Query 015479
Match_columns 406
No_of_seqs 179 out of 249
Neff 3.6
Searched_HMMs 46136
Date Fri Mar 29 06:42:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/015479.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/015479hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2673 Uncharacterized conser 100.0 1.1E-46 2.4E-51 381.1 11.8 286 35-354 55-344 (485)
2 KOG2330 Splicing factor 3b, su 99.9 2.4E-24 5.1E-29 218.1 6.6 107 155-301 251-368 (500)
3 smart00581 PSP proline-rich do 99.9 9.2E-24 2E-28 161.5 5.8 42 171-212 1-42 (54)
4 PF04046 PSP: PSP; InterPro: 99.8 1.9E-21 4.1E-26 145.7 5.2 38 175-212 1-38 (48)
5 COG5182 CUS1 Splicing factor 3 99.8 1.7E-19 3.7E-24 179.1 6.2 96 155-301 258-354 (429)
6 KOG2673 Uncharacterized conser 98.6 2.3E-08 4.9E-13 103.5 3.0 137 127-266 1-141 (485)
7 PF00098 zf-CCHC: Zinc knuckle 97.3 0.0001 2.3E-09 45.4 1.6 18 115-132 1-18 (18)
8 PF14392 zf-CCHC_4: Zinc knuck 91.8 0.063 1.4E-06 40.0 0.6 19 114-132 31-49 (49)
9 smart00343 ZnF_C2HC zinc finge 90.7 0.12 2.7E-06 33.6 1.1 18 116-133 1-18 (26)
10 COG5082 AIR1 Arginine methyltr 90.4 0.16 3.5E-06 48.4 2.0 20 112-131 58-77 (190)
11 PF13696 zf-CCHC_2: Zinc knuck 87.4 0.25 5.4E-06 35.0 0.8 21 113-133 7-27 (32)
12 PTZ00368 universal minicircle 86.3 0.59 1.3E-05 41.3 2.7 22 114-135 27-48 (148)
13 PTZ00368 universal minicircle 86.0 0.41 8.9E-06 42.3 1.6 20 115-134 1-20 (148)
14 PF15288 zf-CCHC_6: Zinc knuck 76.3 1.6 3.5E-05 32.4 1.5 20 115-134 2-23 (40)
15 COG5082 AIR1 Arginine methyltr 74.1 1.6 3.4E-05 41.9 1.2 18 114-131 97-114 (190)
16 PF13917 zf-CCHC_3: Zinc knuck 70.8 2.7 5.8E-05 31.3 1.5 19 114-132 4-22 (42)
17 KOG4400 E3 ubiquitin ligase in 69.9 2.2 4.7E-05 41.2 1.2 19 115-133 144-162 (261)
18 KOG4400 E3 ubiquitin ligase in 63.8 3.3 7.2E-05 40.0 1.1 23 114-136 92-114 (261)
19 TIGR03290 CoB_CoM_SS_C CoB--Co 57.0 3.7 8.1E-05 36.3 0.1 75 115-198 46-121 (144)
20 PF12353 eIF3g: Eukaryotic tra 44.2 12 0.00027 33.4 1.3 19 113-132 105-123 (128)
21 KOG2044 5'-3' exonuclease HKE1 40.0 12 0.00026 42.8 0.8 50 84-133 218-279 (931)
22 KOG0119 Splicing factor 1/bran 35.5 18 0.0004 39.4 1.3 19 115-133 286-304 (554)
23 COG5222 Uncharacterized conser 30.7 24 0.00053 36.6 1.2 23 114-136 176-198 (427)
24 PF15127 DUF4565: Protein of u 29.1 48 0.001 28.7 2.5 21 8-28 60-80 (91)
25 KOG0109 RNA-binding protein LA 27.9 30 0.00064 35.8 1.2 24 113-136 159-182 (346)
26 KOG2560 RNA splicing factor - 27.5 14 0.00031 39.9 -1.1 19 113-131 111-129 (529)
27 smart00647 IBR In Between Ring 26.3 39 0.00085 24.9 1.4 17 114-130 48-64 (64)
28 PF05515 Viral_NABP: Viral nuc 25.6 48 0.001 30.1 2.0 18 114-131 62-79 (124)
29 TIGR02663 nifX nitrogen fixati 23.0 34 0.00073 29.4 0.5 26 176-201 93-118 (119)
30 KOG1818 Membrane trafficking a 22.5 53 0.0011 36.8 2.0 23 113-135 180-205 (634)
31 KOG0525 Branched chain alpha-k 21.6 59 0.0013 33.3 1.9 72 156-228 159-248 (362)
32 PF14787 zf-CCHC_5: GAG-polypr 21.2 56 0.0012 24.0 1.2 21 115-135 3-23 (36)
No 1
>KOG2673 consensus Uncharacterized conserved protein, contains PSP domain [Function unknown]
Probab=100.00 E-value=1.1e-46 Score=381.08 Aligned_cols=286 Identities=32% Similarity=0.535 Sum_probs=225.0
Q ss_pred CCccccccccccccceeccCCCCCceeEEEecccccccCCCCCCCCCCCCCccccccccccccCCCCCCcCCCcccccCC
Q 015479 35 PNEGIEFGEQTFFPAIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTSGDGSSNLEGGLEIIDDA 114 (406)
Q Consensus 35 ~~~~~e~G~~t~~Pal~vg~~~~~a~~F~iD~~~~~~~n~~~~~~d~~~VPlYdr~~~~~L~s~Dg~s~~e~~~Ei~~~~ 114 (406)
..+++++++.+|+| +++++.+...++||++++....--+++.+.+... ||.++.+|.+.+++.+++++..|.. .
