Query 010242
Match_columns 514
No_of_seqs 163 out of 385
Neff 4.4
Searched_HMMs 46136
Date Thu Mar 28 22:42:36 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/010242.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/010242hhsearch_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-104 3E-109 831.6 23.8 310 2-318 183-502 (562)
2 PTZ00418 Poly(A) polymerase; P 100.0 2E-101 5E-106 830.2 31.8 313 2-317 221-543 (593)
3 COG5186 PAP1 Poly(A) polymeras 100.0 1.8E-89 4E-94 697.8 18.9 310 2-315 175-528 (552)
4 PF04928 PAP_central: Poly(A) 100.0 5.2E-70 1.1E-74 540.0 14.2 178 2-179 77-254 (254)
5 PF04926 PAP_RNA-bind: Poly(A) 100.0 1.1E-33 2.5E-38 260.0 7.9 135 180-315 1-156 (157)
6 PF03813 Nrap: Nrap protein; 98.8 1.3E-07 2.9E-12 109.9 19.6 242 23-277 155-425 (972)
7 COG5260 TRF4 DNA polymerase si 97.8 0.00014 3E-09 78.9 10.5 146 15-164 177-342 (482)
8 KOG2277 S-M checkpoint control 97.2 0.0016 3.5E-08 71.5 10.1 142 17-165 245-431 (596)
9 KOG2054 Nucleolar RNA-associat 97.1 0.0029 6.3E-08 73.7 10.5 169 30-209 306-479 (1121)
10 KOG1906 DNA polymerase sigma [ 96.5 0.014 3.1E-07 64.5 10.2 148 11-164 180-341 (514)
11 PF03813 Nrap: Nrap protein; 95.8 0.082 1.8E-06 62.6 12.7 155 18-178 669-839 (972)
12 PRK13300 tRNA CCA-pyrophosphor 95.5 0.45 9.8E-06 52.1 15.9 174 21-229 140-324 (447)
13 TIGR03671 cca_archaeal CCA-add 95.4 0.59 1.3E-05 50.7 16.2 214 21-278 138-364 (408)
14 smart00572 DZF domain in DSRM 94.6 0.25 5.5E-06 50.2 10.0 124 9-163 105-230 (246)
15 PF09249 tRNA_NucTransf2: tRNA 92.6 0.31 6.7E-06 44.4 6.0 93 38-152 3-97 (114)
16 PF03828 PAP_assoc: Cid1 famil 91.9 0.12 2.7E-06 40.2 2.4 56 79-136 2-59 (60)
17 COG1746 CCA1 tRNA nucleotidylt 67.7 63 0.0014 35.8 11.7 162 37-232 156-328 (443)
18 KOG2054 Nucleolar RNA-associat 56.7 67 0.0014 39.1 10.0 121 18-147 805-936 (1121)
19 PF15431 TMEM190: Transmembran 55.8 7.5 0.00016 35.7 1.8 38 33-70 72-111 (134)
20 PF07357 DRAT: Dinitrogenase r 33.0 18 0.00038 37.5 0.6 21 195-215 95-115 (262)
21 PF07789 DUF1627: Protein of u 21.2 52 0.0011 31.7 1.4 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=1.6e-104 Score=831.62 Aligned_cols=310 Identities=56% Similarity=0.997 Sum_probs=292.2
Q ss_pred CcccCCChhhhhccchhhhHHHHHHhCCChHHHHHHHHHHHHHHHHhccccccccccchHHHHHHHHHHHhhCCCCChHH
Q 010242 2 SVLNNVDEQTVRSLNGCRVADQILKHVPNVEHFRMTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPNAIPSM 81 (514)
Q Consensus 2 siL~nLDe~svRSLNG~RVtd~ILrlVPn~e~FR~aLR~IKlWAKrRGIYSNv~GyLGGIsWAILVArVCQLyPnas~s~ 81 (514)
++|+||||+|+||||||||||+||+||||.++||.+|||||+||||||||||++||||||+|||||||||||||||++++
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 010242 82 LVSRFFRVYTQWRWPNPVMLCPIEEDELGFSVWDPRKNPRDRSHHMPIITPAYPCMNSSYNVSLSTLRVMTEQFQWGNRI 161 (514)
Q Consensus 82 Ll~~FF~vyS~W~Wp~PV~L~~i~~~~lg~~vWdP~~~~rdr~hlMPIITPayP~~NSt~nVs~STl~vI~~Ef~Ra~~I 161 (514)
||++||.+|++|.||+||+|+++++++|+++||||++|++||.|+|||||||||+||||||||+||+++|++||+||++|
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 010242 162 CEEIELNKAQWSALFEPYLFFEAYKNYLQVDIVAADADDLLTWKGWVESRFRQLTLKIERDTNGLLQCHPYPNEYIDPSK 241 (514)
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 (514)
|++|..++.+|++|||+++||.+|||||+|+++|.++|++.+|.||||||||+|+.+||+. ..++.|||+|+.|.++..
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 467889999999987653
Q ss_pred C----CCcceEEEeeeeccCCCCCcccccccHHHHHHHHHHHh----hhcccCCc--eEEEEEeeccCCCCCccCCCCCc
Q 010242 242 P----CPNSAFFMGLRRKEGVTGKERQQFDIRGTVDNFREEIG----MYMFWKPG--MDIYVSHVRRRQLPSFVFPDGYK 311 (514)
Q Consensus 242 ~----~~~~~ffIGL~~~~~~~~~~~~~~DL~~~v~eF~~~V~----~~~~~~~g--m~I~V~~Vkr~~LP~~V~~~g~~ 311 (514)
. .+...|+|||.+.++. ++||+..+++|.+.++ ....+++| |.+.+.|+||++|+.+++.+.++
T Consensus 422 ~~~~~~~~~~~~igl~~~e~~------~~Dlt~~iq~f~~~v~~q~~~~~~~~~g~~~~~~~~~~krr~l~~~~~~~~l~ 495 (562)
T KOG2245|consen 422 CPLEEDPESLWFIGLEFDENV------KIDLTKDIQSFKKNVERQAVNLTLIKAGCDVEIDFGHVKRRSLIQTITKEFLR 495 (562)
T ss_pred CCcccchhHhhhhcccccccc------cchhhhhHHHhhhhhhhcceeeeeeecccccccccccccccccccccCHHHhh
Confidence 2 3567899999887654 4999999999999887 45677899 77788899999999999999987
Q ss_pred CCCCCCC
Q 010242 312 RPRPSRH 318 (514)
Q Consensus 312 ~~~~~~~ 318 (514)
+.+.-++
T Consensus 496 ~~k~~~~ 502 (562)
T KOG2245|consen 496 LCKQYKK 502 (562)
T ss_pred HHHhhcc
Confidence 7666544
No 2
>PTZ00418 Poly(A) polymerase; Provisional
Probab=100.00 E-value=2.1e-101 Score=830.19 Aligned_cols=313 Identities=46% Similarity=0.855 Sum_probs=292.7
Q ss_pred CcccCCChhhhhccchhhhHHHHHHhCCChHHHHHHHHHHHHHHHHhccccccccccchHHHHHHHHHHHhhCCCCChHH
