Query 001209
Match_columns 1123
No_of_seqs 278 out of 564
Neff 4.6
Searched_HMMs 46136
Date Thu Mar 28 18:46:30 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001209.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/001209hhsearch_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 3E-271 7E-276 2310.9 64.2 806 1-869 1-810 (931)
2 COG5049 XRN1 5'-3' exonuclease 100.0 2E-217 5E-222 1839.0 50.5 773 1-825 1-817 (953)
3 KOG2045 5'-3' exonuclease XRN1 100.0 2E-183 5E-188 1578.9 37.8 640 1-719 1-655 (1493)
4 PF03159 XRN_N: XRN 5'-3' exon 100.0 3.9E-85 8.4E-90 699.9 17.1 237 1-255 1-237 (237)
5 cd00128 XPG Xeroderma pigmento 98.5 8.8E-07 1.9E-11 99.7 14.2 231 1-357 1-234 (316)
6 PTZ00217 flap endonuclease-1; 98.1 4.4E-05 9.6E-10 89.1 14.8 233 1-357 1-246 (393)
7 KOG2044 5'-3' exonuclease HKE1 98.0 9.1E-05 2E-09 90.4 16.3 86 788-876 704-791 (931)
8 PRK03980 flap endonuclease-1; 97.2 0.0096 2.1E-07 67.4 16.4 24 334-357 177-200 (292)
9 TIGR03674 fen_arch flap struct 95.9 0.085 1.8E-06 61.0 12.9 66 50-119 23-96 (338)
10 cd00008 53EXOc 5'-3' exonuclea 95.5 1.8 3.9E-05 47.9 21.0 57 50-107 3-62 (240)
11 smart00475 53EXOc 5'-3' exonuc 94.9 1.1 2.5E-05 50.1 17.2 56 51-107 4-61 (259)
12 PF00752 XPG_N: XPG N-terminal 93.6 0.059 1.3E-06 51.2 3.3 94 1-120 1-97 (101)
13 PRK14976 5'-3' exonuclease; Pr 93.1 2.1 4.6E-05 48.6 15.0 57 50-107 5-67 (281)
14 PF00867 XPG_I: XPG I-region; 91.2 0.44 9.6E-06 45.2 5.7 91 190-346 4-94 (94)
15 smart00485 XPGN Xeroderma pigm 90.8 0.52 1.1E-05 44.8 5.9 93 1-121 1-96 (99)
16 PF00098 zf-CCHC: Zinc knuckle 89.4 0.21 4.6E-06 34.4 1.4 17 262-278 1-17 (18)
17 COG0258 Exo 5'-3' exonuclease 87.1 26 0.00057 40.1 17.1 62 50-115 13-82 (310)
18 KOG2518 5'-3' exonuclease [Rep 86.5 3.4 7.4E-05 50.4 9.9 91 1-122 1-97 (556)
19 PRK05755 DNA polymerase I; Pro 86.2 18 0.00039 47.2 17.0 55 50-105 4-61 (880)
20 KOG2519 5'-3' exonuclease [Rep 84.8 14 0.0003 44.7 13.6 34 334-369 217-250 (449)
21 KOG0921 Dosage compensation co 81.0 16 0.00034 47.5 12.6 26 617-642 836-861 (1282)
22 TIGR00593 pola DNA polymerase 72.6 1E+02 0.0022 40.9 17.0 56 51-107 2-61 (887)
23 PF13696 zf-CCHC_2: Zinc knuck 72.1 1.5 3.3E-05 34.7 0.5 18 262-279 9-26 (32)
24 TIGR00600 rad2 DNA excision re 68.9 6.6 0.00014 51.8 5.4 40 190-242 785-824 (1034)
25 KOG1984 Vesicle coat complex C 65.5 2.6E+02 0.0057 36.9 17.7 20 885-904 38-57 (1007)
26 TIGR00600 rad2 DNA excision re 60.2 29 0.00064 46.1 8.8 89 1-120 1-94 (1034)
27 smart00157 PRP Major prion pro 56.9 23 0.0005 38.4 5.9 33 977-1014 6-38 (217)
28 cd00080 HhH2_motif Helix-hairp 48.7 17 0.00037 33.5 3.0 22 334-355 8-31 (75)
29 PF12287 Caprin-1_C: Cytoplasm 38.4 1.4E+02 0.0031 34.8 8.8 41 977-1017 225-272 (316)
30 smart00279 HhH2 Helix-hairpin- 33.9 30 0.00066 28.0 2.0 20 334-354 2-21 (36)
31 smart00343 ZnF_C2HC zinc finge 33.6 20 0.00044 26.4 0.9 16 263-278 1-16 (26)
32 PF02739 5_3_exonuc_N: 5'-3' e 31.0 1.6E+02 0.0034 31.3 7.3 56 51-107 4-63 (169)
33 KOG4822 Predicted nuclear memb 30.9 5.9E+02 0.013 34.9 13.1 60 1034-1094 1807-1869(1906)
34 PF15288 zf-CCHC_6: Zinc knuck 28.2 29 0.00063 29.1 1.0 15 262-276 2-16 (40)
35 PF13917 zf-CCHC_3: Zinc knuck 28.1 32 0.0007 29.0 1.2 19 261-279 4-22 (42)
36 PF06756 S19: Chorion protein 24.5 46 0.001 30.6 1.7 29 984-1016 15-43 (74)
37 KOG0119 Splicing factor 1/bran 24.1 43 0.00094 41.0 1.8 66 202-280 237-304 (554)
38 PF14392 zf-CCHC_4: Zinc knuck 23.7 32 0.00069 29.3 0.5 19 260-278 30-48 (49)
39 KOG0921 Dosage compensation co 23.7 4.9E+02 0.011 34.9 10.7 12 622-633 853-864 (1282)
40 smart00484 XPGI Xeroderma pigm 23.5 41 0.00089 31.2 1.2 35 200-243 10-44 (73)
41 COG5082 AIR1 Arginine methyltr 21.2 41 0.00089 36.6 0.8 18 261-278 60-77 (190)
No 1
>KOG2044 consensus 5'-3' exonuclease HKE1/RAT1 [Replication, recombination and repair; RNA processing and modification]
Probab=100.00 E-value=3.1e-271 Score=2310.88 Aligned_cols=806 Identities=58% Similarity=0.973 Sum_probs=722.4
Q ss_pred CcchhHHHHHHhhCCcccccccccCccccCCccccCCCCCCCCCCCccCeEEEeccccccccccCCCCCCCCCHHHHHHH
Q 001209 1 MGVPAFYRWLAEKYPLVVADVIEEEPVVIDGVKIPVDTSKPNPNGLEYDNLYLDMNGIIHPCFHPEDRPAPTTFDEVFQC 80 (1123)
Q Consensus 1 MGVP~FfRWL~~rYP~ii~~viE~~~~~~dG~~iP~d~s~pNPNg~efDNLYLDMNGIIHpC~Hpe~~p~p~te~Emf~~ 80 (1123)
||||+|||||++|||++|++|+|++|+++||+.||+|.|+|||||+||||||||||||||||+|||++|+|+||+|||++
T Consensus 1 MGVPaffRWLs~kyp~~I~~viEe~p~~~~g~~ip~D~s~pNPNg~E~DNLYLDMNGIIHPC~HPEdkPaP~tedEm~~a 80 (931)
T KOG2044|consen 1 MGVPAFFRWLSRKYPKTISPVIEEEPVDVDGVKIPVDYSKPNPNGVEFDNLYLDMNGIIHPCTHPEDKPAPETEDEMFVA 80 (931)
T ss_pred CCchHHHHHHHHhcchhhhhhhhcCcccCCCcccccccCCCCCCcccccceeeecCcccccCCCCCCCCCCccHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhhccccceEEEEecCCCchhhhHHHHhhhccchhHHHhHHHHHHHHHHHHHHhCCCCCCCCCCCCCccCcc
Q 001209 81 MFDYIDRLFVMVRPRKLLYMAIDGVAPRAKMNQQRSRRFRASKDAADSAAEEERLRQEFEREGRKLPPKSDSQVFDSNVI 160 (1123)
Q Consensus 81 If~yIDrL~~iVRPrKlLyiAIDGVAPRAKMNQQRsRRFrsakea~~~~~~~~~l~~e~~~eg~~lp~~~~~~~fDSN~I 160 (1123)
||+||||||.||||||||||||||||||||||||||||||||||+.++++|++++++|++.+|..||++.++++||||||
T Consensus 81 vFeyiDrlf~mvRPRkLLymAIDGVAPRAKMNQQRsRRFRaaKeaae~~~e~e~~ree~~~~G~~lpp~~~~e~fDSNcI 160 (931)
T KOG2044|consen 81 VFEYIDRLFSMVRPRKLLYMAIDGVAPRAKMNQQRSRRFRAAKEAAEKEAEIERLREEFEAEGKFLPPKVKKETFDSNCI 160 (931)
T ss_pred HHHHHHHHHHhccchheeEEeecccCchhhhhHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcCCcCCchhhccccccCcc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCcHHHHHHHHHHHHHHHHHhcCCCCCcccEEEEcCCCCCCChhhhHHHHHHHhhcCCCCCCCCcEEEEecChhHHHHH
Q 001209 161 TPGTEFMAVLSIALQYYIHLRLNNDPGWEKIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLA 240 (1123)
Q Consensus 161 TPGT~FM~kLs~~L~~yI~~kl~~Dp~W~~lkVIlSda~VPGEGEHKImdfIR~qr~~p~ydPNt~HcIYGlDADLImLg 240 (1123)
||||+||++|+.+|+|||+.||++||+|+||+||||||+||||||||||+|||+||++|+|||||+|||||+||||||||
T Consensus 161 TPGTpFM~~La~aLrYyI~~rLn~DPgWkNikvIlSDAnVPGEGEHKIM~yIR~QR~~P~~dPNT~HclyGlDADLImLg 240 (931)
T KOG2044|consen 161 TPGTPFMDRLAKALRYYIHDRLNSDPGWKNIKVILSDANVPGEGEHKIMSYIRSQRAQPGYDPNTHHCLYGLDADLIMLG 240 (931)
T ss_pred CCCChHHHHHHHHHHHHHHHhhcCCccccceEEEEecCCCCCcchhHHHHHHHHccCCCCCCCCceeeeecCCccceeee
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhcCCceEEEcccccccCCCCCcccccCCCCCcccccccccccccCCCCcCCCcccCCCCCeEEEehhHHHHHHHHHhcC
Q 001209 241 LATHEVHFSILREVVFTPGQQDKCFLCGQPGHLAANCEGKAKRKAGEFDEKGDEVVVPKKPYQFLHIWTLREYLDYEFRI 320 (1123)
Q Consensus 241 LatHep~f~ILRE~Vf~~~~~~~c~~cgQ~gH~~~~c~g~~k~k~~e~~e~~~~~~~~~~~f~~l~I~vLREYL~~El~~ 320 (1123)
|||||+||+||||+|| |+++++|++|||+||.+++|.|+.+ .++.++..+.. ..+++|+||+||||||||+.||.+
T Consensus 241 LATHE~hF~IlRE~~~-P~~~~~C~~cgq~gh~~~dc~g~~~--~~~~~~~~~~~-~~ek~fifl~I~vLREYLe~El~~ 316 (931)
T KOG2044|consen 241 LATHEPHFSILREEFF-PNKPRRCFLCGQTGHEAKDCEGKPR--LGETNELADVP-GVEKPFIFLNISVLREYLERELRM 316 (931)
T ss_pred ccccCCceEEeeeeec-CCCcccchhhcccCCcHhhcCCcCC--cccccccccCc-ccccceEEEEHHHHHHHHHHHhcC
Confidence 9999999999999976 9999999999999999999999865 56666666544 789999999999999999999999
Q ss_pred CCCCCccchhhhhhHHHHhhhhcccCCCCCCCccccccchHHHHHHHHHHHHHhcCCccccCCccCHHHHHHHHHHHhhh
Q 001209 321 PNPPFEIDLECIVDDFIFMCFFVGNDFLPHMPTLEIREGAINLLMAVYKKEFRALGGYLTDGSKPSLRRVEHFIQAVGSY 400 (1123)
Q Consensus 321 ~~~pf~~DlERiIDDfVfLcffvGNDFLPhLPsLeIreGaID~Li~iYKk~Lp~~ggYLT~~G~INl~rl~~fl~~L~~~ 400 (1123)
|++||+||+||+||||||||||||||||||||||||||||||+|+++||+.|++|+||||++|.|||.||+.||+.||.+
T Consensus 317 p~lPf~fd~ER~iDDwVF~CFFvGNDFLPHlPsLeIRegAId~L~~iyk~~~~~~kgYLT~~g~vNL~rve~~~~avg~~ 396 (931)
T KOG2044|consen 317 PNLPFTFDLERAIDDWVFLCFFVGNDFLPHLPSLEIREGAIDRLMEIYKKSFPKMKGYLTDSGKVNLDRVEMFMQAVGSV 396 (931)
T ss_pred CCCCccccHHhhhcceEEEEeeecCccCCCCCchhhhhcHHHHHHHHHHHHHHhhcceeccCCcccHHHHHHHHHHHhhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCccccccccCCCCCCCCCCCCCccccccccccCCCCCCCCC
Q 001209 401 EDRIFQKRARLHQRHAERIKREKAQARRGDDVEPLAQPDSLVPVSRFHGSRLASGPSPSPYQQSECVGRLDNGKGTSGRP 480 (1123)
Q Consensus 401 Ed~iF~~r~~~e~r~~e~~kr~k~~~~~~~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 480 (1123)
||+||++|. |++|+.+|+|+..++.+..+ ++++ .+.++.....+ ..+...
T Consensus 397 Ed~IFkkR~----r~~e~frrrk~~rk~~~~~~------------~~sg-~~~~~~~~~~~-------------~~~~p~ 446 (931)
T KOG2044|consen 397 EDDIFKKRQ----RREERFRRRKAARKRQDRNA------------QDSG-TNFSLAGSREL-------------EASEPA 446 (931)
T ss_pred cchHHHHhH----hHHHHHHHhhhhhhhhhhhc------------cccc-ccccccccccc-------------cccchh
Confidence 999999994 45566666555333322211 1222 11111111000 012223
Q ss_pred CcccccCCCcchhhHHHhhhccCCCCccccHHHHHHHHHHHHhhhcccCCCCCcchhhhccCCCchhHHHHHHhcCCCCh
Q 001209 481 HKVPRLSSGATIGAAIVEAENSFETDPQENKEEFKAKLKELLRDKSDAFNSDNPEEDKVKLGEPGWKERYYEEKFNAKTP 560 (1123)
Q Consensus 481 ~k~~~~s~~~~~~~~~~~~e~~~~~~~~~~~eelk~~l~~~~~~k~d~~~~~~~~eD~VkL~e~g~K~rYY~~KF~v~~~ 560 (1123)
+++.+++..++.++++++ .++.++++.+++...+++++.+++++..+|+|||||+|||+|||++||++++.
