Query 043289
Match_columns 695
No_of_seqs 208 out of 844
Neff 3.7
Searched_HMMs 46136
Date Fri Mar 29 03:25:39 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043289.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/043289hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2184 Tuftelin-interacting p 99.9 6.6E-26 1.4E-30 255.8 -3.9 598 34-671 48-679 (767)
2 cd02646 R3H_G-patch R3H domain 99.7 2.2E-17 4.7E-22 134.5 5.9 58 434-491 1-58 (58)
3 KOG2184 Tuftelin-interacting p 99.7 7.9E-17 1.7E-21 183.0 7.3 135 529-664 7-165 (767)
4 cd02640 R3H_NRF R3H domain of 99.3 1.8E-12 3.8E-17 107.4 5.5 58 434-491 1-60 (60)
5 PF01585 G-patch: G-patch doma 99.3 1.6E-12 3.6E-17 101.6 4.8 45 614-658 1-45 (45)
6 cd06007 R3H_DEXH_helicase R3H 99.3 2.9E-12 6.4E-17 105.9 5.6 56 436-491 3-59 (59)
7 cd02641 R3H_Smubp-2_like R3H d 99.3 7.7E-12 1.7E-16 103.3 5.9 57 435-491 2-60 (60)
8 PF01424 R3H: R3H domain; Int 99.2 1.6E-11 3.4E-16 100.2 5.3 59 434-492 5-63 (63)
9 smart00443 G_patch glycine ric 99.1 5.4E-11 1.2E-15 92.9 4.7 45 613-657 2-46 (47)
10 cd02325 R3H R3H domain. The na 99.0 2.7E-10 5.8E-15 88.6 5.4 58 434-491 1-59 (59)
11 cd02642 R3H_encore_like R3H do 99.0 6E-10 1.3E-14 92.4 6.5 58 434-492 5-63 (63)
12 smart00393 R3H Putative single 98.9 1.3E-09 2.9E-14 93.2 6.1 59 434-492 21-79 (79)
13 KOG2185 Predicted RNA-processi 98.9 5E-10 1.1E-14 120.8 2.1 53 604-656 286-338 (486)
14 cd06006 R3H_unknown_2 R3H doma 98.9 2.7E-09 5.9E-14 88.5 5.7 57 435-491 2-59 (59)
15 PF12457 TIP_N: Tuftelin inter 98.9 1.5E-09 3.3E-14 99.3 3.9 69 515-583 6-86 (109)
16 KOG2809 Telomerase elongation 98.8 2.6E-09 5.6E-14 113.2 4.9 85 608-692 19-137 (326)
17 cd02643 R3H_NF-X1 R3H domain o 98.5 7.5E-08 1.6E-12 82.6 4.6 56 435-490 12-73 (74)
18 PF12656 G-patch_2: DExH-box s 98.5 8.4E-08 1.8E-12 83.3 3.3 50 611-660 26-75 (77)
19 KOG0965 Predicted RNA-binding 98.3 3.7E-07 8E-12 104.5 3.5 56 607-662 898-954 (988)
20 cd02644 R3H_jag R3H domain fou 98.3 1.2E-06 2.6E-11 74.2 5.6 58 434-491 8-66 (67)
21 cd02636 R3H_sperm-antigen R3H 98.3 1.3E-06 2.8E-11 73.3 5.1 56 436-491 3-60 (61)
22 cd02639 R3H_RRM R3H domain of 98.2 5E-07 1.1E-11 75.4 0.5 54 438-491 5-60 (60)
23 KOG3673 FtsJ-like RNA methyltr 97.9 5.5E-06 1.2E-10 93.0 2.7 48 614-661 82-129 (845)
24 cd02645 R3H_AAA R3H domain of 97.8 4.8E-05 1E-09 63.6 5.8 57 434-490 3-59 (60)
25 KOG1996 mRNA splicing factor [ 97.8 2.9E-05 6.2E-10 82.2 5.1 54 607-660 204-258 (378)
26 KOG2384 Major histocompatibili 97.7 1.9E-05 4E-10 79.7 2.4 54 607-660 120-173 (223)
27 KOG0154 RNA-binding protein RB 97.2 0.00017 3.7E-09 81.6 2.5 50 609-658 506-555 (573)
28 cd02638 R3H_unknown_1 R3H doma 97.1 0.00058 1.3E-08 57.9 4.5 56 435-490 2-60 (62)
29 KOG4315 G-patch nucleic acid b 96.9 0.0006 1.3E-08 75.1 3.6 54 607-661 145-199 (455)
30 KOG1994 Predicted RNA binding 96.6 0.00098 2.1E-08 68.8 1.7 51 612-662 78-131 (268)
31 KOG4368 Predicted RNA binding 95.7 0.019 4.2E-07 65.7 6.6 47 612-659 684-734 (757)
32 KOG2138 Predicted RNA binding 94.8 0.03 6.4E-07 65.4 4.5 81 615-695 148-265 (883)
33 COG1847 Jag Predicted RNA-bind 93.8 0.12 2.6E-06 53.1 6.0 57 435-491 150-207 (208)
34 PF04931 DNA_pol_phi: DNA poly 93.4 0.067 1.5E-06 63.3 4.0 19 284-302 700-718 (784)
35 KOG1952 Transcription factor N 91.3 0.42 9.1E-06 57.3 6.8 52 448-499 843-894 (950)
36 KOG1994 Predicted RNA binding 85.0 0.38 8.2E-06 50.3 1.0 47 615-661 38-84 (268)
37 cd02637 R3H_PARN R3H domain of 74.1 7.9 0.00017 33.3 5.3 59 434-492 1-63 (65)
38 KOG1832 HIV-1 Vpr-binding prot 69.8 2.6 5.6E-05 51.4 1.9 13 243-255 1403-1415(1516)
39 PF10446 DUF2457: Protein of u 54.6 8.3 0.00018 43.9 2.4 11 616-626 426-436 (458)
40 KOG1832 HIV-1 Vpr-binding prot 51.8 16 0.00034 45.2 4.1 12 248-259 1404-1415(1516)
41 KOG1189 Global transcriptional 48.3 13 0.00028 45.1 2.6 16 120-135 811-826 (960)
42 COG5406 Nucleosome binding fac 47.6 7.3 0.00016 46.3 0.6 11 187-197 801-811 (1001)
43 KOG2236 Uncharacterized conser 37.0 38 0.00081 39.1 4.0 25 190-215 81-105 (483)
44 KOG3130 Uncharacterized conser 35.8 22 0.00047 40.5 1.9 11 225-235 253-263 (514)
45 KOG1189 Global transcriptional 34.9 22 0.00048 43.2 1.9 13 90-102 627-639 (960)
46 PF05750 Rubella_Capsid: Rubel 25.4 71 0.0015 33.3 3.4 44 2-52 29-78 (300)
47 KOG1991 Nuclear transport rece 24.9 57 0.0012 40.7 3.0 14 287-300 912-925 (1010)
48 PF04147 Nop14: Nop14-like fam 23.8 38 0.00083 41.4 1.3 19 406-424 458-476 (840)
49 PF07218 RAP1: Rhoptry-associa 22.8 2.2E+02 0.0047 34.2 6.9 63 23-86 95-158 (782)
50 PF02724 CDC45: CDC45-like pro 22.0 55 0.0012 38.8 2.1 68 425-513 340-415 (622)
51 COG5406 Nucleosome binding fac 21.8 65 0.0014 38.8 2.6 6 247-252 927-932 (1001)
52 PF06524 NOA36: NOA36 protein; 20.9 75 0.0016 34.6 2.6 10 28-37 16-25 (314)
53 PF06991 Prp19_bind: Splicing 20.5 57 0.0012 35.2 1.7 16 485-500 175-190 (276)
No 1
>KOG2184 consensus Tuftelin-interacting protein TIP39, contains G-patch domain [RNA processing and modification]
Probab=99.90 E-value=6.6e-26 Score=255.84 Aligned_cols=598 Identities=18% Similarity=0.067 Sum_probs=415.4
Q ss_pred cccceEEeccccccCCcCCccccccccccccCCCCCCCCCCCCCcccccccCCCCCCCcccccccCCccchhhc--cCCC
Q 043289 34 LRNSLFVEGGLLSDWQQQQPQQLNSCSKARKSNLNSNSGNLNPSKVLASKSGSKKSNGNAFGYQYPSVDLKELC--FGGN 111 (695)
Q Consensus 34 ~~~~~fv~gg~l~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~g~~k~~~~~~~~~y~~~~~~~~~--~~~~ 111 (695)
+++..||+||++.|...+ +..+|.+.|-.++..+++-+.-++.++.|.+||+++.|+++.|. ...... +|..
T Consensus 48 ~~pvnFvs~gidk~~~~~--d~~~p~~~~~~~~d~~~~~~~~~~~~~~~q~~~~~~~~~~~~~~----~~e~~t~gig~K 121 (767)
T KOG2184|consen 48 TKPVNFVSGGIDKDSRAN--DEGLPQAGGDKPGDALSSRSKERGNAKRSQSGPRKGSGSTNVFG----DFEKGTKGIGAK 121 (767)
T ss_pred CCCceeeccccccccccc--cccCCcccCCcccccccccccccccccccccCCCCCccchhhhh----hhhhcccchhHH
Confidence 899999999999999888 78888889999999999988889999999999999999999998 443333 2210
Q ss_pred CCCCCCCCCCceeeccCcccceeeecccCC-CCCCCccccccccCCcccccCCCcccccccCCCCCCCCCCCCccccccc
Q 043289 112 DGDINLDESQPINLLGSKDSRIVAYVDQTP-DLKPQNLIYSCDYDSSFVLGDSSHRGLGFCDDSEATPSGIDSSSKHREQ 190 (695)
Q Consensus 112 ~~d~~~~~~~p~~~~~s~~~q~~~~~d~~~-~~~~~~~~~~y~y~~~~~~g~~~~~glgf~~~~~~~~~~~~~~~~~~~~ 190 (695)
--+ .|. =-|-+.+...+++||+.|++++ +.+..-.-|.|.|.++ +|-+|++|+++|+|++...+..+..+.
T Consensus 122 ll~-kMG-YkpG~GLGkn~qGIv~Pieaq~Rp~rgg~Gay~~e~~~s------s~~~~~~~~~~e~~~~~s~se~~~~~~ 193 (767)
T KOG2184|consen 122 LLE-KMG-YKPGKGLGKNAQGIVAPIEAQLRPGRGGLGAYGFETEAS------SHKDLEKVDSSEDTVSVSVSEDKEKHG 193 (767)
T ss_pred HHH-HcC-CccccccCccccccccHHhcccCccCccccccccccccc------cccchhhhhccccccccccchhhhhcc
Confidence 000 111 2467788899999999999999 4454334888888886 799999999999999998877766555
Q ss_pred CCCCCCCCCcchhccccCCCCChHHHhhhcCCcccccccCcceeEecceEEEeecCCCCCCccccccccccc---cccc-
Q 043289 191 QDASDSDSLSFKEEVDTDGNNNQEEVAEELPDETLSKKKNSGFLSIGGMKLYTQDLSDEGSDDQSASESLHD---ETSE- 266 (695)
Q Consensus 191 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~n~gflsigg~k~~t~d~s~~esd~~~~~~~~~e---~~~~- 266 (695)
+...+ ++.-..+-+.+...+..|.|+..++ ...+.+++|++|+++++|+.++|..|++.+.+.-+++. .-+.
