Query 001806
Match_columns 1010
No_of_seqs 287 out of 559
Neff 4.5
Searched_HMMs 46136
Date Fri Mar 29 09:45:51 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001806.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/001806hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2044 5'-3' exonuclease HKE1 100.0 1E-225 2E-230 1914.2 52.2 696 1-756 111-810 (931)
2 COG5049 XRN1 5'-3' exonuclease 100.0 3E-183 7E-188 1544.8 42.6 682 1-713 92-818 (953)
3 KOG2045 5'-3' exonuclease XRN1 100.0 3E-151 6E-156 1300.7 31.9 549 1-609 94-655 (1493)
4 PF03159 XRN_N: XRN 5'-3' exon 100.0 1.2E-50 2.5E-55 429.4 10.9 145 1-145 93-237 (237)
5 KOG2044 5'-3' exonuclease HKE1 96.7 0.011 2.4E-07 72.3 12.0 85 675-762 704-790 (931)
6 cd00128 XPG Xeroderma pigmento 95.3 0.1 2.2E-06 58.4 10.5 93 80-246 141-233 (316)
7 PF00867 XPG_I: XPG I-region; 92.4 0.34 7.4E-06 45.3 6.3 90 81-236 5-94 (94)
8 PTZ00217 flap endonuclease-1; 91.7 0.41 9E-06 55.9 7.4 106 80-257 151-264 (393)
9 PRK03980 flap endonuclease-1; 91.5 2.7 5.8E-05 47.4 13.2 62 224-285 177-259 (292)
10 PF00098 zf-CCHC: Zinc knuckle 90.8 0.14 3E-06 34.9 1.4 17 152-168 1-17 (18)
11 PF13696 zf-CCHC_2: Zinc knuck 76.3 1.1 2.3E-05 35.2 0.5 18 152-169 9-26 (32)
12 TIGR00600 rad2 DNA excision re 66.6 8.9 0.00019 50.1 5.9 40 80-132 785-824 (1034)
13 KOG0921 Dosage compensation co 65.7 33 0.00071 44.4 10.1 13 740-752 1119-1131(1282)
14 smart00157 PRP Major prion pro 54.9 21 0.00045 38.4 5.1 29 869-901 10-38 (217)
15 cd00008 53EXOc 5'-3' exonuclea 54.5 54 0.0012 35.9 8.5 21 226-246 171-193 (240)
16 cd00080 HhH2_motif Helix-hairp 49.7 15 0.00033 33.4 2.9 22 224-245 8-31 (75)
17 smart00475 53EXOc 5'-3' exonuc 47.8 84 0.0018 35.1 8.8 25 217-245 169-195 (259)
18 KOG2518 5'-3' exonuclease [Rep 40.2 47 0.001 40.6 5.6 67 216-288 209-276 (556)
19 smart00343 ZnF_C2HC zinc finge 37.4 16 0.00035 26.5 0.9 16 153-168 1-16 (26)
20 PF15288 zf-CCHC_6: Zinc knuck 36.2 18 0.00039 29.9 1.0 15 152-166 2-16 (40)
21 smart00279 HhH2 Helix-hairpin- 35.0 29 0.00063 27.7 2.0 20 224-244 2-21 (36)
22 PRK14976 5'-3' exonuclease; Pr 30.4 2.1E+02 0.0046 32.4 8.5 26 216-245 173-200 (281)
23 PF13917 zf-CCHC_3: Zinc knuck 30.1 30 0.00065 28.8 1.4 19 151-169 4-22 (42)
24 PF14392 zf-CCHC_4: Zinc knuck 29.4 22 0.00047 29.9 0.5 19 150-168 30-48 (49)
25 KOG1999 RNA polymerase II tran 28.4 4.6E+02 0.0099 34.8 11.6 43 875-917 878-924 (1024)
26 smart00484 XPGI Xeroderma pigm 26.3 38 0.00082 31.0 1.5 35 90-133 10-44 (73)
27 COG5082 AIR1 Arginine methyltr 25.1 31 0.00068 37.1 0.8 18 151-168 60-77 (190)
28 COG5082 AIR1 Arginine methyltr 23.4 36 0.00078 36.6 0.9 47 114-168 68-114 (190)
29 COG1570 XseA Exonuclease VII, 23.3 3.8E+02 0.0082 32.6 9.2 81 20-109 108-192 (440)
30 KOG0119 Splicing factor 1/bran 22.3 62 0.0014 39.3 2.6 70 88-170 232-304 (554)
31 smart00292 BRCT breast cancer 21.6 1.4E+02 0.003 24.8 4.0 66 78-144 3-71 (80)
32 PRK05755 DNA polymerase I; Pro 20.6 3.1E+02 0.0068 35.7 8.5 21 226-246 175-197 (880)
No 1
>KOG2044 consensus 5'-3' exonuclease HKE1/RAT1 [Replication, recombination and repair; RNA processing and modification]
Probab=100.00 E-value=1e-225 Score=1914.18 Aligned_cols=696 Identities=55% Similarity=0.916 Sum_probs=612.5
Q ss_pred CccchhhhhhhHHHHHHHHHHHHHHHHHHHHcCCCCCCCCCCCccccccccCCcHHHHHHHHHHHHHHHHHhcCCCCCce
Q 001806 1 MNQQRSRRFRASKDAADSAAEEERLRQEFEREGRKLPPKSDSQVFDSNVITPGTEFMAVLSIALQYYIHLRLNNDPGWEK 80 (1010)
Q Consensus 1 MNQQRSRRFRSAkea~~~~~~~e~lr~e~~~~G~~lp~~~~~~~FDSN~ITPGT~FM~~Ls~~L~yyI~~Kl~~Dp~W~~ 80 (1010)
|||||||||||||||+++++|+|++++|++++|+.||+++++++||||||||||+||++|+.+|+|||+.|||+||+|+|
T Consensus 111 MNQQRsRRFRaaKeaae~~~e~e~~ree~~~~G~~lpp~~~~e~fDSNcITPGTpFM~~La~aLrYyI~~rLn~DPgWkN 190 (931)
T KOG2044|consen 111 MNQQRSRRFRAAKEAAEKEAEIERLREEFEAEGKFLPPKVKKETFDSNCITPGTPFMDRLAKALRYYIHDRLNSDPGWKN 190 (931)
T ss_pred hhHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcCCcCCchhhccccccCccCCCChHHHHHHHHHHHHHHHhhcCCccccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eEEEEcCCCCCCChhHHHHHHHHhhccCCCCCCCCcEEEEccChhHHHHHhhcCCceEEEeeeccccCCCCccccccCCC
Q 001806 81 IKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLALATHEVHFSILREVVFTPGQQDKCFLCGQP 160 (1010)
Q Consensus 81 lkVIlSds~VPGEGEHKImdfIR~qr~~p~ydPNtrHcIYGlDADLImLgLaTHEp~f~ILREeVf~p~~~~~C~lCgQ~ 160 (1010)
|+||||||+||||||||||+|||+||++|+|||||+|||||+||||||||||||||||+||||+|| |+++++|++|||+
T Consensus 191 ikvIlSDAnVPGEGEHKIM~yIR~QR~~P~~dPNT~HclyGlDADLImLgLATHE~hF~IlRE~~~-P~~~~~C~~cgq~ 269 (931)
T KOG2044|consen 191 IKVILSDANVPGEGEHKIMSYIRSQRAQPGYDPNTHHCLYGLDADLIMLGLATHEPHFSILREEFF-PNKPRRCFLCGQT 269 (931)
T ss_pred eEEEEecCCCCCcchhHHHHHHHHccCCCCCCCCceeeeecCCccceeeeccccCCceEEeeeeec-CCCcccchhhccc
Confidence 999999999999999999999999999999999999999999999999999999999999999977 9999999999999
Q ss_pred CCcccccccccccccCCCCcCCCccccCCCCceeeeHHHHHHHHHHHhcCCCCCCccchhhhhhHHHHhhhhcccCCCCC
Q 001806 161 GHLAANCEGKAKRKAGEFDEKGDEVVVPKKPYQFLHIWTLREYLDYEFRIPNPPFEIDLECIVDDFIFMCFFVGNDFLPH 240 (1010)
Q Consensus 161 gH~~~~c~g~~k~k~ge~~e~~~~~~~~~k~f~~l~I~vLREYL~~Ef~~~~~pF~~DlERiIDDfVfLcffvGNDFLPh 240 (1010)
||.+++|.|+.+ .++.++..+.. ..+++|+||+||||||||+.||.+|++||+||+||+||||||||||||||||||
T Consensus 270 gh~~~dc~g~~~--~~~~~~~~~~~-~~ek~fifl~I~vLREYLe~El~~p~lPf~fd~ER~iDDwVF~CFFvGNDFLPH 346 (931)
T KOG2044|consen 270 GHEAKDCEGKPR--LGETNELADVP-GVEKPFIFLNISVLREYLERELRMPNLPFTFDLERAIDDWVFLCFFVGNDFLPH 346 (931)
T ss_pred CCcHhhcCCcCC--cccccccccCc-ccccceEEEEHHHHHHHHHHHhcCCCCCccccHHhhhcceEEEEeeecCccCCC
Confidence 999999999865 66777776655 789999999999999999999999999999999999999999999999999999
Q ss_pred CCccccccChHHHHHHHHHHHHhhcCCcccCCCcccHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 001806 241 MPTLEIREGAINLLMAVYKKEFRALGGYLTDGSKPSLRRVEHFIQAVGSYEDRIFQKRARLHQRHAERIKREKAQARRGD 320 (1010)
Q Consensus 241 LPsL~IrEGaID~Li~iYk~~Lp~~ggYLT~~G~INL~rlq~fl~~L~~~Ed~IF~kR~~~e~r~~e~~kr~k~~~~~~~ 320 (1010)
||||+|||||||+||++||++|++|+||||++|.|||+||+.||++||.+||+||++| +|++|+++|+|+.+++.+
T Consensus 347 lPsLeIRegAId~L~~iyk~~~~~~kgYLT~~g~vNL~rve~~~~avg~~Ed~IFkkR----~r~~e~frrrk~~rk~~~ 422 (931)
T KOG2044|consen 347 LPSLEIREGAIDRLMEIYKKSFPKMKGYLTDSGKVNLDRVEMFMQAVGSVEDDIFKKR----QRREERFRRRKAARKRQD 422 (931)
T ss_pred CCchhhhhcHHHHHHHHHHHHHHhhcceeccCCcccHHHHHHHHHHHhhhcchHHHHh----HhHHHHHHHhhhhhhhhh
Confidence 9999999999999999999999999999999999999999999999999999999999 455666666655443332
Q ss_pred CCCCCCCCCCccccccccCCCCCCCCCCCCCcccccccccCCCCCCCCCCCCccccCCCcchhhHHHhhhcCCCCCcccc
Q 001806 321 DVEPLAQPDSLVPVSRFHGSRLASGPSPSPYQQSECVGRLDNGKGTSGRPHKVPRLSSGATIGAAIVEAENSFETDPQEN 400 (1010)
Q Consensus 321 ~~~~~~~~~~~~p~~~f~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~s~~~~~~aa~~~~e~~l~~~~~~~ 400 (1010)
... +++| .+.+....... . .+...+++.+++..++.++++++ .++
T Consensus 423 ~~~------------~~sg-~~~~~~~~~~~---------~----~~~p~~~~~~~~~~~~~~~~~~~---------~~~ 467 (931)