Q 010242 2 SVLNNVDEQTVRSLNGCRVADQILKHVPNVEHFRMTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPNAIPSM 81 (514)
Q Consensus 2 siL~nLDe~svRSLNG~RVtd~ILrlVPn~e~FR~aLR~IKlWAKrRGIYSNv~GyLGGIsWAILVArVCQLyPnas~s~ 81 (514)
++|+|||++|+||||||||+|+||++|||+++||.+|||||+||||||||||++||||||+||||||||||||||+++++
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 010242 82 LVSRFFRVYTQWRWPNPVMLCPIEE-----DELGFSVWDPRKNPRDRSHHMPIITPAYPCMNSSYNVSLSTLRVMTEQFQ 156 (514)
Q Consensus 82 Ll~~FF~vyS~W~Wp~PV~L~~i~~-----~~lg~~vWdP~~~~rdr~hlMPIITPayP~~NSt~nVs~STl~vI~~Ef~ 156 (514)
||.+||++|++|+||+||+|+++++ +.++++||||+.|++|++|+|||||||||+||+|||||.||+++|++||+
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 57889999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhh-cccchhhhcCCcchhhccccEEEEEEEeCChhhhhhhhhhhhhHHHHHHHHhhhcCCCceeecCCCCC
Q 010242 157 WGNRICEEIEL-NKAQWSALFEPYLFFEAYKNYLQVDIVAADADDLLTWKGWVESRFRQLTLKIERDTNGLLQCHPYPNE 235 (514)
Q Consensus 157 Ra~~Il~~i~~-~~~~W~~Lfep~~FF~~Yk~YL~I~v~a~s~ed~~~W~GwVESRlR~Lv~~LE~~~~~~l~ahp~P~~ 235 (514)
||++|+++|.. ++.+|++||+|++||.+|++||+|++.+.+++++..|.||||||||.|+.+||+. + .+.+||||++
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-CCCcceEEEeeeeccCCCCCcccccccHHHHHHHHHHHhhhc---ccCCceEEEEEeeccCCCCCccCCCCCc
Q 010242 236 YIDPSK-PCPNSAFFMGLRRKEGVTGKERQQFDIRGTVDNFREEIGMYM---FWKPGMDIYVSHVRRRQLPSFVFPDGYK 311 (514)
Q Consensus 236 f~d~~~-~~~~~~ffIGL~~~~~~~~~~~~~~DL~~~v~eF~~~V~~~~---~~~~gm~I~V~~Vkr~~LP~~V~~~g~~ 311 (514)
|.+... ..|+++|||||+++.+... +..++||+.++++|.+.|++|. .|+++|+|+|+|||+++||++||++|.+
T Consensus 459 f~~~~~~~~~~~~ffIGL~~~~~~~~-~~~~~Dl~~~~~~F~~~i~~~~~~~~~~~~~~i~v~~Vk~~~Lp~~v~~~~~~ 537 (593)
T PTZ00418 459 FKYQDDGWDYASSFFIGLVFFSKNVY-NNSTFDLRYAIRDFVDIINNWPEMEKYPDQIDINIKYLKKSQLPAFVLSQTPE 537 (593)
T ss_pred cccCCCCceeEEEEEEeEeeccCCCC-CCceEecHHHHHHHHHHHHhhhhcccCCCCceEEEEEeehHhCCHhhccCCCc
Confidence 988653 3577899999998765432 3458999999999999999885 3678899999999999999999999988
Q ss_pred CCCCCC
Q 010242 312 RPRPSR 317 (514)
Q Consensus 312 ~~~~~~ 317 (514)
|+.+.+
T Consensus 538 ~~~~~~ 543 (593)
T PTZ00418 538 EPVKTK 543 (593)
T ss_pred CCCccc
Confidence 866654
No 3
>COG5186 PAP1 Poly(A) polymerase [RNA processing and modification]
Probab=100.00 E-value=1.8e-89 Score=697.83 Aligned_cols=310 Identities=41% Similarity=0.764 Sum_probs=289.8
Q ss_pred CcccCCChhhhhccchhhhHHHHHHhCCChHHHHHHHHHHHHHHHHhccccccccccchHHHHHHHHHHHhhCCCCChHH
Q 010242 2 SVLNNVDEQTVRSLNGCRVADQILKHVPNVEHFRMTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPNAIPSM 81 (514)
Q Consensus 2 siL~nLDe~svRSLNG~RVtd~ILrlVPn~e~FR~aLR~IKlWAKrRGIYSNv~GyLGGIsWAILVArVCQLyPnas~s~ 81 (514)
.+|++|||+|++||||.||||+||+|||+..+|+.||||||+|||||.||+|++||+|||+|||||||||||||||+.+.
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 47999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhccCCCCCceeccccccccCCCcccCCCCCCCCCCCcceeecCCCCCcccccccChhHHHHHHHHHHHHHHH
Q 010242 82 LVSRFFRVYTQWRWPNPVMLCPIEEDELGFSVWDPRKNPRDRSHHMPIITPAYPCMNSSYNVSLSTLRVMTEQFQWGNRI 161 (514)
Q Consensus 82 Ll~~FF~vyS~W~Wp~PV~L~~i~~~~lg~~vWdP~~~~rdr~hlMPIITPayP~~NSt~nVs~STl~vI~~Ef~Ra~~I 161 (514)
||++||.++++|+||+||+|+||++++++.++|||+.|++|+.|.|||||||||+||+|||+|.||..+|..||-||++|
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 HHHHhhcccchhhhcCCcchhhccccEEEEEEEeCChhhhhhhhhhhhhHHHHHHHHhhhcCCCceeecCCCCCCCCCC-
Q 010242 162 CEEIELNKAQWSALFEPYLFFEAYKNYLQVDIVAADADDLLTWKGWVESRFRQLTLKIERDTNGLLQCHPYPNEYIDPS- 240 (514)
Q Consensus 162 l~~i~~~~~~W~~Lfep~~FF~~Yk~YL~I~v~a~s~ed~~~W~GwVESRlR~Lv~~LE~~~~~~l~ahp~P~~f~d~~- 240 (514)
+++|..+..+|..||+..|||.+||+||.|++.+.++|++.+|.|+||||+|.|+.+||-. .+++.|||||+.|....
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 9999999999999999999999999999999999999999999999999999999999975 56788999999995100
Q ss_pred -----------------------------------C-------CCCcceEEEeeeeccCCCCCcccccccHHHHHHHHHH
Q 010242 241 -----------------------------------K-------PCPNSAFFMGLRRKEGVTGKERQQFDIRGTVDNFREE 278 (514)
Q Consensus 241 -----------------------------------~-------~~~~~~ffIGL~~~~~~~~~~~~~~DL~~~v~eF~~~ 278 (514)
. ..|.+.|||||++.... .++++||..++++|.+.
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 CVAEESIEKIGSGVTLEVAYESTDHEKLANDTVPEEESMEDGMKVYCTTFYIGLDVIPVK---PGKKVDIEQPVKEFIEL 490 (552)
T ss_pred CccHHHHHHHhcccceeehhhccchhhhccccCchhhhhccccceeeeEEEEEEEeeecC---CCceeeeeccHHHHHHH
Confidence 0 01456899999986543 35789999999999999
Q ss_pred HhhhcccC-CceEEEEEeeccCCCCCccCCCCCcCCCC
Q 010242 279 IGMYMFWK-PGMDIYVSHVRRRQLPSFVFPDGYKRPRP 315 (514)
Q Consensus 279 V~~~~~~~-~gm~I~V~~Vkr~~LP~~V~~~g~~~~~~ 315 (514)
++.|++++ .+|.|.|+.+|+++||+-||.+|..+|..
