum_probs=74.9
Q ss_pred EEEEecccccCCCCCCCceeEEeecCCCccchHHHHHHHHHHHhcCCCcceE-EEeccCccceEEEEECCeeeccccccc
Q 008301 140 TILTYGSYGLGVHGSESDIDALCLGPEFATMAEDFFVVLHNMLKSRPEVSEI-HCVKDAKVPLMRFKFDGILIDLPYACL 218 (570)
Q Consensus 140 ~I~~FGSy~lGv~~p~SDID~l~v~p~~~~~~~~ff~~l~~~L~~~~~v~~l-~~I~~A~VPIIKf~~~GI~vDLsf~~l 218 (570)
.-...|..-+|+..|+||||++|..+.. +.|-+.+.+...+.++.+-- ..|..-..-+..|.+.|..+-|---+.
T Consensus 17 ~PiL~GTiPi~Idi~~SDLDIic~~~d~----~~F~~~l~~~f~~~~~f~~~~~~i~~~~~~~~~F~~~~~~~EiF~Q~~ 92 (152)
T PF14091_consen 17 DPILVGTIPIGIDIPGSDLDIICEVPDP----EAFEQLLQSLFGQFEGFTIKEKTIRGEPSIVANFRYEGFPFEIFGQPI 92 (152)
T ss_pred CCEEecccccccCCCCCCccEEEEeCCH----HHHHHHHHHHhccCCCceeeeceeCCceeEEEEEEECCceEEEeecCC
Confidence 4567899999999999999999999863 34544444444444432111 234444455677788888887643332
Q ss_pred cccCCCccccCCCchhccccchhhhhccchhhhHHHHHHhcCCc-cchhHHHHHHH--------HHHHHhCcCCC
Q 008301 219 HVLSVPENVDVLNPFFLRDLDETSWKSLSGVRANKCILQLVPDL-EKFQPVLRCIK--------LWAKRRGVYGN 284 (570)
Q Consensus 219 ~~~~ip~~l~~~~~~lL~~ld~~s~rSLnG~Rv~~~Il~lvp~~-~~Fr~llr~IK--------~WAk~RgIys~ 284 (570)
+ ++.-||+|=...-.++.... +.||.-+|-+| +||+--||-++
T Consensus 93 P-----------------------v~~QnayrHm~iE~rLL~~~g~~~r~~Ii~LK~~GlKTEPAFa~lLgL~GD 144 (152)
T PF14091_consen 93 P-----------------------VEEQNAYRHMLIEHRLLELHGPSFREEIIELKESGLKTEPAFAKLLGLEGD 144 (152)
T ss_pred C-----------------------hhhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHcCCcchHHHHHHhCCCCC
Confidence 2 23457777554444555444 78999888887 46666666543
No 26
>COG1708 Predicted nucleotidyltransferases [General function prediction only]
Probab=95.38 E-value=0.087 Score=46.53 Aligned_cols=29 Identities=38% Similarity=0.543 Sum_probs=26.7
Q ss_pred CeEEEEecccccCCCCCCCceeEEeecCC
Q 008301 138 HATILTYGSYGLGVHGSESDIDALCLGPE 166 (570)
Q Consensus 138 ~~~I~~FGSy~lGv~~p~SDID~l~v~p~ 166 (570)
...|+.|||++-|=+.+.||||++++++.
T Consensus 26 ~~~v~LfGS~arG~~~~~SDiDv~vv~~~ 54 (128)
T COG1708 26 DLLIYLFGSYARGDFVKESDIDLLVVSDD 54 (128)
T ss_pred CeEEEEEccCcccccccCCCeeEEEEcCC
Confidence 57999999999999999999999999843
No 27
>PRK13746 aminoglycoside resistance protein; Provisional
Probab=94.94 E-value=0.061 Score=55.67 Aligned_cols=31 Identities=32% Similarity=0.170 Sum_probs=27.9
Q ss_pred eEEEEecccccCCCCCCCceeEEeecCCCcc
Q 008301 139 ATILTYGSYGLGVHGSESDIDALCLGPEFAT 169 (570)
Q Consensus 139 ~~I~~FGSy~lGv~~p~SDID~l~v~p~~~~ 169 (570)
.-|+.|||+..|-..|.||||++++.....+
T Consensus 29 ~~vyLfGS~~~G~~~p~SDIDllvvv~~~l~ 59 (262)
T PRK13746 29 LAIHLYGSAVDGGLKPHSDIDLLVTVAVPLD 59 (262)
T ss_pred EEEEEECCcccCCCCCCCceeEEEEeCCCCC
Confidence 4699999999999999999999999887654
No 28
>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=92.62 E-value=0.094 Score=51.79 Aligned_cols=47 Identities=13% Similarity=0.116 Sum_probs=33.1
Q ss_pred ccchhHHHHHHHHHHHHhCcCCCC-CCcccHHHHHHHHHHHHhhCCCC
Q 008301 262 LEKFQPVLRCIKLWAKRRGVYGNL-HGFLGGVHLAILVAHVCQNHPKG 308 (570)
Q Consensus 262 ~~~Fr~llr~IK~WAk~RgIys~~-~G~Lgg~s~aiLva~vcQl~Pn~ 308 (570)
....+.|+|.||+|-+...-.... -+-..+|++-||+++.-..-.+.
T Consensus 41 P~klK~LIrLVKhWy~~~~~~~~~~~~lPpsYaLELLtIyAWE~g~~~ 88 (190)
T PF10421_consen 41 PTKLKNLIRLVKHWYQQCKKKKCGGGSLPPSYALELLTIYAWEQGCGA 88 (190)
T ss_dssp -HHHHHHHHHHHHHHHHHHCC--HTT-S--HHHHHHHHHHHHHHHT-S
T ss_pred CHHHHHHHHHHHHHHHHHHhhccCCCCCcHHHHHHHHHHHHHHhcCCC
Confidence 467899999999999987655333 34577999999999998876543
No 29
>PRK02098 phosphoribosyl-dephospho-CoA transferase; Provisional
Probab=92.26 E-value=0.34 Score=49.01 Aligned_cols=32 Identities=28% Similarity=0.354 Sum_probs=27.3
Q ss_pred CeEEEEecccc----cCC--CCCCCceeEEeecCCCcc
Q 008301 138 HATILTYGSYG----LGV--HGSESDIDALCLGPEFAT 169 (570)
Q Consensus 138 ~~~I~~FGSy~----lGv--~~p~SDID~l~v~p~~~~ 169 (570)
+..+.+|||+. +|+ -.++||||+++-.|....
T Consensus 120 g~~~gv~GS~a~qlaTG~~~l~~~SDLDLLi~~~~~~~ 157 (221)
T PRK02098 120 GVDCRVFGSLAWQALTGLPYLSASSDLDLLWPLPAAAQ 157 (221)
T ss_pred CCcEEEeeehHHHHhhCCcccCCCCCeeEEEecCChhh
Confidence 56899999999 999 789999999998875443
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=91.54 E-value=0.46 Score=47.43 Aligned_cols=32 Identities=28% Similarity=0.272 Sum_probs=27.5
Q ss_pred CeEEEEeccc----ccCC--CCCCCceeEEeecCCCcc
Q 008301 138 HATILTYGSY----GLGV--HGSESDIDALCLGPEFAT 169 (570)
Q Consensus 138 ~~~I~~FGSy----~lGv--~~p~SDID~l~v~p~~~~ 169 (570)
+....+|||+ .+|+ -.++||||+++-.|...+
T Consensus 108 ~~~~gv~GS~~~qlaTg~~~~~~~SDLDLLi~~~~~~~ 145 (202)
T TIGR03135 108 GVPWGVYGSAGWQLLTGLPYLHASSDLDLLLRAPSPLS 145 (202)
T ss_pred CCcEEEecchHHHHhcCCcccCCCCCeeEEEcCCChhh
Confidence 5689999999 8999 789999999998886543
No 31
>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=90.86 E-value=1.9 Score=45.54 Aligned_cols=113 Identities=19% Similarity=0.191 Sum_probs=70.5
Q ss_pred CCeEEEEecccccCCCCCCCceeEEeecCCCccchHHHHHHHHHHHhcCCCcceEEEeccCccceEEEEE------CCee
Q 008301 137 THATILTYGSYGLGVHGSESDIDALCLGPEFATMAEDFFVVLHNMLKSRPEVSEIHCVKDAKVPLMRFKF------DGIL 210 (570)
Q Consensus 137 ~~~~I~~FGSy~lGv~~p~SDID~l~v~p~~~~~~~~ff~~l~~~L~~~~~v~~l~~I~~A~VPIIKf~~------~GI~ 210 (570)
...++.+-||||=|-.+ .+|||+|+..+.... ..++..+.+.|.+.+.+..+. ..-..-....+ .|+.