T Consensus 447 ~~~~~~~~~~~~~~~~~~---------~~~~e~~~~~~~~~~~~k~~~~~~~~~~~D~VkL~e~G~keRYY~~KF~v~~~ 517 (931)
T KOG2044|consen 447 QKALKVSLEKNESAANVE---------RDNTEDLKTKLKHGQRRKSEDSESEEENTDKVKLYEPGWKERYYEEKFDVTPD 517 (931)
T ss_pred hhhhhhccccccchhhhc---------ccchhhccccccccccccCccccCCCCCCcceeecCCchhhhhhhhhcCCCCH
Confidence 345556666667766663 24566777777888888888888888999999999999999999999999876
Q ss_pred hHHHHHHHHHHHHHHhhHHHHhhhhccCcCcccccccCCCCcccccccccccccceecCCCCCChhhhhhhcCCCCCCCC
Q 001209 561 EEREETRKDVVLRYTEGLCWVMHYYYEGVCSWQWFYPYHYAPFASDLKDLDQFNISFELGHPFKPFNQLLGVFPSASSHA 640 (1123)
Q Consensus 561 ~di~~~r~~vv~~YvEGL~WVL~YYyqGcpSW~WYYPYHYAPfaSDl~~l~~~~i~Fe~G~Pf~PfEQLMsVLPaaS~~~ 640 (1123)
+ ++||++||++|||||||||+||||||+||+||||||||||||||++|..++|+|++|+||+||||||+||||||+++
T Consensus 518 e--eq~R~~vv~~YveGLcWVl~YYyqGc~SW~WyYPYHYAPfAsDf~~l~~ldikFe~g~PFkP~eQLmgVlPAAS~~~ 595 (931)
T KOG2044|consen 518 E--EQIRKDVVLKYVEGLCWVLRYYYQGCASWNWYYPYHYAPFASDFKGLSDLDIKFELGKPFKPLEQLMGVLPAASSHA 595 (931)
T ss_pred H--HHHHHHHHHHHhcchhhhhhhhhccccccccccccccchhhhhhhcccccccccccCCCCCcHHHHhhhcchhhcCC
Confidence 6 78999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CcHHHHhhhcCCCCCCcccCCCcccccCCCCcccccceeccCCCChHHHHHHHHhhcCCCCHHHHhhccCCCcEEEEecC
Q 001209 641 LPEHYRKLMTDPNSPISDFYPTDFEVDMNGKRYSWQGIAKLPFIDEARLLDEVKKIEHTLTEEEARRNSIMADMLFVLLS 720 (1123)
Q Consensus 641 LP~~~r~LMtdp~SpIiDFYP~dF~ID~NGKk~~WqGVaLLPFIDe~rLl~a~~~~~~~LT~eE~~RN~~g~d~Lfv~~~ 720 (1123)
||+.||+||+||+||||||||+||+||||||||+||||||||||||+|||+|++++|++||+||++||++|.|+|||+.+
T Consensus 596 LPe~~r~LMsdpdSpIiDFYPedF~iDmNGKk~aWQGIalLPFiDe~rLl~a~~~~y~~Lt~EE~~RN~rg~d~Lfi~~~ 675 (931)
T KOG2044|consen 596 LPEEWRKLMSDPDSPIIDFYPEDFEIDMNGKKYAWQGIALLPFIDERRLLSAVAKVYPTLTDEEKRRNSRGPDLLFISDK 675 (931)
T ss_pred CcHHHHhhhcCCCCcccccccccceeeccCceeeccccccccccchhhHHHHHHhhccccCHHHHhccccCCceEEecCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCcchhhhhhhhHhhhhhhhhhhhhhhcCCCCccccCCCceEEEecCCCCCCCCcccCCCCCCcCCCCCeEEEEEecCCC
Q 001209 721 HPLSASIYTLDEHCKQLKIKERVEVKERLNPELSMCSDGMNGYISPCAGDPHPPVFRSPVASMEDIMGNQVLCAIYKLPD 800 (1123)
Q Consensus 721 ~~l~~~i~~l~~~~~~~~~~~~~~~~~~i~~~~~~~~~G~~G~v~~~~~~~~~~~~~sPi~~l~di~~n~~~~~~y~~P~ 800 (1123)
||++++|.+||..+++ ...++ .++-..+ +.|++|.++++.......++.||+..+-++..+..++++|..|.
T Consensus 676 hp~~e~i~~lysk~k~-~~~~~----v~~~~~~---~p~~~~~~~~~~~~~~~~i~~~p~~~~~~~~~~~~v~~~~~~~~ 747 (931)
T KOG2044|consen 676 HPLFEFILQLYSKKKK-SNEKN----VKLAHGV---DPGLNGAISKDPEGLESGISKSPPGGLSDYNTNTGVCLKYVDPE 747 (931)
T ss_pred CchHHHHHHHHHhhcc-Ccccc----ccccccc---CcccceeeccCccccccccccCChhhcccCCccceeeecccCcc
Confidence 9999999988877655 22221 1333333 67999999998766546778899999999999999999999998
Q ss_pred CCC---CCCCCCCCCCcCCCCCCcccCCCCCcccCCCCCCCCCCCC-CCCCCCCCCCCccchhhhHHHHhhcc
Q 001209 801 AHK---HVTRPPAGVIFPKKIVQLEDLKPAPVLWHEDSGRRPHENG-RHNPHGTISGRQLGEAAHRLVANSLQ 869 (1123)
Q Consensus 801 ~~~---h~s~ll~g~~~p~~~l~~~d~~~~~~lw~~~~~~~~~~~~-~~~~~~~~~~~~l~~a~~r~~~~~~~ 869 (1123)
.+. -.++.|+|++.|.++|+ |-||...++ ..+.++ +|+.. ..++.+..+|||.|.+.+.
T Consensus 748 ~~ed~~~~a~~l~G~~~p~~~lk-------P~dwn~sR~-~~~~~~~~~~~~--~~~~~~~~~~~~~v~~~~~ 810 (931)
T KOG2044|consen 748 YPEDYIFPAIRLDGAKEPEKVLK-------PDDWNDRRD-GRYQPQAGFNRN--APRGSLPQSGHRQVHHYVR 810 (931)
T ss_pred ccccccchhhhcCCCCCCccccC-------cchhhhhhh-hhcCcccccccC--CCCCcCCcccccccCcCCC
Confidence 742 25888999999999988 457775533 334455 77766 5588999999999988887
No 2
>COG5049 XRN1 5'-3' exonuclease [DNA replication, recombination, and repair / Cell division and chromosome partitioning / Translation]
Probab=100.00 E-value=2.5e-217 Score=1839.00 Aligned_cols=773 Identities=43% Similarity=0.772 Sum_probs=610.9
Q ss_pred CcchhHHHHHHhhCCcccccccccCccccCCccccCCCCCCCCCCCccCeEEEeccccccccccCCCCCCCCCHHHHHHH
Q 001209 1 MGVPAFYRWLAEKYPLVVADVIEEEPVVIDGVKIPVDTSKPNPNGLEYDNLYLDMNGIIHPCFHPEDRPAPTTFDEVFQC 80 (1123)
Q Consensus 1 MGVP~FfRWL~~rYP~ii~~viE~~~~~~dG~~iP~d~s~pNPNg~efDNLYLDMNGIIHpC~Hpe~~p~p~te~Emf~~ 80 (1123)
||||+|||||++|||+||+.+.|+ +|| +|||||||||||||+|+||+++++|.||+||+.+
T Consensus 1 MGVPsfFRwlS~r~p~ii~~I~e~----------------~~P---~~DNLYLDMNgIlH~CtHp~d~~~petEeEm~~a 61 (953)
T COG5049 1 MGVPSFFRWLSERYPKIIQLIEEK----------------QIP---EFDNLYLDMNGILHNCTHPNDGSPPETEEEMYKA 61 (953)
T ss_pred CCchHHHHHHHhhhhHhhhhhhcc----------------CCC---CcceeEEecccccccCCCCCCCCCCCCHHHHHHH
Confidence 999999999999999999987653 355 4699999999999999999999999999999999
Q ss_pred HHHHHHHHHhhccccceEEEEecCCCchhhhHHHHhhhccchhHHHhHHHHHHHHHHHHHHh----CCCCCCC-CCCCCC
Q 001209 81 MFDYIDRLFVMVRPRKLLYMAIDGVAPRAKMNQQRSRRFRASKDAADSAAEEERLRQEFERE----GRKLPPK-SDSQVF 155 (1123)
Q Consensus 81 If~yIDrL~~iVRPrKlLyiAIDGVAPRAKMNQQRsRRFrsakea~~~~~~~~~l~~e~~~e----g~~lp~~-~~~~~f 155 (1123)
||+|||+|+.++|||||||||||||||||||||||+||||+|+||..++.+.++-.+++..+ |..+... ..++.|
T Consensus 62 Vf~Yidhil~~irPrKllymAVDGvAPRAKMNQQRaRRFRsAkda~~A~~Kae~~~e~~~e~~~e~g~~id~~~~~kk~f 141 (953)
T COG5049 62 VFEYIDHILLKIRPRKLLYMAVDGVAPRAKMNQQRARRFRSAKDASAAALKAEPNGEEIPEEKDEIGNEIDTIDVEKKKF 141 (953)
T ss_pred HHHHHHHHHHhcCcceEEEEEecccCchhhhhHHHHHhhhhhhhhHHHHhhccccccccchhccccCCccchhhhhhccc
Confidence 99999999999999999999999999999999999999999999777655544333333322 2222221 346789
Q ss_pred ccCcccCCcHHHHHHHHHHHHHHHHHhcCCCCCcccEEEEcCCCCCCChhhhHHHHHHHhhcCCCCCCCCcEEEEecChh
Q 001209 156 DSNVITPGTEFMAVLSIALQYYIHLRLNNDPGWEKIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDAD 235 (1123)
Q Consensus 156 DSN~ITPGT~FM~kLs~~L~~yI~~kl~~Dp~W~~lkVIlSda~VPGEGEHKImdfIR~qr~~p~ydPNt~HcIYGlDAD 235 (1123)
|||||||||+||++|++.|+|||+.||++||.|+|++|||||+.||||||||||+|||+||++|+|||||+|||||+|||
T Consensus 142 DSNcITPGTpFMerLak~L~Y~i~~KlssDp~Wrnl~iI~S~~~vPGEGEHKIM~FIRsqkaqp~ynpNT~HciYGLDAD 221 (953)
T COG5049 142 DSNCITPGTPFMERLAKVLRYYIHCKLSSDPEWRNLRIIFSGHLVPGEGEHKIMNFIRSQKAQPSYNPNTRHCIYGLDAD 221 (953)
T ss_pred cccCCCCCChHHHHHHHHHHHHHHhhhcCCccceeEEEEEecCcCCCccHHHHHHHHHhcccCCCcCCCceeEEeccCcc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhcCCceEEEcccccccCCC---CCcccccCCCCCcccccccccccccCCCCcCCCcccCCCCCeEEEehhHHHH
Q 001209 236 LIMLALATHEVHFSILREVVFTPGQ---QDKCFLCGQPGHLAANCEGKAKRKAGEFDEKGDEVVVPKKPYQFLHIWTLRE 312 (1123)
Q Consensus 236 LImLgLatHep~f~ILRE~Vf~~~~---~~~c~~cgQ~gH~~~~c~g~~k~k~~e~~e~~~~~~~~~~~f~~l~I~vLRE 312 (1123)
||||||+||+|||.||||+||++.. +++|..||.+||....|. .....+|.||||++|||
T Consensus 222 LImLGLstH~PHF~iLREdVff~~~~~~k~k~~~~g~t~~~~e~~k-----------------~~~~q~F~~LhiSlLRE 284 (953)
T COG5049 222 LIMLGLSTHEPHFLILREDVFFGSKSRRKRKCTKCGRTGHSDEECK-----------------VLTHQPFYLLHISLLRE 284 (953)
T ss_pred ceeeecccCCCeeEEeechhccCcccccccccccccccccchhhhc-----------------ccccCceEEEEHHHHHH
Confidence 9999999999999999999999853 468999999999888873 23457899999999999
Q ss_pred HHHHHhcCCCCCCccchhhhhhHHHHhhhhcccCCCCCCCccccccchHHHHHHHHHHHHHhcCCccccCCccCHHHHHH
Q 001209 313 YLDYEFRIPNPPFEIDLECIVDDFIFMCFFVGNDFLPHMPTLEIREGAINLLMAVYKKEFRALGGYLTDGSKPSLRRVEH 392 (1123)
Q Consensus 313 YL~~El~~~~~pf~~DlERiIDDfVfLcffvGNDFLPhLPsLeIreGaID~Li~iYKk~Lp~~ggYLT~~G~INl~rl~~ 392 (1123)
||+.||..+++||.||+|||||||||||||||||||||||+|+||+|||++|++|||+.||.||||||++|.|||.||+.