T Consensus 491 cr~~d~gd~~~mni~v~~~K~~dlpdeVF~~geerPs~ 528 (552)
T COG5186 491 CREYDEGDASGMNIEVNSLKRKDLPDEVFYPGEERPSN 528 (552)
T ss_pred HHHhhccccceeeeehhhccccCCchhhcCCCccCccc
Confidence 99997655 77999999999999999999998776544
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=5.2e-70 Score=540.03 Aligned_cols=178 Identities=65% Similarity=1.153 Sum_probs=147.2
Q ss_pred CcccCCChhhhhccchhhhHHHHHHhCCChHHHHHHHHHHHHHHHHhccccccccccchHHHHHHHHHHHhhCCCCChHH
Q 010242 2 SVLNNVDEQTVRSLNGCRVADQILKHVPNVEHFRMTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPNAIPSM 81 (514)
Q Consensus 2 siL~nLDe~svRSLNG~RVtd~ILrlVPn~e~FR~aLR~IKlWAKrRGIYSNv~GyLGGIsWAILVArVCQLyPnas~s~ 81 (514)
++|+|||++|+|||||+||+|+|+++|||.++||.+|||||+|||+||||||++|||||||||||||||||+|||+++++
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 010242 82 LVSRFFRVYTQWRWPNPVMLCPIEEDELGFSVWDPRKNPRDRSHHMPIITPAYPCMNSSYNVSLSTLRVMTEQFQWGNRI 161 (514)
Q Consensus 82 Ll~~FF~vyS~W~Wp~PV~L~~i~~~~lg~~vWdP~~~~rdr~hlMPIITPayP~~NSt~nVs~STl~vI~~Ef~Ra~~I 161 (514)
||.+||.+||+|+||+||+|++++++.+++++|||+.|++|++|+|||||||||+||+|||||+||+++|++||+||+++
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 010242 162 CEEIELNKAQWSALFEPY 179 (514)
Q Consensus 162 l~~i~~~~~~W~~Lfep~ 179 (514)
++++..++.+|++||+|+
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=1.1e-33 Score=260.02 Aligned_cols=135 Identities=38% Similarity=0.749 Sum_probs=105.3
Q ss_pred chhhccccEEEEEEEeCChhhhhhhhhhhhhHHHHHHHHhhhcCCCceeecCCCCCCC------------------CCCC
Q 010242 180 LFFEAYKNYLQVDIVAADADDLLTWKGWVESRFRQLTLKIERDTNGLLQCHPYPNEYI------------------DPSK 241 (514)
Q Consensus 180 ~FF~~Yk~YL~I~v~a~s~ed~~~W~GwVESRlR~Lv~~LE~~~~~~l~ahp~P~~f~------------------d~~~ 241 (514)
+||.+|||||+|+|+|.+++++.+|.||||||||.|+.+||+.. .+..|||||++|. +...
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 69999999999999999999999999999999999999999875 4778999999998 1223
Q ss_pred CCCcceEEEeeeeccCCCCCcccccccHHHHHHHHHHHhhhcc---cCCceEEEEEeeccCCCCCccCCCCCcCCCC
Q 010242 242 PCPNSAFFMGLRRKEGVTGKERQQFDIRGTVDNFREEIGMYMF---WKPGMDIYVSHVRRRQLPSFVFPDGYKRPRP 315 (514)
Q Consensus 242 ~~~~~~ffIGL~~~~~~~~~~~~~~DL~~~v~eF~~~V~~~~~---~~~gm~I~V~~Vkr~~LP~~V~~~g~~~~~~ 315 (514)
..+.++|||||++......+.+.++||+.++++|++.|++|.. +.++|+|+|+|||+++||++||+++.+|+++
T Consensus 80 ~~~~~~~fIGL~~~~~~~~~~~~~~dL~~~i~~F~~~v~~~~~~~~~~~~m~i~i~~vk~~~Lp~~v~~~~~~r~~k 156 (157)
T PF04926_consen 80 NEYTSSFFIGLEFDSKESNEGSKKLDLTYAIQEFKDLVRNWEKYYYDEEGMDISISHVKRSQLPDFVFEEGEKRPKK 156 (157)
T ss_dssp EEEEEEEEEEEEE--SSSS---S-EE-HHHHHHHHHHHHCCCCTTC-TTTEEEEEEEEEHHHHGGGGS-TTS-----
T ss_pred ceeEEEEEEEEEECCCCccccceEEehHHHHHHHHHHHHhhhccccCCCccEEEEEEechHHCChhhhcccCcCCCC
Confidence 3578899999999876554344679999999999999999765 5688999999999999999999999988775
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=98.84 E-value=1.3e-07 Score=109.93 Aligned_cols=242 Identities=14% Similarity=0.209 Sum_probs=158.3
Q ss_pred HHHHhCCChHHHHHHHHHHHHHHHHhcccccc-ccccchHHHHHHHHHHHhh---------CCCCChHHHHHHHHHhhcc
Q 010242 23 QILKHVPNVEHFRMTLRCLKFWAKRRGVYSNV-TGFLGGVNWALLVARVCQL---------YPNAIPSMLVSRFFRVYTQ 92 (514)
Q Consensus 23 ~ILrlVPn~e~FR~aLR~IKlWAKrRGIYSNv-~GyLGGIsWAILVArVCQL---------yPnas~s~Ll~~FF~vyS~ 92 (514)
+|-+..-+...|+.|+.-+|.||++||+.+.. .|-+||..|+||+|+..+- .+..+.-+|+..+..+.|.
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 34444446799999999999999999998775 5888999999999999875 4566788999999999999
Q ss_pred CCC-CCceeccccccccCCCcccCCCCCCCCCCCcceeecCCCCCcccccccChhHHHHHHHHHHHHHHHHHHHhhcccc
Q 010242 93 WRW-PNPVMLCPIEEDELGFSVWDPRKNPRDRSHHMPIITPAYPCMNSSYNVSLSTLRVMTEQFQWGNRICEEIELNKAQ 171 (514)
Q Consensus 93 W~W-p~PV~L~~i~~~~lg~~vWdP~~~~rdr~hlMPIITPayP~~NSt~nVs~STl~vI~~Ef~Ra~~Il~~i~~~~~~ 171 (514)
.+| .+|+.++...+...... ....+--|++--.-=.+|.++++|.++.+.|+.|-+++.+++++-. ...