T Consensus 194 ~~~~~-~~~~kk~~~k~~y~t~eEl~~~g~~---~~~~~~~~~~vid~~g~~~~vvs~~~~~~~~~~~~~d~v~~~pel~ 269 (767)
T KOG2184|consen 194 SKGRK-GSEKKKKGVKTSYRTVEELMAKGLK---QESKFLSGVKVIDMTGPEKRVVSGYESLLEEEKASDDGVPQRPELQ 269 (767)
T ss_pred ccccc-ChhhccCccchhhccHHHHHhcccc---chhhhccCceeeccCCcceeeehhhhcchhhhcCCccccccccchh
Confidence 55555 4444555666666677777777654 35789999999999999999999999976655222221 1111
Q ss_pred -----cCCCCCCCCCCCCCCcccChHHHHHHHhhcCCccccccchhhhcccCCC---CCCCCCCCCCC-cchhhhhhhhh
Q 043289 267 -----SYSEGDGSEDLSDSDSVIDEEVAEDYVEGIGGSDNVLDAKWLVEQDFDG---SDDDSSSSSGF-DGTVEKLSGIA 337 (695)
Q Consensus 267 -----~~s~s~~~~~~s~~ds~iDde~~~dyl~g~Gg~e~~L~~kwl~~~~~~~---s~~~~~~~~~~-d~~~~~l~g~~ 337 (695)
..+..+...+.++.+.-++.+++.+|..++++.++.|++.|+..+.+.. +-++.|.+... ..++..| ++-
T Consensus 270 hnl~~~v~~~E~~i~~~~~~lr~e~~~~~~le~~~e~~~~~~~~~~~~~~~l~~~~e~v~~~e~~~~~~~~tld~~-~~~ 348 (767)
T KOG2184|consen 270 HNLQLLVSLQESQIRRSDRQLRIERDQALNLEKEIEKLEEELDLEKTHEQSLRKVEESVDEAELDVSSKRLTLDEL-AIL 348 (767)
T ss_pred hhhHHHhhhhHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhhhhhhccCCccccHHHH-HHH
Confidence 7788888889999999999999999999999999999999988876655 33333333222 2466555 788
Q ss_pred hhhhhhhhcCCCCCCcccccCCCCCCcccccccccccc-Cccch---hhccccccCCCCCchhh---HHhhhhccCCcch
Q 043289 338 IQEASREYGMKKPLPLSRKKYSTGDSCSFALDDLMFVK-DPRVF---SAKKKHVAQLPQSWPRE---AQKSKKSRNLPGA 410 (695)
Q Consensus 338 ~~~as~~yg~k~~~s~~~~k~~~~~~~~~~LDdl~l~~-D~r~~---~~~kK~~s~l~~sw~~~---~~ksk~~~~~prE 410 (695)
|.+...+|+++...- +.-..+++...|+..+.|++.+ +.... -...|.+..|+++|+.. ..+.+......+.
T Consensus 349 fe~L~~eY~~~~~~~-~l~~~a~~i~~pL~~~~~~~Wdpl~d~~~g~e~i~~wk~lL~~~~~~~~~~~~~~~~~li~e~~ 427 (767)
T KOG2184|consen 349 FELLRMEYPEEYTLK-SLSSIAVSIVLPLLKRYLKFWDPLEDPYSGLESISKWKALLEQSDDLRKRDEIDPYSSLIWEGV 427 (767)
T ss_pred HHHhhhhcccccccc-ccccchhhhhhHHHHHHhhccCcccCccchhHHHHHHHhhhhhhccchhhccccccceeeeeee
Confidence 999999999665543 3334444444577778888776 33332 24556778899999998 6667777777889
Q ss_pred hhhhHHHHHHHHHHhhhccCCCChHHHHHHHHHHHhcCCceeeeCCCCccchHHHHHHHHHhCCcccccCCCcceEEEEE
Q 043289 411 KKKHRKEMIAVKRRERMLRRGVDLEDINSTLEQIVLEEVDMFSFQPMHHRDCSQVRRLAAIYRLRSDSQGSGKKRFVTVT 490 (695)
Q Consensus 411 KKK~RK~ere~kRaqgmL~rG~dLedI~~EIe~FL~d~~dsLsFPPMDk~~RK~VH~LA~~YnLKSkS~GkGkkRfpvL~ 490 (695)
=+++||+.++..+.+.+++.+..|+.++-.|..||++.+..-++-||.+.+|.+...|+..+-+.| +-+..-+++..
T Consensus 428 ~p~vr~~~l~~w~~~d~~~m~~lle~W~~~lp~~VldnIl~~~v~pkl~~~v~~W~p~~d~~~i~s---wi~pwl~il~~ 504 (767)
T KOG2184|consen 428 MPKVRKAELATWEPRDMLPMLSLLEAWVPLLPSWVLDNILDQLVLPKLSAAVSQWDPLTDTVPIHS---WIHPWLPILGQ 504 (767)
T ss_pred cHHHHHHHHhccCccchhHHHhHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhccchhhcccccce---eeecchHHHhh
Confidence 999999999999999999999999999999999999998877888899999999999999999999 55555555555
Q ss_pred ecCCCCCCCchhHHHHHHHHhcCCCcccccc-ccCCCccccCcc-ccCCcCCccccccCCC-CcccccCCCCCCccCCCC
Q 043289 491 RTQHTCMPSSADRLRLEKLIGAGNEDIDFAI-TEGPYTKSANAD-RKSSKSSKSVTVHGNS-GKASKKKGSGKKVAYANQ 567 (695)
Q Consensus 491 KTkrT~~ps~~~~~rIekLL~~~~~~e~F~V-td~dl~~e~np~-RrR~kqsKe~a~y~d~-~d~erkk~ggkkg~~~sa 567 (695)
|+-. ++|..-.+..|...+-.....-.|.+ ..| +..|.+. .++. .++.++.-- ..-++.....+...+..-
T Consensus 505 r~~~-l~~~i~~Kls~~l~~W~p~d~sa~~~l~pW--K~~f~~~~~~~~---~~~~ivpkl~~~l~e~~inp~~q~l~~~ 578 (767)
T KOG2184|consen 505 RLES-LYPSIRSKLSIALDAWHPSDRSAIAILSPW--KTVFDAASWKEF---MRRYIVPKLQLALDELQINPMNQDLERF 578 (767)
T ss_pred hHHH-hhhHHHHHHHHHhhcCCCcccCchhhhccc--hhccchhhHHHH---HhhcccccHHHHhhhhccCccccchhhh
Confidence 6555 55532222222222211111111221 111 1111110 0000 111111000 000011222233455667
Q ss_pred CccccccCcccccccccccccccccccccc--c------CCCccccccCCccccCCcHHHHHHHhcCCCCCCCCCCCCCC
Q 043289 568 PMSFVSSGILQSDSVEIRTVDAVDINETCE--S------KGTVSSTQIGAFEVHTKGFGSKMMAKMGYVEGGGLGKDGQG 639 (695)
Q Consensus 568 PVsFVsgGv~~ge~~e~~~~deed~~e~~~--~------~g~~~~~~~Ga~E~~t~giG~kMLeKMGW~~GkGLGk~~qG 639 (695)
++.|+..|.++........ +... + .... ..+. ..|+++-..|-|+|-.|+...+-+++.+..+
T Consensus 579 ~~v~~w~~~i~~~~~~~l~-------~~hffpkwl~~l~~WL~-n~p~-~~Ei~~wy~gwK~~~~~~ll~~~~v~~~~k~ 649 (767)
T KOG2184|consen 579 TWVMEWKGLIDPHLMAQLL-------ERHFFPKWLNVLYHWLS-NSPD-YDEISRWYTGWKSMFPQELLANPYVKDKFKR 649 (767)
T ss_pred hhhhhhhcccCHHHHHHHH-------HHhhhHHHHHHHHHHhc-CCCc-hHHHHHHHHhHHHhccHhhhcCchhhhhhhh
Confidence 7888888877765321100 0000 0 0000 1112 6689999999999999999999999999999
Q ss_pred cccceEEeeecCCccceeccCCCCCchhhhcc
Q 043289 640 MSKPIEAIQRPKKLGLGVEFSNTDDDSARKES 671 (695)
Q Consensus 640 I~ePIea~vk~~r~GLGa~~~~~~~d~~~~~e 671 (695)
+..++...+.+ .+|+......+.++.++.+
T Consensus 650 ~ld~~~r~~~~--~~l~~p~a~d~~~~~~~~~ 679 (767)
T KOG2184|consen 650 GLDMMNRAVER--LELGQPFAIDNIQPSPQSP 679 (767)
T ss_pred hHHHHHHhhcc--cccCCCccccccCCCCCCC
Confidence 99999999888 5555555544445555443
No 2
>cd02646 R3H_G-patch R3H domain of a group of fungal and plant proteins with unknown function, who also contain a G-patch domain. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the R3H domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.
Probab=99.69 E-value=2.2e-17 Score=134.50 Aligned_cols=58 Identities=45% Similarity=0.773 Sum_probs=56.7
Q ss_pred hHHHHHHHHHHHhcCCceeeeCCCCccchHHHHHHHHHhCCcccccCCCcceEEEEEe
Q 043289 434 LEDINSTLEQIVLEEVDMFSFQPMHHRDCSQVRRLAAIYRLRSDSQGSGKKRFVTVTR 491 (695)
Q Consensus 434 LedI~~EIe~FL~d~~dsLsFPPMDk~~RK~VH~LA~~YnLKSkS~GkGkkRfpvL~K 491 (695)
|++|+++|+.||.+..++++||||+++.|++||+||++|+|+|.|+|+|.+||++|+|
T Consensus 1 ~~~i~~~i~~F~~~~~~~~~fppm~~~~R~~vH~lA~~~~L~S~S~G~g~~R~v~v~k 58 (58)
T cd02646 1 IEDIKDEIEAFLLDSRDSLSFPPMDKHGRKTIHKLANCYNLKSKSRGKGKKRFVTVTK 58 (58)
T ss_pred ChHHHHHHHHHHhCCCceEecCCCCHHHHHHHHHHHHHcCCcccccccCCceEEEEEC
Confidence 6899999999999999999999999999999999999999999999999999999987
No 3
>KOG2184 consensus Tuftelin-interacting protein TIP39, contains G-patch domain [RNA processing and modification]
Probab=99.66 E-value=7.9e-17 Score=183.00 Aligned_cols=135 Identities=31% Similarity=0.520 Sum_probs=91.3
Q ss_pred ccCccccCCcCCccccccC----CCCcccccCC-CCCCccCCCCCccccccCcccccccccc---cccccccccc-----
Q 043289 529 SANADRKSSKSSKSVTVHG----NSGKASKKKG-SGKKVAYANQPMSFVSSGILQSDSVEIR---TVDAVDINET----- 595 (695)
Q Consensus 529 e~np~RrR~kqsKe~a~y~----d~~d~erkk~-ggkkg~~~saPVsFVsgGv~~ge~~e~~---~~deed~~e~----- 595 (695)
..+|+++|++|+|++++|+ .+++....++ ++++.+ .+.||+||++|+-.......+ ..+...-.+.