T Consensus 285 YLe~Ef~~~~~~ftfdlERilDDwIf~~FfvGNDFLPhLP~Ldir~gai~~l~ei~k~~lp~~~gYit~~G~iNl~rle~ 364 (953)
T COG5049 285 YLEREFREPTLPFTFDLERILDDWIFLCFFVGNDFLPHLPCLDIREGAIETLTEIWKKSLPHMKGYITCDGVINLARLEV 364 (953)
T ss_pred HHHHHhhccCCCccccHHHhhhhheeeeeeeccccCCCCCccccccchHHHHHHHHHHHhhhcCceeecCceecHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhcC--CCCCCC---CCCCC---ccc--cccccCCCCCCCCCCCCCc
Q 001209 393 FIQAVGSYEDRIFQKRARLHQRHAERIKREKAQARRG--DDVEPL---AQPDS---LVP--VSRFHGSRLASGPSPSPYQ 462 (1123)
Q Consensus 393 fl~~L~~~Ed~iF~~r~~~e~r~~e~~kr~k~~~~~~--~~~~~~---~~~~~---~~p--~~~~~~~~l~~~~~~~~~~ 462 (1123)
||..|+.+|+.||+++..+++|..+...+.++++.+. ....+. .+.+. +.+ +..+...+....+.+. +
T Consensus 365 ~L~~L~~~E~~iFk~~~~qe~r~ne~~~~~~~~k~~~e~~~~~~~vv~eq~~~~gS~k~t~~d~~~~kk~~~l~~e~-~- 442 (953)
T COG5049 365 ILAILGSFEDDIFKKDHIQEERKNESLERFSLRKERKEGLKGMPRVVYEQKKLIGSIKPTLMDQLQEKKSPDLPDEE-F- 442 (953)
T ss_pred HHHHHhhhhcchhhhhhhHhhhhccchhhHHHHhhhhhhhcccchhhhhhhhhcccccchhhhhhhhhccccCCCcc-c-
Confidence 9999999999999999988888777666655443221 111110 01000 000 0000000000000000 0
Q ss_pred cccccccccCCCCCCCCCCcc--cccC--CCcchhhHHHhh-----hcc-CCCCccccHHHHH--HHH-HHHHhhhc-cc
Q 001209 463 QSECVGRLDNGKGTSGRPHKV--PRLS--SGATIGAAIVEA-----ENS-FETDPQENKEEFK--AKL-KELLRDKS-DA 528 (1123)
Q Consensus 463 ~~~~~~~~~~~~~~~~~~~k~--~~~s--~~~~~~~~~~~~-----e~~-~~~~~~~~~eelk--~~l-~~~~~~k~-d~ 528 (1123)
.+.+..-+..+...+.. .++. .+..++.++... +.. ......+.+++.. ... .++.+++. +.
T Consensus 443 ----id~~a~~k~~d~kn~el~~~~~~ndl~ls~ska~ks~~n~~le~~iasds~~ed~ee~ese~d~i~~i~dk~vn~~ 518 (953)
T COG5049 443 ----IDTLALPKDLDMKNHELFLKRFANDLGLSISKAIKSKGNYSLEMDIASDSPDEDEEEFESEVDSIRKIPDKYVNII 518 (953)
T ss_pred ----cchhhchhhhhhhhhHHHHHHHHhhhhhhHHhhhhccCCchhhhhhhccccccchhhhhhccchhhhhhhhhhccc
Confidence 00000000000000000 0000 000111110000 000 0000001111111 011 11111111 11
Q ss_pred --CCCCCcchhhhccCCCchhHHHHHHhcCCCChhHHHHHHHHHHHHHHhhHHHHhhhhccCcCcccccccCCCCccccc
Q 001209 529 --FNSDNPEEDKVKLGEPGWKERYYEEKFNAKTPEEREETRKDVVLRYTEGLCWVMHYYYEGVCSWQWFYPYHYAPFASD 606 (1123)
Q Consensus 529 --~~~~~~~eD~VkL~e~g~K~rYY~~KF~v~~~~di~~~r~~vv~~YvEGL~WVL~YYyqGcpSW~WYYPYHYAPfaSD 606 (1123)
.+.++..+++|+|.++|||+|||.+||++++ ++.+++| +||++|||||||||.|||+|||||+|||||||||+|+|
T Consensus 519 v~ee~e~~~~~Tv~l~~~g~~erYY~~K~~~t~-~~~E~ir-dm~k~YVeGL~WVL~YYY~GC~SW~WyYpyHyAP~aaD 596 (953)
T COG5049 519 VEEEEENETEKTVNLRFPGWKERYYTSKLHFTT-DSEEKIR-DMAKEYVEGLQWVLSYYYRGCPSWDWYYPYHYAPLAAD 596 (953)
T ss_pred cccchhcccccchhhcccchhhhhhhhhcCCCc-CCHHHHH-HHHHHHhhhhhhhhhhhhcCCCCcccccccccchhhhh
Confidence 1223455789999999999999999999965 5556776 89999999999999999999999999999999999999
Q ss_pred ccccccccceecCCCCCChhhhhhhcCCCCCCCCCcHHHHhhhcCCCCCCcccCCCcccccCCCCcccccceeccCCCCh
Q 001209 607 LKDLDQFNISFELGHPFKPFNQLLGVFPSASSHALPEHYRKLMTDPNSPISDFYPTDFEVDMNGKRYSWQGIAKLPFIDE 686 (1123)
Q Consensus 607 l~~l~~~~i~Fe~G~Pf~PfEQLMsVLPaaS~~~LP~~~r~LMtdp~SpIiDFYP~dF~ID~NGKk~~WqGVaLLPFIDe 686 (1123)
|.++...+|+|++|+||+||||||+||||+|+++||++||.||+|++||||||||++|.+|||||+++||||||||||||
T Consensus 597 ~~k~~~~dIkFe~g~PF~P~EQLm~VLPa~Sk~~vP~~fr~LM~d~~S~IiDFYPe~f~lD~NGK~~~Wq~VvLlpFiDe 676 (953)
T COG5049 597 LSKLSDNDIKFELGTPFRPFEQLMAVLPARSKNLVPEGFRPLMDDEKSPIIDFYPEEFKLDMNGKTASWQAVVLLPFIDE 676 (953)
T ss_pred hhhcccceeeecCCCCCCcHHHHHhhcchhhcCcCchhhhhhhcCCCCcccccchhhcccccCCceeeeeeeEEeeecch
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhhcCCCCHHHHhhccCCCcEEEEecCCCcchhhhhhhhHhhhhhhhhhhhhhhcCCCCccccCCCceEEEec
Q 001209 687 ARLLDEVKKIEHTLTEEEARRNSIMADMLFVLLSHPLSASIYTLDEHCKQLKIKERVEVKERLNPELSMCSDGMNGYISP 766 (1123)
Q Consensus 687 ~rLl~a~~~~~~~LT~eE~~RN~~g~d~Lfv~~~~~l~~~i~~l~~~~~~~~~~~~~~~~~~i~~~~~~~~~G~~G~v~~ 766 (1123)
+|||+||++++++||+||++||.+|.++||+++.++- |...+++++++........++.. ++-.|+.|.|..
T Consensus 677 ~RLl~A~~~~~~~Ls~eE~~RN~~g~~llf~s~~~~~------~~~l~~~lysk~~~~~~~~m~~~--~~~~GL~g~v~~ 748 (953)
T COG5049 677 RRLLSAVAVKYPTLSEEERKRNLRGLDLLFSSNKKSD------LSELFKDLYSKCKQKEYITMCSK--ESPYGLFGTVKL 748 (953)
T ss_pred hHHHHHHHhhcccCCHHHHhccccCCceeEeccCCcc------HHHHHHHHHHhhccCCceeeecc--cccccccccccc
Confidence 9999999999999999999999999999999998874 23444555554433222333332 334599999988
Q ss_pred C-CCCCCCCcccCCCC--CCc------CCCCCeEEEEEecCCCC-CCCCCCCCCCCCcCCCCCCcccCC
Q 001209 767 C-AGDPHPPVFRSPVA--SME------DIMGNQVLCAIYKLPDA-HKHVTRPPAGVIFPKKIVQLEDLK 825 (1123)
Q Consensus 767 ~-~~~~~~~~~~sPi~--~l~------di~~n~~~~~~y~~P~~-~~h~s~ll~g~~~p~~~l~~~d~~ 825 (1123)
. ++..+...+.+|+. .++ .++.|+++.+.+.+|.. ..|++++++||+.|-.+|++-+++
T Consensus 749 ~ae~~~pn~~~lcp~~~~s~~~l~~~~~~~~n~S~~lv~~~pks~~~~ksi~~rg~~~~~~vl~py~~e 817 (953)
T COG5049 749 GAEGLAPNLLSLCPISFLSYPGLMVFLEYSKNQSARLVIEDPKSTVTNKSIVLRGFIKPINVLWPYLRE 817 (953)
T ss_pred ccccccccccccCccccccccchhhhcccccCCceEEEeeccccccchHHHHHHhcCCccccCCHHHHH
Confidence 6 33444456667874 222 35678999999999986 589999999999999999987776
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=2.2e-183 Score=1578.94 Aligned_cols=640 Identities=45% Similarity=0.780 Sum_probs=501.4
Q ss_pred CcchhHHHHHHhhCCcccccccccCccccCCccccCCCCCCCCCCCccCeEEEeccccccccccCCCC--CCCCCHHHHH
Q 001209 1 MGVPAFYRWLAEKYPLVVADVIEEEPVVIDGVKIPVDTSKPNPNGLEYDNLYLDMNGIIHPCFHPEDR--PAPTTFDEVF 78 (1123)
Q Consensus 1 MGVP~FfRWL~~rYP~ii~~viE~~~~~~dG~~iP~d~s~pNPNg~efDNLYLDMNGIIHpC~Hpe~~--p~p~te~Emf 78 (1123)
||||.||||+++|||++.. +|| +.+|| ||||||||||||||+|+||+|. ..+.||||||
T Consensus 1 MGvPKFfR~iSERyP~lse-lie-------e~qIP-----------EFDNLYLDMNgIlHNCsH~nDddvt~rLtEeEif 61 (1493)
T KOG2045|consen 1 MGVPKFFRYISERYPCLSE-LIE-------EHQIP-----------EFDNLYLDMNGILHNCSHPNDDDVTFRLTEEEIF 61 (1493)
T ss_pred CCchHHHHHhhhhchHHHH-Hhh-------hccCC-----------cccceeeecccccccCCCCCCCccCcCCCHHHHH
Confidence 9999999999999998854 554 46787 9999999999999999999875 3478999999
Q ss_pred HHHHHHHHHHHhhccccceEEEEecCCCchhhhHHHHhhhccchhHHHhHHHHHHHHHHHHHHhCCCCCCCCCCCCCccC
Q 001209 79 QCMFDYIDRLFVMVRPRKLLYMAIDGVAPRAKMNQQRSRRFRASKDAADSAAEEERLRQEFEREGRKLPPKSDSQVFDSN 158 (1123)
Q Consensus 79 ~~If~yIDrL~~iVRPrKlLyiAIDGVAPRAKMNQQRsRRFrsakea~~~~~~~~~l~~e~~~eg~~lp~~~~~~~fDSN 158 (1123)
.+||+|||+||.++||+||+|||||||||||||||||+||||+|++|+.+.++ .+..|+..|. +.||||
T Consensus 62 ~~IfnYIdhLf~~IkPqKlffMAVDGvAPRAKMNQQRsRRFrTArdAe~qlaK-------A~enGe~~p~----erFDSN 130 (1493)
T KOG2045|consen 62 QEIFNYIDHLFYLIKPQKLFFMAVDGVAPRAKMNQQRSRRFRTARDAEQQLAK-------AAENGELRPH----ERFDSN 130 (1493)
T ss_pred HHHHHHHHHHHHhhCcceEEEEeecccCchhhhhHHHHHhhhhhhhHHHHHHH-------HHhccccCcc----cccccC
Confidence 99999999999999999999999999999999999999999999998765432 3456776663 689999
Q ss_pred cccCCcHHHHHHHHHHHHHHHHHhcCCCCCcccEEEEcCCCCCCChhhhHHHHHHHhhcCCCCCCCCcEEEEecChhHHH
Q 001209 159 VITPGTEFMAVLSIALQYYIHLRLNNDPGWEKIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIM 238 (1123)
Q Consensus 159 ~ITPGT~FM~kLs~~L~~yI~~kl~~Dp~W~~lkVIlSda~VPGEGEHKImdfIR~qr~~p~ydPNt~HcIYGlDADLIm 238 (1123)
||||||+||.+|++.|+|||+.|++||+.|++++|||||++||||||||||||||.++++|+||||||||||||||||||
T Consensus 131 cITPGTeFM~rl~~~L~yfIktKistDs~Wq~~~vIlSGhevPGEGEHKIMdyIRt~kaq~dydpNTRHClYGLDADLIm 210 (1493)
T KOG2045|consen 131 CITPGTEFMVRLQEGLRYFIKTKISTDSLWQRCTVILSGHEVPGEGEHKIMDYIRTMKAQPDYDPNTRHCLYGLDADLIM 210 (1493)
T ss_pred CCCCcHHHHHHHHHHHHHHHHhccccchhhcccEEEEeCCcCCCcchHHHHHHHHHhhcCCCCCCCcceeecccchhhhe
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhcCCceEEEcccccccCCCCCcccccCCCCCcccccccccccccCCCCcCCCcccCCCCCeEEEehhHHHHHHHHHh
Q 001209 239 LALATHEVHFSILREVVFTPGQQDKCFLCGQPGHLAANCEGKAKRKAGEFDEKGDEVVVPKKPYQFLHIWTLREYLDYEF 318 (1123)
Q Consensus 239 LgLatHep~f~ILRE~Vf~~~~~~~c~~cgQ~gH~~~~c~g~~k~k~~e~~e~~~~~~~~~~~f~~l~I~vLREYL~~El 318 (1123)
|||+||||||++|||+|.|..+. ++| ....+.|-+||+++|||||+.||
T Consensus 211 LGL~tHepHF~lLREEVtFgrrn--------------------~~k-----------~lehqkFyLLHLsLLREYlelEF 259 (1493)
T KOG2045|consen 211 LGLCTHEPHFVLLREEVTFGRRN--------------------KRK-----------SLEHQKFYLLHLSLLREYLELEF 259 (1493)
T ss_pred eeeccCCcceeeeeeeeeccccc--------------------ccc-----------hhhhhhhhhhHHHHHHHHHHHHH
Confidence 99999999999999999774211 111 12345799999999999999999
Q ss_pred cC--CCCCCccchhhhhhHHHHhhhhcccCCCCCCCccccccchHHHHHHHHHHHHHhcCCccccCCccCHHHHHHHHHH
Q 001209 319 RI--PNPPFEIDLECIVDDFIFMCFFVGNDFLPHMPTLEIREGAINLLMAVYKKEFRALGGYLTDGSKPSLRRVEHFIQA 396 (1123)
Q Consensus 319 ~~--~~~pf~~DlERiIDDfVfLcffvGNDFLPhLPsLeIreGaID~Li~iYKk~Lp~~ggYLT~~G~INl~rl~~fl~~ 396 (1123)
.. ...+|++|+||||||||+|.||||||||||||+|+|.+||+.+|..+||+++|.+||||+++|+|||.||+.||.+
T Consensus 260 ~e~rdt~~fkyd~erIlDD~ILl~flVGNDFLPhLP~LHIn~gAlpllystykkvlpt~~GyINE~G~lNl~Rle~~L~e 339 (1493)
T KOG2045|consen 260 DELRDTDEFKYDIERILDDWILLGFLVGNDFLPHLPCLHINSGALPLLYSTYKKVLPTLGGYINENGKLNLRRLEIFLSE 339 (1493)
T ss_pred HHhhhccchhhhHHHHHHHHHHHHHhhccccccCCCccccCCChHHHHHHHHHHHhccCCccccccceecHHHHHHHHHH
Confidence 84 3578999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCccccccccCCCCC-CCC---CCCCCccccccccccC
Q 001209 397 VGSYEDRIFQKRARLHQRHAERIKREKAQARRGDDVEPLAQPDSLVPVSRFHGSRLA-SGP---SPSPYQQSECVGRLDN 472 (1123)
Q Consensus 397 L~~~Ed~iF~~r~~~e~r~~e~~kr~k~~~~~~~~~~~~~~~~~~~p~~~~~~~~l~-~~~---~~~~~~~~~~~~~~~~ 472 (1123)
|..+|.++|+++.+..+- -+ -||. +-++... +......+..+.++... +.. ...++.+.... + +
T Consensus 340 L~nfeke~Fke~led~k~-~n-skr~-----r~~~~~~--~~~~~~dika~t~sq~~d~l~~~~~~~p~i~~~a~--l-d 407 (1493)
T KOG2045|consen 340 LTNFEKEHFKEHLEDLKY-MN-SKRE-----RFDDPEQ--QELAEMDIKAITESQNLDSLLGEESKDPLINKSAL--L-D 407 (1493)
T ss_pred HHhhhHHHHHHHHHhhhh-cc-cccc-----ccccHHH--HhhhcccHHhhhhhhhhhhhccccccccccccccc--c-c
Confidence 999999999998765431 11 1110 0000000 00000011111110000 000 00000000000 0 0
Q ss_pred CCCCCCCCCcccccCCCcchh-hHHHhhhccCC-CCccccHHHHHHHHHHH-Hhhhccc-CCC--CCcchhhhccC-CCc
Q 001209 473 GKGTSGRPHKVPRLSSGATIG-AAIVEAENSFE-TDPQENKEEFKAKLKEL-LRDKSDA-FNS--DNPEEDKVKLG-EPG 545 (1123)
Q Consensus 473 ~~~~~~~~~k~~~~s~~~~~~-~~~~~~e~~~~-~~~~~~~eelk~~l~~~-~~~k~d~-~~~--~~~~eD~VkL~-e~g 545 (1123)
.+ ...-+.+...+.... ..+...+..+. ...++.++|+...+..+ +..+++. +.. +...+.+|-.. ...
