Query 003374
Match_columns 825
No_of_seqs 180 out of 285
Neff 4.9
Searched_HMMs 46136
Date Thu Mar 28 22:18:28 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/003374.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/003374hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1189 Global transcriptional 100.0 2E-217 5E-222 1806.6 48.6 714 54-798 1-956 (960)
2 COG5406 Nucleosome binding fac 100.0 3E-191 6E-196 1567.7 49.3 744 18-788 1-996 (1001)
3 PF08644 SPT16: FACT complex s 100.0 1.9E-58 4.1E-63 450.0 16.8 152 314-468 1-152 (152)
4 PF14826 FACT-Spt16_Nlob: FACT 100.0 4.2E-48 9.2E-53 383.2 12.3 160 23-190 1-163 (163)
5 KOG0526 Nucleosome-binding fac 100.0 1.6E-35 3.6E-40 327.3 21.9 217 438-682 203-432 (615)
6 COG5165 POB3 Nucleosome-bindin 100.0 1.8E-31 4E-36 284.1 18.3 216 438-681 212-440 (508)
7 PF08512 Rtt106: Histone chape 99.9 1.2E-23 2.6E-28 191.7 7.5 90 593-682 1-94 (95)
8 PF03531 SSrecog: Structure-sp 99.3 1.3E-12 2.9E-17 135.8 7.4 66 457-524 151-218 (222)
9 PRK09795 aminopeptidase; Provi 96.2 0.029 6.2E-07 62.7 10.8 137 30-207 2-138 (361)
10 PF04931 DNA_pol_phi: DNA poly 96.0 0.0048 1E-07 75.7 3.6 9 687-695 611-619 (784)
11 PF04931 DNA_pol_phi: DNA poly 95.4 0.016 3.4E-07 71.3 4.8 6 169-174 208-213 (784)
12 KOG1832 HIV-1 Vpr-binding prot 95.0 0.019 4.1E-07 69.6 3.6 42 625-676 1324-1369(1516)
13 PF05764 YL1: YL1 nuclear prot 94.4 0.094 2E-06 56.1 7.0 8 728-735 41-48 (240)
14 KOG3064 RNA-binding nuclear pr 94.1 0.024 5.1E-07 60.6 1.5 39 590-633 31-73 (303)
15 PRK10879 proline aminopeptidas 92.7 0.52 1.1E-05 54.5 9.8 161 23-207 1-184 (438)
16 KOG1832 HIV-1 Vpr-binding prot 92.5 0.082 1.8E-06 64.4 2.8 30 301-337 879-908 (1516)
17 KOG1189 Global transcriptional 91.8 0.1 2.2E-06 62.8 2.6 32 497-528 521-558 (960)
18 PF01321 Creatinase_N: Creatin 91.2 4.3 9.3E-05 37.6 12.4 125 31-193 1-129 (132)
19 PF10446 DUF2457: Protein of u 90.9 0.096 2.1E-06 59.9 1.2 18 669-688 12-29 (458)
20 PF04147 Nop14: Nop14-like fam 88.8 0.35 7.6E-06 60.3 3.8 13 539-551 271-283 (840)
21 TIGR02993 ectoine_eutD ectoine 87.0 4.8 0.0001 45.8 11.2 153 23-207 6-169 (391)
22 PRK14575 putative peptidase; P 86.6 4.5 9.8E-05 46.3 10.8 62 137-207 126-189 (406)
23 PHA02664 hypothetical protein; 86.4 0.78 1.7E-05 50.7 4.3 14 330-343 179-192 (534)
24 PF13104 DUF3956: Protein of u 83.3 1.2 2.7E-05 35.2 2.9 27 608-634 2-28 (45)
25 PF04147 Nop14: Nop14-like fam 82.0 0.96 2.1E-05 56.5 3.0 18 552-569 209-226 (840)
26 KOG3064 RNA-binding nuclear pr 81.5 1 2.2E-05 48.6 2.6 15 556-570 81-95 (303)
27 KOG0943 Predicted ubiquitin-pr 79.9 1.3 2.8E-05 55.8 3.0 37 600-636 1556-1593(3015)
28 COG5406 Nucleosome binding fac 79.8 1.4 3.1E-05 52.5 3.2 134 385-528 459-604 (1001)
29 PF06524 NOA36: NOA36 protein; 79.3 1.8 3.8E-05 47.0 3.4 13 622-634 121-133 (314)
30 PF05285 SDA1: SDA1; InterPro 78.4 1.7 3.6E-05 48.6 3.1 17 658-676 65-81 (324)
31 PTZ00007 (NAP-L) nucleosome as 77.6 13 0.00027 42.2 9.6 90 542-650 54-152 (337)
32 COG0006 PepP Xaa-Pro aminopept 77.2 25 0.00054 39.7 12.0 151 27-207 9-165 (384)
33 KOG2038 CAATT-binding transcri 73.9 2 4.4E-05 52.4 2.4 24 118-143 217-240 (988)
34 PF06524 NOA36: NOA36 protein; 72.9 4.7 0.0001 43.8 4.5 11 603-613 208-218 (314)
35 PF02724 CDC45: CDC45-like pro 71.3 1.6 3.5E-05 52.9 0.7 11 643-653 75-85 (622)
36 PF05195 AMP_N: Aminopeptidase 69.4 10 0.00022 37.0 5.7 57 23-88 1-62 (134)
37 PF09026 CENP-B_dimeris: Centr 68.7 1.7 3.7E-05 40.6 0.2 12 770-781 38-49 (101)
38 PRK13607 proline dipeptidase; 68.4 8.5 0.00019 44.8 5.8 132 50-207 28-172 (443)
39 KOG0127 Nucleolar protein fibr 63.8 4.8 0.0001 47.6 2.6 15 482-496 97-111 (678)
40 PF02724 CDC45: CDC45-like pro 62.4 8 0.00017 47.0 4.2 13 676-688 76-88 (622)
41 PRK14576 putative endopeptidas 61.5 87 0.0019 36.0 12.1 66 133-207 121-188 (405)
42 KOG0526 Nucleosome-binding fac 61.0 6.9 0.00015 46.3 3.1 13 349-361 252-264 (615)
43 KOG0943 Predicted ubiquitin-pr 59.1 6.7 0.00014 50.1 2.7 22 314-335 1097-1118(3015)
44 COG5129 MAK16 Nuclear protein 58.4 5.1 0.00011 42.7 1.4 13 683-695 177-192 (303)
45 PF08553 VID27: VID27 cytoplas 58.1 6.9 0.00015 48.8 2.7 34 666-699 338-371 (794)
46 KOG2038 CAATT-binding transcri 57.9 6 0.00013 48.6 2.0 18 190-207 328-345 (988)
47 PF08567 TFIIH_BTF_p62_N: TFII 52.1 43 0.00092 30.2 6.0 56 452-508 9-68 (79)
48 KOG2141 Protein involved in hi 50.5 11 0.00025 46.0 2.8 8 561-568 130-137 (822)
49 PF03115 Astro_capsid: Astrovi 47.5 6.2 0.00013 49.0 0.0 11 183-193 181-191 (787)
50 PF03344 Daxx: Daxx Family; I 46.6 6.5 0.00014 48.5 0.0 12 133-144 70-81 (713)
51 KOG1834 Calsyntenin [Extracell 46.0 9.7 0.00021 46.0 1.3 28 330-362 428-455 (952)
52 PF05764 YL1: YL1 nuclear prot 44.2 25 0.00054 37.8 3.9 9 690-698 11-19 (240)
53 KOG0262 RNA polymerase I, larg 44.0 19 0.00041 46.5 3.3 14 655-668 1259-1272(1640)
54 KOG2773 Apoptosis antagonizing 42.4 18 0.0004 42.1 2.7 12 773-784 139-150 (483)
55 COG5165 POB3 Nucleosome-bindin 41.9 13 0.00029 42.2 1.5 88 617-711 35-126 (508)
56 KOG2393 Transcription initiati 41.4 46 0.00099 39.8 5.7 34 665-705 175-209 (555)
57 PTZ00007 (NAP-L) nucleosome as 39.3 27 0.00059 39.6 3.4 21 394-414 39-59 (337)
58 KOG1980 Uncharacterized conser 36.7 22 0.00047 43.2 2.2 19 258-276 52-70 (754)
59 PF03344 Daxx: Daxx Family; I 35.9 12 0.00026 46.2 0.0 20 393-412 198-217 (713)
60 KOG0699 Serine/threonine prote 34.0 27 0.00059 39.9 2.3 18 329-346 19-36 (542)
61 PF14470 bPH_3: Bacterial PH d 33.0 1.6E+02 0.0034 26.1 6.7 69 600-674 22-95 (96)
62 KOG2985 Uncharacterized conser 32.8 83 0.0018 34.5 5.5 11 802-812 279-289 (306)
63 PF06213 CobT: Cobalamin biosy 32.7 57 0.0012 35.8 4.5 9 667-675 168-176 (282)
64 PF03115 Astro_capsid: Astrovi 31.9 15 0.00033 45.7 0.0 10 349-358 348-357 (787)
65 COG4547 CobT Cobalamin biosynt 31.7 43 0.00093 39.5 3.4 7 590-596 138-144 (620)
66 PF03985 Paf1: Paf1 ; InterPr 30.6 56 0.0012 38.1 4.2 11 399-409 156-166 (436)
67 COG5593 Nucleic-acid-binding p 30.4 63 0.0014 38.8 4.5 46 97-146 85-133 (821)
68 KOG1354 Serine/threonine prote 30.3 77 0.0017 36.3 5.0 61 298-362 123-193 (433)
69 KOG4364 Chromatin assembly fac 29.3 36 0.00077 41.6 2.4 24 669-697 483-506 (811)
70 KOG2321 WD40 repeat protein [G 29.3 33 0.00071 41.3 2.0 35 301-336 87-122 (703)
71 KOG1834 Calsyntenin [Extracell 28.5 44 0.00095 40.8 2.9 23 686-708 869-891 (952)
72 PF11705 RNA_pol_3_Rpc31: DNA- 27.3 58 0.0013 34.7 3.3 9 560-568 57-65 (233)
73 KOG2652 RNA polymerase II tran 26.6 53 0.0011 37.3 2.9 15 618-632 202-216 (348)
74 KOG1060 Vesicle coat complex A 26.2 73 0.0016 39.9 4.2 14 379-392 358-371 (968)
75 KOG2076 RNA polymerase III tra 25.8 46 0.001 41.9 2.5 91 716-814 40-137 (895)
76 PRK15173 peptidase; Provisiona 25.3 1.7E+02 0.0037 32.7 6.7 66 133-207 39-106 (323)
77 KOG0127 Nucleolar protein fibr 24.6 47 0.001 39.8 2.2 7 484-490 32-38 (678)
78 KOG1060 Vesicle coat complex A 24.6 75 0.0016 39.8 3.9 8 72-79 91-98 (968)
79 COG4547 CobT Cobalamin biosynt 23.3 66 0.0014 38.0 3.0 10 502-511 43-52 (620)
80 PF10281 Ish1: Putative stress 23.2 61 0.0013 25.0 1.9 31 666-698 6-36 (38)
81 PF03703 bPH_2: Bacterial PH d 23.0 1.5E+02 0.0033 25.1 4.6 56 618-673 23-80 (80)
82 KOG2051 Nonsense-mediated mRNA 23.0 1.2E+02 0.0025 39.2 5.2 42 630-672 806-850 (1128)
83 PF04006 Mpp10: Mpp10 protein; 22.8 99 0.0022 37.7 4.6 15 774-788 190-204 (600)
84 PF04050 Upf2: Up-frameshift s 22.1 30 0.00064 35.3 0.0 6 776-781 63-68 (170)
85 PF06213 CobT: Cobalamin biosy 21.6 1.1E+02 0.0024 33.6 4.2 9 691-699 197-205 (282)
86 PF03985 Paf1: Paf1 ; InterPr 21.5 90 0.0019 36.4 3.7 9 691-699 356-364 (436)
87 PTZ00415 transmission-blocking 20.6 77 0.0017 42.8 3.1 11 638-648 123-133 (2849)
88 PF05470 eIF-3c_N: Eukaryotic 20.6 74 0.0016 38.9 2.8 38 657-703 101-138 (595)
89 KOG1991 Nuclear transport rece 20.3 48 0.001 42.1 1.3 21 631-651 809-829 (1010)
90 KOG1991 Nuclear transport rece 20.1 46 0.00099 42.4 1.0 12 75-86 208-219 (1010)
No 1
>KOG1189 consensus Global transcriptional regulator, cell division control protein [Amino acid transport and metabolism]
Probab=100.00 E-value=2.3e-217 Score=1806.59 Aligned_cols=714 Identities=49% Similarity=0.813 Sum_probs=652.2
Q ss_pred EEEcCCCCccccchhhhhhhHhhcCCcccceeeEeecCeEEEEechhhhhhhhhhhcc---CCCCccEEEEEeecCCCCC
Q 003374 54 AIATPPASEDLRYLKSSALNIWLLGYEFPETVMVFMKKQIQFLCSQKKASLLGMVKRS---AKDAVGADVVIHVKAKTDD 130 (825)
Q Consensus 54 ~i~~G~~~ed~~Y~KStaLq~WLlGYEFpdTlivftk~~i~~LtS~KKa~~Le~l~~~---~~~~~~Veilvr~Kd~~~n 130 (825)
+|++|+++++++|+||+|||+||||||||+||||||+++||||||.+||+||+.+++. .++.+.|.+|+|.| ++.
T Consensus 1 ~v~~G~s~dd~~Y~KssAL~~WLlGYEfpdTilv~~~~~i~iltSkkKa~~l~~~~~~~~~~~~~~~v~llvR~k--~d~ 78 (960)
T KOG1189|consen 1 AVVVGVSEDDNPYQKSSALFTWLLGYEFPDTILVLCKDKIYILTSKKKAEFLQKVTNLAQSSEGKPTVNLLVRDK--NDD 78 (960)
T ss_pred CeeecccccccchhHHHHHHHHHhccccCceEEEEecCcEEEEecchhHHHHHhhcccccCcccCcceEEEeccc--Ccc
Confidence 5789999999999999999999999999999999999999999999999999997642 45678899999943 444
Q ss_pred hHHHHHHHHHHHhccCCCCCCCCCeEEEeeCCCCCCchHHHHHHHHhccCCceeccchhhHhHhhccChhhhhceee---
Q 003374 131 GVELMDAIFNAVRSQSNVDSGDGPIVGSIARETPEGRLLETWADRLQNSGFQLSDVTNGLSELFAVKDQEEIMNVKK--- 207 (825)
Q Consensus 131 ~~~~fekli~~ik~~~~~~s~~g~kVGvl~Kdk~~G~F~~~W~~~l~~~~~e~VDVS~~iS~llavKDe~Ei~~ikk--- 207 (825)
++++|++||++|+ ++|++||+|.||+++|+||.+|+++|++++|+.||||.|||++|||||++||.+||+
T Consensus 79 n~~~fdkii~~ik-------~~gk~vGvf~ke~~~G~F~~~W~~~l~~~~fn~vDis~~ls~l~avKDd~Ei~~irksa~ 151 (960)
T KOG1189|consen 79 NKGLFDKIIKAIK-------SAGKKVGVFAKEKFQGEFMESWNKRLEAGGFNKVDISLGLSKLFAVKDDEEIANIRKSAA 151 (960)
T ss_pred ccccHHHHHHHHH-------hcCCeeeeecccccchhHHHHHHHHhhhcCCceeehhhhhhhheeeccHHHHHHHHHHHH
Confidence 4599999999999 589999999999999999999999999999999999999999999999999999999
Q ss_pred --------------------------------------------------------------------------------
Q 003374 208 -------------------------------------------------------------------------------- 207 (825)
Q Consensus 208 -------------------------------------------------------------------------------- 207 (825)
T Consensus 152 ~s~~vm~k~~~~~~~~aiD~ekkvthskLsD~~e~~I~~~k~s~~l~~~~~d~cY~PIiqSGg~ydlk~sa~s~~~~L~~ 231 (960)
T KOG1189|consen 152 ASSAVMNKYLVDELVEAIDEEKKVTHSKLSDLMESAIEDKKYSPGLDPDLLDMCYPPIIQSGGKYDLKPSAVSDDNHLHV 231 (960)
T ss_pred HHHHHHHHHHHHHHHHHhhccchhhhHHHHHHHHHHhhccccCcccCccccccccChhhhcCCcccccccccccccccce
Confidence
Q ss_pred --------------------------------------------------------------------------------
Q 003374 208 -------------------------------------------------------------------------------- 207 (825)
Q Consensus 208 -------------------------------------------------------------------------------- 207 (825)
T Consensus 232 I~cs~G~RynsYCSNv~RT~Lidpssemq~nY~fLl~aqe~il~~lrpG~ki~dVY~~~l~~v~k~~Pel~~~~~k~lG~ 311 (960)
T KOG1189|consen 232 ILCSLGIRYNSYCSNVSRTYLIDPSSEMQENYEFLLAAQEEILKLLRPGTKIGDVYEKALDYVEKNKPELVPNFTKNLGF 311 (960)
T ss_pred EEeeccchhhhhhccccceeeecchHHHHHHHHHHHHHHHHHHHhhcCCCchhHHHHHHHHHHHhcCcchhhhhhhhccc
Confidence
Q ss_pred --------------------------------------------------------------------cccCceeEEecC
Q 003374 208 --------------------------------------------------------------------AAVKDVAYSFNE 219 (825)
Q Consensus 208 --------------------------------------------------------------------k~~~~i~y~~~d 219 (825)
|+.++|+|+|++
T Consensus 312 ~iGlEFREssl~inaKnd~~lk~gmvFni~lGf~nl~n~~~~~~yaL~l~DTvlv~e~~p~~vLT~~~K~~~dv~~~f~~ 391 (960)
T KOG1189|consen 312 GIGLEFRESSLVINAKNDRVLKKGMVFNISLGFSNLTNPESKNSYALLLSDTVLVGEDPPAEVLTDSAKAVKDVSYFFKD 391 (960)
T ss_pred ccceeeecccccccccchhhhccCcEEEEeeccccccCcccccchhhhccceeeecCCCcchhhcccchhhcccceeecc
Confidence 899999999998
Q ss_pred Cccc-cc--c--cccccccCCcccccCcccccCccccccHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCccccc
Q 003374 220 DEEE-EE--R--PKVKAEANGTEALPSKTTLRSDNQEISKEELRRQHQAELARQKNEETGRRLAGGGSGAGDNRASAKTT 294 (825)
Q Consensus 220 ~~~~-~~--~--~~~~~~~~~~~~i~~~~~lR~~~~~~~~e~~r~~hQ~eL~~~~~~e~~~r~~~~~~~~~~~~~~~k~~ 294 (825)
++++ +. + ..+.++++.+.++ +..++|++. ++|++|++||+||++|+++|+++||+++++. ++.++|..