T Consensus 7 ~~~~~~~rr~Q~k~~atyG~~~~~D~ds~~~~~~g~~rkr-R~~pvnFvs~gidk~~~~~d~~~p~~~~~~~~d~~~~~~ 85 (767)
T KOG2184|consen 7 DLQPNGERRRQTKEQATYGIFWESDSDSDDGGGSGGRRKR-RTKPVNFVSGGIDKDSRANDEGLPQAGGDKPGDALSSRS 85 (767)
T ss_pred hcCCCccccccccccccccccccccccccccCCCcccccc-cCCCceeeccccccccccccccCCcccCCcccccccccc
Confidence 3468899999999999997 1222222222 233322 389999999995433221100 0000000000
Q ss_pred -----------cccCCCccccccCCccccCCcHHHHHHHhcCCCCCCCCCCCCCCcccceEEeeecCCccceeccCCCCC
Q 043289 596 -----------CESKGTVSSTQIGAFEVHTKGFGSKMMAKMGYVEGGGLGKDGQGMSKPIEAIQRPKKLGLGVEFSNTDD 664 (695)
Q Consensus 596 -----------~~~~g~~~~~~~Ga~E~~t~giG~kMLeKMGW~~GkGLGk~~qGI~ePIea~vk~~r~GLGa~~~~~~~ 664 (695)
....++.....+|+||.+|.|||++||++|||++|+|||++.|||++||++++|+.+.|+|++..+.+.
T Consensus 86 ~~~~~~~~~q~~~~~~~~~~~~~~~~e~~t~gig~Kll~kMGYkpG~GLGkn~qGIv~Pieaq~Rp~rgg~Gay~~e~~~ 165 (767)
T KOG2184|consen 86 KERGNAKRSQSGPRKGSGSTNVFGDFEKGTKGIGAKLLEKMGYKPGKGLGKNAQGIVAPIEAQLRPGRGGLGAYGFETEA 165 (767)
T ss_pred cccccccccccCCCCCccchhhhhhhhhcccchhHHHHHHcCCccccccCccccccccHHhcccCccCcccccccccccc
Confidence 001112223446789999999999999999999999999999999999999999999999999877544
No 4
>cd02640 R3H_NRF R3H domain of the NF-kappaB-repression factor (NRF). NRF is a nuclear inhibitor of NF-kappaB proteins that can silence the IFNbeta promoter via binding to a negative regulatory element (NRE). Beside R3H NRF also contains a G-patch domain. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.
Probab=99.32 E-value=1.8e-12 Score=107.43 Aligned_cols=58 Identities=21% Similarity=0.492 Sum_probs=55.3
Q ss_pred hHHHHHHHHHHHhcC-CceeeeCC-CCccchHHHHHHHHHhCCcccccCCCcceEEEEEe
Q 043289 434 LEDINSTLEQIVLEE-VDMFSFQP-MHHRDCSQVRRLAAIYRLRSDSQGSGKKRFVTVTR 491 (695)
Q Consensus 434 LedI~~EIe~FL~d~-~dsLsFPP-MDk~~RK~VH~LA~~YnLKSkS~GkGkkRfpvL~K 491 (695)
+.+|.+.|+.|+.+. .+.|.||| |+++.|+.||.||..++|+|.|.|.|..||++|+|
T Consensus 1 ~~~~~~~i~~F~~s~~~~~l~f~p~lt~~eR~~vH~~a~~~gL~s~S~G~g~~R~v~v~k 60 (60)
T cd02640 1 KNDYRQIIQNYAHSDDIRDMVFSPEFSKEERALIHQIAQKYGLKSRSYGSGNDRYLVISK 60 (60)
T ss_pred ChhHHHHHHHHHcCCccceEEcCCCCCHHHHHHHHHHHHHcCCceeeEeCCCCeEEEEeC
Confidence 358899999999998 89999999 99999999999999999999999999999999986
No 5
>PF01585 G-patch: G-patch domain; InterPro: IPR000467 The D111/G-patch domain [] is a short conserved region of about 40 amino acids which occurs in a number of putative RNA-binding proteins, including tumor suppressor and DNA-damage-repair proteins, suggesting that this domain may have an RNA binding function. This domain has seven highly conserved glycines. A multiple alignment of a small subset of D111/G-patch domains is shown in Fig. 2b of [].; GO: 0003676 nucleic acid binding, 0005622 intracellular
Probab=99.32 E-value=1.6e-12 Score=101.61 Aligned_cols=45 Identities=49% Similarity=0.899 Sum_probs=43.2
Q ss_pred CCcHHHHHHHhcCCCCCCCCCCCCCCcccceEEeeecCCccceec
Q 043289 614 TKGFGSKMMAKMGYVEGGGLGKDGQGMSKPIEAIQRPKKLGLGVE 658 (695)
Q Consensus 614 t~giG~kMLeKMGW~~GkGLGk~~qGI~ePIea~vk~~r~GLGa~ 658 (695)
|++||.+||++|||++|+|||++.+||++||+++.+..+.|||++
T Consensus 1 t~~~g~~lm~kmGw~~G~GLGk~~~G~~~pi~~~~~~~~~GlG~~ 45 (45)
T PF01585_consen 1 TSSIGFKLMKKMGWKPGQGLGKNGQGIAEPIEVKKKKDRKGLGAE 45 (45)
T ss_pred CCcHHHHHHHHCCCCCCcCCCcCCccCCcceEEeeEcCCccccCC
Confidence 578999999999999999999999999999999999999999984
No 6
>cd06007 R3H_DEXH_helicase R3H domain of a group of proteins which also contain a DEXH-box helicase domain, and may function as ATP-dependent DNA or RNA helicases. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.
Probab=99.30 E-value=2.9e-12 Score=105.86 Aligned_cols=56 Identities=25% Similarity=0.467 Sum_probs=54.2
Q ss_pred HHHHHHHHHHhcCCceeeeCC-CCccchHHHHHHHHHhCCcccccCCCcceEEEEEe
Q 043289 436 DINSTLEQIVLEEVDMFSFQP-MHHRDCSQVRRLAAIYRLRSDSQGSGKKRFVTVTR 491 (695)
Q Consensus 436 dI~~EIe~FL~d~~dsLsFPP-MDk~~RK~VH~LA~~YnLKSkS~GkGkkRfpvL~K 491 (695)
.|.+.|++|+.+..+.|.||| |++..|+.||.||..++|+|.|.|.|..||++|+|
T Consensus 3 ~i~~~i~~F~~~~~~~l~Fpp~ls~~eR~~vH~~a~~~gL~s~S~G~g~~R~v~v~K 59 (59)
T cd06007 3 AINKALEDFRASDNEEYEFPSSLTNHERAVIHRLCRKLGLKSKSKGKGSNRRLSVYK 59 (59)
T ss_pred cHHHHHHHHHcCcccEEEcCCCCCHHHHHHHHHHHHHcCCCceeecCCCCeEEEEeC
Confidence 588999999999999999999 99999999999999999999999999999999987
No 7
>cd02641 R3H_Smubp-2_like R3H domain of Smubp-2_like proteins. Smubp-2_like proteins also contain a helicase_like and an AN1-like Zinc finger domain and have been shown to bind single-stranded DNA. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA.
Probab=99.26 E-value=7.7e-12 Score=103.32 Aligned_cols=57 Identities=25% Similarity=0.459 Sum_probs=54.4
Q ss_pred HHHHHHHHHHHhcCC-ceeeeCC-CCccchHHHHHHHHHhCCcccccCCCcceEEEEEe
Q 043289 435 EDINSTLEQIVLEEV-DMFSFQP-MHHRDCSQVRRLAAIYRLRSDSQGSGKKRFVTVTR 491 (695)
Q Consensus 435 edI~~EIe~FL~d~~-dsLsFPP-MDk~~RK~VH~LA~~YnLKSkS~GkGkkRfpvL~K 491 (695)
.+|.++|+.|+.+.. ..|.||| |+++.|+.||.||..|+|++.|.|.|..||++|.|
T Consensus 2 ~~~~~~i~~F~~~~~~~~l~F~p~ls~~eR~~vH~lA~~~gL~s~S~G~g~~R~v~v~k 60 (60)
T cd02641 2 KHLKAMVKAFMKDPKATELEFPPTLSSHDRLLVHELAEELGLRHESTGEGSDRVITVSK 60 (60)
T ss_pred hhHHHHHHHHHcCCCcCcEECCCCCCHHHHHHHHHHHHHcCCceEeeCCCCceEEEeeC
Confidence 478999999999986 9999999 99999999999999999999999999999999986
No 8
>PF01424 R3H: R3H domain; InterPro: IPR001374 The R3H motif: a domain that binds single-stranded nucleic acids. The most prominent feature of the R3H motif is the presence of an invariant arginine residue and a highly conserved histidine residue that are separated by three residues. The motif also displays a conserved pattern of hydrophobic residues, prolines and glycines. The R3H motif is present in proteins from a diverse range of organisms that includes Eubacteria, green plants, fungi and various groups of metazoans. Intriguingly, it has not yet been identified in Archaea and Escherichia coli. The sequences that contain the R3H domain, many of which are hypothetical proteins predicted from genome sequencing projects, can be grouped into eight families on the basis of similarities outside the R3H region. Three of the families contain ATPase domains either upstream (families II and VII) or downstream of the R3H domain (family VIII). The N-terminal part of members of family VII contains an SF1 helicase domain5. The C-terminal part of family VIII contains an SF2 DEAH helicase domain5. The ATPase domain in the members of family II is similar to the stage-III sporulation protein AA (S3AA_BACSU), the proteasome ATPase, bacterial transcription-termination factor r and the mitochondrial F1-ATPase b subunit (the F5 helicase family5). Family VI contains Cys-rich repeats6, as well as a ring-type zinc finger upstream of the R3H domain. JAG bacterial proteins (family I) contain a KH domain N-terminal to the R3H domain. The functions of other domains in R3H proteins support the notion that the R3H domain might be involved in interactions with single-stranded nucleic acids [].; GO: 0003676 nucleic acid binding; PDB: 1WHR_A 1MSZ_A 1UG8_A 3GKU_B 2CPM_A.
Probab=99.21 E-value=1.6e-11 Score=100.16 Aligned_cols=59 Identities=34% Similarity=0.543 Sum_probs=53.3
Q ss_pred hHHHHHHHHHHHhcCCceeeeCCCCccchHHHHHHHHHhCCcccccCCCcceEEEEEec
Q 043289 434 LEDINSTLEQIVLEEVDMFSFQPMHHRDCSQVRRLAAIYRLRSDSQGSGKKRFVTVTRT 492 (695)
Q Consensus 434 LedI~~EIe~FL~d~~dsLsFPPMDk~~RK~VH~LA~~YnLKSkS~GkGkkRfpvL~KT 492 (695)
|.++.+++..|++++...++||||++..|++||+||..|+|+|.|.|.|..|+++|+||
T Consensus 5 l~~~~~~~~~~~~~~~~~~~f~pm~~~~R~~iH~~a~~~gL~s~S~g~~~~R~vvv~k~ 63 (63)
T PF01424_consen 5 LEKIEEKLIEFFLSSGESLEFPPMNSFERKLIHELAEYYGLKSKSEGEGPNRRVVVSKT 63 (63)
T ss_dssp HHHHHHHHHHHHHHCSSEEEEEC--SHHHHHHHHHHHHCTEEEEEESSSSSSEEEEEES
T ss_pred HHHHHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHHCCCEEEEecCCCCeEEEEEeC
Confidence 56788888899988777999999999999999999999999999999999999999997
No 9
>smart00443 G_patch glycine rich nucleic binding domain. A predicted glycine rich nucleic binding domain found in the splicing factor 45, SON DNA binding protein and D-type Retrovirus- polyproteins.