T Consensus 408 ~d----D~~Fl~~~~eDl~~~~~~s~s~~~~ld~~~~de~EdEf~~~~~t~~ls~~~~~~~~n~eea~~eKti~n~~F~r 483 (1493)
T KOG2045|consen 408 DD----DSAFLSDHEEDLSDLEPGSGSDELLLDNLDADELEDEFAVELATLALSGMNDADFANDEEACWEKTILNKEFQR 483 (1493)
T ss_pred cc----hHHHHHHhhhhccccccccCccchhhccccchhhhHHHHHHHHHHHHhccccccccchHHHhhhhhhHHHHHHH
Confidence 00 000000000000000 00000000000 00111222332222222 1112111 111 11112233222 246
Q ss_pred hhHHHHHHhcCCCChhHHHHHHHHHHHHHHhhHHHHhhhhccCcCcccccccCCCCcccccccccccccceecCCCCCCh
Q 001209 546 WKERYYEEKFNAKTPEEREETRKDVVLRYTEGLCWVMHYYYEGVCSWQWFYPYHYAPFASDLKDLDQFNISFELGHPFKP 625 (1123)
Q Consensus 546 ~K~rYY~~KF~v~~~~di~~~r~~vv~~YvEGL~WVL~YYyqGcpSW~WYYPYHYAPfaSDl~~l~~~~i~Fe~G~Pf~P 625 (1123)
||..||++||+.++.+ ++..+++|..|||||+|||.|||+||+||+||||||||||+||+++..+++|.|++|+||+|
T Consensus 484 wK~~yYrdKlkf~~~d--ee~lrelae~YVeaLQWvL~YYYrGc~SWsWyYphHyaP~ISDl~kgldv~ieF~mgtPF~P 561 (1493)
T KOG2045|consen 484 WKRNYYRDKLKFDPND--EELLRELAEHYVEALQWVLDYYYRGCQSWSWYYPHHYAPFISDLKKGLDVEIEFHMGTPFLP 561 (1493)
T ss_pred HHHHHhhhhhcCCCcc--HHHHHHHHHHHHHHHHHHHHHHhcCCccccccccccccchhHhHhcccceeEEEecCCCCCc
Confidence 9999999999997655 34567899999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhhcCCCCCCCCCcHHHHhhhcCCCCCCcccCCCcccccCCCCcccccceeccCCCChHHHHHHHHhhcCCCCHHHH
Q 001209 626 FNQLLGVFPSASSHALPEHYRKLMTDPNSPISDFYPTDFEVDMNGKRYSWQGIAKLPFIDEARLLDEVKKIEHTLTEEEA 705 (1123)
Q Consensus 626 fEQLMsVLPaaS~~~LP~~~r~LMtdp~SpIiDFYP~dF~ID~NGKk~~WqGVaLLPFIDe~rLl~a~~~~~~~LT~eE~ 705 (1123)
|||||+|||++|+.+||.+||+||.++.|||+||||.+|+.|+|||+.+|++|||||||||+|||+||.+.+..||+||+
T Consensus 562 FqQLlAVLPaaSa~llPp~frdLM~~~~SPI~DFYPaefelD~NGKtadWEAVVLIpFIdEkRLleAm~pk~~~Ls~EEr 641 (1493)
T KOG2045|consen 562 FQQLLAVLPAASAKLLPPAFRDLMLLPTSPIADFYPAEFELDLNGKTADWEAVVLIPFIDEKRLLEAMLPKEAQLSLEER 641 (1493)
T ss_pred HHHHHHhchhhhhccCChhhhHhhcCCCCchhhcchhhheecccCCccceeEEEEEeecchHHHHHHHhhHhhhcCHHHh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhccCCCcEEEEec
Q 001209 706 RRNSIMADMLFVLL 719 (1123)
Q Consensus 706 ~RN~~g~d~Lfv~~ 719 (1123)
.||++|.+.+|-..
T Consensus 642 ~RNs~g~~~vys~~ 655 (1493)
T KOG2045|consen 642 ERNSHGPMYVYSYS 655 (1493)
T ss_pred hhcccCCceeeecc
Confidence 99999999998654
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=3.9e-85 Score=699.94 Aligned_cols=237 Identities=60% Similarity=1.088 Sum_probs=194.2
Q ss_pred CcchhHHHHHHhhCCcccccccccCccccCCccccCCCCCCCCCCCccCeEEEeccccccccccCCCCCCCCCHHHHHHH
Q 001209 1 MGVPAFYRWLAEKYPLVVADVIEEEPVVIDGVKIPVDTSKPNPNGLEYDNLYLDMNGIIHPCFHPEDRPAPTTFDEVFQC 80 (1123)
Q Consensus 1 MGVP~FfRWL~~rYP~ii~~viE~~~~~~dG~~iP~d~s~pNPNg~efDNLYLDMNGIIHpC~Hpe~~p~p~te~Emf~~ 80 (1123)
||||+|||||++|||+++..+.+.. ...+|||||||||||||+|+|++..+.+.++++||.+
T Consensus 1 MGVp~f~~wl~~ryp~~~~~~~~~~------------------~~~~~D~LYiDmN~IIH~~~~~~~~~~~~~~~~~~~~ 62 (237)
T PF03159_consen 1 MGVPGFFRWLSERYPLIVRPISENS------------------IPSEFDNLYIDMNGIIHNCIHPNDSSIPKTEEEIFQR 62 (237)
T ss_dssp --CCHHHHHHHHHSGGGEEEECTTT------------------SEE-ESEEEEETHHHHHHHHS-SSS----SHHHHHHH
T ss_pred CCHHHHHHHHHHhCCcceeeccccC------------------CCCcCCEEEEEcchhhhHhcCCcccCCCccHHHHHHH
Confidence 9999999999999999998765431 1126999999999999999999988888999999999
Q ss_pred HHHHHHHHHhhccccceEEEEecCCCchhhhHHHHhhhccchhHHHhHHHHHHHHHHHHHHhCCCCCCCCCCCCCccCcc
Q 001209 81 MFDYIDRLFVMVRPRKLLYMAIDGVAPRAKMNQQRSRRFRASKDAADSAAEEERLRQEFEREGRKLPPKSDSQVFDSNVI 160 (1123)
Q Consensus 81 If~yIDrL~~iVRPrKlLyiAIDGVAPRAKMNQQRsRRFrsakea~~~~~~~~~l~~e~~~eg~~lp~~~~~~~fDSN~I 160 (1123)
||.|||+||.+|||||+||||||||||||||||||+|||+++++++....+..+..++...+|..++.......||||||
T Consensus 63 i~~~id~l~~~v~P~k~l~iavDGvaP~AKm~qQR~RRf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdsn~I 142 (237)
T PF03159_consen 63 IFNYIDRLVRIVRPRKLLYIAVDGVAPRAKMNQQRSRRFKSAKESEENNKEESEIKEEIDEEGEQLPPEDQEEKFDSNCI 142 (237)
T ss_dssp HHHHHHHHHHHH-ESSEEEEE---S--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT--B-HHHHS----GGGS
T ss_pred HHHHHHHhheeecCceEEEEEcCCCCCchHHHHHHHHHHHHhhcchhHHHHHHHHhhhhhhcccccccccccccccccee
Confidence 99999999999999999999999999999999999999999999998888777778887777766665445678999999
Q ss_pred cCCcHHHHHHHHHHHHHHHHHhcCCCCCcccEEEEcCCCCCCChhhhHHHHHHHhhcCCCCCCCCcEEEEecChhHHHHH
Q 001209 161 TPGTEFMAVLSIALQYYIHLRLNNDPGWEKIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLA 240 (1123)
Q Consensus 161 TPGT~FM~kLs~~L~~yI~~kl~~Dp~W~~lkVIlSda~VPGEGEHKImdfIR~qr~~p~ydPNt~HcIYGlDADLImLg 240 (1123)
||||+||.+|+++|++||..|+++|+.|++++|||||++||||||||||+|||+++++|+|+||++|||||+||||||||
T Consensus 143 TPGT~FM~~l~~~L~~~~~~k~~~~~~~~~~~vi~S~~~vpGEGE~KI~~~IR~~~~~~~~~~n~~h~i~g~DaDlIll~ 222 (237)
T PF03159_consen 143 TPGTEFMEKLSDALRYYIKKKLNSDPKWQNLKVIFSGSDVPGEGEHKIMDFIRSQRSQPDYDPNTSHCIYGSDADLILLS 222 (237)
T ss_dssp STTSHHHHHHHHHHHHHHHHHHHH-GGGCCSEEEEE-TTSSS-HHHHHHHHHHHHHHSTTS-TT--EEEE-SSTHHHHHH
T ss_pred ccCCHHHHHHHHHHHHHHHHHhcCCCCcCceEEEEeCCCCCCccHHHHHHHHHHhhhcCCCCCCceEEEEecCHhHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhcCCceEEEccccc
Q 001209 241 LATHEVHFSILREVV 255 (1123)
Q Consensus 241 LatHep~f~ILRE~V 255 (1123)
|+||+++|+||||+|
T Consensus 223 L~~~~~~~~ilre~~ 237 (237)
T PF03159_consen 223 LATHEPNIYILREEV 237 (237)
T ss_dssp HHTT-SSEEEEEESS
T ss_pred HccCCCeEEEEeccC
Confidence 999999999999975
No 5
>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=98.54 E-value=8.8e-07 Score=99.71 Aligned_cols=231 Identities=20% Similarity=0.311 Sum_probs=122.1
Q ss_pred CcchhHHHHHHhhCCcccccccccCccccCCccccCCCCCCCCCCCccCeEEEeccccccccccCCCCC--CCCCHHHHH
Q 001209 1 MGVPAFYRWLAEKYPLVVADVIEEEPVVIDGVKIPVDTSKPNPNGLEYDNLYLDMNGIIHPCFHPEDRP--APTTFDEVF 78 (1123)
Q Consensus 1 MGVP~FfRWL~~rYP~ii~~viE~~~~~~dG~~iP~d~s~pNPNg~efDNLYLDMNGIIHpC~Hpe~~p--~p~te~Emf 78 (1123)
|||++|..||...-+.+ . +++ .. | --|=||.+..||-+....... ........+
T Consensus 1 MGI~gL~~~l~~~~~~~--~-i~~----l~--------------g---k~laID~~~~l~r~~~a~~~~~~~~g~~~~~l 56 (316)
T cd00128 1 MGIKGLWPLLKPVARPV--H-LEE----LR--------------G---KKVAIDASIWLYQFLKACRQELGSGGETTSHL 56 (316)
T ss_pred CchhhHHHHHHhhCCCC--C-HHH----hC--------------C---cEEEecHHHHHHHHHHHhhhhccCCCCCcHHH
Confidence 99999999999876654 1 111 01 1 157899999999865432110 001112233
Q ss_pred HHHHHHHHHHHhhccccceEEEEecCCCchhhhHHHHhhhccchhHHHhHHHHHHH-HHHHHHHhCCCCCCCCCCCCCcc
Q 001209 79 QCMFDYIDRLFVMVRPRKLLYMAIDGVAPRAKMNQQRSRRFRASKDAADSAAEEER-LRQEFEREGRKLPPKSDSQVFDS 157 (1123)
Q Consensus 79 ~~If~yIDrL~~iVRPrKlLyiAIDGVAPRAKMNQQRsRRFrsakea~~~~~~~~~-l~~e~~~eg~~lp~~~~~~~fDS 157 (1123)
..+|..+.+|+.. . -+ ..+++||.+|-.|......|+-+.....+......++ ..+++.+... ..