T Consensus 235 ~d~~~~~l~~~~~~~~~~~~~--------~~~~~~~~vf~D~sg~~Nl~~~ms~~s~~~L~~eA~~tl~lL~~~~--~d~ 304 (972)
T PF03813_consen 235 TDLSKKPLFFKSSSDSTESLE--------EFHSAFDPVFVDPSGGLNLLAKMSPSSYEELQHEAKLTLELLDDSS--DDG 304 (972)
T ss_pred cccccCceEEecCCCccchhh--------hhhccCCeEEEeCCCCEEEEEcCCHHHHHHHHHHHHHHHHHhcccc--ccc
Confidence 999 67999987543111111 1122334444444556999999999999999999999999998632 345
Q ss_pred hhhhcC-C-cchhhccccEEEEE---EE----eCChhhhhhhhhhhhhHHHHHHH-HhhhcCCCceeecCC---CCCCCC
Q 010242 172 WSALFE-P-YLFFEAYKNYLQVD---IV----AADADDLLTWKGWVESRFRQLTL-KIERDTNGLLQCHPY---PNEYID 238 (514)
Q Consensus 172 W~~Lfe-p-~~FF~~Yk~YL~I~---v~----a~s~ed~~~W~GwVESRlR~Lv~-~LE~~~~~~l~ahp~---P~~f~d 238 (514)
.+.+|- + .++..+|.+++.|. .. .....+...|...++.+|-.|+. .|-.... .++++ +..+.-
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 777774 4 46778999999991 11 12223344444466777766654 3532221 22333 222211
Q ss_pred CCC--CCCcceEEEeeeeccCC---CCCcccccccHHHHHHHHH
Q 010242 239 PSK--PCPNSAFFMGLRRKEGV---TGKERQQFDIRGTVDNFRE 277 (514)
Q Consensus 239 ~~~--~~~~~~ffIGL~~~~~~---~~~~~~~~DL~~~v~eF~~ 277 (514)
... ........|||..+... .+..|-..|-.....+|++
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 11123789999876521 1111222344566777876
No 7
>COG5260 TRF4 DNA polymerase sigma [DNA replication, recombination, and repair]
Probab=97.77 E-value=0.00014 Score=78.92 Aligned_cols=146 Identities=18% Similarity=0.211 Sum_probs=109.9
Q ss_pred cchhhhHHHHHHhCCChHHHHHHHHHHHHHHHHhccccccccccchHHHHHHHHHHHhhCCC------------------
Q 010242 15 LNGCRVADQILKHVPNVEHFRMTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPN------------------ 76 (514)
Q Consensus 15 LNG~RVtd~ILrlVPn~e~FR~aLR~IKlWAKrRGIYSNv~GyLGGIsWAILVArVCQLyPn------------------ 76 (514)
-||++.|..|++.+-....+|-+.-.||+||++|.+-+...|-|++.+...||--..|+.|.
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 47889999999999888999999999999999999999999999999999999999999971
Q ss_pred CChHHHHHHHHHhhc-cCCCCCceeccccccccC-CCcccCCCCCCCCCCCcceeecCCCCCcccccccChhHHHHHHHH
Q 010242 77 AIPSMLVSRFFRVYT-QWRWPNPVMLCPIEEDEL-GFSVWDPRKNPRDRSHHMPIITPAYPCMNSSYNVSLSTLRVMTEQ 154 (514)
Q Consensus 77 as~s~Ll~~FF~vyS-~W~Wp~PV~L~~i~~~~l-g~~vWdP~~~~rdr~hlMPIITPayP~~NSt~nVs~STl~vI~~E 154 (514)
.....|+..||.+|- .|++..-++...-. +.+ ....|.....-+ .-...|-.|. -..|..-....-|...|..+
T Consensus 257 ~~lgvLf~dFf~~yG~~f~Y~~~~~si~~g-~~~~~K~e~g~~~~~~--p~~LsiqdP~-td~n~~~~a~s~~ik~i~~~ 332 (482)
T COG5260 257 DNLGVLFDDFFELYGKSFNYSLVVLSINSG-DFYLPKYEKGWLKPSK--PNSLSIQDPG-TDRNNDISAVSFNIKDIKAA 332 (482)
T ss_pred cccchHHHHHHHHhccccChhheEEEecCC-ceeeehhhcccccccC--CCcEeecCCC-CCcccccccccchHHHHHHH
Confidence 234678999999998 78887655543211 100 001122111111 1567888888 44444444556688999999
Q ss_pred HHHHHHHHHH
Q 010242 155 FQWGNRICEE 164 (514)
Q Consensus 155 f~Ra~~Il~~ 164 (514)
|.+|.+++++
T Consensus 333 F~~aF~lls~ 342 (482)
T COG5260 333 FIRAFELLSN 342 (482)
T ss_pred HHHHHHHHhh
Confidence 9999999986
No 8
>KOG2277 consensus S-M checkpoint control protein CID1 and related nucleotidyltransferases [Cell cycle control, cell division, chromosome partitioning]
Probab=97.21 E-value=0.0016 Score=71.45 Aligned_cols=142 Identities=17% Similarity=0.199 Sum_probs=108.3
Q ss_pred hhhhHHHHHHhCCChHHHHHHHHHHHHHHHHhccccccccccc-hHHHHHHHHHHHhhCCC-------------------
Q 010242 17 GCRVADQILKHVPNVEHFRMTLRCLKFWAKRRGVYSNVTGFLG-GVNWALLVARVCQLYPN------------------- 76 (514)
Q Consensus 17 G~RVtd~ILrlVPn~e~FR~aLR~IKlWAKrRGIYSNv~GyLG-GIsWAILVArVCQLyPn------------------- 76 (514)
|.+.+..+.....--.+|+.+--.||.||+++|+.+..-|.+. -+++.+||.+.-|.++.
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 4555555555554445999999999999999999999999999 59999999999987531
Q ss_pred ------------------------CChHHHHHHHHHhhc-cCCCCCceeccccccccCCCcccCCCCCCCCCCCcceeec
Q 010242 77 ------------------------AIPSMLVSRFFRVYT-QWRWPNPVMLCPIEEDELGFSVWDPRKNPRDRSHHMPIIT 131 (514)
Q Consensus 77 ------------------------as~s~Ll~~FF~vyS-~W~Wp~PV~L~~i~~~~lg~~vWdP~~~~rdr~hlMPIIT 131 (514)
.+...|+..||.+|+ .|++++-++-.......... | .....-.+.|..
T Consensus 325 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~f~~yy~~~Fdf~~~~I~~r~~~~l~~~--~-----~~~~~~~l~i~d 397 (596)
T KOG2277|consen 325 VVKKKVLCSFLRVFQRNPSNSQNTGSLGELLLGFFSYYASLFDFRKNAISIRRGRALKRA--K-----KIKSKKFLCIED 397 (596)
T ss_pred chhhhhhhccccccccccccccccchHHHHHHHHHHHHhhhcccccceeeeeeccccccc--c-----hhhhccceeecc
Confidence 013478889999999 89999865543222111100 1 111234588999
Q ss_pred CCCCCcccccccChhHHHHHHHHHHHHHHHHHHH
Q 010242 132 PAYPCMNSSYNVSLSTLRVMTEQFQWGNRICEEI 165 (514)
Q Consensus 132 PayP~~NSt~nVs~STl~vI~~Ef~Ra~~Il~~i 165 (514)
|.....|....++......|+.+|+....++...
