Query 013677
Match_columns 438
No_of_seqs 183 out of 248
Neff 3.5
Searched_HMMs 46136
Date Fri Mar 29 06:16:51 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/013677.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/013677hhsearch_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 1.4E-46 3E-51 383.3 12.1 295 58-386 45-344 (485)
2 KOG2330 Splicing factor 3b, su 99.9 7.3E-24 1.6E-28 216.1 7.3 82 187-311 251-333 (500)
3 smart00581 PSP proline-rich do 99.9 2.1E-23 4.6E-28 160.8 5.8 42 203-244 1-42 (54)
4 PF04046 PSP: PSP; InterPro: 99.8 4.2E-21 9.1E-26 145.1 5.2 38 207-244 1-38 (48)
5 COG5182 CUS1 Splicing factor 3 99.7 1.1E-18 2.3E-23 174.8 6.2 81 187-310 258-341 (429)
6 KOG2673 Uncharacterized conser 98.7 1E-08 2.3E-13 106.8 4.1 137 159-298 1-141 (485)
7 PF00098 zf-CCHC: Zinc knuckle 97.3 0.00012 2.6E-09 45.5 1.4 18 147-164 1-18 (18)
8 PF14392 zf-CCHC_4: Zinc knuck 91.3 0.072 1.6E-06 40.1 0.4 19 146-164 31-49 (49)
9 smart00343 ZnF_C2HC zinc finge 90.1 0.14 3.1E-06 33.6 1.0 18 148-165 1-18 (26)
10 COG5082 AIR1 Arginine methyltr 89.6 0.16 3.6E-06 48.8 1.4 19 145-163 59-77 (190)
11 PF13696 zf-CCHC_2: Zinc knuck 89.4 0.16 3.5E-06 36.3 0.9 20 145-164 7-26 (32)
12 PTZ00368 universal minicircle 85.0 0.54 1.2E-05 41.9 1.9 23 145-167 26-48 (148)
13 PTZ00368 universal minicircle 84.9 0.47 1E-05 42.3 1.5 20 147-166 1-20 (148)
14 PF15288 zf-CCHC_6: Zinc knuck 76.9 1.4 3.1E-05 33.0 1.4 19 146-164 1-21 (40)
15 COG5082 AIR1 Arginine methyltr 73.8 1.6 3.4E-05 42.2 1.2 18 146-163 97-114 (190)
16 PF13917 zf-CCHC_3: Zinc knuck 68.7 3 6.6E-05 31.4 1.5 19 146-164 4-22 (42)
17 KOG4400 E3 ubiquitin ligase in 67.7 2.6 5.7E-05 41.1 1.2 19 147-165 144-162 (261)
18 KOG4400 E3 ubiquitin ligase in 58.5 4.4 9.6E-05 39.5 0.9 23 146-168 92-114 (261)
19 TIGR03290 CoB_CoM_SS_C CoB--Co 48.9 5.6 0.00012 35.5 -0.0 75 147-230 46-121 (144)
20 PF12353 eIF3g: Eukaryotic tra 45.8 11 0.00024 34.0 1.3 19 145-164 105-123 (128)
21 KOG2044 5'-3' exonuclease HKE1 41.6 11 0.00024 43.5 0.7 50 116-165 218-279 (931)
22 KOG0119 Splicing factor 1/bran 35.9 17 0.00036 40.1 1.0 19 147-165 286-304 (554)
23 KOG0119 Splicing factor 1/bran 33.9 11 0.00023 41.5 -0.7 20 146-165 261-280 (554)
24 COG5222 Uncharacterized conser 31.2 26 0.00057 36.7 1.5 22 146-167 176-197 (427)
25 KOG0109 RNA-binding protein LA 26.8 32 0.0007 35.9 1.3 24 145-168 159-182 (346)
26 KOG2560 RNA splicing factor - 26.1 15 0.00033 40.1 -1.2 19 145-163 111-129 (529)
27 TIGR02663 nifX nitrogen fixati 23.5 33 0.00073 29.7 0.6 26 208-233 93-118 (119)
28 smart00647 IBR In Between Ring 23.3 45 0.00098 24.8 1.2 17 146-162 48-64 (64)
29 PF05515 Viral_NABP: Viral nuc 23.2 57 0.0012 29.9 2.0 18 146-163 62-79 (124)
30 PTZ00065 60S ribosomal protein 21.5 1.1E+02 0.0023 28.3 3.4 49 7-55 37-90 (130)