T KOG2044|consen 423 RNA------------QDSG-TNFSLAGSREL---------E----ASEPAQKALKVSLEKNESAANVE---------RDN 467 (931)
T ss_pred hhc------------cccc-ccccccccccc---------c----ccchhhhhhhhccccccchhhhc---------ccc
Confidence 211 1122 11111110000 0 12233455666666677777663 345
Q ss_pred HHHHHHHHHHHHhhhcccCCCCCcchhhhccCCcchHHHHHHHhcCCCChhHHHHHHHHHHHHHHHHHHHHHHhhhcCcc
Q 001806 401 KEEFKAKLKELLRDKSDAFNSDNPEEDKVKLGEPGWKERYYEEKFNAKTPEEREETRKDVVLRYTEGLCWVMHYYYEGVC 480 (1010)
Q Consensus 401 ~ee~k~~~k~~l~~k~d~~~~~~~~eD~VkL~e~gwK~rYY~~KF~v~~~edi~~~r~~Vv~~YvEGL~WVL~YYYqGcp 480 (1010)
+++++.+++..++++++.++++...+|+|||||+|||+|||++||++++.+ ++||++||.+|||||||||+|||||||
T Consensus 468 ~e~~~~~~~~~~~~k~~~~~~~~~~~D~VkL~e~G~keRYY~~KF~v~~~e--eq~R~~vv~~YveGLcWVl~YYyqGc~ 545 (931)
T KOG2044|consen 468 TEDLKTKLKHGQRRKSEDSESEEENTDKVKLYEPGWKERYYEEKFDVTPDE--EQIRKDVVLKYVEGLCWVLRYYYQGCA 545 (931)
T ss_pred hhhccccccccccccCccccCCCCCCcceeecCCchhhhhhhhhcCCCCHH--HHHHHHHHHHHhcchhhhhhhhhcccc
Confidence 667888788888888888888889999999999999999999999998765 799999999999999999999999999
Q ss_pred cccccccCCCCcccccccccccccccccCCCCCChhhhhhhcCCccccCCCcHHHHhhhcCCCCCCcccCCCcccccCCC
Q 001806 481 SWQWFYPYHYAPFASDLKDLDQFNISFELGHPFKPFNQLLGVFPSASSHALPEHYRKLMTDPNSPISDFYPTDFEVDMNG 560 (1010)
Q Consensus 481 SW~WYYPYHYAPFaSDf~~l~~~~i~Fe~G~Pf~PfEQLMsVLPaaS~~~LP~~~r~LMtdp~SpIiDFYP~dF~ID~NG 560 (1010)
||+||||||||||||||++|..++|+|++|+||+||||||+||||||+++||+.|++||+||+||||||||+||+|||||
T Consensus 546 SW~WyYPYHYAPfAsDf~~l~~ldikFe~g~PFkP~eQLmgVlPAAS~~~LPe~~r~LMsdpdSpIiDFYPedF~iDmNG 625 (931)
T KOG2044|consen 546 SWNWYYPYHYAPFASDFKGLSDLDIKFELGKPFKPLEQLMGVLPAASSHALPEEWRKLMSDPDSPIIDFYPEDFEIDMNG 625 (931)
T ss_pred ccccccccccchhhhhhhcccccccccccCCCCCcHHHHhhhcchhhcCCCcHHHHhhhcCCCCcccccccccceeeccC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CccceeeeeeccCCChHHHHHHHHhhhcCCCHHHHhhccCCCcEEEEecCCCchhhhhhhhHHhhhhhhhhhhhhhhccC
Q 001806 561 KRYSWQGIAKLPFIDEARLLDEVKKIEHTLTEEEARRNSIMADMLFVLLSHPLSASIYTLDEHCKQLKIKERVEVKERLN 640 (1010)
Q Consensus 561 Kk~~WqGVaLLPFIDe~rLl~a~~~~~~~LT~eEk~RN~~g~d~Lfv~~~~~l~~~i~~l~~~~~~l~~~~~~~~~~~i~ 640 (1010)
|||+||||||||||||+|||+|++++|++||+||++||+.|.|+|||+.+||++++|.+||.++++ ...++. .+-
T Consensus 626 Kk~aWQGIalLPFiDe~rLl~a~~~~y~~Lt~EE~~RN~rg~d~Lfi~~~hp~~e~i~~lysk~k~-~~~~~v----~~~ 700 (931)
T KOG2044|consen 626 KKYAWQGIALLPFIDERRLLSAVAKVYPTLTDEEKRRNSRGPDLLFISDKHPLFEFILQLYSKKKK-SNEKNV----KLA 700 (931)
T ss_pred ceeeccccccccccchhhHHHHHHhhccccCHHHHhccccCCceEEecCCCchHHHHHHHHHhhcc-Cccccc----ccc
Confidence 999999999999999999999999999999999999999999999999999999999999887765 222212 344
Q ss_pred cCcCCCccccccCCCCCCCCCcccCCCCCCcCccCCeeEEEEeeCCCCCC---CCcCCCCCCCcCCCCCCcccCCCCCcc
Q 001806 641 PELSDGMNGYISPCAGDPHPPVFRSPVASMEDIMGNQVLCAIYKLPDAHK---HVTRPPAGVIFPKKIVQLEDLKPAPVL 717 (1010)
Q Consensus 641 ~~~s~Gl~G~i~~~~~~~~~~~~~sPi~~l~dI~~n~~i~~~y~~P~~~~---h~s~ll~g~~~p~~~l~~~d~~~~~~l 717 (1010)
..++.|++|.++++.......+++||+..+-++..+..++++|..|..+. -.++.|+|++.|+++|+ |-|
T Consensus 701 ~~~~p~~~~~~~~~~~~~~~~i~~~p~~~~~~~~~~~~v~~~~~~~~~~ed~~~~a~~l~G~~~p~~~lk-------P~d 773 (931)
T KOG2044|consen 701 HGVDPGLNGAISKDPEGLESGISKSPPGGLSDYNTNTGVCLKYVDPEYPEDYIFPAIRLDGAKEPEKVLK-------PDD 773 (931)
T ss_pred cccCcccceeeccCccccccccccCChhhcccCCccceeeecccCccccccccchhhhcCCCCCCccccC-------cch
Confidence 45667999999998766556778899999999999999999999998743 25678888888888887 446
Q ss_pred ccCCCCCCCCCCC-CCCCCCCCcccccchhHHHHHHhhhc
Q 001806 718 WHEDSGRRPHENG-RHNPHGTISGRQLGEAAHRLVANSLQ 756 (1010)
Q Consensus 718 w~~~~~~~~~~~~-~~~~~~~~~~~~l~~a~~r~v~~~l~ 756 (1010)
|...++ ..+.++ +|+.. ..+..+.+++||.|.+.+.
T Consensus 774 wn~sR~-~~~~~~~~~~~~--~~~~~~~~~~~~~v~~~~~ 810 (931)
T KOG2044|consen 774 WNDRRD-GRYQPQAGFNRN--APRGSLPQSGHRQVHHYVR 810 (931)
T ss_pred hhhhhh-hhcCcccccccC--CCCCcCCcccccccCcCCC
Confidence 765433 224444 66666 4578999999997777766
No 2
>COG5049 XRN1 5'-3' exonuclease [DNA replication, recombination, and repair / Cell division and chromosome partitioning / Translation]
Probab=100.00 E-value=3.2e-183 Score=1544.85 Aligned_cols=682 Identities=41% Similarity=0.723 Sum_probs=527.9
Q ss_pred CccchhhhhhhHHHHHHHHHHHHHHHHHHHH----cCCCCCCC-CCCCccccccccCCcHHHHHHHHHHHHHHHHHhcCC
Q 001806 1 MNQQRSRRFRASKDAADSAAEEERLRQEFER----EGRKLPPK-SDSQVFDSNVITPGTEFMAVLSIALQYYIHLRLNND 75 (1010)
Q Consensus 1 MNQQRSRRFRSAkea~~~~~~~e~lr~e~~~----~G~~lp~~-~~~~~FDSN~ITPGT~FM~~Ls~~L~yyI~~Kl~~D 75 (1010)
||||||||||||+||..++.+.++-.+++.+ .|..+... .+++.||||||||||+||++|+++|+|||+.||++|
T Consensus 92 MNQQRaRRFRsAkda~~A~~Kae~~~e~~~e~~~e~g~~id~~~~~kk~fDSNcITPGTpFMerLak~L~Y~i~~KlssD 171 (953)
T COG5049 92 MNQQRARRFRSAKDASAAALKAEPNGEEIPEEKDEIGNEIDTIDVEKKKFDSNCITPGTPFMERLAKVLRYYIHCKLSSD 171 (953)
T ss_pred hhHHHHHhhhhhhhhHHHHhhccccccccchhccccCCccchhhhhhccccccCCCCCChHHHHHHHHHHHHHHhhhcCC
Confidence 9999999999999987766555433333332 23333321 346889999999999999999999999999999999
Q ss_pred CCCceeEEEEcCCCCCCChhHHHHHHHHhhccCCCCCCCCcEEEEccChhHHHHHhhcCCceEEEeeeccccCCC---Cc
Q 001806 76 PGWEKIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLALATHEVHFSILREVVFTPGQ---QD 152 (1010)
Q Consensus 76 p~W~~lkVIlSds~VPGEGEHKImdfIR~qr~~p~ydPNtrHcIYGlDADLImLgLaTHEp~f~ILREeVf~p~~---~~ 152 (1010)
|.|++|+|||||+.||||||||||+|||+||++|+|||||+|||||||||||||||+||+|||.||||+||++.. ++
T Consensus 172 p~Wrnl~iI~S~~~vPGEGEHKIM~FIRsqkaqp~ynpNT~HciYGLDADLImLGLstH~PHF~iLREdVff~~~~~~k~ 251 (953)
T COG5049 172 PEWRNLRIIFSGHLVPGEGEHKIMNFIRSQKAQPSYNPNTRHCIYGLDADLIMLGLSTHEPHFLILREDVFFGSKSRRKR 251 (953)
T ss_pred ccceeEEEEEecCcCCCccHHHHHHHHHhcccCCCcCCCceeEEeccCccceeeecccCCCeeEEeechhccCccccccc
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999853 46
Q ss_pred cccccCCCCCcccccccccccccCCCCcCCCccccCCCCceeeeHHHHHHHHHHHhcCCCCCCccchhhhhhHHHHhhhh
Q 001806 153 KCFLCGQPGHLAANCEGKAKRKAGEFDEKGDEVVVPKKPYQFLHIWTLREYLDYEFRIPNPPFEIDLECIVDDFIFMCFF 232 (1010)
Q Consensus 153 ~C~lCgQ~gH~~~~c~g~~k~k~ge~~e~~~~~~~~~k~f~~l~I~vLREYL~~Ef~~~~~pF~~DlERiIDDfVfLcff 232 (1010)
+|..||.+||....|. ....++|.||||++|||||+.||..+++||.||+|||||||||||||
T Consensus 252 k~~~~g~t~~~~e~~k-----------------~~~~q~F~~LhiSlLREYLe~Ef~~~~~~ftfdlERilDDwIf~~Ff 314 (953)
T COG5049 252 KCTKCGRTGHSDEECK-----------------VLTHQPFYLLHISLLREYLEREFREPTLPFTFDLERILDDWIFLCFF 314 (953)
T ss_pred ccccccccccchhhhc-----------------ccccCceEEEEHHHHHHHHHHHhhccCCCccccHHHhhhhheeeeee
Confidence 8999999999887773 23467999999999999999999999999999999999999999999
Q ss_pred cccCCCCCCCccccccChHHHHHHHHHHHHhhcCCcccCCCcccHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHH
Q 001806 233 VGNDFLPHMPTLEIREGAINLLMAVYKKEFRALGGYLTDGSKPSLRRVEHFIQAVGSYEDRIFQKRARLHQRHAERIKRE 312 (1010)
Q Consensus 233 vGNDFLPhLPsL~IrEGaID~Li~iYk~~Lp~~ggYLT~~G~INL~rlq~fl~~L~~~Ed~IF~kR~~~e~r~~e~~kr~ 312 (1010)
||||||||||+|+||+|||++|++|||+.||.|+||||++|.|||.||+.||..|+.+|++||+++..+++|..+...|.