T Consensus 55 qqd~l~~te~a~~~-fr~~~qe~~t~s~wl~~~~~ek~gedl~~~e~~t----dr~~a~~l~sq~~s~tvek~~~v~~-~ 128 (485)
T KOG2673|consen 55 QQDLLGVTEKAFPP-FRYRMQELGTPSFWLKNAELEKSGEDLYLGEDST----DRETAVGLISQNKSVTVEKSKLVNK-C 128 (485)
T ss_pred HHHHhhcccccccc-hhhhHHhhcCchhhhhhcccccChhhhccccccc----cccceecccccccchhhhhhhhhcc-C
Confidence 46788888888888 8999999999999999999887767777666553 9999999999999999998877644 4
Q ss_pred CccccCCCCCCCCCCCCCccCHHHHHHHHHHHHHhhccCCCCCCCceeeecccCCccCCCCCCcCCHHHHHHhCCCCCCC
Q 015479 115 SRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDP 194 (406)
Q Consensus 115 ~~CFNCG~~~HsLrdCP~Prd~a~In~~Rk~f~~~r~q~~~sr~GdrYye~k~e~k~~~~kPG~LS~eLReALGm~~~dp 194 (406)
-.|||||++.|+|+|||+|+|+++|+++||+++..++| |||.....+++++||||+||.+||.|||+.+++|
T Consensus 129 ~~CFNC~g~~hsLrdC~rp~d~s~I~r~rkek~~~rnq--------ry~~~teq~re~h~KPG~lS~~~R~al~l~~~d~ 200 (485)
T KOG2673|consen 129 DPCFNCGGTPHSLRDCPRPFDFSRIQRARKEKMVFRNQ--------RYYQDTEQGREDHFKPGVLSGNTRSALGLSPGDP 200 (485)
T ss_pred ccccccCCCCCccccCCCccccHHHHHHHHhhccccce--------eeeeecchhhhcccCCcccchhHHHhhcCCCCCc
Confidence 45999999999999999999999999999999887774 8998876669999999999999999999999999
Q ss_pred hHHHHHHHhcCCCCCCCCCCCCCCCCCceeecCCCccCCCCCcchhccCCCCCCCeeeeecCCCCCC-CCCCCchhcccc
Q 015479 195 PPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIKEGQEDGEIIETGRPASKRKMTTEFPGINAP-IPENADERLWAA 273 (406)
Q Consensus 195 PPWL~rMr~~GyPPgY~~~a~~~q~SGl~if~Dg~~~~~~EDgEi~e~~~~~~~~kk~v~fPGFNaP-iP~gad~~~W~~ 273 (406)
|+|+||||++||||||+.++ ..+.+||+||+.... .++|+ +.....++++.+|+|.|||||.+ .|++..++.|..
T Consensus 201 P~~~yRMR~lGYPPg~L~~s-~~e~s~i~if~eet~-~~dee--~ese~PP~~~~~K~~~f~gfn~~~~p~~~~e~~ke~ 276 (485)
T KOG2673|consen 201 PEWKYRMRRLGYPPGYLRKS-DMEVSGIKIFSEETF-QFDEE--LESETPPEPQGTKPVVFPGFNPKGTPPNDREDSKEA 276 (485)
T ss_pred hHHHHHHhhccCCchhhhhh-hcccccceeeccccc-ccCcc--cCCCCCCCCCCCCCcccCCCCCCCCCCCChhhcccc
Confidence 99999999999999999987 568999999972221 22232 32334678899999999999999 999999888876
Q ss_pred CCCCCCcccccccccccCCCCccccccchhhccccccccCCCCCCCCCCCCCCCccc-ccc-CCCC-CCCCCCCCCCCCC
Q 015479 274 RPSSSDSSRDRSHHRLNHHSESISRGRYHEQRWSRDYRDDGPPGVDPVSSYPPRYGG-YDY-YSSH-SRSPTRGRSYSDR 350 (406)
Q Consensus 274 ~P~~~d~~~~~~~~~~~~~~e~~~r~~~~~~~~~~d~~d~g~~g~~~~ss~~pr~~~-~d~-y~~~-~~~p~~~rs~sdr 350 (406)
+ .++|+..-+.. .......++++|+|-|++...++|+++|. +|. |+.- .+|-...++++-+
T Consensus 277 ~---r~~s~s~~q~~-------------l~~~~l~~k~~dl~~~~e~s~~~~~~~~t~~D~~~~~~~~~s~~~~~sl~~p 340 (485)
T KOG2673|consen 277 P---RDASCSVDQDA-------------LTLSRLEKKQRDLPAGLEQSESAPSDSGTEVDDPLTENEVASEPRPNSLDLP 340 (485)
T ss_pred c---chhhhhhhHHH-------------hhhhHHHHHhhhcccccccccCCCcccCCcccccccccccccccCCcccCCC
Confidence 2 34443211111 11111237778999999999999999998 555 3331 1122222556655
Q ss_pred CCCc
Q 015479 351 DRDD 354 (406)
Q Consensus 351 ~~~~ 354 (406)
+-++
T Consensus 341 ~~ed 344 (485)
T KOG2673|consen 341 VPED 344 (485)
T ss_pred CCCC
Confidence 5544
No 2
>KOG2330 consensus Splicing factor 3b, subunit 2 [RNA processing and modification]
Probab=99.90 E-value=2.4e-24 Score=218.06 Aligned_cols=107 Identities=32% Similarity=0.551 Sum_probs=90.7
Q ss_pred CCCCCceeeecc-cCCccCCCCCCcCCHHHHHHhCCCCCCChHHHHHHHhcCCCCCCCCCCCCCCCCCceeecCCCccCC
Q 015479 155 ASRNPMRYYQNS-AGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIKEG 233 (406)
Q Consensus 155 ~sr~GdrYye~k-~e~k~~~~kPG~LS~eLReALGm~~~dpPPWL~rMr~~GyPPgY~~~a~~~q~SGl~if~Dg~~~~~ 233 (406)
-+.+|+.||+++ .+..+++.+||.||+|||.||||+.+.|||||++||++|+|||||+
T Consensus 251 lt~~Ge~yyegke~e~~~k~k~PG~iS~eLr~aLgmp~g~pPPWl~aMqryGpPpsYPd--------------------- 309 (500)