31 KOG0525 Branched chain alpha-k 20.7 62 0.0013 33.4 1.9 72 188-260 159-248 (362)
No 1
>KOG2673 consensus Uncharacterized conserved protein, contains PSP domain [Function unknown]
Probab=100.00 E-value=1.4e-46 Score=383.32 Aligned_cols=295 Identities=32% Similarity=0.524 Sum_probs=227.8
Q ss_pred HhhcCCCCC-CCcceeccccceecceeccCCCCCceeEEEecCCcccccCCCcCCCCCCCCccccccccccccCCCCCCc
Q 013677 58 AQFGSSSND-PNEGIEFGEQTFFPAIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTSGDGSSNL 136 (438)
Q Consensus 58 A~~~~~s~d-~~e~~esG~~t~fpa~~vg~~k~~avsF~~D~~~~~~~n~~~~~~~~~eVPlYdr~~~~~L~s~Dg~s~~ 136 (438)
++..+...+ ..+++.+++.+|+| +.+++.+..+++||++++....--+++.+.+... ||.++.+|.+.+++.++
T Consensus 45 ~r~esg~i~~qqd~l~~te~a~~~-fr~~~qe~~t~s~wl~~~~~ek~gedl~~~e~~t----dr~~a~~l~sq~~s~tv 119 (485)
T KOG2673|consen 45 GRFESGVISEQQDLLGVTEKAFPP-FRYRMQELGTPSFWLKNAELEKSGEDLYLGEDST----DRETAVGLISQNKSVTV 119 (485)
T ss_pred ccccccccchHHHHhhcccccccc-hhhhHHhhcCchhhhhhcccccChhhhccccccc----cccceecccccccchhh
Confidence 433333333 46788887778887 8899999999999999999887777777666653 99999999999999988
Q ss_pred CCCcccccCCCceeccCCCCCCCCCCCCccCHHHHHHHHHHHHhhhccCCCCCCCceEeecccCccccCCCCCcCCHHHH
Q 013677 137 EGGLEIIDDASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRPGALDAETR 216 (438)
Q Consensus 137 e~~~Ei~~~~~~CFNCG~~~HsLrdCP~PRd~a~In~~Rk~f~~~r~q~~~sr~GdrYyegk~e~k~~~fkPG~LS~eLR 216 (438)
+++..|.. .-.|||||++.|+|+|||+|+|+++|+.+||+++..++| |||....-++++|||||+||.+||
T Consensus 120 ek~~~v~~-~~~CFNC~g~~hsLrdC~rp~d~s~I~r~rkek~~~rnq--------ry~~~teq~re~h~KPG~lS~~~R 190 (485)
T KOG2673|consen 120 EKSKLVNK-CDPCFNCGGTPHSLRDCPRPFDFSRIQRARKEKMVFRNQ--------RYYQDTEQGREDHFKPGVLSGNTR 190 (485)
T ss_pred hhhhhhcc-CccccccCCCCCccccCCCccccHHHHHHHHhhccccce--------eeeeecchhhhcccCCcccchhHH
Confidence 88766654 455999999999999999999999999999999887764 899887666999999999999999
Q ss_pred HHhCCCCCCChHHHHHHHhcCCCCCCCCCCCCCCCCCeeeecCCCccCCCCCcchhccCCCCCCCeeeeecCCCCCC-CC
Q 013677 217 QLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIKEGQEDGEIIETGRPASKRKMTTEFPGINAP-IP 295 (438)
Q Consensus 217 eALGm~~~dpPPWL~rMr~~GyPPgYp~~a~~~q~SGl~IF~Dg~~~~~~EDgEi~e~~~~~~~~kk~V~fPGFNaP-iP 295 (438)
.|||+.+++||+|+||||++||||||+.++ ..+.+||+||+... .++|.|+.....|+++.+|++.|||||.+ .|
T Consensus 191 ~al~l~~~d~P~~~yRMR~lGYPPg~L~~s-~~e~s~i~if~eet---~~~dee~ese~PP~~~~~K~~~f~gfn~~~~p 266 (485)
T KOG2673|consen 191 SALGLSPGDPPEWKYRMRRLGYPPGYLRKS-DMEVSGIKIFSEET---FQFDEELESETPPEPQGTKPVVFPGFNPKGTP 266 (485)
T ss_pred HhhcCCCCCchHHHHHHhhccCCchhhhhh-hcccccceeecccc---cccCcccCCCCCCCCCCCCCcccCCCCCCCCC
Confidence 999999999999999999999999999987 56899999997222 22222332334678899999999999999 99
Q ss_pred CCcchhccccCCCCCCcccccccccccCCCCCccccccccccccccccCCCCCCCCCCCCCCCCCCC-CCC-CCC-CCCC
Q 013677 296 ENADERLWAARPSSSDSSRDRSHHRLNHHSESISRGRYHEQRWSRDYRDDGPPGVDPVSSYPPRYGG-YDY-YSS-HSRS 372 (438)