Probab=99.13 E-value=5.4e-11 Score=92.95 Aligned_cols=45 Identities=44% Similarity=0.787 Sum_probs=43.1
Q ss_pred cCCcHHHHHHHhcCCCCCCCCCCCCCCcccceEEeeecCCcccee
Q 043289 613 HTKGFGSKMMAKMGYVEGGGLGKDGQGMSKPIEAIQRPKKLGLGV 657 (695)
Q Consensus 613 ~t~giG~kMLeKMGW~~GkGLGk~~qGI~ePIea~vk~~r~GLGa 657 (695)
.+.++|.+||.+|||++|+|||+++|||++||++..+..+.|||+
T Consensus 2 ~~~~~g~~~l~~mGw~~G~GLG~~~~g~~~pi~~~~~~~~~GlG~ 46 (47)
T smart00443 2 STSNIGYKLLRKMGWKEGQGLGKNEQGIVEPISAEIKKDRKGLGA 46 (47)
T ss_pred CcccHHHHHHHHcCCCCCCcCCCCCCcCccceeEeeccCCcCcCC
Confidence 468899999999999999999999999999999999999999997
No 10
>cd02325 R3H R3H domain. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. R3H domains are found in proteins together with ATPase domains, SF1 helicase domains, SF2 DEAH helicase domains, Cys-rich repeats, ring-type zinc fingers, and KH domains. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.
Probab=99.05 E-value=2.7e-10 Score=88.61 Aligned_cols=58 Identities=28% Similarity=0.460 Sum_probs=55.2
Q ss_pred hHHHHHHHHHHHhcC-CceeeeCCCCccchHHHHHHHHHhCCcccccCCCcceEEEEEe
Q 043289 434 LEDINSTLEQIVLEE-VDMFSFQPMHHRDCSQVRRLAAIYRLRSDSQGSGKKRFVTVTR 491 (695)
Q Consensus 434 LedI~~EIe~FL~d~-~dsLsFPPMDk~~RK~VH~LA~~YnLKSkS~GkGkkRfpvL~K 491 (695)
+.++...|..|+.+. .+.+.||||.+..|+.||+||..|+|++.|.|.|..|+++|++
T Consensus 1 ~~~~~~~l~~f~~~~~~~~~~~~p~~~~~R~~vH~la~~~~L~s~s~g~~~~r~v~i~~ 59 (59)
T cd02325 1 REEREEELEAFAKDAAGKSLELPPMNSYERKLIHDLAEYYGLKSESEGEGPNRRVVITK 59 (59)
T ss_pred ChHHHHHHHHHHHhhcCCeEEcCCCCHHHHHHHHHHHHHCCCEEEEecCCCCcEEEEeC
Confidence 467899999999999 9999999999999999999999999999999999999999975
No 11
>cd02642 R3H_encore_like R3H domain of encore-like and DIP1-like proteins. Drosophila encore is involved in the germline exit after four mitotic divisions, by facilitating SCF-ubiquitin-proteasome-dependent proteolysis. Maize DBF1-interactor protein 1 (DIP1) containing an R3H domain is a potential regulator of DBF1 activity in stress responses. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.
Probab=99.01 E-value=6e-10 Score=92.41 Aligned_cols=58 Identities=21% Similarity=0.324 Sum_probs=55.5
Q ss_pred hHHHHHHHHHHHhcC-CceeeeCCCCccchHHHHHHHHHhCCcccccCCCcceEEEEEec
Q 043289 434 LEDINSTLEQIVLEE-VDMFSFQPMHHRDCSQVRRLAAIYRLRSDSQGSGKKRFVTVTRT 492 (695)
Q Consensus 434 LedI~~EIe~FL~d~-~dsLsFPPMDk~~RK~VH~LA~~YnLKSkS~GkGkkRfpvL~KT 492 (695)
+-+|.+.|..||.++ ...+.||||++..|..||+||..|+|.|.+.|.| .|+++|+||
T Consensus 5 ~l~~E~~i~~Fi~~~~~~~~~f~pm~sy~RllvH~la~~~gL~s~s~~~~-~r~vvv~kt 63 (63)
T cd02642 5 VLKLEKDLLAFIKDSTRQSLELPPMNSYYRLLAHRVAQYYGLDHNVDNSG-GKCVIVNKT 63 (63)
T ss_pred HHHHHHHHHHHHhCCCCCeeEcCCCCcHHHHHHHHHHHHhCCeeEeecCC-ceEEEEEeC
Confidence 567889999999998 8999999999999999999999999999999999 999999997
No 12
>smart00393 R3H Putative single-stranded nucleic acids-binding domain.
Probab=98.94 E-value=1.3e-09 Score=93.18 Aligned_cols=59 Identities=27% Similarity=0.433 Sum_probs=56.2
Q ss_pred hHHHHHHHHHHHhcCCceeeeCCCCccchHHHHHHHHHhCCcccccCCCcceEEEEEec
Q 043289 434 LEDINSTLEQIVLEEVDMFSFQPMHHRDCSQVRRLAAIYRLRSDSQGSGKKRFVTVTRT 492 (695)
Q Consensus 434 LedI~~EIe~FL~d~~dsLsFPPMDk~~RK~VH~LA~~YnLKSkS~GkGkkRfpvL~KT 492 (695)
|.++..+|..|+......+.||||.+..|++||.||..|+|+|.|.|.|-.|+++|+++
T Consensus 21 l~~~~~~~~~~v~~~~~~~~~~pm~~~~R~~iH~~a~~~~l~s~S~g~g~~R~vvv~~~ 79 (79)
T smart00393 21 LIELELEIARFVKSTKESVELPPMNSYERKIVHELAEKYGLESESFGEGPKRRVVISKK 79 (79)
T ss_pred HHHHHHHHHHHHhccCCeEEcCCCCHHHHHHHHHHHHHcCCEEEEEcCCCCcEEEEEeC
Confidence 67788899999999999999999999999999999999999999999999999999975
No 13
>KOG2185 consensus Predicted RNA-processing protein, contains G-patch domain [RNA processing and modification]
Probab=98.89 E-value=5e-10 Score=120.75 Aligned_cols=53 Identities=49% Similarity=0.764 Sum_probs=49.5
Q ss_pred ccccCCccccCCcHHHHHHHhcCCCCCCCCCCCCCCcccceEEeeecCCccce
Q 043289 604 STQIGAFEVHTKGFGSKMMAKMGYVEGGGLGKDGQGMSKPIEAIQRPKKLGLG 656 (695)
Q Consensus 604 ~~~~Ga~E~~t~giG~kMLeKMGW~~GkGLGk~~qGI~ePIea~vk~~r~GLG 656 (695)
...||+||.||.|||.|||+||||..|+|||+.++||++||.|+|-|.+.-|-
T Consensus 286 t~~fakWe~hTRGIgsKLM~kMGY~~G~GLG~~g~GiV~pI~a~vlp~grSLD 338 (486)
T KOG2185|consen 286 TALFAKWENHTRGIGSKLMAKMGYREGMGLGVSGQGIVNPILAKVLPAGRSLD 338 (486)
T ss_pred HHHHhhhccccchHHHHHHHHhchhhccccCcCCCccccchhhhhccCCCCHH
Confidence 34599999999999999999999999999999999999999999999887774
No 14
>cd06006 R3H_unknown_2 R3H domain of a group of fungal proteins with unknown function. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.
Probab=98.88 E-value=2.7e-09 Score=88.52 Aligned_cols=57 Identities=32% Similarity=0.432 Sum_probs=53.6
Q ss_pred HHHHHHHHHHHhcC-CceeeeCCCCccchHHHHHHHHHhCCcccccCCCcceEEEEEe
Q 043289 435 EDINSTLEQIVLEE-VDMFSFQPMHHRDCSQVRRLAAIYRLRSDSQGSGKKRFVTVTR 491 (695)
Q Consensus 435 edI~~EIe~FL~d~-~dsLsFPPMDk~~RK~VH~LA~~YnLKSkS~GkGkkRfpvL~K 491 (695)
+.|...|+.|+.+. ..++.||||.+..|+.||.||..|+|.|.|.|.+-+|+++|+|
T Consensus 2 ~~~E~~l~~fv~d~~~~~~~f~pM~~~~R~~vHdla~~~gl~SeS~d~Ep~R~V~v~k 59 (59)
T cd06006 2 QQIESTLRKFINDKSKRSLRFPPMRSPQRAFIHELAKDYGLYSESQDPEPKRSVFVKK 59 (59)
T ss_pred hhHHHHHHHHHhCCCCCceeCCCCCHHHHHHHHHHHHHcCCeeEecCCCCCcEEEEeC
Confidence 46788999999997 6899999999999999999999999999999999999999986
No 15
>PF12457 TIP_N: Tuftelin interacting protein N terminal ; InterPro: IPR022159 This domain family is found in eukaryotes, and is typically between 99 and 114 amino acids in length. The family is found in association with PF01585 from PFAM. There are two completely conserved residues (G and F) that may be functionally important. TIP is involved in enamel assembly by interacting with one of the major proteins responsible for biomineralisation of enamel - tuftelin.
Probab=98.86 E-value=1.5e-09 Score=99.32 Aligned_cols=69 Identities=25% Similarity=0.380 Sum_probs=53.5
Q ss_pred CccccccccCCCccc--cCccccCCcCCccccccC----CCCcccccCC------CCCCccCCCCCccccccCccccccc
Q 043289 515 EDIDFAITEGPYTKS--ANADRKSSKSSKSVTVHG----NSGKASKKKG------SGKKVAYANQPMSFVSSGILQSDSV 582 (695)
Q Consensus 515 ~~e~F~Vtd~dl~~e--~np~RrR~kqsKe~a~y~----d~~d~erkk~------ggkkg~~~saPVsFVsgGv~~ge~~ 582 (695)
+++.|+|+++++.++ |||+|+|++++|++|+|+ +..++..... +.++.+.|++||+||++|++++...
T Consensus 6 e~e~fe~~d~D~~~e~~~np~r~Rrr~tKe~aiYGVfadds~d~~~~~~~~~~rr~~~~~~dyskpv~FVS~G~~~~~~~ 85 (109)
T PF12457_consen 6 EMESFEITDMDLDNERGFNPRRRRRRQTKEQAIYGVFADDSDDDDEEERRGSGRRGSKKKKDYSKPVNFVSGGVQQPGKE 85 (109)
T ss_pred chhccCcCCcChhhhhccCCCCcccccChhhhheeeecCCCcccccccccccccccCCcccccCCCCceeeCCcccCCCC
Confidence 567899999999999 999999999999999995 1112211111 3455678999999999999988754
Q ss_pred c
Q 043289 583 E 583 (695)
Q Consensus 583 e 583 (695)
+
T Consensus 86 ~ 86 (109)
T PF12457_consen 86 K 86 (109)
T ss_pred C
Confidence 3
No 16
>KOG2809 consensus Telomerase elongation inhibitor/RNA maturation protein PINX1 [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=98.83 E-value=2.6e-09 Score=113.19 Aligned_cols=85 Identities=32% Similarity=0.552 Sum_probs=69.7
Q ss_pred CCccccCCcHHHHHHHhcCCCCCCCCCCCCCCcccceEEeeecCCccceeccCCC-------------------------
Q 043289 608 GAFEVHTKGFGSKMMAKMGYVEGGGLGKDGQGMSKPIEAIQRPKKLGLGVEFSNT------------------------- 662 (695)
Q Consensus 608 Ga~E~~t~giG~kMLeKMGW~~GkGLGk~~qGI~ePIea~vk~~r~GLGa~~~~~------------------------- 662 (695)
-+|-+.+.-||.+||++|||.+|.|||++.|||+.||.+.++.+.+|||+.....