T KOG2330|consen 251 LTKFGELYYEGKELEAMVKEKKPGDISDELRIALGMPVGTPPPWLIAMQRYGPPPSYPD--------------------- 309 (500)
T ss_pred eeecceeeecchhHHHHHhhcCccchhHHHHHHhCCCCCCCChHHHHhhhcCCCCCCCc---------------------
Confidence 468999999998 5677899999999999999999999999999999999999999997
Q ss_pred CCCcchhccCCCCCCCeeeeecCCCCCCCCCCCch----hccc-----cCCCCCCcccccccccccCCCCcc-ccccc
Q 015479 234 QEDGEIIETGRPASKRKMTTEFPGINAPIPENADE----RLWA-----ARPSSSDSSRDRSHHRLNHHSESI-SRGRY 301 (406)
Q Consensus 234 ~EDgEi~e~~~~~~~~kk~v~fPGFNaPiP~gad~----~~W~-----~~P~~~d~~~~~~~~~~~~~~e~~-~r~~~ 301 (406)
++|||+|+|||+|+.+ ++|| ..|.++||||.....-.+...+++ .|.++
T Consensus 310 -------------------lkIpGLNapIPeg~s~Gyh~gGWGpVDe~g~PLygDVfG~~~p~~~~~t~es~~~rn~w 368 (500)
T KOG2330|consen 310 -------------------LKIPGLNAPIPEGCSFGYHAGGWGPVDEFGKPLYGDVFGLNIPEHHNGTKESEIERNHW 368 (500)
T ss_pred -------------------ccCCCCCCCCCcccccccccCCCccccccCCccchhccccccccccccccccccccccc
Confidence 7899999999999987 5888 247788999987754444443333 35554
No 3
>smart00581 PSP proline-rich domain in spliceosome associated proteins.
Probab=99.89 E-value=9.2e-24 Score=161.47 Aligned_cols=42 Identities=52% Similarity=1.112 Sum_probs=40.8
Q ss_pred cCCCCCCcCCHHHHHHhCCCCCCChHHHHHHHhcCCCCCCCC
Q 015479 171 YDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLD 212 (406)
Q Consensus 171 ~~~~kPG~LS~eLReALGm~~~dpPPWL~rMr~~GyPPgY~~ 212 (406)
|++||||+||++||+||||.++++||||++||++|||||||+
T Consensus 1 ~~~~kPG~lS~~LR~ALG~~~~~pPPWl~~Mq~~G~PPsYp~ 42 (54)
T smart00581 1 FKHFKPGRISDELREALGLPPGQPPPWLYRMRRLGYPPGYPR 42 (54)
T ss_pred CCCccCCcCCHHHHHHcCCCCCCCChHHHHHHHHCCCCCCcc
Confidence 578999999999999999999999999999999999999997
No 4
>PF04046 PSP: PSP; InterPro: IPR006568 PSP is a proline-rich domain of unknown function found in spliceosome associated proteins.
Probab=99.84 E-value=1.9e-21 Score=145.72 Aligned_cols=38 Identities=66% Similarity=1.307 Sum_probs=37.1
Q ss_pred CCCcCCHHHHHHhCCCCCCChHHHHHHHhcCCCCCCCC
Q 015479 175 RPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLD 212 (406)
Q Consensus 175 kPG~LS~eLReALGm~~~dpPPWL~rMr~~GyPPgY~~ 212 (406)
|||+||++||+||||.++++||||++||++||||||++
T Consensus 1 kPG~lS~~LR~ALg~~~~~~PPwl~~M~~~G~PP~y~~ 38 (48)
T PF04046_consen 1 KPGKLSDELREALGMQENDPPPWLYRMRRLGYPPGYPD 38 (48)
T ss_pred CCcccCHHHHHHcCCCCCCCChHHHHHHhcCCCCCCcc
Confidence 79999999999999999999999999999999999975
No 5
>COG5182 CUS1 Splicing factor 3b, subunit 2 [RNA processing and modification]
Probab=99.78 E-value=1.7e-19 Score=179.06 Aligned_cols=96 Identities=31% Similarity=0.468 Sum_probs=76.5
Q ss_pred CCCCCceeeecc-cCCccCCCCCCcCCHHHHHHhCCCCCCChHHHHHHHhcCCCCCCCCCCCCCCCCCceeecCCCccCC
Q 015479 155 ASRNPMRYYQNS-AGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIKEG 233 (406)
Q Consensus 155 ~sr~GdrYye~k-~e~k~~~~kPG~LS~eLReALGm~~~dpPPWL~rMr~~GyPPgY~~~a~~~q~SGl~if~Dg~~~~~ 233 (406)
-+.||+.||+++ .....++.+||.||+|||+||||.+++|||||.+||++|+|||||+
T Consensus 258 L~~fGe~y~e~~n~~~~vk~krPG~IS~eLrealgi~~g~pPPWlf~Mq~~G~PpsYPD--------------------- 316 (429)
T COG5182 258 LSKFGEFYEEVDNDYRFVKKKRPGAISAELREALGIDSGTPPPWLFNMQKHGMPPSYPD--------------------- 316 (429)
T ss_pred cccccceeeccchHHHHHhccCCcchHHHHHHHhCCCCCCCChHHHhhhhcCCCCCCcc---------------------
Confidence 468999999998 4445689999999999999999999999999999999999999996
Q ss_pred CCCcchhccCCCCCCCeeeeecCCCCCCCCCCCchhccccCCCCCCcccccccccccCCCCccccccc
Q 015479 234 QEDGEIIETGRPASKRKMTTEFPGINAPIPENADERLWAARPSSSDSSRDRSHHRLNHHSESISRGRY 301 (406)
Q Consensus 234 ~EDgEi~e~~~~~~~~kk~v~fPGFNaPiP~gad~~~W~~~P~~~d~~~~~~~~~~~~~~e~~~r~~~ 301 (406)
++|||+| |+..|..+||||.+...-...+.+.+++.+.