T Consensus 398 p~~~~~n~~~~~~~~~~~~i~~~~~~~~~~~~~~ 431 (596)
T KOG2277|consen 398 PFEVSHNADAGVTLKVLLLIQDEFQESRRVFKDV 431 (596)
T ss_pred ccccccCccccchHHHHHHHHHHHHHHHHHhhhh
Confidence 9999999999999999999999999999999874
No 9
>KOG2054 consensus Nucleolar RNA-associated protein (NRAP) [Function unknown]
Probab=97.06 E-value=0.0029 Score=73.66 Aligned_cols=169 Identities=17% Similarity=0.212 Sum_probs=117.9
Q ss_pred ChHHHHHHHHHHHHHHHHhccccccccccchHHHHHHHHHHH---hhCCCCChHHHHHHHHHhhccCCCCC-ceeccccc
Q 010242 30 NVEHFRMTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVC---QLYPNAIPSMLVSRFFRVYTQWRWPN-PVMLCPIE 105 (514)
Q Consensus 30 n~e~FR~aLR~IKlWAKrRGIYSNv~GyLGGIsWAILVArVC---QLyPnas~s~Ll~~FF~vyS~W~Wp~-PV~L~~i~ 105 (514)
....|+.++--.|.|++.| =-+-..|-+||+-|++|+|+.. .+.-+.+..+++..-+++++.|+|.. -+-+.+-.
T Consensus 306 ~~~~f~da~~Llk~WlrqR-s~~~~~~gfg~f~~s~lvv~L~s~~ki~~~~S~yqvfR~vl~flat~dlt~~~~~l~~~~ 384 (1121)
T KOG2054|consen 306 SAKGFKDALALLKVWLRQR-SLDIGQGGFGGFLLSALVVYLVSTRKIHTTLSAYQVFRSVLQFLATTDLTVNGISLVPSS 384 (1121)
T ss_pred hhhhHHHHHHHHHHHHHhh-hhhcccCcchHHHHHHHHHHHHhcCchhhcchHHHHHHHHHHHHhhhhhhccceEeccCC
Confidence 4589999999999999999 1122678899999999999987 35677788899999999999999986 45554421
Q ss_pred cccCCCcccCCCCCCCCCCCcceeecCCCCCcccccccChhHHHHHHHHHHHHHHHHHHHhhcccchhhhc-CCcchhhc
Q 010242 106 EDELGFSVWDPRKNPRDRSHHMPIITPAYPCMNSSYNVSLSTLRVMTEQFQWGNRICEEIELNKAQWSALF-EPYLFFEA 184 (514)
Q Consensus 106 ~~~lg~~vWdP~~~~rdr~hlMPIITPayP~~NSt~nVs~STl~vI~~Ef~Ra~~Il~~i~~~~~~W~~Lf-ep~~FF~~ 184 (514)
.++ |....-+ .+..|.+-=+--..|..-|++.|+.+.+++|..-+..++.+... ...+.+| ++.+.|..
T Consensus 385 -~s~------~~~~~f~-e~~~~~f~D~s~~~NLc~~mt~s~y~~~q~ea~ltl~lL~~~~~--~~F~~IFmtkip~~~~ 454 (1121)
T KOG2054|consen 385 -PSL------PALADFH-EGQLVTFIDSSGHLNLCANMTASTYEQVQEEARLTLMLLDSRAD--DGFSLIFMTKIPVFRA 454 (1121)
T ss_pred -CCc------hhhhhhh-hcceeeEeccCCcchhhhhccHHHHHHHHHHHHHHHHHHhhhhh--cCcceeeeecCCchhh
Confidence 000 0000000 11122222223348889999999999999999999999997643 3567666 68899999
Q ss_pred cccEEEEEEEeCChhhhhhhhhhhh
Q 010242 185 YKNYLQVDIVAADADDLLTWKGWVE 209 (514)
Q Consensus 185 Yk~YL~I~v~a~s~ed~~~W~GwVE 209 (514)
|.|=+.+..-..-+.....-.||.|
T Consensus 455 yDh~l~l~~~~~l~~~~~~~~~~~~ 479 (1121)
T KOG2054|consen 455 YDHVLHLSPLSRLQAAEHLLSGFCE 479 (1121)
T ss_pred hheeeeccccchhhhHHhhcccchh
Confidence 9998887765433333334444443
No 10
>KOG1906 consensus DNA polymerase sigma [Replication, recombination and repair]
Probab=96.50 E-value=0.014 Score=64.47 Aligned_cols=148 Identities=20% Similarity=0.254 Sum_probs=107.8
Q ss_pred hhhccchhhhHHHHHHhCCChHHHHHHHHHHHHHHHHhccccccccccchHHHHHHHHHHHhhCCCCC---------hHH
Q 010242 11 TVRSLNGCRVADQILKHVPNVEHFRMTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPNAI---------PSM 81 (514)
Q Consensus 11 svRSLNG~RVtd~ILrlVPn~e~FR~aLR~IKlWAKrRGIYSNv~GyLGGIsWAILVArVCQLyPnas---------~s~ 81 (514)
|.-..||||.+..|....-++..+|.++-.+|.|--.|++-....|-+++++.++||...-|++|.-. ...
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 44457999999999999999999999999999999999999999999999999999999999998641 356
Q ss_pred HHHHHHHhhc-cCCCCC-ceeccccccccCCCcccCC---CCCCCCCCCcceeecCCCCCcccccccChhHHHHHHHHHH
Q 010242 82 LVSRFFRVYT-QWRWPN-PVMLCPIEEDELGFSVWDP---RKNPRDRSHHMPIITPAYPCMNSSYNVSLSTLRVMTEQFQ 156 (514)
Q Consensus 82 Ll~~FF~vyS-~W~Wp~-PV~L~~i~~~~lg~~vWdP---~~~~rdr~hlMPIITPayP~~NSt~nVs~STl~vI~~Ef~ 156 (514)
|+.+||.+|. .++.-. -+.+....+. ..|.- ..+...+.-...|-.|.-|.-+.. -+.....-|+.+|.
T Consensus 260 ll~~f~e~yG~~f~~~k~~i~~~~~g~~----~~~~~~~~~~~~~~~~~~LsieDP~~P~ndig--r~s~~~~~v~~~F~ 333 (514)
T KOG1906|consen 260 LLIKFFELYGRNFGYDKLGISLSLGGEY----VSKELTGFFNNSLERPGSLSIEDPVDPTNDIG--RSSFNFSQVKGAFA 333 (514)
T ss_pred HHHHHHHHhccccCchhhceeccCCccc----ccHHhhhhhcccccCCCccccCCCCCcccccc--cccccHHHHHHHHH
Confidence 9999999999 343322 2322211110 00110 011123344578888988865554 23356678889998
Q ss_pred HHHHHHHH
Q 010242 157 WGNRICEE 164 (514)
Q Consensus 157 Ra~~Il~~ 164 (514)
.|..++..
