Query 008861
Match_columns 550
No_of_seqs 169 out of 379
Neff 4.2
Searched_HMMs 46136
Date Thu Mar 28 17:30:35 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/008861.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/008861hhsearch_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 2E-103 4E-108 829.0 23.5 310 2-318 183-502 (562)
2 PTZ00418 Poly(A) polymerase; P 100.0 2E-101 4E-106 835.4 33.8 313 2-317 221-543 (593)
3 COG5186 PAP1 Poly(A) polymeras 100.0 2.9E-88 6.3E-93 693.6 19.1 313 2-318 175-531 (552)
4 PF04928 PAP_central: Poly(A) 100.0 7.4E-70 1.6E-74 542.0 14.1 178 2-179 77-254 (254)
5 PF04926 PAP_RNA-bind: Poly(A) 100.0 1.3E-33 2.9E-38 260.9 7.5 136 180-316 1-157 (157)
6 PF03813 Nrap: Nrap protein; 98.8 1.2E-07 2.5E-12 111.0 19.7 242 23-277 155-425 (972)
7 COG5260 TRF4 DNA polymerase si 97.5 0.00059 1.3E-08 74.7 10.7 144 15-164 177-342 (482)
8 KOG2054 Nucleolar RNA-associat 97.2 0.0017 3.7E-08 76.0 11.1 169 29-208 305-478 (1121)
9 KOG2277 S-M checkpoint control 97.2 0.0021 4.5E-08 71.0 10.4 142 17-165 245-431 (596)
10 KOG1906 DNA polymerase sigma [ 96.4 0.019 4.1E-07 64.0 10.3 150 11-164 180-341 (514)
11 PF03813 Nrap: Nrap protein; 95.7 0.1 2.3E-06 62.1 12.7 155 18-178 669-839 (972)
12 PRK13300 tRNA CCA-pyrophosphor 95.3 0.54 1.2E-05 51.9 15.9 174 21-229 140-324 (447)
13 TIGR03671 cca_archaeal CCA-add 95.1 0.69 1.5E-05 50.6 15.7 214 21-278 138-364 (408)
14 smart00572 DZF domain in DSRM 94.7 0.24 5.1E-06 50.8 10.1 124 9-163 105-230 (246)
15 PF09249 tRNA_NucTransf2: tRNA 91.1 0.7 1.5E-05 42.5 6.7 93 38-152 3-97 (114)
16 PF03828 PAP_assoc: Cid1 famil 89.7 0.26 5.7E-06 38.6 2.4 56 79-136 2-59 (60)
17 COG1746 CCA1 tRNA nucleotidylt 68.3 64 0.0014 36.1 11.9 161 37-231 156-327 (443)
18 PF15431 TMEM190: Transmembran 53.8 8.5 0.00018 35.7 1.9 36 33-68 72-109 (134)
19 KOG2303 Predicted NAD synthase 37.6 37 0.0008 38.8 4.0 36 75-140 625-663 (706)
20 PF07357 DRAT: Dinitrogenase r 34.9 16 0.00034 38.2 0.6 21 195-215 95-115 (262)
21 KOG2054 Nucleolar RNA-associat 29.2 1.4E+02 0.003 36.9 7.0 122 18-148 805-937 (1121)
22 PF07789 DUF1627: Protein of u 20.1 52 0.0011 32.0 1.2 43 140-189 110-152 (155)
No 1
>KOG2245 consensus Poly(A) polymerase and related nucleotidyltransferases [RNA processing and modification]
Probab=100.00 E-value=1.7e-103 Score=829.05 Aligned_cols=310 Identities=56% Similarity=0.992 Sum_probs=292.4
Q ss_pred CccCCCChhhhhccchhhhHHHHHHhCCChHHHHHHHHHHHHHHHHhccccccccccchHHHHHHHHHHHhhCCCCChHH
Q 008861 2 SVLNNVDEQTVRSLNGCRVADQILKHVPNVEHFRMTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPNAIPSM 81 (550)
Q Consensus 2 slLrnLDe~svRSLNG~RVtd~ILrlVPn~e~FR~aLR~IKlWAKrRGIYSNv~GyLGGVsWAILVArVCQLyPNas~s~ 81 (550)
++|+||||+|+||||||||||+||+||||.++||.+|||||+||||||||||++||||||+|||||||||||||||+|++
T Consensus 183 slLknlDe~~vrSLNGcRVtdqiL~LVPn~~~F~~tLRaiKlWAKrrgVYsN~~GF~GGV~wA~LVARiCQLYPNA~~s~ 262 (562)
T KOG2245|consen 183 SLLKNLDERCVRSLNGCRVTDQILKLVPNQENFRITLRAIKLWAKRRGVYSNVMGFLGGVAWAMLVARICQLYPNASPST 262 (562)
T ss_pred HhhhcccHHHHHHhcCcCHHHHHHHhCCCHHHHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHccCCCcchHH
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhccCCCCCceeccccccccCCCcccCCCCCCCCCCccceeecCCCCCcCcccccChhHHHHHHHHHHHHHHH
Q 008861 82 LVSRFFRVYTQWRWPNPVMLCPIEEDELGFSVWDPRKNPRDRSHHMPIITPAYPCMNSSYNVSLSTLRVMTEQFQWGNRI 161 (550)
Q Consensus 82 Ll~~FF~vYS~WdWp~PV~L~~i~~~~lg~~vWdP~~~~rdr~hlMPIITPayP~mNSt~NVS~STl~vI~eEF~Ra~~I 161 (550)
||.+||.+|++|.||+||+|+++++++++++||||+.|++||.|+|||||||||+||||||||+||+++|.+||+||++|
T Consensus 263 Lv~kfF~ifs~W~WP~PVlL~~ie~~~L~~~VWdPr~n~~DryHlMPIITPAyP~~nsthNVS~ST~~Vi~~Ef~~g~~I 342 (562)
T KOG2245|consen 263 LVAKFFRVFSQWNWPNPVLLKPIEEGNLNLPVWDPRVNPSDRYHLMPIITPAYPQMNSTHNVSRSTLKVITEEFKRGLEI 342 (562)
T ss_pred HHHHHHHHHhhccCCCceEeccccccccCccccCCCCCCCCcceecccccCCcccccccccccHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhcccchhhhcCCcchhhccccEEEEEEEeCChhhhhhhhhhhhhhHHHHHHHHhhcCCCceeecCCCCCCCCCCC
Q 008861 162 CEEIELNKAQWSALFEPYLFFEAYKNYLQVDIVAADADDLLTWKGWVESRFRQLTLKIERDTNGLLQCHPYPNEYIDPSK 241 (550)
Q Consensus 162 l~~i~~~~~~W~~LFep~~FF~~Yk~YL~I~v~a~s~ed~~~W~GwVESRlR~Lv~~LE~~~~~~l~ahp~P~~f~d~~~ 241 (550)
|++|..++.+|++|||+++||.+|||||+|+++|.+++++.+|.||||||+|+|+.+||+. ..++.|||+|+.|.++..
T Consensus 343 ~~~i~~~k~~W~~LFE~~~FF~rYk~yl~i~~~A~~~ed~l~w~G~vESriR~Lv~klE~~-~~i~~ahp~P~~f~~~~~ 421 (562)
T KOG2245|consen 343 CDDIELNKLDWSDLFELYNFFSRYKHYLQITASAATEEDLLKWVGWVESRIRQLVLKLERN-QVILIAHPNPKKFKDTYN 421 (562)
T ss_pred HHHHHhccccHHHHhhhhHHHHHHhhHheeeeeccChHHHhhhhhHHHHHHHHHHHHHHhh-cceEEecCCccccccccc
Confidence 9999999999999999999999999999999999999999999999999999999999995 567899999999998753
Q ss_pred C----CCcceEEEeeeeccCCCCCccceeccHHHHHHHHHHHh----hhccCCCc--eEEEEEEeccCCCCCCcCCCCCc
Q 008861 242 P----CPNSAFFMGLRRKEGVTGKERQQFDIRGTVDNFREEIG----MYMFWKPG--MDIYVSHVRRRQLPSFVFPDGYK 311 (550)
Q Consensus 242 ~----~~~~~ffIGL~~~~~~~~~~~~~~DL~~~v~eF~~~I~----~~~~~~~g--m~I~Vs~VkrsqLP~~V~~~g~k 311 (550)
. .+...|||||...++ .++||+..+++|.+.++ +...+++| |++.+.|+||++|+.++++++.+
T Consensus 422 ~~~~~~~~~~~~igl~~~e~------~~~Dlt~~iq~f~~~v~~q~~~~~~~~~g~~~~~~~~~~krr~l~~~~~~~~l~ 495 (562)
T KOG2245|consen 422 CPLEEDPESLWFIGLEFDEN------VKIDLTKDIQSFKKNVERQAVNLTLIKAGCDVEIDFGHVKRRSLIQTITKEFLR 495 (562)
T ss_pred CCcccchhHhhhhccccccc------ccchhhhhHHHhhhhhhhcceeeeeeecccccccccccccccccccccCHHHhh
Confidence 2 356789999987654 34999999999999887 45567888 77778899999999999999988
Q ss_pred CCCCCCc
Q 008861 312 RPRPSRH 318 (550)
Q Consensus 312 ~~~~~~~ 318 (550)
+.|.-++
T Consensus 496 ~~k~~~~ 502 (562)
T KOG2245|consen 496 LCKQYKK 502 (562)
T ss_pred HHHhhcc
Confidence 8776554
No 2
>PTZ00418 Poly(A) polymerase; Provisional
Probab=100.00 E-value=1.9e-101 Score=835.37 Aligned_cols=313 Identities=46% Similarity=0.858 Sum_probs=292.8
Q ss_pred CccCCCChhhhhccchhhhHHHHHHhCCChHHHHHHHHHHHHHHHHhccccccccccchHHHHHHHHHHHhhCCCCChHH
Q 008861 2 SVLNNVDEQTVRSLNGCRVADQILKHVPNVEHFRMTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPNAIPSM 81 (550)