T Consensus 317 -------------------lkIpGlN-----------W~~~pL~GdvyG~~~p~~h~~~~~~~~~~~~ 354 (429)
T COG5182 317 -------------------LKIPGLN-----------WAPIPLEGDVYGYQPPGWHEPLFEVGPETAE 354 (429)
T ss_pred -------------------ccCCCCC-----------CCCcccccccccccCCCcCCccCCcCcchhh
Confidence 7899999 6666666666666553333334445555443
No 6
>KOG2673 consensus Uncharacterized conserved protein, contains PSP domain [Function unknown]
Probab=98.59 E-value=2.3e-08 Score=103.51 Aligned_cols=137 Identities=22% Similarity=0.360 Sum_probs=101.9
Q ss_pred CCCCCCccCHHHHHHHHHHHHHhhccCCCCCCCceeeecccCCccCCCCCCcCCHHHHHHhCCCCCCChHHHHHHHhcCC
Q 015479 127 LKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGY 206 (406)
Q Consensus 127 LrdCP~Prd~a~In~~Rk~f~~~r~q~~~sr~GdrYye~k~e~k~~~~kPG~LS~eLReALGm~~~dpPPWL~rMr~~Gy 206 (406)
+++||.|+| ++|+..|.+++.+-..-...-++.+++..........+.+|.|| ++.++|+-.+...+|++++||++|+
T Consensus 1 ~~~cp~~~n-~~i~~~~d~~~e~~~eis~q~~~e~~~d~~~d~~~~r~esg~i~-~qqd~l~~te~a~~~fr~~~qe~~t 78 (485)
T KOG2673|consen 1 MKDCPMPRN-ARISEKRDEYMEACGEISNQNFQERLHDELVDERRGRFESGVIS-EQQDLLGVTEKAFPPFRYRMQELGT 78 (485)
T ss_pred CCcCCCccc-cccCcchhHHHHHhhhcCCcchhhhccchhhhhhhccccccccc-hHHHHhhcccccccchhhhHHhhcC
Confidence 579999999 99999999998764432333456788877777888999999999 8899999999999999999999999
Q ss_pred CCCCCCCCCCCCCCCceeecCCC-ccCCCCCcchhccCCCCCCCeeeeecC--CCCC-CCCCCC
Q 015479 207 PPGYLDSEDDDQPSGITIYADGE-IKEGQEDGEIIETGRPASKRKMTTEFP--GINA-PIPENA 266 (406)
Q Consensus 207 PPgY~~~a~~~q~SGl~if~Dg~-~~~~~EDgEi~e~~~~~~~~kk~v~fP--GFNa-PiP~ga 266 (406)
|+.|++.+. .+.+|..||.-.. .+-..+.|.+..+.....+.++.|.++ =||. -.|.++
T Consensus 79 ~s~wl~~~~-~ek~gedl~~~e~~tdr~~a~~l~sq~~s~tvek~~~v~~~~~CFNC~g~~hsL 141 (485)
T KOG2673|consen 79 PSFWLKNAE-LEKSGEDLYLGEDSTDRETAVGLISQNKSVTVEKSKLVNKCDPCFNCGGTPHSL 141 (485)
T ss_pred chhhhhhcc-cccChhhhccccccccccceecccccccchhhhhhhhhccCccccccCCCCCcc
Confidence 999998654 4578888884222 223455666655555555566666665 4554 455554
No 7
>PF00098 zf-CCHC: Zinc knuckle; InterPro: IPR001878 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the CysCysHisCys (CCHC) type zinc finger domains, and have the sequence: C-X2-C-X4-H-X4-C where X can be any amino acid, and number indicates the number of residues. These 18 residues CCHC zinc finger domains are mainly found in the nucleocapsid protein of retroviruses. It is required for viral genome packaging and for early infection process [, , ]. It is also found in eukaryotic proteins involved in RNA binding or single-stranded DNA binding []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 2L44_A 1A1T_A 1WWG_A 1U6P_A 1WWD_A 1WWE_A 1A6B_B 1F6U_A 1MFS_A 1NCP_C ....
Probab=97.35 E-value=0.0001 Score=45.36 Aligned_cols=18 Identities=50% Similarity=1.315 Sum_probs=16.5
Q ss_pred CccccCCCCCCCCCCCCC
Q 015479 115 SRCFNCGSYSHSLKECPK 132 (406)
Q Consensus 115 ~~CFNCG~~~HsLrdCP~ 132 (406)
..|||||+.+|..++||+
T Consensus 1 ~~C~~C~~~GH~~~~Cp~ 18 (18)
T PF00098_consen 1 RKCFNCGEPGHIARDCPK 18 (18)
T ss_dssp SBCTTTSCSSSCGCTSSS
T ss_pred CcCcCCCCcCcccccCcc
Confidence 379999999999999995
No 8
>PF14392 zf-CCHC_4: Zinc knuckle
Probab=91.83 E-value=0.063 Score=40.04 Aligned_cols=19 Identities=58% Similarity=1.183 Sum_probs=17.5
Q ss_pred CCccccCCCCCCCCCCCCC
Q 015479 114 ASRCFNCGSYSHSLKECPK 132 (406)
Q Consensus 114 ~~~CFNCG~~~HsLrdCP~ 132 (406)
...||+||..+|..++||+
T Consensus 31 p~~C~~C~~~gH~~~~C~k 49 (49)
T PF14392_consen 31 PRFCFHCGRIGHSDKECPK 49 (49)
T ss_pred ChhhcCCCCcCcCHhHcCC
Confidence 4789999999999999985
No 9
>smart00343 ZnF_C2HC zinc finger.