T Consensus 392 eeeE~~~~~k~~~~~~~~r~~r~a~-l~~k~R~e~---~~ee~RKehQkeLa~qlnee~~~Rls~~s~~---s~~~~ks~ 464 (960)
T KOG1189|consen 392 EEEEEELEKKDPATKVLGRGTRTAL-LTDKTRNET---SAEEKRKEHQKELADQLNEEALRRLSNQSGD---SKDEEKSR 464 (960)
T ss_pred chhhhhhhhccccccccCccccchh-ccccccccc---cHHHHHHHHHHHHHHHHHHHHHHHHhhcCCC---ccchhhhh
Confidence 7775 22 1 2233466777777 899999998 7999999999999999999999999997655 55666889
Q ss_pred cceeccCCCCCCCCCC-CceEEEEccCcEEEEeeCCcccceeeeeeeeeeccccCCCeEEEEEEeecCCCCCCCCCCCCc
Q 003374 295 TDLIAYKNVNDLLPPR-DLMIQIDQKNEAVLFPIYGSMVPFHVATIRTVSSQQDTNRNCYIRIIFNVPGTPFNPHDTNSL 373 (825)
Q Consensus 295 ~~~~sYk~~~~~P~~~-~~~I~VD~k~e~vilPI~G~~VPFHI~tIKnvs~~~e~g~~~yLRINF~~Pg~~~~k~~~~~~ 373 (825)
++++||+++++||+++ .++||||++++||||||||+||||||+||||+|+++| |+||||||||++||++.|+.+..+|
T Consensus 465 k~~vsYk~~s~mP~~i~el~i~VD~k~esvilPI~g~~VPFHistikn~s~~~e-g~~tYLRinF~~pg~~~g~~e~~~~ 543 (960)
T KOG1189|consen 465 KRIVSYKRESQMPREIRELRIYVDKKYESVILPIFGIPVPFHISTIKNASQNVE-GDYTYLRINFNTPGSPGGKNEELPF 543 (960)
T ss_pred hccccccchhhcchhhhheEEEEecccceEEEeecCcccceehhhhhccccccc-CceeEEEEEecCCCCCCCCCCCCcC
Confidence 9999999999999999 9999999999999999999999999999999999999 9999999999999999999999999
Q ss_pred CCcCceeEEEEEeeeCCcCcHHHHHHHHHHHHHHHHHHHHHHHHHhccccccceeecCCCcCcccccceeeccCCCCCCc
Q 003374 374 KHQGAIYLKEVSFRSKDPRHIGEVVGAIKTLRRQVMARESERAERATLVTQEKLQLAGNRFKPIKLHDLWIRPVFGGRGR 453 (825)
Q Consensus 374 ~~~~~~fikelt~Rs~d~~~~~~~~~~Ikelkk~~~~re~e~~e~~~~v~QekLi~~~~~~~~~~L~dl~iRP~~~g~~k 453 (825)
++|+|+|||||||||+|++|++++|++||+|||++++||+|+++++++|+||+|++++++++| +|+||||||+|.| |
T Consensus 544 ~~~~a~flkeit~rs~~~~~~s~~f~~ik~l~k~~~~re~e~~eke~~v~qdkL~~~kn~~~p-~L~dlyiRp~i~~--K 620 (960)
T KOG1189|consen 544 ENPGAQFLKEITFRSSNGKRSSEAFRQIKELQKRFKSREAERKEKEDLVKQDKLIESKNKSNP-KLKDLYIRPNIDT--K 620 (960)
T ss_pred CCchhhhhhheeeeecCCcchHHHHHHHHHHHHHHHHHHhhhhhhhchhhhhHHHHhhccCCC-chhheEecCCccc--c
Confidence 999999999999999999999999999999999999999999999999999999999999999 9999999999999 9
Q ss_pred cCCceEEEEeceeeeeeCCCCceEEeeccccceeeeccCCCccEEEEEEEccCceeeCceecceeeeeEEeeeeEEecCC
Q 003374 454 KIPGTLEAHLNGFRFATSRPEERVDIMFGNIKHAFFQPAEKEMITLVHFHLHNHIMVGNKKTKDVQFYVEVMDVVQTLGG 533 (825)
Q Consensus 454 r~~G~lE~H~NG~Ry~s~~k~~~idIly~NIKh~FfqP~~~E~ivlihfhLk~PI~~Gkkk~~dvQFy~E~~e~~~dl~~ 533 (825)
|++|+||+|+|||||+| .|+++|||||+||||||||||++|||+||||||++|||+|+|||.|||||+||++++++|++
T Consensus 621 r~~G~lEaH~NGfRy~s-~R~~~vdiLfsNIKhafFqpc~~Emi~llHfHLknpIm~GkkK~~dVQFY~Ev~div~dlg~ 699 (960)
T KOG1189|consen 621 RIPGSLEAHENGFRYQS-LRDERVDILFSNIKHAFFQPCEGEMIILLHFHLKNPIMVGKKKTKDVQFYREVGDIVTDLGK 699 (960)
T ss_pred ccccceeeecCceeeee-ccccchhhhhhhhhhhhcCccccceeeEeeehhccceeecccceeeeeeeehhhhHHHhhcc
Confidence 99999999999999999 67999999999999999999999999999999999999999999999999999999888777
Q ss_pred CCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCcCCCCceEeccccCCCccCcccceeEeEeeCccccee
Q 003374 534 GKRSAYDPDEIEEEQRERARKNKINMDFQSFVNRVNDLWGQPKFNGLDLEFDQPLRDLGFHGVPHKASAFIVPTSSCLVE 613 (825)
Q Consensus 534 ~r~~~~D~dEle~Eq~Er~~r~klnk~F~~F~~~v~~~~~~~~~~~~~~~~~iP~r~lgF~Gvp~Ks~v~l~Pt~~cLv~ 613 (825)
+|+ |+|+|||++||+||++|++||.+|+.||.+|..+. ...++|++|||+|||+|||||++|+|+||..|||+
T Consensus 700 ~~~-~~D~del~~EQ~Er~rr~~ln~~FksF~~kv~~~~------~~~~efd~pfr~lGF~GvP~rssv~i~pTs~cLV~ 772 (960)
T KOG1189|consen 700 RRR-MGDRDELEQEQEERDRRAKLNMAFKSFAEKVAEAT------ESELEFDVPFRELGFNGVPFRSSVFIQPTSSCLVN 772 (960)
T ss_pred Ccc-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh------ccceeeccchhhcCcCCCCccceeeeecchhhhhc
Confidence 654 79999999999999999999999999999997743 45689999999999999999999999999999999
Q ss_pred ccccCceEEecCceeEEEEEeecCCcceeeEEEEEecCCCCeEEEecccCCChHhHHHHhhhcCeEEEecccccChHHHH
Q 003374 614 LIETPFLVVTLGEIEIVNLERVGLGQKNFDMTIVFKDFKKDVLRIDSIPSSSLDSIKEWLDTTDIKYYESRLNLNWRQIL 693 (825)
Q Consensus 614 l~e~P~~vitl~eIeiV~fERV~~~~knFDmvfvfKd~~~~~~~i~~Ip~~~ld~Ik~wL~s~~I~~~Eg~~nlnW~~im 693 (825)
|+|||||||||+|||+|||||||||+|||||+||||||+++|+||++||+++||.||+||++|||+||||++||||++||
T Consensus 773 LtE~P~~VvtL~eVEiv~~ERV~f~lKnfDmvfIfKd~~k~v~~i~svp~~sLd~iKEWLdscDI~y~Eg~~sLNW~~Im 852 (960)
T KOG1189|consen 773 LTEWPFFVVTLEEVEIVNLERVQFGLKNFDMVFIFKDFKKKVTMINSVPMESLDKLKEWLDSCDIKYTEGVQSLNWTKIM 852 (960)
T ss_pred cccCCceEEeecceeeeeeeeeeeccccceEEEEeccccccceeeeccchhhhhHHHHhhhcccceeecccccccHHHHh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhcCccccccCCCceeccCCCCCC--CCCCCccccCCCCCCCCCCCCCCccCCCCcccccccccCccccCCCCccccc
Q 003374 694 KTITDDPQSFIDDGGWEFLNLEASDS--ESENSEESDQGYEPSDMEVDSVTEDEDSDSESLVESEDEEEEDSEEDSEEEK 771 (825)
Q Consensus 694 ktI~~Dp~~F~~~GGW~fL~~~~~~~--~~~~~ee~d~~ye~s~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ee~ 771 (825)
|||++||++||++|||+||+++++|+ +.+++++++++|+|||+++++++++++++|+ +++++++++++.+|+||+
T Consensus 853 KTI~dDP~~Ffe~GgW~fL~~~~sdsee~~~ese~e~~~y~psd~~v~~eS~ed~e~sE---~s~~de~~de~~~sdEE~ 929 (960)
T KOG1189|consen 853 KTITDDPIAFFEDGGWSFLNVESSDSEEGGDESEEEDSAYEPSDDDVSDESDEDEEESE---ESEEDEEDDEDLESDEES 929 (960)
T ss_pred hhhccCHHHHHhcCCeeeecCCCCcccccccccccccccCCccccCccccccccccccc---cccccccccccccchhhh
Confidence 99999999999999999999987543 3355666799999998877665444333222 222222223334457899
Q ss_pred CCChHHHHHHHHHHhhccCCCCCchHH
Q 003374 772 GKTWAELEREATNADREKGDDSDSEEE 798 (825)
Q Consensus 772 g~dWdeLE~~A~~~D~~~~~~~~~~~~ 798 (825)
|+||||||++|+++||+++.+++....
T Consensus 930 gkdwdele~ea~~~dr~~~~~~e~~s~ 956 (960)
T KOG1189|consen 930 GKDWDELEREARNADREHGAEEERESE 956 (960)
T ss_pred ccchhhhHHHHhhcchhhchhhhcchh
Confidence 999999999999999988765544433
No 2
>COG5406 Nucleosome binding factor SPN, SPT16 subunit [Transcription / DNA replication, recombination, and repair / Chromatin structure and dynamics]
Probab=100.00 E-value=2.7e-191 Score=1567.68 Aligned_cols=744 Identities=34% Similarity=0.593 Sum_probs=668.3
Q ss_pred CcccccCHHHHHHHHHHHHHHHccCCCCCCCCCCEEEEEcCCCCccccchhhhhhhHhhcCCcccceeeEeecCeEEEEe
Q 003374 18 ANAYSINLENFSTRLKALYSHWNKHKSDYWGSADVLAIATPPASEDLRYLKSSALNIWLLGYEFPETVMVFMKKQIQFLC 97 (825)
Q Consensus 18 Ms~v~ID~~~F~~RLk~L~~~Wk~~~~~~~~~~dai~i~~G~~~ed~~Y~KStaLq~WLlGYEFpdTlivftk~~i~~Lt 97 (825)
|+++.||.+.|++|+..||++|+... |++|+|+|++|++++.+||+|+||||+||||||||+|||++.+-.++|+|
T Consensus 1 M~e~~ide~~F~kR~~~l~~~~ne~d----G~p~sllv~lG~s~d~npyqk~taLh~wLLgYEFP~Tli~l~~~~~~I~t 76 (1001)
T COG5406 1 MPEIRIDEERFEKRSRDLRKHLNEED----GGPDSLLVMLGKSQDVNPYQKNTALHIWLLGYEFPETLIILDDVCTAITT 76 (1001)
T ss_pred CCcccccHHHHHHHHHHHHHhhhhcc----CCCceEEEEeccccccChhhhhhHHHHHHHhccCcceEEEEecceEEEEe
Confidence 88899999999999999999997643 69999999999999999999999999999999999999999999999999
Q ss_pred chhhhhhhhh-hhccCCCCccEEEEEeecCCCCChHHHHHHHHHHHhccCCCCCCCCCeEEEeeCCCCCCchHHHHHHHH
Q 003374 98 SQKKASLLGM-VKRSAKDAVGADVVIHVKAKTDDGVELMDAIFNAVRSQSNVDSGDGPIVGSIARETPEGRLLETWADRL 176 (825)
Q Consensus 98 S~KKa~~Le~-l~~~~~~~~~Veilvr~Kd~~~n~~~~fekli~~ik~~~~~~s~~g~kVGvl~Kdk~~G~F~~~W~~~l 176 (825)
|.+||.+|+. |.......+.++++-|+|+++.|. ++|++++..|. +.|+.||++.||+++|+|+.+|...|
T Consensus 77 s~~kA~~lqk~l~~~~~~~v~~n~~~r~k~~eenk-KlF~~~i~~i~-------s~~k~VG~f~kD~~qgkfi~ew~~i~ 148 (1001)
T COG5406 77 SKKKAILLQKGLAETSLNIVVRNKDNRTKNMEENK-KLFKGSIYVIG-------SENKIVGDFCKDVLQGKFINEWDSIF 148 (1001)
T ss_pred chhhHHHHHhhhccCcchhhhhhhhhcccCHHHHH-HHHhhhheecc-------cCCcccCccchhhhhcccccccchhh
Confidence 9999999998 654444457788999999988888 99999999998 46899999999999999999999998
Q ss_pred hc--cCCceeccchhhHhHhhccChhhhhceee-----------------------------------------------
Q 003374 177 QN--SGFQLSDVTNGLSELFAVKDQEEIMNVKK----------------------------------------------- 207 (825)
Q Consensus 177 ~~--~~~e~VDVS~~iS~llavKDe~Ei~~ikk----------------------------------------------- 207 (825)
+. +.|+.+|||.|||.++++||++|+.++|.
T Consensus 149 e~vk~efN~~DvslgLsk~~~~KD~~E~an~~~ss~~s~~~M~~~~~em~~~~D~~~kit~~KlsD~mes~iddv~f~q~ 228 (1001)
T COG5406 149 EPVKSEFNASDVSLGLSKMFLTKDAEEIANCRASSAASSVLMRYFVKEMEMLWDGAFKITHGKLSDLMESLIDDVEFFQT 228 (1001)
T ss_pred hhhhhhcchhhhhhhhhHHhccccHHHHhhccccchHHHHHHHHHHHHHHHHHhhhhhhccchHHHHhhhhcchhhhhhh
Confidence 64 47999999999999999999999999998
Q ss_pred --------------------------------------------------------------------------------
Q 003374 208 -------------------------------------------------------------------------------- 207 (825)
Q Consensus 208 -------------------------------------------------------------------------------- 207 (825)
T Consensus 229 ~s~~l~~~~~d~lew~ytpiiqsg~~~Dl~psa~s~~~~l~gd~vl~s~GiRYn~YCSn~~RT~l~dp~~e~~~Ny~fl~ 308 (1001)
T COG5406 229 KSLKLGDIDLDQLEWCYTPIIQSGGSIDLTPSAFSFPMELTGDVVLLSIGIRYNGYCSNMSRTILTDPDSEQQKNYEFLY 308 (1001)
T ss_pred cCccccccchhhhhhhcchhhccCceeecccccccCchhhcCceEEEEeeeeeccccccccceEEeCCchHhhhhHHHHH
Confidence
Q ss_pred --------------------------------------------------------------------------------
Q 003374 208 -------------------------------------------------------------------------------- 207 (825)
Q Consensus 208 -------------------------------------------------------------------------------- 207 (825)
T Consensus 309 ~lQk~i~~~~rpG~~~g~iY~~~~~yi~~~~pel~pnF~~nvG~~igiefR~s~~~~nvkn~r~lq~g~~fnis~gf~nl 388 (1001)
T COG5406 309 MLQKYILGLVRPGTDSGIIYSEAEKYISSNGPELGPNFIYNVGLMIGIEFRSSQKPFNVKNGRVLQAGCIFNISLGFGNL 388 (1001)
T ss_pred HHHHHHHhhcCCCCCchhHHHHHHHHHHhcCCccCchHhhhhhhhccccccccccceeccCCceeccccEEEEeeccccc
Confidence
Q ss_pred -------------------------------cccCceeEEecCCccc-c--ccccccccc-CCcccccCcccccCccccc
Q 003374 208 -------------------------------AAVKDVAYSFNEDEEE-E--ERPKVKAEA-NGTEALPSKTTLRSDNQEI 252 (825)
Q Consensus 208 -------------------------------k~~~~i~y~~~d~~~~-~--~~~~~~~~~-~~~~~i~~~~~lR~~~~~~ 252 (825)
|+..+|+|+|.++++. + ..+.+.+.. .+...+ .++|+|.+.++.
T Consensus 389 ~~~~~~Nnyal~l~dt~qi~ls~p~~~t~~~kaq~~isf~fgedd~~~e~~~~~~k~P~~~d~~~~~-~r~k~R~etr~~ 467 (1001)
T COG5406 389 INPHPKNNYALLLIDTEQISLSNPIVFTDSPKAQGDISFLFGEDDETPEYLTLQDKAPDFLDKTISS-HRSKFRDETREH 467 (1001)
T ss_pred CCCCcccchhhhhccceEeecCCceecccCcccccceeEEecCCCCChhhcccccCCCCccccchhh-hhhhhhhhhhcc
Confidence 8999999999966553 2 111122211 233445 689999987753
Q ss_pred --cHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCccccccceeccCCCCCCCCCC-CceEEEEccCcEEEEeeCC
Q 003374 253 --SKEELRRQHQAELARQKNEETGRRLAGGGSGAGDNRASAKTTTDLIAYKNVNDLLPPR-DLMIQIDQKNEAVLFPIYG 329 (825)
Q Consensus 253 --~~e~~r~~hQ~eL~~~~~~e~~~r~~~~~~~~~~~~~~~k~~~~~~sYk~~~~~P~~~-~~~I~VD~k~e~vilPI~G 329 (825)
.++++|.+|||+|++++++|++.||+++++.+. +..+++.+++++||++++|+|+.+ +|+|+||.+.++|||||+|
T Consensus 468 ~~~a~k~r~EhQK~L~~k~~~egL~rf~~a~~~gp-ds~~~~~~kr~esY~rdSqlP~~i~elRi~VD~~~qsIilPI~g 546 (1001)
T COG5406 468 ELNARKKRVEHQKELLDKIIEEGLERFRNASDAGP-DSIEEKSEKRIESYSRDSQLPRQIGELRIIVDFARQSIILPIGG 546 (1001)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHhhhcccCC-ccccchhhhhhccccccccccccccceEEEEEeccceEEEeecC
Confidence 467788899999999999999999977655511 222347899999999999999999 9999999999999999999
Q ss_pred cccceeeeeeeeeeccccCCCeEEEEEEeecCCCCCCCCCCCCcCCcCceeEEEEEeeeCCcCcHHHHHHHHHHHHHHHH
Q 003374 330 SMVPFHVATIRTVSSQQDTNRNCYIRIIFNVPGTPFNPHDTNSLKHQGAIYLKEVSFRSKDPRHIGEVVGAIKTLRRQVM 409 (825)
Q Consensus 330 ~~VPFHI~tIKnvs~~~e~g~~~yLRINF~~Pg~~~~k~~~~~~~~~~~~fikelt~Rs~d~~~~~~~~~~Ikelkk~~~ 409 (825)
+|||||||+|||+|+++| |+|+||||||++||++.|+.+..|++++++.||+++|+||.++.+|.++|++|++|||.++
T Consensus 547 rpVPFHiss~Knasknde-g~~~yLRlNF~spg~~ggk~eElp~E~~~~qF~rsit~rS~~g~rms~~fk~I~dlKK~at 625 (1001)
T COG5406 547 RPVPFHISSIKNASKNDE-GNFVYLRLNFKSPGKGGGKTEELPCEQRGEQFLRSITSRSIRGNRMSDLFKEINDLKKGAT 625 (1001)
T ss_pred cccceeehhhccccccCC-CceEEEEEeccCCCCCCCccccCcccccchhhhhheeeeeccCccHHHHHHHHHHHHhhhh
Confidence 999999999999999999 9999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhccccccceeecCCCcCcccccceeeccCCCCCCccCCceEEEEeceeeeeeCCCCc-eEEeeccccceee
Q 003374 410 ARESERAERATLVTQEKLQLAGNRFKPIKLHDLWIRPVFGGRGRKIPGTLEAHLNGFRFATSRPEE-RVDIMFGNIKHAF 488 (825)
Q Consensus 410 ~re~e~~e~~~~v~QekLi~~~~~~~~~~L~dl~iRP~~~g~~kr~~G~lE~H~NG~Ry~s~~k~~-~idIly~NIKh~F 488 (825)
+||+|+++-|++++|+||+.++.+++. ++.+++|||++.| ||.+|+||+|+|||||+|+.+++ +|||||+||||+|
T Consensus 626 krEterke~adv~eqdKlie~k~~rt~-~~~~~~vRp~~d~--KR~pg~~eiHeNGiRfqsplrsds~idiLFSNikhlf 702 (1001)
T COG5406 626 KRETERKEDADVLEQDKLIERKLSRTD-VYMKTDVRPGSDG--KRKPGNLEIHENGIRFQSPLRSDSHIDILFSNIKHLF 702 (1001)
T ss_pred hhhhhhHHHHHHHhhhhhhhccccccc-hhhhcccccCCCc--CccCccEEEecCceeecCCcccCceeEEeeccchhhe
Confidence 999999999999999999999999988 9999999999999 99999999999999999996666 6999999999999
Q ss_pred eccCCCccEEEEEEEccCceeeCceecceeeeeEEeeeeEEecCCCCCC---CCChhHHHHHHHHHHHHHHHHHHHHHHH
Q 003374 489 FQPAEKEMITLVHFHLHNHIMVGNKKTKDVQFYVEVMDVVQTLGGGKRS---AYDPDEIEEEQRERARKNKINMDFQSFV 565 (825)
Q Consensus 489 fqP~~~E~ivlihfhLk~PI~~Gkkk~~dvQFy~E~~e~~~dl~~~r~~---~~D~dEle~Eq~Er~~r~klnk~F~~F~ 565 (825)
||||.+|+||+|||||++|||+|++|+.|||||||++++.+|.+|+|++ |+|+||+++||+||++|+.|+++|+.|+
T Consensus 703 Fq~c~gEliviiH~HLk~PIl~GkrKvqdVQFYREasd~~vdeTg~~~rk~~ygdedElEqEqeerrrraald~eFksFa 782 (1001)
T COG5406 703 FQECNGELIVIIHFHLKSPILTGKRKVQDVQFYREASDTMVDETGKRGRKEHYGDEDELEQEQEERRRRAALDQEFKSFA 782 (1001)
T ss_pred eccCCceEEEEEEEeecCceecCCceeeeeeeeecccccchhhhccccchhhccchHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999988766 6899999999999999999999999999
Q ss_pred HHHhhhcCCCCcCCCCceEeccccCCCccCcccceeEeEeeCcccceeccccCceEEecCceeEEEEEeecCCcceeeEE
Q 003374 566 NRVNDLWGQPKFNGLDLEFDQPLRDLGFHGVPHKASAFIVPTSSCLVELIETPFLVVTLGEIEIVNLERVGLGQKNFDMT 645 (825)
Q Consensus 566 ~~v~~~~~~~~~~~~~~~~~iP~r~lgF~Gvp~Ks~v~l~Pt~~cLv~l~e~P~~vitl~eIeiV~fERV~~~~knFDmv 645 (825)
..|++ ++ ...++|++|||+|||+|||||++|+|+||++|||+|+++|||||||+||||||||||+||+||||||
T Consensus 783 ~~Iae----as--~gri~~~~~fr~lgF~GVPfRs~V~~~pTtdCLVqL~e~Pf~VitLeevEi~~lERVqfglKnfD~v 856 (1001)
T COG5406 783 SSIAE----AS--EGRIEFKVQFRKLGFYGVPFRSSVMIKPTTDCLVQLDEAPFFVITLEEVEIVNLERVQFGLKNFDVV 856 (1001)
T ss_pred HHHHH----hh--cCceEEeeechhccccCCccccceeeecchhheeeccCCceEEEEecceeEEeeeeEEeecccceEE
Confidence 99977 34 3458999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEecCCCCeEEEecccCCChHhHHHHhhhcCeEEEecccccChHHHHhhhhcCccccccCCCceeccCCCCCCCCCCCc
Q 003374 646 IVFKDFKKDVLRIDSIPSSSLDSIKEWLDTTDIKYYESRLNLNWRQILKTITDDPQSFIDDGGWEFLNLEASDSESENSE 725 (825)
Q Consensus 646 fvfKd~~~~~~~i~~Ip~~~ld~Ik~wL~s~~I~~~Eg~~nlnW~~imktI~~Dp~~F~~~GGW~fL~~~~~~~~~~~~e 725 (825)
|||+||.++++||++||+++|+.||+||++|||+||||+.||||++|||+|++||.+||++|||+||..+++|+ ++|++
T Consensus 857 Fi~~df~rp~vhIntvpvesld~lKewLds~di~f~e~~~nlnW~timksi~~DPi~FfedGgW~fL~~gsddE-~dese 935 (1001)
T COG5406 857 FILRDFYRPLVHINTVPVESLDKLKEWLDSNDILFMETSANLNWNTIMKSIMKDPISFFEDGGWSFLMVGSDDE-SDESE 935 (1001)
T ss_pred EEeccccCCcceeccccHHHHHHHHHHhhhcCceeEeccccccHHHHHHHHhcCcHHHhhcCcceeeecCCccc-ccccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999877544 35666
Q ss_pred cccCCCCCCCCCCCCCCccCCCCcccccccccCccccCCCCcccccCCChHHHHHHHHHHhhc
Q 003374 726 ESDQGYEPSDMEVDSVTEDEDSDSESLVESEDEEEEDSEEDSEEEKGKTWAELEREATNADRE 788 (825)
Q Consensus 726 e~d~~ye~s~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ee~g~dWdeLE~~A~~~D~~ 788 (825)
+|-|+|+.|++++.++++++++++++++|.+++++++ +.+|||+|+||||||++||.++|-
T Consensus 936 eEvSEyeaS~dd~sdet~edees~e~seD~sedeSe~--~~~DeE~gEDwdele~kaa~~~rp 996 (1001)
T COG5406 936 EEVSEYEASSDDESDETDEDEESDESSEDLSEDESEN--DSSDEEDGEDWDELESKAAYDSRP 996 (1001)
T ss_pred hhhhhhhccCCCccccccccccccccccccccccccc--cccccccccchhhHhhhhhhhccC
Confidence 6789999888776554443333334444333222222 223678899999999999988864
No 3
>PF08644 SPT16: FACT complex subunit (SPT16/CDC68); InterPro: IPR013953 Proteins in this entry are subunits the FACT complex; the FACT complex is a stable heterodimer in Saccharomyces cerevisiae (Baker's yeast) comprising Spt16p and Pob3p. The complex plays a role in transcription initiation and promotes binding of TATA-binding protein (TBP) to a TATA box in chromatin []; it also facilitates RNA Polymerase II transcription elongation through nucleosomes by destabilising and then reassembling nucleosome structure [, ]. The proteins in this entry are non-peptidase homologues belonging to MEROPS peptidase family M24 (clan MG).