T Consensus 334 ~af~~l~~ 341 (514)
T KOG1906|consen 334 YAFKVLTN 341 (514)
T ss_pred HHHHHHhh
Confidence 88877764
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=95.84 E-value=0.082 Score=62.56 Aligned_cols=155 Identities=24% Similarity=0.349 Sum_probs=106.5
Q ss_pred hhhHHHHHHhCCChHHHHHHHHHHHHHHHHhccccccccccchHHHHHHHHHHHh-hCCC---CChHHHHHHHHHhhccC
Q 010242 18 CRVADQILKHVPNVEHFRMTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQ-LYPN---AIPSMLVSRFFRVYTQW 93 (514)
Q Consensus 18 ~RVtd~ILrlVPn~e~FR~aLR~IKlWAKrRGIYSNv~GyLGGIsWAILVArVCQ-LyPn---as~s~Ll~~FF~vyS~W 93 (514)
.+-+..|..+--....|-.+.|-+|.|.-..-+ .|++.--..=+|||+|-. -+|- .++.+=..||.+..|.|
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 334444544444567899999999999999877 567788999999999984 3443 34455567777888999
Q ss_pred CCCC-ceecccccccc--------CCCcccCCCCCCCCCCCcceeecCCCCCccccc---ccChhHHHHHHHHHHHHHHH
Q 010242 94 RWPN-PVMLCPIEEDE--------LGFSVWDPRKNPRDRSHHMPIITPAYPCMNSSY---NVSLSTLRVMTEQFQWGNRI 161 (514)
Q Consensus 94 ~Wp~-PV~L~~i~~~~--------lg~~vWdP~~~~rdr~hlMPIITPayP~~NSt~---nVs~STl~vI~~Ef~Ra~~I 161 (514)
||.. |++++...+-+ ..|.-|.. .+|......|-|-||.-|.-. .. .-+..-++.|+.=-+.+.++
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-IDPAMNLPAMFIATPYDPEGS-LWTRNGPSKVVAKRLTALAKASLKL 822 (972)
T ss_pred CCCcCCEEEECCCCCCHHHHHHHHHHHHHhhc-cCccccCCcEEEEeCCCCCCC-EeECCCCCHHHHHHHHHHHHHHHHH
Confidence 9985 99887542110 12333433 345556678999999998543 33 35566666777666677777
Q ss_pred HHHHhhcccchhhhcCC
Q 010242 162 CEEIELNKAQWSALFEP 178 (514)
Q Consensus 162 l~~i~~~~~~W~~Lfep 178 (514)
++.-..+..+|..||.|
T Consensus 823 l~~~~~~~~~~~~lF~~ 839 (972)
T PF03813_consen 823 LEEQGLSDLDWKSLFRP 839 (972)
T ss_pred HHhcCCCCCCHHHhcCC
Confidence 77433346799999976
No 12
>PRK13300 tRNA CCA-pyrophosphorylase; Provisional
Probab=95.50 E-value=0.45 Score=52.12 Aligned_cols=174 Identities=17% Similarity=0.206 Sum_probs=105.5
Q ss_pred HHHHHHhCCChHHHHHHHHHHHHHHHHhccccc--cccccchHHHHHHHHHHHhhCCCCChHHHHHHHHHhhccCCCCCc
Q 010242 21 ADQILKHVPNVEHFRMTLRCLKFWAKRRGVYSN--VTGFLGGVNWALLVARVCQLYPNAIPSMLVSRFFRVYTQWRWPNP 98 (514)
Q Consensus 21 td~ILrlVPn~e~FR~aLR~IKlWAKrRGIYSN--v~GyLGGIsWAILVArVCQLyPnas~s~Ll~~FF~vyS~W~Wp~P 98 (514)
|.+|+...- +.|+.-.|-+|.|.|.-|||++ ..+-++|+.+-||+++. .+-..++..+ +.| .-|
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 445554432 3499999999999999999965 55668999999999993 2333444432 345 334
Q ss_pred eeccccccccCCCcccCCCCCCCCCCCcceeecCCCCCcccccccChhHHHHHHHHHHHHHHHHHHHhhcccchhhhcCC
Q 010242 99 VMLCPIEEDELGFSVWDPRKNPRDRSHHMPIITPAYPCMNSSYNVSLSTLRVMTEQFQWGNRICEEIELNKAQWSALFEP 178 (514)
Q Consensus 99 V~L~~i~~~~lg~~vWdP~~~~rdr~hlMPIITPayP~~NSt~nVs~STl~vI~~Ef~Ra~~Il~~i~~~~~~W~~Lfep 178 (514)
+.++....+. . ....+++.||.|.-|..|.|.++|...+..+...- .+.+.+ +=..+|.|
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 5554321110 0 13357899999999999999999998887666422 222222 23344544
Q ss_pred cc---------hhhccccEEEEEEEeCChhhhhhhhhhhhhHHHHHHHHhhhcCCCceee
Q 010242 179 YL---------FFEAYKNYLQVDIVAADADDLLTWKGWVESRFRQLTLKIERDTNGLLQC 229 (514)
Q Consensus 179 ~~---------FF~~Yk~YL~I~v~a~s~ed~~~W~GwVESRlR~Lv~~LE~~~~~~l~a 229 (514)
.+ +-.+=.+.+.|....++.-+=. .-|-++--.+.|...||+.....+..
T Consensus 266 ~~~~~~~~~~~l~~R~t~~~~v~f~~p~~v~Di-l~pQl~r~~~~i~~~L~~~gF~v~~~ 324 (447)
T PRK13300 266 SDLSPEEILEELERRGTTVLALEFPRPDIVEDI-LYPQLERSLRSIVKLLEREGFEVLRS 324 (447)
T ss_pred CCCChHHHHHHHhhcCceEEEEEeCCCCCCccc-hhHHHHHHHHHHHHHHHHCCCEEEEe
Confidence 44 1111224555555444332222 34666666677777788765555444
No 13
>TIGR03671 cca_archaeal CCA-adding enzyme.
Probab=95.42 E-value=0.59 Score=50.72 Aligned_cols=214 Identities=20% Similarity=0.193 Sum_probs=122.5
Q ss_pred HHHHHHhCCChHHHHHHHHHHHHHHHHhccccc--cccccchHHHHHHHHHHHhhCCCCChHHHHHHHHHhhccCCCCCc
Q 010242 21 ADQILKHVPNVEHFRMTLRCLKFWAKRRGVYSN--VTGFLGGVNWALLVARVCQLYPNAIPSMLVSRFFRVYTQWRWPNP 98 (514)
Q Consensus 21 td~ILrlVPn~e~FR~aLR~IKlWAKrRGIYSN--v~GyLGGIsWAILVArVCQLyPnas~s~Ll~~FF~vyS~W~Wp~P 98 (514)
+++|+...- +.|+.-.|-+|.|.|.-|+|++ +.+-++|+.+-||+++. .+-..++.. .+.| ..+
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 345554432 3499999999999999999965 55668999999999993 222334433 2344 446
Q ss_pred eeccccccccCCCcccCCCCCCCCCCCcceeecCCCCCcccccccChhHHHHHHHHHHHHHHHHHHHhhcccchhhhcCC
Q 010242 99 VMLCPIEEDELGFSVWDPRKNPRDRSHHMPIITPAYPCMNSSYNVSLSTLRVMTEQFQWGNRICEEIELNKAQWSALFEP 178 (514)
Q Consensus 99 V~L~~i~~~~lg~~vWdP~~~~rdr~hlMPIITPayP~~NSt~nVs~STl~vI~~Ef~Ra~~Il~~i~~~~~~W~~Lfep 178 (514)
+.++....+. ....+++.||.|.-|..|.|.++|...+..+...-+++. .+ +=..+|.|
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 123578999999999999999999998887775433322 21 22355544
Q ss_pred c-----c---hhhc-cccEEEEEEEeCChhhhhhhhhhhhhHHHHHHHHhhhcCCCceeecCCCCCCCCCCCCCCcceEE
Q 010242 179 Y-----L---FFEA-YKNYLQVDIVAADADDLLTWKGWVESRFRQLTLKIERDTNGLLQCHPYPNEYIDPSKPCPNSAFF 249 (514)
Q Consensus 179 ~-----~---FF~~-Yk~YL~I~v~a~s~ed~~~W~GwVESRlR~Lv~~LE~~~~~~l~ahp~P~~f~d~~~~~~~~~ff 249 (514)
. + -+.+ -.+.+.|....++.-+= ..-|-++--.+.|...||+.....+....|- +. -.|+.+
T Consensus 263 ~~~~~~~~~~~l~~r~t~~~~~~f~~p~~v~D-il~pQl~r~~~~i~~~L~~~gF~v~r~~~~~----~~----~~~~l~ 333 (408)
T TIGR03671 263 PEIEPEEFLERLERRGTTLLAIVFRTPDVVDD-ILYPQLERSGRSLVKLLEREGFEVLRYGVWA----DE----NTCYLL 333 (408)
T ss_pred CCCChHHHHHHHhhcCcEEEEEEeCCCCCCcc-chhHHHHHHHHHHHHHHHHCCCEEEEeeeec----CC----CeEEEE
Confidence 3 1 1122 22344444444332222 2346666666777777887655555444442 11 124444
Q ss_pred EeeeeccC--CCCCcccccccHHHHHHHHHH
Q 010242 250 MGLRRKEG--VTGKERQQFDIRGTVDNFREE 278 (514)
Q Consensus 250 IGL~~~~~--~~~~~~~~~DL~~~v~eF~~~ 278 (514)
+=|...+- .....|-++--+.-...|.+.