Probab=90.69 E-value=0.12 Score=33.57 Aligned_cols=18 Identities=44% Similarity=1.309 Sum_probs=16.1
Q ss_pred ccccCCCCCCCCCCCCCc
Q 015479 116 RCFNCGSYSHSLKECPKP 133 (406)
Q Consensus 116 ~CFNCG~~~HsLrdCP~P 133 (406)
.||+||..+|..++||..
T Consensus 1 ~C~~CG~~GH~~~~C~~~ 18 (26)
T smart00343 1 KCYNCGKEGHIARDCPKX 18 (26)
T ss_pred CCccCCCCCcchhhCCcc
Confidence 499999999999999944
No 10
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=90.41 E-value=0.16 Score=48.42 Aligned_cols=20 Identities=40% Similarity=1.154 Sum_probs=18.2
Q ss_pred cCCCccccCCCCCCCCCCCC
Q 015479 112 DDASRCFNCGSYSHSLKECP 131 (406)
Q Consensus 112 ~~~~~CFNCG~~~HsLrdCP 131 (406)
.....|||||+.+|..+|||
T Consensus 58 ~~~~~C~nCg~~GH~~~DCP 77 (190)
T COG5082 58 EENPVCFNCGQNGHLRRDCP 77 (190)
T ss_pred ccccccchhcccCcccccCC
Confidence 34689999999999999999
No 11
>PF13696 zf-CCHC_2: Zinc knuckle
Probab=87.40 E-value=0.25 Score=34.99 Aligned_cols=21 Identities=29% Similarity=0.828 Sum_probs=18.5
Q ss_pred CCCccccCCCCCCCCCCCCCc
Q 015479 113 DASRCFNCGSYSHSLKECPKP 133 (406)
Q Consensus 113 ~~~~CFNCG~~~HsLrdCP~P 133 (406)
..-.|+-|+..+|-++|||.-
T Consensus 7 ~~Y~C~~C~~~GH~i~dCP~~ 27 (32)
T PF13696_consen 7 PGYVCHRCGQKGHWIQDCPTN 27 (32)
T ss_pred CCCEeecCCCCCccHhHCCCC
Confidence 346899999999999999983
No 12
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=86.26 E-value=0.59 Score=41.31 Aligned_cols=22 Identities=36% Similarity=0.925 Sum_probs=17.4
Q ss_pred CCccccCCCCCCCCCCCCCccC
Q 015479 114 ASRCFNCGSYSHSLKECPKPRD 135 (406)
Q Consensus 114 ~~~CFNCG~~~HsLrdCP~Prd 135 (406)
...||||+..+|..++||.+++
T Consensus 27 ~~~C~~Cg~~GH~~~~Cp~~~~ 48 (148)
T PTZ00368 27 ARPCYKCGEPGHLSRECPSAPG 48 (148)
T ss_pred CccCccCCCCCcCcccCcCCCC
Confidence 5678888888888888888764
No 13
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=86.03 E-value=0.41 Score=42.32 Aligned_cols=20 Identities=35% Similarity=1.022 Sum_probs=18.1
Q ss_pred CccccCCCCCCCCCCCCCcc
Q 015479 115 SRCFNCGSYSHSLKECPKPR 134 (406)
Q Consensus 115 ~~CFNCG~~~HsLrdCP~Pr 134 (406)
+.||||+..+|..++||.+.
T Consensus 1 ~~C~~C~~~GH~~~~c~~~~ 20 (148)
T PTZ00368 1 MVCYRCGGVGHQSRECPNSA 20 (148)
T ss_pred CcCCCCCCCCcCcccCcCCC
Confidence 47999999999999999964
No 14
>PF15288 zf-CCHC_6: Zinc knuckle
Probab=76.30 E-value=1.6 Score=32.37 Aligned_cols=20 Identities=40% Similarity=0.946 Sum_probs=17.0
Q ss_pred CccccCCCCCCCC--CCCCCcc
Q 015479 115 SRCFNCGSYSHSL--KECPKPR 134 (406)
Q Consensus 115 ~~CFNCG~~~HsL--rdCP~Pr 134 (406)
.+|-|||+.+|.- +.||.-.
T Consensus 2 ~kC~~CG~~GH~~t~k~CP~~~ 23 (40)
T PF15288_consen 2 VKCKNCGAFGHMRTNKRCPMYC 23 (40)
T ss_pred ccccccccccccccCccCCCCC
Confidence 5899999999988 7898644
No 15
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=74.09 E-value=1.6 Score=41.87 Aligned_cols=18 Identities=33% Similarity=1.075 Sum_probs=16.4
Q ss_pred CCccccCCCCCCCCCCCC
Q 015479 114 ASRCFNCGSYSHSLKECP 131 (406)
Q Consensus 114 ~~~CFNCG~~~HsLrdCP 131 (406)
...|||||..+|.-+||+
T Consensus 97 ~~~C~~Cg~~GH~~~dC~ 114 (190)
T COG5082 97 PKKCYNCGETGHLSRDCN 114 (190)
T ss_pred ccccccccccCccccccC
Confidence 378999999999999995
No 16
>PF13917 zf-CCHC_3: Zinc knuckle
Probab=70.81 E-value=2.7 Score=31.33 Aligned_cols=19 Identities=42% Similarity=0.915 Sum_probs=17.6
Q ss_pred CCccccCCCCCCCCCCCCC
Q 015479 114 ASRCFNCGSYSHSLKECPK 132 (406)
Q Consensus 114 ~~~CFNCG~~~HsLrdCP~ 132 (406)
...|-||++.+|-..+||.