Q Consensus 2 slLrnLDe~svRSLNG~RVtd~ILrlVPn~e~FR~aLR~IKlWAKrRGIYSNv~GyLGGVsWAILVArVCQLyPNas~s~ 81 (550)
++|+|||++|+||||||||+|+||++|||+++||.+|||||+||||||||||++|||||||||||||||||||||+++++
T Consensus 221 ~lL~nlde~s~rSLNG~Rvtd~Il~lVPn~~~Fr~aLR~IKlWAkrRGIYsNv~GflGGV~wAILvARVCQLyPna~~s~ 300 (593)
T PTZ00418 221 YILRNVDEKTVRSLNGCRVADLILASVPNKDYFRTTLRFIKLWAKRRGIYSNVLGYLGGVSWAILTARICQLYPNFAPSQ 300 (593)
T ss_pred hhhhcCCHHHhhhhccHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccccccccccchHHHHHHHHHHHHhCCCCCHHH
Confidence 48999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhccCCCCCceecccccc-----ccCCCcccCCCCCCCCCCccceeecCCCCCcCcccccChhHHHHHHHHHH
Q 008861 82 LVSRFFRVYTQWRWPNPVMLCPIEE-----DELGFSVWDPRKNPRDRSHHMPIITPAYPCMNSSYNVSLSTLRVMTEQFQ 156 (550)
Q Consensus 82 Ll~~FF~vYS~WdWp~PV~L~~i~~-----~~lg~~vWdP~~~~rdr~hlMPIITPayP~mNSt~NVS~STl~vI~eEF~ 156 (550)
||.+||++|++|+||+||+|+++++ +.++++||||+.|++|++|+|||||||||+||+|||||+||+++|++||+
T Consensus 301 Lv~~FF~iys~W~Wp~PV~L~~i~~~~~~~g~~~~~VWdPr~~~~dr~h~MPIITPayP~mNst~nVt~sT~~vI~~Ef~ 380 (593)
T PTZ00418 301 LIHKFFRVYSIWNWKNPVLLCKIKEVPNIPGLMNFKVWDPRVNPQDRAHLMPIITPAFPSMNSTHNVTYTTKRVITEEFK 380 (593)
T ss_pred HHHHHHHHhhcCCCCCCeEcccccccccCCcccCCcccCCCCCcccccccCCeecCCCCCccccccccHHHHHHHHHHHH
Confidence 9999999999999999999999875 56889999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhh-cccchhhhcCCcchhhccccEEEEEEEeCChhhhhhhhhhhhhhHHHHHHHHhhcCCCceeecCCCCC
Q 008861 157 WGNRICEEIEL-NKAQWSALFEPYLFFEAYKNYLQVDIVAADADDLLTWKGWVESRFRQLTLKIERDTNGLLQCHPYPNE 235 (550)
Q Consensus 157 Ra~~Il~~i~~-~~~~W~~LFep~~FF~~Yk~YL~I~v~a~s~ed~~~W~GwVESRlR~Lv~~LE~~~~~~l~ahp~P~~ 235 (550)
||++|+++|.. ++.+|++||+|++||.+||+||+|++.+.+++++..|.||||||||.|+.+||+. + .+.+||||++
T Consensus 381 Ra~~i~~~i~~~~~~~W~~Lfep~~Ff~~Yk~yl~V~v~a~~~~~~~~w~G~VESRlR~Lv~~LE~~-~-~i~~~p~P~~ 458 (593)
T PTZ00418 381 RAHEIIKYIEKNSENTWTNVLEPLDFFTSYKHFLVIQVYATNEHVHNKWEGWIESKIRFLIKKLETL-N-NLKIRPYPKF 458 (593)
T ss_pred HHHHHHHHHHhcCCCCHHHHcCCcchhhhcceEEEEEEEECCHHHhhhhhhHHHHHHHHHHHHhhcc-C-CceEeecCcc
Confidence 99999999988 8899999999999999999999999999999999999999999999999999974 3 3678999999
Q ss_pred CCCCCC-CCCcceEEEeeeeccCCCCCccceeccHHHHHHHHHHHhhhc---cCCCceEEEEEEeccCCCCCCcCCCCCc
Q 008861 236 YIDPSK-PCPNSAFFMGLRRKEGVTGKERQQFDIRGTVDNFREEIGMYM---FWKPGMDIYVSHVRRRQLPSFVFPDGYK 311 (550)
Q Consensus 236 f~d~~~-~~~~~~ffIGL~~~~~~~~~~~~~~DL~~~v~eF~~~I~~~~---~~~~gm~I~Vs~VkrsqLP~~V~~~g~k 311 (550)
|.+... ..|.++|||||.++.... .+..++||+.++++|.+.|++|. .|.++|+|+|+|||++|||++||++|++
T Consensus 459 f~~~~~~~~~~~~ffIGL~~~~~~~-~~~~~~Dl~~~~~~F~~~i~~~~~~~~~~~~~~i~v~~Vk~~~Lp~~v~~~~~~ 537 (593)
T PTZ00418 459 FKYQDDGWDYASSFFIGLVFFSKNV-YNNSTFDLRYAIRDFVDIINNWPEMEKYPDQIDINIKYLKKSQLPAFVLSQTPE 537 (593)
T ss_pred cccCCCCceeEEEEEEeEeeccCCC-CCCceEecHHHHHHHHHHHHhhhhcccCCCCceEEEEEeehHhCCHhhccCCCc
Confidence 988763 356789999999876543 23358999999999999999885 3678899999999999999999999998
Q ss_pred CCCCCC
Q 008861 312 RPRPSR 317 (550)
Q Consensus 312 ~~~~~~ 317 (550)
|+++.+
T Consensus 538 ~~~~~~ 543 (593)
T PTZ00418 538 EPVKTK 543 (593)
T ss_pred CCCccc
Confidence 876655
No 3
>COG5186 PAP1 Poly(A) polymerase [RNA processing and modification]
Probab=100.00 E-value=2.9e-88 Score=693.60 Aligned_cols=313 Identities=41% Similarity=0.763 Sum_probs=291.4
Q ss_pred CccCCCChhhhhccchhhhHHHHHHhCCChHHHHHHHHHHHHHHHHhccccccccccchHHHHHHHHHHHhhCCCCChHH
Q 008861 2 SVLNNVDEQTVRSLNGCRVADQILKHVPNVEHFRMTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPNAIPSM 81 (550)
Q Consensus 2 slLrnLDe~svRSLNG~RVtd~ILrlVPn~e~FR~aLR~IKlWAKrRGIYSNv~GyLGGVsWAILVArVCQLyPNas~s~ 81 (550)
.+|++|||+|++||||.||||+||+|||+...|+.||||||+|||||.||+|++||+|||+|||||||||||||||+.+.
T Consensus 175 nLLk~~dEkcilsLNGtRVTDeiL~LVP~~~vF~~ALRaIK~WAqRRavYaN~~GfpGGVAwam~VARiCQLYPNA~S~v 254 (552)
T COG5186 175 NLLKSMDEKCILSLNGTRVTDEILNLVPSVKVFHSALRAIKYWAQRRAVYANPYGFPGGVAWAMCVARICQLYPNASSFV 254 (552)
T ss_pred hhhhcchHHHHHhhcCceehHHHHHhCCchHHHHHHHHHHHHHHHhhhhhccccCCcchHHHHHHHHHHHhhccCcchHh
Confidence 37999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhccCCCCCceeccccccccCCCcccCCCCCCCCCCccceeecCCCCCcCcccccChhHHHHHHHHHHHHHHH
Q 008861 82 LVSRFFRVYTQWRWPNPVMLCPIEEDELGFSVWDPRKNPRDRSHHMPIITPAYPCMNSSYNVSLSTLRVMTEQFQWGNRI 161 (550)
Q Consensus 82 Ll~~FF~vYS~WdWp~PV~L~~i~~~~lg~~vWdP~~~~rdr~hlMPIITPayP~mNSt~NVS~STl~vI~eEF~Ra~~I 161 (550)
||.+||.++++|+||+||+|+||++++++..+|||+.||+|+.|.|||||||||+||+|||+|.||..+|..||-||++|
T Consensus 255 Iv~kFF~ils~WnWPqPviLkPieDgplqvrvWnPKvYpsDk~HRMPvITPAYPSMCATHNit~STq~vIl~EfvRa~~I 334 (552)
T COG5186 255 IVCKFFEILSSWNWPQPVILKPIEDGPLQVRVWNPKVYPSDKYHRMPVITPAYPSMCATHNITNSTQHVILMEFVRAHKI 334 (552)
T ss_pred HHHHHHHHHHhcCCCCCeEeeeccCCCeeEEeeCCccCcccccccCccccCCchhhhhhccccchhhhhHHHHHHHHHHh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhcccchhhhcCCcchhhccccEEEEEEEeCChhhhhhhhhhhhhhHHHHHHHHhhcCCCceeecCCCCCCCCC--
Q 008861 162 CEEIELNKAQWSALFEPYLFFEAYKNYLQVDIVAADADDLLTWKGWVESRFRQLTLKIERDTNGLLQCHPYPNEYIDP-- 239 (550)
Q Consensus 162 l~~i~~~~~~W~~LFep~~FF~~Yk~YL~I~v~a~s~ed~~~W~GwVESRlR~Lv~~LE~~~~~~l~ahp~P~~f~d~-- 239 (550)
+++|+.+..+|..||+..|||.+||+||.|++.+..++++.+|.|+|||++|.|+.+||-. .+++.|||||+.|...
T Consensus 335 ~~di~~n~~~w~~lFek~DFF~RYk~yleitA~s~~~E~~lKW~GlvESKiR~Lv~klE~v-d~i~~AhPF~K~F~~~y~ 413 (552)
T COG5186 335 LSDIERNALDWRRLFEKSDFFSRYKLYLEITAMSSCEEDFLKWEGLVESKIRILVSKLEAV-DDILYAHPFPKAFRKVYN 413 (552)
T ss_pred hhhHhhccccHHHHHHhhhHHHHHhHhhhhhhhhcchhhhhhhhhHHHHHHHHHHHHHHHh-hhhhhcCcCChhhhhhcC
Confidence 9999999999999999999999999999999999999999999999999999999999974 4678999999998410
Q ss_pred --------------------------------CC---------CCCcceEEEeeeeccCCCCCccceeccHHHHHHHHHH
Q 008861 240 --------------------------------SK---------PCPNSAFFMGLRRKEGVTGKERQQFDIRGTVDNFREE 278 (550)
Q Consensus 240 --------------------------------~~---------~~~~~~ffIGL~~~~~~~~~~~~~~DL~~~v~eF~~~ 278 (550)
.. +.|-+.|||||+.... ..++++||..++++|.+.