T Consensus 315 vGNDFLPhLP~Ldir~gai~~l~ei~k~~lp~~~gYit~~G~iNl~rle~~L~~L~~~E~~iFk~~~~qe~r~ne~~~~~ 394 (953)
T COG5049 315 VGNDFLPHLPCLDIREGAIETLTEIWKKSLPHMKGYITCDGVINLARLEVILAILGSFEDDIFKKDHIQEERKNESLERF 394 (953)
T ss_pred eccccCCCCCccccccchHHHHHHHHHHHhhhcCceeecCceecHHHHHHHHHHHhhhhcchhhhhhhHhhhhccchhhH
Confidence 99999999999999999999999999999999999999999999999999999999999999999998888887776666
Q ss_pred HHHHhc--CCCCCCCCCCCC------ccc--cccccCCCCCCCCCCCCCcccccccccCCCCCCCCCCCCc--cccCC--
Q 001806 313 KAQARR--GDDVEPLAQPDS------LVP--VSRFHGSRLASGPSPSPYQQSECVGRLDNGKGTSGRPHKV--PRLSS-- 378 (1010)
Q Consensus 313 k~~~~~--~~~~~~~~~~~~------~~p--~~~f~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~--~~~s~-- 378 (1010)
+.++.+ +.+..+.+..+. +.+ +-.+...+....+. .++. +.+...+..+...+.. -++++
T Consensus 395 ~~~k~~~e~~~~~~~vv~eq~~~~gS~k~t~~d~~~~kk~~~l~~-e~~i-----d~~a~~k~~d~kn~el~~~~~~ndl 468 (953)
T COG5049 395 SLRKERKEGLKGMPRVVYEQKKLIGSIKPTLMDQLQEKKSPDLPD-EEFI-----DTLALPKDLDMKNHELFLKRFANDL 468 (953)
T ss_pred HHHhhhhhhhcccchhhhhhhhhcccccchhhhhhhhhccccCCC-cccc-----chhhchhhhhhhhhHHHHHHHHhhh
Confidence 544322 111111111000 000 00000000000000 0000 0000000000000000 00000
Q ss_pred CcchhhHHHh-h----hcCC-CCCccccHHHHHH---HHHHHHhhhcc--c-CCCCCcchhhhccCCcchHHHHHHHhcC
Q 001806 379 GATIGAAIVE-A----ENSF-ETDPQENKEEFKA---KLKELLRDKSD--A-FNSDNPEEDKVKLGEPGWKERYYEEKFN 446 (1010)
Q Consensus 379 ~~~~~aa~~~-~----e~~l-~~~~~~~~ee~k~---~~k~~l~~k~d--~-~~~~~~~eD~VkL~e~gwK~rYY~~KF~ 446 (1010)
+..++.++.. . +... .....+++++... .+.++.++... + .+.++..+|+|+|.++|||+|||.+||+
T Consensus 469 ~ls~ska~ks~~n~~le~~iasds~~ed~ee~ese~d~i~~i~dk~vn~~v~ee~e~~~~~Tv~l~~~g~~erYY~~K~~ 548 (953)
T COG5049 469 GLSISKAIKSKGNYSLEMDIASDSPDEDEEEFESEVDSIRKIPDKYVNIIVEEEEENETEKTVNLRFPGWKERYYTSKLH 548 (953)
T ss_pred hhhHHhhhhccCCchhhhhhhccccccchhhhhhccchhhhhhhhhhccccccchhcccccchhhcccchhhhhhhhhcC
Confidence 0000111000 0 0000 0000111111110 01111111111 1 1223455789999999999999999999
Q ss_pred CCChhHHHHHHHHHHHHHHHHHHHHHHhhhcCcccccccccCCCCcccccccccccccccccCCCCCChhhhhhhcCCcc
Q 001806 447 AKTPEEREETRKDVVLRYTEGLCWVMHYYYEGVCSWQWFYPYHYAPFASDLKDLDQFNISFELGHPFKPFNQLLGVFPSA 526 (1010)
Q Consensus 447 v~~~edi~~~r~~Vv~~YvEGL~WVL~YYYqGcpSW~WYYPYHYAPFaSDf~~l~~~~i~Fe~G~Pf~PfEQLMsVLPaa 526 (1010)
+++ ++.|++| ++|++|||||||||.|||+|||||+|||||||||+|+||.++...+|+|++|+||+||||||+||||+
T Consensus 549 ~t~-~~~E~ir-dm~k~YVeGL~WVL~YYY~GC~SW~WyYpyHyAP~aaD~~k~~~~dIkFe~g~PF~P~EQLm~VLPa~ 626 (953)
T COG5049 549 FTT-DSEEKIR-DMAKEYVEGLQWVLSYYYRGCPSWDWYYPYHYAPLAADLSKLSDNDIKFELGTPFRPFEQLMAVLPAR 626 (953)
T ss_pred CCc-CCHHHHH-HHHHHHhhhhhhhhhhhhcCCCCcccccccccchhhhhhhhcccceeeecCCCCCCcHHHHHhhcchh
Confidence 964 5567776 89999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCcHHHHhhhcCCCCCCcccCCCcccccCCCCccceeeeeeccCCChHHHHHHHHhhhcCCCHHHHhhccCCCcEEE
Q 001806 527 SSHALPEHYRKLMTDPNSPISDFYPTDFEVDMNGKRYSWQGIAKLPFIDEARLLDEVKKIEHTLTEEEARRNSIMADMLF 606 (1010)
Q Consensus 527 S~~~LP~~~r~LMtdp~SpIiDFYP~dF~ID~NGKk~~WqGVaLLPFIDe~rLl~a~~~~~~~LT~eEk~RN~~g~d~Lf 606 (1010)
|+++||++||+||+|++||||||||++|.||||||+++||||||||||||+|||+||++.+++||+||+.||.+|.++||
T Consensus 627 Sk~~vP~~fr~LM~d~~S~IiDFYPe~f~lD~NGK~~~Wq~VvLlpFiDe~RLl~A~~~~~~~Ls~eE~~RN~~g~~llf 706 (953)
T COG5049 627 SKNLVPEGFRPLMDDEKSPIIDFYPEEFKLDMNGKTASWQAVVLLPFIDERRLLSAVAVKYPTLSEEERKRNLRGLDLLF 706 (953)
T ss_pred hcCcCchhhhhhhcCCCCcccccchhhcccccCCceeeeeeeEEeeecchhHHHHHHHhhcccCCHHHHhccccCCceeE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EecCCCchhhhhhhhHHhhhhhhhhhhhhhhccCcCcCC-CccccccCC-CCCCCCCcccCCCC--CCc------CccCC
Q 001806 607 VLLSHPLSASIYTLDEHCKQLKIKERVEVKERLNPELSD-GMNGYISPC-AGDPHPPVFRSPVA--SME------DIMGN 676 (1010)
Q Consensus 607 v~~~~~l~~~i~~l~~~~~~l~~~~~~~~~~~i~~~~s~-Gl~G~i~~~-~~~~~~~~~~sPi~--~l~------dI~~n 676 (1010)
+++.++-+ ...++.+++++.......++...+. |+.|.|.+. ++..+...+.+|+. .++ .+..|
T Consensus 707 ~s~~~~~~------~~l~~~lysk~~~~~~~~m~~~~~~~GL~g~v~~~ae~~~pn~~~lcp~~~~s~~~l~~~~~~~~n 780 (953)
T COG5049 707 SSNKKSDL------SELFKDLYSKCKQKEYITMCSKESPYGLFGTVKLGAEGLAPNLLSLCPISFLSYPGLMVFLEYSKN 780 (953)
T ss_pred eccCCccH------HHHHHHHHHhhccCCceeeeccccccccccccccccccccccccccCccccccccchhhhcccccC
Confidence 99988742 2334445554443333445555444 999999886 44455556667874 222 36678
Q ss_pred eeEEEEeeCCCC-CCCCcCCCCCCCcCCCCCCcccCCC
Q 001806 677 QVLCAIYKLPDA-HKHVTRPPAGVIFPKKIVQLEDLKP 713 (1010)
Q Consensus 677 ~~i~~~y~~P~~-~~h~s~ll~g~~~p~~~l~~~d~~~ 713 (1010)
+++.+.+++|.. ..|++++++||+.|-.+|++-+++.