T Consensus 159 ~~~~v~i~GS~RRg~et-~gDiDilv~~~~~~~--~~~~~~v~~~l~~~~~~~~~~---~~g~~k~~~~~~~~~~~~~~r 232 (307)
T cd00141 159 PVLQVEIAGSYRRGKET-VGDIDILVTHPDATS--RGLLEKVVDALVELGFVTEVL---SKGDTKASGILKLPGGWKGRR 232 (307)
T ss_pred CceEEEEcccccCCCCc-cCCEEEEEecCCccc--cccHHHHHHHHHhCCCeehhh---hCCCceEEEEEecCCCCCceE
Confidence 46899999999998776 479999998876543 356677788888877664421 11111111122 2899
Q ss_pred eccccccccccCCCccccCCCchhccccchhhhhccchhhhHHHHHHhcCCccchhHHHHHHHHHHHHhCcCCCCCCcc
Q 008301 211 IDLPYACLHVLSVPENVDVLNPFFLRDLDETSWKSLSGVRANKCILQLVPDLEKFQPVLRCIKLWAKRRGVYGNLHGFL 289 (570)
Q Consensus 211 vDLsf~~l~~~~ip~~l~~~~~~lL~~ld~~s~rSLnG~Rv~~~Il~lvp~~~~Fr~llr~IK~WAk~RgIys~~~G~L 289 (570)
|||.++... . -.-.++.+-.+. .-.|-++.||++||..=+..|..
T Consensus 233 VDl~~~p~~------~------------------------~~~all~fTGs~----~~nr~lR~~A~~~G~~L~~~GL~ 277 (307)
T cd00141 233 VDLRVVPPE------E------------------------FGAALLYFTGSK----QFNRALRRLAKEKGLKLNEYGLF 277 (307)
T ss_pred EEEEEeCHH------H------------------------HHHHHHHhhCCH----HHHHHHHHHHHHcCCeeeccccc
Confidence 999988631 0 011122222222 24456699999999877766654
No 32
>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=87.73 E-value=3 Score=39.73 Aligned_cols=48 Identities=29% Similarity=0.341 Sum_probs=36.3
Q ss_pred CCeEEEEecccccCCCCCCCceeEEeecCCCccchHHHHHHHHHHHhc
Q 008301 137 THATILTYGSYGLGVHGSESDIDALCLGPEFATMAEDFFVVLHNMLKS 184 (570)
Q Consensus 137 ~~~~I~~FGSy~lGv~~p~SDID~l~v~p~~~~~~~~ff~~l~~~L~~ 184 (570)
...-+..+||++-|=-++.||+|++++.+........+|..+.+.+.+
T Consensus 54 ~~~~~la~Gs~GR~E~~~~SD~D~~~v~~~~~~~~~~~~~~l~~~i~~ 101 (172)
T cd05401 54 VPFALLALGSYGRGELNPSSDQDLLLLYDDDGDEVAAYFEELAERLIK 101 (172)
T ss_pred CcEEEEEeCCcccCCcCCCcCcceEEEeCCCCchHHHHHHHHHHHHHH
Confidence 468999999999999999999999999875432123566666555444
No 33
>PF14792 DNA_pol_B_palm: DNA polymerase beta palm ; PDB: 1RZT_A 3PML_A 2PFN_A 3HX0_K 3HWT_A 2GWS_E 2BCQ_A 3UPQ_A 2BCS_A 3UQ2_A ....
Probab=87.27 E-value=1.1 Score=40.48 Aligned_cols=53 Identities=25% Similarity=0.335 Sum_probs=40.4
Q ss_pred CCeEEEEecccccCCCCCCCceeEEeecCCCccc---hHHHHHHHHHHHhcCCCcce
Q 008301 137 THATILTYGSYGLGVHGSESDIDALCLGPEFATM---AEDFFVVLHNMLKSRPEVSE 190 (570)
Q Consensus 137 ~~~~I~~FGSy~lGv~~p~SDID~l~v~p~~~~~---~~~ff~~l~~~L~~~~~v~~ 190 (570)
++.++..-||||=|-.+.+ |||+++..|..... ...++..+.+.|.+..-++.
T Consensus 23 p~~~v~i~GSyRRGK~~~g-DiDiLIt~~~~~~~~~~~~~~l~~lv~~L~~~g~i~~ 78 (112)
T PF14792_consen 23 PGLEVEICGSYRRGKETSG-DIDILITHPDPSSVSKKLEGLLEKLVKRLEEKGFITD 78 (112)
T ss_dssp TT-EEEEEHHHHTT-SEES-SEEEEEEETTCSTTTCSTTCHHHHHHHHHHHTTSEEE
T ss_pred CCcEEEEccccccCCCcCC-CeEEEEeCCCcCcchhhHHHHHHHHHHHHHhCCeEEE
Confidence 4689999999999988776 99999998876542 24688889999998655543
No 34
>COG1665 Predicted nucleotidyltransferase [General function prediction only]
Probab=86.50 E-value=0.51 Score=48.99 Aligned_cols=77 Identities=22% Similarity=0.356 Sum_probs=46.1
Q ss_pred EEEEecccccCCCCCCCceeEEeecCCCccchHHHHHHHHHH-HhcCCCcceEEEeccCccceEEEE-------------
Q 008301 140 TILTYGSYGLGVHGSESDIDALCLGPEFATMAEDFFVVLHNM-LKSRPEVSEIHCVKDAKVPLMRFK------------- 205 (570)
Q Consensus 140 ~I~~FGSy~lGv~~p~SDID~l~v~p~~~~~~~~ff~~l~~~-L~~~~~v~~l~~I~~A~VPIIKf~------------- 205 (570)
.+=.-||..+|++..+||||+++-|+.+-.-++.+...+.+- |... .=...+.|-.-+.|=|.|.
T Consensus 123 ~mGVTGSiL~gl~~~nSDIDfVVYG~~~~~aRea~~~~~e~~~l~~l-dd~~W~~iyrkr~~~l~f~ef~~~E~RK~nRg 201 (315)
T COG1665 123 SMGVTGSILLGLYDENSDIDFVVYGQMWFRAREAILDAIEDFPLGEL-DDAEWERIYRKRIPELSFDEFLYHERRKGNRG 201 (315)
T ss_pred hccccccccccccCCCCCceEEEEcHHHHHHHHHHHhhhhccCccCc-CHHHHHHHHHcccCCCCHHHHHHHhhhccCce
Confidence 445679999999999999999999965543222222211111 1110 1111234455555656551
Q ss_pred -ECCeeecccccc
Q 008301 206 -FDGILIDLPYAC 217 (570)
Q Consensus 206 -~~GI~vDLsf~~ 217 (570)
+.|.-|||+|++
T Consensus 202 iv~gt~fdlLfvr 214 (315)
T COG1665 202 IVGGTYFDLLFVR 214 (315)
T ss_pred eecCEEEEEEEec
Confidence 358899999997
No 35
>KOG2054 consensus Nucleolar RNA-associated protein (NRAP) [Function unknown]
Probab=84.90 E-value=7.8 Score=46.84 Aligned_cols=106 Identities=17% Similarity=0.239 Sum_probs=71.5
Q ss_pred hhHHHHHHhcCCccchhHHHHHHHHHHHHhCcCCCCCCcccHHHHHHHHHHHHhh-C---CCCCHHHHHHHHHHHhhcCC
Q 008301 250 RANKCILQLVPDLEKFQPVLRCIKLWAKRRGVYGNLHGFLGGVHLAILVAHVCQN-H---PKGSLNTLVANFFKTYAYWP 325 (570)
Q Consensus 250 Rv~~~Il~lvp~~~~Fr~llr~IK~WAk~RgIys~~~G~Lgg~s~aiLva~vcQl-~---Pn~sl~~LL~~FF~~Ys~wd 325 (570)
|.+-.|..+-..++.|-.++|.-|.|...+=+-+ ++--=++-+|||...+. + |..|+-.=+.+|..+-|+||
T Consensus 806 ~ht~aL~~l~qsh~~ys~vvrLaKrWl~shLL~~----h~~De~iELLva~lf~~p~p~~~psS~~~gFlRfL~llS~~d 881 (1121)
T KOG2054|consen 806 LHTLALQSLSQSHPFYSSVVRLAKRWLGSHLLSG----HHLDEAIELLVAALFLKPGPLVPPSSPENGFLRFLSLLSTWD 881 (1121)
T ss_pred HHHHHHHHHhhcccchhHHHHHHHHHHHHHhhcc----chHHHHHHHHHHHHhcCccCCCCCCCcchhHHHHHHHHhcCc
Confidence 4455555556678899999999999988775533 22256678888887654 3 44667777889999999999
Q ss_pred CC-CceeecCC-CCC---------CCCCCCCCCCcceeeCCCCCC
Q 008301 326 WP-TPVMLQDP-MLP---------AAGYPSETRSLMPIRLPCSPH 359 (570)
Q Consensus 326 W~-~pV~l~~g-~~~---------~~~~~~~~~~~MpIitP~~P~ 359 (570)
|. .|.+++-. ..+ +....+.....|.|+||-+-.