T Consensus 414 c~~Ee~~e~i~~~~~~~~a~~s~d~~kl~~d~~~eees~~d~~k~y~tt~yIgld~~~~---~~~kkvdi~~p~~EF~el 490 (552)
T COG5186 414 CVAEESIEKIGSGVTLEVAYESTDHEKLANDTVPEEESMEDGMKVYCTTFYIGLDVIPV---KPGKKVDIEQPVKEFIEL 490 (552)
T ss_pred CccHHHHHHHhcccceeehhhccchhhhccccCchhhhhccccceeeeEEEEEEEeeec---CCCceeeeeccHHHHHHH
Confidence 00 1245689999997543 346789999999999999
Q ss_pred HhhhccC-CCceEEEEEEeccCCCCCCcCCCCCcCCCCCCc
Q 008861 279 IGMYMFW-KPGMDIYVSHVRRRQLPSFVFPDGYKRPRPSRH 318 (550)
Q Consensus 279 I~~~~~~-~~gm~I~Vs~VkrsqLP~~V~~~g~k~~~~~~~ 318 (550)
++.|+++ ..+|.|.|+.+|+++||+-||.+|++||..+.+
T Consensus 491 cr~~d~gd~~~mni~v~~~K~~dlpdeVF~~geerPs~~sK 531 (552)
T COG5186 491 CREYDEGDASGMNIEVNSLKRKDLPDEVFYPGEERPSNSSK 531 (552)
T ss_pred HHHhhccccceeeeehhhccccCCchhhcCCCccCcccccc
Confidence 9999654 578999999999999999999999888776443
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=7.4e-70 Score=542.01 Aligned_cols=178 Identities=65% Similarity=1.153 Sum_probs=147.2
Q ss_pred CccCCCChhhhhccchhhhHHHHHHhCCChHHHHHHHHHHHHHHHHhccccccccccchHHHHHHHHHHHhhCCCCChHH
Q 008861 2 SVLNNVDEQTVRSLNGCRVADQILKHVPNVEHFRMTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPNAIPSM 81 (550)
Q Consensus 2 slLrnLDe~svRSLNG~RVtd~ILrlVPn~e~FR~aLR~IKlWAKrRGIYSNv~GyLGGVsWAILVArVCQLyPNas~s~ 81 (550)
++|++||++|+|||||+||+|+|+++|||.++||.+|||||+|||+||||||++|||||||||||||||||+|||+++++
T Consensus 77 ~~l~~ld~~s~~sLnG~Rv~~~il~~Vp~~~~Fr~~lR~IK~WAk~RGIYsn~~GylGGI~waILvArvcql~Pn~~~~~ 156 (254)
T PF04928_consen 77 DPLRNLDEASVRSLNGVRVTDYILRLVPNQETFRTALRFIKLWAKRRGIYSNVFGYLGGIHWAILVARVCQLYPNASPST 156 (254)
T ss_dssp GGGTT--HHHHHHHHHHHHHHHHHCTSS-HHHHHHHHHHHHHHHHHTT-B-CCCTSB-HHHHHHHHHHHHHHSTT--HHH
T ss_pred hhhhCCCHhhccCcccccHHHHHHHHCCCHHHHHHHHHHHHHHHHHccccchhhccchHHHHHHHHHHHHHHCccccccc
Confidence 58999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhccCCCCCceeccccccccCCCcccCCCCCCCCCCccceeecCCCCCcCcccccChhHHHHHHHHHHHHHHH
Q 008861 82 LVSRFFRVYTQWRWPNPVMLCPIEEDELGFSVWDPRKNPRDRSHHMPIITPAYPCMNSSYNVSLSTLRVMTEQFQWGNRI 161 (550)
Q Consensus 82 Ll~~FF~vYS~WdWp~PV~L~~i~~~~lg~~vWdP~~~~rdr~hlMPIITPayP~mNSt~NVS~STl~vI~eEF~Ra~~I 161 (550)
||.+||.+||+|+||+||+|+++.++.+++++|+|+.+++|++|+||||||+||+||+|||||+||+++|++||+||+++
T Consensus 157 ll~~FF~~ys~W~W~~PV~l~~~~~~~~~~~~w~p~~~~~~~~~~MpIiTP~yP~~Nst~nVt~st~~~i~~Ef~ra~~i 236 (254)
T PF04928_consen 157 LLSRFFQIYSQWDWPNPVVLDPIEDGPLGFKVWNPRLYPRDRRHLMPIITPAYPSMNSTYNVTRSTLRIIREEFQRAHEI 236 (254)
T ss_dssp HHHHHHHHHHCS-TTS-EESS-----SSSCGS--TTT-HHHHC-SS-EE-SSSS--BTTTT--HHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHhcCCCCCCceeecccccCcccccCCCCCCCCCCcccceeEccCCCCccccccccCHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999998899999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhcccchhhhcCCc
Q 008861 162 CEEIELNKAQWSALFEPY 179 (550)
Q Consensus 162 l~~i~~~~~~W~~LFep~ 179 (550)
++++..++.+|++||+|+
T Consensus 237 ~~~~~~~~~~W~~L~e~~ 254 (254)
T PF04928_consen 237 LSEILKGGASWSDLFEPH 254 (254)
T ss_dssp HHHHHTTSS-HHHCT---
T ss_pred HHHHHcCCCCHHHHcCCC
Confidence 999998899999999985
No 5
>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=100.00 E-value=1.3e-33 Score=260.93 Aligned_cols=136 Identities=38% Similarity=0.749 Sum_probs=104.9
Q ss_pred chhhccccEEEEEEEeCChhhhhhhhhhhhhhHHHHHHHHhhcCCCceeecCCCCCCC------------------CCCC
Q 008861 180 LFFEAYKNYLQVDIVAADADDLLTWKGWVESRFRQLTLKIERDTNGLLQCHPYPNEYI------------------DPSK 241 (550)
Q Consensus 180 ~FF~~Yk~YL~I~v~a~s~ed~~~W~GwVESRlR~Lv~~LE~~~~~~l~ahp~P~~f~------------------d~~~ 241 (550)
+||.+|||||+|+|+|.+++++.+|.||||||||.|+.+||+.. .+..|||||++|. +...
T Consensus 1 ~FF~~Yk~yl~I~~~a~~~~~~~~W~G~VESrlR~Lv~~LE~~~-~i~~ahp~pk~f~~~~~~~~~~~~~~~~~~~~~~~ 79 (157)
T PF04926_consen 1 DFFSRYKHYLQIDVSAKNEEDHRKWSGWVESRLRHLVQKLERNP-GIKLAHPFPKRFERVYECSEQADENNDEEEEEDPE 79 (157)
T ss_dssp -HHHH-SEEEEEEEEECSHHHHHHHHHHHHCCHHHHHHHHHTST-TEEEEEE-SS-EEEEEE-EBECTTCTTSHHCHCTS
T ss_pred ChhHhCceeEEEEEEeCCHHHHHHhhhHHHHHHHHHHHHHccCC-CeeEecCCCCccccccccccccccccccccccCCC
Confidence 69999999999999999999999999999999999999999865 4678999999998 1223
Q ss_pred CCCcceEEEeeeeccCCCCCccceeccHHHHHHHHHHHhhhcc---CCCceEEEEEEeccCCCCCCcCCCCCcCCCCC
Q 008861 242 PCPNSAFFMGLRRKEGVTGKERQQFDIRGTVDNFREEIGMYMF---WKPGMDIYVSHVRRRQLPSFVFPDGYKRPRPS 316 (550)
Q Consensus 242 ~~~~~~ffIGL~~~~~~~~~~~~~~DL~~~v~eF~~~I~~~~~---~~~gm~I~Vs~VkrsqLP~~V~~~g~k~~~~~ 316 (550)
..+.++|||||.+.........+++||+.++++|.+.|++|.. +.++|+|+|+|||++|||++||++|.+|++++
T Consensus 80 ~~~~~~~fIGL~~~~~~~~~~~~~~dL~~~i~~F~~~v~~~~~~~~~~~~m~i~i~~vk~~~Lp~~v~~~~~~r~~k~ 157 (157)
T PF04926_consen 80 NEYTSSFFIGLEFDSKESNEGSKKLDLTYAIQEFKDLVRNWEKYYYDEEGMDISISHVKRSQLPDFVFEEGEKRPKKS 157 (157)
T ss_dssp EEEEEEEEEEEEE--SSSS---S-EE-HHHHHHHHHHHHCCCCTTC-TTTEEEEEEEEEHHHHGGGGS-TTS------
T ss_pred ceeEEEEEEEEEECCCCccccceEEehHHHHHHHHHHHHhhhccccCCCccEEEEEEechHHCChhhhcccCcCCCCC
Confidence 3567899999999876544344689999999999999999654 67889999999999999999999999998863
No 6
>PF03813 Nrap: Nrap protein; InterPro: IPR005554 Members of this family are nucleolar RNA-associated proteins (Nrap) which are highly conserved from yeast (Saccharomyces cerevisiae) to human. In the mouse, Nrap is ubiquitously expressed and is specifically localized in the nucleolus []. Nrap is a large nucleolar protein (of more than 1000 amino acids). Nrap appears to be associated with ribosome biogenesis by interacting with pre-rRNA primary transcript [].
Probab=98.85 E-value=1.2e-07 Score=111.00 Aligned_cols=242 Identities=14% Similarity=0.222 Sum_probs=158.0
Q ss_pred HHHHhCCChHHHHHHHHHHHHHHHHhcccccc-ccccchHHHHHHHHHHHhh---------CCCCChHHHHHHHHHhhcc
Q 008861 23 QILKHVPNVEHFRMTLRCLKFWAKRRGVYSNV-TGFLGGVNWALLVARVCQL---------YPNAIPSMLVSRFFRVYTQ 92 (550)
Q Consensus 23 ~ILrlVPn~e~FR~aLR~IKlWAKrRGIYSNv-~GyLGGVsWAILVArVCQL---------yPNas~s~Ll~~FF~vYS~ 92 (550)
+|-+..-+...|+.|+.-+|.||++||+.+.. .|-+||..|+||+|+..+- .+..+.-+|+..+..+.|.