T Consensus 781 ~S~~lv~~~pks~~~~ksi~~rg~~~~~~vl~py~~es 818 (953)
T COG5049 781 QSARLVIEDPKSTVTNKSIVLRGFIKPINVLWPYLRES 818 (953)
T ss_pred CceEEEeeccccccchHHHHHHhcCCccccCCHHHHHH
Confidence 999999999986 4789999999999999999877763
No 3
>KOG2045 consensus 5'-3' exonuclease XRN1/KEM1/SEP1 involved in DNA strand exchange and mRNA turnover [Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=2.7e-151 Score=1300.74 Aligned_cols=549 Identities=42% Similarity=0.729 Sum_probs=420.7
Q ss_pred CccchhhhhhhHHHHHHHHHHHHHHHHHHHHcCCCCCCCCCCCccccccccCCcHHHHHHHHHHHHHHHHHhcCCCCCce
Q 001806 1 MNQQRSRRFRASKDAADSAAEEERLRQEFEREGRKLPPKSDSQVFDSNVITPGTEFMAVLSIALQYYIHLRLNNDPGWEK 80 (1010)
Q Consensus 1 MNQQRSRRFRSAkea~~~~~~~e~lr~e~~~~G~~lp~~~~~~~FDSN~ITPGT~FM~~Ls~~L~yyI~~Kl~~Dp~W~~ 80 (1010)
||||||||||+|+||+.+.++ .+..|+..|. +.||||||||||+||.+|++.|+|||+.|++||+.|++
T Consensus 94 MNQQRsRRFrTArdAe~qlaK-------A~enGe~~p~----erFDSNcITPGTeFM~rl~~~L~yfIktKistDs~Wq~ 162 (1493)
T KOG2045|consen 94 MNQQRSRRFRTARDAEQQLAK-------AAENGELRPH----ERFDSNCITPGTEFMVRLQEGLRYFIKTKISTDSLWQR 162 (1493)
T ss_pred hhHHHHHhhhhhhhHHHHHHH-------HHhccccCcc----cccccCCCCCcHHHHHHHHHHHHHHHHhccccchhhcc
Confidence 999999999999999876432 4557877663 68999999999999999999999999999999999999
Q ss_pred eEEEEcCCCCCCChhHHHHHHHHhhccCCCCCCCCcEEEEccChhHHHHHhhcCCceEEEeeeccccCCCCccccccCCC
Q 001806 81 IKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLALATHEVHFSILREVVFTPGQQDKCFLCGQP 160 (1010)
Q Consensus 81 lkVIlSds~VPGEGEHKImdfIR~qr~~p~ydPNtrHcIYGlDADLImLgLaTHEp~f~ILREeVf~p~~~~~C~lCgQ~ 160 (1010)
++|||||++||||||||||||||.++++|+|||||||||||||||||||||+||||||++|||+|.|..+.
T Consensus 163 ~~vIlSGhevPGEGEHKIMdyIRt~kaq~dydpNTRHClYGLDADLImLGL~tHepHF~lLREEVtFgrrn--------- 233 (1493)
T KOG2045|consen 163 CTVILSGHEVPGEGEHKIMDYIRTMKAQPDYDPNTRHCLYGLDADLIMLGLCTHEPHFVLLREEVTFGRRN--------- 233 (1493)
T ss_pred cEEEEeCCcCCCcchHHHHHHHHHhhcCCCCCCCcceeecccchhhheeeeccCCcceeeeeeeeeccccc---------
Confidence 99999999999999999999999999999999999999999999999999999999999999999874211
Q ss_pred CCcccccccccccccCCCCcCCCccccCCCCceeeeHHHHHHHHHHHhcCC--CCCCccchhhhhhHHHHhhhhcccCCC
Q 001806 161 GHLAANCEGKAKRKAGEFDEKGDEVVVPKKPYQFLHIWTLREYLDYEFRIP--NPPFEIDLECIVDDFIFMCFFVGNDFL 238 (1010)
Q Consensus 161 gH~~~~c~g~~k~k~ge~~e~~~~~~~~~k~f~~l~I~vLREYL~~Ef~~~--~~pF~~DlERiIDDfVfLcffvGNDFL 238 (1010)
++| ....+.|.+|||++|||||+.||..- ..+|++|+||||||||+|.||||||||
T Consensus 234 -----------~~k-----------~lehqkFyLLHLsLLREYlelEF~e~rdt~~fkyd~erIlDD~ILl~flVGNDFL 291 (1493)
T KOG2045|consen 234 -----------KRK-----------SLEHQKFYLLHLSLLREYLELEFDELRDTDEFKYDIERILDDWILLGFLVGNDFL 291 (1493)
T ss_pred -----------ccc-----------hhhhhhhhhhHHHHHHHHHHHHHHHhhhccchhhhHHHHHHHHHHHHHhhccccc
Confidence 111 12356799999999999999999853 568999999999999999999999999
Q ss_pred CCCCccccccChHHHHHHHHHHHHhhcCCcccCCCcccHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 001806 239 PHMPTLEIREGAINLLMAVYKKEFRALGGYLTDGSKPSLRRVEHFIQAVGSYEDRIFQKRARLHQRHAERIKREKAQARR 318 (1010)
Q Consensus 239 PhLPsL~IrEGaID~Li~iYk~~Lp~~ggYLT~~G~INL~rlq~fl~~L~~~Ed~IF~kR~~~e~r~~e~~kr~k~~~~~ 318 (1010)
||||+|.|.+||+.+|..+||+++|.+||||+++|+|||.||+.||.+|..+|.++|+++.+..+.. ++ ||. +
T Consensus 292 PhLP~LHIn~gAlpllystykkvlpt~~GyINE~G~lNl~Rle~~L~eL~nfeke~Fke~led~k~~-ns-kr~-----r 364 (1493)
T KOG2045|consen 292 PHLPCLHINSGALPLLYSTYKKVLPTLGGYINENGKLNLRRLEIFLSELTNFEKEHFKEHLEDLKYM-NS-KRE-----R 364 (1493)
T ss_pred cCCCccccCCChHHHHHHHHHHHhccCCccccccceecHHHHHHHHHHHHhhhHHHHHHHHHhhhhc-cc-ccc-----c
Confidence 9999999999999999999999999999999999999999999999999999999999987654311 11 110 0
Q ss_pred CCCCCCCCCCCCccccccccCCCCCCCCCC----CCCcccccccccCCCCCCCC-CCCCccccCCCcchhhH-HHhhhcC
Q 001806 319 GDDVEPLAQPDSLVPVSRFHGSRLASGPSP----SPYQQSECVGRLDNGKGTSG-RPHKVPRLSSGATIGAA-IVEAENS 392 (1010)
Q Consensus 319 ~~~~~~~~~~~~~~p~~~f~~~~l~~~~~~----~~~~~~~~~~~~~~~~~~~~-~~~k~~~~s~~~~~~aa-~~~~e~~ 392 (1010)
-++ +..+......+..+.++........ .++...... +......+. ....-.........+.. .++ .
T Consensus 365 ~~~--~~~~~~~~~dika~t~sq~~d~l~~~~~~~p~i~~~a~--ld~dD~~Fl~~~~eDl~~~~~~s~s~~~~ld---~ 437 (1493)
T KOG2045|consen 365 FDD--PEQQELAEMDIKAITESQNLDSLLGEESKDPLINKSAL--LDDDDSAFLSDHEEDLSDLEPGSGSDELLLD---N 437 (1493)
T ss_pred ccc--HHHHhhhcccHHhhhhhhhhhhhccccccccccccccc--cccchHHHHHHhhhhccccccccCccchhhc---c
Confidence 000 0000001111111111110000000 000000000 000000000 00000000000000000 000 0
Q ss_pred CCCCccccHHHHHHHHHHH-Hhhhccc-CCC--CCcchhhhccC-CcchHHHHHHHhcCCCChhHHHHHHHHHHHHHHHH
Q 001806 393 FETDPQENKEEFKAKLKEL-LRDKSDA-FNS--DNPEEDKVKLG-EPGWKERYYEEKFNAKTPEEREETRKDVVLRYTEG 467 (1010)
Q Consensus 393 l~~~~~~~~ee~k~~~k~~-l~~k~d~-~~~--~~~~eD~VkL~-e~gwK~rYY~~KF~v~~~edi~~~r~~Vv~~YvEG 467 (1010)
+ ..++.++|+...+..+ +..+.+. +.. +...+.+|-.. ...||..||++||+.++.+ ++..+++|..||||
T Consensus 438 ~--~~de~EdEf~~~~~t~~ls~~~~~~~~n~eea~~eKti~n~~F~rwK~~yYrdKlkf~~~d--ee~lrelae~YVea 513 (1493)
T KOG2045|consen 438 L--DADELEDEFAVELATLALSGMNDADFANDEEACWEKTILNKEFQRWKRNYYRDKLKFDPND--EELLRELAEHYVEA 513 (1493)
T ss_pred c--cchhhhHHHHHHHHHHHHhccccccccchHHHhhhhhhHHHHHHHHHHHHhhhhhcCCCcc--HHHHHHHHHHHHHH
Confidence 0 1111222332222111 1112111 111 11223333333 3479999999999997655 45668899999999
Q ss_pred HHHHHHhhhcCcccccccccCCCCcccccccccccccccccCCCCCChhhhhhhcCCccccCCCcHHHHhhhcCCCCCCc
Q 001806 468 LCWVMHYYYEGVCSWQWFYPYHYAPFASDLKDLDQFNISFELGHPFKPFNQLLGVFPSASSHALPEHYRKLMTDPNSPIS 547 (1010)
Q Consensus 468 L~WVL~YYYqGcpSW~WYYPYHYAPFaSDf~~l~~~~i~Fe~G~Pf~PfEQLMsVLPaaS~~~LP~~~r~LMtdp~SpIi 547 (1010)
|||||.|||+||+||+||||||||||+||+++..+++|.|++|+||+||||||+|||++|+.+||.+||+||.++.|||+
T Consensus 514 LQWvL~YYYrGc~SWsWyYphHyaP~ISDl~kgldv~ieF~mgtPF~PFqQLlAVLPaaSa~llPp~frdLM~~~~SPI~ 593 (1493)
T KOG2045|consen 514 LQWVLDYYYRGCQSWSWYYPHHYAPFISDLKKGLDVEIEFHMGTPFLPFQQLLAVLPAASAKLLPPAFRDLMLLPTSPIA 593 (1493)
T ss_pred HHHHHHHHhcCCccccccccccccchhHhHhcccceeEEEecCCCCCcHHHHHHhchhhhhccCChhhhHhhcCCCCchh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCcccccCCCCccceeeeeeccCCChHHHHHHHHhhhcCCCHHHHhhccCCCcEEEEec
Q 001806 548 DFYPTDFEVDMNGKRYSWQGIAKLPFIDEARLLDEVKKIEHTLTEEEARRNSIMADMLFVLL 609 (1010)
Q Consensus 548 DFYP~dF~ID~NGKk~~WqGVaLLPFIDe~rLl~a~~~~~~~LT~eEk~RN~~g~d~Lfv~~ 609 (1010)
||||.+|+.|+|||+.+|++|||||||||+|||+||.+++..||+||+.||++|.+++|-..