T Consensus 19 ~~w~nd~~~fg~KlLekmGW~eG~GLG~~~qG~~~~IKvs~K~d~~GLGa~~~ned~W~~h~d~Fn~lla~Ln~~~~~~~ 98 (326)
T KOG2809|consen 19 TAWSNDDSRFGKKLLEKMGWSEGDGLGKNEQGITDPIKVSLKNDTLGLGADKNNEDQWIAHQDDFNALLAKLNKQQSQET 98 (326)
T ss_pred chhcccchHHHHHHHHHcCCccCCcccccccCCccceEEEeccCCcccCccccccccchhhcccHHHHHHHhhhhhccCc
Confidence 4789999999999999999999999999999999999999999999999988761
Q ss_pred -------CCchhhhcc--CCchhhhhhhccccccCCCCC
Q 043289 663 -------DDDSARKES--RSNSARKESRSNSAKKGAQNI 692 (695)
Q Consensus 663 -------~~d~~~~~e--~~sK~~~e~~r~~r~~~~~g~ 692 (695)
....+...+ ..+.++..|++|.+.+++.-+
T Consensus 99 s~~~~~~~~e~~sle~~~k~sr~r~~yk~~~~~K~~~~y 137 (326)
T KOG2809|consen 99 SDSDDNKKAEKVSLEERSKSSRKRKHYKEFTKSKDLALY 137 (326)
T ss_pred chhhhhcccccccceechhhhHHHHHHhhhhccccccch
Confidence 011111112 347788899999999887654
No 17
>cd02643 R3H_NF-X1 R3H domain of the X1 box binding protein (NF-X1) and related proteins. Human NF-X1 is a transcription factor that regulates the expression of class II major histocompatibility complex (MHC) genes. The Drosophila homolog shuttle craft (STC) has been shown to be a DNA- or RNA-binding protein required for proper axon guidance in the central nervous system and, the yeast homolog FAP1 encodes a dosage suppressor of rapamycin toxicity. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.
Probab=98.55 E-value=7.5e-08 Score=82.64 Aligned_cols=56 Identities=29% Similarity=0.338 Sum_probs=50.2
Q ss_pred HHHHHHHHHHHhcC------CceeeeCCCCccchHHHHHHHHHhCCcccccCCCcceEEEEE
Q 043289 435 EDINSTLEQIVLEE------VDMFSFQPMHHRDCSQVRRLAAIYRLRSDSQGSGKKRFVTVT 490 (695)
Q Consensus 435 edI~~EIe~FL~d~------~dsLsFPPMDk~~RK~VH~LA~~YnLKSkS~GkGkkRfpvL~ 490 (695)
..|.+.|+.|+.+. ...+.||||.+..|+.||.||+.|+|.|.|.|.|-.|+|||+
T Consensus 12 ~~vE~~l~~la~~~~~~~~~~~~~~l~PM~~~eR~iIH~la~~~~l~S~S~G~ep~R~VvI~ 73 (74)
T cd02643 12 KDVEKDLIELVESVNKGKQTSRSHSFPPMNREKRRIVHELAEHFGIESVSYDQEPKRNVVAT 73 (74)
T ss_pred HHHHHHHHHHHHHHHhccccCCeeECCCCCHHHHHHHHHHHhhCCCEEEecCCCCCceEEEe
Confidence 45677788888754 468999999999999999999999999999999999999986
No 18
>PF12656 G-patch_2: DExH-box splicing factor binding site
Probab=98.48 E-value=8.4e-08 Score=83.30 Aligned_cols=50 Identities=38% Similarity=0.728 Sum_probs=46.0
Q ss_pred cccCCcHHHHHHHhcCCCCCCCCCCCCCCcccceEEeeecCCccceeccC
Q 043289 611 EVHTKGFGSKMMAKMGYVEGGGLGKDGQGMSKPIEAIQRPKKLGLGVEFS 660 (695)
Q Consensus 611 E~~t~giG~kMLeKMGW~~GkGLGk~~qGI~ePIea~vk~~r~GLGa~~~ 660 (695)
++....||.+||..|||++|+++|+++++.+.|++...|+..+||||...
T Consensus 26 ~vPVe~FG~AlLRGMGW~~~~~~g~~~~~~~~~~~~~~Rp~~lGLGA~~~ 75 (77)
T PF12656_consen 26 AVPVEEFGAALLRGMGWKPGEGIGKNKKKSVKPVEPKRRPKGLGLGAKPA 75 (77)
T ss_pred hCCHHHHHHHHHHHcCCCCCCCCCCCcccccCcccccccccCcCCCcCCC
Confidence 35578899999999999999999999999999999999999999999643
No 19
>KOG0965 consensus Predicted RNA-binding protein, contains SWAP and G-patch domains [General function prediction only]
Probab=98.30 E-value=3.7e-07 Score=104.49 Aligned_cols=56 Identities=27% Similarity=0.465 Sum_probs=49.1
Q ss_pred cCCccccCCcHHHHHHHhcCCCCCCCCCCCCCCcccceEEe-eecCCccceeccCCC
Q 043289 607 IGAFEVHTKGFGSKMMAKMGYVEGGGLGKDGQGMSKPIEAI-QRPKKLGLGVEFSNT 662 (695)
Q Consensus 607 ~Ga~E~~t~giG~kMLeKMGW~~GkGLGk~~qGI~ePIea~-vk~~r~GLGa~~~~~ 662 (695)
+..+.+...|||++||.||||++|+|||..++||.+||.+. ++..+.|+|+..+..
T Consensus 898 yke~KLt~dNiGfQMLqKMGWKEGeGLGS~gkGI~dPVnkg~~~~~g~G~G~s~pae 954 (988)
T KOG0965|consen 898 YKEQKLTDDNIGFQMLQKMGWKEGEGLGSLGKGIRDPVNKGAAGSLGWGWGGSQPAE 954 (988)
T ss_pred HHHhhccccchHHHHHHHhCccccccccccCcccccchhhcccccCCcccccCCccc
Confidence 55677889999999999999999999999999999999986 566788998877654
No 20
>cd02644 R3H_jag R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.
Probab=98.29 E-value=1.2e-06 Score=74.18 Aligned_cols=58 Identities=17% Similarity=0.225 Sum_probs=53.3
Q ss_pred hHHHHHHHHHHHhcCCceeeeCCCCccchHHHHHHHHHhC-CcccccCCCcceEEEEEe
Q 043289 434 LEDINSTLEQIVLEEVDMFSFQPMHHRDCSQVRRLAAIYR-LRSDSQGSGKKRFVTVTR 491 (695)
Q Consensus 434 LedI~~EIe~FL~d~~dsLsFPPMDk~~RK~VH~LA~~Yn-LKSkS~GkGkkRfpvL~K 491 (695)
|.++..++-..|+.....+.||||.+..|++||.+++.|. |.|.|.|.|..|+++|+.
T Consensus 8 L~~~A~~~a~~v~~tg~~~~l~PM~~~eRrivH~~~~~~~~l~T~S~G~~~~R~vvI~~ 66 (67)
T cd02644 8 LIRLAERAAEKVRRTGKPVKLEPMNAYERRIIHDALANDEDVETESEGEGPYRRVVISP 66 (67)
T ss_pred HHHHHHHHHHHHHHHCCeeEeCCCCHHHHHHHHHHHHhCCCceEEeecCCCCeEEEEEe
Confidence 5667777888888888999999999999999999999999 999999999999999975
No 21
>cd02636 R3H_sperm-antigen R3H domain of a group of metazoan proteins that is related to the sperm-associated antigen 7. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.
Probab=98.26 E-value=1.3e-06 Score=73.35 Aligned_cols=56 Identities=23% Similarity=0.341 Sum_probs=52.0
Q ss_pred HHHHHHHHHHhcC-CceeeeCCCCccchHHHHHHHHHhCCcccccCCC-cceEEEEEe
Q 043289 436 DINSTLEQIVLEE-VDMFSFQPMHHRDCSQVRRLAAIYRLRSDSQGSG-KKRFVTVTR 491 (695)
Q Consensus 436 dI~~EIe~FL~d~-~dsLsFPPMDk~~RK~VH~LA~~YnLKSkS~GkG-kkRfpvL~K 491 (695)
.+.+++..|+.+. ...+.||||++..|+.||.+|...+|.|.|.|-+ ..||+||++
T Consensus 3 ~~e~~~~~f~~d~~~~~~~l~pM~~~eRkivHDv~~~~Gl~S~S~Geee~~R~VVv~~ 60 (61)
T cd02636 3 SMEKEVSKFIKDSVRTREKFQPMDKVERSIVHDVAEVAGLTSFSFGEDEVDRYVMIFK 60 (61)
T ss_pred hHHHHHHHHhhcccccccccCCCCHHHHHHHHHHHHhcCceeEecCCCCCceEEEEec
Confidence 4678899999997 6778999999999999999999999999999997 999999986
No 22
>cd02639 R3H_RRM R3H domain of mainly fungal proteins which are associated with a RNA recognition motif (RRM) domain. Present in this group is the RNA-binding post-transcriptional regulator Cip2 (Csx1-interacting protein 2) involved in counteracting Csx1 function. Csx1 plays a central role in controlling gene expression during oxidative stress. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.
Probab=98.15 E-value=5e-07 Score=75.36 Aligned_cols=54 Identities=26% Similarity=0.321 Sum_probs=47.4
Q ss_pred HHHHHHHHhcC-CceeeeCC-CCccchHHHHHHHHHhCCcccccCCCcceEEEEEe
Q 043289 438 NSTLEQIVLEE-VDMFSFQP-MHHRDCSQVRRLAAIYRLRSDSQGSGKKRFVTVTR 491 (695)
Q Consensus 438 ~~EIe~FL~d~-~dsLsFPP-MDk~~RK~VH~LA~~YnLKSkS~GkGkkRfpvL~K 491 (695)
-.+|--|..+. ...|.||| +.+..|++||.||..+||++.|.|.|.+|+++++|
T Consensus 5 YsqlllFkdd~~~~eL~Fp~~ls~~eRriih~la~~lGL~~~s~G~g~~R~v~v~k 60 (60)
T cd02639 5 YSQLLLFKDDRMRDELAFPSSLSPAERRIVHLLASRLGLNHVSDGTGERRQVQITK 60 (60)
T ss_pred eeeEEEEecCCCceEEEcCCCCCHHHHHHHHHHHHHcCCceEEeCCCceEEEeecC
Confidence 34455566665 78999999 99999999999999999999999999999999876
No 23
>KOG3673 consensus FtsJ-like RNA methyltransferase [RNA processing and modification]
Probab=97.90 E-value=5.5e-06 Score=92.97 Aligned_cols=48 Identities=42% Similarity=0.668 Sum_probs=45.1
Q ss_pred CCcHHHHHHHhcCCCCCCCCCCCCCCcccceEEeeecCCccceeccCC
Q 043289 614 TKGFGSKMMAKMGYVEGGGLGKDGQGMSKPIEAIQRPKKLGLGVEFSN 661 (695)
Q Consensus 614 t~giG~kMLeKMGW~~GkGLGk~~qGI~ePIea~vk~~r~GLGa~~~~ 661 (695)
-.++..+||+||||+.|+|||+.+||+.+||.|....++.|||+....