Q Consensus 296 ~gad~~~wg~~P~~~~~~r~~~~~~~~~~~e~~~r~~~~~~r~~~~~~d~gp~g~~~~~~~~pr~~~-~~~-y~~-~~~~ 372 (438)
+...++.|.. ..++|+..-+.. .-.-...++++|+|.|++++.++++++|. +|. |.. ..+|
T Consensus 267 ~~~~e~~ke~---~r~~s~s~~q~~-------------l~~~~l~~k~~dl~~~~e~s~~~~~~~~t~~D~~~~~~~~~s 330 (485)
T KOG2673|consen 267 PNDREDSKEA---PRDASCSVDQDA-------------LTLSRLEKKQRDLPAGLEQSESAPSDSGTEVDDPLTENEVAS 330 (485)
T ss_pred CCChhhcccc---cchhhhhhhHHH-------------hhhhHHHHHhhhcccccccccCCCcccCCccccccccccccc
Confidence 9999888876 234443211111 11111237889999999999999999998 666 322 1112
Q ss_pred CCCCCCCCCCCCCc
Q 013677 373 PTRGRSYSDRDRDD 386 (438)
Q Consensus 373 p~~~rs~sdr~~~~ 386 (438)
-...++++-++-++
T Consensus 331 ~~~~~sl~~p~~ed 344 (485)
T KOG2673|consen 331 EPRPNSLDLPVPED 344 (485)
T ss_pred ccCCcccCCCCCCC
Confidence 22225666666554
No 2
>KOG2330 consensus Splicing factor 3b, subunit 2 [RNA processing and modification]
Probab=99.89 E-value=7.3e-24 Score=216.15 Aligned_cols=82 Identities=33% Similarity=0.638 Sum_probs=76.5
Q ss_pred CCCCCceEeecc-cCccccCCCCCcCCHHHHHHhCCCCCCChHHHHHHHhcCCCCCCCCCCCCCCCCCeeeecCCCccCC
Q 013677 187 ASRNPMRYYQNS-AGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIKEG 265 (438)
Q Consensus 187 ~sr~GdrYyegk-~e~k~~~fkPG~LS~eLReALGm~~~dpPPWL~rMr~~GyPPgYp~~a~~~q~SGl~IF~Dg~~~~~ 265 (438)
.+.+|+.||+++ .+..+++.+||.||+|||.||||+.+.|||||++||++|+|||||+
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 578999999998 5677899999999999999999999999999999999999999995
Q ss_pred CCCcchhccCCCCCCCeeeeecCCCCCCCCCCcchhccccCCCCCC
Q 013677 266 QEDGEIIETGRPASKRKMTTEFPGINAPIPENADERLWAARPSSSD 311 (438)
Q Consensus 266 ~EDgEi~e~~~~~~~~kk~V~fPGFNaPiP~gad~~~wg~~P~~~~ 311 (438)
++|||+|+|||+|+. ||++|++|.
T Consensus 310 -------------------lkIpGLNapIPeg~s---~Gyh~gGWG 333 (500)
T KOG2330|consen 310 -------------------LKIPGLNAPIPEGCS---FGYHAGGWG 333 (500)
T ss_pred -------------------ccCCCCCCCCCcccc---cccccCCCc
Confidence 789999999999999 888888773
No 3
>smart00581 PSP proline-rich domain in spliceosome associated proteins.
Probab=99.88 E-value=2.1e-23 Score=160.84 Aligned_cols=42 Identities=52% Similarity=1.112 Sum_probs=40.7
Q ss_pred ccCCCCCcCCHHHHHHhCCCCCCChHHHHHHHhcCCCCCCCC
Q 013677 203 YDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLD 244 (438)
Q Consensus 203 ~~~fkPG~LS~eLReALGm~~~dpPPWL~rMr~~GyPPgYp~ 244 (438)
|++||||+||+|||+||||.++++||||++||++|||||||+
T Consensus 1 ~~~~kPG~lS~~LR~ALG~~~~~pPPWl~~Mq~~G~PPsYp~ 42 (54)
T smart00581 1 FKHFKPGRISDELREALGLPPGQPPPWLYRMRRLGYPPGYPR 42 (54)
T ss_pred CCCccCCcCCHHHHHHcCCCCCCCChHHHHHHHHCCCCCCcc
Confidence 578999999999999999999999999999999999999995
No 4
>PF04046 PSP: PSP; InterPro: IPR006568 PSP is a proline-rich domain of unknown function found in spliceosome associated proteins.