T Consensus 155 ~l~~~~~~~p~f~dA~iLlkvWl~QRg~~~~~~~~Gf~~f~~s~lla~Ll~~g~~~~~~~l~~~mSsyQlFr~~l~fLA~ 234 (972)
T PF03813_consen 155 YLHEASKSSPAFRDACILLKVWLRQRGFGSGISQGGFGGFEWSMLLAYLLQGGGRNGKKKLSKSMSSYQLFRAVLQFLAT 234 (972)
T ss_pred HHHHHHhcCHHHHHHHHHHHHHHhcCCCCcccCCCCcchHHHHHHHHHHHcCCCccCCcccCCCCCHHHHHHHHHHHHhc
Confidence 33344456799999999999999999998775 5888999999999999875 4566888999999999999
Q ss_pred CCC-CCceeccccccccCCCcccCCCCCCCCCCccceeecCCCCCcCcccccChhHHHHHHHHHHHHHHHHHHHhhcccc
Q 008861 93 WRW-PNPVMLCPIEEDELGFSVWDPRKNPRDRSHHMPIITPAYPCMNSSYNVSLSTLRVMTEQFQWGNRICEEIELNKAQ 171 (550)
Q Consensus 93 WdW-p~PV~L~~i~~~~lg~~vWdP~~~~rdr~hlMPIITPayP~mNSt~NVS~STl~vI~eEF~Ra~~Il~~i~~~~~~ 171 (550)
.+| .+|+.++.-.+.......| ..+--|++--.-=.+|.++++|.++++.|+.|-+++.+++++- ....
T Consensus 235 ~d~~~~~l~~~~~~~~~~~~~~~--------~~~~~~vf~D~sg~~Nl~~~ms~~s~~~L~~eA~~tl~lL~~~--~~d~ 304 (972)
T PF03813_consen 235 TDLSKKPLFFKSSSDSTESLEEF--------HSAFDPVFVDPSGGLNLLAKMSPSSYEELQHEAKLTLELLDDS--SDDG 304 (972)
T ss_pred cccccCceEEecCCCccchhhhh--------hccCCeEEEeCCCCEEEEEcCCHHHHHHHHHHHHHHHHHhccc--cccc
Confidence 999 6799998654211111111 1223344443445699999999999999999999999999863 2345
Q ss_pred hhhhcC-C-cchhhccccEEEEE---EEe----CChhhhhhhhhhhhhhHHHHHH-HHhhcCCCceeecCC---CCCCCC
Q 008861 172 WSALFE-P-YLFFEAYKNYLQVD---IVA----ADADDLLTWKGWVESRFRQLTL-KIERDTNGLLQCHPY---PNEYID 238 (550)
Q Consensus 172 W~~LFe-p-~~FF~~Yk~YL~I~---v~a----~s~ed~~~W~GwVESRlR~Lv~-~LE~~~~~~l~ahp~---P~~f~d 238 (550)
.+.+|- + .++..+|.+++.|. ... ....+...|..+++.++-.|+. .|..... .++++ +.++.-
T Consensus 305 F~~lFl~~~~~~~~~fD~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~lL~raLgdR~~---~i~v~~~~~~~w~i 381 (972)
T PF03813_consen 305 FDSLFLTKVDPPALRFDHVLRISPDSLLSSFSPDESLDFLSFSNYLLRKIYRLLKRALGDRAK---LIRVLRPSQPPWSI 381 (972)
T ss_pred hhhhhcccCCcccccCCEEEEEcchhhcccccccccccccchhHHHHHHHHHHHHHHHHHHHH---eEEEeCCCCCCccc
Confidence 777764 4 56778999999991 111 1123334444567777766664 4543221 23333 122211
Q ss_pred CCC--CCCcceEEEeeeeccCCC---CCccceeccHHHHHHHHH
Q 008861 239 PSK--PCPNSAFFMGLRRKEGVT---GKERQQFDIRGTVDNFRE 277 (550)
Q Consensus 239 ~~~--~~~~~~ffIGL~~~~~~~---~~~~~~~DL~~~v~eF~~ 277 (550)
.+. ........|||..+.... ...|-..|-.....+|++
T Consensus 382 ~~~~~~~~~~~l~vGl~ln~~~~~r~vd~GP~a~d~~ea~~FR~ 425 (972)
T PF03813_consen 382 SSKPPKSKPKTLTVGLILNPENAFRLVDRGPSAEDKEEAAAFRE 425 (972)
T ss_pred CCCCCCCCCceEEEEEEEchhhceeeeeeCcCCcCcHHHHHHHH
Confidence 111 111227899998764211 111222344566778876
No 7
>COG5260 TRF4 DNA polymerase sigma [DNA replication, recombination, and repair]
Probab=97.50 E-value=0.00059 Score=74.67 Aligned_cols=144 Identities=19% Similarity=0.237 Sum_probs=108.1
Q ss_pred cchhhhHHHHHHhCCChHHHHHHHHHHHHHHHHhccccccccccchHHHHHHHHHHHhhCCC------------------
Q 008861 15 LNGCRVADQILKHVPNVEHFRMTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPN------------------ 76 (550)
Q Consensus 15 LNG~RVtd~ILrlVPn~e~FR~aLR~IKlWAKrRGIYSNv~GyLGGVsWAILVArVCQLyPN------------------ 76 (550)
-||++.|..|+..+-....+|-+.-.||+||++|.+-+...|-|++.++..||--.-|+.|.
T Consensus 177 ~~~~~~akl~~~~~~~~P~lrpLvliIKhwl~~R~ln~~~~GtL~sy~i~cmV~sfLq~~~~~~~~~~~~~~~l~~~~~~ 256 (482)
T COG5260 177 TNGIVNAKLIRSYLKEDPRLRPLVLIIKHWLKRRALNDVATGTLSSYTISCMVLSFLQMHPPFLFFDNGLLSPLKYNKNI 256 (482)
T ss_pred hhHHHHHHHHHHHHhcCcccchHHHHHHHHHHHHhhcccccCcchhhhhHHHHHHHHHhCCccccccccccchhhccccc
Confidence 37889999999999888999999999999999999999999999999999999999999971
Q ss_pred CChHHHHHHHHHhhc-cCCCCCceecccccccc---CCCcccCCCCCCCCCCccceeecCCCCCcCcccccChhHHHHHH
Q 008861 77 AIPSMLVSRFFRVYT-QWRWPNPVMLCPIEEDE---LGFSVWDPRKNPRDRSHHMPIITPAYPCMNSSYNVSLSTLRVMT 152 (550)
Q Consensus 77 as~s~Ll~~FF~vYS-~WdWp~PV~L~~i~~~~---lg~~vWdP~~~~rdr~hlMPIITPayP~mNSt~NVS~STl~vI~ 152 (550)
.....|+..||.+|- .|++..-++...-. +. .....|--..+ .....|-.|. -..|-.-...--|...|+
T Consensus 257 ~~lgvLf~dFf~~yG~~f~Y~~~~~si~~g-~~~~~K~e~g~~~~~~----p~~LsiqdP~-td~n~~~~a~s~~ik~i~ 330 (482)
T COG5260 257 DNLGVLFDDFFELYGKSFNYSLVVLSINSG-DFYLPKYEKGWLKPSK----PNSLSIQDPG-TDRNNDISAVSFNIKDIK 330 (482)
T ss_pred cccchHHHHHHHHhccccChhheEEEecCC-ceeeehhhcccccccC----CCcEeecCCC-CCcccccccccchHHHHH
Confidence 124578999999987 67776655442211 00 00112321111 1567788888 344444445556889999
Q ss_pred HHHHHHHHHHHH
Q 008861 153 EQFQWGNRICEE 164 (550)
Q Consensus 153 eEF~Ra~~Il~~ 164 (550)
.+|.+|.+++++
T Consensus 331 ~~F~~aF~lls~ 342 (482)
T COG5260 331 AAFIRAFELLSN 342 (482)
T ss_pred HHHHHHHHHHhh
Confidence 999999999986
No 8
>KOG2054 consensus Nucleolar RNA-associated protein (NRAP) [Function unknown]
Probab=97.25 E-value=0.0017 Score=76.00 Aligned_cols=169 Identities=16% Similarity=0.210 Sum_probs=117.6
Q ss_pred CChHHHHHHHHHHHHHHHHhccccccccccchHHHHHHHHHHH---hhCCCCChHHHHHHHHHhhccCCCCC-ceecccc
Q 008861 29 PNVEHFRMTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVC---QLYPNAIPSMLVSRFFRVYTQWRWPN-PVMLCPI 104 (550)
Q Consensus 29 Pn~e~FR~aLR~IKlWAKrRGIYSNv~GyLGGVsWAILVArVC---QLyPNas~s~Ll~~FF~vYS~WdWp~-PV~L~~i 104 (550)
.....|+.++--.|.|++.| =-+-..|-+||+-|++|+|+.. .+.-+.+..+++..-|++++.|+|.. -+-+.+-
T Consensus 305 s~~~~f~da~~Llk~WlrqR-s~~~~~~gfg~f~~s~lvv~L~s~~ki~~~~S~yqvfR~vl~flat~dlt~~~~~l~~~ 383 (1121)
T KOG2054|consen 305 SSAKGFKDALALLKVWLRQR-SLDIGQGGFGGFLLSALVVYLVSTRKIHTTLSAYQVFRSVLQFLATTDLTVNGISLVPS 383 (1121)
T ss_pred hhhhhHHHHHHHHHHHHHhh-hhhcccCcchHHHHHHHHHHHHhcCchhhcchHHHHHHHHHHHHhhhhhhccceEeccC
Confidence 34589999999999999999 1122678899999999999987 35677788899999999999999976 4555442
Q ss_pred ccccCCCcccCCCCCCCCCCccceeecCCCCCcCcccccChhHHHHHHHHHHHHHHHHHHHhhcccchhhhc-CCcchhh
Q 008861 105 EEDELGFSVWDPRKNPRDRSHHMPIITPAYPCMNSSYNVSLSTLRVMTEQFQWGNRICEEIELNKAQWSALF-EPYLFFE 183 (550)
Q Consensus 105 ~~~~lg~~vWdP~~~~rdr~hlMPIITPayP~mNSt~NVS~STl~vI~eEF~Ra~~Il~~i~~~~~~W~~LF-ep~~FF~ 183 (550)
. ... |....-+..+ .|.+-=+--..|..-|++.|+.+.+++|..-...++.+... ...+.+| ++.+.|.