T Consensus 594 DFYPaefelD~NGKtadWEAVVLIpFIdEkRLleAm~pk~~~Ls~EEr~RNs~g~~~vys~~ 655 (1493)
T KOG2045|consen 594 DFYPAEFELDLNGKTADWEAVVLIPFIDEKRLLEAMLPKEAQLSLEERERNSHGPMYVYSYS 655 (1493)
T ss_pred hcchhhheecccCCccceeEEEEEeecchHHHHHHHhhHhhhcCHHHhhhcccCCceeeecc
Confidence 99999999999999999999999999999999999999999999999999999999988654
No 4
>PF03159 XRN_N: XRN 5'-3' exonuclease N-terminus; InterPro: IPR004859 Signatures of this entry align residues towards the N terminus of several proteins with multiple functions. The members of this family all appear to possess 5'-3' exonuclease activity 3.1.11 from EC. Thus, the aligned region may be necessary for 5'-3' exonuclease function.; GO: 0003676 nucleic acid binding, 0004527 exonuclease activity, 0005622 intracellular; PDB: 2Y35_A 3PIE_B 3PIF_C 3FQD_A.
Probab=100.00 E-value=1.2e-50 Score=429.40 Aligned_cols=145 Identities=59% Similarity=1.027 Sum_probs=123.6
Q ss_pred CccchhhhhhhHHHHHHHHHHHHHHHHHHHHcCCCCCCCCCCCccccccccCCcHHHHHHHHHHHHHHHHHhcCCCCCce
Q 001806 1 MNQQRSRRFRASKDAADSAAEEERLRQEFEREGRKLPPKSDSQVFDSNVITPGTEFMAVLSIALQYYIHLRLNNDPGWEK 80 (1010)
Q Consensus 1 MNQQRSRRFRSAkea~~~~~~~e~lr~e~~~~G~~lp~~~~~~~FDSN~ITPGT~FM~~Ls~~L~yyI~~Kl~~Dp~W~~ 80 (1010)
|||||+||||+|+++++...+..+..++...+|..++.+.....||||||||||+||.+|+++|++||..|+++||.|++
T Consensus 93 m~qQR~RRf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdsn~ITPGT~FM~~l~~~L~~~~~~k~~~~~~~~~ 172 (237)
T PF03159_consen 93 MNQQRSRRFKSAKESEENNKEESEIKEEIDEEGEQLPPEDQEEKFDSNCITPGTEFMEKLSDALRYYIKKKLNSDPKWQN 172 (237)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT--B-HHHHS----GGGSSTTSHHHHHHHHHHHHHHHHHHHH-GGGCC
T ss_pred HHHHHHHHHHHhhcchhHHHHHHHHhhhhhhccccccccccccccccceeccCCHHHHHHHHHHHHHHHHHhcCCCCcCc
Confidence 89999999999999999988888888888888877665555688999999999999999999999999999999999999
Q ss_pred eEEEEcCCCCCCChhHHHHHHHHhhccCCCCCCCCcEEEEccChhHHHHHhhcCCceEEEeeecc
Q 001806 81 IKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLALATHEVHFSILREVV 145 (1010)
Q Consensus 81 lkVIlSds~VPGEGEHKImdfIR~qr~~p~ydPNtrHcIYGlDADLImLgLaTHEp~f~ILREeV 145 (1010)
++|||||++||||||||||+|||+++++|+|+||++|||||+|||||||||+||+++|+||||+|
T Consensus 173 ~~vi~S~~~vpGEGE~KI~~~IR~~~~~~~~~~n~~h~i~g~DaDlIll~L~~~~~~~~ilre~~ 237 (237)
T PF03159_consen 173 LKVIFSGSDVPGEGEHKIMDFIRSQRSQPDYDPNTSHCIYGSDADLILLSLATHEPNIYILREEV 237 (237)
T ss_dssp SEEEEE-TTSSS-HHHHHHHHHHHHHHSTTS-TT--EEEE-SSTHHHHHHHHTT-SSEEEEEESS
T ss_pred eEEEEeCCCCCCccHHHHHHHHHHhhhcCCCCCCceEEEEecCHhHHHHHHccCCCeEEEEeccC
Confidence 99999999999999999999999999999999999999999999999999999999999999985
No 5
>KOG2044 consensus 5'-3' exonuclease HKE1/RAT1 [Replication, recombination and repair; RNA processing and modification]
Probab=96.71 E-value=0.011 Score=72.27 Aligned_cols=85 Identities=16% Similarity=0.042 Sum_probs=71.0
Q ss_pred CCeeEEEEeeCCCCC-CCCcCCCCCCCcCCCCCCcccCCCCCccccCCCCCCCCCCC-CCCCCCCCcccccchhHHHHHH
Q 001806 675 GNQVLCAIYKLPDAH-KHVTRPPAGVIFPKKIVQLEDLKPAPVLWHEDSGRRPHENG-RHNPHGTISGRQLGEAAHRLVA 752 (1010)
Q Consensus 675 ~n~~i~~~y~~P~~~-~h~s~ll~g~~~p~~~l~~~d~~~~~~lw~~~~~~~~~~~~-~~~~~~~~~~~~l~~a~~r~v~ 752 (1010)
.-.+.++.|..|+.+ .||+..+.|.++|.++++..++++..-+||++...+-..-. +.+|.++++ +.|++++ |++.
T Consensus 704 ~p~~~~~~~~~~~~~~~~i~~~p~~~~~~~~~~~~v~~~~~~~~~~ed~~~~a~~l~G~~~p~~~lk-P~dwn~s-R~~~ 781 (931)
T KOG2044|consen 704 DPGLNGAISKDPEGLESGISKSPPGGLSDYNTNTGVCLKYVDPEYPEDYIFPAIRLDGAKEPEKVLK-PDDWNDR-RDGR 781 (931)
T ss_pred CcccceeeccCccccccccccCChhhcccCCccceeeecccCccccccccchhhhcCCCCCCccccC-cchhhhh-hhhh
Confidence 346778999999876 79999999999999999999999999999999875533333 668888888 9999999 9999
Q ss_pred hhhcCcccCC
Q 001806 753 NSLQHMKVDR 762 (1010)
Q Consensus 753 ~~l~~~~~~~ 762 (1010)
++++ ++.+.
T Consensus 782 ~~~~-~~~~~ 790 (931)
T KOG2044|consen 782 YQPQ-AGFNR 790 (931)
T ss_pred cCcc-ccccc
Confidence 9998 66444
No 6
>cd00128 XPG Xeroderma pigmentosum G N- and I-regions (XPGN, XPGI); contains the HhH2 motif; domain in nucleases. XPG is a eukaryotic enzyme that functions in nucleotide-excision repair and transcription-coupled repair of oxidative DNA damage. Functionally/structurally related to FEN-1; divalent metal ion-dependent exo- and endonuclease, and bacterial and bacteriophage 5'3' exonucleases.
Probab=95.29 E-value=0.1 Score=58.45 Aligned_cols=93 Identities=20% Similarity=0.381 Sum_probs=59.7
Q ss_pred eeEEEEcCCCCCCChhHHHHHHHHhhccCCCCCCCCcEEEEccChhHHHHHhhcCCceEEEeeeccccCCCCccccccCC
Q 001806 80 KIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLALATHEVHFSILREVVFTPGQQDKCFLCGQ 159 (1010)
Q Consensus 80 ~lkVIlSds~VPGEGEHKImdfIR~qr~~p~ydPNtrHcIYGlDADLImLgLaTHEp~f~ILREeVf~p~~~~~C~lCgQ 159 (1010)
++.+|.+ |+|+|-=|--.-+. .....|++.|.|+++++ + ++ |+|-. +..+
T Consensus 141 gi~~i~a----p~EAdaq~a~l~~~---------g~v~~i~S~DsD~l~fg-~---~~--vi~~~-~~~~---------- 190 (316)
T cd00128 141 GIPYIVA----PYEAEAQCAYLAKK---------GLVDAIITEDSDLLLFG-A---PR--VYRNL-FDSG---------- 190 (316)
T ss_pred CCCEEEC----CcCHHHHHHHHHhC---------CCeeEEEecCCCeeeec-C---ce--EEEec-ccCC----------
Confidence 5677764 89999765544332 23578999999999876 2 22 44321 0000
Q ss_pred CCCcccccccccccccCCCCcCCCccccCCCCceeeeHHHHHHHHHHHhcCCCCCCccchhhhhhHHHHhhhhcccCCCC
Q 001806 160 PGHLAANCEGKAKRKAGEFDEKGDEVVVPKKPYQFLHIWTLREYLDYEFRIPNPPFEIDLECIVDDFIFMCFFVGNDFLP 239 (1010)
Q Consensus 160 ~gH~~~~c~g~~k~k~ge~~e~~~~~~~~~k~f~~l~I~vLREYL~~Ef~~~~~pF~~DlERiIDDfVfLcffvGNDFLP 239 (1010)
...+.+++...+.+.| . ++ -+.||.+|.|+|+||+|
T Consensus 191 -----------------------------~~~~~~~~~~~~~~~l----g-------l~----~~q~id~~~L~G~Dy~~ 226 (316)
T cd00128 191 -----------------------------AKPVEEIDLEKILKEL----G-------LT----REKLIDLAILLGCDYTE 226 (316)
T ss_pred -----------------------------CCceEEEEHHHHHHHc----C-------CC----HHHHHHHHHhcCCCCCC
Confidence 0235567776665543 1 22 25788899999999999
Q ss_pred CCCcccc
Q 001806 240 HMPTLEI 246 (1010)
Q Consensus 240 hLPsL~I 246 (1010)
.+|++-+
T Consensus 227 gv~giG~ 233 (316)
T cd00128 227 GIPGIGP 233 (316)
T ss_pred CCCCccH
Confidence 9998654
No 7
>PF00867 XPG_I: XPG I-region; InterPro: IPR006086 This entry represents endonucleases that cleave the 5'-overhanging flap structure that is generated by displacement synthesis when DNA polymerase encounters the 5'-end of a downstream Okazaki fragment. Has 5'-endo-/exonuclease and 5'-pseudo-Y-endonuclease activities. Cleaves the junction between single and double-stranded regions of flap DNA. The endonuclease binds 2 magnesium ions per subunit. which probably participate in the reaction catalyzed by the enzyme. May bind an additional third magnesium ion after substrate binding.; GO: 0004518 nuclease activity, 0006281 DNA repair; PDB: 1UL1_Z 3Q8K_A 3Q8M_A 3Q8L_A 2IZO_A 1A77_A 1A76_A 3QEA_Z 3QE9_Y 3QEB_Z ....