T Consensus 882 W~~~PLIvd~nn~~~ed~~~e~~e~f~s~R~~lp~m~vit~yD~~ 926 (1121)
T KOG2054|consen 882 WKFDPLIVDFNNGFPEDERSELEEKFISARKQLPPMVVITPYDHL 926 (1121)
T ss_pred ccCCceEEEcCCCCcHHHHHHHHHHHhhhcccCCceEEeeccccc
Confidence 98 48776421 111 111223334689999997754
No 36
>KOG3793 consensus Transcription factor NFAT, subunit NF45 [Transcription]
Probab=84.57 E-value=22 Score=37.31 Aligned_cols=211 Identities=19% Similarity=0.239 Sum_probs=109.5
Q ss_pred HHHhhHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCchhhccCCeEEEEecccccCCCCCCCce
Q 008301 79 DEERSLSLVQLMTNEGLVPSTEEEDKRRNVIQKLKEIVLAWVKRVAWQRRLPKEQIAETHATILTYGSYGLGVHGSESDI 158 (570)
Q Consensus 79 d~~~s~~L~~~L~~~~~~ps~eE~~~R~~vl~~L~~iv~~w~~~v~~~~~~~~~~~~~~~~~I~~FGSy~lGv~~p~SDI 158 (570)
|-..+++|++- ++++.|+.+|...=.+.+.+++.++..-+ .-|+- +..-..|.-.|||..|.-+-++|.
T Consensus 38 D~~f~~alLkR--nqdL~P~~~~q~~I~~~vtKV~~vLdn~~-----~~~L~----~~~ieevrqVGSF~k~T~~tg~~~ 106 (362)
T KOG3793|consen 38 DTSFSEALLKR--NQDLAPNSAEQASILSLVTKVNNVLDNLV-----APGLF----EVQIEEVRQVGSFKKGTMTTGHNV 106 (362)
T ss_pred chHHHHHHHhh--hccCCCCHHHHHHHHHHHHHHHHHHHhhc-----cCCce----EeehhhhhhccceeccccccCCcc
Confidence 66666777663 45799999998776666666666665422 11222 222357888999999999988876
Q ss_pred -eEEeecCCCccchHH---HHHHHHHHHhcCC--CcceEEEeccCccceEEE--EEC--CeeeccccccccccCCCcccc
Q 008301 159 -DALCLGPEFATMAED---FFVVLHNMLKSRP--EVSEIHCVKDAKVPLMRF--KFD--GILIDLPYACLHVLSVPENVD 228 (570)
Q Consensus 159 -D~l~v~p~~~~~~~~---ff~~l~~~L~~~~--~v~~l~~I~~A~VPIIKf--~~~--GI~vDLsf~~l~~~~ip~~l~ 228 (570)
|+|++-.--.+. +. .-.++.+-|+... ++-. |=+.+- .+. .-.|-|++ ..+|+++-
T Consensus 107 advVViLkTLPt~-EaV~aLg~Kv~e~lka~d~~Evlt--------vl~~e~G~~I~s~~~~VRiLI-----t~iP~n~~ 172 (362)
T KOG3793|consen 107 ADLVVILKTLPTL-EAVAALGNKVVESLRAQDPSEVLT--------VLTNETGFEISSSDATVRILI-----TTVPPNLR 172 (362)
T ss_pred cceEEEeecCCcH-HHHHHHHHHHHHHhhhcChHHHHH--------HHhhccceeeecccceEEEEE-----eecCchhc
Confidence 555554332221 12 1223333444321 2211 111111 011 11222222 24566655
Q ss_pred CCCchhccccchhhhh-ccchhhhHHHHHHhcCCccchhHHHHHHHHHHHHhCcCCCCCCcccHHHHH-HHHHHHHhhC-
Q 008301 229 VLNPFFLRDLDETSWK-SLSGVRANKCILQLVPDLEKFQPVLRCIKLWAKRRGVYGNLHGFLGGVHLA-ILVAHVCQNH- 305 (570)
Q Consensus 229 ~~~~~lL~~ld~~s~r-SLnG~Rv~~~Il~lvp~~~~Fr~llr~IK~WAk~RgIys~~~G~Lgg~s~a-iLva~vcQl~- 305 (570)
-+.+.+ .||.+-.. .+-.+|-+.++-+- ......+.++|++|---.+ +.||=-=-.|+ =|++++|-+.
T Consensus 173 KLEP~l--HLD~K~M~~~l~a~RH~~WFee~-A~~s~~~~lir~LKDlr~r------~~~F~PLs~W~ldll~h~avmNn 243 (362)
T KOG3793|consen 173 KLEPEL--HLDIKVMQSALAAIRHARWFEEN-ASQSTVKVLIRLLKDLRIR------FPGFEPLTPWILDLLGHYAVMNN 243 (362)
T ss_pred ccChhh--hhhHHHHHHHHHHHhhhhhhhhh-hhHHHHHHHHHHHHHHHhh------cCCCCCchHHHHHHHHHHHHHcC
Confidence 444432 23322111 22233333332221 1234467788888765333 33452112333 3567777664
Q ss_pred CC---CCHHHHHHHHHHHhhc
Q 008301 306 PK---GSLNTLVANFFKTYAY 323 (570)
Q Consensus 306 Pn---~sl~~LL~~FF~~Ys~ 323 (570)
|+ +.++.-..+||++.+.
T Consensus 244 p~RQ~l~ln~Afrr~~qilaA 264 (362)
T KOG3793|consen 244 PTRQPLALNVAYRRCLQILAA 264 (362)
T ss_pred CccccchhhHHHHHHHHHHHh
Confidence 44 5788889999999984
No 37
>COG2844 GlnD UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=83.58 E-value=4.3 Score=48.03 Aligned_cols=57 Identities=26% Similarity=0.334 Sum_probs=42.8
Q ss_pred HHHHHHHHHHHHHHHHHhhCCCchhhccCCeEEEEecccccCCCCCCCceeEEeecCCCcc
Q 008301 109 IQKLKEIVLAWVKRVAWQRRLPKEQIAETHATILTYGSYGLGVHGSESDIDALCLGPEFAT 169 (570)
Q Consensus 109 l~~L~~iv~~w~~~v~~~~~~~~~~~~~~~~~I~~FGSy~lGv~~p~SDID~l~v~p~~~~ 169 (570)
++.....+..|...+-...|+++. .+..+...|.|+=|=-.|.||||++++.|.-.+
T Consensus 41 ~~~~~~~~d~~L~~lw~~~g~~~~----~~~aLvAVGGyGRgEL~P~SDiDlL~L~p~~~~ 97 (867)
T COG2844 41 IELRTDLVDQLLIRLWQEIGFADA----SGLALVAVGGYGRGELHPLSDIDLLLLSPQKLT 97 (867)
T ss_pred HHHHHHHHHHHHHHHHHHcCcccc----cceEEEEeccccccccCCCccceEEEecCCCCC
Confidence 334444455555555555676653 578999999999999999999999999998765
No 38
>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=82.08 E-value=17 Score=33.85 Aligned_cols=48 Identities=21% Similarity=0.195 Sum_probs=37.5
Q ss_pred CCeEEEEecccccCCCCCCCceeEEeecCCCcc-chHHHHHHHHHHHhc
Q 008301 137 THATILTYGSYGLGVHGSESDIDALCLGPEFAT-MAEDFFVVLHNMLKS 184 (570)
Q Consensus 137 ~~~~I~~FGSy~lGv~~p~SDID~l~v~p~~~~-~~~~ff~~l~~~L~~ 184 (570)
....+..+||++=+=-++.||+|..++...... ..+.+|..|.+.+..
T Consensus 48 ~~~a~lalGS~GR~E~~~~sDqD~alv~~d~~~~~~~~~f~~~a~~~~~ 96 (138)
T PF03445_consen 48 VPFAWLALGSYGRREQTLYSDQDNALVFEDEESEEDRAYFEAFAERLVD 96 (138)
T ss_pred CCEEEEEECcccccCCCcCccccceeeecCccchhHHHHHHHHHHHHHH
Confidence 578999999999999999999999999887222 135677766665544
No 39
>PRK05007 PII uridylyl-transferase; Provisional
Probab=79.03 E-value=8.1 Score=46.64 Aligned_cols=56 Identities=21% Similarity=0.313 Sum_probs=38.8
Q ss_pred HHHHHHHHHHHHHHHHHHhhCCCchhhccCCeEEEEecccccCCCCCCCceeEEeecCCC
Q 008301 108 VIQKLKEIVLAWVKRVAWQRRLPKEQIAETHATILTYGSYGLGVHGSESDIDALCLGPEF 167 (570)
Q Consensus 108 vl~~L~~iv~~w~~~v~~~~~~~~~~~~~~~~~I~~FGSy~lGv~~p~SDID~l~v~p~~ 167 (570)
++.....++.++++..-...+++.. .+..|...|+|+=|=-.|.||||++++.+..