T Consensus 384 ~-~s~------~~~~~f~e~~-~~~f~D~s~~~NLc~~mt~s~y~~~q~ea~ltl~lL~~~~~--~~F~~IFmtkip~~~ 453 (1121)
T KOG2054|consen 384 S-PSL------PALADFHEGQ-LVTFIDSSGHLNLCANMTASTYEQVQEEARLTLMLLDSRAD--DGFSLIFMTKIPVFR 453 (1121)
T ss_pred C-CCc------hhhhhhhhcc-eeeEeccCCcchhhhhccHHHHHHHHHHHHHHHHHHhhhhh--cCcceeeeecCCchh
Confidence 1 000 0000000111 11111122357888899999999999999999999987643 3577776 7899999
Q ss_pred ccccEEEEEEEeCChhhhhhhhhhh
Q 008861 184 AYKNYLQVDIVAADADDLLTWKGWV 208 (550)
Q Consensus 184 ~Yk~YL~I~v~a~s~ed~~~W~GwV 208 (550)
.|.|=+.+.....-+.....-.||.
T Consensus 454 ~yDh~l~l~~~~~l~~~~~~~~~~~ 478 (1121)
T KOG2054|consen 454 AYDHVLHLSPLSRLQAAEHLLSGFC 478 (1121)
T ss_pred hhheeeeccccchhhhHHhhcccch
Confidence 9999888876543333333334443
No 9
>KOG2277 consensus S-M checkpoint control protein CID1 and related nucleotidyltransferases [Cell cycle control, cell division, chromosome partitioning]
Probab=97.16 E-value=0.0021 Score=70.98 Aligned_cols=142 Identities=17% Similarity=0.201 Sum_probs=108.0
Q ss_pred hhhhHHHHHHhCCChHHHHHHHHHHHHHHHHhccccccccccc-hHHHHHHHHHHHhhCCCC------------------
Q 008861 17 GCRVADQILKHVPNVEHFRMTLRCLKFWAKRRGVYSNVTGFLG-GVNWALLVARVCQLYPNA------------------ 77 (550)
Q Consensus 17 G~RVtd~ILrlVPn~e~FR~aLR~IKlWAKrRGIYSNv~GyLG-GVsWAILVArVCQLyPNa------------------ 77 (550)
|.+.+..+.....--.+|+.+--.||.||+++|+.+..-|.+- -+++.+||...-|.++..
T Consensus 245 ~~~nS~ll~~~~~~d~r~~~L~~~vk~wa~~~~~~d~~~g~~~s~ysl~lmvi~fLq~~~~~ilp~l~~l~~~~~~~~~~ 324 (596)
T KOG2277|consen 245 AILNSQLLRNYSEIDPRVRPLVLLVKHWAKEKGLNDAKPGGLNSSYSLTLMVIHFLQTLSPPILPPLSKLLPESDSNDKP 324 (596)
T ss_pred hhhhhHHHHHhHhcCCCcchHhHHHHHHHHhccCCCCCCCceeccccHHHHHHHHHHhcCCcCCCchhhhchhccccccc
Confidence 4555655555554445999999999999999999999999999 599999999999876310
Q ss_pred -------------------------ChHHHHHHHHHhhc-cCCCCCceeccccccccCCCcccCCCCCCCCCCccceeec
Q 008861 78 -------------------------IPSMLVSRFFRVYT-QWRWPNPVMLCPIEEDELGFSVWDPRKNPRDRSHHMPIIT 131 (550)
Q Consensus 78 -------------------------s~s~Ll~~FF~vYS-~WdWp~PV~L~~i~~~~lg~~vWdP~~~~rdr~hlMPIIT 131 (550)
+...|+..||.+|+ .|++++-++--......... |. ....-.+.|..
T Consensus 325 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~f~~yy~~~Fdf~~~~I~~r~~~~l~~~--~~-----~~~~~~l~i~d 397 (596)
T KOG2277|consen 325 VVKKKVLCSFLRVFQRNPSNSQNTGSLGELLLGFFSYYASLFDFRKNAISIRRGRALKRA--KK-----IKSKKFLCIED 397 (596)
T ss_pred chhhhhhhccccccccccccccccchHHHHHHHHHHHHhhhcccccceeeeeeccccccc--ch-----hhhccceeecc
Confidence 12377889999999 89999865532221111100 11 11234688999
Q ss_pred CCCCCcCcccccChhHHHHHHHHHHHHHHHHHHH
Q 008861 132 PAYPCMNSSYNVSLSTLRVMTEQFQWGNRICEEI 165 (550)
Q Consensus 132 PayP~mNSt~NVS~STl~vI~eEF~Ra~~Il~~i 165 (550)
|.....|....++..+..+|+.+|+....++...
T Consensus 398 p~~~~~n~~~~~~~~~~~~i~~~~~~~~~~~~~~ 431 (596)
T KOG2277|consen 398 PFEVSHNADAGVTLKVLLLIQDEFQESRRVFKDV 431 (596)
T ss_pred ccccccCccccchHHHHHHHHHHHHHHHHHhhhh
Confidence 9999999999999999999999999999999875
No 10
>KOG1906 consensus DNA polymerase sigma [Replication, recombination and repair]
Probab=96.38 E-value=0.019 Score=63.96 Aligned_cols=150 Identities=19% Similarity=0.261 Sum_probs=107.8
Q ss_pred hhhccchhhhHHHHHHhCCChHHHHHHHHHHHHHHHHhccccccccccchHHHHHHHHHHHhhCCCCC---------hHH
Q 008861 11 TVRSLNGCRVADQILKHVPNVEHFRMTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPNAI---------PSM 81 (550)
Q Consensus 11 svRSLNG~RVtd~ILrlVPn~e~FR~aLR~IKlWAKrRGIYSNv~GyLGGVsWAILVArVCQLyPNas---------~s~ 81 (550)
|.-..||||.++.|....-++..+|.++-.+|.|--.|++-....|-+++++.++||-.+-|++|.-. ...
T Consensus 180 SFn~~~G~~aa~~i~~~~~~~p~~~~lvlvlk~fl~~r~ln~v~tGgisSyal~~Lv~~fl~l~~~~~s~~~~~~~~~~v 259 (514)
T KOG1906|consen 180 SFNQTNGVKAAKFIKDFLRDHPFLRSLVLVLKQFLYERRLNGVHTGGISSYALELLVLSFLQLHPRSKSGRLAVLKNLGV 259 (514)
T ss_pred eecccCchhHHHHHHHHHhcCccchhHHHHHHHHHHhhcccccccccchHHHHHHHHHHHHhhcccccCCccchhcccch
Confidence 34457899999999999999999999999999999999999999999999999999999999998651 247
Q ss_pred HHHHHHHhhc-cCCCCC-ceeccccccc-cCCCcccCCCCCCCCCCccceeecCCCCCcCcccccChhHHHHHHHHHHHH
Q 008861 82 LVSRFFRVYT-QWRWPN-PVMLCPIEED-ELGFSVWDPRKNPRDRSHHMPIITPAYPCMNSSYNVSLSTLRVMTEQFQWG 158 (550)
Q Consensus 82 Ll~~FF~vYS-~WdWp~-PV~L~~i~~~-~lg~~vWdP~~~~rdr~hlMPIITPayP~mNSt~NVS~STl~vI~eEF~Ra 158 (550)
|+.+||.+|. .++.-. -|.+....+. ......|- .++..+.-...|-.|.-|.-+.. -+.....-|+.+|..|
T Consensus 260 ll~~f~e~yG~~f~~~k~~i~~~~~g~~~~~~~~~~~--~~~~~~~~~LsieDP~~P~ndig--r~s~~~~~v~~~F~~a 335 (514)
T KOG1906|consen 260 LLIKFFELYGRNFGYDKLGISLSLGGEYVSKELTGFF--NNSLERPGSLSIEDPVDPTNDIG--RSSFNFSQVKGAFAYA 335 (514)
T ss_pred HHHHHHHHhccccCchhhceeccCCcccccHHhhhhh--cccccCCCccccCCCCCcccccc--cccccHHHHHHHHHHH
Confidence 9999999999 343322 2322211100 00000111 11122445678889988855544 2335567888999888
Q ss_pred HHHHHH
Q 008861 159 NRICEE 164 (550)
Q Consensus 159 ~~Il~~ 164 (550)
..++..