Probab=92.35 E-value=0.34 Score=45.35 Aligned_cols=90 Identities=20% Similarity=0.371 Sum_probs=55.9
Q ss_pred eEEEEcCCCCCCChhHHHHHHHHhhccCCCCCCCCcEEEEccChhHHHHHhhcCCceEEEeeeccccCCCCccccccCCC
Q 001806 81 IKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLALATHEVHFSILREVVFTPGQQDKCFLCGQP 160 (1010)
Q Consensus 81 lkVIlSds~VPGEGEHKImdfIR~qr~~p~ydPNtrHcIYGlDADLImLgLaTHEp~f~ILREeVf~p~~~~~C~lCgQ~ 160 (1010)
+.+|+ .|||+|.=+--.-|+ +..+.|++-|+|+|+.|-- .|||... .. ....|
T Consensus 5 v~~i~----AP~EAeAq~A~L~~~---------g~vd~V~t~DsD~l~fG~~------~vi~~~~-~~-~~~~~------ 57 (94)
T PF00867_consen 5 VPYIV----APYEAEAQCAYLERN---------GLVDAVITEDSDLLLFGAP------KVIRKLS-DK-SSGKC------ 57 (94)
T ss_dssp -EEEE-----SS-HHHHHHHHHHT---------TSSSEEE-SSSHHHHTT-S------EEEESST--C-SCCST------
T ss_pred CeEEE----cCchHHHHHHHHHHh---------cceeEEEecCCCEEeeCCC------EEEEecc-cc-ccCCc------
Confidence 45555 489999998866654 5678999999999999655 4777531 00 00011
Q ss_pred CCcccccccccccccCCCCcCCCccccCCCCceeeeHHHHHHHHHHHhcCCCCCCccchhhhhhHHHHhhhhcccC
Q 001806 161 GHLAANCEGKAKRKAGEFDEKGDEVVVPKKPYQFLHIWTLREYLDYEFRIPNPPFEIDLECIVDDFIFMCFFVGND 236 (1010)
Q Consensus 161 gH~~~~c~g~~k~k~ge~~e~~~~~~~~~k~f~~l~I~vLREYL~~Ef~~~~~pF~~DlERiIDDfVfLcffvGND 236 (1010)
.......+.++++..+.+.|.. + -+.||.+|+|+|.|
T Consensus 58 ------------------------~~~~~~~~~~~~~~~i~~~l~l-----------~----~~~fi~~~iL~G~D 94 (94)
T PF00867_consen 58 ------------------------SSKSEKEVEVIDLDDILKELGL-----------T----REQFIDLCILCGCD 94 (94)
T ss_dssp ------------------------S-CCESEEEEEEHHHHHHHHTT-----------S----HHHHHHHHHHHHET
T ss_pred ------------------------ccccccceEEEEHHHHHHHcCC-----------C----HHHHHHHheecCCC
Confidence 0011245788898887777531 1 24699999999998
No 8
>PTZ00217 flap endonuclease-1; Provisional
Probab=91.69 E-value=0.41 Score=55.86 Aligned_cols=106 Identities=23% Similarity=0.341 Sum_probs=66.4
Q ss_pred eeEEEEcCCCCCCChhHHHHHHHHhhccCCCCCCCCcEEEEccChhHHHHHhhcCCceEEEeeeccccCCCCccccccCC
Q 001806 80 KIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLALATHEVHFSILREVVFTPGQQDKCFLCGQ 159 (1010)
Q Consensus 80 ~lkVIlSds~VPGEGEHKImdfIR~qr~~p~ydPNtrHcIYGlDADLImLgLaTHEp~f~ILREeVf~p~~~~~C~lCgQ 159 (1010)
+|.+|.+ |||+|-=|-...+ -+...+|++-|.|+++++- + .++|-- +..+
T Consensus 151 Gip~i~A----P~EAdaq~A~L~~---------~g~v~~ViS~D~D~l~fg~----~--~vi~~l-~~~~---------- 200 (393)
T PTZ00217 151 GIPVIEA----PCEAEAQCAELVK---------KGKVYAVATEDMDALTFGT----P--VLLRNL-NFSE---------- 200 (393)
T ss_pred CCceEEC----CcCHHHHHHHHHH---------CCCeEEEeCCCcCeeecCC----c--EEEEcc-cccc----------
Confidence 4667765 7999995554432 2456789999999998862 2 244421 1000
Q ss_pred CCCcccccccccccccCCCCcCCCccccCCCCceeeeHHHHHHHHHHHhcCCCCCCccchhhhhhHHHHhhhhcccCCCC
Q 001806 160 PGHLAANCEGKAKRKAGEFDEKGDEVVVPKKPYQFLHIWTLREYLDYEFRIPNPPFEIDLECIVDDFIFMCFFVGNDFLP 239 (1010)
Q Consensus 160 ~gH~~~~c~g~~k~k~ge~~e~~~~~~~~~k~f~~l~I~vLREYL~~Ef~~~~~pF~~DlERiIDDfVfLcffvGNDFLP 239 (1010)
..+.+++++++..+.+.| .++ -+.||-||.|+|.||+|
T Consensus 201 ---------------------------~~~~~~~~~~~~~v~~~~-----------gl~----~~q~id~~iL~G~Dy~p 238 (393)
T PTZ00217 201 ---------------------------AKKRPIQEINLSTVLEEL-----------GLS----MDQFIDLCILCGCDYCD 238 (393)
T ss_pred ---------------------------cCCCCeEEEEHHHHHHHh-----------CCC----HHHHHHHHHHhCCCCCC
Confidence 012346677777665432 122 25678899999999999
Q ss_pred CCCccccc--------cChHHHHHHH
Q 001806 240 HMPTLEIR--------EGAINLLMAV 257 (1010)
Q Consensus 240 hLPsL~Ir--------EGaID~Li~i 257 (1010)
.+|++-+. -|.|+.+++.
T Consensus 239 gi~GIG~ktA~~Li~~~gsle~il~~ 264 (393)
T PTZ00217 239 TIKGIGPKTAYKLIKKYKSIEEILEH 264 (393)
T ss_pred CCCCccHHHHHHHHHHcCCHHHHHHH
Confidence 99987543 2555555553
No 9
>PRK03980 flap endonuclease-1; Provisional
Probab=91.50 E-value=2.7 Score=47.44 Aligned_cols=62 Identities=16% Similarity=0.365 Sum_probs=39.0
Q ss_pred hHHHHhhhhcccCCCCCCCccccc--------cChHHHHHHH-------HHHHHh-----h-cCCcccCCCcccHHHHHH
Q 001806 224 DDFIFMCFFVGNDFLPHMPTLEIR--------EGAINLLMAV-------YKKEFR-----A-LGGYLTDGSKPSLRRVEH 282 (1010)
Q Consensus 224 DDfVfLcffvGNDFLPhLPsL~Ir--------EGaID~Li~i-------Yk~~Lp-----~-~ggYLT~~G~INL~rlq~ 282 (1010)
+.||-||.|+|.||+|.+|++-+. -|.|+.+++. |.++.. . ...|--+=+.+|.+.|..
T Consensus 177 ~q~id~~iL~G~Dy~~GI~GIG~ktA~kLi~~~~sle~i~~~~~~~~~~~~~~r~~f~~p~v~~~~~~~~~~pd~~~l~~ 256 (292)
T PRK03980 177 EQLIDIAILVGTDYNPGIKGIGPKTALKLIKKHGDLEKVLEERGFEIENYDEIREFFLNPPVTDDYELKWKEPDKEGIIE 256 (292)
T ss_pred HHHHHHHHhcCCCCCCCCCCccHHHHHHHHHHCCCHHHHHHhccCCCCCHHHHHHHhcCCCCCCCCCccCCCCCHHHHHH
Confidence 567779999999999999987654 2456666552 222211 1 112322335678888877
Q ss_pred HHH
Q 001806 283 FIQ 285 (1010)
Q Consensus 283 fl~ 285 (1010)
||-
T Consensus 257 fl~ 259 (292)
T PRK03980 257 FLV 259 (292)
T ss_pred HHh
Confidence 774
No 10
>PF00098 zf-CCHC: Zinc knuckle; InterPro: IPR001878 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the CysCysHisCys (CCHC) type zinc finger domains, and have the sequence: C-X2-C-X4-H-X4-C where X can be any amino acid, and number indicates the number of residues. These 18 residues CCHC zinc finger domains are mainly found in the nucleocapsid protein of retroviruses. It is required for viral genome packaging and for early infection process [, , ]. It is also found in eukaryotic proteins involved in RNA binding or single-stranded DNA binding []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 2L44_A 1A1T_A 1WWG_A 1U6P_A 1WWD_A 1WWE_A 1A6B_B 1F6U_A 1MFS_A 1NCP_C ....
Probab=90.83 E-value=0.14 Score=34.93 Aligned_cols=17 Identities=59% Similarity=1.491 Sum_probs=15.2
Q ss_pred ccccccCCCCCcccccc
Q 001806 152 DKCFLCGQPGHLAANCE 168 (1010)
Q Consensus 152 ~~C~lCgQ~gH~~~~c~ 168 (1010)
++|+.||+.||.+.+|.
T Consensus 1 ~~C~~C~~~GH~~~~Cp 17 (18)
T PF00098_consen 1 RKCFNCGEPGHIARDCP 17 (18)
T ss_dssp SBCTTTSCSSSCGCTSS
T ss_pred CcCcCCCCcCcccccCc
Confidence 37999999999999994
No 11
>PF13696 zf-CCHC_2: Zinc knuckle
Probab=76.26 E-value=1.1 Score=35.22 Aligned_cols=18 Identities=39% Similarity=0.887 Sum_probs=16.1
Q ss_pred ccccccCCCCCccccccc
Q 001806 152 DKCFLCGQPGHLAANCEG 169 (1010)
Q Consensus 152 ~~C~lCgQ~gH~~~~c~g 169 (1010)
-.|.+|+|.||...+|--
T Consensus 9 Y~C~~C~~~GH~i~dCP~ 26 (32)
T PF13696_consen 9 YVCHRCGQKGHWIQDCPT 26 (32)
T ss_pred CEeecCCCCCccHhHCCC
Confidence 479999999999999954
No 12
>TIGR00600 rad2 DNA excision repair protein (rad2). All proteins in this family for which functions are known are flap endonucleases that generate the 3' incision next to DNA damage as part of nucleotide excision repair. This family is related to many other flap endonuclease families including the fen1 family. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=66.64 E-value=8.9 Score=50.09 Aligned_cols=40 Identities=20% Similarity=0.199 Sum_probs=30.8
Q ss_pred eeEEEEcCCCCCCChhHHHHHHHHhhccCCCCCCCCcEEEEccChhHHHHHhh
Q 001806 80 KIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLALA 132 (1010)
Q Consensus 80 ~lkVIlSds~VPGEGEHKImdfIR~qr~~p~ydPNtrHcIYGlDADLImLgLa 132 (1010)
+|-+|.+ |||+|-=+-...+. ....+|++-|.|+++.|=.