Probab=99.83 E-value=4.2e-21 Score=145.09 Aligned_cols=38 Identities=66% Similarity=1.307 Sum_probs=37.0
Q ss_pred CCCcCCHHHHHHhCCCCCCChHHHHHHHhcCCCCCCCC
Q 013677 207 RPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLD 244 (438)
Q Consensus 207 kPG~LS~eLReALGm~~~dpPPWL~rMr~~GyPPgYp~ 244 (438)
|||+||++||+||||.++++||||++||++||||||++
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 79999999999999999999999999999999999974
No 5
>COG5182 CUS1 Splicing factor 3b, subunit 2 [RNA processing and modification]
Probab=99.75 E-value=1.1e-18 Score=174.80 Aligned_cols=81 Identities=38% Similarity=0.667 Sum_probs=70.5
Q ss_pred CCCCCceEeecc-cCccccCCCCCcCCHHHHHHhCCCCCCChHHHHHHHhcCCCCCCCCCCCCCCCCCeeeecCCCccCC
Q 013677 187 ASRNPMRYYQNS-AGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIKEG 265 (438)
Q Consensus 187 ~sr~GdrYyegk-~e~k~~~fkPG~LS~eLReALGm~~~dpPPWL~rMr~~GyPPgYp~~a~~~q~SGl~IF~Dg~~~~~ 265 (438)
.+.||+.||+++ .....++.+||.||+|||+||||.+++|||||.+||++|+|||||+
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 578999999998 4445689999999999999999999999999999999999999995
Q ss_pred CCCcchhccCCCCCCCeeeeecCCCC-CCCC-CCcchhccccCCCCC
Q 013677 266 QEDGEIIETGRPASKRKMTTEFPGIN-APIP-ENADERLWAARPSSS 310 (438)
Q Consensus 266 ~EDgEi~e~~~~~~~~kk~V~fPGFN-aPiP-~gad~~~wg~~P~~~ 310 (438)
++|||+| +++| +|.- ||+.|..|
T Consensus 317 -------------------lkIpGlNW~~~pL~Gdv---yG~~~p~~ 341 (429)
T COG5182 317 -------------------LKIPGLNWAPIPLEGDV---YGYQPPGW 341 (429)
T ss_pred -------------------ccCCCCCCCCccccccc---ccccCCCc
Confidence 7899999 8888 5544 77766655
No 6
>KOG2673 consensus Uncharacterized conserved protein, contains PSP domain [Function unknown]
Probab=98.69 E-value=1e-08 Score=106.81 Aligned_cols=137 Identities=22% Similarity=0.358 Sum_probs=102.5
Q ss_pred CCCCCCccCHHHHHHHHHHHHhhhccCCCCCCCceEeecccCccccCCCCCcCCHHHHHHhCCCCCCChHHHHHHHhcCC
Q 013677 159 LKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGY 238 (438)
Q Consensus 159 LrdCP~PRd~a~In~~Rk~f~~~r~q~~~sr~GdrYyegk~e~k~~~fkPG~LS~eLReALGm~~~dpPPWL~rMr~~Gy 238 (438)
+++||.|+| ++|+..|++++.+-..-+..-++.+++..........+.+|.|| ++.++|+-.+.+.+|++++||++|+
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 99999999998764333333456888877777888999999999 8899999999999999999999999
Q ss_pred CCCCCCCCCCCCCCCeeeecCCCc-cCCCCCcchhccCCCCCCCeeeeecC--CCCC-CCCCCc
Q 013677 239 PPGYLDSEDDDQPSGITIYADGEI-KEGQEDGEIIETGRPASKRKMTTEFP--GINA-PIPENA 298 (438)
Q Consensus 239 PPgYp~~a~~~q~SGl~IF~Dg~~-~~~~EDgEi~e~~~~~~~~kk~V~fP--GFNa-PiP~ga 298 (438)
|+.|++.+. .+.+|..||.-... +-..+.|.+..+.....+.++.|.++ =||. -.|.++
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 999998554 45788888842221 23455666655555555566666666 4544 456655
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=97.29 E-value=0.00012 Score=45.52 Aligned_cols=18 Identities=50% Similarity=1.315 Sum_probs=16.5
Q ss_pred CceeccCCCCCCCCCCCC
Q 013677 147 SRCFNCGSYSHSLKECPK 164 (438)
Q Consensus 147 ~~CFNCG~~~HsLrdCP~ 164 (438)
..|||||..+|..++||+
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=91.28 E-value=0.072 Score=40.11 Aligned_cols=19 Identities=58% Similarity=1.183 Sum_probs=17.5
Q ss_pred CCceeccCCCCCCCCCCCC
Q 013677 146 ASRCFNCGSYSHSLKECPK 164 (438)
Q Consensus 146 ~~~CFNCG~~~HsLrdCP~ 164 (438)
...||+||..+|..++||+
T Consensus 31 p~~C~~C~~~gH~~~~C~k 49 (49)
T PF14392_consen 31 PRFCFHCGRIGHSDKECPK 49 (49)
T ss_pred ChhhcCCCCcCcCHhHcCC
Confidence 4789999999999999994
No 9
>smart00343 ZnF_C2HC zinc finger.