T Consensus 336 f~~l~~ 341 (514)
T KOG1906|consen 336 FKVLTN 341 (514)
T ss_pred HHHHhh
Confidence 877764
No 11
>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=95.66 E-value=0.1 Score=62.12 Aligned_cols=155 Identities=25% Similarity=0.366 Sum_probs=105.9
Q ss_pred hhhHHHHHHhCCChHHHHHHHHHHHHHHHHhccccccccccchHHHHHHHHHHHh-hCC---CCChHHHHHHHHHhhccC
Q 008861 18 CRVADQILKHVPNVEHFRMTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQ-LYP---NAIPSMLVSRFFRVYTQW 93 (550)
Q Consensus 18 ~RVtd~ILrlVPn~e~FR~aLR~IKlWAKrRGIYSNv~GyLGGVsWAILVArVCQ-LyP---Nas~s~Ll~~FF~vYS~W 93 (550)
.+-+..|..+--....|-.+.|.+|.|.-..-+ -|++.--..=+|||+|-. -+| ..++..=..||.+..|.|
T Consensus 669 p~h~~~i~~l~~~~p~fs~tvRL~KrW~~shlL----s~~i~~E~vELlva~vfl~~~p~~~P~S~~~GFlRfL~lLs~~ 744 (972)
T PF03813_consen 669 PKHTSAIHGLHTRFPSFSPTVRLAKRWLSSHLL----SGHISEEAVELLVASVFLSPAPWSPPSSPQTGFLRFLHLLSTW 744 (972)
T ss_pred HHHHHHHHHHHhhCCchhHHHHHHHHHHHhccC----cccCCHHHHHHHHHHHhcCCCCCCCCCCHhHHHHHHHHHHHhC
Confidence 334444444444567899999999999999876 567788899999999983 344 345555567888889999
Q ss_pred CCC-Cceeccccccc--------cCCCcccCCCCCCCCCCccceeecCCCCCcCccc---ccChhHHHHHHHHHHHHHHH
Q 008861 94 RWP-NPVMLCPIEED--------ELGFSVWDPRKNPRDRSHHMPIITPAYPCMNSSY---NVSLSTLRVMTEQFQWGNRI 161 (550)
Q Consensus 94 dWp-~PV~L~~i~~~--------~lg~~vWdP~~~~rdr~hlMPIITPayP~mNSt~---NVS~STl~vI~eEF~Ra~~I 161 (550)
||. +|++++.-.+- ...|..|.. .+|......|-|.||.-|.- +.. .-++.-++.|+.=-+.+.++
T Consensus 745 dW~~~PLiVd~~~~l~~~~~~~i~~~f~~~R~-~dp~~~~p~~~IaT~~D~~g-~~wT~~~Ps~~v~~Rl~~LAk~sl~~ 822 (972)
T PF03813_consen 745 DWREEPLIVDFNNELTEEDRAEIETNFDAWRK-IDPAMNLPAMFIATPYDPEG-SLWTRNGPSKVVAKRLTALAKASLKL 822 (972)
T ss_pred CCCcCCEEEECCCCCCHHHHHHHHHHHHHhhc-cCccccCCcEEEEeCCCCCC-CEeECCCCCHHHHHHHHHHHHHHHHH
Confidence 998 49888653211 012333432 34555667899999999853 333 35556666666666667777
Q ss_pred HHHHhhcccchhhhcCC
Q 008861 162 CEEIELNKAQWSALFEP 178 (550)
Q Consensus 162 l~~i~~~~~~W~~LFep 178 (550)
++.-..+..+|..||.|
T Consensus 823 l~~~~~~~~~~~~lF~~ 839 (972)
T PF03813_consen 823 LEEQGLSDLDWKSLFRP 839 (972)
T ss_pred HHhcCCCCCCHHHhcCC
Confidence 77433346799999975
No 12
>PRK13300 tRNA CCA-pyrophosphorylase; Provisional
Probab=95.34 E-value=0.54 Score=51.93 Aligned_cols=174 Identities=17% Similarity=0.216 Sum_probs=105.9
Q ss_pred HHHHHHhCCChHHHHHHHHHHHHHHHHhccccc--cccccchHHHHHHHHHHHhhCCCCChHHHHHHHHHhhccCCCCCc
Q 008861 21 ADQILKHVPNVEHFRMTLRCLKFWAKRRGVYSN--VTGFLGGVNWALLVARVCQLYPNAIPSMLVSRFFRVYTQWRWPNP 98 (550)
Q Consensus 21 td~ILrlVPn~e~FR~aLR~IKlWAKrRGIYSN--v~GyLGGVsWAILVArVCQLyPNas~s~Ll~~FF~vYS~WdWp~P 98 (550)
|.+|++..- +.|+.-.|-+|.|.|.-|||++ +.+-++|+.+-+|+++. -+-..++..+ +.| .-|
T Consensus 140 ~~fv~~rl~--~~~~d~VRLlK~f~k~~gvYGsE~k~~GFSGYl~ELLv~~y------G~F~~~l~~a----~~w--~~~ 205 (447)
T PRK13300 140 TKYVKERLK--GKLEDEVRLLKQFLKGIGVYGSELKTRGFSGYLCELLIIHY------GSFENVLKAA----SKW--KPP 205 (447)
T ss_pred HHHHHHhhh--hhHHHHHHHHHHHHHhCCccchhhccCCccHHHHHHHHHHh------CCHHHHHHHH----HhC--CCC
Confidence 455554432 3499999999999999999965 55668999999999993 2333444432 345 334
Q ss_pred eeccccccccCCCcccCCCCCCCCCCccceeecCCCCCcCcccccChhHHHHHHHHHHHHHHHHHHHhhcccchhhhcCC
Q 008861 99 VMLCPIEEDELGFSVWDPRKNPRDRSHHMPIITPAYPCMNSSYNVSLSTLRVMTEQFQWGNRICEEIELNKAQWSALFEP 178 (550)
Q Consensus 99 V~L~~i~~~~lg~~vWdP~~~~rdr~hlMPIITPayP~mNSt~NVS~STl~vI~eEF~Ra~~Il~~i~~~~~~W~~LFep 178 (550)
+.++....+. . ....+++.||.|.-|..|.|.++|...+..+...- .+.+.+ +=..+|.|
T Consensus 206 ~~I~~~~~~~--------~---~~f~~PlvViDPvDp~RNVAaa~S~~~~~~fv~aa---r~fL~~------Ps~~fF~~ 265 (447)
T PRK13300 206 VKIDLEKHGK--------E---YKFDDPLVVIDPVDPNRNVAAALSLENLATFILAA---REFLKN------PSLEFFFP 265 (447)
T ss_pred ceEeccccCc--------c---ccCCCCEEEeCCCCCcchHHHHcCHHHHHHHHHHH---HHHHhC------CCHHhcCC
Confidence 5544221110 0 12357899999999999999999998887665422 222222 23345544
Q ss_pred cc---------hhhccccEEEEEEEeCChhhhhhhhhhhhhhHHHHHHHHhhcCCCceee
Q 008861 179 YL---------FFEAYKNYLQVDIVAADADDLLTWKGWVESRFRQLTLKIERDTNGLLQC 229 (550)
Q Consensus 179 ~~---------FF~~Yk~YL~I~v~a~s~ed~~~W~GwVESRlR~Lv~~LE~~~~~~l~a 229 (550)
.+ +-.+=.+.+.|....++.-+=.-| |-++--.+.|...||+.....+..
T Consensus 266 ~~~~~~~~~~~l~~R~t~~~~v~f~~p~~v~Dil~-pQl~r~~~~i~~~L~~~gF~v~~~ 324 (447)
T PRK13300 266 SDLSPEEILEELERRGTTVLALEFPRPDIVEDILY-PQLERSLRSIVKLLEREGFEVLRS 324 (447)
T ss_pred CCCChHHHHHHHhhcCceEEEEEeCCCCCCccchh-HHHHHHHHHHHHHHHHCCCEEEEe
Confidence 44 111222555555555443333334 666666677777788765544444
No 13
>TIGR03671 cca_archaeal CCA-adding enzyme.
Probab=95.11 E-value=0.69 Score=50.58 Aligned_cols=214 Identities=20% Similarity=0.215 Sum_probs=122.3
Q ss_pred HHHHHHhCCChHHHHHHHHHHHHHHHHhccccc--cccccchHHHHHHHHHHHhhCCCCChHHHHHHHHHhhccCCCCCc
Q 008861 21 ADQILKHVPNVEHFRMTLRCLKFWAKRRGVYSN--VTGFLGGVNWALLVARVCQLYPNAIPSMLVSRFFRVYTQWRWPNP 98 (550)
Q Consensus 21 td~ILrlVPn~e~FR~aLR~IKlWAKrRGIYSN--v~GyLGGVsWAILVArVCQLyPNas~s~Ll~~FF~vYS~WdWp~P 98 (550)
+++|+...- +.|+.-.|-+|.|.|.-|+|++ +.+-++|+.+-||+++. -+-..++.. .+.| ..+
T Consensus 138 ~~fv~~rl~--~~~~d~VRLlK~f~k~igvYGsE~~~~GFSGYl~ELLv~~y------G~F~~~l~~----a~~w--k~~ 203 (408)
T TIGR03671 138 TRYVLERLD--GKLRDDVRLLKQFLKGIGVYGSELKTRGFSGYLCELLVIHY------GSFENVLKA----ASKW--KPG 203 (408)
T ss_pred HHHHHHhhh--hhHHHHHHHHHHHHHhCCccchhhccCCccHHHHHHHHHHh------CCHHHHHHH----HHhc--CCC
Confidence 445554332 3499999999999999999965 55668999999999992 222334333 2344 446
Q ss_pred eeccccccccCCCcccCCCCCCCCCCccceeecCCCCCcCcccccChhHHHHHHHHHHHHHHHHHHHhhcccchhhhcCC
Q 008861 99 VMLCPIEEDELGFSVWDPRKNPRDRSHHMPIITPAYPCMNSSYNVSLSTLRVMTEQFQWGNRICEEIELNKAQWSALFEP 178 (550)
Q Consensus 99 V~L~~i~~~~lg~~vWdP~~~~rdr~hlMPIITPayP~mNSt~NVS~STl~vI~eEF~Ra~~Il~~i~~~~~~W~~LFep 178 (550)
+.++....+. ....+++.||.|.-|..|.|.++|...+..+...-+++. .+ +=..+|.|
T Consensus 204 ~~id~~~~~~------------~~f~~PlvViDPvDp~RNVAaalS~~~~~~fv~aar~fl---~~------Ps~~fF~p 262 (408)
T TIGR03671 204 VVIDIEEHGT------------KKFDDPLVVIDPVDPKRNVAAALSLENLARFILAARMFL---KN------PSLEFFFP 262 (408)
T ss_pred eEEecCcccc------------ccCCCCEEEeCCCCCcchHHHHcCHHHHHHHHHHHHHHH---HC------CCHHHcCC
Confidence 6663321111 123578999999999999999999998887765433222 21 22355544
Q ss_pred c-----ch---hhc-cccEEEEEEEeCChhhhhhhhhhhhhhHHHHHHHHhhcCCCceeecCCCCCCCCCCCCCCcceEE
Q 008861 179 Y-----LF---FEA-YKNYLQVDIVAADADDLLTWKGWVESRFRQLTLKIERDTNGLLQCHPYPNEYIDPSKPCPNSAFF 249 (550)
Q Consensus 179 ~-----~F---F~~-Yk~YL~I~v~a~s~ed~~~W~GwVESRlR~Lv~~LE~~~~~~l~ahp~P~~f~d~~~~~~~~~ff 249 (550)
. ++ +.+ -.+.+.|....++.-+=.-| |-++--.+.|...||+.....+....|- +. ..|+.+
T Consensus 263 ~~~~~~~~~~~l~~r~t~~~~~~f~~p~~v~Dil~-pQl~r~~~~i~~~L~~~gF~v~r~~~~~----~~----~~~~l~ 333 (408)
T TIGR03671 263 PEIEPEEFLERLERRGTTLLAIVFRTPDVVDDILY-PQLERSGRSLVKLLEREGFEVLRYGVWA----DE----NTCYLL 333 (408)
T ss_pred CCCChHHHHHHHhhcCcEEEEEEeCCCCCCccchh-HHHHHHHHHHHHHHHHCCCEEEEeeeec----CC----CeEEEE
Confidence 3 11 122 22444454444443232333 6666666777777887655555444442 11 124444
Q ss_pred EeeeeccCC--CCCccceeccHHHHHHHHHH
Q 008861 250 MGLRRKEGV--TGKERQQFDIRGTVDNFREE 278 (550)
Q Consensus 250 IGL~~~~~~--~~~~~~~~DL~~~v~eF~~~ 278 (550)
+=|...+-. ....+-.+.-+.-...|.+.