T Consensus 57 ~~~~~rl~~L~~~-~-i~-pvfVFDG~~~~~K~~~~~~R~~~r~~~~~~~~~~~~~~~~~~~~~~~~-----------~~ 122 (316)
T cd00128 57 QGFFYRTCRLLEL-G-IK-PVFVFDGKPPPLKAETLAKRRERREEAEEEAKEALEKGLEEEAKKLER-----------RA 122 (316)
T ss_pred HHHHHHHHHHHHC-C-CE-EEEEEcCCCchhhHHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHh-----------cc
Confidence 4455555555532 2 23 3467999999888877665554322111110000000 0001110000 11
Q ss_pred CcccCCcHHHHHHHHHHHHHHHHHhcCCCCCcccEEEEcCCCCCCChhhhHHHHHHHhhcCCCCCCCCcEEEEecChhHH
Q 001209 158 NVITPGTEFMAVLSIALQYYIHLRLNNDPGWEKIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLI 237 (1123)
Q Consensus 158 N~ITPGT~FM~kLs~~L~~yI~~kl~~Dp~W~~lkVIlSda~VPGEGEHKImdfIR~qr~~p~ydPNt~HcIYGlDADLI 237 (1123)
..|||.+ ... ++..+.. + ++.+|.+ |+|+|-=|--+-+. .....|++.|+|++
T Consensus 123 ~~~~~~~--~~~----~~~lL~~-~-------gi~~i~a----p~EAdaq~a~l~~~---------g~v~~i~S~DsD~l 175 (316)
T cd00128 123 VRVTPQM--IEE----AKELLRL-M-------GIPYIVA----PYEAEAQCAYLAKK---------GLVDAIITEDSDLL 175 (316)
T ss_pred CcCCHHH--HHH----HHHHHHH-c-------CCCEEEC----CcCHHHHHHHHHhC---------CCeeEEEecCCCee
Confidence 2244432 222 3333322 1 5677764 89999765544331 23578999999998
Q ss_pred HHHhhcCCceEEEcccccccCCCCCcccccCCCCCcccccccccccccCCCCcCCCcccCCCCCeEEEehhHHHHHHHHH
Q 001209 238 MLALATHEVHFSILREVVFTPGQQDKCFLCGQPGHLAANCEGKAKRKAGEFDEKGDEVVVPKKPYQFLHIWTLREYLDYE 317 (1123)
Q Consensus 238 mLgLatHep~f~ILRE~Vf~~~~~~~c~~cgQ~gH~~~~c~g~~k~k~~e~~e~~~~~~~~~~~f~~l~I~vLREYL~~E 317 (1123)
+++ + ++ ++|-. +..+ ...+++++...+.+.|
T Consensus 176 ~fg-~---~~--vi~~~-~~~~---------------------------------------~~~~~~~~~~~~~~~l--- 206 (316)
T cd00128 176 LFG-A---PR--VYRNL-FDSG---------------------------------------AKPVEEIDLEKILKEL--- 206 (316)
T ss_pred eec-C---ce--EEEec-ccCC---------------------------------------CCceEEEEHHHHHHHc---
Confidence 876 2 22 33321 0000 0235567766554443
Q ss_pred hcCCCCCCccchhhhhhHHHHhhhhcccCCCCCCCccccc
Q 001209 318 FRIPNPPFEIDLECIVDDFIFMCFFVGNDFLPHMPTLEIR 357 (1123)
Q Consensus 318 l~~~~~pf~~DlERiIDDfVfLcffvGNDFLPhLPsLeIr 357 (1123)
. ++. +.||.+|.|+|+||+|.+|++-+.
T Consensus 207 -g-------l~~----~q~id~~~L~G~Dy~~gv~giG~k 234 (316)
T cd00128 207 -G-------LTR----EKLIDLAILLGCDYTEGIPGIGPV 234 (316)
T ss_pred -C-------CCH----HHHHHHHHhcCCCCCCCCCCccHH
Confidence 1 222 578899999999999999976543
No 6
>PTZ00217 flap endonuclease-1; Provisional
Probab=98.08 E-value=4.4e-05 Score=89.06 Aligned_cols=233 Identities=20% Similarity=0.271 Sum_probs=124.8
Q ss_pred CcchhHHHHHHhhCCcccccccccCccccCCccccCCCCCCCCCCCccCeEEEeccccccccccCC----CCCCCCCH--
Q 001209 1 MGVPAFYRWLAEKYPLVVADVIEEEPVVIDGVKIPVDTSKPNPNGLEYDNLYLDMNGIIHPCFHPE----DRPAPTTF-- 74 (1123)
Q Consensus 1 MGVP~FfRWL~~rYP~ii~~viE~~~~~~dG~~iP~d~s~pNPNg~efDNLYLDMNGIIHpC~Hpe----~~p~p~te-- 74 (1123)
|||.++..+|....|.+++.+-= .+.-| =-|=||....||-....- +...-.+.
T Consensus 1 MGI~gL~~~l~~~~p~~~~~~~l---~~l~g-----------------k~vaIDa~~~lyr~~~a~~~~~~~~~l~~~~G 60 (393)
T PTZ00217 1 MGIKGLSKFLADKAPNAIKEQEL---KNYFG-----------------RVIAIDASMALYQFLIAIRDDSQGGNLTNEAG 60 (393)
T ss_pred CChhhHHHHHhhhccccccccCH---HHhCC-----------------cEEEEeHHHHHHHHHHHcccccccccchhccC
Confidence 99999999999999988764310 00111 147789999988743211 00000010
Q ss_pred --HHHHHHHHHHHHHHHhh-ccccceEEEEecCCCchhhhHHHHhhh--ccchhHHHhHHHHHHHHHHHHHHhCCCCCCC
Q 001209 75 --DEVFQCMFDYIDRLFVM-VRPRKLLYMAIDGVAPRAKMNQQRSRR--FRASKDAADSAAEEERLRQEFEREGRKLPPK 149 (1123)
Q Consensus 75 --~Emf~~If~yIDrL~~i-VRPrKlLyiAIDGVAPRAKMNQQRsRR--Frsakea~~~~~~~~~l~~e~~~eg~~lp~~ 149 (1123)
..-+.-+|..+-+|+.. ++| .+++||..|-.|...-..|| -..+.+..+. ...+|.. +
T Consensus 61 ~~t~~l~g~~~r~~~Ll~~gikP----v~VFDG~~p~~K~~~~~~Rk~~R~~a~~~l~~----------a~~~g~~--~- 123 (393)
T PTZ00217 61 EVTSHISGLFNRTIRLLEAGIKP----VYVFDGKPPELKSGELEKRRERREEAEEELEK----------AIEEGDD--E- 123 (393)
T ss_pred CccHHHHHHHHHHHHHHHCCCCE----EEEEcCCCchhhHHHHHHHHHHHHHhHHHHHH----------HHhcCCH--H-
Confidence 01234455556666664 778 47999999976665443333 2222221110 1111110 0
Q ss_pred CCCCCCc--cCcccCCcHHHHHHHHHHHHHHHHHhcCCCCCcccEEEEcCCCCCCChhhhHHHHHHHhhcCCCCCCCCcE
Q 001209 150 SDSQVFD--SNVITPGTEFMAVLSIALQYYIHLRLNNDPGWEKIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRH 227 (1123)
Q Consensus 150 ~~~~~fD--SN~ITPGT~FM~kLs~~L~~yI~~kl~~Dp~W~~lkVIlSda~VPGEGEHKImdfIR~qr~~p~ydPNt~H 227 (1123)
....+- +..|| .+-+..+.+.|+. -++.+|.+ |||+|-=|-...+ -+...
T Consensus 124 -~a~k~~~r~~~vt--~~~~~~~~~lL~~------------~Gip~i~A----P~EAdaq~A~L~~---------~g~v~ 175 (393)
T PTZ00217 124 -EIKKQSKRTVRVT--KEQNEDAKKLLRL------------MGIPVIEA----PCEAEAQCAELVK---------KGKVY 175 (393)
T ss_pred -HHHHHHhhcccCC--HHHHHHHHHHHHH------------cCCceEEC----CcCHHHHHHHHHH---------CCCeE
Confidence 000011 11233 2222333332221 24667765 8999995544432 24567
Q ss_pred EEEecChhHHHHHhhcCCceEEEcccccccCCCCCcccccCCCCCcccccccccccccCCCCcCCCcccCCCCCeEEEeh
Q 001209 228 CLYGLDADLIMLALATHEVHFSILREVVFTPGQQDKCFLCGQPGHLAANCEGKAKRKAGEFDEKGDEVVVPKKPYQFLHI 307 (1123)
Q Consensus 228 cIYGlDADLImLgLatHep~f~ILRE~Vf~~~~~~~c~~cgQ~gH~~~~c~g~~k~k~~e~~e~~~~~~~~~~~f~~l~I 307 (1123)
+|++-|.|+++++- + .++|-. +..+ ..+.+++++++
T Consensus 176 ~ViS~D~D~l~fg~----~--~vi~~l-~~~~-------------------------------------~~~~~~~~~~~ 211 (393)
T PTZ00217 176 AVATEDMDALTFGT----P--VLLRNL-NFSE-------------------------------------AKKRPIQEINL 211 (393)
T ss_pred EEeCCCcCeeecCC----c--EEEEcc-cccc-------------------------------------cCCCCeEEEEH
Confidence 89999999998862 1 234431 0000 00124667777
Q ss_pred hHHHHHHHHHhcCCCCCCccchhhhhhHHHHhhhhcccCCCCCCCccccc
Q 001209 308 WTLREYLDYEFRIPNPPFEIDLECIVDDFIFMCFFVGNDFLPHMPTLEIR 357 (1123)
Q Consensus 308 ~vLREYL~~El~~~~~pf~~DlERiIDDfVfLcffvGNDFLPhLPsLeIr 357 (1123)
..+.+.+ .++ -+.||-||.|+|.||+|.+|++-..
T Consensus 212 ~~v~~~~-----------gl~----~~q~id~~iL~G~Dy~pgi~GIG~k 246 (393)
T PTZ00217 212 STVLEEL-----------GLS----MDQFIDLCILCGCDYCDTIKGIGPK 246 (393)
T ss_pred HHHHHHh-----------CCC----HHHHHHHHHHhCCCCCCCCCCccHH
Confidence 6654432 122 2578889999999999999987543
No 7
>KOG2044 consensus 5'-3' exonuclease HKE1/RAT1 [Replication, recombination and repair; RNA processing and modification]
Probab=98.03 E-value=9.1e-05 Score=90.42 Aligned_cols=86 Identities=19% Similarity=0.101 Sum_probs=71.9
Q ss_pred CCeEEEEEecCCCCC-CCCCCCCCCCCcCCCCCCcccCCCCCcccCCCCCCCCCC-CCCCCCCCCCCCCccchhhhHHHH
Q 001209 788 GNQVLCAIYKLPDAH-KHVTRPPAGVIFPKKIVQLEDLKPAPVLWHEDSGRRPHE-NGRHNPHGTISGRQLGEAAHRLVA 865 (1123)
Q Consensus 788 ~n~~~~~~y~~P~~~-~h~s~ll~g~~~p~~~l~~~d~~~~~~lw~~~~~~~~~~-~~~~~~~~~~~~~~l~~a~~r~~~ 865 (1123)
.-...++.|.+|+.+ .||+..+.|.+++.++++..++....-|||++...+-.. .++.+++++++ +.|++|+ |++.
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 336778999999876 799999999999999999999999999999998755333 33778888888 9999999 9999
Q ss_pred hhccccccCCC
Q 001209 866 NSLQHMKVDRN 876 (1123)
Q Consensus 866 ~~~~~~~~~~~ 876 (1123)
+.++ ++.++|
T Consensus 782 ~~~~-~~~~~~ 791 (931)
T KOG2044|consen 782 YQPQ-AGFNRN 791 (931)
T ss_pred cCcc-cccccC
Confidence 9998 665443
No 8
>PRK03980 flap endonuclease-1; Provisional
Probab=97.20 E-value=0.0096 Score=67.41 Aligned_cols=24 Identities=21% Similarity=0.521 Sum_probs=20.9
Q ss_pred hHHHHhhhhcccCCCCCCCccccc
Q 001209 334 DDFIFMCFFVGNDFLPHMPTLEIR 357 (1123)
Q Consensus 334 DDfVfLcffvGNDFLPhLPsLeIr 357 (1123)
+.||-||.|+|.||+|.+|++-+.
T Consensus 177 ~q~id~~iL~G~Dy~~GI~GIG~k 200 (292)
T PRK03980 177 EQLIDIAILVGTDYNPGIKGIGPK 200 (292)
T ss_pred HHHHHHHHhcCCCCCCCCCCccHH
Confidence 567889999999999999987654
No 9
>TIGR03674 fen_arch flap structure-specific endonuclease. Endonuclease that cleaves 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
Probab=95.88 E-value=0.085 Score=60.97 Aligned_cols=66 Identities=17% Similarity=0.186 Sum_probs=38.7
Q ss_pred eEEEeccccccccccCC---CCCCCCCH----HHHHHHHHHHHHHHHhh-ccccceEEEEecCCCchhhhHHHHhhhc
Q 001209 50 NLYLDMNGIIHPCFHPE---DRPAPTTF----DEVFQCMFDYIDRLFVM-VRPRKLLYMAIDGVAPRAKMNQQRSRRF 119 (1123)
Q Consensus 50 NLYLDMNGIIHpC~Hpe---~~p~p~te----~Emf~~If~yIDrL~~i-VRPrKlLyiAIDGVAPRAKMNQQRsRRF 119 (1123)
-|-||....||-+...- +...-++. ..-+..+|..+-+|+.. ++| .+++||.+|-.|...-..||-
T Consensus 23 ~vaIDas~~L~r~~~a~~~~~g~~l~~~~G~~t~~l~g~~~~~~~ll~~~i~P----v~VFDG~~p~~K~~~~~~R~~ 96 (338)
T TIGR03674 23 VVAVDAFNALYQFLSSIRQPDGTPLMDSRGRITSHLSGLFYRTINLLENGIKP----VYVFDGKPPELKAETLEERRE 96 (338)
T ss_pred EEEEeHHHHHHHHHHHHhccccchhhhccCCCcHHHHHHHHHHHHHHHCCCeE----EEEECCCChhhhHhhHHHHHH
Confidence 57789999999754421 11110100 01233344455555555 677 689999999877776666654
No 10
>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=95.54 E-value=1.8 Score=47.86 Aligned_cols=57 Identities=9% Similarity=0.083 Sum_probs=37.5
Q ss_pred eEEEeccccccccccCCCCCC---CCCHHHHHHHHHHHHHHHHhhccccceEEEEecCCCc
Q 001209 50 NLYLDMNGIIHPCFHPEDRPA---PTTFDEVFQCMFDYIDRLFVMVRPRKLLYMAIDGVAP 107 (1123)
Q Consensus 50 NLYLDMNGIIHpC~Hpe~~p~---p~te~Emf~~If~yIDrL~~iVRPrKlLyiAIDGVAP 107 (1123)
-|.||.|.+|+-+.|...... .-.......-++..|-+++...+|.++ .+|+||-.|
T Consensus 3 ~llIDg~~l~yr~~~a~~~~~~~~~g~~t~ai~g~~~~l~~~~~~~~p~~~-~~~fD~~~~ 62 (240)
T cd00008 3 LLLIDGSSLAYRAYFALPPLKNSPKGLPTNAVYGFLNMLLKLIKEYKPTYV-AVVFDAGGK 62 (240)
T ss_pred EEEEEChHHHHHHHHCCCCcCCCCCCcCchHHHHHHHHHHHHHHhcCCCeE-EEEEeCCCC
Confidence 378999999999887642111 001122445556667777777889887 689999633
No 11
>smart00475 53EXOc 5'-3' exonuclease.