T Consensus 4 ~~~CqkC~~~GH~tyeC~~ 22 (42)
T PF13917_consen 4 RVRCQKCGQKGHWTYECPN 22 (42)
T ss_pred CCcCcccCCCCcchhhCCC
Confidence 4789999999999999995
No 17
>KOG4400 consensus E3 ubiquitin ligase interacting with arginine methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=69.89 E-value=2.2 Score=41.20 Aligned_cols=19 Identities=32% Similarity=1.104 Sum_probs=17.7
Q ss_pred CccccCCCCCCCCCCCCCc
Q 015479 115 SRCFNCGSYSHSLKECPKP 133 (406)
Q Consensus 115 ~~CFNCG~~~HsLrdCP~P 133 (406)
..|||||..+|.-.+||++
T Consensus 144 ~~Cy~Cg~~GH~s~~C~~~ 162 (261)
T KOG4400|consen 144 AKCYSCGEQGHISDDCPEN 162 (261)
T ss_pred CccCCCCcCCcchhhCCCC
Confidence 4599999999999999988
No 18
>KOG4400 consensus E3 ubiquitin ligase interacting with arginine methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=63.81 E-value=3.3 Score=39.96 Aligned_cols=23 Identities=39% Similarity=0.985 Sum_probs=20.4
Q ss_pred CCccccCCCCCCCCCCCCCccCH
Q 015479 114 ASRCFNCGSYSHSLKECPKPRDK 136 (406)
Q Consensus 114 ~~~CFNCG~~~HsLrdCP~Prd~ 136 (406)
...||||+...|..++||.+...
T Consensus 92 ~~~c~~C~~~gH~~~~c~~~~~~ 114 (261)
T KOG4400|consen 92 AAACFNCGEGGHIERDCPEAGKE 114 (261)
T ss_pred chhhhhCCCCccchhhCCcccCc
Confidence 57899999999999999998876
No 19
>TIGR03290 CoB_CoM_SS_C CoB--CoM heterodisulfide reductase, subunit C. The last step in methanogenesis leaves two coenzymes of methanogenesis, CoM and CoB, linked by a disulfide bond. Members of this protein family are the C subunit of the enzyme that reduces the heterodisulfide to CoB-SH and CoM-SH. Similar enzyme complex subunits are found in various other species, but likely act on a different substrate.
Probab=56.97 E-value=3.7 Score=36.26 Aligned_cols=75 Identities=17% Similarity=0.205 Sum_probs=40.6
Q ss_pred CccccCCCCCCCCCCCCCccCHH-HHHHHHHHHHHhhccCCCCCCCceeeecccCCccCCCCCCcCCHHHHHHhCCCCCC
Q 015479 115 SRCFNCGSYSHSLKECPKPRDKD-AVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELD 193 (406)
Q Consensus 115 ~~CFNCG~~~HsLrdCP~Prd~a-~In~~Rk~f~~~r~q~~~sr~GdrYye~k~e~k~~~~kPG~LS~eLReALGm~~~d 193 (406)
-.|++||. -..-||.-.+.. .|...|+... ..+... ..+.. ..+.-. ..-..+.-..+..+||+++|++ .
T Consensus 46 ~~C~~Cg~---C~~~CP~~i~~~~~i~~~R~~~~-~~g~~~-~~~~~-~~~~~~-~~g~~~~~~~~~~~lr~~~g~~--~ 116 (144)
T TIGR03290 46 WMCTTCYT---CQERCPRDVKITDIIKALRNLAA-KKGFMA-KAHRK-TASFVL-KTGHAVPINDEIKELRKELGLD--E 116 (144)
T ss_pred CcCcCcCc---hhhhcCCCCCHHHHHHHHHHHHH-HcCCCC-HHHHH-HHHHHH-HHCCCCCccHHHHHHHHHcCCC--C
Confidence 47998887 667899999976 4444454432 221110 00000 111100 0012345556778899999986 4
Q ss_pred ChHHH
Q 015479 194 PPPWL 198 (406)
Q Consensus 194 pPPWL 198 (406)
.|+|.
T Consensus 117 ~p~~~ 121 (144)
T TIGR03290 117 IPPTT 121 (144)
T ss_pred CCCcc
Confidence 56776
No 20
>PF12353 eIF3g: Eukaryotic translation initiation factor 3 subunit G ; InterPro: IPR024675 At least eleven different protein factors are involved in initiation of protein synthesis in eukaryotes. Binding of initiator tRNA and mRNA to the 40S subunit requires the presence of the translation initiation factors eIF-2 and eIF-3, with eIF-3 being particularly important for 80S ribosome dissociation and mRNA binding []. eIF-3 is the most complex translation inititation factor, consisting of about 13 putative subunits and having a molecular weight of between 550 - 700 kDa in mammalian cells. Subunits are designated eIF-3a - eIF-3m; the large number of subunits means that the interactions between the individual subunits that make up the eIF-3 complex are complex and varied. Subunit G is required for eIF3 integrity. This entry represents a domain of approximately 130 amino acids in length found at the N terminus of eukaryotic translation initiation factor 3 subunit G. This domain is commonly found in association with the RNA recognition domain PF00076 from PFAM.
Probab=44.24 E-value=12 Score=33.37 Aligned_cols=19 Identities=26% Similarity=0.672 Sum_probs=16.8
Q ss_pred CCCccccCCCCCCCCCCCCC
Q 015479 113 DASRCFNCGSYSHSLKECPK 132 (406)
Q Consensus 113 ~~~~CFNCG~~~HsLrdCP~ 132 (406)
....|.+|++ +|--..||.