T Consensus 785 GIP~i~A----P~EAEAqcA~L~~~---------G~vd~V~TeDsD~llFGa~ 824 (1034)
T TIGR00600 785 GIPYIVA----PMEAEAQCAILDLL---------DQTSGTITDDSDIWLFGAR 824 (1034)
T ss_pred CCCeeeC----CccHHHHHHHHHhC---------CCeEEEEccccceeccCCc
Confidence 4567754 89999988777553 5679999999999976643
No 13
>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]
Probab=65.67 E-value=33 Score=44.40 Aligned_cols=13 Identities=31% Similarity=0.279 Sum_probs=9.6
Q ss_pred ccccchhHHHHHH
Q 001806 740 GRQLGEAAHRLVA 752 (1010)
Q Consensus 740 ~~~l~~a~~r~v~ 752 (1010)
-.+|++.--|||+
T Consensus 1119 IsqLdpvnarlln 1131 (1282)
T KOG0921|consen 1119 ISQLDPVNARLLN 1131 (1282)
T ss_pred hhccCchhHHHHH
Confidence 4578888888874
No 14
>smart00157 PRP Major prion protein. The prion protein is a major component of scrapie-associated fibrils in Creutzfeldt-Jakob disease, kuru, Gerstmann-Straussler syndrome and bovine spongiform encephalopathy.
Probab=54.91 E-value=21 Score=38.37 Aligned_cols=29 Identities=52% Similarity=0.932 Sum_probs=22.6
Q ss_pred cCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 001806 869 QNGGPRYPPRPMGSTSSGANLYPPQGGYSGYQS 901 (1010)
Q Consensus 869 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 901 (1010)
..|+-|||-- -|+|.|-||+|||..++|-
T Consensus 10 ntg~srypgq----gspGgnRYP~qgg~g~~~~ 38 (217)
T smart00157 10 NTGGSRYPGQ----GSPGGNRYPPQGGGWGQPH 38 (217)
T ss_pred CCCCCCCCCC----CCCCCCCCCCCCCCCCCCC
Confidence 4466799865 4889999999999877664
No 15
>cd00008 53EXOc 5'-3' exonuclease; T5 type 5'-3' exonuclease domains may co-occur with DNA polymerase I (Pol I) domains, or be part of Pol I containing complexes. They digest dsDNA and ssDNA, releasing mono-,di- and tri-nucleotides, as well as oligonucleotides, and have also been reported to possess RNase H activity. Also called 5' nuclease family, involved in structure-specific cleavage of flaps formed by Pol I activity (similar to mammalian flap endonuclease I, FEN-1). A single nucleic acid strand may be threaded through the 5' nuclease enzyme before cleavage occurs. The domain binds two divalent metal ions which are necessary for activity.
Probab=54.47 E-value=54 Score=35.90 Aligned_cols=21 Identities=24% Similarity=0.387 Sum_probs=17.2
Q ss_pred HHHhhhhcc--cCCCCCCCcccc
Q 001806 226 FIFMCFFVG--NDFLPHMPTLEI 246 (1010)
Q Consensus 226 fVfLcffvG--NDFLPhLPsL~I 246 (1010)
|+-+|.|+| .|++|.+|++-.
T Consensus 171 ~~d~~~L~GD~sDnipGv~GiG~ 193 (240)
T cd00008 171 IIDYKALMGDSSDNIPGVPGIGE 193 (240)
T ss_pred HHHHHHHcCCcccCCCCCCccCH
Confidence 444899999 899999998653
No 16
>cd00080 HhH2_motif Helix-hairpin-helix class 2 (Pol1 family) motif. HhH2 domains are found in Rad2 family of prokaryotic and eukaryotic replication and repair nucleases, i.e., DNA polymerase I, Taq DNA polymerase, DNA repair protein Rad2 endonuclease, flap endonuclease, exonuclease I and IX, 5'-3' exonuclease and also bacteriophage Rnase H. These nucleases degrade RNA-DNA or DNA-DNA duplexes, or both and play essential roles in DNA duplication, repair, and recombination.
Probab=49.71 E-value=15 Score=33.35 Aligned_cols=22 Identities=32% Similarity=0.727 Sum_probs=18.8
Q ss_pred hHHHHhhhhcc--cCCCCCCCccc
Q 001806 224 DDFIFMCFFVG--NDFLPHMPTLE 245 (1010)
Q Consensus 224 DDfVfLcffvG--NDFLPhLPsL~ 245 (1010)
+.|+-+|.|+| .|++|.+|.+-
T Consensus 8 ~q~~d~~~L~GD~~D~i~gv~giG 31 (75)
T cd00080 8 EQFIDLAILVGDKSDNIPGVPGIG 31 (75)
T ss_pred HHHHHHHHHcCCccccCCCCCccc
Confidence 45777999999 99999999843
No 17
>smart00475 53EXOc 5'-3' exonuclease.
Probab=47.83 E-value=84 Score=35.08 Aligned_cols=25 Identities=24% Similarity=0.412 Sum_probs=19.3
Q ss_pred cchhhhhhHHHHhhhhcc--cCCCCCCCccc
Q 001806 217 IDLECIVDDFIFMCFFVG--NDFLPHMPTLE 245 (1010)
Q Consensus 217 ~DlERiIDDfVfLcffvG--NDFLPhLPsL~ 245 (1010)
+..++++ -+|.|+| .|.+|.+|++-
T Consensus 169 v~p~q~~----d~~aL~GD~sDnipGV~GIG 195 (259)
T smart00475 169 LTPEQII----DYKALMGDSSDNIPGVPGIG 195 (259)
T ss_pred cCHHHHH----HHHHHhCCcccCCCCCCCCC
Confidence 4445544 4999999 89999999854
No 18
>KOG2518 consensus 5'-3' exonuclease [Replication, recombination and repair]
Probab=40.15 E-value=47 Score=40.65 Aligned_cols=67 Identities=22% Similarity=0.311 Sum_probs=36.4
Q ss_pred ccchhhhhhHHHHhhhhcccCCCCCCCccccccChHHHHHHHHHHHHhhcCCcccC-CCcccHHHHHHHHHHHH
Q 001806 216 EIDLECIVDDFIFMCFFVGNDFLPHMPTLEIREGAINLLMAVYKKEFRALGGYLTD-GSKPSLRRVEHFIQAVG 288 (1010)
Q Consensus 216 ~~DlERiIDDfVfLcffvGNDFLPhLPsL~IrEGaID~Li~iYk~~Lp~~ggYLT~-~G~INL~rlq~fl~~L~ 288 (1010)
.|+.|. |.-||+|.|=|||+.||++-+.. .-.++.-|...=..+-+|+++ +=.|+-+-.+.|..+..
T Consensus 209 ~~~~ek----fr~mciLSGCDYl~slpGvGl~t--A~k~l~k~~~~d~vi~~~~~~~~l~Vpd~y~~~F~~A~~ 276 (556)
T KOG2518|consen 209 KFTEEK----FRRMCILSGCDYLSSLPGVGLAT--AHKLLSKYNTPDRVIISHLLKKKLTVPDDYIENFERANL 276 (556)
T ss_pred ccCHHH----HHHHHHhcCCcccccCccccHHH--HHHHHHhcCcHHHHHHHHHhccCCcCCHHHHHHHHHHHH
Confidence 445554 45599999999999999876542 112333333221111223333 22566555566665543
No 19
>smart00343 ZnF_C2HC zinc finger.
Probab=37.38 E-value=16 Score=26.53 Aligned_cols=16 Identities=50% Similarity=1.379 Sum_probs=14.3
Q ss_pred cccccCCCCCcccccc
Q 001806 153 KCFLCGQPGHLAANCE 168 (1010)
Q Consensus 153 ~C~lCgQ~gH~~~~c~ 168 (1010)
+|..|++.||.+.+|.
T Consensus 1 ~C~~CG~~GH~~~~C~ 16 (26)
T smart00343 1 KCYNCGKEGHIARDCP 16 (26)
T ss_pred CCccCCCCCcchhhCC
Confidence 4889999999999995
No 20
>PF15288 zf-CCHC_6: Zinc knuckle
Probab=36.20 E-value=18 Score=29.93 Aligned_cols=15 Identities=47% Similarity=0.862 Sum_probs=13.0
Q ss_pred ccccccCCCCCcccc
Q 001806 152 DKCFLCGQPGHLAAN 166 (1010)
Q Consensus 152 ~~C~lCgQ~gH~~~~ 166 (1010)
.+|..||+.||...+
T Consensus 2 ~kC~~CG~~GH~~t~ 16 (40)
T PF15288_consen 2 VKCKNCGAFGHMRTN 16 (40)
T ss_pred ccccccccccccccC
Confidence 589999999998764
No 21
>smart00279 HhH2 Helix-hairpin-helix class 2 (Pol1 family) motifs.
Probab=35.02 E-value=29 Score=27.72 Aligned_cols=20 Identities=25% Similarity=0.624 Sum_probs=16.3
Q ss_pred hHHHHhhhhcccCCCCCCCcc
Q 001806 224 DDFIFMCFFVGNDFLPHMPTL 244 (1010)
Q Consensus 224 DDfVfLcffvGNDFLPhLPsL 244 (1010)
+-|+-+|.|+| |+.+.+|++
T Consensus 2 ~q~~~~~~L~G-D~~dni~Gv 21 (36)
T smart00279 2 EQLIDYAILVG-DYSDNIPGV 21 (36)
T ss_pred HHHHHHHHHhC-cCCCCCCCC
Confidence 35788999999 999976664
No 22
>PRK14976 5'-3' exonuclease; Provisional
Probab=30.37 E-value=2.1e+02 Score=32.39 Aligned_cols=26 Identities=19% Similarity=0.181 Sum_probs=19.6
Q ss_pred ccchhhhhhHHHHhhhhcc--cCCCCCCCccc
Q 001806 216 EIDLECIVDDFIFMCFFVG--NDFLPHMPTLE 245 (1010)
Q Consensus 216 ~~DlERiIDDfVfLcffvG--NDFLPhLPsL~ 245 (1010)
.+.-++++ -+|.|+| .|.+|.+|++-
T Consensus 173 gv~p~q~~----d~~aL~GD~sDnipGVpGIG 200 (281)
T PRK14976 173 GIEPKQII----DYKGLVGDSSDNIKGVKGIG 200 (281)
T ss_pred CcCHHHHH----HHHHHhCCccCCCCCCCccc
Confidence 34456644 4899999 89999999753
No 23
>PF13917 zf-CCHC_3: Zinc knuckle
Probab=30.11 E-value=30 Score=28.84 Aligned_cols=19 Identities=37% Similarity=0.893 Sum_probs=16.9
Q ss_pred CccccccCCCCCccccccc
Q 001806 151 QDKCFLCGQPGHLAANCEG 169 (1010)
Q Consensus 151 ~~~C~lCgQ~gH~~~~c~g 169 (1010)
...|..|++.||..-+|..
T Consensus 4 ~~~CqkC~~~GH~tyeC~~ 22 (42)
T PF13917_consen 4 RVRCQKCGQKGHWTYECPN 22 (42)
T ss_pred CCcCcccCCCCcchhhCCC
Confidence 4579999999999999974
No 24
>PF14392 zf-CCHC_4: Zinc knuckle
Probab=29.39 E-value=22 Score=29.87 Aligned_cols=19 Identities=37% Similarity=0.875 Sum_probs=16.5
Q ss_pred CCccccccCCCCCcccccc
Q 001806 150 QQDKCFLCGQPGHLAANCE 168 (1010)
Q Consensus 150 ~~~~C~lCgQ~gH~~~~c~ 168 (1010)
-+..|+.||..||...+|.