Probab=100.00 E-value=1.9e-58 Score=450.05 Aligned_cols=152 Identities=53% Similarity=0.904 Sum_probs=149.1
Q ss_pred EEEEccCcEEEEeeCCcccceeeeeeeeeeccccCCCeEEEEEEeecCCCCCCCCCCCCcCCcCceeEEEEEeeeCCcCc
Q 003374 314 IQIDQKNEAVLFPIYGSMVPFHVATIRTVSSQQDTNRNCYIRIIFNVPGTPFNPHDTNSLKHQGAIYLKEVSFRSKDPRH 393 (825)
Q Consensus 314 I~VD~k~e~vilPI~G~~VPFHI~tIKnvs~~~e~g~~~yLRINF~~Pg~~~~k~~~~~~~~~~~~fikelt~Rs~d~~~ 393 (825)
||||++++||||||||+|||||||||||||+++| |+||||||||++||++.|++++.|+.+|+++|||||||||+|.+|
T Consensus 1 I~VD~k~esvllPI~G~~VPFHIstIKnvs~~~e-g~~~ylRINF~~Pg~~~~k~~~~~~~~~~~~fiKeltfRs~d~~~ 79 (152)
T PF08644_consen 1 IYVDKKNESVLLPINGRPVPFHISTIKNVSKSDE-GDYTYLRINFNTPGSTTGKKDDNPFEDPDAIFIKELTFRSKDSRH 79 (152)
T ss_pred CeEeccCCEEEEEeCCcccceEeeeEEcceeccC-CCeEEEEEEEeCCCcccccccccccCCCCCeEEEEEEEEeCCchH
Confidence 7999999999999999999999999999999999 999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccccccceeecCCCcCcccccceeeccCCCCCCccCCceEEEEeceeee
Q 003374 394 IGEVVGAIKTLRRQVMARESERAERATLVTQEKLQLAGNRFKPIKLHDLWIRPVFGGRGRKIPGTLEAHLNGFRF 468 (825)
Q Consensus 394 ~~~~~~~Ikelkk~~~~re~e~~e~~~~v~QekLi~~~~~~~~~~L~dl~iRP~~~g~~kr~~G~lE~H~NG~Ry 468 (825)
|++++++||+|||++++||+|++|++++|+||+|++++++++| +|+||||||++.|+ ||++|+||+|+|||||
T Consensus 80 ~~~v~~~Ikel~k~~~~re~E~~e~~~~v~QekL~~~~~~~~~-~L~dl~iRP~~~g~-kr~~G~LEaH~NGfRy 152 (152)
T PF08644_consen 80 LQEVFRQIKELQKRVKQREQERREKADLVEQEKLILSKNRRPP-RLKDLYIRPAIGGR-KRVPGTLEAHTNGFRY 152 (152)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcccccccceEEccCCCCC-ccCCceECCCCccc-cccCceEEEecCcccC
Confidence 9999999999999999999999999999999999999988888 99999999999887 9999999999999998
No 4
>PF14826 FACT-Spt16_Nlob: FACT complex subunit SPT16 N-terminal lobe domain; PDB: 3BIQ_A 3BIT_A 3BIP_A 3CB6_A 3CB5_A.
Probab=100.00 E-value=4.2e-48 Score=383.19 Aligned_cols=160 Identities=43% Similarity=0.794 Sum_probs=132.3
Q ss_pred cCHHHHHHHHHHHHHHHccCCCCCCCCCCEEEEEcCCCCccccchhhhhhhHhhcCCcccceeeEeecCeEEEEechhhh
Q 003374 23 INLENFSTRLKALYSHWNKHKSDYWGSADVLAIATPPASEDLRYLKSSALNIWLLGYEFPETVMVFMKKQIQFLCSQKKA 102 (825)
Q Consensus 23 ID~~~F~~RLk~L~~~Wk~~~~~~~~~~dai~i~~G~~~ed~~Y~KStaLq~WLlGYEFpdTlivftk~~i~~LtS~KKa 102 (825)
||+++|++||++||++|++++++.|+++|||+|++|+++|+++|+||+|||+|||||||||||||||+++||||||+|||
T Consensus 1 iD~~~F~~RL~~L~~~W~~~~~~~~~~~dal~i~~G~~~e~~~Y~Ks~aLq~WLlGYEfpdTiiv~tk~~i~~ltS~KKa 80 (163)
T PF14826_consen 1 IDKETFHKRLKRLYSSWKEHKDDLWGGADALVIAVGKADEDNPYSKSTALQTWLLGYEFPDTIIVFTKKKIHFLTSKKKA 80 (163)
T ss_dssp --HHHHHHHHHHHHHHHHCCCHHTSTT-SEEEEEE-S--TTSTT-HHHHHHHHHHSS--SSEEEEEETTEEEEEEEHHHH
T ss_pred CCHHHHHHHHHHHHHHHhccCccccCCCCEEEEEeCCcccCccchhHHHHHHHHhcccHhhhhhhhcCCEEEEEeCHHHH
Confidence 79999999999999999998766899999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhhhccC--CCCccEEEEEeec-CCCCChHHHHHHHHHHHhccCCCCCCCCCeEEEeeCCCCCCchHHHHHHHHhcc
Q 003374 103 SLLGMVKRSA--KDAVGADVVIHVK-AKTDDGVELMDAIFNAVRSQSNVDSGDGPIVGSIARETPEGRLLETWADRLQNS 179 (825)
Q Consensus 103 ~~Le~l~~~~--~~~~~Veilvr~K-d~~~n~~~~fekli~~ik~~~~~~s~~g~kVGvl~Kdk~~G~F~~~W~~~l~~~ 179 (825)
+||+||++++ ++.++|+|++|+| |+++|. ++|++|+++|+ ++|++||+|.||++.|+|+++|+++|+++
T Consensus 81 ~~L~~l~~~~~~~~~~~v~ll~R~k~d~~~~~-~~f~kl~~~ik-------~~g~~vG~~~Kd~~~G~f~~~w~~~l~~~ 152 (163)
T PF14826_consen 81 KFLEPLKKPAKEGGSIPVELLVRNKKDPEKNK-ANFEKLIEAIK-------KAGKKVGVLAKDKFEGKFVDEWKEALKKS 152 (163)
T ss_dssp HCCCCHCCCTTTT-SSEEEEEEE-TT-HHHHH-HHHHHHHHHHH-------CCTSEEEE-TT----SHHHHHHHHHHCHH
T ss_pred HHHHHHhhccccCCCceEEEEEeCCCCccchH-HHHHHHHHHHH-------hcCCeEeEecCCCCCCchHHHHHHHHhhc
Confidence 9999999643 5678999999984 333444 99999999999 47999999999999999999999999989
Q ss_pred CCceeccchhh
Q 003374 180 GFQLSDVTNGL 190 (825)
Q Consensus 180 ~~e~VDVS~~i 190 (825)
+++.||||+||
T Consensus 153 ~~~~vDvs~~l 163 (163)
T PF14826_consen 153 GFEKVDVSSGL 163 (163)
T ss_dssp CSEEEE-HHHH
T ss_pred CCceeeccCCC
Confidence 99999999986
No 5
>KOG0526 consensus Nucleosome-binding factor SPN, POB3 subunit [Transcription; Replication, recombination and repair; Chromatin structure and dynamics]
Probab=100.00 E-value=1.6e-35 Score=327.29 Aligned_cols=217 Identities=18% Similarity=0.275 Sum_probs=181.6
Q ss_pred cccceeeccCCCCCCccCCceEEEEeceeeeeeCCCCceEEeeccccceeeeccCCCccEEEEEEEccCceeeCceecce
Q 003374 438 KLHDLWIRPVFGGRGRKIPGTLEAHLNGFRFATSRPEERVDIMFGNIKHAFFQPAEKEMITLVHFHLHNHIMVGNKKTKD 517 (825)
Q Consensus 438 ~L~dl~iRP~~~g~~kr~~G~lE~H~NG~Ry~s~~k~~~idIly~NIKh~FfqP~~~E~ivlihfhLk~PI~~Gkkk~~d 517 (825)
.+.+|.+-.+ .| | =+|.+|.+.|||++ +.+.|+|.|+.|+++|++|..++.|+++++.|.|||+||||+|+.
T Consensus 203 ~f~~i~~lTP-RG--R---YdI~iy~t~lrL~G--kTyDyKI~y~SI~rLflLPk~d~rh~~fVisldPPIRQGQTrY~~ 274 (615)
T KOG0526|consen 203 SFEEILCLTP-RG--R---YDIKIYPTFLRLHG--KTYDYKIPYKSINRLFLLPKKDQRHVYFVISLDPPIRQGQTRYPF 274 (615)
T ss_pred EeeeeeeecC-Cc--c---ceeEEehhhhhhcc--cccceecchhheeeeEeccCCCCceEEEEEecCCccccCccccce
Confidence 5566665432 24 2 48999999999996 789999999999999999999999999999999999999999995
Q ss_pred --eeee-EEeeeeEEecCCCCCCCCChhHHHHHHHHHHHHHHHH-HHHHHHHHHHhhhcCCCCcCCCCceEeccccCCCc
Q 003374 518 --VQFY-VEVMDVVQTLGGGKRSAYDPDEIEEEQRERARKNKIN-MDFQSFVNRVNDLWGQPKFNGLDLEFDQPLRDLGF 593 (825)
Q Consensus 518 --vQFy-~E~~e~~~dl~~~r~~~~D~dEle~Eq~Er~~r~kln-k~F~~F~~~v~~~~~~~~~~~~~~~~~iP~r~lgF 593 (825)
+||- .|.+++.++ ..+++|+ +.=+-++++.+. .+|+.|...+..++ ++++.+|.+.+|.
T Consensus 275 LV~qF~kDee~e~eLs--------lsdE~l~-~k~~~kL~k~ysg~i~Ev~s~V~k~L~--------~rKit~Pg~F~s~ 337 (615)
T KOG0526|consen 275 LVLQFGKDEEVELELS--------LSDEELE-EKYKGKLKKEYSGPIYEVFSIVMKALC--------GRKITVPGEFLSH 337 (615)
T ss_pred EEEEeccccceeEeec--------ccHHHHh-hhhcchhhhhcCccHHHHHHHHHHHHh--------Cceeecccccccc
Confidence 8998 445565555 2445453 223334555555 67777777777754 5699999999999
Q ss_pred cCcc-----cc-eeEeEeeCcccceeccccCceEEecCceeEEEEEeec---CCcceeeEEEEEecCCCCeEEEecccCC
Q 003374 594 HGVP-----HK-ASAFIVPTSSCLVELIETPFLVVTLGEIEIVNLERVG---LGQKNFDMTIVFKDFKKDVLRIDSIPSS 664 (825)
Q Consensus 594 ~Gvp-----~K-s~v~l~Pt~~cLv~l~e~P~~vitl~eIeiV~fERV~---~~~knFDmvfvfKd~~~~~~~i~~Ip~~ 664 (825)
.|.| || +.|+|||+.+|++||++ |+++|.++||..|+|+|++ ...|+|||.|.+|. ..+++|++|.++
T Consensus 338 ~g~~av~CS~KAneG~LYPLekgFlFl~K-P~l~I~f~EIS~V~fsR~~~s~t~trtFD~ei~lk~--g~~~tFs~i~ke 414 (615)
T KOG0526|consen 338 SGTAAVKCSFKANEGLLYPLEKGFLFLPK-PPLYIRFEEISSVNFSRSGLSGTSTRTFDFEITLKS--GTSYTFSNISKE 414 (615)
T ss_pred CCCceeeeeecccCceEeecccceEeecC-CceEeeccceeeEEEEeccCCccceeeEEEEEEEcC--CCeeeecccCHH
Confidence 9884 78 89999999999999998 9999999999999999994 47899999999997 679999999999
Q ss_pred ChHhHHHHhhhcCeEEEe
Q 003374 665 SLDSIKEWLDTTDIKYYE 682 (825)
Q Consensus 665 ~ld~Ik~wL~s~~I~~~E 682 (825)
++..|-+||++++|++.-
T Consensus 415 E~~~L~~fl~sK~lki~N 432 (615)
T KOG0526|consen 415 EYGKLFDFLNSKGLKIRN 432 (615)
T ss_pred HHHHHHHHHhhcCceeec
Confidence 999999999999999864
No 6
>COG5165 POB3 Nucleosome-binding factor SPN, POB3 subunit [Transcription / DNA replication, recombination, and repair / Chromatin structure and dynamics]
Probab=99.97 E-value=1.8e-31 Score=284.10 Aligned_cols=216 Identities=18% Similarity=0.277 Sum_probs=174.3
Q ss_pred cccceeeccCCCCCCccCCceEEEEeceeeeeeCCCCceEEeeccccceeeeccCCCccEEEEEEEccCceeeCceecce
Q 003374 438 KLHDLWIRPVFGGRGRKIPGTLEAHLNGFRFATSRPEERVDIMFGNIKHAFFQPAEKEMITLVHFHLHNHIMVGNKKTKD 517 (825)
Q Consensus 438 ~L~dl~iRP~~~g~~kr~~G~lE~H~NG~Ry~s~~k~~~idIly~NIKh~FfqP~~~E~ivlihfhLk~PI~~Gkkk~~d 517 (825)
.+.+|+.-. +.| .=+|.+|.|.+|+++ +.+.|+|.|+.|+.+|.+|+.++.|+++++.+.|||+||||+||+
T Consensus 212 sf~~~~l~t-PRG-----rydid~y~~~lRLrG--ktYdyKi~y~sI~~l~~LpK~dd~h~~~Vig~ePPlRQGQTrYpf 283 (508)
T COG5165 212 SFEGLSLAT-PRG-----RYDIDFYRDYLRLRG--KTYDYKIYYKSIKMLYVLPKIDDGHRYVVIGAEPPLRQGQTRYPF 283 (508)
T ss_pred eeeceeeec-CCc-----cccchhhhhhhhhcc--cccceeeeeeeeeEEEEeccCCCccEEEEEecCCcccCCCccCCe
Confidence 555666533 224 247999999999996 789999999999999999999999999999999999999999995
Q ss_pred --eeeeEE-eeeeEEecCCCCCCCCChhHHHHHHHHHHHHHHHH-HHHHHHHHHHhhhcCCCCcCCCCceEeccccCCCc
Q 003374 518 --VQFYVE-VMDVVQTLGGGKRSAYDPDEIEEEQRERARKNKIN-MDFQSFVNRVNDLWGQPKFNGLDLEFDQPLRDLGF 593 (825)
Q Consensus 518 --vQFy~E-~~e~~~dl~~~r~~~~D~dEle~Eq~Er~~r~kln-k~F~~F~~~v~~~~~~~~~~~~~~~~~iP~r~lgF 593 (825)
+||.++ .+++.++ - .++.+ +|.=..+++..+. ..|..|.+.++.++ .+++.+|-..++.
T Consensus 284 lV~qF~kded~Ev~Ln--v------ede~~-~e~y~dklK~~Yd~~~~ev~s~v~~gLt--------~rkvv~p~ef~S~ 346 (508)
T COG5165 284 LVVQFQKDEDVEVELN--V------EDEDY-EENYKDKLKGEYDGLLSEVFSEVMEGLT--------VRKVVRPSEFESR 346 (508)
T ss_pred EEEEEecccceeeeec--c------chhhh-hhhHHHhhhhhccchHHHHHHHHHHhhc--------ceeeecchhhccc
Confidence 999854 4555544 2 33333 3222233444444 55566666665543 5699999776666
Q ss_pred cCc-----ccc-eeEeEeeCcccceeccccCceEEecCceeEEEEEeecC---CcceeeEEEEEecCCCCeEEEecccCC
Q 003374 594 HGV-----PHK-ASAFIVPTSSCLVELIETPFLVVTLGEIEIVNLERVGL---GQKNFDMTIVFKDFKKDVLRIDSIPSS 664 (825)
Q Consensus 594 ~Gv-----p~K-s~v~l~Pt~~cLv~l~e~P~~vitl~eIeiV~fERV~~---~~knFDmvfvfKd~~~~~~~i~~Ip~~ 664 (825)
.|. .+| +.|+|||+.+|++|||+ |.+.|+++||.+|+|+|++. +.|||||+|+++. ..+++|++|.+.
T Consensus 347 ~g~~av~Cs~KAnEGqLYpLD~~flFlpK-ptl~l~~sdis~V~~SRig~ss~~arTFDlt~~lrs--~~sytF~nisk~ 423 (508)
T COG5165 347 DGMRAVRCSMKANEGQLYPLDDCFLFLPK-PTLRLDLSDISLVEFSRIGLSSMQARTFDLTLFLRS--PGSYTFNNISKD 423 (508)
T ss_pred CCceeeeeeeeccCceEeeccceEEeccC-ceEEeecccceEEEEeecccchhhhceeeEEEEEec--CCceeecCcCHH
Confidence 666 377 79999999999999998 99999999999999999987 7799999999987 468999999999
Q ss_pred ChHhHHHHhhhcCeEEE
Q 003374 665 SLDSIKEWLDTTDIKYY 681 (825)
Q Consensus 665 ~ld~Ik~wL~s~~I~~~ 681 (825)
++..|.+||.+++|++-
T Consensus 424 Eq~aLeqfl~sK~ik~~ 440 (508)
T COG5165 424 EQGALEQFLHSKGIKAR 440 (508)
T ss_pred HHHHHHHHHhccCceec
Confidence 99999999999999964
No 7
>PF08512 Rtt106: Histone chaperone Rttp106-like; InterPro: IPR013719 This is a domain of unknown function that is associated with a number of different protein families. It is found in Rtt106p, which is a histone chaperone involved in heterochromatin-mediated silencing []. It is also found in genes annotated as transcription factors/regulators. This domain is the C-terminal domain of yeast Spt16p P32558 from SWISSPROT, which is a subunit of the heterodimeric yeast FACT complex (Spt16p-Pob3p, IPR000969 from INTERPRO) []. In addition Spt16p and its relatives, in this entry, are described as non-peptidase homologues belonging to the MEROPS peptidase family M24. The FACT complex facilitates RNA Polymerase II transcription elongation through nucleosomes by destabilising and then reassembling nucleosome structure [, ]. ; PDB: 3TW1_A 3GYO_A 3TO1_A 3FSS_A 3TVV_B 3GYP_A 2GCJ_D 2GCL_A.
Probab=99.89 E-value=1.2e-23 Score=191.73 Aligned_cols=90 Identities=32% Similarity=0.609 Sum_probs=79.8
Q ss_pred ccCcccc---eeEeEeeCcccceeccccCceEEecCceeEEEEEee-cCCcceeeEEEEEecCCCCeEEEecccCCChHh
Q 003374 593 FHGVPHK---ASAFIVPTSSCLVELIETPFLVVTLGEIEIVNLERV-GLGQKNFDMTIVFKDFKKDVLRIDSIPSSSLDS 668 (825)
Q Consensus 593 F~Gvp~K---s~v~l~Pt~~cLv~l~e~P~~vitl~eIeiV~fERV-~~~~knFDmvfvfKd~~~~~~~i~~Ip~~~ld~ 668 (825)
|+||+.+ ++|+||||.+||+++.+.|+++|+++||+.|+|||| +.+.|||||+|++||+.+++++|++||+++++.
T Consensus 1 f~~V~c~~ka~~g~L~pl~~~l~f~~~kP~~~i~~~dI~~v~feRv~~~~~ktFDl~v~~k~~~~~~~~fs~I~~~e~~~ 80 (95)
T PF08512_consen 1 FYGVKCSYKANEGFLYPLEKCLLFGLEKPPFVIPLDDIESVEFERVSSFSSKTFDLVVILKDYEGPPHEFSSIDREEYDN 80 (95)
T ss_dssp -EEEEEEETTEEEEEEEESSEEEEECSSS-EEEEGGGEEEEEEE--ESSSSSEEEEEEEETT-TS-EEEEEEEEGGGHHH
T ss_pred CCceeEeccccCEEEEEccceEEEecCCCeEEEEhhHeeEEEEEecccCcceEEEEEEEEecCCCCcEEEeeECHHHHHH
Confidence 7888754 999999999999997778999999999999999999 889999999999999999999999999999999
Q ss_pred HHHHhhhcCeEEEe
Q 003374 669 IKEWLDTTDIKYYE 682 (825)
Q Consensus 669 Ik~wL~s~~I~~~E 682 (825)
|++||++++|+|++
T Consensus 81 l~~~l~~~~i~~~~ 94 (95)
T PF08512_consen 81 LKDFLKSKNIKIKN 94 (95)
T ss_dssp HHHHHHHCCHHCCC
T ss_pred HHHHHHHCCCEeec
Confidence 99999999999875
No 8
>PF03531 SSrecog: Structure-specific recognition protein (SSRP1); InterPro: IPR000969 Human structure-specific recognition protein, SSRP1, [] binds specifically to DNA modified with the anti-cancer drug cisplatin. An 81kDa protein is predicted, containing several highly-charged domains and a stretch of 75 residues that share 47% identity with a portion of the high mobility group (HMG) protein HMG1. This HMG box probably constitutes the structure recognition element for cisplatin-modified DNA, the probable recognition motif being the local duplex unwinding and bending that occurs on formation of intra-strand cross-links []. SSRP1 is the human homologue of a recently identified mouse protein that binds to recombination signal sequences []. These sequences have been postulated to form stem-loop structures, further implicating local bends and unwinding in DNA as a recognition target for HMG-box proteins. A Drosophila melanogaster cDNA encoding an HMG-box-containing protein has also been isolated [, ]. This protein shares 50% sequence identity with human SSRP1. In vitro binding studies using Drosophila SSRP showed that the protein binds to single-stranded DNA and RNA, with highest affinity for nucleotides G and U. Comparison of the predicted amino acid sequences among SSRP family members reveals 48% identity, with structural conservation in the C terminus of the HMG box, as well as domains of highly charged residues. The most highly conserved regions lie in the poorly understood N terminus, suggesting that this portion of the protein is critical for its function []. This entry contains Pob3 Q04636 from SWISSPROT, which is a subunit of the heterodimeric yeast FACT complex (Spt16p (IPR013953 from INTERPRO)-Pob3p) []. The FACT complex facilitates RNA Polymerase II transcription elongation through nucleosomes by destabilising and then reassembling nucleosome structure [, ].; GO: 0003677 DNA binding, 0005634 nucleus; PDB: 3F5R_A 2GCL_B 2GCJ_D.