T Consensus 105 ~~v~CR~CkG-dH~T~~CPy 123 (128)
T PF12353_consen 105 SKVKCRICKG-DHWTSKCPY 123 (128)
T ss_pred ceEEeCCCCC-CcccccCCc
Confidence 3578999997 999999996
No 21
>KOG2044 consensus 5'-3' exonuclease HKE1/RAT1 [Replication, recombination and repair; RNA processing and modification]
Probab=39.99 E-value=12 Score=42.79 Aligned_cols=50 Identities=32% Similarity=0.552 Sum_probs=31.3
Q ss_pred CCccccccccccccCC------CCCCcCCCccccc------CCCccccCCCCCCCCCCCCCc
Q 015479 84 TPLYDRGYALGLTSGD------GSSNLEGGLEIID------DASRCFNCGSYSHSLKECPKP 133 (406)
Q Consensus 84 VPlYdr~~~~~L~s~D------g~s~~e~~~Ei~~------~~~~CFNCG~~~HsLrdCP~P 133 (406)
-|-||-....-|-++| |...-|-.+.|+. +..+||-||+.+|.++||.--
T Consensus 218 ~P~~dPNT~HclyGlDADLImLgLATHE~hF~IlRE~~~P~~~~~C~~cgq~gh~~~dc~g~ 279 (931)
T KOG2044|consen 218 QPGYDPNTHHCLYGLDADLIMLGLATHEPHFSILREEFFPNKPRRCFLCGQTGHEAKDCEGK 279 (931)
T ss_pred CCCCCCCceeeeecCCccceeeeccccCCceEEeeeeecCCCcccchhhcccCCcHhhcCCc
Confidence 3677666555443333 4443343333322 357899999999999999743
No 22
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=35.52 E-value=18 Score=39.41 Aligned_cols=19 Identities=26% Similarity=0.600 Sum_probs=17.2
Q ss_pred CccccCCCCCCCCCCCCCc
Q 015479 115 SRCFNCGSYSHSLKECPKP 133 (406)
Q Consensus 115 ~~CFNCG~~~HsLrdCP~P 133 (406)
..||+||..+|..+||+..
T Consensus 286 n~c~~cg~~gH~~~dc~~~ 304 (554)
T KOG0119|consen 286 NVCKICGPLGHISIDCKVN 304 (554)
T ss_pred ccccccCCcccccccCCCc
Confidence 4899999999999999987
No 23
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=30.67 E-value=24 Score=36.62 Aligned_cols=23 Identities=30% Similarity=0.896 Sum_probs=19.9
Q ss_pred CCccccCCCCCCCCCCCCCccCH
Q 015479 114 ASRCFNCGSYSHSLKECPKPRDK 136 (406)
Q Consensus 114 ~~~CFNCG~~~HsLrdCP~Prd~ 136 (406)
.-.||-||+-+|-++.||---|-
T Consensus 176 gY~CyRCGqkgHwIqnCpTN~Dp 198 (427)
T COG5222 176 GYVCYRCGQKGHWIQNCPTNQDP 198 (427)
T ss_pred ceeEEecCCCCchhhcCCCCCCC
Confidence 46899999999999999976653
No 24
>PF15127 DUF4565: Protein of unknown function (DUF4565)
Probab=29.05 E-value=48 Score=28.74 Aligned_cols=21 Identities=33% Similarity=0.582 Sum_probs=16.7
Q ss_pred hHHHHHHHHHHHHHHHHHHhh
Q 015479 8 IASKQKLEELLQQWSEWQAQF 28 (406)
Q Consensus 8 r~sk~kl~e~lq~Wsew~a~~ 28 (406)
|=|+.-|..+||||.+=..+.
T Consensus 60 rLSqEIl~dAlqQWA~~n~kY 80 (91)
T PF15127_consen 60 RLSQEILSDALQQWAENNIKY 80 (91)
T ss_pred HHHHHHHHHHHHHHHHhCccc
Confidence 567888999999998765544
No 25
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=27.86 E-value=30 Score=35.84 Aligned_cols=24 Identities=46% Similarity=0.919 Sum_probs=21.9
Q ss_pred CCCccccCCCCCCCCCCCCCccCH
Q 015479 113 DASRCFNCGSYSHSLKECPKPRDK 136 (406)
Q Consensus 113 ~~~~CFNCG~~~HsLrdCP~Prd~ 136 (406)
+..-|.-||-++|--++||.+++-
T Consensus 159 Dq~~cyrcGkeghwskEcP~~~~~ 182 (346)
T KOG0109|consen 159 DQSGCYRCGKEGHWSKECPVDRTG 182 (346)
T ss_pred CHHHheeccccccccccCCccCCC
Confidence 357899999999999999999986
No 26
>KOG2560 consensus RNA splicing factor - Slu7p [RNA processing and modification]
Probab=27.54 E-value=14 Score=39.88 Aligned_cols=19 Identities=37% Similarity=0.945 Sum_probs=17.2
Q ss_pred CCCccccCCCCCCCCCCCC
Q 015479 113 DASRCFNCGSYSHSLKECP 131 (406)
Q Consensus 113 ~~~~CFNCG~~~HsLrdCP 131 (406)
++..|-|||.-.|..+||=
T Consensus 111 RKGACeNCGAmtHk~KDCm 129 (529)
T KOG2560|consen 111 RKGACENCGAMTHKVKDCM 129 (529)
T ss_pred hhhhhhhhhhhhcchHHHh
Confidence 4689999999999999994
No 27
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=26.35 E-value=39 Score=24.90 Aligned_cols=17 Identities=41% Similarity=0.674 Sum_probs=14.4
Q ss_pred CCccccCCCCCCCCCCC
Q 015479 114 ASRCFNCGSYSHSLKEC 130 (406)
Q Consensus 114 ~~~CFNCG~~~HsLrdC 130 (406)
..-||+|+..-|.-..|
T Consensus 48 ~~fC~~C~~~~H~~~~C 64 (64)
T smart00647 48 FSFCFRCKVPWHSPVSC 64 (64)
T ss_pred CeECCCCCCcCCCCCCC
Confidence 47799999999987766
No 28
>PF05515 Viral_NABP: Viral nucleic acid binding ; InterPro: IPR008891 This family is common to ssRNA positive-strand viruses and are commonly described as nucleic acid binding proteins (NABP).