T Consensus 82 y~~va~~lMakMG~~~geGLGK~~QGr~epi~as~Q~GRrGlGl~l~~ 129 (845)
T KOG3673|consen 82 YLTVAERLMAKMGHKAGEGLGKHGQGRSEPIAASTQRGRRGLGLNLKA 129 (845)
T ss_pred cchHHHHHHHHhCccccccccccCCCccchhhhhhhccccccCccchh
Confidence 578999999999999999999999999999999999999999997643
No 24
>cd02645 R3H_AAA R3H domain of a group of proteins with unknown function, who also contain a AAA-ATPase (AAA) domain. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to be binding ssDNA or ssRNA in a sequence-specific manner.
Probab=97.78 E-value=4.8e-05 Score=63.59 Aligned_cols=57 Identities=26% Similarity=0.332 Sum_probs=50.9
Q ss_pred hHHHHHHHHHHHhcCCceeeeCCCCccchHHHHHHHHHhCCcccccCCCcceEEEEE
Q 043289 434 LEDINSTLEQIVLEEVDMFSFQPMHHRDCSQVRRLAAIYRLRSDSQGSGKKRFVTVT 490 (695)
Q Consensus 434 LedI~~EIe~FL~d~~dsLsFPPMDk~~RK~VH~LA~~YnLKSkS~GkGkkRfpvL~ 490 (695)
|++...-+++.+......+.|.||.+..|+.||.|+..|+|.|.|.|.|-.|+++|+
T Consensus 3 l~ea~~aa~~V~~~~~~~veL~Pm~~~eRri~H~~v~~~~l~s~S~G~ep~RrvvI~ 59 (60)
T cd02645 3 LEEARLAIEQVVIPKGEPVELLPRSAYIRRLQHDLVERYQLRSESFGSEPNRRLRIL 59 (60)
T ss_pred HHHHHHHHHHHHhcCCceEEcCCCCHHHHHHHHHHHHHCCCeEEEecCCCCcEEEEe
Confidence 566677777777766688999999999999999999999999999999999999985
No 25
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=97.76 E-value=2.9e-05 Score=82.21 Aligned_cols=54 Identities=33% Similarity=0.463 Sum_probs=44.1
Q ss_pred cCCccccCCcHHHHHHHhcCCCCCCCCCCCCCCcccceEEeeecCCcc-ceeccC
Q 043289 607 IGAFEVHTKGFGSKMMAKMGYVEGGGLGKDGQGMSKPIEAIQRPKKLG-LGVEFS 660 (695)
Q Consensus 607 ~Ga~E~~t~giG~kMLeKMGW~~GkGLGk~~qGI~ePIea~vk~~r~G-LGa~~~ 660 (695)
||+-.-+.-.+.++||+||||++|+|||++.|||..|+.+..-..+.| +-+..+
T Consensus 204 fg~~~gg~ltvA~~im~k~G~keGqGLGKsEQGlsTalsveKT~~rgG~IIv~a~ 258 (378)
T KOG1996|consen 204 FGANTGGGLTVAHKIMQKYGFKEGQGLGKSEQGLSTALSVEKTSKRGGKIIVGAA 258 (378)
T ss_pred hhhhcccchhHHHHHHHHhCcccccCcCccccccccceeeeeccccCceeEecCc
Confidence 554444445799999999999999999999999999999998888888 544333
No 26
>KOG2384 consensus Major histocompatibility complex protein BAT4, contains G-patch and ankyrin domains [General function prediction only]
Probab=97.69 E-value=1.9e-05 Score=79.72 Aligned_cols=54 Identities=24% Similarity=0.626 Sum_probs=49.4
Q ss_pred cCCccccCCcHHHHHHHhcCCCCCCCCCCCCCCcccceEEeeecCCccceeccC
Q 043289 607 IGAFEVHTKGFGSKMMAKMGYVEGGGLGKDGQGMSKPIEAIQRPKKLGLGVEFS 660 (695)
Q Consensus 607 ~Ga~E~~t~giG~kMLeKMGW~~GkGLGk~~qGI~ePIea~vk~~r~GLGa~~~ 660 (695)
+-..-|..+++|.+||-+.||.++.|||.+++|...||.+++++.+.|||++..
T Consensus 120 ~~p~~i~pks~GyrLl~~~GW~pe~GLGp~~~Grr~PvrTvlkkdr~GLG~e~~ 173 (223)
T KOG2384|consen 120 FQPHLIKPKSLGYRLLSQYGWSPEAGLGPENQGRRAPVRTVLKKDRIGLGTEID 173 (223)
T ss_pred CCCCcCCCCCchHHHHHhcCCCcccCCCccccCcccchhHHHhhcccccchhhc
Confidence 334567789999999999999999999999999999999999999999999765
No 27
>KOG0154 consensus RNA-binding protein RBM5 and related proteins, contain G-patch and RRM domains [General function prediction only]
Probab=97.19 E-value=0.00017 Score=81.62 Aligned_cols=50 Identities=42% Similarity=0.764 Sum_probs=47.8
Q ss_pred CccccCCcHHHHHHHhcCCCCCCCCCCCCCCcccceEEeeecCCccceec
Q 043289 609 AFEVHTKGFGSKMMAKMGYVEGGGLGKDGQGMSKPIEAIQRPKKLGLGVE 658 (695)
Q Consensus 609 a~E~~t~giG~kMLeKMGW~~GkGLGk~~qGI~ePIea~vk~~r~GLGa~ 658 (695)
.+++.+.|+|.+||.+|||..|+|||..++||..||++..+-.+.|||+.
T Consensus 506 ~~~~~~sn~~~~~l~~~gw~~g~Glg~~~~g~~~~~e~~~~~~~~~lg~~ 555 (573)
T KOG0154|consen 506 EPPIDTSNVGNRMLQSMGWKEGSGLGKKNQGIKEPIEAEGRDRGAGLGAK 555 (573)
T ss_pred cccCCCCccchhhhhccCcccccccccccCCCcccccccccccCCCCCcc
Confidence 56778999999999999999999999999999999999999999999997
No 28
>cd02638 R3H_unknown_1 R3H domain of a group of eukaryotic proteins with unknown function. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.
Probab=97.15 E-value=0.00058 Score=57.86 Aligned_cols=56 Identities=21% Similarity=0.315 Sum_probs=49.0
Q ss_pred HHHHHHHHHHHhcC--CceeeeCCCCccchHHHHH-HHHHhCCcccccCCCcceEEEEE
Q 043289 435 EDINSTLEQIVLEE--VDMFSFQPMHHRDCSQVRR-LAAIYRLRSDSQGSGKKRFVTVT 490 (695)
Q Consensus 435 edI~~EIe~FL~d~--~dsLsFPPMDk~~RK~VH~-LA~~YnLKSkS~GkGkkRfpvL~ 490 (695)
..+-++|+.|+... ...+.||||.++.|+.||. |++.-.+.+-|.|.|-.|++||.
T Consensus 2 ~~~~~~~~~f~~~~~~~r~v~LePM~~~ERkIIH~~Lq~~~~v~T~S~G~ep~RrVVI~ 60 (62)
T cd02638 2 HRVSEELEIFLLSFQRYRVLLFPPLNSRRRYLIHQTVENRFLLSTFSVGEGWARRTVVC 60 (62)
T ss_pred chhHHHHHHHHHhcccCCeEecCCCChHHHHHHHHHHhcCCCceEEEccCCCCcEEEEe
Confidence 35678899999976 6899999999999999997 55566899999999999999985
No 29
>KOG4315 consensus G-patch nucleic acid binding protein [General function prediction only]
Probab=96.94 E-value=0.0006 Score=75.07 Aligned_cols=54 Identities=39% Similarity=0.694 Sum_probs=43.9
Q ss_pred cCCcc-ccCCcHHHHHHHhcCCCCCCCCCCCCCCcccceEEeeecCCccceeccCC
Q 043289 607 IGAFE-VHTKGFGSKMMAKMGYVEGGGLGKDGQGMSKPIEAIQRPKKLGLGVEFSN 661 (695)
Q Consensus 607 ~Ga~E-~~t~giG~kMLeKMGW~~GkGLGk~~qGI~ePIea~vk~~r~GLGa~~~~ 661 (695)
...|+ +...+||.+||.-|||++|.|+|+++|+ +.+.+-..++.+.|||+....
T Consensus 145 ~~DyeaiPVe~FGlAmLrG~GWkpg~gigk~~q~-v~~~~~~~rpkglGLGa~~~~ 199 (455)
T KOG4315|consen 145 LADYEAIPVEGFGLAMLRGMGWKPGPGIGKNKQD-VKIKEPFLRPKGLGLGADPAL 199 (455)
T ss_pred hhccccCchhHHHHHHHhcCCCCCCCCcCcCCcc-ccccccccCCCCcccCCCccc
Confidence 44454 6779999999999999999999999665 445666789999999997543
No 30
>KOG1994 consensus Predicted RNA binding protein, contains G-patch and Zn-finger domains [RNA processing and modification]
Probab=96.57 E-value=0.00098 Score=68.75 Aligned_cols=51 Identities=25% Similarity=0.258 Sum_probs=46.5
Q ss_pred ccCCcHHHHHHHhcCCCCCCCCCCCCCC---cccceEEeeecCCccceeccCCC
Q 043289 612 VHTKGFGSKMMAKMGYVEGGGLGKDGQG---MSKPIEAIQRPKKLGLGVEFSNT 662 (695)
Q Consensus 612 ~~t~giG~kMLeKMGW~~GkGLGk~~qG---I~ePIea~vk~~r~GLGa~~~~~ 662 (695)
|...++|+++|.+|||++|.-||++..+ |++||-..++..+.|+|.+-..+
T Consensus 78 i~~e~~gf~lm~~Mg~kpg~~lgkq~e~~~~r~epI~~dI~~~r~g~G~ed~~~ 131 (268)
T KOG1994|consen 78 IRAEKPGFSLMNDMGMKPGRFLGKQSEMKNKRLEPIWYDIQVAREGMGDEDLYN 131 (268)
T ss_pred ccccCcChHHHHHhCCCccchhccccccccccccceeehHHHHhhccCcccccc
Confidence 3478999999999999999999999988 99999999999999999877654
No 31
>KOG4368 consensus Predicted RNA binding protein, contains SWAP, RPR and G-patch domains [General function prediction only]
Probab=95.72 E-value=0.019 Score=65.71 Aligned_cols=47 Identities=36% Similarity=0.682 Sum_probs=37.6
Q ss_pred ccCCcHHHHHHHhcCCCCCCCCCCCCCCcccceEEe-eecC---Cccceecc
Q 043289 612 VHTKGFGSKMMAKMGYVEGGGLGKDGQGMSKPIEAI-QRPK---KLGLGVEF 659 (695)
Q Consensus 612 ~~t~giG~kMLeKMGW~~GkGLGk~~qGI~ePIea~-vk~~---r~GLGa~~ 659 (695)
+.+.|.|.+||.||||. |.|||..++||..||..- |+.. -.|+|+..