Probab=94.92 E-value=1.1 Score=50.15 Aligned_cols=56 Identities=9% Similarity=0.115 Sum_probs=35.1
Q ss_pred EEEeccccccccccCCCCC--CCCCHHHHHHHHHHHHHHHHhhccccceEEEEecCCCc
Q 001209 51 LYLDMNGIIHPCFHPEDRP--APTTFDEVFQCMFDYIDRLFVMVRPRKLLYMAIDGVAP 107 (1123)
Q Consensus 51 LYLDMNGIIHpC~Hpe~~p--~p~te~Emf~~If~yIDrL~~iVRPrKlLyiAIDGVAP 107 (1123)
|-||.|.+|+-++|.-... +.-.......-++..+-+|+...+|..+ .+|+||-.|
T Consensus 4 llIDg~~~i~R~~~a~~~l~~~~G~~t~a~~g~~~~l~~l~~~~~p~~~-~~~fD~~~~ 61 (259)
T smart00475 4 LLVDGSSLAFRAYFALPPLKNSKGEPTNAVYGFLRMLLKLIKEEKPTYV-AVVFDAKGK 61 (259)
T ss_pred EEEeCcHHHHHHHHCCCcccCCCCCcccHHHHHHHHHHHHHHHcCCCeE-EEEEeCCCC
Confidence 7899999999988863110 0001112344455566667777789775 599997544
No 12
>PF00752 XPG_N: XPG N-terminal domain; InterPro: IPR006085 Xeroderma pigmentosum (XP) [] is a human autosomal recessive disease, characterised by a high incidence of sunlight-induced skin cancer. People's skin cells with this condition are hypersensitive to ultraviolet light, due to defects in the incision step of DNA excision repair. There are a minimum of seven genetic complementation groups involved in this pathway: XP-A to XP-G. XP-G is one of the most rare and phenotypically heterogeneous of XP, showing anything from slight to extreme dysfunction in DNA excision repair [, ]. XP-G can be corrected by a 133 Kd nuclear protein, XPGC []. XPGC is an acidic protein that confers normal UV resistance in expressing cells []. It is a magnesium-dependent, single-strand DNA endonuclease that makes structure-specific endonucleolytic incisions in a DNA substrate containing a duplex region and single-stranded arms [, ]. XPGC cleaves one strand of the duplex at the border with the single-stranded region []. XPG belongs to a family of proteins that includes RAD2 from Saccharomyces cerevisiae (Baker's yeast) and rad13 from Schizosaccharomyces pombe (Fission yeast), which are single-stranded DNA endonucleases [, ]; mouse and human FEN-1, a structure-specific endonuclease; RAD2 from fission yeast and RAD27 from budding yeast; fission yeast exo1, a 5'-3' double-stranded DNA exonuclease that may act in a pathway that corrects mismatched base pairs; yeast DHS1, and yeast DIN7. Sequence alignment of this family of proteins reveals that similarities are largely confined to two regions. The first is located at the N-terminal extremity (N-region) and corresponds to the first 95 to 105 amino acids. The second region is internal (I-region) and found towards the C terminus; it spans about 140 residues and contains a highly conserved core of 27 amino acids that includes a conserved pentapeptide (E-A-[DE]-A-[QS]). It is possible that the conserved acidic residues are involved in the catalytic mechanism of DNA excision repair in XPG. The amino acids linking the N- and I-regions are not conserved. This entry represents the N-terminal of XPG.; GO: 0004518 nuclease activity, 0006281 DNA repair; PDB: 1A77_A 1A76_A 1MC8_B 3QEB_Z 3QEA_Z 3QE9_Y 1UL1_Z 3Q8K_A 3Q8M_A 3Q8L_A ....
Probab=93.63 E-value=0.059 Score=51.19 Aligned_cols=94 Identities=21% Similarity=0.344 Sum_probs=55.8
Q ss_pred CcchhHHHHHHhhCCcccccccccCccccCCccccCCCCCCCCCCCccCeEEEeccccccccccCCCCCCCCC--HHHHH
Q 001209 1 MGVPAFYRWLAEKYPLVVADVIEEEPVVIDGVKIPVDTSKPNPNGLEYDNLYLDMNGIIHPCFHPEDRPAPTT--FDEVF 78 (1123)
Q Consensus 1 MGVP~FfRWL~~rYP~ii~~viE~~~~~~dG~~iP~d~s~pNPNg~efDNLYLDMNGIIHpC~Hpe~~p~p~t--e~Emf 78 (1123)
|||++|..+|.... .+..+- ..+..| --|=||.+..||.|.+......... .+..+
T Consensus 1 MGI~gL~~~l~~~~--~v~~~~---~~~l~g-----------------~~vaID~s~wl~~~~~~~~~~~~~~~~~~~~~ 58 (101)
T PF00752_consen 1 MGIKGLWQLLKPAA--AVRKVS---LSELRG-----------------KRVAIDASCWLHQFLFSCREELGQGVGTDSHL 58 (101)
T ss_dssp ---TTHHHHCHHHE--GEEEEE---GGGGTT-----------------CEEEEEHHHHHHHHHHHSBCTTSCB-BS-HHH
T ss_pred CCcccHHHHHHhhc--cCCccC---HHHhCC-----------------CEEEEEcHHHHHHHHHHhHHHhccccchHHHH
Confidence 99999999999986 222110 001122 3577999999998755433221111 13556
Q ss_pred HHHHHHHHHHHh-hccccceEEEEecCCCchhhhHHHHhhhcc
Q 001209 79 QCMFDYIDRLFV-MVRPRKLLYMAIDGVAPRAKMNQQRSRRFR 120 (1123)
Q Consensus 79 ~~If~yIDrL~~-iVRPrKlLyiAIDGVAPRAKMNQQRsRRFr 120 (1123)
..+|..+..|.. -|.| ++.+||.+|-+|......||-+
T Consensus 59 ~~~~~r~~~L~~~gI~P----ifVFDG~~~~~K~~~~~~R~~~ 97 (101)
T PF00752_consen 59 RGLFSRLCRLLEHGIKP----IFVFDGKPPPLKRETIQKRRKR 97 (101)
T ss_dssp HHHHHHHHHHHHTTEEE----EEEE--STTGGCHHHHHHHHHH
T ss_pred HHHHHHHHHHHHCCCEE----EEEECCCCchhhHHHHHHHHHH
Confidence 677777777654 4665 5889999999999888777654
No 13
>PRK14976 5'-3' exonuclease; Provisional
Probab=93.13 E-value=2.1 Score=48.59 Aligned_cols=57 Identities=16% Similarity=0.251 Sum_probs=37.3
Q ss_pred eEEEeccccccccccCCC--CCCCC----CHHHHHHHHHHHHHHHHhhccccceEEEEecCCCc
Q 001209 50 NLYLDMNGIIHPCFHPED--RPAPT----TFDEVFQCMFDYIDRLFVMVRPRKLLYMAIDGVAP 107 (1123)
Q Consensus 50 NLYLDMNGIIHpC~Hpe~--~p~p~----te~Emf~~If~yIDrL~~iVRPrKlLyiAIDGVAP 107 (1123)
-|.||.|++|+-|++..- .+.-+ .....+.-+++.|-+++...+|..+ .+|+||-.|
T Consensus 5 ~lliDg~~~~~ra~~a~~~~~~~l~~~~G~~t~a~~gf~~~l~~ll~~~~p~~~-~v~fD~~~~ 67 (281)
T PRK14976 5 ALLIDGNSLIFRSYYATLKQGPKLKNNKGLPTNAIHTFLTMIFKILKKLNPSYI-LIAFDAGRK 67 (281)
T ss_pred EEEEeCcHHHHHHHHccCccCCCccCCCCCCchHHHHHHHHHHHHHHhcCCCEE-EEEEECCCC
Confidence 468999999999888731 11111 1123445556667777777789876 589998543
No 14
>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=91.18 E-value=0.44 Score=45.20 Aligned_cols=91 Identities=20% Similarity=0.363 Sum_probs=55.2
Q ss_pred ccEEEEcCCCCCCChhhhHHHHHHHhhcCCCCCCCCcEEEEecChhHHHHHhhcCCceEEEcccccccCCCCCcccccCC
Q 001209 190 KIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLALATHEVHFSILREVVFTPGQQDKCFLCGQ 269 (1123)
Q Consensus 190 ~lkVIlSda~VPGEGEHKImdfIR~qr~~p~ydPNt~HcIYGlDADLImLgLatHep~f~ILRE~Vf~~~~~~~c~~cgQ 269 (1123)
++.+|+ .|||+|.=+--.-|. +.-+.|++-|+|+++.|-- .|||... .. ....|
T Consensus 4 gv~~i~----AP~EAeAq~A~L~~~---------g~vd~V~t~DsD~l~fG~~------~vi~~~~-~~-~~~~~----- 57 (94)
T PF00867_consen 4 GVPYIV----APYEAEAQCAYLERN---------GLVDAVITEDSDLLLFGAP------KVIRKLS-DK-SSGKC----- 57 (94)
T ss_dssp T-EEEE-----SS-HHHHHHHHHHT---------TSSSEEE-SSSHHHHTT-S------EEEESST--C-SCCST-----
T ss_pred CCeEEE----cCchHHHHHHHHHHh---------cceeEEEecCCCEEeeCCC------EEEEecc-cc-ccCCc-----
Confidence 345555 389999988866653 4578999999999999655 4666531 00 00001
Q ss_pred CCCcccccccccccccCCCCcCCCcccCCCCCeEEEehhHHHHHHHHHhcCCCCCCccchhhhhhHHHHhhhhcccC
Q 001209 270 PGHLAANCEGKAKRKAGEFDEKGDEVVVPKKPYQFLHIWTLREYLDYEFRIPNPPFEIDLECIVDDFIFMCFFVGND 346 (1123)
Q Consensus 270 ~gH~~~~c~g~~k~k~~e~~e~~~~~~~~~~~f~~l~I~vLREYL~~El~~~~~pf~~DlERiIDDfVfLcffvGND 346 (1123)
.......+.+++...+.+.|.. + -+.||.+|+|+|+|
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 0001245788888777666431 2 23799999999998
No 15
>smart00485 XPGN Xeroderma pigmentosum G N-region. domain in nucleases
Probab=90.85 E-value=0.52 Score=44.76 Aligned_cols=93 Identities=22% Similarity=0.298 Sum_probs=55.8
Q ss_pred CcchhHHHHHHhhCCcccccccccCccccCCccccCCCCCCCCCCCccCeEEEeccccccccccCCCC--CCCCCHHHHH
Q 001209 1 MGVPAFYRWLAEKYPLVVADVIEEEPVVIDGVKIPVDTSKPNPNGLEYDNLYLDMNGIIHPCFHPEDR--PAPTTFDEVF 78 (1123)
Q Consensus 1 MGVP~FfRWL~~rYP~ii~~viE~~~~~~dG~~iP~d~s~pNPNg~efDNLYLDMNGIIHpC~Hpe~~--p~p~te~Emf 78 (1123)
|||++|..||... +..+ ...+..|. -|=||.+..||.|...... -......+.+
T Consensus 1 MGI~gL~~~l~~~----~~~~---~i~~l~g~-----------------~vaIDa~~wl~~~~~~~~~~~~~~~~~~~~l 56 (99)
T smart00485 1 MGIKGLWPLLKPV----VREV---PLEALRGK-----------------TLAIDASIWLYQFLTACREKLGTPLPNSKHL 56 (99)
T ss_pred CCHhHHHHHHHHh----cccC---CHHHhCCc-----------------eEeccHHHHHHHHHHHHhhhhcCCCCchHHH
Confidence 9999999999876 1111 00011222 4557888888876432211 0111112245
Q ss_pred HHHHHHHHHHHh-hccccceEEEEecCCCchhhhHHHHhhhccc
Q 001209 79 QCMFDYIDRLFV-MVRPRKLLYMAIDGVAPRAKMNQQRSRRFRA 121 (1123)
Q Consensus 79 ~~If~yIDrL~~-iVRPrKlLyiAIDGVAPRAKMNQQRsRRFrs 121 (1123)
..+|..|.+|+. -|.| ++.+||.+|-+|...+..||-+.
T Consensus 57 ~~~~~rl~~L~~~~I~P----ifVFDG~~~~~K~~t~~~R~~~r 96 (99)
T smart00485 57 MGLFYRTCRLLEFGIKP----IFVFDGKPPPLKSETLAKRRERR 96 (99)
T ss_pred HHHHHHHHHHHHCCCeE----EEEECCCCchhhHHHHHHHHHHH
Confidence 556666666554 2444 57899999999999988887643
No 16
>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=89.44 E-value=0.21 Score=34.43 Aligned_cols=17 Identities=59% Similarity=1.491 Sum_probs=15.2
Q ss_pred CcccccCCCCCcccccc
Q 001209 262 DKCFLCGQPGHLAANCE 278 (1123)
Q Consensus 262 ~~c~~cgQ~gH~~~~c~ 278 (1123)
+.|+.||+.||++.+|.