T Consensus 54 ~~~~~s~~~D~~l~~l~~~~~~~~~----~~~alvAvGgyGR~EL~p~SDiDll~l~~~~ 109 (884)
T PRK05007 54 LVEARTEFIDQLLQRLWIEAGFDQI----PDLALVAVGGYGRGELHPLSDIDLLILSRKK 109 (884)
T ss_pred HHHHHHHHHHHHHHHHHHHccCCCc----CceEEEecCCCCCcccCCcccceEEEEeCCC
Confidence 4444444555544443333344321 4689999999999999999999999998744
No 40
>PF10620 MdcG: Phosphoribosyl-dephospho-CoA transferase MdcG; InterPro: IPR017557 Malonate decarboxylase, like citrate lyase, has a unique acyl carrier protein subunit with a prosthetic group derived from, and distinct from, coenzyme A. Members of this protein family are the phosphoribosyl-dephospho-CoA transferase specific to the malonate decarboxylase system. This enzyme can also be designated holo-ACP synthase (2.7.7.61 from EC). The corresponding component of the citrate lyase system, CitX, shows little or no sequence similarity to this family.; GO: 0016779 nucleotidyltransferase activity
Probab=75.36 E-value=5.8 Score=39.88 Aligned_cols=43 Identities=28% Similarity=0.422 Sum_probs=30.0
Q ss_pred CCeEEEEecccc----cCCC--CCCCceeEEeecCCCccchHHHHHHHHH
Q 008301 137 THATILTYGSYG----LGVH--GSESDIDALCLGPEFATMAEDFFVVLHN 180 (570)
Q Consensus 137 ~~~~I~~FGSy~----lGv~--~p~SDID~l~v~p~~~~~~~~ff~~l~~ 180 (570)
.+...-+|||+. +|+. .++||||+++-.+.... ...+...+.+
T Consensus 115 ~~~~~gv~GS~g~qlaTGl~~l~~~SDLDLli~~~~~~~-~~~l~~~L~~ 163 (213)
T PF10620_consen 115 LGLRWGVYGSLGFQLATGLPYLHADSDLDLLIRPPSPSQ-ADALLALLQA 163 (213)
T ss_pred cCCCEEEehhHHHHHHhCccccCCCCCceEEEeCCChhH-HHHHHHHHHH
Confidence 367899999984 5553 58999999998887653 2344444433
No 41
>PF09970 DUF2204: Nucleotidyl transferase of unknown function (DUF2204); InterPro: IPR018700 This family of hypothetical prokaryotic proteins has no known function.
Probab=71.89 E-value=18 Score=35.45 Aligned_cols=81 Identities=15% Similarity=0.147 Sum_probs=46.6
Q ss_pred CeEEEEeccccc----CCCCCCCceeEEeecCCCccchHHHHHHHHHHHhcCCCcceEEEeccCccceEEEEECCeeecc
Q 008301 138 HATILTYGSYGL----GVHGSESDIDALCLGPEFATMAEDFFVVLHNMLKSRPEVSEIHCVKDAKVPLMRFKFDGILIDL 213 (570)
Q Consensus 138 ~~~I~~FGSy~l----Gv~~p~SDID~l~v~p~~~~~~~~ff~~l~~~L~~~~~v~~l~~I~~A~VPIIKf~~~GI~vDL 213 (570)
+.+.+..|++.+ |.--.+.|||+.+..+.... ..+++..++....-.-+-+.+ .....++++...++.|||
T Consensus 16 gv~~~ivGG~av~l~~g~~r~T~DIDlfi~~~~~~~-~~~~~~~~a~~~g~~~~~~~~----~~~~~~~~~~~~~v~IDl 90 (181)
T PF09970_consen 16 GVEYVIVGGAAVNLAYGRRRTTKDIDLFIENPSPNL-EADALREVAEENGWDLGWTDF----GTPRYVVKVGGEDVRIDL 90 (181)
T ss_pred CCeEEEECHHHHHHHhCCCCCCCCeEEEeCCCchHH-HHHHHHHHHHHcCCCcCcccc----CCCceEEEeCCCCeEEEc
Confidence 558899999864 66677899999887765432 344554444321110011211 223445566667999999
Q ss_pred ccccccccCCC
Q 008301 214 PYACLHVLSVP 224 (570)
Q Consensus 214 sf~~l~~~~ip 224 (570)
+.++....+|
T Consensus 91 -~~ni~~~~v~ 100 (181)
T PF09970_consen 91 -LENIGDFYVP 100 (181)
T ss_pred -hhccCCcccC
Confidence 5554433333
No 42
>PRK00227 glnD PII uridylyl-transferase; Provisional
Probab=70.48 E-value=16 Score=43.09 Aligned_cols=51 Identities=20% Similarity=0.248 Sum_probs=40.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhCCCchhhccCCeEEEEecccccCCCCCCCceeEEeecCC
Q 008301 102 EDKRRNVIQKLKEIVLAWVKRVAWQRRLPKEQIAETHATILTYGSYGLGVHGSESDIDALCLGPE 166 (570)
Q Consensus 102 ~~~R~~vl~~L~~iv~~w~~~v~~~~~~~~~~~~~~~~~I~~FGSy~lGv~~p~SDID~l~v~p~ 166 (570)
.+.|+++-+.-..+++.. ++| .+..|...|+|+=|=-.|.||||++++.+.
T Consensus 5 ~~~~~~~~~~~~~~~~~~--------~~~------~~~aLvAvGGYGR~EL~P~SDIDLLiL~~~ 55 (693)
T PRK00227 5 AQLREDAEASALALLGSL--------QLP------PGTALAATGSLARREMTPYSDLDLILLHPP 55 (693)
T ss_pred HHHHHHHHHHHHHHHHhc--------CCC------CCeEEEEeccccccCcCCCcCceEEEEeCC
Confidence 456677777766677652 454 257999999999999999999999999874
No 43
>PRK01759 glnD PII uridylyl-transferase; Provisional
Probab=68.78 E-value=20 Score=43.30 Aligned_cols=56 Identities=20% Similarity=0.211 Sum_probs=38.9
Q ss_pred HHHHHHHHHHHHHHHHHHhhCCCchhhccCCeEEEEecccccCCCCCCCceeEEeecCCC
Q 008301 108 VIQKLKEIVLAWVKRVAWQRRLPKEQIAETHATILTYGSYGLGVHGSESDIDALCLGPEF 167 (570)
Q Consensus 108 vl~~L~~iv~~w~~~v~~~~~~~~~~~~~~~~~I~~FGSy~lGv~~p~SDID~l~v~p~~ 167 (570)
++.....++.++++..-.....+.. .+..|...|+|+=|=-.|.||||++++.+..
T Consensus 30 ~~~~~~~~~D~~l~~l~~~~~~~~~----~~iaLvAvGGYGR~eL~P~SDIDlliL~~~~ 85 (854)
T PRK01759 30 LIENRSDFYDQLLIHLWQQFGLEEQ----SDLALIAVGGYGRREMFPLSDLDILILTEQP 85 (854)
T ss_pred HHHHHHHHHHHHHHHHHHHccCCCC----CCeEEEEeCCcccccCCCcccceEEEEeCCC
Confidence 5555555555555443332222211 3579999999999999999999999998743
No 44
>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=67.12 E-value=5 Score=40.70 Aligned_cols=28 Identities=21% Similarity=0.133 Sum_probs=23.6
Q ss_pred eEEEEecccccCCCCCCCceeEEeecCC
Q 008301 139 ATILTYGSYGLGVHGSESDIDALCLGPE 166 (570)
Q Consensus 139 ~~I~~FGSy~lGv~~p~SDID~l~v~p~ 166 (570)
.-....||..-|+.+|+||.|+-.|.-.
T Consensus 21 l~~~~sGS~a~G~~s~dSD~D~r~vy~~ 48 (247)
T PF10127_consen 21 LYACESGSRAYGFASPDSDYDVRGVYIP 48 (247)
T ss_pred EEEecccccccCCCCCCcCcccchhccC
Confidence 4567899999999999999999776543
No 45
>PRK04374 PII uridylyl-transferase; Provisional
Probab=66.26 E-value=58 Score=39.48 Aligned_cols=29 Identities=34% Similarity=0.511 Sum_probs=26.9
Q ss_pred CeEEEEecccccCCCCCCCceeEEeecCC
Q 008301 138 HATILTYGSYGLGVHGSESDIDALCLGPE 166 (570)
Q Consensus 138 ~~~I~~FGSy~lGv~~p~SDID~l~v~p~ 166 (570)
+..|...|+|+=|=-.|.||||++++.+.
T Consensus 72 ~~alvAvGgYGR~EL~p~SDIDLliL~~~ 100 (869)
T PRK04374 72 GLSLHAVGGYGRGELFPRSDVDLLVLGET 100 (869)
T ss_pred CEEEEEcCCccccccCCcccceEEEEecC
Confidence 47999999999999999999999999874
No 46
>PF03710 GlnE: Glutamate-ammonia ligase adenylyltransferase; InterPro: IPR005190 This is a conserved repeated domain found in GlnE proteins. These proteins adenylate and deadenylate glutamine synthases: ATP + {L-Glutamate:ammonia ligase (ADP-forming)} = Diphosphate + Adenylyl-{L-Glutamate:Ammonia ligase (ADP-forming)}. The domain is related to the nucleotidyltransferase domain IPR002934 from INTERPRO.; GO: 0008882 [glutamate-ammonia-ligase] adenylyltransferase activity; PDB: 1V4A_A 3K7D_A.