T Consensus 684 lse~NKGhQml~KMGWs-G~GLGak~qGI~DPiSGGEVRdR~E~yKGvG~~l 734 (757)
T KOG4368|consen 684 LGEENKGHQMLVKMGWS-GSGLGAKEQGIQDPISGGEVRDRWEQYKGVGVAL 734 (757)
T ss_pred cccccchhhhHhhcCcc-cCCcccccccccCcccCccccchhhhhcccCccc
Confidence 67899999999999996 889999999999999763 3322 35666643
No 32
>KOG2138 consensus Predicted RNA binding protein, contains G-patch domain [RNA processing and modification]
Probab=94.80 E-value=0.03 Score=65.35 Aligned_cols=81 Identities=23% Similarity=0.391 Sum_probs=52.0
Q ss_pred CcHHHHHHHhcCCCCCCCCCC---------CCCCc--------------------------ccceEEeeecCCccceecc
Q 043289 615 KGFGSKMMAKMGYVEGGGLGK---------DGQGM--------------------------SKPIEAIQRPKKLGLGVEF 659 (695)
Q Consensus 615 ~giG~kMLeKMGW~~GkGLGk---------~~qGI--------------------------~ePIea~vk~~r~GLGa~~ 659 (695)
..||.+||.+|||++|+|+|- ...|- ++||.-+.+...-|+++++
T Consensus 148 ~sIgvrlLrsMGWr~GqgIgpr~~r~~krk~~r~~k~~s~~~fd~e~~dk~~pd~tfs~~dve~~~~tp~~~~~g~~y~g 227 (883)
T KOG2138|consen 148 DSIGVRLLRSMGWREGQGIGPRQTRKEKRKTARGSKKESKGEFDSENEDKDDPDITFSPDDVEPIFYTPKENRHGMSYSG 227 (883)
T ss_pred hhHHHHHHHHhcCccCCCcCchhhcchhhccccCCcccccccccccccccCCccceeccccccceecccccccccccccc
Confidence 679999999999999999991 11111 3477777777888888877
Q ss_pred CCCCCchhhhccCCchhhhhhhccc--cccCCCCCCCC
Q 043289 660 SNTDDDSARKESRSNSARKESRSNS--AKKGAQNIGAF 695 (695)
Q Consensus 660 ~~~~~d~~~~~e~~sK~~~e~~r~~--r~~~~~g~~~~ 695 (695)
=..+..+.-..-+..++++--..|- -.-.+-|||+|
T Consensus 228 Lnp~q~L~gssg~~~~pfkh~~ef~kgi~gqaFGVGAf 265 (883)
T KOG2138|consen 228 LNPDQILSGSSGSSAKPFKHGNEFGKGIRGQAFGVGAF 265 (883)
T ss_pred cCcchhhccccccccchhcccchhcccccccccccccc
Confidence 6655555544433344443322222 33455678877
No 33
>COG1847 Jag Predicted RNA-binding protein [General function prediction only]
Probab=93.85 E-value=0.12 Score=53.10 Aligned_cols=57 Identities=19% Similarity=0.183 Sum_probs=46.6
Q ss_pred HHHHHHHHHHHhcCCceeeeCCCCccchHHHHHHHHHh-CCcccccCCCcceEEEEEe
Q 043289 435 EDINSTLEQIVLEEVDMFSFQPMHHRDCSQVRRLAAIY-RLRSDSQGSGKKRFVTVTR 491 (695)
Q Consensus 435 edI~~EIe~FL~d~~dsLsFPPMDk~~RK~VH~LA~~Y-nLKSkS~GkGkkRfpvL~K 491 (695)
..+.+++-.=++...++..++||.+..||.||.+-+.+ ++.|-|.|.|-.||+||..
T Consensus 150 ~~LA~~~A~rV~~tg~~v~L~pM~~~ERkIVH~~l~~~~~V~T~SeG~ep~R~vVV~~ 207 (208)
T COG1847 150 IKLAERAAERVLETGRSVELEPMPPFERKIVHTALSANPGVETYSEGEEPNRRVVVRP 207 (208)
T ss_pred HHHHHHHHHHHHhhCCeeecCCCCHHHHHHHHHHHHhcCCcceeecCCCCceEEEEec
Confidence 34445555556667789999999999999999877666 6999999999999999864
No 34
>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=93.44 E-value=0.067 Score=63.30 Aligned_cols=19 Identities=26% Similarity=0.580 Sum_probs=12.3
Q ss_pred cChHHHHHHHhhcCCcccc
Q 043289 284 IDEEVAEDYVEGIGGSDNV 302 (695)
Q Consensus 284 iDde~~~dyl~g~Gg~e~~ 302 (695)
||++.-....+.+|-...+
T Consensus 700 ~d~~~~~~l~~aL~~~~~~ 718 (784)
T PF04931_consen 700 VDEEFRSALAKALGDADAL 718 (784)
T ss_pred hHHHHHHHHHHHhcccccc
Confidence 6677777777777655443
No 35
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=91.31 E-value=0.42 Score=57.31 Aligned_cols=52 Identities=31% Similarity=0.328 Sum_probs=47.9
Q ss_pred CCceeeeCCCCccchHHHHHHHHHhCCcccccCCCcceEEEEEecCCCCCCC
Q 043289 448 EVDMFSFQPMHHRDCSQVRRLAAIYRLRSDSQGSGKKRFVTVTRTQHTCMPS 499 (695)
Q Consensus 448 ~~dsLsFPPMDk~~RK~VH~LA~~YnLKSkS~GkGkkRfpvL~KTkrT~~ps 499 (695)
...+-.||||...-|+.||+||+.|+|.+.+.++--+||+||+.++.+..+.
T Consensus 843 ~~k~~~~p~ms~~~rr~vh~~~e~~~l~~~sa~~~pkr~~v~t~ir~~s~~~ 894 (950)
T KOG1952|consen 843 SKKSHSFPPMSRDKRRLVHELAEVFGLESVSADSEPKRNVVVTAIRGKSVFP 894 (950)
T ss_pred cccccccCchhHHHHHHHHhhhhccCCcccccCCCcccceeeEeecccccCc
Confidence 3457789999999999999999999999999999999999999999888654
No 36
>KOG1994 consensus Predicted RNA binding protein, contains G-patch and Zn-finger domains [RNA processing and modification]
Probab=85.00 E-value=0.38 Score=50.34 Aligned_cols=47 Identities=32% Similarity=0.537 Sum_probs=42.8
Q ss_pred CcHHHHHHHhcCCCCCCCCCCCCCCcccceEEeeecCCccceeccCC
Q 043289 615 KGFGSKMMAKMGYVEGGGLGKDGQGMSKPIEAIQRPKKLGLGVEFSN 661 (695)
Q Consensus 615 ~giG~kMLeKMGW~~GkGLGk~~qGI~ePIea~vk~~r~GLGa~~~~ 661 (695)
.-++.+||+-|||++|.-||.+..-+-+|+++-.++.+.|+|++.+.
T Consensus 38 ~r~e~k~~~n~~~~e~r~l~~~e~~~ee~~~~la~~~~~~i~~e~~g 84 (268)
T KOG1994|consen 38 MRREYKMMENMGYKEGRTLGSNESALEEPIKVLANTKRRGIRAEKPG 84 (268)
T ss_pred hhhHHHHHHhcCCCCCCccchhhhhhcchHHHhhhhccccccccCcC
Confidence 45677999999999999999999999999999999999999997654
No 37
>cd02637 R3H_PARN R3H domain of Poly(A)-specific ribonuclease (PARN). PARN is a poly(A)-specific 3' exonuclease from the RNase D family that, in Xenopus, deadenylates a specific class of maternal mRNAs which results in their translational repression. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA.
Probab=74.11 E-value=7.9 Score=33.26 Aligned_cols=59 Identities=10% Similarity=0.206 Sum_probs=45.4
Q ss_pred hHHHHHHHHHHHhcCCceeeeCCCCccchHHHHHHHHHhCCc----ccccCCCcceEEEEEec
Q 043289 434 LEDINSTLEQIVLEEVDMFSFQPMHHRDCSQVRRLAAIYRLR----SDSQGSGKKRFVTVTRT 492 (695)
Q Consensus 434 LedI~~EIe~FL~d~~dsLsFPPMDk~~RK~VH~LA~~YnLK----SkS~GkGkkRfpvL~KT 492 (695)
|++|.+.++.||.+..+.|.++||..-.|+.|.......-.+ +.-....+.+++++.|.
T Consensus 1 i~~v~~~i~~fl~s~~~~l~le~cngf~RkLiyq~l~~~~~~~I~ve~~~~ekk~~~i~~~k~ 63 (65)
T cd02637 1 IDEVIERIEAFLESEEDDLELEPCNGFQRKLIYQTLEQKYPKGIHVETLETEKKERLIVIEKG 63 (65)
T ss_pred CchHHHHHHHHHhcCcccccccccccHHHHHHHHHHHHHccccceeeeeeccccceEEEEeec
Confidence 578899999999999999999999999999887766655332 22245667777777665
No 38
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=69.75 E-value=2.6 Score=51.45 Aligned_cols=13 Identities=54% Similarity=0.683 Sum_probs=7.7
Q ss_pred eecCCCCCCcccc
Q 043289 243 TQDLSDEGSDDQS 255 (695)
Q Consensus 243 t~d~s~~esd~~~ 255 (695)
|+|=+|+|.|+|.
T Consensus 1403 ~~dd~DeeeD~e~ 1415 (1516)
T KOG1832|consen 1403 TDDDSDEEEDDET 1415 (1516)
T ss_pred CccccCccccchh
Confidence 5666777665443
No 39
>PF10446 DUF2457: Protein of unknown function (DUF2457); InterPro: IPR018853 This entry represents a family of uncharacterised proteins.
Probab=54.64 E-value=8.3 Score=43.94 Aligned_cols=11 Identities=36% Similarity=0.752 Sum_probs=4.4
Q ss_pred cHHHHHHHhcC
Q 043289 616 GFGSKMMAKMG 626 (695)
Q Consensus 616 giG~kMLeKMG 626 (695)
|.|.-=|.-||
T Consensus 426 G~GAERMrELG 436 (458)
T PF10446_consen 426 GKGAERMRELG 436 (458)
T ss_pred CchHHHHHHHH
Confidence 34443343333
No 40
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=51.77 E-value=16 Score=45.19 Aligned_cols=12 Identities=33% Similarity=0.676 Sum_probs=5.7
Q ss_pred CCCCcccccccc
Q 043289 248 DEGSDDQSASES 259 (695)
Q Consensus 248 ~~esd~~~~~~~ 259 (695)
++++|||+|.+.
T Consensus 1404 ~dd~DeeeD~e~ 1415 (1516)
T KOG1832|consen 1404 DDDSDEEEDDET 1415 (1516)
T ss_pred ccccCccccchh
Confidence 445555554443
No 41
>KOG1189 consensus Global transcriptional regulator, cell division control protein [Amino acid transport and metabolism]
Probab=48.30 E-value=13 Score=45.08 Aligned_cols=16 Identities=6% Similarity=0.192 Sum_probs=7.0
Q ss_pred CCceeeccCcccceee
Q 043289 120 SQPINLLGSKDSRIVA 135 (695)
Q Consensus 120 ~~p~~~~~s~~~q~~~ 135 (695)
+.|++++++-.++-|+
T Consensus 811 ~k~v~~i~svp~~sLd 826 (960)
T KOG1189|consen 811 KKKVTMINSVPMESLD 826 (960)
T ss_pred cccceeeeccchhhhh
Confidence 4444444444444333
No 42
>COG5406 Nucleosome binding factor SPN, SPT16 subunit [Transcription / DNA replication, recombination, and repair / Chromatin structure and dynamics]
Probab=47.57 E-value=7.3 Score=46.27 Aligned_cols=11 Identities=0% Similarity=-0.309 Sum_probs=7.7
Q ss_pred ccccCCCCCCC
Q 043289 187 HREQQDASDSD 197 (695)
Q Consensus 187 ~~~~~~~~~~~ 197 (695)
.||.+|-||+.