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 36999999999999994
No 17
>COG0258 Exo 5'-3' exonuclease (including N-terminal domain of PolI) [DNA replication, recombination, and repair]
Probab=87.11 E-value=26 Score=40.14 Aligned_cols=62 Identities=19% Similarity=0.370 Sum_probs=44.0
Q ss_pred eEEEeccccccccccCCCC------CCCCCHHHHHHHHHHHHHHHHhhccccceEEEEecCCCc--hhhhHHHH
Q 001209 50 NLYLDMNGIIHPCFHPEDR------PAPTTFDEVFQCMFDYIDRLFVMVRPRKLLYMAIDGVAP--RAKMNQQR 115 (1123)
Q Consensus 50 NLYLDMNGIIHpC~Hpe~~------p~p~te~Emf~~If~yIDrL~~iVRPrKlLyiAIDGVAP--RAKMNQQR 115 (1123)
-|-||-+++++-+.|.-.. ..++. ...-+...|.++++.++|.+. .+++||-.| |.++...|
T Consensus 13 l~~IDg~~~lyr~~~a~~~~~~~~~g~~~~---~~~~~~~~l~~~~~~~~~~~~-~~vFD~~~~tfR~~~~~~y 82 (310)
T COG0258 13 LLLIDGSSLLYRALHALPQPLGNPLGDPTG---AVSGFLGMLYRLIRLLEPTHP-VVVFDGKPPTFRHELLEEY 82 (310)
T ss_pred EEEEechHHHHHHHHhcchhcCCCCCCCcc---HHHHHHHHHHHHHHhcCCCcE-EEEEcCCCCcchHHHHHHH
Confidence 6789999999998887522 12333 444556778999999999664 589999777 55555544
No 18
>KOG2518 consensus 5'-3' exonuclease [Replication, recombination and repair]
Probab=86.54 E-value=3.4 Score=50.35 Aligned_cols=91 Identities=22% Similarity=0.360 Sum_probs=51.7
Q ss_pred CcchhHHHHHHhhCCcccccc-cccCccccCCccccCCCCCCCCCCCccCeEEEeccccccc----cccCCCCCCCCCHH
Q 001209 1 MGVPAFYRWLAEKYPLVVADV-IEEEPVVIDGVKIPVDTSKPNPNGLEYDNLYLDMNGIIHP----CFHPEDRPAPTTFD 75 (1123)
Q Consensus 1 MGVP~FfRWL~~rYP~ii~~v-iE~~~~~~dG~~iP~d~s~pNPNg~efDNLYLDMNGIIHp----C~Hpe~~p~p~te~ 75 (1123)
|||.+|+-.|... ++.+ +. .++.+-|=+|.-+-+|- |.+.-....|+ +
T Consensus 1 MGI~GLlp~~k~~----~~~~hi~---------------------~~~g~tvavD~y~WLhrg~~~Ca~el~~~~pT--~ 53 (556)
T KOG2518|consen 1 MGIQGLLPLLKPA----LKPIHIS---------------------EYKGKTVAVDGYCWLHRGALACAEKLAKGKPT--D 53 (556)
T ss_pred CCcchhHHHHHHH----hhhhhHH---------------------HhcCceEEEehhhHHhhhHHhHHHHHhcCCCh--H
Confidence 9999999988762 2211 11 12456777888888886 44322222222 2
Q ss_pred HHHHHHHHHHHHHHh-hccccceEEEEecCCCchhhhHHHHhhhccch
Q 001209 76 EVFQCMFDYIDRLFV-MVRPRKLLYMAIDGVAPRAKMNQQRSRRFRAS 122 (1123)
Q Consensus 76 Emf~~If~yIDrL~~-iVRPrKlLyiAIDGVAPRAKMNQQRsRRFrsa 122 (1123)
.-+.=...++..|.. -|+| +|.+||=.=-+|--+-|.||-+..
T Consensus 54 ryi~y~ik~v~lL~~~gikP----ilVFDG~~LP~K~~te~~Rr~~R~ 97 (556)
T KOG2518|consen 54 RYIQFFIKRVKLLLSYGIKP----ILVFDGDPLPSKKETERKRRERRK 97 (556)
T ss_pred HHHHHHHHHHHHHHhcCCeE----EEEecCCCcccccccchHHHHHHH
Confidence 222222233333332 2444 789999887788777766665443
No 19
>PRK05755 DNA polymerase I; Provisional
Probab=86.19 E-value=18 Score=47.22 Aligned_cols=55 Identities=13% Similarity=0.154 Sum_probs=34.2
Q ss_pred eEEEeccccccccccCCCCC---CCCCHHHHHHHHHHHHHHHHhhccccceEEEEecCC
Q 001209 50 NLYLDMNGIIHPCFHPEDRP---APTTFDEVFQCMFDYIDRLFVMVRPRKLLYMAIDGV 105 (1123)
Q Consensus 50 NLYLDMNGIIHpC~Hpe~~p---~p~te~Emf~~If~yIDrL~~iVRPrKlLyiAIDGV 105 (1123)
-|.||.|.+|+-++|.-... ..-.....+.-++..|-+|+...+|..+ .+|+||-
T Consensus 4 ~~liDg~~~~~r~~~a~~~~~~~~~g~~~~a~~g~~~~l~~~~~~~~p~~~-~v~fD~~ 61 (880)
T PRK05755 4 LLLIDGSSLLFRAFYALLPTLRNSDGLPTGAVYGFLNMLLKLLKEEKPTHV-AVAFDAK 61 (880)
T ss_pred EEEEeCcHHHHHHHHCCCCcccCCCCCcccHHHHHHHHHHHHHHhcCCCEE-EEEEECC
Confidence 36899999999988864100 0001122333444556666677889775 5899974
No 20
>KOG2519 consensus 5'-3' exonuclease [Replication, recombination and repair]
Probab=84.81 E-value=14 Score=44.68 Aligned_cols=34 Identities=24% Similarity=0.461 Sum_probs=22.3
Q ss_pred hHHHHhhhhcccCCCCCCCccccccchHHHHHHHHH
Q 001209 334 DDFIFMCFFVGNDFLPHMPTLEIREGAINLLMAVYK 369 (1123)
Q Consensus 334 DDfVfLcffvGNDFLPhLPsLeIreGaID~Li~iYK 369 (1123)
.-||-||+|+|+||.|.+-+ |....-=.|+..|+
T Consensus 217 ~~fidL~lLlGCDYc~~I~G--ig~~~al~lir~~~ 250 (449)
T KOG2519|consen 217 ESFIDLCLLLGCDYCPTIRG--IGPKKALKLIRQHG 250 (449)
T ss_pred HHHHHHHHHhcCcccccccc--cChHHHHHHHHHhc
Confidence 45788999999999999644 33333233444443
No 21
>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]
Probab=80.98 E-value=16 Score=47.45 Aligned_cols=26 Identities=12% Similarity=0.316 Sum_probs=14.1
Q ss_pred ecCCCCCChhhhhhhcCCCCCCCCCc
Q 001209 617 FELGHPFKPFNQLLGVFPSASSHALP 642 (1123)
Q Consensus 617 Fe~G~Pf~PfEQLMsVLPaaS~~~LP 642 (1123)
++...+.+|+--+++-||-.-.-.+|
T Consensus 836 ld~n~elt~lg~~la~l~iep~~~k~ 861 (1282)
T KOG0921|consen 836 LDANDELTPLGRMLARLPIEPRIGKM 861 (1282)
T ss_pred hhccCcccchhhhhhhccCcccccce
Confidence 44555666666666666554443333
No 22
>TIGR00593 pola DNA polymerase I. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=72.61 E-value=1e+02 Score=40.86 Aligned_cols=56 Identities=14% Similarity=0.202 Sum_probs=33.3
Q ss_pred EEEeccccccccccCCCCCCCCCH----HHHHHHHHHHHHHHHhhccccceEEEEecCCCc
Q 001209 51 LYLDMNGIIHPCFHPEDRPAPTTF----DEVFQCMFDYIDRLFVMVRPRKLLYMAIDGVAP 107 (1123)
Q Consensus 51 LYLDMNGIIHpC~Hpe~~p~p~te----~Emf~~If~yIDrL~~iVRPrKlLyiAIDGVAP 107 (1123)
|.||-|++|+-++|.-....-+|. ...+.-++..+-+|+...+|..+ .+|+||-.|
T Consensus 2 ~lIDg~~l~~Ra~~a~~~~~l~~~~G~~t~av~Gf~~~l~~ll~~~~p~~i-~v~FD~~~~ 61 (887)
T TIGR00593 2 LLIDGHSLAFRAYFALKNKPLTNSKGEPTNAVYGFTKMLLKLLKEEKPTYV-AVAFDSGTP 61 (887)
T ss_pred EEEeCcHHHHHHHHCCCcccCcCCCCCEecHHHHHHHHHHHHHHhcCCCEE-EEEEcCCCC
Confidence 579999999998886421000011 11223334445555666789875 589998654
No 23
>PF13696 zf-CCHC_2: Zinc knuckle
Probab=72.07 E-value=1.5 Score=34.69 Aligned_cols=18 Identities=39% Similarity=0.887 Sum_probs=15.9
Q ss_pred CcccccCCCCCccccccc
Q 001209 262 DKCFLCGQPGHLAANCEG 279 (1123)
Q Consensus 262 ~~c~~cgQ~gH~~~~c~g 279 (1123)
-.|.+|+|.||+..+|--
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 24
>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=68.92 E-value=6.6 Score=51.82 Aligned_cols=40 Identities=20% Similarity=0.199 Sum_probs=30.5
Q ss_pred ccEEEEcCCCCCCChhhhHHHHHHHhhcCCCCCCCCcEEEEecChhHHHHHhh
Q 001209 190 KIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLALA 242 (1123)
Q Consensus 190 ~lkVIlSda~VPGEGEHKImdfIR~qr~~p~ydPNt~HcIYGlDADLImLgLa 242 (1123)
+|-+|.+ |||+|-=+-...+. .....|++-|+|+++.|=.
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 4566654 89999988877543 5678999999999976643
No 25
>KOG1984 consensus Vesicle coat complex COPII, subunit SFB3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=65.45 E-value=2.6e+02 Score=36.91 Aligned_cols=20 Identities=20% Similarity=0.250 Sum_probs=10.0
Q ss_pred CCCCCCCCCCCCCCCCCcCC
Q 001209 885 SPLPYAAAPYVPPVPSYQEY 904 (1123)
Q Consensus 885 ~~~~~~~~~~~~~~~~~~~~ 904 (1123)
+++|++++...+|+||.+.-
T Consensus 38 p~p~~~~~~p~~~ppg~~p~ 57 (1007)
T KOG1984|consen 38 PPPPMQGTGPRGPPPGAPPQ 57 (1007)
T ss_pred CCCCCCCCCCCCCCCCCCCC
Confidence 44455555444445555533
No 26
>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=60.24 E-value=29 Score=46.12 Aligned_cols=89 Identities=25% Similarity=0.392 Sum_probs=48.6
Q ss_pred CcchhHHHHHHhhCCcccccc-cccCccccCCccccCCCCCCCCCCCccCeEEEecccccccc---ccCCCCCCCCCHHH
Q 001209 1 MGVPAFYRWLAEKYPLVVADV-IEEEPVVIDGVKIPVDTSKPNPNGLEYDNLYLDMNGIIHPC---FHPEDRPAPTTFDE 76 (1123)
Q Consensus 1 MGVP~FfRWL~~rYP~ii~~v-iE~~~~~~dG~~iP~d~s~pNPNg~efDNLYLDMNGIIHpC---~Hpe~~p~p~te~E 76 (1123)
|||.+|+.||...= ..+ ++ ...|. -|=||.-..||-+ ++.......++ ..
T Consensus 1 MGI~GLw~ll~~~~----r~v~le----~l~Gk-----------------~vAIDasiWL~q~l~~vr~~~g~~l~n-~h 54 (1034)
T TIGR00600 1 MGVQGLWKLLECSG----RPVSPE----TLEGK-----------------RLAVDISIWLNQALKGVRDREGNAIKN-SH 54 (1034)
T ss_pred CChhHHHHHHHHhc----ccccHH----HhCCe-----------------EEEechHHHHHHHHHHHHhccCCccCC-HH
Confidence 99999999995321 111 11 12333 4556666677753 22222212222 22
Q ss_pred HHHHHHHHHHHHHh-hccccceEEEEecCCCchhhhHHHHhhhcc
Q 001209 77 VFQCMFDYIDRLFV-MVRPRKLLYMAIDGVAPRAKMNQQRSRRFR 120 (1123)
Q Consensus 77 mf~~If~yIDrL~~-iVRPrKlLyiAIDGVAPRAKMNQQRsRRFr 120 (1123)
+.-+|..|.+|+. -|+| ++.+||.+|-.|...-..||-|
T Consensus 55 -l~g~f~Ri~~Ll~~gI~P----VfVFDG~~p~lK~~t~~~R~~r 94 (1034)
T TIGR00600 55 -LLTLFHRLCKLLFFRIRP----IFVFDGGAPLLKRQTLAKRRQR 94 (1034)
T ss_pred -HHHHHHHHHHHHHCCCeE----EEEECCCCchHhHHHHHHHHHH
Confidence 2344455555543 4555 6789999999888765555444
No 27
>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=56.87 E-value=23 Score=38.41 Aligned_cols=33 Identities=52% Similarity=0.948 Sum_probs=23.8
Q ss_pred CCCccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 001209 977 PSGIHQNGGPRYPPRPMGSTSSGANLYPPQGGYSGYQS 1014 (1123)
Q Consensus 977 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1014 (1123)
|-|+ .-|+.|||.- -|+|.|-||+|+|...+|.
T Consensus 6 pggw-ntg~srypgq----gspGgnRYP~qgg~g~~~~ 38 (217)
T smart00157 6 PGGW-NTGGSRYPGQ----GSPGGNRYPPQGGGWGQPH 38 (217)
T ss_pred CCCC-CCCCCCCCCC----CCCCCCCCCCCCCCCCCCC
Confidence 3353 4466689865 3789999999998777665
No 28
>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=48.66 E-value=17 Score=33.47 Aligned_cols=22 Identities=32% Similarity=0.727 Sum_probs=18.8
Q ss_pred hHHHHhhhhcc--cCCCCCCCccc
Q 001209 334 DDFIFMCFFVG--NDFLPHMPTLE 355 (1123)
Q Consensus 334 DDfVfLcffvG--NDFLPhLPsLe 355 (1123)
+.|+-+|.|+| .|++|.+|.+-
T Consensus 8 ~q~~d~~~L~GD~~D~i~gv~giG 31 (75)
T cd00080 8 EQFIDLAILVGDKSDNIPGVPGIG 31 (75)
T ss_pred HHHHHHHHHcCCccccCCCCCccc
Confidence 46778999999 99999999843
No 29
>PF12287 Caprin-1_C: Cytoplasmic activation/proliferation-associated protein-1 C term; InterPro: IPR022070 This family of proteins is found in eukaryotes. Proteins in this family are typically between 343 and 708 amino acids in length. This family is the C-terminal region of caprin-1. Caprin-1 is a protein involved in regulating cellular proliferation. In mutated phenotypes, the G1 phase of the cell cycle is greatly lengthened, impairing normal proliferation. The C-terminal region of caprin-1 contains RGG motifs which are characteristic of RNA binding domains. It is possible that caprin-1 functions through an RNA binding mechanism.