Probab=25.56 E-value=48 Score=30.13 Aligned_cols=18 Identities=44% Similarity=1.121 Sum_probs=16.5
Q ss_pred CCccccCCCCCCCCCCCC
Q 015479 114 ASRCFNCGSYSHSLKECP 131 (406)
Q Consensus 114 ~~~CFNCG~~~HsLrdCP 131 (406)
-.+||+||.+.|.-..|.
T Consensus 62 ~~~C~~CG~~l~~~~~C~ 79 (124)
T PF05515_consen 62 YNRCFKCGRYLHNNGNCR 79 (124)
T ss_pred hCccccccceeecCCcCC
Confidence 389999999999999999
No 29
>TIGR02663 nifX nitrogen fixation protein NifX. Members of this family are NifX proteins encoded within operons for nitrogen fixation in a number of bacteria. NifX, NafY, and the C-terminal region of NifB all belong to the Pfam family pfam02579 and are involved in MoFe cofactor biosynthesis. NifX is a nitrogenase accessory protein with a role in expression of the MoFe cofactor.
Probab=23.01 E-value=34 Score=29.35 Aligned_cols=26 Identities=27% Similarity=0.658 Sum_probs=17.3
Q ss_pred CCcCCHHHHHHhCCCCCCChHHHHHH
Q 015479 176 PGALDAETRQLLGLGELDPPPWLHRM 201 (406)
Q Consensus 176 PG~LS~eLReALGm~~~dpPPWL~rM 201 (406)
+|.|.+.|.+-..+-.+.|||||.|-
T Consensus 93 ~~~v~eal~~l~~~~~~~~~~w~~~~ 118 (119)
T TIGR02663 93 PESISELLERLQKMLKGNPPPWLRKA 118 (119)
T ss_pred CccHHHHHHHHHHHHcCCCCHHHHhh
Confidence 45566665544445558999999873
No 30
>KOG1818 consensus Membrane trafficking and cell signaling protein HRS, contains VHS and FYVE domains [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=22.51 E-value=53 Score=36.83 Aligned_cols=23 Identities=30% Similarity=0.455 Sum_probs=19.2
Q ss_pred CCCccccCCC---CCCCCCCCCCccC
Q 015479 113 DASRCFNCGS---YSHSLKECPKPRD 135 (406)
Q Consensus 113 ~~~~CFNCG~---~~HsLrdCP~Prd 135 (406)
++-.|||||+ ..|+.++|+.|+=
T Consensus 180 rkHHCr~CG~vFC~qcss~s~~lP~~ 205 (634)
T KOG1818|consen 180 RKHHCRNCGQVFCGQCSSKSLTLPKL 205 (634)
T ss_pred ccccccccchhhccCccccccCcccc
Confidence 4579999997 3799999999974
No 31
>KOG0525 consensus Branched chain alpha-keto acid dehydrogenase E1, beta subunit [Energy production and conversion]
Probab=21.64 E-value=59 Score=33.27 Aligned_cols=72 Identities=28% Similarity=0.264 Sum_probs=47.2
Q ss_pred CCCCceeeecccCCccCCCCCC---cCCHHHHHHhCCC------CCC----ChHHHHHHHhcCCCCC-CCCC----CCCC
Q 015479 156 SRNPMRYYQNSAGGKYDGLRPG---ALDAETRQLLGLG------ELD----PPPWLHRMRELGYPPG-YLDS----EDDD 217 (406)
Q Consensus 156 sr~GdrYye~k~e~k~~~~kPG---~LS~eLReALGm~------~~d----pPPWL~rMr~~GyPPg-Y~~~----a~~~ 217 (406)
-++|..||....|.-|.+ .|| +|-..-|+|-||- +|- -|-||||...--.|-+ |.-+ +...
T Consensus 159 vghg~~yhsqspeaff~h-~pgikvviprsp~qakglllscirdpnp~iffepk~lyr~a~edvp~~dy~iplsqaevir 237 (362)
T KOG0525|consen 159 VGHGALYHSQSPEAFFCH-VPGIKVVIPRSPRQAKGLLLSCIRDPNPCIFFEPKILYRQAVEDVPEGDYMIPLSQAEVIR 237 (362)
T ss_pred cccccccccCCchhheec-CCCceEEecCCcchhhceeeeeccCCCceEEechHHHHHHhhhhCCCCCccccccHHHHhh
Confidence 467888887777766655 788 3566678998862 332 6999999998877765 4432 1223
Q ss_pred CCCCceeecCC
Q 015479 218 QPSGITIYADG 228 (406)
Q Consensus 218 q~SGl~if~Dg 228 (406)
+-+.|++-+=|
T Consensus 238 eg~ditlv~wg 248 (362)
T KOG0525|consen 238 EGSDITLVAWG 248 (362)
T ss_pred cCCceEEEEcc
Confidence 45667766544
No 32
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=21.22 E-value=56 Score=24.02 Aligned_cols=21 Identities=33% Similarity=0.594 Sum_probs=13.0
Q ss_pred CccccCCCCCCCCCCCCCccC
Q 015479 115 SRCFNCGSYSHSLKECPKPRD 135 (406)
Q Consensus 115 ~~CFNCG~~~HsLrdCP~Prd 135 (406)
..||.|+--.|-.++|-.-.|
T Consensus 3 ~~CprC~kg~Hwa~~C~sk~d 23 (36)
T PF14787_consen 3 GLCPRCGKGFHWASECRSKTD 23 (36)
T ss_dssp -C-TTTSSSCS-TTT---TCC
T ss_pred ccCcccCCCcchhhhhhhhhc
Confidence 579999999999999965544
Done!