Probab=65.17 E-value=21 Score=36.55 Aligned_cols=61 Identities=20% Similarity=0.197 Sum_probs=34.7
Q ss_pred HHhhCCCchh-hccCCeEEEEecccccCCCCCCCceeEEeecCCCcc------chHHHHHHHHHHHhc
Q 008301 124 AWQRRLPKEQ-IAETHATILTYGSYGLGVHGSESDIDALCLGPEFAT------MAEDFFVVLHNMLKS 184 (570)
Q Consensus 124 ~~~~~~~~~~-~~~~~~~I~~FGSy~lGv~~p~SDID~l~v~p~~~~------~~~~ff~~l~~~L~~ 184 (570)
..+.|.|... ....+..|.-.|-++-+=-..+||||++++.+.... ....||..+.+.+.+
T Consensus 112 ~~~~G~p~~~~~~~~~~~ViamGKlGg~ELny~SDiDLifvy~~~~~~~~~~~~~~~~~~rl~~~~~~ 179 (247)
T PF03710_consen 112 AARYGRPPDEDGEPAGFAVIAMGKLGGRELNYSSDIDLIFVYDPDGETGRRSISNQEFFTRLAQRLIR 179 (247)
T ss_dssp HHHCTSCCCCTTCC-SEEEEE-HHHHTT---TT--EEEEEEE---TT-SSS-SBHHHHHHHHHHHHHH
T ss_pred HHHcCCCCcccCCcCCeEEEEeccccccccCCccCCceEEEeccccccccChhhHHHHHHHHHHHHHH
Confidence 3444555321 112368899999999999999999999999654322 135788888777665
No 47
>PRK03059 PII uridylyl-transferase; Provisional
Probab=64.39 E-value=26 Score=42.34 Aligned_cols=53 Identities=30% Similarity=0.449 Sum_probs=38.1
Q ss_pred HHHHHHHHHHHHHHHHHHhhCCCchhhccCCeEEEEecccccCCCCCCCceeEEeecCC
Q 008301 108 VIQKLKEIVLAWVKRVAWQRRLPKEQIAETHATILTYGSYGLGVHGSESDIDALCLGPE 166 (570)
Q Consensus 108 vl~~L~~iv~~w~~~v~~~~~~~~~~~~~~~~~I~~FGSy~lGv~~p~SDID~l~v~p~ 166 (570)
++..+..++.++++..-...+.+ .+..|...|+|+=|=-.|.||||++++.+.
T Consensus 37 ~~~~~s~l~d~~l~~~~~~~~~~------~~~alvAvGgyGR~EL~p~SDiDll~l~~~ 89 (856)
T PRK03059 37 LLHALSRLVDQALRRLWQECGLP------AGAALVAVGGYGRGELFPYSDVDLLVLLPD 89 (856)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCC------CCeEEEEcCCCCCcccCCCCCCEEEEEecC
Confidence 55556666666554432222222 357999999999999999999999999863
No 48
>PRK08609 hypothetical protein; Provisional
Probab=63.09 E-value=27 Score=40.17 Aligned_cols=109 Identities=17% Similarity=0.160 Sum_probs=61.8
Q ss_pred CCeEEEEecccccCCCCCCCceeEEeecCCCccchHHHHHHHHHHHhcCCCcceEEEeccCccceEEEEE-CCeeecccc
Q 008301 137 THATILTYGSYGLGVHGSESDIDALCLGPEFATMAEDFFVVLHNMLKSRPEVSEIHCVKDAKVPLMRFKF-DGILIDLPY 215 (570)
Q Consensus 137 ~~~~I~~FGSy~lGv~~p~SDID~l~v~p~~~~~~~~ff~~l~~~L~~~~~v~~l~~I~~A~VPIIKf~~-~GI~vDLsf 215 (570)
...++..-||||=|--+- .|||+++..+... .+.+.|.+.+.+.++..-...+.- +.+.. .|+.|||-+
T Consensus 174 ~~~~v~~~GS~RR~~et~-gDiDili~~~~~~--------~~~~~l~~~~~v~~~~~~g~~~~~-~~~~~~~~~~vDl~~ 243 (570)
T PRK08609 174 EIIRFSRAGSLRRARETV-KDLDFIIATDEPE--------AVREQLLQLPNIVEVIAAGDTKVS-VELEYEYTISVDFRL 243 (570)
T ss_pred CccEEEeccchhcccccc-CCeeEEEecCCHH--------HHHHHHHcCccHHHHHhcCCceEE-EEEecCCCeEEEEEE
Confidence 356999999999998764 6999999876532 122333444444333211111111 11222 499999988
Q ss_pred ccccccCCCccccCCCchhccccchhhhhccchhhhHHHHHHhcCCccchhHHHHHHHHHHHHhCcCCCCCCcc
Q 008301 216 ACLHVLSVPENVDVLNPFFLRDLDETSWKSLSGVRANKCILQLVPDLEKFQPVLRCIKLWAKRRGVYGNLHGFL 289 (570)
Q Consensus 216 ~~l~~~~ip~~l~~~~~~lL~~ld~~s~rSLnG~Rv~~~Il~lvp~~~~Fr~llr~IK~WAk~RgIys~~~G~L 289 (570)
.... .. | -.++-+-.+ +.-.|-++.||++||+.-+-.|..
T Consensus 244 v~~~------~~--------------------~----~aL~yfTGS----~~hn~~lr~~A~~~g~~l~e~gl~ 283 (570)
T PRK08609 244 VEPE------AF--------------------A----TTLHHFTGS----KDHNVRMRQLAKERGEKISEYGVE 283 (570)
T ss_pred eCHH------HH--------------------H----HHHHHHhcc----HHHHHHHHHHHHHcCCcccccccc
Confidence 7631 00 0 111222222 123455689999999888777764
No 49
>PRK03381 PII uridylyl-transferase; Provisional
Probab=62.28 E-value=28 Score=41.48 Aligned_cols=30 Identities=20% Similarity=0.217 Sum_probs=27.4
Q ss_pred CCeEEEEecccccCCCCCCCceeEEeecCC
Q 008301 137 THATILTYGSYGLGVHGSESDIDALCLGPE 166 (570)
Q Consensus 137 ~~~~I~~FGSy~lGv~~p~SDID~l~v~p~ 166 (570)
....|...|+|+-|--.|.||||++++.+.
T Consensus 56 ~~~alvAvg~~gr~el~p~SD~Dll~l~~~ 85 (774)
T PRK03381 56 SGVALVAVGGLGRRELLPYSDLDLVLLHDG 85 (774)
T ss_pred CCeEEEEeCCcCCcCcCCCCCCeEEEEeCC
Confidence 357999999999999999999999999873
No 50
>PRK00275 glnD PII uridylyl-transferase; Provisional
Probab=60.94 E-value=34 Score=41.56 Aligned_cols=31 Identities=32% Similarity=0.402 Sum_probs=28.0
Q ss_pred CCeEEEEecccccCCCCCCCceeEEeecCCC
Q 008301 137 THATILTYGSYGLGVHGSESDIDALCLGPEF 167 (570)
Q Consensus 137 ~~~~I~~FGSy~lGv~~p~SDID~l~v~p~~ 167 (570)
.+..|...|+|+=|==.|.||||++++.+..
T Consensus 77 ~~~alvAvGgyGR~EL~p~SDiDll~l~~~~ 107 (895)
T PRK00275 77 ADIALVAVGGYGRGELHPYSDIDLLILLDSA 107 (895)
T ss_pred CCEEEEEcCCccccCcCCCCCceEEEEecCC
Confidence 3579999999999999999999999998754
No 51
>PRK01293 phosphoribosyl-dephospho-CoA transferase; Provisional
Probab=60.65 E-value=24 Score=35.53 Aligned_cols=44 Identities=27% Similarity=0.286 Sum_probs=29.4
Q ss_pred CeEEEEecccc----cCCC--CCCCceeEEeecCCCccchHHHHHHHHHHHh
Q 008301 138 HATILTYGSYG----LGVH--GSESDIDALCLGPEFATMAEDFFVVLHNMLK 183 (570)
Q Consensus 138 ~~~I~~FGSy~----lGv~--~p~SDID~l~v~p~~~~~~~~ff~~l~~~L~ 183 (570)
+...-+|||.. +|+- .++||||+++-.|...+ . +-+..+.+.+.
T Consensus 109 ~~~wgv~GS~g~qlaTGl~~l~~~SDLDLlir~~~~l~-~-~~~~~ll~~l~ 158 (207)
T PRK01293 109 GLAWGVTGSAGFELATGIPVLHADSDLDLLIRAPQPLA-R-DQARELLQLLD 158 (207)
T ss_pred CCceeeehhHHHHHhhCCccccCCCCccEeecCCCccc-H-HHHHHHHHHHh
Confidence 56788999975 4543 68999999999887654 2 33334444444
No 52
>KOG2534 consensus DNA polymerase IV (family X) [Replication, recombination and repair]
Probab=57.51 E-value=43 Score=35.97 Aligned_cols=49 Identities=20% Similarity=0.295 Sum_probs=38.4
Q ss_pred CCeEEEEecccccCCCCCCCceeEEeecCCCccchHHHHHHHHHHHhcCC
Q 008301 137 THATILTYGSYGLGVHGSESDIDALCLGPEFATMAEDFFVVLHNMLKSRP 186 (570)
Q Consensus 137 ~~~~I~~FGSy~lGv~~p~SDID~l~v~p~~~~~~~~ff~~l~~~L~~~~ 186 (570)
+++.+..-|||+=|- ..+.|||+++-.|..-+.....+..+...|++..