Probab=99.34 E-value=1.3e-12 Score=135.77 Aligned_cols=66 Identities=17% Similarity=0.189 Sum_probs=59.5
Q ss_pred ceEEEEeceeeeeeCCCCceEEeeccccceeeeccCCCccEEEEEEEccCceeeCceecce--eeeeEEe
Q 003374 457 GTLEAHLNGFRFATSRPEERVDIMFGNIKHAFFQPAEKEMITLVHFHLHNHIMVGNKKTKD--VQFYVEV 524 (825)
Q Consensus 457 G~lE~H~NG~Ry~s~~k~~~idIly~NIKh~FfqP~~~E~ivlihfhLk~PI~~Gkkk~~d--vQFy~E~ 524 (825)
=+|+||.+.||+++ +.++|+|+|+||.++|++|++++.|++++++|++|||||||+|+. +||-+|.
T Consensus 151 ydi~~y~~~lrl~G--ktyDykI~y~~I~rlflLpk~d~~~~~~Vi~LdpPiRQGQT~Y~~lV~qf~~de 218 (222)
T PF03531_consen 151 YDIEMYPTFLRLHG--KTYDYKIQYSSISRLFLLPKPDDRHVFFVISLDPPIRQGQTRYPFLVMQFSKDE 218 (222)
T ss_dssp EEEEE-SSEEEEEE--SSBEEEEEGGGEEEEEEEE-TTSSEEEEEEEEEEEEEETTEEEEEEEEEEETT-
T ss_pred cccccccccccccc--cccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence 37999999999997 789999999999999999999999999999999999999999995 8998554
No 9
>PRK09795 aminopeptidase; Provisional
Probab=96.21 E-value=0.029 Score=62.66 Aligned_cols=137 Identities=16% Similarity=0.184 Sum_probs=85.4
Q ss_pred HHHHHHHHHHccCCCCCCCCCCEEEEEcCCCCccccchhhhhhhHhhcCCcccceeeEeecCeEEEEechhhhhhhhhhh
Q 003374 30 TRLKALYSHWNKHKSDYWGSADVLAIATPPASEDLRYLKSSALNIWLLGYEFPETVMVFMKKQIQFLCSQKKASLLGMVK 109 (825)
Q Consensus 30 ~RLk~L~~~Wk~~~~~~~~~~dai~i~~G~~~ed~~Y~KStaLq~WLlGYEFpdTlivftk~~i~~LtS~KKa~~Le~l~ 109 (825)
.||++|...-++ .++||++|..+. |.| ||.||......+|+|+++-+++|-.. ++++..
T Consensus 2 ~Rl~~l~~~m~~------~~lDa~lI~~~~----n~~--------YLTGf~g~~g~llIt~~~~~l~td~r---y~~qa~ 60 (361)
T PRK09795 2 TLLASLRDWLKA------QQLDAVLLSSRQ----NKQ--------PHLGISTGSGYVVISRESAHILVDSR---YYADVE 60 (361)
T ss_pred cHHHHHHHHHHH------CCCCEEEECCcc----ccc--------cccCccCCCeEEEEECCCCEEEcCcc---hHHHHH
Confidence 477888777765 468998887664 333 99999887777888998877777764 455543
Q ss_pred ccCCCCccEEEEEeecCCCCChHHHHHHHHHHHhccCCCCCCCCCeEEEeeCCCCCCchHHHHHHHHhccCCceeccchh
Q 003374 110 RSAKDAVGADVVIHVKAKTDDGVELMDAIFNAVRSQSNVDSGDGPIVGSIARETPEGRLLETWADRLQNSGFQLSDVTNG 189 (825)
Q Consensus 110 ~~~~~~~~Veilvr~Kd~~~n~~~~fekli~~ik~~~~~~s~~g~kVGvl~Kdk~~G~F~~~W~~~l~~~~~e~VDVS~~ 189 (825)
... .+.+++.... .+ ..++.|.+.++. ...++||+=.. ...-.+...+.+.+ +...+|++
T Consensus 61 ~~~---~~~~v~~~~~--~~---~~~~~L~~~L~~------~~~~~Ig~e~~-~~s~~~~~~L~~~l---~~~~~~~~-- 120 (361)
T PRK09795 61 ARA---QGYQLHLLDA--TN---TLTTIVNQIIAD------EQLQTLGFEGQ-QVSWETAHRWQSEL---NAKLVSAT-- 120 (361)
T ss_pred hhC---CCceEEEecC--Cc---cHHHHHHHHHHh------cCCcEEEEecC-cccHHHHHHHHHhc---Cccccccc--
Confidence 221 1134443311 11 234445566652 22357887554 33334444454433 35556664
Q ss_pred hHhHhhccChhhhhceee
Q 003374 190 LSELFAVKDQEEIMNVKK 207 (825)
Q Consensus 190 iS~llavKDe~Ei~~ikk 207 (825)
+..+=+||++.||.+||+
T Consensus 121 ~~~lR~iKs~~Ei~~~r~ 138 (361)
T PRK09795 121 PDVLRQIKTPEEVEKIRL 138 (361)
T ss_pred HHHHhcCCCHHHHHHHHH
Confidence 788899999999999987
No 10
>PF04931 DNA_pol_phi: DNA polymerase phi; InterPro: IPR007015 Proteins of this family are predominantly nucleolar. The majority are described as transcription factor transactivators. The family also includes the fifth essential DNA polymerase (Pol5p) of Schizosaccharomyces pombe (Fission yeast) and Saccharomyces cerevisiae (Baker's yeast) (2.7.7.7 from EC). Pol5p is localized exclusively to the nucleolus and binds near or at the enhancer region of rRNA-encoding DNA repeating units.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006351 transcription, DNA-dependent
Probab=95.98 E-value=0.0048 Score=75.73 Aligned_cols=9 Identities=0% Similarity=-0.049 Sum_probs=3.8
Q ss_pred cChHHHHhh
Q 003374 687 LNWRQILKT 695 (825)
Q Consensus 687 lnW~~imkt 695 (825)
.-|..+...
T Consensus 611 ~vf~~~~~~ 619 (784)
T PF04931_consen 611 QVFEAFCPH 619 (784)
T ss_pred HHHHHHHhh
Confidence 344444433
No 11
>PF04931 DNA_pol_phi: DNA polymerase phi; InterPro: IPR007015 Proteins of this family are predominantly nucleolar. The majority are described as transcription factor transactivators. The family also includes the fifth essential DNA polymerase (Pol5p) of Schizosaccharomyces pombe (Fission yeast) and Saccharomyces cerevisiae (Baker's yeast) (2.7.7.7 from EC). Pol5p is localized exclusively to the nucleolus and binds near or at the enhancer region of rRNA-encoding DNA repeating units.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006351 transcription, DNA-dependent
Probab=95.38 E-value=0.016 Score=71.34 Aligned_cols=6 Identities=17% Similarity=0.540 Sum_probs=2.5
Q ss_pred HHHHHH
Q 003374 169 LETWAD 174 (825)
Q Consensus 169 ~~~W~~ 174 (825)
...|+.
T Consensus 208 ~~l~~~ 213 (784)
T PF04931_consen 208 PSLWKP 213 (784)
T ss_pred hHHHHH
Confidence 334443
No 12
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=94.95 E-value=0.019 Score=69.57 Aligned_cols=42 Identities=21% Similarity=0.340 Sum_probs=27.2
Q ss_pred CceeEEEEEeecC----CcceeeEEEEEecCCCCeEEEecccCCChHhHHHHhhhc
Q 003374 625 GEIEIVNLERVGL----GQKNFDMTIVFKDFKKDVLRIDSIPSSSLDSIKEWLDTT 676 (825)
Q Consensus 625 ~eIeiV~fERV~~----~~knFDmvfvfKd~~~~~~~i~~Ip~~~ld~Ik~wL~s~ 676 (825)
+++.-||-+||-. +-||||- .||+ -|.+||.. -.|-+++.+-
T Consensus 1324 d~~sdvh~~r~k~p~fSSFRTf~a----~dYs----~iaTi~v~--R~~~Dlct~~ 1369 (1516)
T KOG1832|consen 1324 DVMSDVHTRRVKHPLFSSFRTFDA----IDYS----DIATIPVD--RCLLDLCTEP 1369 (1516)
T ss_pred hhhhhhcccccccchhhhhccccc----cccc----cceeeecc--cchhhhhcCC
Confidence 4467789999943 5588885 3663 46677765 4566666543
No 13
>PF05764 YL1: YL1 nuclear protein; InterPro: IPR008895 The proteins in this family are designated YL1 []. They have been shown to be DNA-binding and may be transcription factors [].; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=94.42 E-value=0.094 Score=56.06 Aligned_cols=8 Identities=25% Similarity=0.734 Sum_probs=4.4
Q ss_pred cCCCCCCC
Q 003374 728 DQGYEPSD 735 (825)
Q Consensus 728 d~~ye~s~ 735 (825)
|++|+.++
T Consensus 41 D~ef~~~~ 48 (240)
T PF05764_consen 41 DEEFESEE 48 (240)
T ss_pred CccccCCC
Confidence 56675443
No 14
>KOG3064 consensus RNA-binding nuclear protein (MAK16) containing a distinct C4 Zn-finger [RNA processing and modification]
Probab=94.06 E-value=0.024 Score=60.60 Aligned_cols=39 Identities=15% Similarity=0.188 Sum_probs=25.2
Q ss_pred CCCccCcccceeEeE----eeCcccceeccccCceEEecCceeEEEEE
Q 003374 590 DLGFHGVPHKASAFI----VPTSSCLVELIETPFLVVTLGEIEIVNLE 633 (825)
Q Consensus 590 ~lgF~Gvp~Ks~v~l----~Pt~~cLv~l~e~P~~vitl~eIeiV~fE 633 (825)
+.+-.|.|.|+++.| |.|..|- --.+++-.-.||-+||=
T Consensus 31 eyNvTGLCnR~SCPLANSrYATVre~-----~g~~yLymKt~ERaH~P 73 (303)
T KOG3064|consen 31 EYNVTGLCNRSSCPLANSRYATVREE-----NGVLYLYMKTIERAHMP 73 (303)
T ss_pred ccccceeeccccCcCccccceeEeec-----CCEEEEEEechhhhcCc
Confidence 556777788887766 4444443 25667777777777763
No 15
>PRK10879 proline aminopeptidase P II; Provisional
Probab=92.72 E-value=0.52 Score=54.48 Aligned_cols=161 Identities=17% Similarity=0.228 Sum_probs=84.2
Q ss_pred cCHHHHHHHHHHHHHHHccCCCCCCCCCCEEEEEcCCC---Cccccch-hhhhhhHhhcCCcccceeeEeecCe----EE
Q 003374 23 INLENFSTRLKALYSHWNKHKSDYWGSADVLAIATPPA---SEDLRYL-KSSALNIWLLGYEFPETVMVFMKKQ----IQ 94 (825)
Q Consensus 23 ID~~~F~~RLk~L~~~Wk~~~~~~~~~~dai~i~~G~~---~ed~~Y~-KStaLq~WLlGYEFpdTlivftk~~----i~ 94 (825)
++...|..|-++|.+.-.... +++|..|.. +.|.+|. ...+=..||+|++-|++++|++++. -.
T Consensus 1 ~~~~~~~~rR~~l~~~~~~~~--------~~v~~~~~~~~~~~d~~y~Frq~s~F~YltG~~ep~~~lv~~~~~~~~~~~ 72 (438)
T PRK10879 1 MTQQEFQRRRQALLAKMQPGS--------AALIFAAPEATRSADSEYPYRQNSDFWYFTGFNEPEAVLVLIKSDDTHNHS 72 (438)
T ss_pred CChHHHHHHHHHHHhhCCCCc--------EEEEeCCCccccCCCCCCCccCCCceeeeeCCCCCCeEEEEecCCCCCCeE
Confidence 356789999999998765421 445555542 3344443 4556669999999999999987632 11
Q ss_pred EEechhhhhhhhhhhcc------CCCCccEE-EEEeecCCCCChHHHHHHHHHHHhccCCCCCCCCCeEEEeeC-CCCCC
Q 003374 95 FLCSQKKASLLGMVKRS------AKDAVGAD-VVIHVKAKTDDGVELMDAIFNAVRSQSNVDSGDGPIVGSIAR-ETPEG 166 (825)
Q Consensus 95 ~LtS~KKa~~Le~l~~~------~~~~~~Ve-ilvr~Kd~~~n~~~~fekli~~ik~~~~~~s~~g~kVGvl~K-dk~~G 166 (825)
+|--+.+-..-+--.+. +.....|+ +. .- +.|.+.+..+-. ....+=.... .....
T Consensus 73 ~Lf~~~~d~~~e~W~G~~~~~~~a~~~~g~d~v~--------~~-~~l~~~l~~~~~-------~~~~~~~~~~~~~~~~ 136 (438)
T PRK10879 73 VLFNRVRDLTAEIWFGRRLGQDAAPEKLGVDRAL--------PF-SEINQQLYQLLN-------GLDVVYHAQGEYAYAD 136 (438)
T ss_pred EEEeCCCCCCccEEcCcCCCHHHHHHHhCCCEEe--------eH-HHHHHHHHHHhc-------CCceEEecCCccccch
Confidence 22222211100000000 00011122 11 11 446666655431 1221211111 11222
Q ss_pred chHHHHHHHHhcc-------CCceeccchhhHhHhhccChhhhhceee
Q 003374 167 RLLETWADRLQNS-------GFQLSDVTNGLSELFAVKDQEEIMNVKK 207 (825)
Q Consensus 167 ~F~~~W~~~l~~~-------~~e~VDVS~~iS~llavKDe~Ei~~ikk 207 (825)
.....|...+... ..+++|++..|..+=.||++.||..||+
T Consensus 137 ~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~l~~lR~iKs~~EI~~~r~ 184 (438)
T PRK10879 137 EIVFSALEKLRKGSRQNLTAPATLTDWRPWVHEMRLFKSPEEIAVLRR 184 (438)
T ss_pred hHHHHHHHHHHhhhccccCCcccchHHHHHHHHHHhcCCHHHHHHHHH
Confidence 2333333333221 2467899999999999999999999986
No 16
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=92.45 E-value=0.082 Score=64.39 Aligned_cols=30 Identities=17% Similarity=0.269 Sum_probs=21.3
Q ss_pred CCCCCCCCCCCceEEEEccCcEEEEeeCCcccceeee
Q 003374 301 KNVNDLLPPRDLMIQIDQKNEAVLFPIYGSMVPFHVA 337 (825)
Q Consensus 301 k~~~~~P~~~~~~I~VD~k~e~vilPI~G~~VPFHI~ 337 (825)
+.+..+|.-. ..+++++-||+..+.||.-.
T Consensus 879 ~~ea~LP~~~-------As~~s~fTP~~~~~~p~S~~ 908 (1516)
T KOG1832|consen 879 QQEAPLPKIN-------ASKQSTFTPSFSSKQPFSHD 908 (1516)
T ss_pred hccCCCCCcc-------cccccccCccccCCCCCCCC
Confidence 4455677643 12678999999999999654
No 17
>KOG1189 consensus Global transcriptional regulator, cell division control protein [Amino acid transport and metabolism]
Probab=91.80 E-value=0.1 Score=62.77 Aligned_cols=32 Identities=19% Similarity=0.204 Sum_probs=19.7
Q ss_pred EEEEEEEccCceeeCce------ecceeeeeEEeeeeE
Q 003374 497 ITLVHFHLHNHIMVGNK------KTKDVQFYVEVMDVV 528 (825)
Q Consensus 497 ivlihfhLk~PI~~Gkk------k~~dvQFy~E~~e~~ 528 (825)
.++|-+.+..|=-.|.+ ..++-||.+|+.-.+
T Consensus 521 ~tYLRinF~~pg~~~g~~e~~~~~~~~a~flkeit~rs 558 (960)
T KOG1189|consen 521 YTYLRINFNTPGSPGGKNEELPFENPGAQFLKEITFRS 558 (960)
T ss_pred eeEEEEEecCCCCCCCCCCCCcCCCchhhhhhheeeee
Confidence 35666677777555433 234688888885444
No 18
>PF01321 Creatinase_N: Creatinase/Prolidase N-terminal domain; InterPro: IPR000587 Creatinase or creatine amidinohydrolase (3.5.3.3 from EC) catalyses the conversion of creatine and water to sarcosine and urea. The enzyme works as a homodimer, and is induced by choline chloride. Each monomer of creatinase has two clearly defined domains, a small N-terminal domain, and a large C-terminal domain. The structure of the C-terminal region represents the "pita-bread" fold. The fold contains both alpha helices and an anti-parallel beta sheet within two structurally similar domains that are thought to be derived from an ancient gene duplication. The active site, where conserved, is located between the two domains. The fold is common to methionine aminopeptidase (3.4.11.18 from EC), aminopeptidase P (3.4.11.9 from EC), prolidase (3.4.13.9 from EC), agropine synthase and creatinase (3.5.3.3 from EC). Though many of these peptidases require a divalent cation, creatinase is not a metal-dependent enzyme [, , ]. ; GO: 0016787 hydrolase activity; PDB: 1PV9_A 3CTZ_A 3IL0_B 3PN9_A 2HOW_A 1WN1_B 3I7M_A 1CHM_B 3QOC_D 1KP0_B ....
Probab=91.20 E-value=4.3 Score=37.60 Aligned_cols=125 Identities=18% Similarity=0.244 Sum_probs=69.5
Q ss_pred HHHHHHHHHccCCCCCCCCCCEEEEEcCCCCccccchhhhhhhHhhcCC---cccceeeE-eecCeEEEEechhhhhhhh
Q 003374 31 RLKALYSHWNKHKSDYWGSADVLAIATPPASEDLRYLKSSALNIWLLGY---EFPETVMV-FMKKQIQFLCSQKKASLLG 106 (825)
Q Consensus 31 RLk~L~~~Wk~~~~~~~~~~dai~i~~G~~~ed~~Y~KStaLq~WLlGY---EFpdTliv-ftk~~i~~LtS~KKa~~Le 106 (825)
||++|...-++ .+.|+++|..+ .=..||.|| ....-+.+ ++++.-++++...-.....
T Consensus 1 Rl~rl~~~m~~------~gid~lll~~~------------~ni~YltG~~~~~~~~~~~l~i~~~~~~l~~~~~~~~~~~ 62 (132)
T PF01321_consen 1 RLERLRAAMAE------AGIDALLLTSP------------ENIRYLTGFRWQPGERPVLLVITADGAVLFVPKGEYERAA 62 (132)
T ss_dssp HHHHHHHHHHH------TT-SEEEEESH------------HHHHHHHS--ST-TSSEEEEEEESSSEEEEEEGGGHHHHH
T ss_pred CHHHHHHHHHH------CCCCEEEEcCh------------hhceEecCCCcCCCcceEEEEecccCcEEEeccccHHHHH
Confidence 77888887777 46889888766 335899999 66655555 7888777887744333221
Q ss_pred hhhccCCCCccEEEEEeecCCCCChHHHHHHHHHHHhccCCCCCCCCCeEEEeeCCCCCCchHHHHHHHHhccCCceecc
Q 003374 107 MVKRSAKDAVGADVVIHVKAKTDDGVELMDAIFNAVRSQSNVDSGDGPIVGSIARETPEGRLLETWADRLQNSGFQLSDV 186 (825)
Q Consensus 107 ~l~~~~~~~~~Veilvr~Kd~~~n~~~~fekli~~ik~~~~~~s~~g~kVGvl~Kdk~~G~F~~~W~~~l~~~~~e~VDV 186 (825)
.-. ....+++... + ..+.+.+.+++. ...+++||+=.. ..+-.+.....+.+ .+.+.||+
T Consensus 63 ~~~-----~~~~~v~~~~----~----~~~~~~~~l~~~----~~~~~~igve~~-~~~~~~~~~l~~~~--~~~~~v~~ 122 (132)
T PF01321_consen 63 EES-----APDDEVVEYE----D----PYEAIAEALKKL----GPEGKRIGVEPD-SLSAAEYQRLQEAL--PGAEFVDA 122 (132)
T ss_dssp HHH-----TTSSEEEEES----T----HHHHHHHHHHHH----TTTTSEEEEETT-TSBHHHHHHHHHHS--TTSEEEEE
T ss_pred Hhh-----cCCceEEEEe----c----ccchHHHHHHHh----CCCCCEEEEcCC-cChHHHHHHHHHhC--CCCEEEEc
Confidence 111 1235565552 1 234444444421 123478986443 33333333333333 26799999
Q ss_pred chhhHhH
Q 003374 187 TNGLSEL 193 (825)
Q Consensus 187 S~~iS~l 193 (825)
+..|..+
T Consensus 123 ~~~i~~~ 129 (132)
T PF01321_consen 123 SPLIEEL 129 (132)
T ss_dssp HHHHHHH
T ss_pred HHHHHHc
Confidence 9877544
No 19
>PF10446 DUF2457: Protein of unknown function (DUF2457); InterPro: IPR018853 This entry represents a family of uncharacterised proteins.