T Consensus 334 ~el~~~~lp~~~~h~GPpv~~~~~a~~F~~k 364 (408)
T TIGR03671 334 LELESAELPRVKLHVGPPVWVRDHAEKFIEK 364 (408)
T ss_pred EEeeccccCCceeeeCCCccchhHHHHHHHH
Confidence 44443221 111124445554667778764
No 14
>smart00572 DZF domain in DSRM or ZnF_C2H2 domain containing proteins.
Probab=94.57 E-value=0.25 Score=50.19 Aligned_cols=124 Identities=15% Similarity=0.123 Sum_probs=97.5
Q ss_pred hhhhhccchhhhHHHHHHhCCChHHHHHHHHHHHHHHHHhccccccccccchHHHHHHHHHHHhhCCC-CChHHHHHHHH
Q 010242 9 EQTVRSLNGCRVADQILKHVPNVEHFRMTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPN-AIPSMLVSRFF 87 (514)
Q Consensus 9 e~svRSLNG~RVtd~ILrlVPn~e~FR~aLR~IKlWAKrRGIYSNv~GyLGGIsWAILVArVCQLyPn-as~s~Ll~~FF 87 (514)
++|+.+|-..|-+.......-+...|+.+.|.+|-|++|--.++. |.+...-+|++++.--... .++..-+.+||
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 457778888999999998888889999999999999999766544 8888999999999863322 23678899999
Q ss_pred HhhccCCCCCceeccccccccCCCcccCCCCCCCCCCCcceeecCCCC-CcccccccChhHHHHHHHHHHHHHHHHH
Q 010242 88 RVYTQWRWPNPVMLCPIEEDELGFSVWDPRKNPRDRSHHMPIITPAYP-CMNSSYNVSLSTLRVMTEQFQWGNRICE 163 (514)
Q Consensus 88 ~vyS~W~Wp~PV~L~~i~~~~lg~~vWdP~~~~rdr~hlMPIITPayP-~~NSt~nVs~STl~vI~~Ef~Ra~~Il~ 163 (514)
++.|+=-- +. + ---|+.|+.+ ..|.+...|.-...-|...-+.+.+++.
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 99874111 10 0 0237788886 7888889999999999999888888876
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=92.56 E-value=0.31 Score=44.37 Aligned_cols=93 Identities=24% Similarity=0.348 Sum_probs=58.7
Q ss_pred HHHHHHHHHHhccccc--cccccchHHHHHHHHHHHhhCCCCChHHHHHHHHHhhccCCCCCceeccccccccCCCcccC
Q 010242 38 LRCLKFWAKRRGVYSN--VTGFLGGVNWALLVARVCQLYPNAIPSMLVSRFFRVYTQWRWPNPVMLCPIEEDELGFSVWD 115 (514)
Q Consensus 38 LR~IKlWAKrRGIYSN--v~GyLGGIsWAILVArVCQLyPnas~s~Ll~~FF~vyS~W~Wp~PV~L~~i~~~~lg~~vWd 115 (514)
.|-.|...|.-|||+. +.+-++|+.--+|+.+.=- ....-..-+ .|..|+.++....+..
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 5677889998899888632 122222233 6777888875422110
Q ss_pred CCCCCCCCCCcceeecCCCCCcccccccChhHHHHHH
Q 010242 116 PRKNPRDRSHHMPIITPAYPCMNSSYNVSLSTLRVMT 152 (514)
Q Consensus 116 P~~~~rdr~hlMPIITPayP~~NSt~nVs~STl~vI~ 152 (514)
.+...+++.||.|.-|..|.|.+||..++..+.
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 012357899999999999999999988876554
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=91.95 E-value=0.12 Score=40.17 Aligned_cols=56 Identities=20% Similarity=0.286 Sum_probs=34.9
Q ss_pred hHHHHHHHHHhhc-cCCCCCceeccccccc-cCCCcccCCCCCCCCCCCcceeecCCCCC
Q 010242 79 PSMLVSRFFRVYT-QWRWPNPVMLCPIEED-ELGFSVWDPRKNPRDRSHHMPIITPAYPC 136 (514)
Q Consensus 79 ~s~Ll~~FF~vyS-~W~Wp~PV~L~~i~~~-~lg~~vWdP~~~~rdr~hlMPIITPayP~ 136 (514)
.+.|+..||.+|+ .|+|.+-|+-...... ...-..|.. ....+...|.|..|.-|.
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 5789999999999 9999997665332100 001123431 112346789999998774
No 17
>COG1746 CCA1 tRNA nucleotidyltransferase (CCA-adding enzyme) [Translation, ribosomal structure and biogenesis]
Probab=67.74 E-value=63 Score=35.80 Aligned_cols=162 Identities=20% Similarity=0.178 Sum_probs=93.4
Q ss_pred HHHHHHHHHHHhccccc--cccccchHHHHHHHHHHHhhCCCCChHHHHHHHHHhhccCC-CCCceeccccccccCCCcc
Q 010242 37 TLRCLKFWAKRRGVYSN--VTGFLGGVNWALLVARVCQLYPNAIPSMLVSRFFRVYTQWR-WPNPVMLCPIEEDELGFSV 113 (514)
Q Consensus 37 aLR~IKlWAKrRGIYSN--v~GyLGGIsWAILVArVCQLyPnas~s~Ll~~FF~vyS~W~-Wp~PV~L~~i~~~~lg~~v 113 (514)
=.|-.|.+-|.=|+|++ +.+-++|+---||+.+.= .|=.+.-.-. |-.|++++...