T Consensus 170 p~~~vt~~GsfRRGk-~~ggDvD~LithP~~~s~~~~~~~~l~~~le~~g 218 (353)
T KOG2534|consen 170 PEAFVTVTGSFRRGK-KMGGDVDFLITHPGSTSTEAKLLQLLMILLEKKG 218 (353)
T ss_pred CCcEEEEeccccCCc-ccCCCeeEEEeCCCCCchhhhHHHHHHHHHHhcC
Confidence 578999999999984 5689999999999765434566777788887743
No 53
>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=57.00 E-value=40 Score=40.51 Aligned_cols=31 Identities=32% Similarity=0.427 Sum_probs=27.7
Q ss_pred CCeEEEEecccccCCCCCCCceeEEeecCCC
Q 008301 137 THATILTYGSYGLGVHGSESDIDALCLGPEF 167 (570)
Q Consensus 137 ~~~~I~~FGSy~lGv~~p~SDID~l~v~p~~ 167 (570)
.+.-|...|||+=|=-.|.||||++++.+..
T Consensus 42 ~~~aliA~GgyGR~El~p~SDiDll~l~~~~ 72 (850)
T TIGR01693 42 SGIALVAVGGYGRGELAPYSDIDLLFLHDGK 72 (850)
T ss_pred CCeEEEEeCCccccCcCCCCCCeEEEEeCCC
Confidence 3679999999999999999999999998743
No 54
>COG2413 Predicted nucleotidyltransferase [General function prediction only]
Probab=55.59 E-value=21 Score=35.98 Aligned_cols=28 Identities=29% Similarity=0.315 Sum_probs=23.7
Q ss_pred EEEEecccccCCCCCCCceeEEeecCCC
Q 008301 140 TILTYGSYGLGVHGSESDIDALCLGPEF 167 (570)
Q Consensus 140 ~I~~FGSy~lGv~~p~SDID~l~v~p~~ 167 (570)
.-+.+||-+.|=--|+||+|+.+.-|-.
T Consensus 39 e~~v~gSvarGDV~p~SDvDV~I~~~vp 66 (228)
T COG2413 39 EAVVYGSVARGDVRPGSDVDVAIPEPVP 66 (228)
T ss_pred hhEEEeeeeccCcCCCCCceEEEecCCC
Confidence 4567999999988999999999987543
No 55
>PF03281 Mab-21: Mab-21 protein
Probab=55.53 E-value=2.4e+02 Score=29.03 Aligned_cols=94 Identities=18% Similarity=0.240 Sum_probs=61.7
Q ss_pred ccchhHHHHHHHHHHHHhCcCCCCCCcccHHHHHHHHHHHHhhCCCC------CHHHHHHHHHHHhhcCCCCCceeecCC
Q 008301 262 LEKFQPVLRCIKLWAKRRGVYGNLHGFLGGVHLAILVAHVCQNHPKG------SLNTLVANFFKTYAYWPWPTPVMLQDP 335 (570)
Q Consensus 262 ~~~Fr~llr~IK~WAk~RgIys~~~G~Lgg~s~aiLva~vcQl~Pn~------sl~~LL~~FF~~Ys~wdW~~pV~l~~g 335 (570)
....+.+++++|.-..+.. ...+.|++|++-.++.+.|..+|.. .+++.+.+.+...-. .|..+
T Consensus 190 ~~~~~~~l~llk~l~~~~~---~~~~~l~syhLkt~ll~~~~~~p~~~~W~~~~l~~~l~~~l~~L~~-------~L~~~ 259 (292)
T PF03281_consen 190 NGCRKKCLRLLKALRDRHL---TNLSGLSSYHLKTVLLWLCEKHPSSSDWSEENLGERLLDLLDFLIK-------CLQEG 259 (292)
T ss_pred cccHHHHHHHHHHHHHhcc---ccCCCccHHHHHHHHHHHHHcCCCCCCCChHHHHHHHHHHHHHHHH-------HHhcC
Confidence 4567899999999977766 6678899999999999999999874 344444444433321 11122
Q ss_pred CCCCCCCCCCCCCcceeeCCCCCCCcccCccChhhHHHHHHHHHH
Q 008301 336 MLPAAGYPSETRSLMPIRLPCSPHEYCHSNITRSTFYKIRTEFLR 380 (570)
Q Consensus 336 ~~~~~~~~~~~~~~MpIitP~~P~~N~a~nVs~stl~~I~~Ef~r 380 (570)
.++ .-+.|..|.=.+.+..++..+..++.+
T Consensus 260 ~Lp---------------hff~~~~NLf~~~~~~~~~~~~~~~~~ 289 (292)
T PF03281_consen 260 RLP---------------HFFIPNLNLFQHLSPEELDELARKLER 289 (292)
T ss_pred CCC---------------ccCCCCcccCCCCCHHHHHHHHHHHHH
Confidence 111 122357777777777777766665543
No 56
>smart00483 POLXc DNA polymerase X family. includes vertebrate polymerase beta and terminal deoxynucleotidyltransferases
Probab=55.33 E-value=83 Score=33.73 Aligned_cols=31 Identities=29% Similarity=0.363 Sum_probs=25.4
Q ss_pred CCeEEEEecccccCCCCCCCceeEEeecCCCc
Q 008301 137 THATILTYGSYGLGVHGSESDIDALCLGPEFA 168 (570)
Q Consensus 137 ~~~~I~~FGSy~lGv~~p~SDID~l~v~p~~~ 168 (570)
...++..-||||=|-.+ ..|||+|+..+...
T Consensus 163 ~~~~v~i~GSyRRgket-~gDIDili~~~~~~ 193 (334)
T smart00483 163 PDAIVTLTGSFRRGKET-GHDVDFLITSPHPA 193 (334)
T ss_pred CCcEEEEecccccCCCc-CCCeeEEEecCCcc
Confidence 45799999999999766 47999999887643
No 57
>PRK14109 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional
Probab=54.54 E-value=36 Score=41.89 Aligned_cols=48 Identities=17% Similarity=0.207 Sum_probs=37.3
Q ss_pred CCeEEEEecccccCCCCCCCceeEEeecCCCc--c--chHHHHHHHHHHHhc
Q 008301 137 THATILTYGSYGLGVHGSESDIDALCLGPEFA--T--MAEDFFVVLHNMLKS 184 (570)
Q Consensus 137 ~~~~I~~FGSy~lGv~~p~SDID~l~v~p~~~--~--~~~~ff~~l~~~L~~ 184 (570)
.+..|..+|+|+-+=-.++||||++++..... . ....||..+.+.+..
T Consensus 722 ~~~avia~Gk~Gr~EL~~~SDlDl~fl~~~~~~~~~~~~~~~~~rlaq~l~~ 773 (1007)
T PRK14109 722 ARIAVIGMGRLGGRELGYGSDADVMFVHEPAPGADEAEAVRWATAVAEELRR 773 (1007)
T ss_pred CCEEEEEeccccccccCCCCCCcEEEEeCCCCCCCchhHHHHHHHHHHHHHH
Confidence 46899999999999999999999999986321 1 123688877777665
No 58
>PF03296 Pox_polyA_pol: Poxvirus poly(A) polymerase nucleotidyltransferase domain; InterPro: IPR024231 Poly(A) polymerase (2.7.7.19 from EC) catalyses template-independent extension of the 3'-end of a DNA or RNA strand by one nucleotide at a time. The Poxvirus enzyme creates the 3'(poly)A tail of mRNAs, and is a heterodimer of a catalytic and a regulatory subunit. This entry represents the nucleotidyltransferase domain of the catalytic subunit [].; PDB: 3ERC_C 3ER8_D 3OWG_A 2GA9_D 2GAF_D 3ER9_B.