Probab=90.12 E-value=0.14 Score=33.62 Aligned_cols=18 Identities=44% Similarity=1.309 Sum_probs=16.1
Q ss_pred ceeccCCCCCCCCCCCCc
Q 013677 148 RCFNCGSYSHSLKECPKP 165 (438)
Q Consensus 148 ~CFNCG~~~HsLrdCP~P 165 (438)
.||+||..+|..++||..
T Consensus 1 ~C~~CG~~GH~~~~C~~~ 18 (26)
T smart00343 1 KCYNCGKEGHIARDCPKX 18 (26)
T ss_pred CCccCCCCCcchhhCCcc
Confidence 499999999999999943
No 10
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=89.63 E-value=0.16 Score=48.78 Aligned_cols=19 Identities=42% Similarity=1.167 Sum_probs=17.8
Q ss_pred CCCceeccCCCCCCCCCCC
Q 013677 145 DASRCFNCGSYSHSLKECP 163 (438)
Q Consensus 145 ~~~~CFNCG~~~HsLrdCP 163 (438)
....|||||+.+|..+|||
T Consensus 59 ~~~~C~nCg~~GH~~~DCP 77 (190)
T COG5082 59 ENPVCFNCGQNGHLRRDCP 77 (190)
T ss_pred cccccchhcccCcccccCC
Confidence 4689999999999999999
No 11
>PF13696 zf-CCHC_2: Zinc knuckle
Probab=89.42 E-value=0.16 Score=36.28 Aligned_cols=20 Identities=30% Similarity=0.884 Sum_probs=18.1
Q ss_pred CCCceeccCCCCCCCCCCCC
Q 013677 145 DASRCFNCGSYSHSLKECPK 164 (438)
Q Consensus 145 ~~~~CFNCG~~~HsLrdCP~ 164 (438)
..-.|+-|+..+|-++|||.
T Consensus 7 ~~Y~C~~C~~~GH~i~dCP~ 26 (32)
T PF13696_consen 7 PGYVCHRCGQKGHWIQDCPT 26 (32)
T ss_pred CCCEeecCCCCCccHhHCCC
Confidence 35789999999999999997
No 12
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=84.96 E-value=0.54 Score=41.94 Aligned_cols=23 Identities=35% Similarity=0.892 Sum_probs=19.4
Q ss_pred CCCceeccCCCCCCCCCCCCccC
Q 013677 145 DASRCFNCGSYSHSLKECPKPRD 167 (438)
Q Consensus 145 ~~~~CFNCG~~~HsLrdCP~PRd 167 (438)
....||||+..+|..++||.+++
T Consensus 26 ~~~~C~~Cg~~GH~~~~Cp~~~~ 48 (148)
T PTZ00368 26 KARPCYKCGEPGHLSRECPSAPG 48 (148)
T ss_pred CCccCccCCCCCcCcccCcCCCC
Confidence 35789999999999999998764
No 13
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=84.91 E-value=0.47 Score=42.32 Aligned_cols=20 Identities=35% Similarity=1.022 Sum_probs=17.9
Q ss_pred CceeccCCCCCCCCCCCCcc
Q 013677 147 SRCFNCGSYSHSLKECPKPR 166 (438)
Q Consensus 147 ~~CFNCG~~~HsLrdCP~PR 166 (438)
+.||||+..+|..++||.+.
T Consensus 1 ~~C~~C~~~GH~~~~c~~~~ 20 (148)
T PTZ00368 1 MVCYRCGGVGHQSRECPNSA 20 (148)
T ss_pred CcCCCCCCCCcCcccCcCCC
Confidence 47999999999999999854
No 14
>PF15288 zf-CCHC_6: Zinc knuckle
Probab=76.90 E-value=1.4 Score=32.99 Aligned_cols=19 Identities=42% Similarity=1.081 Sum_probs=16.4
Q ss_pred CCceeccCCCCCCC--CCCCC
Q 013677 146 ASRCFNCGSYSHSL--KECPK 164 (438)
Q Consensus 146 ~~~CFNCG~~~HsL--rdCP~ 164 (438)
+.+|-|||+.+|.- +.||.
T Consensus 1 k~kC~~CG~~GH~~t~k~CP~ 21 (40)
T PF15288_consen 1 KVKCKNCGAFGHMRTNKRCPM 21 (40)
T ss_pred CccccccccccccccCccCCC
Confidence 36899999999988 78994
No 15
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=73.81 E-value=1.6 Score=42.25 Aligned_cols=18 Identities=33% Similarity=1.075 Sum_probs=16.5
Q ss_pred CCceeccCCCCCCCCCCC
Q 013677 146 ASRCFNCGSYSHSLKECP 163 (438)
Q Consensus 146 ~~~CFNCG~~~HsLrdCP 163 (438)
...|||||..+|.-+||+
T Consensus 97 ~~~C~~Cg~~GH~~~dC~ 114 (190)
T COG5082 97 PKKCYNCGETGHLSRDCN 114 (190)
T ss_pred ccccccccccCccccccC
Confidence 478999999999999995
No 16
>PF13917 zf-CCHC_3: Zinc knuckle
Probab=68.73 E-value=3 Score=31.37 Aligned_cols=19 Identities=42% Similarity=0.915 Sum_probs=17.6
Q ss_pred CCceeccCCCCCCCCCCCC
Q 013677 146 ASRCFNCGSYSHSLKECPK 164 (438)
Q Consensus 146 ~~~CFNCG~~~HsLrdCP~ 164 (438)
...|-||+..+|-..+||.