Probab=90.92 E-value=0.096 Score=59.91 Aligned_cols=18 Identities=22% Similarity=0.687 Sum_probs=12.7
Q ss_pred HHHHhhhcCeEEEecccccC
Q 003374 669 IKEWLDTTDIKYYESRLNLN 688 (825)
Q Consensus 669 Ik~wL~s~~I~~~Eg~~nln 688 (825)
..+|++.- ..+..++.||
T Consensus 12 ~ddWi~~~--~~~~~KlTi~ 29 (458)
T PF10446_consen 12 EDDWIRQD--TDYKRKLTIN 29 (458)
T ss_pred hhhhhhcc--ccccccccHH
Confidence 56888877 5666666666
No 20
>PF04147 Nop14: Nop14-like family ; InterPro: IPR007276 Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production [].
Probab=88.84 E-value=0.35 Score=60.31 Aligned_cols=13 Identities=38% Similarity=0.647 Sum_probs=9.2
Q ss_pred CChhHHHHHHHHH
Q 003374 539 YDPDEIEEEQRER 551 (825)
Q Consensus 539 ~D~dEle~Eq~Er 551 (825)
-.++|+.+|++||
T Consensus 271 KT~EE~a~ee~er 283 (840)
T PF04147_consen 271 KTEEEIAKEEKER 283 (840)
T ss_pred CCHHHHHHHHHHH
Confidence 3688888766555
No 21
>TIGR02993 ectoine_eutD ectoine utilization protein EutD. Members of this family are putative peptidases or hydrolases similar to Xaa-Pro aminopeptidase (pfam00557). They belong to ectoine utilization operons, as found in Sinorhizobium meliloti 1021 (where it is known to be induced by ectoine), Mesorhizobium loti, Silicibacter pomeroyi, Agrobacterium tumefaciens, and Pseudomonas putida. The exact function is unknown.
Probab=86.96 E-value=4.8 Score=45.81 Aligned_cols=153 Identities=16% Similarity=0.191 Sum_probs=83.2
Q ss_pred cCHHHHHHHHHHHHHHHccCCCCCCCCCCEEEEEcCCCCccccchhhhhhhHhhcCCcccc----eeeEee-cCeEEEEe
Q 003374 23 INLENFSTRLKALYSHWNKHKSDYWGSADVLAIATPPASEDLRYLKSSALNIWLLGYEFPE----TVMVFM-KKQIQFLC 97 (825)
Q Consensus 23 ID~~~F~~RLk~L~~~Wk~~~~~~~~~~dai~i~~G~~~ed~~Y~KStaLq~WLlGYEFpd----Tlivft-k~~i~~Lt 97 (825)
+-.+.|..||.+|...-+. .+.|+++|..+. |. .||.||.... +.+|++ .+..++++
T Consensus 6 f~~~E~~~Rl~rl~~~m~~------~~lDalli~~~~----ni--------~YltG~~~~~~~~~~~l~v~~~~~~~l~~ 67 (391)
T TIGR02993 6 FTRAEYQARLDKTRAAMEA------RGIDLLIVTDPS----NM--------AWLTGYDGWSFYVHQCVLLPPEGEPIWYG 67 (391)
T ss_pred CCHHHHHHHHHHHHHHHHH------cCCCEEEEcCcc----cc--------eeeccCCCCceEEEEEEEEcCCCceEEEe
Confidence 4456789999999998876 478998777664 22 3788876422 334444 34555544
Q ss_pred chhhhhhhhhhhccCC-CCccEE----EEEeecCCCCChHHHHHHHHHHHhccCCCCCCCCCeEEEeeCCC-CCCchHHH
Q 003374 98 SQKKASLLGMVKRSAK-DAVGAD----VVIHVKAKTDDGVELMDAIFNAVRSQSNVDSGDGPIVGSIARET-PEGRLLET 171 (825)
Q Consensus 98 S~KKa~~Le~l~~~~~-~~~~Ve----ilvr~Kd~~~n~~~~fekli~~ik~~~~~~s~~g~kVGvl~Kdk-~~G~F~~~ 171 (825)
-.- . ......... ....+. ..++. . .+ ..++.+.+.++.. .-++.+||+=...- ....+...
T Consensus 68 ~~~--~-~~~~~~~~~~~~~~~~~~~~~~~~~-~-~~---~~~~~~~~~l~~~----g~~~~~ig~e~~~~~~~~~~~~~ 135 (391)
T TIGR02993 68 RGQ--D-ANGAKRTAFMDHDNIVGYPDHYVQS-T-ER---HPMDYLSEILQDR----GWDSLTIGVEMDNYYFSAAAFAS 135 (391)
T ss_pred hhh--h-hhhHhheeeccccceeecccccccC-C-CC---CHHHHHHHHHHhc----CCCCCcEEEecCCCccCHHHHHH
Confidence 211 1 001110000 000010 01110 0 11 3356677777631 01234688743321 12222222
Q ss_pred HHHHHhccCCceeccchhhHhHhhccChhhhhceee
Q 003374 172 WADRLQNSGFQLSDVTNGLSELFAVKDQEEIMNVKK 207 (825)
Q Consensus 172 W~~~l~~~~~e~VDVS~~iS~llavKDe~Ei~~ikk 207 (825)
..+.| .+.+++|++..+..+-+||++.||.+||+
T Consensus 136 l~~~l--~~~~~~d~~~~~~~lR~iKs~~EI~~lr~ 169 (391)
T TIGR02993 136 LQKHL--PNARFVDATALVNWQRAVKSETEISYMRV 169 (391)
T ss_pred HHHhC--CCCEEEehHHHHHHHHccCCHHHHHHHHH
Confidence 22222 26889999999999999999999999987
No 22
>PRK14575 putative peptidase; Provisional
Probab=86.62 E-value=4.5 Score=46.31 Aligned_cols=62 Identities=13% Similarity=0.049 Sum_probs=41.2
Q ss_pred HHHHHHhccCCCCCCCCCeEEEeeCCCCCCchHHHHHHHHhc--cCCceeccchhhHhHhhccChhhhhceee
Q 003374 137 AIFNAVRSQSNVDSGDGPIVGSIARETPEGRLLETWADRLQN--SGFQLSDVTNGLSELFAVKDQEEIMNVKK 207 (825)
Q Consensus 137 kli~~ik~~~~~~s~~g~kVGvl~Kdk~~G~F~~~W~~~l~~--~~~e~VDVS~~iS~llavKDe~Ei~~ikk 207 (825)
.+.++|+.. .-.+++||+=.. .. ....|. .|.. .+.+.+|++..|..+-+||++.||..||+
T Consensus 126 ~~~~~l~~~----~~~~~~igve~~-~~---~~~~~~-~l~~~lp~~~~~d~~~~l~~lR~iKs~~EI~~~r~ 189 (406)
T PRK14575 126 ILKDALNDA----RVLNKKIAIDLN-IM---SNGGKR-VIDAVMPNVDFVDSSSIFNELRVIKSPWEIKRLRK 189 (406)
T ss_pred HHHHHHHhc----CCcCCEEEEccC-CC---CHHHHH-HHHHhCCCCeEEEcHHHHHHHHhcCCHHHHHHHHH
Confidence 445666521 124678887433 22 233333 3333 26789999999999999999999999987
No 23
>PHA02664 hypothetical protein; Provisional
Probab=86.43 E-value=0.78 Score=50.74 Aligned_cols=14 Identities=43% Similarity=0.456 Sum_probs=8.9
Q ss_pred cccceeeeeeeeee
Q 003374 330 SMVPFHVATIRTVS 343 (825)
Q Consensus 330 ~~VPFHI~tIKnvs 343 (825)
|+||=|+-.-+++|
T Consensus 179 yavpghvvlarsas 192 (534)
T PHA02664 179 YAVPGHVVLARSAS 192 (534)
T ss_pred cccCceEEEecchh
Confidence 67777775555544
No 24
>PF13104 DUF3956: Protein of unknown function (DUF3956)
Probab=83.33 E-value=1.2 Score=35.23 Aligned_cols=27 Identities=48% Similarity=0.728 Sum_probs=25.2
Q ss_pred cccceeccccCceEEecCceeEEEEEe
Q 003374 608 SSCLVELIETPFLVVTLGEIEIVNLER 634 (825)
Q Consensus 608 ~~cLv~l~e~P~~vitl~eIeiV~fER 634 (825)
.+|.+|+.-+|++|++..-||++.+|=
T Consensus 2 ~sc~~fvngqp~lv~svagieiarlei 28 (45)
T PF13104_consen 2 ESCVVFVNGQPFLVVSVAGIEIARLEI 28 (45)
T ss_pred ceEEEEecCCeeEEEEEeeeEEEEEee
Confidence 579999999999999999999999984
No 25
>PF04147 Nop14: Nop14-like family ; InterPro: IPR007276 Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production [].
Probab=82.01 E-value=0.96 Score=56.53 Aligned_cols=18 Identities=17% Similarity=0.412 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHHHHHh
Q 003374 552 ARKNKINMDFQSFVNRVN 569 (825)
Q Consensus 552 ~~r~klnk~F~~F~~~v~ 569 (825)
.++.+|+..|......+.
T Consensus 209 ~~~e~LD~~~~~l~~~l~ 226 (840)
T PF04147_consen 209 DLTEKLDEDFKDLMSLLA 226 (840)
T ss_pred HHHHHHHHhHHHHHHHHH
Confidence 566677777777776663
No 26
>KOG3064 consensus RNA-binding nuclear protein (MAK16) containing a distinct C4 Zn-finger [RNA processing and modification]
Probab=81.50 E-value=1 Score=48.56 Aligned_cols=15 Identities=7% Similarity=0.545 Sum_probs=7.8
Q ss_pred HHHHHHHHHHHHHhh
Q 003374 556 KINMDFQSFVNRVND 570 (825)
Q Consensus 556 klnk~F~~F~~~v~~ 570 (825)
+|.+-|..=+++|.+
T Consensus 81 kLSkNyekALeQIde 95 (303)
T KOG3064|consen 81 KLSKNYEKALEQIDE 95 (303)
T ss_pred hcchhHHHHHHHHHH
Confidence 344555555555544
No 27
>KOG0943 consensus Predicted ubiquitin-protein ligase/hyperplastic discs protein, HECT superfamily [Posttranslational modification, protein turnover, chaperones]
Probab=79.90 E-value=1.3 Score=55.84 Aligned_cols=37 Identities=22% Similarity=0.179 Sum_probs=21.7
Q ss_pred eeEeEeeCcccceecccc-CceEEecCceeEEEEEeec
Q 003374 600 ASAFIVPTSSCLVELIET-PFLVVTLGEIEIVNLERVG 636 (825)
Q Consensus 600 s~v~l~Pt~~cLv~l~e~-P~~vitl~eIeiV~fERV~ 636 (825)
+..+.+|..+|.-++.-. ||-|.-|.-+--..||-|-
T Consensus 1556 na~f~amI~k~~qffQaL~~fAV~eLaiaAdaifePVR 1593 (3015)
T KOG0943|consen 1556 NAFFPAMIGKCKQFFQALLPFAVEELAIAADAIFEPVR 1593 (3015)
T ss_pred ccccHHHHHHHHHHHHHhhhHHHHHHHHHHhhhhhhhh
Confidence 566677777887665543 4445555555445566553
No 28
>COG5406 Nucleosome binding factor SPN, SPT16 subunit [Transcription / DNA replication, recombination, and repair / Chromatin structure and dynamics]
Probab=79.77 E-value=1.4 Score=52.48 Aligned_cols=134 Identities=14% Similarity=0.132 Sum_probs=72.9
Q ss_pred EeeeCCcCcHHHHHHHHHHHHHHHHHHHHHHH-HH---hccccccceeecCCCcCcccccceeeccCCCCCCccCCceEE
Q 003374 385 SFRSKDPRHIGEVVGAIKTLRRQVMARESERA-ER---ATLVTQEKLQLAGNRFKPIKLHDLWIRPVFGGRGRKIPGTLE 460 (825)
Q Consensus 385 t~Rs~d~~~~~~~~~~Ikelkk~~~~re~e~~-e~---~~~v~QekLi~~~~~~~~~~L~dl~iRP~~~g~~kr~~G~lE 460 (825)
-||+.-..+-.++-+.=+|.||+.-.+-++.. ++ |+---.+. +..+.-. |. .-|.|-..-- +..|.|.
T Consensus 459 k~R~etr~~~~~a~k~r~EhQK~L~~k~~~egL~rf~~a~~~gpds-~~~~~~k---r~-esY~rdSqlP---~~i~elR 530 (1001)
T COG5406 459 KFRDETREHELNARKKRVEHQKELLDKIIEEGLERFRNASDAGPDS-IEEKSEK---RI-ESYSRDSQLP---RQIGELR 530 (1001)
T ss_pred hhhhhhhcchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhcccCCcc-ccchhhh---hh-cccccccccc---ccccceE
Confidence 46776666777777777777777764432221 11 11111111 1111101 11 2345544432 5678888
Q ss_pred EEeceeeee--eCCCCceEEeeccccceeeeccCCCccEEEEEEEccCceeeCceec------ceeeeeEEeeeeE
Q 003374 461 AHLNGFRFA--TSRPEERVDIMFGNIKHAFFQPAEKEMITLVHFHLHNHIMVGNKKT------KDVQFYVEVMDVV 528 (825)
Q Consensus 461 ~H~NG~Ry~--s~~k~~~idIly~NIKh~FfqP~~~E~ivlihfhLk~PI~~Gkkk~------~dvQFy~E~~e~~ 528 (825)
+|...-|=+ -|.-|..|-.--+.||.+= -.+.-..|+|.++++.|=..|-|+- ++-||.+-+.-.+
T Consensus 531 i~VD~~~qsIilPI~grpVPFHiss~Knas--kndeg~~~yLRlNF~spg~~ggk~eElp~E~~~~qF~rsit~rS 604 (1001)
T COG5406 531 IIVDFARQSIILPIGGRPVPFHISSIKNAS--KNDEGNFVYLRLNFKSPGKGGGKTEELPCEQRGEQFLRSITSRS 604 (1001)
T ss_pred EEEEeccceEEEeecCcccceeehhhcccc--ccCCCceEEEEEeccCCCCCCCccccCcccccchhhhhheeeee
Confidence 887543321 1122444444556777652 1233467999999999998887643 2588887775444
No 29
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=79.27 E-value=1.8 Score=46.97 Aligned_cols=13 Identities=23% Similarity=0.330 Sum_probs=5.6
Q ss_pred EecCceeEEEEEe
Q 003374 622 VTLGEIEIVNLER 634 (825)
Q Consensus 622 itl~eIeiV~fER 634 (825)
-+|.+..-+.-||
T Consensus 121 Cpl~da~C~EC~R 133 (314)
T PF06524_consen 121 CPLQDAVCIECER 133 (314)
T ss_pred CcCCCcEeeeeec
Confidence 3344444444444
No 30
>PF05285 SDA1: SDA1; InterPro: IPR007949 This domain consists of several SDA1 protein homologues. SDA1 is a Saccharomyces cerevisiae protein which is involved in the control of the actin cytoskeleton. The protein is essential for cell viability and is localised in the nucleus [].
Probab=78.35 E-value=1.7 Score=48.62 Aligned_cols=17 Identities=29% Similarity=0.743 Sum_probs=9.3
Q ss_pred EecccCCChHhHHHHhhhc
Q 003374 658 IDSIPSSSLDSIKEWLDTT 676 (825)
Q Consensus 658 i~~Ip~~~ld~Ik~wL~s~ 676 (825)
...||= ++.|..|....
T Consensus 65 ~~~i~G--~elL~~~~~~~ 81 (324)
T PF05285_consen 65 ADGIPG--AELLEEWKEEE 81 (324)
T ss_pred ccCCCh--HHHHHHHhhcc
Confidence 445553 45577776544
No 31
>PTZ00007 (NAP-L) nucleosome assembly protein -L; Provisional
Probab=77.62 E-value=13 Score=42.20 Aligned_cols=90 Identities=20% Similarity=0.286 Sum_probs=52.7
Q ss_pred hHHHHH--HHHHHHHHHHHHHHHHHHHHHhhhcCCCCcCCCCceEeccccCCCccCcc------cceeEeEeeCccccee
Q 003374 542 DEIEEE--QRERARKNKINMDFQSFVNRVNDLWGQPKFNGLDLEFDQPLRDLGFHGVP------HKASAFIVPTSSCLVE 613 (825)
Q Consensus 542 dEle~E--q~Er~~r~klnk~F~~F~~~v~~~~~~~~~~~~~~~~~iP~r~lgF~Gvp------~Ks~v~l~Pt~~cLv~ 613 (825)
+.|++| .+-.++++++++.|+-...+=.+++. |. .. + +.+-.|+| +++. |+..|++.
T Consensus 54 ~~le~ef~~ev~~LE~kY~~~~~Ply~kR~eII~-----G~-~~---~--e~~~~gIP~FWl~vL~Nh----~~ls~~I~ 118 (337)
T PTZ00007 54 DDLEVEYNAELRKLRSKYEDLYNPIYDKRKEALV-----QN-GG---A--EIGTPGLPQFWLTAMKNN----NTLGSAIE 118 (337)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHc-----CC-cc---c--ccccCCcccHHHHHHHcC----ccHhhhCC
Confidence 344443 34457777777777777666666552 11 00 0 12334555 3442 66667776
Q ss_pred ccccCceEEecCceeEEEEEeecCCc-ceeeEEEEEec
Q 003374 614 LIETPFLVVTLGEIEIVNLERVGLGQ-KNFDMTIVFKD 650 (825)
Q Consensus 614 l~e~P~~vitl~eIeiV~fERV~~~~-knFDmvfvfKd 650 (825)
=.+.|.| --|.+|++..++ ... +.|-|+|.|+.
T Consensus 119 e~De~iL-~~L~dI~ve~~~---~~~~~gf~I~F~F~~ 152 (337)
T PTZ00007 119 EHDEPIL-SYLSDISCEYTE---PNKQEGFILVFTFAP 152 (337)
T ss_pred HHHHHHH-HhhCceEEEEcc---CCCCCceEEEEEeCC
Confidence 6666665 577788776542 222 78999999984
No 32
>COG0006 PepP Xaa-Pro aminopeptidase [Amino acid transport and metabolism]
Probab=77.17 E-value=25 Score=39.75 Aligned_cols=151 Identities=14% Similarity=0.162 Sum_probs=82.6
Q ss_pred HHHHHHHHHHHHHccCCCCCCCCCCEEEEEcCCCCccccchhhhhhhHhhcCCc-----ccceeeEeecCeEEEEechhh
Q 003374 27 NFSTRLKALYSHWNKHKSDYWGSADVLAIATPPASEDLRYLKSSALNIWLLGYE-----FPETVMVFMKKQIQFLCSQKK 101 (825)
Q Consensus 27 ~F~~RLk~L~~~Wk~~~~~~~~~~dai~i~~G~~~ed~~Y~KStaLq~WLlGYE-----FpdTlivftk~~i~~LtS~KK 101 (825)
.+..||.++...-.. .+.|++++-... + ..||.||. .+-.+++......++++...-
T Consensus 9 ~~~~rl~~~~~~~~~------~~~~~~~~~~~~----n--------~~yltg~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 70 (384)
T COG0006 9 EYRARLARLRELMEE------AGLDALLLTSPS----N--------FYYLTGFDAFGFERLQALLVPAEGEPVLFVRGRD 70 (384)
T ss_pred HHHHHHHHHHHHHHH------cCCcEEEecCCC----c--------eEEEeCCCCCcccceEEEEEcCCCceEEEEcchh
Confidence 456677777665554 356676665553 2 24566655 334444444455777777664
Q ss_pred hhhhhhhhccCCCCccEEEEEeecCCCCChHHHHHHHHHHHhccCCCCCCCCCeEEEeeCCCCCCchHHHHHHHHhcc-C
Q 003374 102 ASLLGMVKRSAKDAVGADVVIHVKAKTDDGVELMDAIFNAVRSQSNVDSGDGPIVGSIARETPEGRLLETWADRLQNS-G 180 (825)
Q Consensus 102 a~~Le~l~~~~~~~~~Veilvr~Kd~~~n~~~~fekli~~ik~~~~~~s~~g~kVGvl~Kdk~~G~F~~~W~~~l~~~-~ 180 (825)
........... ...+..+....+... .++.+.+.+... ......+|.-..-. .--+..|....... +
T Consensus 71 ~~~~~~~~~~~--~~~~~~~~~~~~~~~----~~~~~~~~~~~~----~~~~~~~g~~~~~~--~~~~~~~~~l~~~~~~ 138 (384)
T COG0006 71 EEAAKETSWIK--LENVEVYEDDEDPAA----PLDLLGALLEEL----GLAGKRIGIESASI--FLTLAAFERLQAALPR 138 (384)
T ss_pred HHHHHhhcccc--cCceEEEecCCcccc----HHHHHHHHHHhc----cccccceEEEeccC--ccCHHHHHHHHhhCCC
Confidence 33222221100 023555555322111 345555555521 12245677666532 12234444332221 2
Q ss_pred CceeccchhhHhHhhccChhhhhceee
Q 003374 181 FQLSDVTNGLSELFAVKDQEEIMNVKK 207 (825)
Q Consensus 181 ~e~VDVS~~iS~llavKDe~Ei~~ikk 207 (825)
.+.+|++..+..+=+||++.||..||+
T Consensus 139 ~~~~~~~~~i~~lR~iKs~~EI~~ir~ 165 (384)
T COG0006 139 AELVDASDLVDRLRLIKSPAEIAKIRK 165 (384)
T ss_pred CEEeccHHHHHHHHhcCCHHHHHHHHH
Confidence 389999999999999999999999987
No 33
>KOG2038 consensus CAATT-binding transcription factor/60S ribosomal subunit biogenesis protein [Translation, ribosomal structure and biogenesis; Transcription]
Probab=73.93 E-value=2 Score=52.39 Aligned_cols=24 Identities=0% Similarity=0.261 Sum_probs=15.2
Q ss_pred EEEEEeecCCCCChHHHHHHHHHHHh
Q 003374 118 ADVVIHVKAKTDDGVELMDAIFNAVR 143 (825)
Q Consensus 118 Veilvr~Kd~~~n~~~~fekli~~ik 143 (825)
++|+++. .|=++- ...+.|+..++
T Consensus 217 ~~Llvqe-sPvh~l-k~lEtLls~c~ 240 (988)
T KOG2038|consen 217 MTLLVQE-SPVHNL-KSLETLLSSCK 240 (988)
T ss_pred HHHhhcc-cchhHH-HHHHHHHHHHh
Confidence 4566663 345656 67777777776
No 34
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=72.90 E-value=4.7 Score=43.84 Aligned_cols=11 Identities=27% Similarity=0.437 Sum_probs=5.5
Q ss_pred eEeeCccccee
Q 003374 603 FIVPTSSCLVE 613 (825)
Q Consensus 603 ~l~Pt~~cLv~ 613 (825)
.-+|-.+|=.-
T Consensus 208 k~~PCPKCg~e 218 (314)
T PF06524_consen 208 KPIPCPKCGYE 218 (314)
T ss_pred CCCCCCCCCCc
Confidence 34455556543
No 35
>PF02724 CDC45: CDC45-like protein; InterPro: IPR003874 CDC45 is an essential gene required for initiation of DNA replication in Saccharomyces cerevisiae (cell division control protein 45), forming a complex with MCM5/CDC46. Homologs of CDC45 have been identified in human [], mouse and the smut fungus, Melampsora spp., (tsd2 protein) among others.; GO: 0006270 DNA-dependent DNA replication initiation
Probab=71.27 E-value=1.6 Score=52.87 Aligned_cols=11 Identities=36% Similarity=0.452 Sum_probs=5.0
Q ss_pred eEEEEEecCCC
Q 003374 643 DMTIVFKDFKK 653 (825)
Q Consensus 643 DmvfvfKd~~~ 653 (825)
+++|.-=|.++
T Consensus 75 ~~~iyViDshR 85 (622)
T PF02724_consen 75 DVTIYVIDSHR 85 (622)
T ss_pred ceEEEEEeCCC
Confidence 44444445444
No 36
>PF05195 AMP_N: Aminopeptidase P, N-terminal domain; InterPro: IPR007865 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This N-terminal domain is associated with N-terminal region of aminopeptidase P (X-Pro aminopeptidase I and II, 3.4.11.9 from EC) and related sequences. It is not found associated with methionyl aminopeptidase 1 (IPR002467 from INTERPRO) or methionyl aminopeptidase 2 (IPR002468 from INTERPRO) families. The domain is structurally very similar [] to the creatinase N-terminal domain (IPR000587 from INTERPRO), however, little or no sequence similarity exists between the two domains. The sequences belong to MEROPS peptidase family M24B, clan MG.; GO: 0004177 aminopeptidase activity, 0030145 manganese ion binding; PDB: 3IG4_B 2OKN_A 2IW2_B 1WBQ_A 2BH3_A 1WLR_A 2V3Z_A 1W2M_B 2BWT_A 2BWW_A ....