T Consensus 30 lp~~C~~C~~~gH~~~~C~ 48 (49)
T PF14392_consen 30 LPRFCFHCGRIGHSDKECP 48 (49)
T ss_pred cChhhcCCCCcCcCHhHcC
Confidence 3578999999999999983
No 25
>KOG1999 consensus RNA polymerase II transcription elongation factor DSIF/SUPT5H/SPT5 [Transcription]
Probab=28.44 E-value=4.6e+02 Score=34.79 Aligned_cols=43 Identities=19% Similarity=0.226 Sum_probs=26.7
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCC-CCCCCCCC---ccccccCCCCCC
Q 001806 875 YPPRPMGSTSSGANLYPPQGGYS-GYQSPAAG---SFNQWGGANQSM 917 (1010)
Q Consensus 875 ~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~---~~~~~~~~~~~~ 917 (1010)
+|.+++-+|+-|++.|-++-+-- +=|+++.| .--.||+.+++-
T Consensus 878 sp~~~~~~~tpss~s~~p~tpgg~~~~Tpgs~~d~~~~~~~~~~~~~ 924 (1024)
T KOG1999|consen 878 SPWGYQNNPTPSSSSYGPKTPGGGNPMTPGSGLDSGSGNGGDGNSSW 924 (1024)
T ss_pred CCccCccCCCCcccccCCCCCCCCCCCCCCccccccCCCCCccceEe
Confidence 78888888988888887763322 44555544 223455555543
No 26
>smart00484 XPGI Xeroderma pigmentosum G I-region. domain in nucleases
Probab=26.32 E-value=38 Score=31.01 Aligned_cols=35 Identities=17% Similarity=0.257 Sum_probs=28.4
Q ss_pred CCCChhHHHHHHHHhhccCCCCCCCCcEEEEccChhHHHHHhhc
Q 001806 90 VPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLALAT 133 (1010)
Q Consensus 90 VPGEGEHKImdfIR~qr~~p~ydPNtrHcIYGlDADLImLgLaT 133 (1010)
-|||+|--.--..++ ..-+.|+|.|.|+++.|--.
T Consensus 10 AP~eAeAq~A~L~~~---------g~vdav~s~D~D~llfG~~~ 44 (73)
T smart00484 10 APYEAEAQCAYLAKS---------GLVDAIITEDSDLLLFGAPR 44 (73)
T ss_pred cCCcHHHHHHHHHhC---------CCeeEEEcCccceEecCCcE
Confidence 489999988777763 46799999999999987544
No 27
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=25.08 E-value=31 Score=37.10 Aligned_cols=18 Identities=50% Similarity=1.152 Sum_probs=16.3
Q ss_pred CccccccCCCCCcccccc
Q 001806 151 QDKCFLCGQPGHLAANCE 168 (1010)
Q Consensus 151 ~~~C~lCgQ~gH~~~~c~ 168 (1010)
...|+.|||.||...+|.
T Consensus 60 ~~~C~nCg~~GH~~~DCP 77 (190)
T COG5082 60 NPVCFNCGQNGHLRRDCP 77 (190)
T ss_pred ccccchhcccCcccccCC
Confidence 368999999999999996
No 28
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=23.41 E-value=36 Score=36.64 Aligned_cols=47 Identities=23% Similarity=0.465 Sum_probs=30.0
Q ss_pred CCcEEEEccChhHHHHHhhcCCceEEEeeeccccCCCCccccccCCCCCcccccc
Q 001806 114 NTRHCLYGLDADLIMLALATHEVHFSILREVVFTPGQQDKCFLCGQPGHLAANCE 168 (1010)
Q Consensus 114 NtrHcIYGlDADLImLgLaTHEp~f~ILREeVf~p~~~~~C~lCgQ~gH~~~~c~ 168 (1010)
+.-|.++--.++|=.+. +. .-|..+ +- .+..+|++||+.||++.+|.
T Consensus 68 ~~GH~~~DCP~~iC~~C-~~-~~H~s~--~C----~~~~~C~~Cg~~GH~~~dC~ 114 (190)
T COG5082 68 QNGHLRRDCPHSICYNC-SW-DGHRSN--HC----PKPKKCYNCGETGHLSRDCN 114 (190)
T ss_pred ccCcccccCChhHhhhc-CC-CCcccc--cC----CcccccccccccCccccccC
Confidence 46688887777555555 32 122211 10 11268999999999999995
No 29
>COG1570 XseA Exonuclease VII, large subunit [DNA replication, recombination, and repair]
Probab=23.30 E-value=3.8e+02 Score=32.60 Aligned_cols=81 Identities=25% Similarity=0.320 Sum_probs=58.7
Q ss_pred HHHHHHHHHHHHcCCCCCCCCCCCcccccc---ccCCcHHHHHHHHHHHHHHHHHhcCCCCCceeEEEEcCCCCCCCh-h
Q 001806 20 AEEERLRQEFEREGRKLPPKSDSQVFDSNV---ITPGTEFMAVLSIALQYYIHLRLNNDPGWEKIKVILSDANVPGEG-E 95 (1010)
Q Consensus 20 ~~~e~lr~e~~~~G~~lp~~~~~~~FDSN~---ITPGT~FM~~Ls~~L~yyI~~Kl~~Dp~W~~lkVIlSds~VPGEG-E 95 (1010)
...|++++++.+||---+..+..-+|.+.| ||.=| +.+|+..++ .+ ...|..++||+....|=||| .
T Consensus 108 ~~~E~lK~kL~aEGlFd~~~KkpLP~~p~~IGVITS~t------gAairDIl~-~~--~rR~P~~~viv~pt~VQG~~A~ 178 (440)
T COG1570 108 LAFEQLKAKLAAEGLFDPERKKPLPFFPKKIGVITSPT------GAALRDILH-TL--SRRFPSVEVIVYPTLVQGEGAA 178 (440)
T ss_pred HHHHHHHHHHHhCCCcChhhcCCCCCCCCeEEEEcCCc------hHHHHHHHH-HH--HhhCCCCeEEEEeccccCCCcH
Confidence 456789999999995333333445677776 67655 567777554 33 34588899999999999987 7
Q ss_pred HHHHHHHHhhccCC
Q 001806 96 HKIMSYVRLQRNLP 109 (1010)
Q Consensus 96 HKImdfIR~qr~~p 109 (1010)
+-|..-|+.-....
T Consensus 179 ~eIv~aI~~an~~~ 192 (440)
T COG1570 179 EEIVEAIERANQRG 192 (440)
T ss_pred HHHHHHHHHhhccC
Confidence 88999999866544
No 30
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=22.26 E-value=62 Score=39.32 Aligned_cols=70 Identities=23% Similarity=0.382 Sum_probs=40.3
Q ss_pred CCCC-CChhHHHHHHHHhhccCCCCCCCC--cEEEEccChhHHHHHhhcCCceEEEeeeccccCCCCccccccCCCCCcc
Q 001806 88 ANVP-GEGEHKIMSYVRLQRNLPGYDPNT--RHCLYGLDADLIMLALATHEVHFSILREVVFTPGQQDKCFLCGQPGHLA 164 (1010)
Q Consensus 88 s~VP-GEGEHKImdfIR~qr~~p~ydPNt--rHcIYGlDADLImLgLaTHEp~f~ILREeVf~p~~~~~C~lCgQ~gH~~ 164 (1010)
..+| |-+|+|=+.-++..+..+.....+ .--+||.+ -|--.-+==| +++-...|++||..||.+
T Consensus 232 v~~~e~~n~l~~~Qlrela~lNgt~r~~d~~~c~~cg~~---------~H~q~~cp~r----~~~~~n~c~~cg~~gH~~ 298 (554)
T KOG0119|consen 232 VSVPEGQNDLKRLQLRELARLNGTLRDDDNRACRNCGST---------GHKQYDCPGR----IPNTTNVCKICGPLGHIS 298 (554)
T ss_pred ccCccccccccHHHHHHHHHhCCCCCccccccccccCCC---------ccccccCCcc----cccccccccccCCccccc
Confidence 3444 447999888888777766554322 22233333 2322222222 122223899999999999
Q ss_pred cccccc
Q 001806 165 ANCEGK 170 (1010)
Q Consensus 165 ~~c~g~ 170 (1010)
.+|.-.
T Consensus 299 ~dc~~~ 304 (554)
T KOG0119|consen 299 IDCKVN 304 (554)
T ss_pred ccCCCc
Confidence 999654
No 31
>smart00292 BRCT breast cancer carboxy-terminal domain.
Probab=21.64 E-value=1.4e+02 Score=24.83 Aligned_cols=66 Identities=9% Similarity=0.133 Sum_probs=44.9
Q ss_pred CceeEEEEcCCCCCCChhHHHHHHHHhhccC--CCCCC-CCcEEEEccChhHHHHHhhcCCceEEEeeec
Q 001806 78 WEKIKVILSDANVPGEGEHKIMSYVRLQRNL--PGYDP-NTRHCLYGLDADLIMLALATHEVHFSILREV 144 (1010)
Q Consensus 78 W~~lkVIlSds~VPGEGEHKImdfIR~qr~~--p~ydP-NtrHcIYGlDADLImLgLaTHEp~f~ILREe 144 (1010)
++++++.+++ +..++-=.++-+.|+..... ...++ .++|||.+-..+-..--.......+.|++++
T Consensus 3 f~g~~~~~~g-~~~~~~~~~l~~~i~~~Gg~~~~~~~~~~~thvi~~~~~~~~~~~~~~~~~~~~iV~~~ 71 (80)
T smart00292 3 FKGKVFVITG-KFDKNERDELKELIEALGGKVTSSLSSKTTTHVIVGSPEGGKLELLLAIALGIPIVTED 71 (80)
T ss_pred cCCeEEEEeC-CCCCccHHHHHHHHHHcCCEEecccCccceeEEEEcCCCCccHHHHHHHHcCCCCccHH
Confidence 5678899998 67788888888899887553 45666 8999999876654321122334555666653
No 32
>PRK05755 DNA polymerase I; Provisional
Probab=20.63 E-value=3.1e+02 Score=35.75 Aligned_cols=21 Identities=24% Similarity=0.407 Sum_probs=17.4
Q ss_pred HHHhhhhcc--cCCCCCCCcccc
Q 001806 226 FIFMCFFVG--NDFLPHMPTLEI 246 (1010)
Q Consensus 226 fVfLcffvG--NDFLPhLPsL~I 246 (1010)
|+-+|.|+| .|.+|.+|++-.
T Consensus 175 ~~d~~~L~GD~sDnipGv~GiG~ 197 (880)
T PRK05755 175 IIDYLALMGDSSDNIPGVPGIGE 197 (880)
T ss_pred HHHHHHHhCCccCCCCCCCCccH
Confidence 456999999 799999998653
Done!