T Consensus 4 ~~~CqkC~~~GH~tyeC~~ 22 (42)
T PF13917_consen 4 RVRCQKCGQKGHWTYECPN 22 (42)
T ss_pred CCcCcccCCCCcchhhCCC
Confidence 5789999999999999994
No 17
>KOG4400 consensus E3 ubiquitin ligase interacting with arginine methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=67.72 E-value=2.6 Score=41.07 Aligned_cols=19 Identities=32% Similarity=1.104 Sum_probs=17.7
Q ss_pred CceeccCCCCCCCCCCCCc
Q 013677 147 SRCFNCGSYSHSLKECPKP 165 (438)
Q Consensus 147 ~~CFNCG~~~HsLrdCP~P 165 (438)
..|||||..+|.-.+||++
T Consensus 144 ~~Cy~Cg~~GH~s~~C~~~ 162 (261)
T KOG4400|consen 144 AKCYSCGEQGHISDDCPEN 162 (261)
T ss_pred CccCCCCcCCcchhhCCCC
Confidence 5699999999999999987
No 18
>KOG4400 consensus E3 ubiquitin ligase interacting with arginine methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=58.49 E-value=4.4 Score=39.49 Aligned_cols=23 Identities=39% Similarity=0.985 Sum_probs=20.6
Q ss_pred CCceeccCCCCCCCCCCCCccCH
Q 013677 146 ASRCFNCGSYSHSLKECPKPRDK 168 (438)
Q Consensus 146 ~~~CFNCG~~~HsLrdCP~PRd~ 168 (438)
...||||+...|..++||.+...
T Consensus 92 ~~~c~~C~~~gH~~~~c~~~~~~ 114 (261)
T KOG4400|consen 92 AAACFNCGEGGHIERDCPEAGKE 114 (261)
T ss_pred chhhhhCCCCccchhhCCcccCc
Confidence 58999999999999999977665
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=48.89 E-value=5.6 Score=35.48 Aligned_cols=75 Identities=19% Similarity=0.213 Sum_probs=40.1
Q ss_pred CceeccCCCCCCCCCCCCccCHHHH-HHHHHHHHhhhccCCCCCCCceEeecccCccccCCCCCcCCHHHHHHhCCCCCC
Q 013677 147 SRCFNCGSYSHSLKECPKPRDKDAV-NNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELD 225 (438)
Q Consensus 147 ~~CFNCG~~~HsLrdCP~PRd~a~I-n~~Rk~f~~~r~q~~~sr~GdrYyegk~e~k~~~fkPG~LS~eLReALGm~~~d 225 (438)
-.|+.||. -..-||.-.+...+ ...|+... ..+.. ...+.. ..+.-. ..-..+.-..+..+||+++|++ .
T Consensus 46 ~~C~~Cg~---C~~~CP~~i~~~~~i~~~R~~~~-~~g~~-~~~~~~-~~~~~~-~~g~~~~~~~~~~~lr~~~g~~--~ 116 (144)
T TIGR03290 46 WMCTTCYT---CQERCPRDVKITDIIKALRNLAA-KKGFM-AKAHRK-TASFVL-KTGHAVPINDEIKELRKELGLD--E 116 (144)
T ss_pred CcCcCcCc---hhhhcCCCCCHHHHHHHHHHHHH-HcCCC-CHHHHH-HHHHHH-HHCCCCCccHHHHHHHHHcCCC--C
Confidence 47888887 56689998887644 44454432 22110 000000 111100 0012345556778899999986 4
Q ss_pred ChHHH
Q 013677 226 PPPWL 230 (438)
Q Consensus 226 pPPWL 230 (438)
.|+|.
T Consensus 117 ~p~~~ 121 (144)
T TIGR03290 117 IPPTT 121 (144)
T ss_pred CCCcc
Confidence 56676
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=45.80 E-value=11 Score=34.04 Aligned_cols=19 Identities=26% Similarity=0.672 Sum_probs=16.7
Q ss_pred CCCceeccCCCCCCCCCCCC
Q 013677 145 DASRCFNCGSYSHSLKECPK 164 (438)
Q Consensus 145 ~~~~CFNCG~~~HsLrdCP~ 164 (438)
....|.+|++ +|--..||.