T Consensus 334 ~el~~~~lp~~~~h~GPpv~~~~~a~~F~~k 364 (408)
T TIGR03671 334 LELESAELPRVKLHVGPPVWVRDHAEKFIEK 364 (408)
T ss_pred EEeeccccCCceeeeCCCccchhHHHHHHHH
Confidence 444432211 11123345554667778764
No 14
>smart00572 DZF domain in DSRM or ZnF_C2H2 domain containing proteins.
Probab=94.65 E-value=0.24 Score=50.84 Aligned_cols=124 Identities=15% Similarity=0.123 Sum_probs=96.6
Q ss_pred hhhhhccchhhhHHHHHHhCCChHHHHHHHHHHHHHHHHhccccccccccchHHHHHHHHHHHhhCCC-CChHHHHHHHH
Q 008861 9 EQTVRSLNGCRVADQILKHVPNVEHFRMTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPN-AIPSMLVSRFF 87 (550)
Q Consensus 9 e~svRSLNG~RVtd~ILrlVPn~e~FR~aLR~IKlWAKrRGIYSNv~GyLGGVsWAILVArVCQLyPN-as~s~Ll~~FF 87 (550)
++|+.+|-..|-+.......-....|+...|.+|-|.+|--.++. |.+..+-+|++++.--... .++..-+.|||
T Consensus 105 ~~cl~aLAalRhakWFq~~a~~l~s~~iviRilKd~~~R~~~~~p----L~~w~iELl~~~~i~~~~~~l~~~~a~RR~f 180 (246)
T smart00572 105 KKCLSALASLRHAKWFQARASGLQSCVIVIRVLRDLCNRVPTWQP----LSGWPLELLVEKAIGSARQPLGLGDAFRRVF 180 (246)
T ss_pred HHHHHHHHHHHHhHHHHHhccCCcchhhHHHHHHHHHHhcccccc----cccccHHHHHHHHhccCCCCCCHHHHHHHHH
Confidence 357778888888888888888889999999999999999766544 8888999999999863322 25778899999
Q ss_pred HhhccCCCCCceeccccccccCCCcccCCCCCCCCCCccceeecCCCC-CcCcccccChhHHHHHHHHHHHHHHHHH
Q 008861 88 RVYTQWRWPNPVMLCPIEEDELGFSVWDPRKNPRDRSHHMPIITPAYP-CMNSSYNVSLSTLRVMTEQFQWGNRICE 163 (550)
Q Consensus 88 ~vYS~WdWp~PV~L~~i~~~~lg~~vWdP~~~~rdr~hlMPIITPayP-~mNSt~NVS~STl~vI~eEF~Ra~~Il~ 163 (550)
++.|+=-- |. + ---|+.|+.+ ..|.+...|.-...-|...-+.+.+++.
T Consensus 181 e~lAsG~l-----~p----~------------------~~gI~DPce~~~~nv~~~lT~qqrd~It~sAQ~alRl~A 230 (246)
T smart00572 181 ECLASGIL-----LP----G------------------SPGLTDPCEKDNTDALTALTLQQREDVTASAQTALRLLA 230 (246)
T ss_pred HHHHhccC-----cC----C------------------CCCCcCCCCCCcccHHHhcCHHHHHHHHHHHHHHHHHHH
Confidence 99875111 10 0 0136677886 7888888999999999998888888875
No 15
>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=91.13 E-value=0.7 Score=42.52 Aligned_cols=93 Identities=24% Similarity=0.348 Sum_probs=58.0
Q ss_pred HHHHHHHHHHhccccc--cccccchHHHHHHHHHHHhhCCCCChHHHHHHHHHhhccCCCCCceeccccccccCCCcccC
Q 008861 38 LRCLKFWAKRRGVYSN--VTGFLGGVNWALLVARVCQLYPNAIPSMLVSRFFRVYTQWRWPNPVMLCPIEEDELGFSVWD 115 (550)
Q Consensus 38 LR~IKlWAKrRGIYSN--v~GyLGGVsWAILVArVCQLyPNas~s~Ll~~FF~vYS~WdWp~PV~L~~i~~~~lg~~vWd 115 (550)
.|-.|...|.-|||+. +.+-++|+-.-+|+.+.=- ....-+.-+ .|..|+.++....+..
T Consensus 3 VrLLK~FlK~igvYGse~~~~GFSGYL~ELLii~yGs----------F~~~l~~a~--~W~~~~~Id~~~~~~~------ 64 (114)
T PF09249_consen 3 VRLLKQFLKGIGVYGSELKTRGFSGYLCELLIIHYGS----------FENVLEAAA--KWKPPVVIDLEDHGEP------ 64 (114)
T ss_dssp HHHHHHHHHHTT-B-SSTTT-SB-HHHHHHHHHHHSS----------HHHHHHHHT--T--TTEEEETT-TTE-------
T ss_pred hHHHHHHHhcCCCcchhhhcCcchHHHHHHHHHHHCC----------HHHHHHHHH--hcCCCeEEccCccchh------
Confidence 5788999999999997 5677889888888887632 122222333 6777888865321110
Q ss_pred CCCCCCCCCccceeecCCCCCcCcccccChhHHHHHH
Q 008861 116 PRKNPRDRSHHMPIITPAYPCMNSSYNVSLSTLRVMT 152 (550)
Q Consensus 116 P~~~~rdr~hlMPIITPayP~mNSt~NVS~STl~vI~ 152 (550)
.+...+++.||.|.-|..|.|.+||...+..+.
T Consensus 65 ----~~~f~~PlvviDPvDp~RNVAAalS~~~~~~fv 97 (114)
T PF09249_consen 65 ----SKKFDDPLVVIDPVDPNRNVAAALSLENLAEFV 97 (114)
T ss_dssp -----EEE-SS-EEEETTEEEEETTTTS-HHHHHHHH
T ss_pred ----hhhcCCCeEEcCCCCCCchHhHhcCHHHHHHHH
Confidence 111346899999999999999999988876554
No 16
>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=89.73 E-value=0.26 Score=38.65 Aligned_cols=56 Identities=20% Similarity=0.276 Sum_probs=34.2
Q ss_pred hHHHHHHHHHhhc-cCCCCCceecccccc-ccCCCcccCCCCCCCCCCccceeecCCCCC
Q 008861 79 PSMLVSRFFRVYT-QWRWPNPVMLCPIEE-DELGFSVWDPRKNPRDRSHHMPIITPAYPC 136 (550)
Q Consensus 79 ~s~Ll~~FF~vYS-~WdWp~PV~L~~i~~-~~lg~~vWdP~~~~rdr~hlMPIITPayP~ 136 (550)
.+.|+..||++|+ .|+|.+-|+--.... -......|.. ....+...|.|..|.-|.
T Consensus 2 lg~Ll~~Ff~~Y~~~Fd~~~~~Isi~~g~~~~k~~~~~~~--~~~~~~~~l~IeDP~~~~ 59 (60)
T PF03828_consen 2 LGELLLGFFEYYGRKFDYENNVISIRNGGYFPKEEKNWSK--SRNQRKKRLCIEDPFDPS 59 (60)
T ss_dssp HHHHHHHHHHHHHHTS-TTTEEEESSSSSEEEHHHHTGCH--CCCCECSSSEBBESSSTT
T ss_pred HHHHHHHHHHHhCCcCCCCceEEEecCCceEEhhhccccc--cccCCCCeEEEECCCCCC
Confidence 4689999999999 999999766422110 0001123441 112246789999998774
No 17
>COG1746 CCA1 tRNA nucleotidyltransferase (CCA-adding enzyme) [Translation, ribosomal structure and biogenesis]
Probab=68.32 E-value=64 Score=36.08 Aligned_cols=161 Identities=20% Similarity=0.187 Sum_probs=92.5
Q ss_pred HHHHHHHHHHHhccccc--cccccchHHHHHHHHHHHhhCCCCChHHHHHHHHHhhccCC-CCCceeccccccccCCCcc
Q 008861 37 TLRCLKFWAKRRGVYSN--VTGFLGGVNWALLVARVCQLYPNAIPSMLVSRFFRVYTQWR-WPNPVMLCPIEEDELGFSV 113 (550)
Q Consensus 37 aLR~IKlWAKrRGIYSN--v~GyLGGVsWAILVArVCQLyPNas~s~Ll~~FF~vYS~Wd-Wp~PV~L~~i~~~~lg~~v 113 (550)
=.|-.|.+-|.=|+|++ +.+-++|+-.-+|+.+.= .|=.+...-. |..|++++.-.