Probab=69.42 E-value=10 Score=37.02 Aligned_cols=57 Identities=25% Similarity=0.437 Sum_probs=33.7
Q ss_pred cCHHHHHHHHHHHHHHHccCCCCCCCCCCEEEEEcCCC----Cccccch-hhhhhhHhhcCCcccceeeEe
Q 003374 23 INLENFSTRLKALYSHWNKHKSDYWGSADVLAIATPPA----SEDLRYL-KSSALNIWLLGYEFPETVMVF 88 (825)
Q Consensus 23 ID~~~F~~RLk~L~~~Wk~~~~~~~~~~dai~i~~G~~----~ed~~Y~-KStaLq~WLlGYEFpdTlivf 88 (825)
|.++.|.+|=++|.+.-..+ +++|+.|.. +-|..|. -..+-..||+|++-|+.++|+
T Consensus 1 i~~~~~~~RR~~l~~~l~~~---------~~vil~~~~~~~~~~D~~y~FrQ~s~F~YLTG~~ep~~~lvl 62 (134)
T PF05195_consen 1 IPAEEYAERRKKLAEKLPDN---------SIVILPGGPEKYRSNDIEYPFRQDSNFYYLTGFNEPDAVLVL 62 (134)
T ss_dssp -EHHHHHHHHHHHHHHSHSS---------EEEEEE----EEEETTEEE-----HHHHHHH---STT-EEEE
T ss_pred CCHHHHHHHHHHHHHhcCCC---------cEEEEECCCeeeecCCCccccccCCcEEEEeCCCCCCEEEEE
Confidence 45788999999999998752 556666542 2233332 445567999999999999999
No 37
>PF09026 CENP-B_dimeris: Centromere protein B dimerisation domain; InterPro: IPR015115 Centromere protein B (CENP-B) interacts with centromeric heterochromatin in chromosomes and binds to a specific subset of alphoid satellite DNA, called the CENP-B box. CENP-B may organise arrays of centromere satellite DNA into a higher order structure, which then directs centromere formation and kinetochore assembly in mammalian chromosomes. The CENP-B dimerisation domain is composed of two alpha-helices, which are folded into an antiparallel configuration. Dimerisation of CENP-B is mediated by this domain, in which monomers dimerise to form a symmetrical, antiparallel, four-helix bundle structure with a large hydrophobic patch in which 23 residues of one monomer form van der Waals contacts with the other monomer. This CENP-B dimer configuration may be suitable for capturing two distant CENP-B boxes during centromeric heterochromatin formation []. ; GO: 0003677 DNA binding, 0003682 chromatin binding, 0006355 regulation of transcription, DNA-dependent, 0000775 chromosome, centromeric region, 0005634 nucleus; PDB: 1UFI_A.
Probab=68.72 E-value=1.7 Score=40.60 Aligned_cols=12 Identities=17% Similarity=0.130 Sum_probs=2.1
Q ss_pred ccCCChHHHHHH
Q 003374 770 EKGKTWAELERE 781 (825)
Q Consensus 770 e~g~dWdeLE~~ 781 (825)
+++..|-++=+.
T Consensus 38 ~de~p~p~fgea 49 (101)
T PF09026_consen 38 EDEVPVPEFGEA 49 (101)
T ss_dssp --------HHHH
T ss_pred cccccchhHHHH
Confidence 447778776543
No 38
>PRK13607 proline dipeptidase; Provisional
Probab=68.45 E-value=8.5 Score=44.84 Aligned_cols=132 Identities=16% Similarity=0.093 Sum_probs=69.6
Q ss_pred CCEEEEEcCCCC----ccccch-hhhhhhHhhcCCc-ccceeeEeecC---eEEEEechhhhhhhh-hhh--cc-CCCCc
Q 003374 50 ADVLAIATPPAS----EDLRYL-KSSALNIWLLGYE-FPETVMVFMKK---QIQFLCSQKKASLLG-MVK--RS-AKDAV 116 (825)
Q Consensus 50 ~dai~i~~G~~~----ed~~Y~-KStaLq~WLlGYE-FpdTlivftk~---~i~~LtS~KKa~~Le-~l~--~~-~~~~~ 116 (825)
-++|++..|... .|+.|. ...+-..||+|+. .|+.+.++..+ +++|+. +. .+-. +.. .. ....+
T Consensus 28 ~~~i~l~~g~~~~~~~~D~~~~Frq~s~F~yl~G~~~~p~~~~~i~~~~~~~~~l~~-~~--d~W~g~~~~~~~~~~~~~ 104 (443)
T PRK13607 28 LDALLIHSGELHRVFLDDHDYPFKVNPQFKAWVPVTQVPNCWLLVDGVNKPKLWFYQ-PV--DYWHNVEPLPESFWTEEV 104 (443)
T ss_pred CCEEEEECCCcccccCCCCCCCcCcCCCcchhcCCCCCCCeEEEEEeCCCCEEEEEe-cC--ccccCCCCCchHHHHHhc
Confidence 457888888742 445444 6777789999995 79999998543 555554 31 2211 110 00 00001
Q ss_pred cEEEEEeecCCCCChHHHHHHHHHHHhccCCCCCCCCCeEEEeeCCCCCCchHHHHHHHHhccCCceeccchhhHhHhhc
Q 003374 117 GADVVIHVKAKTDDGVELMDAIFNAVRSQSNVDSGDGPIVGSIARETPEGRLLETWADRLQNSGFQLSDVTNGLSELFAV 196 (825)
Q Consensus 117 ~Veilvr~Kd~~~n~~~~fekli~~ik~~~~~~s~~g~kVGvl~Kdk~~G~F~~~W~~~l~~~~~e~VDVS~~iS~llav 196 (825)
.++. - .....+...+. .++..+..+......-++ .. +.....+..+++..|..+-+|
T Consensus 105 ~~~~----------~-~~~~~~~~~l~-------~~~~~~~~~~~~~~~~~~----~~-~~~~~~~~~~l~~~l~~lR~i 161 (443)
T PRK13607 105 DIKA----------L-TKADGIASLLP-------ADRGNVAYIGEVPERALA----LG-FEASNINPKGVLDYLHYHRAY 161 (443)
T ss_pred ChHh----------c-ccHHHHHHhhc-------cCCCceEEeccccccccc----cc-CcccccChHHHHHHHHHHHhc
Confidence 1110 0 22334444454 123333332221110000 00 111123566788899999999
Q ss_pred cChhhhhceee
Q 003374 197 KDQEEIMNVKK 207 (825)
Q Consensus 197 KDe~Ei~~ikk 207 (825)
|++.||..||+
T Consensus 162 Ks~~EI~~mr~ 172 (443)
T PRK13607 162 KTDYELACMRE 172 (443)
T ss_pred CCHHHHHHHHH
Confidence 99999999986
No 39
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=63.80 E-value=4.8 Score=47.61 Aligned_cols=15 Identities=7% Similarity=0.058 Sum_probs=8.7
Q ss_pred cccceeeeccCCCcc
Q 003374 482 GNIKHAFFQPAEKEM 496 (825)
Q Consensus 482 ~NIKh~FfqP~~~E~ 496 (825)
++|...|=||.+...
T Consensus 97 ~~veK~~~q~~~~k~ 111 (678)
T KOG0127|consen 97 KAVEKPIEQKRPTKA 111 (678)
T ss_pred hhhhcccccCCcchh
Confidence 455666666665544
No 40
>PF02724 CDC45: CDC45-like protein; InterPro: IPR003874 CDC45 is an essential gene required for initiation of DNA replication in Saccharomyces cerevisiae (cell division control protein 45), forming a complex with MCM5/CDC46. Homologs of CDC45 have been identified in human [], mouse and the smut fungus, Melampsora spp., (tsd2 protein) among others.; GO: 0006270 DNA-dependent DNA replication initiation
Probab=62.44 E-value=8 Score=47.03 Aligned_cols=13 Identities=23% Similarity=0.146 Sum_probs=5.3
Q ss_pred cCeEEEecccccC
Q 003374 676 TDIKYYESRLNLN 688 (825)
Q Consensus 676 ~~I~~~Eg~~nln 688 (825)
+.|.+..+--.+|
T Consensus 76 ~~iyViDshRP~~ 88 (622)
T PF02724_consen 76 VTIYVIDSHRPWN 88 (622)
T ss_pred eEEEEEeCCCCcc
Confidence 3344444444433
No 41
>PRK14576 putative endopeptidase; Provisional
Probab=61.50 E-value=87 Score=36.02 Aligned_cols=66 Identities=18% Similarity=0.205 Sum_probs=44.3
Q ss_pred HHHHHHHHHHhccCCCCCCCCCeEEEeeCCCCCCchHHHHHHHHhc--cCCceeccchhhHhHhhccChhhhhceee
Q 003374 133 ELMDAIFNAVRSQSNVDSGDGPIVGSIARETPEGRLLETWADRLQN--SGFQLSDVTNGLSELFAVKDQEEIMNVKK 207 (825)
Q Consensus 133 ~~fekli~~ik~~~~~~s~~g~kVGvl~Kdk~~G~F~~~W~~~l~~--~~~e~VDVS~~iS~llavKDe~Ei~~ikk 207 (825)
..++.|.++++.. .-.+.+||+=.. . +.-.+...|.. .+.+.||++..|..+=.||++.||.++|+
T Consensus 121 ~~~~~~~~~l~~~----g~~~~rigve~~-~----~~~~~~~~l~~~~~~~~~vd~~~~l~~lR~iKs~~EI~~~r~ 188 (405)
T PRK14576 121 AVFSLVKNALEDA----GVLDKTIAIELQ-A----MSNGGKGVLDKVAPGLKLVDSTALFNEIRMIKSPWEIEHLRK 188 (405)
T ss_pred HHHHHHHHHHHHh----CCCCCEEEEccC-C----CCHHHHHHHHhhCCCCeEEEcHHHHHHHHcCCCHHHHHHHHH
Confidence 4456677777631 123467886332 1 12223344432 36889999999999999999999999987
No 42
>KOG0526 consensus Nucleosome-binding factor SPN, POB3 subunit [Transcription; Replication, recombination and repair; Chromatin structure and dynamics]
Probab=61.03 E-value=6.9 Score=46.29 Aligned_cols=13 Identities=31% Similarity=0.657 Sum_probs=10.0
Q ss_pred CCeEEEEEEeecC
Q 003374 349 NRNCYIRIIFNVP 361 (825)
Q Consensus 349 g~~~yLRINF~~P 361 (825)
+.++|+-|...-|
T Consensus 252 ~rh~~fVisldPP 264 (615)
T KOG0526|consen 252 QRHVYFVISLDPP 264 (615)
T ss_pred CceEEEEEecCCc
Confidence 5677888888777
No 43
>KOG0943 consensus Predicted ubiquitin-protein ligase/hyperplastic discs protein, HECT superfamily [Posttranslational modification, protein turnover, chaperones]
Probab=59.12 E-value=6.7 Score=50.06 Aligned_cols=22 Identities=23% Similarity=0.329 Sum_probs=13.4
Q ss_pred EEEEccCcEEEEeeCCccccee
Q 003374 314 IQIDQKNEAVLFPIYGSMVPFH 335 (825)
Q Consensus 314 I~VD~k~e~vilPI~G~~VPFH 335 (825)
.-+|-.-.-|+.|-.|.+.|=-
T Consensus 1097 ~a~~~Ded~i~~gavgslsp~~ 1118 (3015)
T KOG0943|consen 1097 MAPDGDEDFILAGAVGSLSPAA 1118 (3015)
T ss_pred cCCCCCcccccccccccCCCCC
Confidence 3445555567777777766643
No 44
>COG5129 MAK16 Nuclear protein with HMG-like acidic region [General function prediction only]
Probab=58.37 E-value=5.1 Score=42.66 Aligned_cols=13 Identities=23% Similarity=0.629 Sum_probs=7.2
Q ss_pred cccccC---hHHHHhh
Q 003374 683 SRLNLN---WRQILKT 695 (825)
Q Consensus 683 g~~nln---W~~imkt 695 (825)
.|+|.+ |+.+|..
T Consensus 177 ~pLnv~e~~wnK~~~~ 192 (303)
T COG5129 177 TPLNVREHLWNKAATE 192 (303)
T ss_pred CccchHHHHHHHHHHH
Confidence 455544 6666654
No 45
>PF08553 VID27: VID27 cytoplasmic protein; InterPro: IPR013863 This entry represents fungal and plant proteins and contains many hypothetical proteins. Vid27p is a cytoplasmic protein of unknown function, possibly regulates import of fructose-1,6-bisphosphatase into Vacuolar Import and Degradation (Vid) vesicles and is not essential for proteasome-dependent degradation of fructose-1,6-bisphosphatase (FBPase) [, ].
Probab=58.11 E-value=6.9 Score=48.77 Aligned_cols=34 Identities=9% Similarity=0.206 Sum_probs=23.3
Q ss_pred hHhHHHHhhhcCeEEEecccccChHHHHhhhhcC
Q 003374 666 LDSIKEWLDTTDIKYYESRLNLNWRQILKTITDD 699 (825)
Q Consensus 666 ld~Ik~wL~s~~I~~~Eg~~nlnW~~imktI~~D 699 (825)
.+.+..|....-.+.+|......|..+=..-++-
T Consensus 338 ~~~~~~F~~~~~~~l~E~~n~~~w~~~k~~e~~Y 371 (794)
T PF08553_consen 338 QEDYERFQEKFMKCLWENLNKMKWSKIKEDEQEY 371 (794)
T ss_pred HHHHHHHHHHHHHHHHHHhhcCCcccCcHHHHHH
Confidence 4566666666656699999999998874444443
No 46
>KOG2038 consensus CAATT-binding transcription factor/60S ribosomal subunit biogenesis protein [Translation, ribosomal structure and biogenesis; Transcription]
Probab=57.88 E-value=6 Score=48.61 Aligned_cols=18 Identities=17% Similarity=0.141 Sum_probs=12.1
Q ss_pred hHhHhhccChhhhhceee
Q 003374 190 LSELFAVKDQEEIMNVKK 207 (825)
Q Consensus 190 iS~llavKDe~Ei~~ikk 207 (825)
|..||.-|-++|-++++.
T Consensus 328 i~~lL~~kPEqE~~LL~~ 345 (988)
T KOG2038|consen 328 IYDLLTNKPEQENNLLVL 345 (988)
T ss_pred HHHHHhCCcHHHHHHHHH
Confidence 445777777777766665
No 47
>PF08567 TFIIH_BTF_p62_N: TFIIH p62 subunit, N-terminal domain; InterPro: IPR013876 The N-terminal region of the TFIIH basal transcription factor complex p62 subunit (BTF2-p62) forms an interaction with the 3' endonuclease XPG, which is essential for activity. The 3' endonuclease XPG is a major component of the nucleotide excision repair machinery. The structure of the N-terminal region reveals that it adopts a pleckstrin homology (PH) fold [, ]. ; PDB: 1Y5O_A 2LOX_A 2GS0_A 2L2I_A 2K2U_A 1PFJ_A 2RNR_B.
Probab=52.09 E-value=43 Score=30.21 Aligned_cols=56 Identities=18% Similarity=0.249 Sum_probs=42.7
Q ss_pred CccCCceEEEEece--eeeeeCCCCc--eEEeeccccceeeeccCCCccEEEEEEEccCce
Q 003374 452 GRKIPGTLEAHLNG--FRFATSRPEE--RVDIMFGNIKHAFFQPAEKEMITLVHFHLHNHI 508 (825)
Q Consensus 452 ~kr~~G~lE~H~NG--~Ry~s~~k~~--~idIly~NIKh~FfqP~~~E~ivlihfhLk~PI 508 (825)
.||..|+|.+.... +.++....+. .+.|.|.+|+.++-=|.-. --|+|-+-++++-
T Consensus 9 yKK~~G~L~l~~d~~~~~W~~~~~~~~~~v~i~~~~I~~lq~Sp~~s-~Kv~Lki~~~~~~ 68 (79)
T PF08567_consen 9 YKKKDGTLTLTEDRKPLEWTPKASDGPSTVSIPLNDIKNLQQSPEGS-PKVMLKIVLKDDS 68 (79)
T ss_dssp ETTEEEEEEEETTCSSEEEEECCSSSSSEEEEETTTEEEEEE--TTS-STEEEEEEETTSC
T ss_pred EEcCCcEEEEecCCceEEEeecCCCCCceEEEEHHHhhhhccCCCCC-cceEEEEEEecCC
Confidence 38999999999999 9998753333 3999999999987777654 5577777777776
No 48
>KOG2141 consensus Protein involved in high osmolarity signaling pathway [Signal transduction mechanisms]
Probab=50.54 E-value=11 Score=45.99 Aligned_cols=8 Identities=13% Similarity=0.609 Sum_probs=3.0
Q ss_pred HHHHHHHH
Q 003374 561 FQSFVNRV 568 (825)
Q Consensus 561 F~~F~~~v 568 (825)
++.-++.+
T Consensus 130 ~kq~~kq~ 137 (822)
T KOG2141|consen 130 LKQYAKQV 137 (822)
T ss_pred HHHHHHHh
Confidence 33333333
No 49
>PF03115 Astro_capsid: Astrovirus capsid protein precursor; InterPro: IPR004337 The astrovirus genome is apparently organised with nonstructural proteins encoded at the 5' end and structural proteins at the 3' end []. Proteins in this family are encoded by astrovirus ORF2, one of the three astrovirus ORFs (1a, 1b, 2). The proteins contain a viral RNA-dependent RNA polymerase motif []. The 87kDa precursor polyprotein undergoes an intracellular cleavage to form a 79kDa protein. Subsequently, extracellular trypsin cleavage yields the three proteins forming the infectious virion [].; PDB: 3QSQ_A 3TS3_D.
Probab=47.49 E-value=6.2 Score=49.05 Aligned_cols=11 Identities=27% Similarity=0.296 Sum_probs=0.0
Q ss_pred eeccchhhHhH
Q 003374 183 LSDVTNGLSEL 193 (825)
Q Consensus 183 ~VDVS~~iS~l 193 (825)
.+||+.|=...
T Consensus 181 H~dv~~G~~~~ 191 (787)
T PF03115_consen 181 HVDVPVGRPAV 191 (787)
T ss_dssp -----------
T ss_pred EEEEcCCCceE
Confidence 35555544333
No 50
>PF03344 Daxx: Daxx Family; InterPro: IPR005012 Daxx is a ubiquitously expressed protein that functions, in part, as a transcriptional co-repressor through its interaction with a growing number of nuclear, DNA-associated proteins. Human Daxx contains four structural domains commonly found in transcriptional regulatory proteins: two predicted paired amphipathic helices, an acid-rich domain and a Ser/Pro/Thr (SPT)-rich domain. The post-translational modification status of the SPT-domain of hDaxx regulates its association with transcription factors such as Pax3 and ETS-1, effectively bringing hDaxx to sites of active transcription. Through its presence at the site of active transcription, hDaxx could then be able to associate with acetylated histones present in the nucleosomes and Dek that is associated with chromatin. Through its association with the SPT-domain of hDaxx, histone deacetylases may also be brought to the site of active transcription. As a consequence, nucleosomes in the vicinity of the site of active transcription will have the histone tails deacetylated, allowing the deactylated tail to bind to DNA, thereby leading to an inactive chromatin structure and transcriptional repression []. The Daxx protein (also known as the Fas-binding protein) is thought to play a role in apoptosis as a component of nuclear promyelocytic leukemia protein (PML) oncogenic domains (PODS). Daxx associates with PODs through a direct interaction with PML, a critical component of PODs. The interaction is a dynamic, cell cycle regulated event and is dependent on the post-translational modification of PML by the small ubiquitin-related modifier SUMO-1. ; PDB: 2KZS_A 2KZU_A.