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 3589999997 999999995
No 21
>KOG2044 consensus 5'-3' exonuclease HKE1/RAT1 [Replication, recombination and repair; RNA processing and modification]
Probab=41.56 E-value=11 Score=43.52 Aligned_cols=50 Identities=32% Similarity=0.552 Sum_probs=31.1
Q ss_pred CCccccccccccccCC------CCCCcCCCccccc------CCCceeccCCCCCCCCCCCCc
Q 013677 116 TPLYDRGYALGLTSGD------GSSNLEGGLEIID------DASRCFNCGSYSHSLKECPKP 165 (438)
Q Consensus 116 VPlYdr~~~~~L~s~D------g~s~~e~~~Ei~~------~~~~CFNCG~~~HsLrdCP~P 165 (438)
-|-||-....-|-++| |...-|-...|+. +..+||-||+.+|.++||.--
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 4777666554443333 3333343333332 357899999999999999743
No 22
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=35.88 E-value=17 Score=40.09 Aligned_cols=19 Identities=26% Similarity=0.600 Sum_probs=17.5
Q ss_pred CceeccCCCCCCCCCCCCc
Q 013677 147 SRCFNCGSYSHSLKECPKP 165 (438)
Q Consensus 147 ~~CFNCG~~~HsLrdCP~P 165 (438)
..||+||..+|..+||+..
T Consensus 286 n~c~~cg~~gH~~~dc~~~ 304 (554)
T KOG0119|consen 286 NVCKICGPLGHISIDCKVN 304 (554)
T ss_pred ccccccCCcccccccCCCc
Confidence 4899999999999999977
No 23
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=33.92 E-value=11 Score=41.46 Aligned_cols=20 Identities=40% Similarity=0.866 Sum_probs=17.8
Q ss_pred CCceeccCCCCCCCCCCCCc
Q 013677 146 ASRCFNCGSYSHSLKECPKP 165 (438)
Q Consensus 146 ~~~CFNCG~~~HsLrdCP~P 165 (438)
...|-|||+.+|.--+||.-
T Consensus 261 ~~~c~~cg~~~H~q~~cp~r 280 (554)
T KOG0119|consen 261 NRACRNCGSTGHKQYDCPGR 280 (554)
T ss_pred cccccccCCCccccccCCcc
Confidence 36999999999999999954
No 24
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=31.20 E-value=26 Score=36.73 Aligned_cols=22 Identities=32% Similarity=0.946 Sum_probs=19.3
Q ss_pred CCceeccCCCCCCCCCCCCccC
Q 013677 146 ASRCFNCGSYSHSLKECPKPRD 167 (438)
Q Consensus 146 ~~~CFNCG~~~HsLrdCP~PRd 167 (438)
.-.||-||+-+|-++.||---|
T Consensus 176 gY~CyRCGqkgHwIqnCpTN~D 197 (427)
T COG5222 176 GYVCYRCGQKGHWIQNCPTNQD 197 (427)
T ss_pred ceeEEecCCCCchhhcCCCCCC
Confidence 4689999999999999997655
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=26.82 E-value=32 Score=35.91 Aligned_cols=24 Identities=46% Similarity=0.919 Sum_probs=21.9
Q ss_pred CCCceeccCCCCCCCCCCCCccCH
Q 013677 145 DASRCFNCGSYSHSLKECPKPRDK 168 (438)
Q Consensus 145 ~~~~CFNCG~~~HsLrdCP~PRd~ 168 (438)
+..-|.-||-++|--++||.+++-
T Consensus 159 Dq~~cyrcGkeghwskEcP~~~~~ 182 (346)
T KOG0109|consen 159 DQSGCYRCGKEGHWSKECPVDRTG 182 (346)
T ss_pred CHHHheeccccccccccCCccCCC
Confidence 467899999999999999999986
No 26
>KOG2560 consensus RNA splicing factor - Slu7p [RNA processing and modification]
Probab=26.07 E-value=15 Score=40.06 Aligned_cols=19 Identities=37% Similarity=0.945 Sum_probs=17.4
Q ss_pred CCCceeccCCCCCCCCCCC
Q 013677 145 DASRCFNCGSYSHSLKECP 163 (438)
Q Consensus 145 ~~~~CFNCG~~~HsLrdCP 163 (438)
++..|-|||.-.|..+||=
T Consensus 111 RKGACeNCGAmtHk~KDCm 129 (529)
T KOG2560|consen 111 RKGACENCGAMTHKVKDCM 129 (529)
T ss_pred hhhhhhhhhhhhcchHHHh
Confidence 4689999999999999994