Probab=53.48 E-value=17 Score=34.40 Aligned_cols=62 Identities=21% Similarity=0.451 Sum_probs=31.0
Q ss_pred HHHHHhCCCCCCHHHHHHHHHH---HHHHHHHHHHHHHHHHHhhCCCchhhccCCeEEEEecccccCCCCCC---CceeE
Q 008301 87 VQLMTNEGLVPSTEEEDKRRNV---IQKLKEIVLAWVKRVAWQRRLPKEQIAETHATILTYGSYGLGVHGSE---SDIDA 160 (570)
Q Consensus 87 ~~~L~~~~~~ps~eE~~~R~~v---l~~L~~iv~~w~~~v~~~~~~~~~~~~~~~~~I~~FGSy~lGv~~p~---SDID~ 160 (570)
.+.|.+..+..-.++...|..| +..+++++++.+++ + .-.-..||||.+-+--|+ .|||+
T Consensus 10 ~~~l~s~~v~~~~~~~~grh~vS~lV~~V~klmeEyLrr----h----------Nk~CicYGSyslhllN~~I~YgDIDi 75 (149)
T PF03296_consen 10 SDYLNSYNVANPSGKVMGRHNVSDLVENVNKLMEEYLRR----H----------NKSCICYGSYSLHLLNPNIKYGDIDI 75 (149)
T ss_dssp HHHHHHH--S-------------THHHHHHHHHHHHHHH---------------TTTEEEESHHHHHTTSTTS--SS-EE
T ss_pred HHHHHHhcccccCccccccccCcHHHHHHHHHHHHHHHh----h----------CCCeEEeeeeeEEecCCCcccCcchh
Confidence 4566666777777777888765 45555566666643 1 224578999998887776 99998
Q ss_pred Ee
Q 008301 161 LC 162 (570)
Q Consensus 161 l~ 162 (570)
+=
T Consensus 76 lq 77 (149)
T PF03296_consen 76 LQ 77 (149)
T ss_dssp EE
T ss_pred hh
Confidence 63
No 59
>COG3541 Predicted nucleotidyltransferase [General function prediction only]
Probab=44.07 E-value=11 Score=38.76 Aligned_cols=22 Identities=27% Similarity=0.206 Sum_probs=18.4
Q ss_pred EEecccccCCCCCCCceeEEee
Q 008301 142 LTYGSYGLGVHGSESDIDALCL 163 (570)
Q Consensus 142 ~~FGSy~lGv~~p~SDID~l~v 163 (570)
.--||+.-|+..|+||+|+=-|
T Consensus 14 ~esGS~~yGf~spdSDyDvR~V 35 (248)
T COG3541 14 GESGSHLYGFPSPDSDYDVRGV 35 (248)
T ss_pred EcccccccCCCCCCCccceeeE
Confidence 3449999999999999998544
No 60
>PRK14109 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional
Probab=42.11 E-value=98 Score=38.22 Aligned_cols=48 Identities=17% Similarity=0.164 Sum_probs=36.8
Q ss_pred CCeEEEEecccccCCCCCCCceeEEeecCCCcc----chHHHHHHHHHHHhc
Q 008301 137 THATILTYGSYGLGVHGSESDIDALCLGPEFAT----MAEDFFVVLHNMLKS 184 (570)
Q Consensus 137 ~~~~I~~FGSy~lGv~~p~SDID~l~v~p~~~~----~~~~ff~~l~~~L~~ 184 (570)
.+..|...|+|+-+=-.++||||++++.+.... ....||..+.+.|.+
T Consensus 214 ~~~aviamGklG~~EL~~~SDiDLi~ly~~~~~~~~~~~~~~~~rl~q~l~~ 265 (1007)
T PRK14109 214 VRLAVIAMGKCGARELNYVSDVDVIFVAEPAEGVDEAAALAVATRLASELMR 265 (1007)
T ss_pred CCeEEEEeccccccccCCccCCCEEEEeCCCCCcccccHHHHHHHHHHHHHH
Confidence 467999999999999999999999999864321 124677777776665
No 61
>PHA02603 nrdC.11 hypothetical protein; Provisional
Probab=40.19 E-value=15 Score=39.46 Aligned_cols=25 Identities=28% Similarity=0.191 Sum_probs=21.7
Q ss_pred EEEEecccccCCCCCCCceeEEeec
Q 008301 140 TILTYGSYGLGVHGSESDIDALCLG 164 (570)
Q Consensus 140 ~I~~FGSy~lGv~~p~SDID~l~v~ 164 (570)
-...+||..-|+.+|+||+|.--|.
T Consensus 5 ~~~~~GShaYG~~tp~SD~D~rGV~ 29 (330)
T PHA02603 5 MKGLFGSHLYGTSTPESDVDYKGIF 29 (330)
T ss_pred EEEecccceeCCCCCCcccccceee
Confidence 4668999999999999999986654
No 62
>PF10281 Ish1: Putative stress-responsive nuclear envelope protein; InterPro: IPR018803 This group of proteins, found primarily in fungi, consists of putative stress-responsive nuclear envelope protein Ish1 and homologues [].
Probab=39.48 E-value=25 Score=25.57 Aligned_cols=31 Identities=13% Similarity=0.265 Sum_probs=24.9
Q ss_pred hHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHH
Q 008301 83 SLSLVQLMTNEGLVPSTEEEDKRRNVIQKLKE 114 (570)
Q Consensus 83 s~~L~~~L~~~~~~ps~eE~~~R~~vl~~L~~ 114 (570)
+.+|.+.|++.|+..++.. ..|+++|+.+++
T Consensus 6 ~~~L~~wL~~~gi~~~~~~-~~rd~Ll~~~k~ 36 (38)
T PF10281_consen 6 DSDLKSWLKSHGIPVPKSA-KTRDELLKLAKK 36 (38)
T ss_pred HHHHHHHHHHcCCCCCCCC-CCHHHHHHHHHH
Confidence 3679999999998776555 789999888764
No 63
>COG1796 POL4 DNA polymerase IV (family X) [DNA replication, recombination, and repair]
Probab=39.23 E-value=54 Score=35.23 Aligned_cols=70 Identities=21% Similarity=0.213 Sum_probs=55.2
Q ss_pred eEEEEecccccCCCCCCCceeEEeecCCCccchHHHHHHHHHHHhcCCCcceEEEeccCccceEEEEECCeeecccccc
Q 008301 139 ATILTYGSYGLGVHGSESDIDALCLGPEFATMAEDFFVVLHNMLKSRPEVSEIHCVKDAKVPLMRFKFDGILIDLPYAC 217 (570)
Q Consensus 139 ~~I~~FGSy~lGv~~p~SDID~l~v~p~~~~~~~~ff~~l~~~L~~~~~v~~l~~I~~A~VPIIKf~~~GI~vDLsf~~ 217 (570)
.++..-||.|=|-.+ .+|||++|...... . +.+.|.+.+.+.++.+-.+.+|-++.--..|++||+-++.
T Consensus 181 ~~~~~aGs~RR~ret-v~DiD~~~s~~~~~----~----v~~~~~~~~~~~~vi~~G~~k~s~~~~~~~~~svD~r~v~ 250 (326)
T COG1796 181 IQASIAGSLRRGRET-VGDIDILISTSHPE----S----VLEELLEMPNVQEVIAKGETKVSMLLILDEGTSVDFRVVP 250 (326)
T ss_pred heeeeccchhhcccc-ccceeeEeccCCcH----H----HHHHHhcCCCcceeeecCCceeeEEEEecCCCeeEEEEcC
Confidence 577788999988776 48999988765431 1 4455556688999988999999988888899999998775
No 64
>PRK05092 PII uridylyl-transferase; Provisional
Probab=35.17 E-value=2.9e+02 Score=33.88 Aligned_cols=30 Identities=40% Similarity=0.564 Sum_probs=27.4
Q ss_pred CCeEEEEecccccCCCCCCCceeEEeecCC
Q 008301 137 THATILTYGSYGLGVHGSESDIDALCLGPE 166 (570)
Q Consensus 137 ~~~~I~~FGSy~lGv~~p~SDID~l~v~p~ 166 (570)
.+..|...|+|+-|=-.|.||||++++.+.
T Consensus 104 ~~~alvA~GgyGr~EL~p~SDiDLl~l~~~ 133 (931)
T PRK05092 104 ERLAVLAVGGYGRGELAPGSDIDLLFLLPY 133 (931)
T ss_pred CceEEEEecCcCCcccCCCCCceEEEEeCC
Confidence 357899999999999999999999999874
No 65
>PRK11072 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed
Probab=30.89 E-value=1.6e+02 Score=36.23 Aligned_cols=60 Identities=20% Similarity=0.220 Sum_probs=39.9
Q ss_pred HhhCCCchh-hccCCeEEEEecccccCCCCCCCceeEEeecCCCc---------cchHHHHHHHHHHHhc
Q 008301 125 WQRRLPKEQ-IAETHATILTYGSYGLGVHGSESDIDALCLGPEFA---------TMAEDFFVVLHNMLKS 184 (570)
Q Consensus 125 ~~~~~~~~~-~~~~~~~I~~FGSy~lGv~~p~SDID~l~v~p~~~---------~~~~~ff~~l~~~L~~ 184 (570)
.+.|.|+.. .+..+.-|..+|.++-+=-+-+||||++.+..... .....||..+.+.|.+
T Consensus 667 ~~~G~p~~~~~~~~~~aViamGKlGg~EL~y~SDlDlifvy~~~~~~~t~g~~~~~~~~~~~rl~qrli~ 736 (943)
T PRK11072 667 KRHGEPPHLEGRERGFAVIGYGKLGGKELGYASDLDLVFLHDCPEDAMTDGDKSIDGRQFYLRLAQRIIH 736 (943)
T ss_pred HHhCCCCCccCCCCCEEEEeecCccCCccCCcccceEEEEeecCccccCCCCCcccHHHHHHHHHHHHHH
Confidence 345665331 11235688888888887778899999999974110 0135788888887765
No 66
>PF07357 DRAT: Dinitrogenase reductase ADP-ribosyltransferase (DRAT); InterPro: IPR009953 This family consists of several bacterial dinitrogenase reductase ADP-ribosyltransferase (DRAT) proteins. Members of this family seem to be specific to Rhodospirillum, Rhodobacter and Azospirillum species. Dinitrogenase reductase ADP-ribosyl transferase (DRAT) carries out the transfer of the ADP-ribose from NAD to the Arg-101 residue of one subunit of the dinitrogenase reductase homodimer, resulting in inactivation of that enzyme. Dinitrogenase reductase-activating glycohydrolase (DRAG) removes the ADP-ribose group attached to dinitrogenase reductase, thus restoring nitrogenase activity. The DRAT-DRAG system negatively regulates nitrogenase activity in response to exogenous NH4+ or energy limitation in the form of a shift to darkness or to anaerobic conditions [].