T Consensus 156 eVrLLK~FlK~iGvYGaE~rt~GFSGYL~ELLII~yG-------------sFe~vl~~a~~wrp~~~ID~~~-------- 214 (443)
T COG1746 156 EVRLLKQFLKGIGVYGAELRTQGFSGYLCELLIIHYG-------------SFENVLKAASRWRPGKIIDLEG-------- 214 (443)
T ss_pred HHHHHHHHHhccCccceeeeeccchHHHHHHHHhhhc-------------cHHHHHHHHhccCCCeEEeccc--------
Confidence 46778999999999997 456677887777777652 1222222222 77778876421
Q ss_pred cCCCCCCCCCCccceeecCCCCCcCcccccChhHHHHHHHHHHHHHHHHHHHhhcccchhhhcCCc---c-----hhhcc
Q 008861 114 WDPRKNPRDRSHHMPIITPAYPCMNSSYNVSLSTLRVMTEQFQWGNRICEEIELNKAQWSALFEPY---L-----FFEAY 185 (550)
Q Consensus 114 WdP~~~~rdr~hlMPIITPayP~mNSt~NVS~STl~vI~eEF~Ra~~Il~~i~~~~~~W~~LFep~---~-----FF~~Y 185 (550)
|... +-...+|.|+.|.-|..|.|.+||.-.+..+. -|.+..-+ .+=..+|.|. . ...+=
T Consensus 215 ~~~e---~f~d~PliVvDPVDP~RNVAAalSl~~la~f~----~aar~FL~-----~PS~efF~p~~~~~~~~~~~~~rg 282 (443)
T COG1746 215 HKRE---RFEDEPLIVVDPVDPKRNVAAALSLENLARFV----HAAREFLK-----NPSPEFFFPRKPKPLLLSKLRRRG 282 (443)
T ss_pred hhhh---ccCCCCeEecCCCCCccchhhhcCHHHHHHHH----HHHHHHhc-----CCChhhcCCCCcCcccccchhhcC
Confidence 2101 11223899999999999999999988776554 22222211 1223344331 1 12222
Q ss_pred ccEEEEEEEeCChhhhhhhhhhhhhhHHHHHHHHhhcCCCceeecC
Q 008861 186 KNYLQVDIVAADADDLLTWKGWVESRFRQLTLKIERDTNGLLQCHP 231 (550)
Q Consensus 186 k~YL~I~v~a~s~ed~~~W~GwVESRlR~Lv~~LE~~~~~~l~ahp 231 (550)
.+-+.|.+-.++.-+=.-| |-++---+.|...||......+..+.
T Consensus 283 t~v~~l~~~~pd~vdDily-pQl~r~~~~l~r~Le~~gF~vl~~~~ 327 (443)
T COG1746 283 THVLALVFPKPDLVDDILY-PQLERTARSLFRALEEEGFRVLRSGV 327 (443)
T ss_pred ceEEEEEeCCCCCCcchhh-HHHHHHHHHHHHHHHHcCCEEeeeee
Confidence 2334444434443333333 77777777788888876554444333
No 18
>PF15431 TMEM190: Transmembrane protein 190
Probab=53.79 E-value=8.5 Score=35.72 Aligned_cols=36 Identities=31% Similarity=0.572 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHHHHHhcccccc--ccccchHHHHHHHH
Q 008861 33 HFRMTLRCLKFWAKRRGVYSNV--TGFLGGVNWALLVA 68 (550)
Q Consensus 33 ~FR~aLR~IKlWAKrRGIYSNv--~GyLGGVsWAILVA 68 (550)
.|...+-|+=-|||||++|.|. -|||.||--.=|--
T Consensus 72 l~Li~~iclFWWAkRrd~~k~lh~P~fL~~~~c~kls~ 109 (134)
T PF15431_consen 72 LLLICSICLFWWAKRRDMCKHLHMPRFLSGFKCDKLSR 109 (134)
T ss_pred HHHHHHHHHHHHHHHhchHhhccCchhhccCccchhhc
Confidence 4666778888999999999874 58888875443333
No 19
>KOG2303 consensus Predicted NAD synthase, contains CN hydrolase domain [Coenzyme transport and metabolism; General function prediction only]
Probab=37.64 E-value=37 Score=38.82 Aligned_cols=36 Identities=36% Similarity=0.613 Sum_probs=25.3
Q ss_pred CCCChH---HHHHHHHHhhccCCCCCceeccccccccCCCcccCCCCCCCCCCccceeecCCCCCcCcc
Q 008861 75 PNAIPS---MLVSRFFRVYTQWRWPNPVMLCPIEEDELGFSVWDPRKNPRDRSHHMPIITPAYPCMNSS 140 (550)
Q Consensus 75 PNas~s---~Ll~~FF~vYS~WdWp~PV~L~~i~~~~lg~~vWdP~~~~rdr~hlMPIITPayP~mNSt 140 (550)
+..+|. .=|.+||.+|+- .+|.|-++||+|..-|-+
T Consensus 625 ~klsp~qvaEKVk~FF~~Y~i------------------------------NRHKmTvlTPsyHAE~Ys 663 (706)
T KOG2303|consen 625 DKLSPRQVAEKVKRFFSYYSI------------------------------NRHKMTVLTPSYHAENYS 663 (706)
T ss_pred CcCCHHHHHHHHHHHHhhhee------------------------------ccccceecccccccccCC
Confidence 455654 458899999862 357888888888776654
No 20
>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=34.93 E-value=16 Score=38.19 Aligned_cols=21 Identities=43% Similarity=0.732 Sum_probs=17.1
Q ss_pred eCChhhhhhhhhhhhhhHHHH
Q 008861 195 AADADDLLTWKGWVESRFRQL 215 (550)
Q Consensus 195 a~s~ed~~~W~GwVESRlR~L 215 (550)
-++..+...++||||||+-.+
T Consensus 95 DSn~~EGAVLKGWVESRFGL~ 115 (262)
T PF07357_consen 95 DSNSPEGAVLKGWVESRFGLL 115 (262)
T ss_pred CCCChhhhhhhhhhhhccCcC
Confidence 356778899999999998654
No 21
>KOG2054 consensus Nucleolar RNA-associated protein (NRAP) [Function unknown]
Probab=29.23 E-value=1.4e+02 Score=36.94 Aligned_cols=122 Identities=20% Similarity=0.277 Sum_probs=73.6
Q ss_pred hhhHHHHHHhCCChHHHHHHHHHHHHHHHHhccccccccccchHHHHHHHHHHHhh----CCCCChHHHHHHHHHhhccC
Q 008861 18 CRVADQILKHVPNVEHFRMTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQL----YPNAIPSMLVSRFFRVYTQW 93 (550)
Q Consensus 18 ~RVtd~ILrlVPn~e~FR~aLR~IKlWAKrRGIYSNv~GyLGGVsWAILVArVCQL----yPNas~s~Ll~~FF~vYS~W 93 (550)
.|.|-.|-.+--.+..|-.+.|-.|.|-...=+-+ |.+ -=++-+|||..-+- .|..++..=..||-+..|+|
T Consensus 805 p~ht~aL~~l~qsh~~ys~vvrLaKrWl~shLL~~---h~~-De~iELLva~lf~~p~p~~~psS~~~gFlRfL~llS~~ 880 (1121)
T KOG2054|consen 805 PLHTLALQSLSQSHPFYSSVVRLAKRWLGSHLLSG---HHL-DEAIELLVAALFLKPGPLVPPSSPENGFLRFLSLLSTW 880 (1121)
T ss_pred HHHHHHHHHHhhcccchhHHHHHHHHHHHHHhhcc---chH-HHHHHHHHHHHhcCccCCCCCCCcchhHHHHHHHHhcC
Confidence 44555555555567889999999999976542211 122 34567888887743 34556656678999999999
Q ss_pred CCCC-ceeccccccccCCCcccC------CCCCCCCCCccceeecCCCCCcCcccccChhHH
Q 008861 94 RWPN-PVMLCPIEEDELGFSVWD------PRKNPRDRSHHMPIITPAYPCMNSSYNVSLSTL 148 (550)
Q Consensus 94 dWp~-PV~L~~i~~~~lg~~vWd------P~~~~rdr~hlMPIITPayP~mNSt~NVS~STl 148 (550)
+|.. |.+++-.. +++.=+ --...|.....|-|||| |=..++.+.=+.++.
T Consensus 881 dW~~~PLIvd~nn----~~~ed~~~e~~e~f~s~R~~lp~m~vit~-yD~~~~~~t~~~P~~ 937 (1121)
T KOG2054|consen 881 DWKFDPLIVDFNN----GFPEDERSELEEKFISARKQLPPMVVITP-YDHLGSKFTRTSPNQ 937 (1121)
T ss_pred cccCCceEEEcCC----CCcHHHHHHHHHHHhhhcccCCceEEeec-cccccccccccCchH
Confidence 9985 87775311 111000 00122334458999997 444555555555553
No 22
>PF07789 DUF1627: Protein of unknown function (DUF1627); InterPro: IPR012432 This is a group of sequences found in hypothetical proteins predicted to be expressed in a number of bacterial species. The region in question is approximately 150 amino acid residues long.
Probab=20.05 E-value=52 Score=32.01 Aligned_cols=43 Identities=9% Similarity=0.268 Sum_probs=36.3
Q ss_pred ccccChhHHHHHHHHHHHHHHHHHHHhhcccchhhhcCCcchhhccccEE
Q 008861 140 SYNVSLSTLRVMTEQFQWGNRICEEIELNKAQWSALFEPYLFFEAYKNYL 189 (550)
Q Consensus 140 t~NVS~STl~vI~eEF~Ra~~Il~~i~~~~~~W~~LFep~~FF~~Yk~YL 189 (550)
+.++--++++.+..|++||-.-+++ |..++...-=+.+|++-+
T Consensus 110 ~d~li~pslr~a~rElRRak~kvqk-------wErvcaAlRELnKhRdiv 152 (155)
T PF07789_consen 110 ADDLILPSLRKANRELRRAKSKVQK-------WERVCAALRELNKHRDIV 152 (155)
T ss_pred CcceechhHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHH
Confidence 3788999999999999999988775 999998877777777644
Done!