No 27
>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=23.53 E-value=33 Score=29.69 Aligned_cols=26 Identities=27% Similarity=0.658 Sum_probs=17.2
Q ss_pred CCcCCHHHHHHhCCCCCCChHHHHHH
Q 013677 208 PGALDAETRQLLGLGELDPPPWLHRM 233 (438)
Q Consensus 208 PG~LS~eLReALGm~~~dpPPWL~rM 233 (438)
+|.|.+.|.+-..+-.+.|||||.|-
T Consensus 93 ~~~v~eal~~l~~~~~~~~~~w~~~~ 118 (119)
T TIGR02663 93 PESISELLERLQKMLKGNPPPWLRKA 118 (119)
T ss_pred CccHHHHHHHHHHHHcCCCCHHHHhh
Confidence 35566665444445558999999873
No 28
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=23.30 E-value=45 Score=24.85 Aligned_cols=17 Identities=41% Similarity=0.674 Sum_probs=14.4
Q ss_pred CCceeccCCCCCCCCCC
Q 013677 146 ASRCFNCGSYSHSLKEC 162 (438)
Q Consensus 146 ~~~CFNCG~~~HsLrdC 162 (438)
..-||+|+..-|.-..|
T Consensus 48 ~~fC~~C~~~~H~~~~C 64 (64)
T smart00647 48 FSFCFRCKVPWHSPVSC 64 (64)
T ss_pred CeECCCCCCcCCCCCCC
Confidence 57899999999987666
No 29
>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=23.23 E-value=57 Score=29.94 Aligned_cols=18 Identities=44% Similarity=1.121 Sum_probs=16.5
Q ss_pred CCceeccCCCCCCCCCCC
Q 013677 146 ASRCFNCGSYSHSLKECP 163 (438)
Q Consensus 146 ~~~CFNCG~~~HsLrdCP 163 (438)
-.+||+||.+.|.-..|.
T Consensus 62 ~~~C~~CG~~l~~~~~C~ 79 (124)
T PF05515_consen 62 YNRCFKCGRYLHNNGNCR 79 (124)
T ss_pred hCccccccceeecCCcCC
Confidence 389999999999999999
No 30
>PTZ00065 60S ribosomal protein L14; Provisional
Probab=21.45 E-value=1.1e+02 Score=28.35 Aligned_cols=49 Identities=20% Similarity=0.331 Sum_probs=33.3
Q ss_pred eeeccccccccccccccccCCCC---eeEEEecccchhHHHHHHH--HHHhhHH
Q 013677 7 SIIKMAATSGVKRARMTLDEEQP---SVHVIYNSLTRASKQKLEE--LLQQWSE 55 (438)
Q Consensus 7 ~~~~~~~~~gvkr~r~~~~~~~p---sV~v~y~~Ltr~Sk~KLee--lLq~wse 55 (438)
.+||++.+.||+|-.|.+..=.+ -|.|...+=|..-++.+++ ++.+|.+
T Consensus 37 vLVDGP~~tgV~Rq~i~~k~l~LT~~~v~i~r~a~t~~v~ka~~~a~i~~kw~~ 90 (130)
T PTZ00065 37 VLVDGAFITGVKRQSIPLKRLKLTDEKIKINRGARTGTLKKALKKDNALEEFNK 90 (130)
T ss_pred EEEeCCCcCCcceeEEeccceEEccEEEecCCCCCcHHHHHHHHHccHHHHHHH
Confidence 46888868899998777653222 3455556666666777666 8888864
No 31
>KOG0525 consensus Branched chain alpha-keto acid dehydrogenase E1, beta subunit [Energy production and conversion]
Probab=20.75 E-value=62 Score=33.40 Aligned_cols=72 Identities=28% Similarity=0.264 Sum_probs=47.8
Q ss_pred CCCCceEeecccCccccCCCCC---cCCHHHHHHhCCC------CCC----ChHHHHHHHhcCCCCC-CCCC----CCCC
Q 013677 188 SRNPMRYYQNSAGGKYDGLRPG---ALDAETRQLLGLG------ELD----PPPWLHRMRELGYPPG-YLDS----EDDD 249 (438)
Q Consensus 188 sr~GdrYyegk~e~k~~~fkPG---~LS~eLReALGm~------~~d----pPPWL~rMr~~GyPPg-Yp~~----a~~~ 249 (438)
-++|..||....|.-|.+ .|| +|-..-|+|-||- +|- -|-||||...--.|-+ |.-+ +...
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 467888887777776665 788 3566678898862 332 6999999998877765 4432 1233
Q ss_pred CCCCeeeecCC
Q 013677 250 QPSGITIYADG 260 (438)
Q Consensus 250 q~SGl~IF~Dg 260 (438)
+-+.|++-+=|
T Consensus 238 eg~ditlv~wg 248 (362)
T KOG0525|consen 238 EGSDITLVAWG 248 (362)
T ss_pred cCCceEEEEcc
Confidence 56677776544
Done!