Probab=30.70 E-value=18 Score=37.52 Aligned_cols=32 Identities=34% Similarity=0.501 Sum_probs=21.5
Q ss_pred hhccceeEEEEEeCChhcccchhhhhHHHHHH
Q 008301 406 KKYARFVRVYLSASNQDDLGDWVGWVKSRFRS 437 (570)
Q Consensus 406 ~~y~~yl~i~v~a~~~~~~~~w~G~vESrlr~ 437 (570)
..|-.+|+==.--+|.-++..++||||||+-.
T Consensus 83 ~sYLRlLrGW~fDSn~~EGAVLKGWVESRFGL 114 (262)
T PF07357_consen 83 ASYLRLLRGWGFDSNSPEGAVLKGWVESRFGL 114 (262)
T ss_pred hhHHHHHhccCcCCCChhhhhhhhhhhhccCc
Confidence 33444443333345777889999999999863
No 67
>PHA02996 poly(A) polymerase large subunit; Provisional
Probab=29.01 E-value=63 Score=35.68 Aligned_cols=62 Identities=23% Similarity=0.436 Sum_probs=40.9
Q ss_pred HHHHhCCCCCCHHHHHHHHH---HHHHHHHHHHHHHHHHHHhhCCCchhhccCCeEEEEecccccCCCCCC---CceeEE
Q 008301 88 QLMTNEGLVPSTEEEDKRRN---VIQKLKEIVLAWVKRVAWQRRLPKEQIAETHATILTYGSYGLGVHGSE---SDIDAL 161 (570)
Q Consensus 88 ~~L~~~~~~ps~eE~~~R~~---vl~~L~~iv~~w~~~v~~~~~~~~~~~~~~~~~I~~FGSy~lGv~~p~---SDID~l 161 (570)
+.|+++++.+..+...-|.. ++..+++++++.+++ .+-.-..||||.+-+--|. .|||++
T Consensus 128 ~~L~synv~~~~~kvmgrh~VSdLV~~V~klmeEyLrr--------------hNk~CicYGSySlhllNp~I~YgDIDil 193 (467)
T PHA02996 128 DALNSYNVAVISEKVMGRHNVSDLVGNVNKLMEEYLRR--------------HNKSCICYGSYSLHLLNPEIEYGDIDIL 193 (467)
T ss_pred HHHHhccccCCCccccccccccHHHHHHHHHHHHHHHh--------------cCCceEEeeceeeeecCCccccCCccee
Confidence 55666666554455444544 466667777776653 1335678999999887776 999986
Q ss_pred ee
Q 008301 162 CL 163 (570)
Q Consensus 162 ~v 163 (570)
=.
T Consensus 194 qT 195 (467)
T PHA02996 194 QT 195 (467)
T ss_pred ee
Confidence 43
No 68
>PRK14108 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional
Probab=28.98 E-value=3.3e+02 Score=33.75 Aligned_cols=48 Identities=33% Similarity=0.386 Sum_probs=35.9
Q ss_pred CCeEEEEecccccCCCCCCCceeEEeecCCCc-c-----chHHHHHHHHHHHhc
Q 008301 137 THATILTYGSYGLGVHGSESDIDALCLGPEFA-T-----MAEDFFVVLHNMLKS 184 (570)
Q Consensus 137 ~~~~I~~FGSy~lGv~~p~SDID~l~v~p~~~-~-----~~~~ff~~l~~~L~~ 184 (570)
.+..|...|-|+-+==.++||||++.+.+... + ....||..+.+.|-.
T Consensus 185 ~~~aViamGklGg~ELn~~SDiDLifly~~~~~~~~~~~~~~~~~~rl~q~li~ 238 (986)
T PRK14108 185 SGLIVLGMGKLGAGELNYSSDIDLIVFFDETAPILGDPIEAQPFFVRLTRRLVR 238 (986)
T ss_pred CCeEEEeeccccccccCCCCCCceEEEeCCCCCCccccchHHHHHHHHHHHHHH
Confidence 35789999999999999999999999976321 1 124678877775554
No 69
>PRK11072 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed
Probab=28.45 E-value=3.4e+02 Score=33.50 Aligned_cols=48 Identities=31% Similarity=0.311 Sum_probs=35.9
Q ss_pred CCeEEEEecccccCCCCCCCceeEEeecCCC-cc-------chHHHHHHHHHHHhc
Q 008301 137 THATILTYGSYGLGVHGSESDIDALCLGPEF-AT-------MAEDFFVVLHNMLKS 184 (570)
Q Consensus 137 ~~~~I~~FGSy~lGv~~p~SDID~l~v~p~~-~~-------~~~~ff~~l~~~L~~ 184 (570)
.+..|...|-|+-+==.++||||++++.+.. .+ ....||..+.+.|-+
T Consensus 153 ~~~aViamGKlG~~ELn~~SDIDLifly~~~~~~~~~~~~~~~~~~f~rl~q~li~ 208 (943)
T PRK11072 153 QPLLILGMGKLGGRELNFSSDIDLIFTYPEHGETQGGRRSIDNQQFFTRLGQRLIK 208 (943)
T ss_pred CCEEEEEeccccCccCCCccCCceEEEeCCCCCCCCCcccchHHHHHHHHHHHHHH
Confidence 4678999999988888999999999997632 11 124788877766554
No 70
>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=26.09 E-value=1.2e+02 Score=30.69 Aligned_cols=31 Identities=23% Similarity=0.160 Sum_probs=26.5
Q ss_pred eEEEEecccccCCCCCCCceeEEeecCCCcc
Q 008301 139 ATILTYGSYGLGVHGSESDIDALCLGPEFAT 169 (570)
Q Consensus 139 ~~I~~FGSy~lGv~~p~SDID~l~v~p~~~~ 169 (570)
--|++-||.++=-.++.||+|+=++.....+
T Consensus 98 ~GlY~MGS~gSi~Qs~~SDlDiWvCh~~~L~ 128 (204)
T PF12633_consen 98 LGLYSMGSTGSIGQSSSSDLDIWVCHDSDLS 128 (204)
T ss_pred EEEEecCCCccccCCCCCCCeEEEEcCCCCC
Confidence 4699999999999999999999877765554
No 71
>COG1391 GlnE Glutamine synthetase adenylyltransferase [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms]
Probab=23.65 E-value=5.4e+02 Score=31.70 Aligned_cols=45 Identities=31% Similarity=0.417 Sum_probs=28.3
Q ss_pred EEEEecccccCCC--CCCCceeEEeecCCCccc------hHHHHHHHHHHHhc
Q 008301 140 TILTYGSYGLGVH--GSESDIDALCLGPEFATM------AEDFFVVLHNMLKS 184 (570)
Q Consensus 140 ~I~~FGSy~lGv~--~p~SDID~l~v~p~~~~~------~~~ff~~l~~~L~~ 184 (570)
.+...|=--+|-. .=+||||++.+.|..... ..+||..+.+.|-+
T Consensus 173 ~l~VlgMGKlGa~ELNysSDIDlIf~y~~~~~t~g~~~dn~~fFtRl~qrLIr 225 (963)
T COG1391 173 GLLVLGMGKLGARELNYSSDIDLIFVYPESGPTQGGELDNAEFFTRLGQRLIR 225 (963)
T ss_pred ceEEEeccccCccccccccccceEEEeCCCCCccCCccchHHHHHHHHHHHHH
Confidence 3444444444444 346999999997765432 34699887776655
No 72
>PRK14108 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional
Probab=23.40 E-value=2.3e+02 Score=35.02 Aligned_cols=48 Identities=21% Similarity=0.234 Sum_probs=35.0
Q ss_pred CCeEEEEecccccCCCCCCCceeEEeecCCCc----c------chHHHHHHHHHHHhc
Q 008301 137 THATILTYGSYGLGVHGSESDIDALCLGPEFA----T------MAEDFFVVLHNMLKS 184 (570)
Q Consensus 137 ~~~~I~~FGSy~lGv~~p~SDID~l~v~p~~~----~------~~~~ff~~l~~~L~~ 184 (570)
.+.-|.-+|-++-+=-.-+||||++.+..... + ....||..+.+.|.+
T Consensus 700 ~~~aViamGKlGg~EL~y~SDlDlifvy~~~~~~~~t~g~~~l~~~~~~~rlaqrli~ 757 (986)
T PRK14108 700 GRVAILAMGKLGSRELTAGSDVDLILLYDFDDDAPESDGEKPLDGAQYFARFTQRLIA 757 (986)
T ss_pred CCEEEEeeCCccccccCCcccceEEEEeecCccccccCCcccchHHHHHHHHHHHHHH
Confidence 45788888888877778899999999974210 0 124688888887665
Done!