Probab=46.62 E-value=6.5 Score=48.48 Aligned_cols=12 Identities=8% Similarity=0.282 Sum_probs=8.3
Q ss_pred HHHHHHHHHHhc
Q 003374 133 ELMDAIFNAVRS 144 (825)
Q Consensus 133 ~~fekli~~ik~ 144 (825)
.+|..+|+....
T Consensus 70 ~lf~eFi~~C~~ 81 (713)
T PF03344_consen 70 KLFEEFIELCLA 81 (713)
T ss_dssp HHHHHHHHHHHH
T ss_pred HHHHHHHHHhcc
Confidence 677777777653
No 51
>KOG1834 consensus Calsyntenin [Extracellular structures]
Probab=45.99 E-value=9.7 Score=46.03 Aligned_cols=28 Identities=18% Similarity=0.089 Sum_probs=16.4
Q ss_pred cccceeeeeeeeeeccccCCCeEEEEEEeecCC
Q 003374 330 SMVPFHVATIRTVSSQQDTNRNCYIRIIFNVPG 362 (825)
Q Consensus 330 ~~VPFHI~tIKnvs~~~e~g~~~yLRINF~~Pg 362 (825)
+|+-||...= +-=+ +++-|--|||..|-
T Consensus 428 Rpaef~Wkl~----qVCD-~EWH~Y~ln~efp~ 455 (952)
T KOG1834|consen 428 RPAEFHWKLP----QVCD-NEWHHYVLNVEFPD 455 (952)
T ss_pred cchheeccch----hhhh-hhhheeEEeecCce
Confidence 5677776531 1123 45666677777775
No 52
>PF05764 YL1: YL1 nuclear protein; InterPro: IPR008895 The proteins in this family are designated YL1 []. They have been shown to be DNA-binding and may be transcription factors [].; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=44.19 E-value=25 Score=37.82 Aligned_cols=9 Identities=11% Similarity=0.283 Sum_probs=4.6
Q ss_pred HHHHhhhhc
Q 003374 690 RQILKTITD 698 (825)
Q Consensus 690 ~~imktI~~ 698 (825)
++=|+.+++
T Consensus 11 Gnrm~~LL~ 19 (240)
T PF05764_consen 11 GNRMKKLLE 19 (240)
T ss_pred hHHHHHHHH
Confidence 445555544
No 53
>KOG0262 consensus RNA polymerase I, large subunit [Transcription]
Probab=43.98 E-value=19 Score=46.54 Aligned_cols=14 Identities=29% Similarity=0.532 Sum_probs=9.2
Q ss_pred eEEEecccCCChHh
Q 003374 655 VLRIDSIPSSSLDS 668 (825)
Q Consensus 655 ~~~i~~Ip~~~ld~ 668 (825)
.++|.-.|.+++..
T Consensus 1259 ~lr~~~~~~~~y~~ 1272 (1640)
T KOG0262|consen 1259 KLRFDLLPREEYQE 1272 (1640)
T ss_pred EEEEeecCHHHhhh
Confidence 46677777776654
No 54
>KOG2773 consensus Apoptosis antagonizing transcription factor/protein transport protein [Transcription; Intracellular trafficking, secretion, and vesicular transport]
Probab=42.37 E-value=18 Score=42.15 Aligned_cols=12 Identities=8% Similarity=0.111 Sum_probs=7.0
Q ss_pred CChHHHHHHHHH
Q 003374 773 KTWAELEREATN 784 (825)
Q Consensus 773 ~dWdeLE~~A~~ 784 (825)
+-||++...+..
T Consensus 139 e~eDd~~~s~~~ 150 (483)
T KOG2773|consen 139 EGEDDLQDSQIE 150 (483)
T ss_pred cccchhhhhccc
Confidence 456776655544
No 55
>COG5165 POB3 Nucleosome-binding factor SPN, POB3 subunit [Transcription / DNA replication, recombination, and repair / Chromatin structure and dynamics]
Probab=41.90 E-value=13 Score=42.17 Aligned_cols=88 Identities=17% Similarity=0.332 Sum_probs=65.9
Q ss_pred cCceEEecCceeEEEEEeecCCcceeeEEEEEecCCCCeEEEecccCCChHhHHHHhhh-cCeEEEec---ccccChHHH
Q 003374 617 TPFLVVTLGEIEIVNLERVGLGQKNFDMTIVFKDFKKDVLRIDSIPSSSLDSIKEWLDT-TDIKYYES---RLNLNWRQI 692 (825)
Q Consensus 617 ~P~~vitl~eIeiV~fERV~~~~knFDmvfvfKd~~~~~~~i~~Ip~~~ld~Ik~wL~s-~~I~~~Eg---~~nlnW~~i 692 (825)
.-||.++..||.-+++.| +.|.++|.|+.|. ..|+.+++.+.++++.||.-+.. .+|.++.- ...+||+..
T Consensus 35 ~~pftlp~~Ev~~~~wsr---g~Rgy~lkI~~k~--~~v~~ldgfsQ~d~d~lkn~f~~~F~i~~eqkE~si~gwnwGe~ 109 (508)
T COG5165 35 RKPFTLPRNEVKDAEWSR---GVRGYKLKIRVKG--NAVYELDGFSQNDIDELKNIFSEYFRITLEQKELSIAGWNWGEL 109 (508)
T ss_pred CCceeechhHhhHHHHhh---hcccceEEEEEcC--CCceEecCcCHHHHHHHHHHHHHheeeeEEEeeeeecccccccc
Confidence 457889999999999988 8899999999987 78999999999999999986654 46666654 345688753
Q ss_pred HhhhhcCccccccCCCcee
Q 003374 693 LKTITDDPQSFIDDGGWEF 711 (825)
Q Consensus 693 mktI~~Dp~~F~~~GGW~f 711 (825)
.|+..-.-|+.++-=.|
T Consensus 110 --~~~g~e~vf~~N~kp~F 126 (508)
T COG5165 110 --GINGQEAVFFRNTKPIF 126 (508)
T ss_pred --ccccceeeeeecCCeeE
Confidence 23333334656655444
No 56
>KOG2393 consensus Transcription initiation factor IIF, large subunit (RAP74) [Transcription]
Probab=41.41 E-value=46 Score=39.78 Aligned_cols=34 Identities=15% Similarity=0.434 Sum_probs=25.1
Q ss_pred ChHhHHHHhhhcCeEEEecccccC-hHHHHhhhhcCcccccc
Q 003374 665 SLDSIKEWLDTTDIKYYESRLNLN-WRQILKTITDDPQSFID 705 (825)
Q Consensus 665 ~ld~Ik~wL~s~~I~~~Eg~~nln-W~~imktI~~Dp~~F~~ 705 (825)
.++-..+|+..- ---+| |--+|..++.+++.|++
T Consensus 175 ~~EEaee~~~~r-------~k~~Nt~~s~m~a~~~~~~~~~e 209 (555)
T KOG2393|consen 175 TAEEAEEWFMER-------FKVMNTWFSLMEAGNSDSYVLLE 209 (555)
T ss_pred cHHHHHHHHHHh-------hhhHHHHHHHHHHhccccchhhc
Confidence 456777887554 23356 99999999999887764
No 57
>PTZ00007 (NAP-L) nucleosome assembly protein -L; Provisional
Probab=39.30 E-value=27 Score=39.60 Aligned_cols=21 Identities=19% Similarity=0.235 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 003374 394 IGEVVGAIKTLRRQVMARESE 414 (825)
Q Consensus 394 ~~~~~~~Ikelkk~~~~re~e 414 (825)
....+.+|+.||.+..+-+.+
T Consensus 39 ~~~rv~aL~~lQ~e~~~le~e 59 (337)
T PTZ00007 39 QRETLKKLQLLQKEFDDLEVE 59 (337)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344566667777666555444
No 58
>KOG1980 consensus Uncharacterized conserved protein [Function unknown]
Probab=36.72 E-value=22 Score=43.20 Aligned_cols=19 Identities=32% Similarity=0.480 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHHHHHHHh
Q 003374 258 RRQHQAELARQKNEETGRR 276 (825)
Q Consensus 258 r~~hQ~eL~~~~~~e~~~r 276 (825)
||..-++|..++.++.+++
T Consensus 52 rrn~akqlr~qk~~~v~e~ 70 (754)
T KOG1980|consen 52 RRNQAKQLRKQKREDVLEN 70 (754)
T ss_pred HHhHHHHHHHhHHHHHHHh
Confidence 4444457888888887766
No 59
>PF03344 Daxx: Daxx Family; InterPro: IPR005012 Daxx is a ubiquitously expressed protein that functions, in part, as a transcriptional co-repressor through its interaction with a growing number of nuclear, DNA-associated proteins. Human Daxx contains four structural domains commonly found in transcriptional regulatory proteins: two predicted paired amphipathic helices, an acid-rich domain and a Ser/Pro/Thr (SPT)-rich domain. The post-translational modification status of the SPT-domain of hDaxx regulates its association with transcription factors such as Pax3 and ETS-1, effectively bringing hDaxx to sites of active transcription. Through its presence at the site of active transcription, hDaxx could then be able to associate with acetylated histones present in the nucleosomes and Dek that is associated with chromatin. Through its association with the SPT-domain of hDaxx, histone deacetylases may also be brought to the site of active transcription. As a consequence, nucleosomes in the vicinity of the site of active transcription will have the histone tails deacetylated, allowing the deactylated tail to bind to DNA, thereby leading to an inactive chromatin structure and transcriptional repression []. The Daxx protein (also known as the Fas-binding protein) is thought to play a role in apoptosis as a component of nuclear promyelocytic leukemia protein (PML) oncogenic domains (PODS). Daxx associates with PODs through a direct interaction with PML, a critical component of PODs. The interaction is a dynamic, cell cycle regulated event and is dependent on the post-translational modification of PML by the small ubiquitin-related modifier SUMO-1. ; PDB: 2KZS_A 2KZU_A.
Probab=35.90 E-value=12 Score=46.23 Aligned_cols=20 Identities=15% Similarity=0.262 Sum_probs=0.0
Q ss_pred cHHHHHHHHHHHHHHHHHHH
Q 003374 393 HIGEVVGAIKTLRRQVMARE 412 (825)
Q Consensus 393 ~~~~~~~~Ikelkk~~~~re 412 (825)
++..+-+.|+-+.+++++.|
T Consensus 198 ~I~~le~~l~~~~~~I~~le 217 (713)
T PF03344_consen 198 QIRRLERLLKKYNKEIKRLE 217 (713)
T ss_dssp --------------------
T ss_pred cccccccccccccccccccc
Confidence 34444455666666666554
No 60
>KOG0699 consensus Serine/threonine protein phosphatase [Signal transduction mechanisms]
Probab=34.05 E-value=27 Score=39.89 Aligned_cols=18 Identities=17% Similarity=0.405 Sum_probs=7.7
Q ss_pred Ccccceeeeeeeeeeccc
Q 003374 329 GSMVPFHVATIRTVSSQQ 346 (825)
Q Consensus 329 G~~VPFHI~tIKnvs~~~ 346 (825)
|..+|+-.+|..---.++
T Consensus 19 g~lL~yg~s~MQGWRvsq 36 (542)
T KOG0699|consen 19 GNLLSYGCSTMQGWRVSQ 36 (542)
T ss_pred Cccchhchhhhhccccch
Confidence 344444444444433333
No 61
>PF14470 bPH_3: Bacterial PH domain
Probab=32.98 E-value=1.6e+02 Score=26.05 Aligned_cols=69 Identities=19% Similarity=0.321 Sum_probs=50.4
Q ss_pred eeEeEeeCcccceeccccC-----ceEEecCceeEEEEEeecCCcceeeEEEEEecCCCCeEEEecccCCChHhHHHHhh
Q 003374 600 ASAFIVPTSSCLVELIETP-----FLVVTLGEIEIVNLERVGLGQKNFDMTIVFKDFKKDVLRIDSIPSSSLDSIKEWLD 674 (825)
Q Consensus 600 s~v~l~Pt~~cLv~l~e~P-----~~vitl~eIeiV~fERV~~~~knFDmvfvfKd~~~~~~~i~~Ip~~~ld~Ik~wL~ 674 (825)
..+.|..|.+=|+++...+ +..++|++|.-|++.. +..... +.|.+ +...+.|.+|+..+++.+-++++
T Consensus 22 ~~g~l~~TnkRlif~~~~~~~~~~~~~i~y~~I~~v~~~~-g~~~~~--i~i~~---~~~~~~i~~i~k~~~~~~~~~i~ 95 (96)
T PF14470_consen 22 FPGVLVLTNKRLIFYSKGMFGGKKFESIPYDDITSVSFKK-GILGGK--ITIET---NGEKIKIDNIQKGDVKEFYEYIK 95 (96)
T ss_pred ceeEEEEeCCEEEEEEcccCCCceEEEEEhhheEEEEEEc-cccccE--EEEEE---CCEEEEEEEcCHHHHHHHHHHHh
Confidence 4568888888888876543 6789999999999995 222222 44444 46689999999999888877764
No 62
>KOG2985 consensus Uncharacterized conserved protein [Function unknown]
Probab=32.81 E-value=83 Score=34.46 Aligned_cols=11 Identities=27% Similarity=0.353 Sum_probs=4.7
Q ss_pred hcCcCCCCCCC
Q 003374 802 RKGKTFGKSRG 812 (825)
Q Consensus 802 ~~~~~~~~~~~ 812 (825)
||.+.++.+.+
T Consensus 279 rr~~~a~~s~s 289 (306)
T KOG2985|consen 279 RRNKVAASSDS 289 (306)
T ss_pred HhhcccccCCC
Confidence 33344444443
No 63
>PF06213 CobT: Cobalamin biosynthesis protein CobT; InterPro: IPR006538 These proteins are CobT subunits of the aerobic cobalt chelatase (aerobic cobalamin biosynthesis pathway). Pseudomonas denitrificans CobT has been experimentally characterised [, ]. Aerobic cobalt chelatase consists of three subunits, CobT, CobN (IPR003672 from INTERPRO) and CobS (IPR006537 from INTERPRO). Cobalamin (vitamin B12) can be complexed with metal via the ATP-dependent reactions (aerobic pathway) (e.g., in P. denitrificans) or via ATP-independent reactions (anaerobic pathway) (e.g., in Salmonella typhimurium) [, ]. The corresponding cobalt chelatases are not homologous. However, aerobic cobalt chelatase subunits CobN and CobS are homologous to Mg-chelatase subunits BchH and BchI, respectively []. CobT, too, has been found to be remotely related to the third subunit of Mg-chelatase, BchD (involved in bacteriochlorophyll synthesis, e.g., in Rhodobacter capsulatus) []. Nomenclature note: CobT of the aerobic pathway P. denitrificans is not a homologue of CobT of the anaerobic pathway (Salmonella typhimurium, Escherichia coli). Therefore, annotation of any members of this family as nicotinate-mononucleotide--5,6-dimethylbenzimidazole phosphoribosyltransferases is erroneous.
Probab=32.73 E-value=57 Score=35.77 Aligned_cols=9 Identities=22% Similarity=0.807 Sum_probs=3.9
Q ss_pred HhHHHHhhh
Q 003374 667 DSIKEWLDT 675 (825)
Q Consensus 667 d~Ik~wL~s 675 (825)
+....||..
T Consensus 168 ~~~R~~l~~ 176 (282)
T PF06213_consen 168 ELWRPWLEE 176 (282)
T ss_pred HHHHHHHHH
Confidence 344444443
No 64
>PF03115 Astro_capsid: Astrovirus capsid protein precursor; InterPro: IPR004337 The astrovirus genome is apparently organised with nonstructural proteins encoded at the 5' end and structural proteins at the 3' end []. Proteins in this family are encoded by astrovirus ORF2, one of the three astrovirus ORFs (1a, 1b, 2). The proteins contain a viral RNA-dependent RNA polymerase motif []. The 87kDa precursor polyprotein undergoes an intracellular cleavage to form a 79kDa protein. Subsequently, extracellular trypsin cleavage yields the three proteins forming the infectious virion [].; PDB: 3QSQ_A 3TS3_D.
Probab=31.90 E-value=15 Score=45.74 Aligned_cols=10 Identities=20% Similarity=0.487 Sum_probs=0.0
Q ss_pred CCeEEEEEEe
Q 003374 349 NRNCYIRIIF 358 (825)
Q Consensus 349 g~~~yLRINF 358 (825)
|++=++|--|
T Consensus 348 GGwWfvkki~ 357 (787)
T PF03115_consen 348 GGWWFVKKIF 357 (787)
T ss_dssp ----------
T ss_pred chHHHHHHHh
Confidence 4444444433
No 65
>COG4547 CobT Cobalamin biosynthesis protein CobT (nicotinate-mononucleotide:5, 6-dimethylbenzimidazole phosphoribosyltransferase) [Coenzyme metabolism]
Probab=31.74 E-value=43 Score=39.45 Aligned_cols=7 Identities=14% Similarity=0.164 Sum_probs=3.0
Q ss_pred CCCccCc
Q 003374 590 DLGFHGV 596 (825)
Q Consensus 590 ~lgF~Gv 596 (825)
.-+|.++
T Consensus 138 k~n~s~~ 144 (620)
T COG4547 138 KANFSKR 144 (620)
T ss_pred ccccccc
Confidence 3344443
No 66
>PF03985 Paf1: Paf1 ; InterPro: IPR007133 Members of this family are components of the RNA polymerase II associated Paf1 complex. The Paf1 complex functions during the elongation phase of transcription in conjunction with Spt4-Spt5 and Spt16-Pob3i [, ].
Probab=30.59 E-value=56 Score=38.10 Aligned_cols=11 Identities=9% Similarity=0.350 Sum_probs=5.6
Q ss_pred HHHHHHHHHHH
Q 003374 399 GAIKTLRRQVM 409 (825)
Q Consensus 399 ~~Ikelkk~~~ 409 (825)
.+|+.+.+.|.
T Consensus 156 ~qi~~Ie~tF~ 166 (436)
T PF03985_consen 156 SQIRAIEKTFE 166 (436)
T ss_pred HHHHHHHHHHH
Confidence 44555555554
No 67
>COG5593 Nucleic-acid-binding protein possibly involved in ribosomal biogenesis [Translation, ribosomal structure and biogenesis]
Probab=30.41 E-value=63 Score=38.80 Aligned_cols=46 Identities=11% Similarity=0.233 Sum_probs=28.4
Q ss_pred echhhhhhhhhhhcc--CCCCcc-EEEEEeecCCCCChHHHHHHHHHHHhccC
Q 003374 97 CSQKKASLLGMVKRS--AKDAVG-ADVVIHVKAKTDDGVELMDAIFNAVRSQS 146 (825)
Q Consensus 97 tS~KKa~~Le~l~~~--~~~~~~-Veilvr~Kd~~~n~~~~fekli~~ik~~~ 146 (825)
||++ +|+++|-.. .+..+. +++|+.. .|.+|. ++++.|+..+.+.|
T Consensus 85 ts~~--k~~~~lls~GT~~DrIsalTLLVq~-sP~h~~-k~letLls~C~kks 133 (821)
T COG5593 85 TSQA--KIEKDLLSHGTVKDRISALTLLVQR-SPSHNA-KNLETLLSFCEKKS 133 (821)
T ss_pred hHHH--HHHHHHHhcCchhhhhhhhHhhhcc-CcchHH-HHHHHHHHHHhccc
Confidence 4554 567777532 122233 5666664 357777 88999998887543
No 68
>KOG1354 consensus Serine/threonine protein phosphatase 2A, regulatory subunit [Signal transduction mechanisms]
Probab=30.26 E-value=77 Score=36.30 Aligned_cols=61 Identities=20% Similarity=0.265 Sum_probs=37.9
Q ss_pred eccCCCCCCCCC-C-CceEEEEccC----cEEEEeeCCcccceeeeeeeeeeccccCCCe----EEEEEEeecCC
Q 003374 298 IAYKNVNDLLPP-R-DLMIQIDQKN----EAVLFPIYGSMVPFHVATIRTVSSQQDTNRN----CYIRIIFNVPG 362 (825)
Q Consensus 298 ~sYk~~~~~P~~-~-~~~I~VD~k~----e~vilPI~G~~VPFHI~tIKnvs~~~e~g~~----~yLRINF~~Pg 362 (825)
.+|.-+.+.|.. + .|++-|=... ++.-.-||+.+=|+||+.| |.+.+ ++. -+||||++.|.
T Consensus 123 ~~~~~~~~~~~~~~~~lr~p~~~~~~~~vea~prRv~aNaHtyhiNSI---S~NsD-~Et~lSADdLRINLWnle 193 (433)
T KOG1354|consen 123 EGYNLPEEGPPGTITSLRLPVEGRHDLEVEASPRRVYANAHTYHINSI---SVNSD-KETFLSADDLRINLWNLE 193 (433)
T ss_pred ccccccccCCCCccceeeceeeccccceeeeeeeeeccccceeEeeee---eecCc-cceEeeccceeeeecccc
Confidence 344444444443 3 5665554444 4445568999999999876 44433 321 27999999995
No 69
>KOG4364 consensus Chromatin assembly factor-I [Chromatin structure and dynamics]
Probab=29.30 E-value=36 Score=41.56 Aligned_cols=24 Identities=17% Similarity=0.520 Sum_probs=13.1
Q ss_pred HHHHhhhcCeEEEecccccChHHHHhhhh
Q 003374 669 IKEWLDTTDIKYYESRLNLNWRQILKTIT 697 (825)
Q Consensus 669 Ik~wL~s~~I~~~Eg~~nlnW~~imktI~ 697 (825)
|-+|...+-=.||-+ |+.=-+-|.