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 46778889999999997 456778888888887752 1222222222 77778876421
Q ss_pred cCCCCCCCCCCCcceeecCCCCCcccccccChhHHHHHHHHHHHHHHHHHHHhhcccchhhhcCCc---c-----hhhcc
Q 010242 114 WDPRKNPRDRSHHMPIITPAYPCMNSSYNVSLSTLRVMTEQFQWGNRICEEIELNKAQWSALFEPY---L-----FFEAY 185 (514)
Q Consensus 114 WdP~~~~rdr~hlMPIITPayP~~NSt~nVs~STl~vI~~Ef~Ra~~Il~~i~~~~~~W~~Lfep~---~-----FF~~Y 185 (514)
|.... -.-.+|.|+.|.-|..|.|.+||.-.+..+.- |.+..- +.+=..+|.|. . ...+=
T Consensus 215 ~~~e~---f~d~PliVvDPVDP~RNVAAalSl~~la~f~~----aar~FL-----~~PS~efF~p~~~~~~~~~~~~~rg 282 (443)
T COG1746 215 HKRER---FEDEPLIVVDPVDPKRNVAAALSLENLARFVH----AAREFL-----KNPSPEFFFPRKPKPLLLSKLRRRG 282 (443)
T ss_pred hhhhc---cCCCCeEecCCCCCccchhhhcCHHHHHHHHH----HHHHHh-----cCCChhhcCCCCcCcccccchhhcC
Confidence 21111 11238999999999999999999888765542 222221 11223344331 1 11122
Q ss_pred ccEEEEEEEeCChhhhhhhhhhhhhHHHHHHHHhhhcCCCceeecCC
Q 010242 186 KNYLQVDIVAADADDLLTWKGWVESRFRQLTLKIERDTNGLLQCHPY 232 (514)
Q Consensus 186 k~YL~I~v~a~s~ed~~~W~GwVESRlR~Lv~~LE~~~~~~l~ahp~ 232 (514)
.+-+.|.+-..+.-+ ...-|-++---+.|...||.....++..+.|
T Consensus 283 t~v~~l~~~~pd~vd-DilypQl~r~~~~l~r~Le~~gF~vl~~~~~ 328 (443)
T COG1746 283 THVLALVFPKPDLVD-DILYPQLERTARSLFRALEEEGFRVLRSGVW 328 (443)
T ss_pred ceEEEEEeCCCCCCc-chhhHHHHHHHHHHHHHHHHcCCEEeeeeee
Confidence 233333333344322 2334777777778888888765555544333
No 18
>KOG2054 consensus Nucleolar RNA-associated protein (NRAP) [Function unknown]
Probab=56.66 E-value=67 Score=39.11 Aligned_cols=121 Identities=20% Similarity=0.284 Sum_probs=74.7
Q ss_pred hhhHHHHHHhCCChHHHHHHHHHHHHHHHHhccccccccccchHHHHHHHHHHHhh----CCCCChHHHHHHHHHhhccC
Q 010242 18 CRVADQILKHVPNVEHFRMTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQL----YPNAIPSMLVSRFFRVYTQW 93 (514)
Q Consensus 18 ~RVtd~ILrlVPn~e~FR~aLR~IKlWAKrRGIYSNv~GyLGGIsWAILVArVCQL----yPnas~s~Ll~~FF~vyS~W 93 (514)
.|.|-.|-.+--.+..|-.+.|--|.|-...=+-+ |.+ -=++-+|||.+-+- .|..++..=..||-+..|+|
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 34455555555557889999999999976552211 122 34567888887753 34556666678999999999
Q ss_pred CCCC-ceeccccccccCCCcccC------CCCCCCCCCCcceeecCCCCCcccccccChhH
Q 010242 94 RWPN-PVMLCPIEEDELGFSVWD------PRKNPRDRSHHMPIITPAYPCMNSSYNVSLST 147 (514)
Q Consensus 94 ~Wp~-PV~L~~i~~~~lg~~vWd------P~~~~rdr~hlMPIITPayP~~NSt~nVs~ST 147 (514)
+|.. |.+++-.. +++.=+ --...|.....|-|||| |=-.++.+.=+.++
T Consensus 881 dW~~~PLIvd~nn----~~~ed~~~e~~e~f~s~R~~lp~m~vit~-yD~~~~~~t~~~P~ 936 (1121)
T KOG2054|consen 881 DWKFDPLIVDFNN----GFPEDERSELEEKFISARKQLPPMVVITP-YDHLGSKFTRTSPN 936 (1121)
T ss_pred cccCCceEEEcCC----CCcHHHHHHHHHHHhhhcccCCceEEeec-cccccccccccCch
Confidence 9986 87775321 111100 00112334558999999 55566666555555
No 19
>PF15431 TMEM190: Transmembrane protein 190
Probab=55.81 E-value=7.5 Score=35.69 Aligned_cols=38 Identities=32% Similarity=0.570 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHHHHhcccccc--ccccchHHHHHHHHHH
Q 010242 33 HFRMTLRCLKFWAKRRGVYSNV--TGFLGGVNWALLVARV 70 (514)
Q Consensus 33 ~FR~aLR~IKlWAKrRGIYSNv--~GyLGGIsWAILVArV 70 (514)
.|...+-|+=-|||||++|.|. -|||.||--.=|--.|
T Consensus 72 l~Li~~iclFWWAkRrd~~k~lh~P~fL~~~~c~kls~~v 111 (134)
T PF15431_consen 72 LLLICSICLFWWAKRRDMCKHLHMPRFLSGFKCDKLSRTV 111 (134)
T ss_pred HHHHHHHHHHHHHHHhchHhhccCchhhccCccchhhchh
Confidence 4666778888999999999874 5899887544443333
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=32.97 E-value=18 Score=37.47 Aligned_cols=21 Identities=43% Similarity=0.732 Sum_probs=17.5
Q ss_pred eCChhhhhhhhhhhhhHHHHH
Q 010242 195 AADADDLLTWKGWVESRFRQL 215 (514)
Q Consensus 195 a~s~ed~~~W~GwVESRlR~L 215 (514)
-+|.-+...++||||||+-.+
T Consensus 95 DSn~~EGAVLKGWVESRFGL~ 115 (262)
T PF07357_consen 95 DSNSPEGAVLKGWVESRFGLL 115 (262)
T ss_pred CCCChhhhhhhhhhhhccCcC
Confidence 467788899999999998654
No 21
>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=21.24 E-value=52 Score=31.68 Aligned_cols=43 Identities=9% Similarity=0.268 Sum_probs=36.6
Q ss_pred ccccChhHHHHHHHHHHHHHHHHHHHhhcccchhhhcCCcchhhccccEE
Q 010242 140 SYNVSLSTLRVMTEQFQWGNRICEEIELNKAQWSALFEPYLFFEAYKNYL 189 (514)
Q Consensus 140 t~nVs~STl~vI~~Ef~Ra~~Il~~i~~~~~~W~~Lfep~~FF~~Yk~YL 189 (514)
+.++--++++.+..|+.||-.-++. |..++....=+.+|++-+
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 4788899999999999999888775 999998887778887654
Done!