T Consensus 801 ~lgF~GVPfRs 811 (1001)
T COG5406 801 KLGFYGVPFRS 811 (1001)
T ss_pred hccccCCcccc
Confidence 56777777764
No 43
>KOG2236 consensus Uncharacterized conserved protein [Function unknown]
Probab=37.02 E-value=38 Score=39.11 Aligned_cols=25 Identities=20% Similarity=0.031 Sum_probs=11.7
Q ss_pred cCCCCCCCCCcchhccccCCCCChHH
Q 043289 190 QQDASDSDSLSFKEEVDTDGNNNQEE 215 (695)
Q Consensus 190 ~~~~~~~~~~~~~~~~~~~~~~~~~~ 215 (695)
.+.+++ +.-.+..+.-.-++++|-+
T Consensus 81 ~e~~~~-~~~~d~vd~~~~g~~d~i~ 105 (483)
T KOG2236|consen 81 AEDGSV-DQPDDLVDPILVGDPDCIE 105 (483)
T ss_pred cccCcc-cccccccchhhcCCCccee
Confidence 344444 3333333444456667744
No 44
>KOG3130 consensus Uncharacterized conserved protein [Function unknown]
Probab=35.84 E-value=22 Score=40.48 Aligned_cols=11 Identities=27% Similarity=0.347 Sum_probs=9.3
Q ss_pred cccccCcceeE
Q 043289 225 LSKKKNSGFLS 235 (695)
Q Consensus 225 ~~~~~n~gfls 235 (695)
+++++|++|+-
T Consensus 253 ~s~~r~~~~n~ 263 (514)
T KOG3130|consen 253 FSGQRNSQLNC 263 (514)
T ss_pred chhhhhhcccc
Confidence 78999999973
No 45
>KOG1189 consensus Global transcriptional regulator, cell division control protein [Amino acid transport and metabolism]
Probab=34.86 E-value=22 Score=43.18 Aligned_cols=13 Identities=23% Similarity=0.616 Sum_probs=9.3
Q ss_pred CCcccccccCCcc
Q 043289 90 NGNAFGYQYPSVD 102 (695)
Q Consensus 90 ~~~~~~~~y~~~~ 102 (695)
-.|.-||-|.+++
T Consensus 627 EaH~NGfRy~s~R 639 (960)
T KOG1189|consen 627 EAHENGFRYQSLR 639 (960)
T ss_pred eeecCceeeeecc
Confidence 3577788888864
No 46
>PF05750 Rubella_Capsid: Rubella capsid protein; InterPro: IPR008819 Rubella virus is an enveloped positive-strand RNA virus of the family Togaviridae. Virions are composed of three structural proteins: a capsid and two membrane-spanning glycoproteins, E2 and E1. During virus assembly, the capsid interacts with genomic RNA to form nucleocapsids. It has been discovered that capsid phosphorylation serves to negatively regulate binding of viral genomic RNA. This may delay the initiation of nucleocapsid assembly until sufficient amounts of virus glycoproteins accumulate at the budding site and/or prevent non-specific binding to cellular RNA when levels of genomic RNA are low. It follows that at a late stage in replication, the capsid may undergo dephosphorylation before nucleocapsid assembly occurs []. This family is found together with IPR008820 from INTERPRO and IPR008821 from INTERPRO.; GO: 0016021 integral to membrane, 0019013 viral nucleocapsid
Probab=25.41 E-value=71 Score=33.28 Aligned_cols=44 Identities=34% Similarity=0.568 Sum_probs=30.6
Q ss_pred CCCCCCcccCCCCCCcCc------CCCCCCCCCccccccccceEEeccccccCCcCC
Q 043289 2 GGATGSRRKTSNNRNKSK------QRRKPDPSSSSGRRLRNSLFVEGGLLSDWQQQQ 52 (695)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~fv~gg~l~d~~~~~ 52 (695)
.||.-+||++--...+++ ++.++.|.|+|+++-| |-|-||...+
T Consensus 29 agasqsrrprpprqrdsstsgddsgrdsggprrrrgnrgr-------gqlrdwsrap 78 (300)
T PF05750_consen 29 AGASQSRRPRPPRQRDSSTSGDDSGRDSGGPRRRRGNRGR-------GQLRDWSRAP 78 (300)
T ss_pred cccccccCCCCCCcccccCCCccccCcCCCccccccccCc-------ccccccccCC
Confidence 367778888765444443 5567778888887766 6789998655
No 47
>KOG1991 consensus Nuclear transport receptor RANBP7/RANBP8 (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=24.87 E-value=57 Score=40.69 Aligned_cols=14 Identities=29% Similarity=0.501 Sum_probs=7.5
Q ss_pred HHHHHHHhhcCCcc
Q 043289 287 EVAEDYVEGIGGSD 300 (695)
Q Consensus 287 e~~~dyl~g~Gg~e 300 (695)
+++.||.+..|+..
T Consensus 912 ~~d~d~~~~~~~~~ 925 (1010)
T KOG1991|consen 912 EDDQDYLDEYGELA 925 (1010)
T ss_pred ccchhHHHhhcccc
Confidence 34446766555543
No 48
>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=23.80 E-value=38 Score=41.40 Aligned_cols=19 Identities=16% Similarity=0.041 Sum_probs=12.1
Q ss_pred CCcchhhhhHHHHHHHHHH
Q 043289 406 NLPGAKKKHRKEMIAVKRR 424 (695)
Q Consensus 406 ~~prEKKK~RK~ere~kRa 424 (695)
+.++.|+|...--.-.++.
T Consensus 458 La~~NK~Kl~~f~~vLlq~ 476 (840)
T PF04147_consen 458 LAEGNKEKLQVFFGVLLQH 476 (840)
T ss_pred CCcchHHHHHHHHHHHHHH
Confidence 6677888877665444443
No 49
>PF07218 RAP1: Rhoptry-associated protein 1 (RAP-1); InterPro: IPR009864 This family consists of several rhoptry-associated protein 1 (RAP-1) sequences which appear to be specific to Plasmodium falciparum [].
Probab=22.84 E-value=2.2e+02 Score=34.22 Aligned_cols=63 Identities=21% Similarity=0.183 Sum_probs=40.7
Q ss_pred CCCCCCccccccccceEEeccccccCCcCC-ccccccccccccCCCCCCCCCCCCCcccccccCC
Q 043289 23 KPDPSSSSGRRLRNSLFVEGGLLSDWQQQQ-PQQLNSCSKARKSNLNSNSGNLNPSKVLASKSGS 86 (695)
Q Consensus 23 ~~~~~~~~~~~~~~~~fv~gg~l~d~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~g~ 86 (695)
++..++|-++.-..++.-|-+.--||.--. +|.-.|..|-.+++...+|.|-+.+ .+++++|.
T Consensus 95 ~~~g~~~~~~~~~~~~~~e~~s~~dw~f~a~~~~~k~~~pks~sg~s~~sss~~~s-~~s~~s~~ 158 (782)
T PF07218_consen 95 KGSGRSRVRSASAAAILEEDDSNGDWNFMANQNEEKTSKPKSNSGESDSSSSDGKS-KSSSKSGS 158 (782)
T ss_pred CCCCccccccchhhhhhcccccccccchhcCccccCCCCCCCCCCCCCCCCCCCCC-CCCCCCCC
Confidence 333344444555677888999999998544 5555777777788877777765544 33444443
No 50
>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=21.96 E-value=55 Score=38.77 Aligned_cols=68 Identities=22% Similarity=0.327 Sum_probs=40.3
Q ss_pred hhhcc-CCCChHHHHHHHHHHHhcCCceeeeCCCCccc----hHHHHHHHHHhCCcccccCCCcceEEEEEecC--CCCC
Q 043289 425 ERMLR-RGVDLEDINSTLEQIVLEEVDMFSFQPMHHRD----CSQVRRLAAIYRLRSDSQGSGKKRFVTVTRTQ--HTCM 497 (695)
Q Consensus 425 qgmL~-rG~dLedI~~EIe~FL~d~~dsLsFPPMDk~~----RK~VH~LA~~YnLKSkS~GkGkkRfpvL~KTk--rT~~ 497 (695)
+.||. -|+.|.+.++... =|+..- +..|++.|..|+|.-.. |+...||- +..+
T Consensus 340 ~~lLAkMGisL~~~~Q~y~-------------~Md~~~K~~L~~~l~~~a~~ygL~dl~-------~~sF~r~~Gy~~~l 399 (622)
T PF02724_consen 340 HKLLAKMGISLKQAQQKYS-------------YMDMELKRELREKLEKYAPKYGLDDLV-------FPSFVRTYGYRGKL 399 (622)
T ss_pred HHHHHHhCCcHHHHcCCch-------------hCCHHHHHHHHHHHHHHHHhcCCCCce-------eeeEEEEecCCCce
Confidence 33443 4999988777653 245443 45788899999996444 44555554 2322
Q ss_pred CCchhH-HHHHHHHhcC
Q 043289 498 PSSADR-LRLEKLIGAG 513 (695)
Q Consensus 498 ps~~~~-~rIekLL~~~ 513 (695)
++.+. ..|..||...
T Consensus 400 -SA~D~v~al~ALLE~~ 415 (622)
T PF02724_consen 400 -SASDVVYALTALLEVG 415 (622)
T ss_pred -eHHHHHHHHHHHhcCC
Confidence 34444 4666777543
No 51
>COG5406 Nucleosome binding factor SPN, SPT16 subunit [Transcription / DNA replication, recombination, and repair / Chromatin structure and dynamics]
Probab=21.81 E-value=65 Score=38.84 Aligned_cols=6 Identities=67% Similarity=0.872 Sum_probs=2.7
Q ss_pred CCCCCc
Q 043289 247 SDEGSD 252 (695)
Q Consensus 247 s~~esd 252 (695)
||+|+|
T Consensus 927 sddE~d 932 (1001)
T COG5406 927 SDDESD 932 (1001)
T ss_pred Cccccc
Confidence 444443
No 52
>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=20.86 E-value=75 Score=34.61 Aligned_cols=10 Identities=10% Similarity=0.391 Sum_probs=5.6
Q ss_pred Cccccccccc
Q 043289 28 SSSGRRLRNS 37 (695)
Q Consensus 28 ~~~~~~~~~~ 37 (695)
+-|...||++
T Consensus 16 k~rqk~ir~~ 25 (314)
T PF06524_consen 16 KERQKEIRSA 25 (314)
T ss_pred HHHHHHHHhc
Confidence 4455566665
No 53
>PF06991 Prp19_bind: Splicing factor, Prp19-binding domain; InterPro: IPR009730 This entry represents the C terminus (approximately 300 residues) of eukaryotic micro-fibrillar-associated protein 1, which is a component of elastin-associated microfibrils in the extracellular matrix [].
Probab=20.54 E-value=57 Score=35.20 Aligned_cols=16 Identities=6% Similarity=-0.037 Sum_probs=10.1
Q ss_pred eEEEEEecCCCCCCCc
Q 043289 485 RFVTVTRTQHTCMPSS 500 (695)
Q Consensus 485 RfpvL~KTkrT~~ps~ 500 (695)
.+..|+|--|...++.
T Consensus 175 k~~fmQKyyHkGaF~~ 190 (276)
T PF06991_consen 175 KMKFMQKYYHKGAFFQ 190 (276)
T ss_pred chhhhhhccccccccc
Confidence 3445677777776654
Done!