T Consensus 483 lLqF~~NrRP~YyGT-----WrKKS~~Vs 506 (811)
T KOG4364|consen 483 LLQFDKNRRPGYYGT-----WRKKSQVVS 506 (811)
T ss_pred HhhhccccCCccccc-----ccccccccc
Confidence 556666666666643 555444443
No 70
>KOG2321 consensus WD40 repeat protein [General function prediction only]
Probab=29.26 E-value=33 Score=41.32 Aligned_cols=35 Identities=23% Similarity=0.283 Sum_probs=20.2
Q ss_pred CCCCCCCCCC-CceEEEEccCcEEEEeeCCcccceee
Q 003374 301 KNVNDLLPPR-DLMIQIDQKNEAVLFPIYGSMVPFHV 336 (825)
Q Consensus 301 k~~~~~P~~~-~~~I~VD~k~e~vilPI~G~~VPFHI 336 (825)
|=+.-+-.++ +..|.+|--.-+|+|- +.+-|-||-
T Consensus 87 KFERhlDae~V~feiLsDD~SK~v~L~-~DR~IefHa 122 (703)
T KOG2321|consen 87 KFERHLDAEVVDFEILSDDYSKSVFLQ-NDRTIEFHA 122 (703)
T ss_pred eeeecccccceeEEEeccchhhheEee-cCceeeehh
Confidence 3344455555 6777776666666654 455566653
No 71
>KOG1834 consensus Calsyntenin [Extracellular structures]
Probab=28.50 E-value=44 Score=40.83 Aligned_cols=23 Identities=30% Similarity=0.608 Sum_probs=13.7
Q ss_pred ccChHHHHhhhhcCccccccCCC
Q 003374 686 NLNWRQILKTITDDPQSFIDDGG 708 (825)
Q Consensus 686 nlnW~~imktI~~Dp~~F~~~GG 708 (825)
-+.|-.=-=||+=+|..=+++||
T Consensus 869 ~m~WDDSaltItVNPme~~e~~g 891 (952)
T KOG1834|consen 869 EMDWDDSALTITVNPMEDYEKGG 891 (952)
T ss_pred CCCcccccceEEecchHhcccCC
Confidence 35565555566666666556655
No 72
>PF11705 RNA_pol_3_Rpc31: DNA-directed RNA polymerase III subunit Rpc31; InterPro: IPR024661 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. RNA polymerase III contains seventeen subunits in yeasts and in human cells. Twelve of these are akin to RNA polymerase I or II and the other five are RNA polymerase III-specific, and form the functionally distinct groups: (i) Rpc31-Rpc34-Rpc82, and (ii) Rpc37-Rpc53. Rpc31, Rpc34 and Rpc82 form a cluster of enzyme-specific subunits that contribute to transcription initiation in Saccharomyces cerevisiae and Homo sapiens. There is evidence that these subunits are anchored at or near the N-terminal Zn-fold of Rpc1, itself prolonged by a highly conserved but RNA polymerase III-specific domain []. This entry represents the Rpc31 subunit.
Probab=27.27 E-value=58 Score=34.73 Aligned_cols=9 Identities=11% Similarity=0.062 Sum_probs=3.9
Q ss_pred HHHHHHHHH
Q 003374 560 DFQSFVNRV 568 (825)
Q Consensus 560 ~F~~F~~~v 568 (825)
.|..|...+
T Consensus 57 ~~~~lr~~~ 65 (233)
T PF11705_consen 57 LKRELRERM 65 (233)
T ss_pred HHHHHHHHH
Confidence 344444444
No 73
>KOG2652 consensus RNA polymerase II transcription initiation factor TFIIA, large chain [Transcription]
Probab=26.57 E-value=53 Score=37.27 Aligned_cols=15 Identities=13% Similarity=0.182 Sum_probs=7.3
Q ss_pred CceEEecCceeEEEE
Q 003374 618 PFLVVTLGEIEIVNL 632 (825)
Q Consensus 618 P~~vitl~eIeiV~f 632 (825)
|...-+=++++-+.+
T Consensus 202 ~q~~~s~nd~~~~~~ 216 (348)
T KOG2652|consen 202 PQVDGSENDVEQIDG 216 (348)
T ss_pred ccccccccccccccc
Confidence 444444455555444
No 74
>KOG1060 consensus Vesicle coat complex AP-3, beta subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=26.15 E-value=73 Score=39.93 Aligned_cols=14 Identities=43% Similarity=0.456 Sum_probs=11.8
Q ss_pred eeEEEEEeeeCCcC
Q 003374 379 IYLKEVSFRSKDPR 392 (825)
Q Consensus 379 ~fikelt~Rs~d~~ 392 (825)
-|+|+.-.||+|+.
T Consensus 358 P~lKsFfv~ssDp~ 371 (968)
T KOG1060|consen 358 PHLKSFFVRSSDPT 371 (968)
T ss_pred hhhhceEeecCCHH
Confidence 38999999999984
No 75
>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]
Probab=25.83 E-value=46 Score=41.88 Aligned_cols=91 Identities=22% Similarity=0.376 Sum_probs=0.0
Q ss_pred CCCCCCCCCccccCCCCCCCCCC-CCCCccCCCCcccccccccC--ccccCCCCc-ccccCCChHH---HHHHHHHHhhc
Q 003374 716 ASDSESENSEESDQGYEPSDMEV-DSVTEDEDSDSESLVESEDE--EEEDSEEDS-EEEKGKTWAE---LEREATNADRE 788 (825)
Q Consensus 716 ~~~~~~~~~ee~d~~ye~s~~e~-~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~-~ee~g~dWde---LE~~A~~~D~~ 788 (825)
.++.++++....|++++..+++. +.+.-+.++-++|.+...++ |.++.++|+ +++..++|.+ |-.-+-.....
T Consensus 40 ~de~~~~~~~i~d~e~dde~v~~e~~e~v~~~~~~~f~s~~~e~~~d~~ee~~deee~~~n~~~e~p~~~~~~~~e~~~s 119 (895)
T KOG2076|consen 40 DDEIDDEDRDIDDEEEDDEDVESEDVEGVEASEHPDFESSLYESLADEKEEAEDEEESEANETYEEPEGLKQFKGEGEKS 119 (895)
T ss_pred cccccchhccccchhhccCCCchhhhhhhhcccccccccccchhhccccchhhccccchhhcccccCchhhhhhhhheec
Q ss_pred cCCCCCchHHHhhhcCcCCCCCCCCC
Q 003374 789 KGDDSDSEEERKRRKGKTFGKSRGPP 814 (825)
Q Consensus 789 ~~~~~~~~~~~~~~~~~~~~~~~~~~ 814 (825)
++. +|+.+++.++++-++
T Consensus 120 ~~~--------~k~~~~~r~~~~l~~ 137 (895)
T KOG2076|consen 120 TGT--------KKRGRRSRGKSKLAP 137 (895)
T ss_pred ccC--------CccCCCCCcccccCH
No 76
>PRK15173 peptidase; Provisional
Probab=25.33 E-value=1.7e+02 Score=32.66 Aligned_cols=66 Identities=12% Similarity=0.053 Sum_probs=43.3
Q ss_pred HHHHHHHHHHhccCCCCCCCCCeEEEeeCCCCCCchHHHHHHHHhc--cCCceeccchhhHhHhhccChhhhhceee
Q 003374 133 ELMDAIFNAVRSQSNVDSGDGPIVGSIARETPEGRLLETWADRLQN--SGFQLSDVTNGLSELFAVKDQEEIMNVKK 207 (825)
Q Consensus 133 ~~fekli~~ik~~~~~~s~~g~kVGvl~Kdk~~G~F~~~W~~~l~~--~~~e~VDVS~~iS~llavKDe~Ei~~ikk 207 (825)
.....|.+++... .-.+++||+=..- . -...| ..|.. .+.+.+|++..+..+-+||++.||..||+
T Consensus 39 ~~~~~l~~~l~~~----g~~~~rigve~~~-~---~~~~~-~~l~~~l~~~~~~d~~~~i~~lR~iKs~~EI~~mr~ 106 (323)
T PRK15173 39 SVCNILKDALNDA----RVLNKKIAIDLNI-M---SNGGK-RVIDAVMPNVDFVDSSSIFNELRVIKSPWEIKRLRK 106 (323)
T ss_pred HHHHHHHHHHHHc----CccCCEEEEecCc-c---CHHHH-HHHHhhCCCCeEEEhHHHHHHHHccCCHHHHHHHHH
Confidence 4455555555531 1234678874331 1 13333 33443 25789999999999999999999999987
No 77
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=24.64 E-value=47 Score=39.84 Aligned_cols=7 Identities=57% Similarity=0.681 Sum_probs=3.6
Q ss_pred cceeeec
Q 003374 484 IKHAFFQ 490 (825)
Q Consensus 484 IKh~Ffq 490 (825)
|+|||..
T Consensus 32 ik~~~vV 38 (678)
T KOG0127|consen 32 IKHAVVV 38 (678)
T ss_pred cceeEEe
Confidence 4555543
No 78
>KOG1060 consensus Vesicle coat complex AP-3, beta subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=24.64 E-value=75 Score=39.82 Aligned_cols=8 Identities=38% Similarity=0.933 Sum_probs=5.1
Q ss_pred hhHhhcCC
Q 003374 72 LNIWLLGY 79 (825)
Q Consensus 72 Lq~WLlGY 79 (825)
.+.||+-|
T Consensus 91 VyvYLlrY 98 (968)
T KOG1060|consen 91 VYVYLLRY 98 (968)
T ss_pred HHHHHHHH
Confidence 45666666
No 79
>COG4547 CobT Cobalamin biosynthesis protein CobT (nicotinate-mononucleotide:5, 6-dimethylbenzimidazole phosphoribosyltransferase) [Coenzyme metabolism]
Probab=23.28 E-value=66 Score=37.98 Aligned_cols=10 Identities=10% Similarity=0.408 Sum_probs=3.9
Q ss_pred EEccCceeeC
Q 003374 502 FHLHNHIMVG 511 (825)
Q Consensus 502 fhLk~PI~~G 511 (825)
|...-|.+-|
T Consensus 43 f~~~~P~l~a 52 (620)
T COG4547 43 FAFDRPVLRA 52 (620)
T ss_pred eeccCcceec
Confidence 3333444443
No 80
>PF10281 Ish1: Putative stress-responsive nuclear envelope protein; InterPro: IPR018803 This group of proteins, found primarily in fungi, consists of putative stress-responsive nuclear envelope protein Ish1 and homologues [].
Probab=23.25 E-value=61 Score=25.00 Aligned_cols=31 Identities=23% Similarity=0.344 Sum_probs=23.0
Q ss_pred hHhHHHHhhhcCeEEEecccccChHHHHhhhhc
Q 003374 666 LDSIKEWLDTTDIKYYESRLNLNWRQILKTITD 698 (825)
Q Consensus 666 ld~Ik~wL~s~~I~~~Eg~~nlnW~~imktI~~ 698 (825)
-+.|++||.+.||++.++. .+=..+++.+++
T Consensus 6 ~~~L~~wL~~~gi~~~~~~--~~rd~Ll~~~k~ 36 (38)
T PF10281_consen 6 DSDLKSWLKSHGIPVPKSA--KTRDELLKLAKK 36 (38)
T ss_pred HHHHHHHHHHcCCCCCCCC--CCHHHHHHHHHH
Confidence 4789999999999999887 343455555544
No 81
>PF03703 bPH_2: Bacterial PH domain; InterPro: IPR005182 A domain that is found in uncharacterised family of membrane proteins. 1-3 copies found in each protein, with each copy flanked by transmembrane helices.
Probab=23.03 E-value=1.5e+02 Score=25.11 Aligned_cols=56 Identities=13% Similarity=0.166 Sum_probs=43.8
Q ss_pred CceEEecCceeEEEEEe--ecCCcceeeEEEEEecCCCCeEEEecccCCChHhHHHHh
Q 003374 618 PFLVVTLGEIEIVNLER--VGLGQKNFDMTIVFKDFKKDVLRIDSIPSSSLDSIKEWL 673 (825)
Q Consensus 618 P~~vitl~eIeiV~fER--V~~~~knFDmvfvfKd~~~~~~~i~~Ip~~~ld~Ik~wL 673 (825)
-...|+++.|..|..++ ++.....-++.|...+.......|..++.++.+.|.+||
T Consensus 23 ~~~~i~~~~Iq~v~~~q~~~~r~~g~~~i~i~~~~~~~~~~~i~~~~~~~a~~i~~~i 80 (80)
T PF03703_consen 23 RTTIIPLDRIQSVSIKQNPLQRLFGLGTIKIDTAGGSGEKIEIPFLSIEDAEEIYDWI 80 (80)
T ss_pred EEEEEEhhHeEEEEEEcCHHHHhCccEEEEEEECCCCCceeEEecCCHHHHHHHHhhC
Confidence 34789999999999987 233556678888888765545788889999999999986
No 82
>KOG2051 consensus Nonsense-mediated mRNA decay 2 protein [RNA processing and modification]
Probab=22.97 E-value=1.2e+02 Score=39.23 Aligned_cols=42 Identities=29% Similarity=0.379 Sum_probs=21.4
Q ss_pred EEEEeecCCcc---eeeEEEEEecCCCCeEEEecccCCChHhHHHH
Q 003374 630 VNLERVGLGQK---NFDMTIVFKDFKKDVLRIDSIPSSSLDSIKEW 672 (825)
Q Consensus 630 V~fERV~~~~k---nFDmvfvfKd~~~~~~~i~~Ip~~~ld~Ik~w 672 (825)
|+|+|..+--+ --||-+-|.|+.. -++-+.++-..++.-.+=
T Consensus 806 ~~fq~Y~~iKk~~~Pld~~~~f~d~~~-~~rp~~k~y~~~ee~~ea 850 (1128)
T KOG2051|consen 806 VAFQRYILIKKSQQPLDMEYEFEDFLE-LVRPEMKNYNTLEEADEA 850 (1128)
T ss_pred HHHHHHhhcccccCCCchhhhHHhhhh-hccccceecccHHHHHHH
Confidence 34555544333 4577777777532 344445554444444333
No 83
>PF04006 Mpp10: Mpp10 protein; InterPro: IPR007151 This family includes proteins related to Mpp10 (M phase phosphoprotein 10). The U3 small nucleolar ribonucleoprotein (snoRNP) is required for three cleavage events that generate the mature 18S rRNA from the pre-rRNA. In Saccharomyces cerevisiae, depletion of Mpp10, a U3 snoRNP-specific protein, halts 18S rRNA production and impairs cleavage at the three U3 snoRNP-dependent sites [].
Probab=22.83 E-value=99 Score=37.68 Aligned_cols=15 Identities=13% Similarity=0.424 Sum_probs=11.4
Q ss_pred ChHHHHHHHHHHhhc
Q 003374 774 TWAELEREATNADRE 788 (825)
Q Consensus 774 dWdeLE~~A~~~D~~ 788 (825)
+.|+|++.....+++
T Consensus 190 sidEfnk~~e~~E~~ 204 (600)
T PF04006_consen 190 SIDEFNKQLEEEERQ 204 (600)
T ss_pred CHHHHHHHHHHHHHH
Confidence 689999888766554
No 84
>PF04050 Upf2: Up-frameshift suppressor 2 ; InterPro: IPR007193 This entry represents Up-frameshift suppressor 2 (also known as Nonsense-mediated mRNA decay protein 2). Transcripts harbouring premature signals for translation termination are recognised and rapidly degraded by eukaryotic cells through a pathway known as nonsense-mediated mRNA decay. In Saccharomyces cerevisiae, three trans-acting factors (Upf1 to Upf3) are required for nonsense-mediated mRNA decay [].; PDB: 2WJV_D.
Probab=22.11 E-value=30 Score=35.28 Aligned_cols=6 Identities=50% Similarity=0.922 Sum_probs=2.6
Q ss_pred HHHHHH
Q 003374 776 AELERE 781 (825)
Q Consensus 776 deLE~~ 781 (825)
++++++
T Consensus 63 ~dFere 68 (170)
T PF04050_consen 63 EDFERE 68 (170)
T ss_dssp HHHHHH
T ss_pred HHHHHH
Confidence 344443
No 85
>PF06213 CobT: Cobalamin biosynthesis protein CobT; InterPro: IPR006538 These proteins are CobT subunits of the aerobic cobalt chelatase (aerobic cobalamin biosynthesis pathway). Pseudomonas denitrificans CobT has been experimentally characterised [, ]. Aerobic cobalt chelatase consists of three subunits, CobT, CobN (IPR003672 from INTERPRO) and CobS (IPR006537 from INTERPRO). Cobalamin (vitamin B12) can be complexed with metal via the ATP-dependent reactions (aerobic pathway) (e.g., in P. denitrificans) or via ATP-independent reactions (anaerobic pathway) (e.g., in Salmonella typhimurium) [, ]. The corresponding cobalt chelatases are not homologous. However, aerobic cobalt chelatase subunits CobN and CobS are homologous to Mg-chelatase subunits BchH and BchI, respectively []. CobT, too, has been found to be remotely related to the third subunit of Mg-chelatase, BchD (involved in bacteriochlorophyll synthesis, e.g., in Rhodobacter capsulatus) []. Nomenclature note: CobT of the aerobic pathway P. denitrificans is not a homologue of CobT of the anaerobic pathway (Salmonella typhimurium, Escherichia coli). Therefore, annotation of any members of this family as nicotinate-mononucleotide--5,6-dimethylbenzimidazole phosphoribosyltransferases is erroneous.
Probab=21.55 E-value=1.1e+02 Score=33.59 Aligned_cols=9 Identities=11% Similarity=0.412 Sum_probs=3.7
Q ss_pred HHHhhhhcC
Q 003374 691 QILKTITDD 699 (825)
Q Consensus 691 ~imktI~~D 699 (825)
.++..+..+
T Consensus 197 ~~~~~ll~~ 205 (282)
T PF06213_consen 197 RAARDLLED 205 (282)
T ss_pred HHHHHHHHH
Confidence 344444444
No 86
>PF03985 Paf1: Paf1 ; InterPro: IPR007133 Members of this family are components of the RNA polymerase II associated Paf1 complex. The Paf1 complex functions during the elongation phase of transcription in conjunction with Spt4-Spt5 and Spt16-Pob3i [, ].
Probab=21.53 E-value=90 Score=36.44 Aligned_cols=9 Identities=0% Similarity=-0.237 Sum_probs=4.3
Q ss_pred HHHhhhhcC
Q 003374 691 QILKTITDD 699 (825)
Q Consensus 691 ~imktI~~D 699 (825)
..|..++..
T Consensus 356 ~~~~~~r~~ 364 (436)
T PF03985_consen 356 AERDKRRAQ 364 (436)
T ss_pred HHHHHHHhh
Confidence 445555443
No 87
>PTZ00415 transmission-blocking target antigen s230; Provisional
Probab=20.58 E-value=77 Score=42.78 Aligned_cols=11 Identities=27% Similarity=0.383 Sum_probs=8.2
Q ss_pred CcceeeEEEEE
Q 003374 638 GQKNFDMTIVF 648 (825)
Q Consensus 638 ~~knFDmvfvf 648 (825)
..++-||+++-
T Consensus 123 ~~~~~d~~i~~ 133 (2849)
T PTZ00415 123 EIGDLDMIIIK 133 (2849)
T ss_pred hcCCcceEEee
Confidence 44788999883
No 88
>PF05470 eIF-3c_N: Eukaryotic translation initiation factor 3 subunit 8 N-terminus; InterPro: IPR008905 The largest of the mammalian translation initiation factors, eIF3, consists of at least eight subunits ranging in mass from 35 to 170 kDa. eIF3 binds to the 40 S ribosome in an early step of translation initiation and promotes the binding of methionyl-tRNAi and mRNA [].; GO: 0003743 translation initiation factor activity, 0006413 translational initiation, 0005852 eukaryotic translation initiation factor 3 complex
Probab=20.57 E-value=74 Score=38.85 Aligned_cols=38 Identities=13% Similarity=0.407 Sum_probs=29.8
Q ss_pred EEecccCCChHhHHHHhhhcCeEEEecccccChHHHHhhhhcCcccc
Q 003374 657 RIDSIPSSSLDSIKEWLDTTDIKYYESRLNLNWRQILKTITDDPQSF 703 (825)
Q Consensus 657 ~i~~Ip~~~ld~Ik~wL~s~~I~~~Eg~~nlnW~~imktI~~Dp~~F 703 (825)
..+......|..+++=|...+= .+...|+.-++||+.|
T Consensus 101 kms~~nakaln~lkQklkK~~k---------~~e~~i~~yrenPe~~ 138 (595)
T PF05470_consen 101 KMSKNNAKALNTLKQKLKKYNK---------EYEAQIAKYRENPEAF 138 (595)
T ss_pred hcCHHhHHHHHHHHHHHHhhhh---------hHHHHHHHHHhCCccc
Confidence 4456666788999998887743 5678899999999988
No 89
>KOG1991 consensus Nuclear transport receptor RANBP7/RANBP8 (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=20.25 E-value=48 Score=42.13 Aligned_cols=21 Identities=24% Similarity=0.264 Sum_probs=16.0
Q ss_pred EEEeecCCcceeeEEEEEecC
Q 003374 631 NLERVGLGQKNFDMTIVFKDF 651 (825)
Q Consensus 631 ~fERV~~~~knFDmvfvfKd~ 651 (825)
.+||.|+....|.+.|-++.+
T Consensus 809 iLe~~~~~~~ff~~wf~~~~~ 829 (1010)
T KOG1991|consen 809 ILENQGFLNNFFTLWFQFINQ 829 (1010)
T ss_pred HHHHcCCcccHHHHHHHHHHH
Confidence 467888888888888877653
No 90
>KOG1991 consensus Nuclear transport receptor RANBP7/RANBP8 (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=20.08 E-value=46 Score=42.35 Aligned_cols=12 Identities=33% Similarity=0.501 Sum_probs=8.2
Q ss_pred hhcCCcccceee
Q 003374 75 WLLGYEFPETVM 86 (825)
Q Consensus 75 WLlGYEFpdTli 86 (825)
-+.=|++|.+++
T Consensus 208 s~~~~~LP~~L~ 219 (1010)
T KOG1991|consen 208 SLIYYELPLELS 219 (1010)
T ss_pred HHHHHhCCHHhh
Confidence 345579998854
Done!