Probab=38.45 E-value=1.4e+02 Score=34.83 Aligned_cols=41 Identities=24% Similarity=0.406 Sum_probs=21.1
Q ss_pred CCCccCCCCCCCCCCCCCC-CCCC----CCCCC-CCCCCC-CCCCCCC
Q 001209 977 PSGIHQNGGPRYPPRPMGS-TSSG----ANLYP-PQGGYS-GYQSPAA 1017 (1123)
Q Consensus 977 ~~~~~~~~~~~~~~~~~~~-~~~~----~~~~~-~~~~~~-~~~~~~~ 1017 (1123)
..+|-+.+-|-|.+|-+-- ++-| +|.|- |.+||- ||-.|-+
T Consensus 225 ~~~FpR~~Qpf~nsRg~~RG~~Rg~R~l~NgYR~ps~GykgGfd~YRg 272 (316)
T PF12287_consen 225 TNVFPRPTQPFYNSRGSVRGGPRGGRGLMNGYRGPSNGYKGGFDGYRG 272 (316)
T ss_pred CCcCCCCCCCCcccCccccccCCCcccccccccCCCCCccCCcccccC
Confidence 3455555555555554321 1122 57786 456664 5666654
No 30
>smart00279 HhH2 Helix-hairpin-helix class 2 (Pol1 family) motifs.
Probab=33.93 E-value=30 Score=27.95 Aligned_cols=20 Identities=25% Similarity=0.624 Sum_probs=16.2
Q ss_pred hHHHHhhhhcccCCCCCCCcc
Q 001209 334 DDFIFMCFFVGNDFLPHMPTL 354 (1123)
Q Consensus 334 DDfVfLcffvGNDFLPhLPsL 354 (1123)
+-|+-+|.|+| |+.+.+|++
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 999966654
No 31
>smart00343 ZnF_C2HC zinc finger.
Probab=33.56 E-value=20 Score=26.37 Aligned_cols=16 Identities=50% Similarity=1.379 Sum_probs=14.2
Q ss_pred cccccCCCCCcccccc
Q 001209 263 KCFLCGQPGHLAANCE 278 (1123)
Q Consensus 263 ~c~~cgQ~gH~~~~c~ 278 (1123)
.|..|++.||.+.+|.
T Consensus 1 ~C~~CG~~GH~~~~C~ 16 (26)
T smart00343 1 KCYNCGKEGHIARDCP 16 (26)
T ss_pred CCccCCCCCcchhhCC
Confidence 4889999999999994
No 32
>PF02739 5_3_exonuc_N: 5'-3' exonuclease, N-terminal resolvase-like domain; InterPro: IPR020046 The N-terminal and internal 5'3'-exonuclease domains are commonly found together, and are most often associated with 5' to 3' nuclease activities. The XPG protein signatures (PDOC00658 from PROSITEDOC) are never found outside the '53EXO' domains. The latter are found in more diverse proteins [, , ]. The number of amino acids that separate the two 53EXO domains, and the presence of accompanying motifs allow the diagnosis of several protein families. In the eubacterial type A DNA-polymerases, the N-terminal and internal domains are separated by a few amino acids, usually four. The pattern DNA_POLYMERASE_A (IPR001098 from INTERPRO) is always present towards the C terminus. Several eukaryotic structure-dependent endonucleases and exonucleases have the 53EXO domains separated by 24 to 27 amino acids, and the XPG protein signatures are always present. In several proteins from herpesviridae, the two 53EXO domains are separated by 50 to 120 amino acids. These proteins are implicated in the inhibition of the expression of the host genes. Eukaryotic DNA repair proteins with 600 to 700 amino acids between the 53_EXO domains all carry the XPG protein signatures. This entry represents the N-terminal resolvase-like domain, which has a 3-layer alpha/beta/alpha core structure and contains an alpha-helical arch [, ].; GO: 0003677 DNA binding, 0008409 5'-3' exonuclease activity; PDB: 1TAQ_A 1BGX_T 1TAU_A 1XO1_B 1EXN_A 1UT8_A 1UT5_B 3H7I_A 3H8J_A 3H8S_A ....
Probab=31.01 E-value=1.6e+02 Score=31.29 Aligned_cols=56 Identities=14% Similarity=0.257 Sum_probs=38.5
Q ss_pred EEEeccccccccccCCCCCCCCC----HHHHHHHHHHHHHHHHhhccccceEEEEecCCCc
Q 001209 51 LYLDMNGIIHPCFHPEDRPAPTT----FDEVFQCMFDYIDRLFVMVRPRKLLYMAIDGVAP 107 (1123)
Q Consensus 51 LYLDMNGIIHpC~Hpe~~p~p~t----e~Emf~~If~yIDrL~~iVRPrKlLyiAIDGVAP 107 (1123)
|.||.|+++|-|.|.--...-.+ .-..+...+..|.+|+...+|.. +.+|+|+-.+
T Consensus 4 lLIDg~~l~~Ra~~a~~~~~l~~~~G~~t~ai~g~~~~l~~l~~~~~p~~-~vv~fD~~~~ 63 (169)
T PF02739_consen 4 LLIDGNSLLFRAYYALPKDPLRNSDGEPTNAIYGFLRMLLKLLKDFKPDY-VVVAFDSKGP 63 (169)
T ss_dssp EEEEHHHHHHHCCCCCTTST-BETTSEB-HHHHHHHHHHHHHHHHTTEEE-EEEEEEBSSC
T ss_pred EEEechHHHHHHHHhhccCCCcCCCCCChHHHHHHHHHHHHHHHHcCCce-EEEEecCCCc
Confidence 78999999999998754211001 11244456667778888888987 4599999887
No 33
>KOG4822 consensus Predicted nuclear membrane protein involved in mRNA transport and sex determination via splicing modulation [RNA processing and modification; Signal transduction mechanisms]
Probab=30.87 E-value=5.9e+02 Score=34.92 Aligned_cols=60 Identities=22% Similarity=0.225 Sum_probs=30.0
Q ss_pred cCCCccccCCCcchhhhhhc---cCCCccccCcccccCCCCCCCCCCCCCccccccccCCCCCc
Q 001209 1034 YGQGQHHQRRDGGYQQYHDQ---QRNYSHLQGNHQQRGNQGQHQPRGNQGQYVRDNQHRGNYGH 1094 (1123)
Q Consensus 1034 ~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1094 (1123)
--+|++-+|-.---++|-.| |-+|--.+|++ .+|+.||.-|.-.--.|...-..|+-|++
T Consensus 1807 ~~~~~~m~r~g~~~ssw~~q~~~~g~y~~~~g~q-~~~t~~~~~~~~Ss~~Y~~sPr~r~~r~r 1869 (1906)
T KOG4822|consen 1807 MHQMQLMQRTGVQPSSWISQVQQQGQYHAVQGQQ-GAGTSQQQESGMSSHDYFKSPRARQYRVR 1869 (1906)
T ss_pred hhhhhHHhhcCCCCcchhhhcCCCcccccccccc-CCCCCCCCCCCCCCCCCCCCchhhhhccc
Confidence 34566666655444788766 55555555554 34455543332222334433334444443
No 34
>PF15288 zf-CCHC_6: Zinc knuckle
Probab=28.22 E-value=29 Score=29.07 Aligned_cols=15 Identities=47% Similarity=0.862 Sum_probs=12.7
Q ss_pred CcccccCCCCCcccc
Q 001209 262 DKCFLCGQPGHLAAN 276 (1123)
Q Consensus 262 ~~c~~cgQ~gH~~~~ 276 (1123)
.+|..||+.||...+
T Consensus 2 ~kC~~CG~~GH~~t~ 16 (40)
T PF15288_consen 2 VKCKNCGAFGHMRTN 16 (40)
T ss_pred ccccccccccccccC
Confidence 589999999998753
No 35
>PF13917 zf-CCHC_3: Zinc knuckle
Probab=28.05 E-value=32 Score=29.00 Aligned_cols=19 Identities=37% Similarity=0.893 Sum_probs=16.8
Q ss_pred CCcccccCCCCCccccccc
Q 001209 261 QDKCFLCGQPGHLAANCEG 279 (1123)
Q Consensus 261 ~~~c~~cgQ~gH~~~~c~g 279 (1123)
...|..|++.||.+.+|..
T Consensus 4 ~~~CqkC~~~GH~tyeC~~ 22 (42)
T PF13917_consen 4 RVRCQKCGQKGHWTYECPN 22 (42)
T ss_pred CCcCcccCCCCcchhhCCC
Confidence 4579999999999999974
No 36
>PF06756 S19: Chorion protein S19 C-terminal; InterPro: IPR009611 This entry represents the C-terminal region of eukaryotic chorion protein S19. In Drosophilidae, the S19 gene is known to form part of an autosomal cluster that also contains s16, s15 and s18 []. Note that members of this family contain a conserved PVA motif, and many contain IPR005649 from INTERPRO.; GO: 0007275 multicellular organismal development, 0042600 chorion
Probab=24.54 E-value=46 Score=30.57 Aligned_cols=29 Identities=41% Similarity=0.795 Sum_probs=24.2
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 001209 984 GGPRYPPRPMGSTSSGANLYPPQGGYSGYQSPA 1016 (1123)
Q Consensus 984 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1016 (1123)
.+|||.--|++. |-+||-|.-|.+|+|+-
T Consensus 15 ~~Pr~tVqPAga----TlLyPGqn~Yr~y~SP~ 43 (74)
T PF06756_consen 15 YRPRWTVQPAGA----TLLYPGQNNYRAYVSPP 43 (74)
T ss_pred CCCceeEccCcc----eEEcCCcccceeecCCc
Confidence 479999888854 56899999999999953
No 37
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=24.11 E-value=43 Score=41.02 Aligned_cols=66 Identities=21% Similarity=0.344 Sum_probs=38.2
Q ss_pred CChhhhHHHHHHHhhcCCCCCCCC--cEEEEecChhHHHHHhhcCCceEEEcccccccCCCCCcccccCCCCCccccccc
Q 001209 202 GEGEHKIMSYVRLQRNLPGYDPNT--RHCLYGLDADLIMLALATHEVHFSILREVVFTPGQQDKCFLCGQPGHLAANCEG 279 (1123)
Q Consensus 202 GEGEHKImdfIR~qr~~p~ydPNt--~HcIYGlDADLImLgLatHep~f~ILRE~Vf~~~~~~~c~~cgQ~gH~~~~c~g 279 (1123)
|-+|+|=+.-++..+..+.....+ .--+||.+ -|--.-+==| +++-...|++|+..||++.+|..
T Consensus 237 ~~n~l~~~Qlrela~lNgt~r~~d~~~c~~cg~~---------~H~q~~cp~r----~~~~~n~c~~cg~~gH~~~dc~~ 303 (554)
T KOG0119|consen 237 GQNDLKRLQLRELARLNGTLRDDDNRACRNCGST---------GHKQYDCPGR----IPNTTNVCKICGPLGHISIDCKV 303 (554)
T ss_pred ccccccHHHHHHHHHhCCCCCccccccccccCCC---------ccccccCCcc----cccccccccccCCcccccccCCC
Confidence 447999998888877776654322 22223322 2321111111 12223389999999999999955
Q ss_pred c
Q 001209 280 K 280 (1123)
Q Consensus 280 ~ 280 (1123)
.
T Consensus 304 ~ 304 (554)
T KOG0119|consen 304 N 304 (554)
T ss_pred c
Confidence 3
No 38
>PF14392 zf-CCHC_4: Zinc knuckle
Probab=23.74 E-value=32 Score=29.29 Aligned_cols=19 Identities=37% Similarity=0.875 Sum_probs=16.6
Q ss_pred CCCcccccCCCCCcccccc
Q 001209 260 QQDKCFLCGQPGHLAANCE 278 (1123)
Q Consensus 260 ~~~~c~~cgQ~gH~~~~c~ 278 (1123)
.+..|+.||..||...+|.
T Consensus 30 lp~~C~~C~~~gH~~~~C~ 48 (49)
T PF14392_consen 30 LPRFCFHCGRIGHSDKECP 48 (49)
T ss_pred cChhhcCCCCcCcCHhHcC
Confidence 4578999999999999993
No 39
>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]
Probab=23.69 E-value=4.9e+02 Score=34.95 Aligned_cols=12 Identities=17% Similarity=0.354 Sum_probs=6.1
Q ss_pred CCChhhhhhhcC
Q 001209 622 PFKPFNQLLGVF 633 (1123)
Q Consensus 622 Pf~PfEQLMsVL 633 (1123)
|+.|.--+|-+|
T Consensus 853 ~iep~~~k~~~l 864 (1282)
T KOG0921|consen 853 PIEPRIGKMMIL 864 (1282)
T ss_pred cCcccccceeee
Confidence 555555555444
No 40
>smart00484 XPGI Xeroderma pigmentosum G I-region. domain in nucleases
Probab=23.53 E-value=41 Score=31.16 Aligned_cols=35 Identities=17% Similarity=0.257 Sum_probs=28.1
Q ss_pred CCCChhhhHHHHHHHhhcCCCCCCCCcEEEEecChhHHHHHhhc
Q 001209 200 VPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLALAT 243 (1123)
Q Consensus 200 VPGEGEHKImdfIR~qr~~p~ydPNt~HcIYGlDADLImLgLat 243 (1123)
-|||+|.-+--.-++ ..-+.|+|.|+|+++.|--.
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 399999988777662 46789999999999987553
No 41
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=21.23 E-value=41 Score=36.65 Aligned_cols=18 Identities=50% Similarity=1.152 Sum_probs=16.2
Q ss_pred CCcccccCCCCCcccccc
Q 001209 261 QDKCFLCGQPGHLAANCE 278 (1123)
Q Consensus 261 ~~~c~~cgQ~gH~~~~c~ 278 (1123)
...|+.|||.||...+|.
T Consensus 60 ~~~C~nCg~~GH~~~DCP 77 (190)
T COG5082 60 NPVCFNCGQNGHLRRDCP 77 (190)
T ss_pred ccccchhcccCcccccCC
Confidence 368999999999999995
Done!