Query 038342
Match_columns 553
No_of_seqs 158 out of 255
Neff 4.4
Searched_HMMs 46136
Date Fri Mar 29 10:01:31 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/038342.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/038342hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04006 Mpp10: Mpp10 protein; 100.0 2E-107 5E-112 894.2 34.8 483 17-528 4-562 (600)
2 KOG2600 U3 small nucleolar rib 100.0 6E-102 1E-106 820.4 31.5 510 5-530 3-548 (596)
3 COG5384 Mpp10 U3 small nucleol 100.0 2.3E-73 5E-78 586.9 18.9 457 16-523 3-513 (569)
4 PF10446 DUF2457: Protein of u 48.6 13 0.00028 41.4 2.6 24 177-200 25-48 (458)
5 KOG1832 HIV-1 Vpr-binding prot 30.6 57 0.0012 39.7 4.2 6 242-247 1497-1502(1516)
6 KOG1832 HIV-1 Vpr-binding prot 30.6 25 0.00054 42.6 1.4 13 181-193 1370-1382(1516)
7 PF04931 DNA_pol_phi: DNA poly 28.4 56 0.0012 38.6 3.8 14 76-89 600-613 (784)
8 PF11705 RNA_pol_3_Rpc31: DNA- 24.1 44 0.00096 33.6 1.7 8 184-191 158-165 (233)
9 PF06491 Disulph_isomer: Disul 23.0 59 0.0013 31.0 2.1 60 10-74 57-129 (136)
10 PF04931 DNA_pol_phi: DNA poly 19.3 1.4E+02 0.0031 35.3 4.8 11 73-83 587-597 (784)
No 1
>PF04006 Mpp10: Mpp10 protein; InterPro: IPR007151 This family includes proteins related to Mpp10 (M phase phosphoprotein 10). The U3 small nucleolar ribonucleoprotein (snoRNP) is required for three cleavage events that generate the mature 18S rRNA from the pre-rRNA. In Saccharomyces cerevisiae, depletion of Mpp10, a U3 snoRNP-specific protein, halts 18S rRNA production and impairs cleavage at the three U3 snoRNP-dependent sites [].
Probab=100.00 E-value=2.3e-107 Score=894.19 Aligned_cols=483 Identities=42% Similarity=0.702 Sum_probs=337.4
Q ss_pred hhhcCCCCCCCCChhHHHHHHHHHHHHHHhcCCC---CCCCCCchhhhcCCChHHHHHHHHhhhhhhHHHHHHHHH---H
Q 038342 17 LKSTEPPVWLAPRAELSETARKASKIIFSYLRPY---APKSPLDQLLIEGFDAEQIWQQIDLQSQPLLSSLKREVK---K 90 (553)
Q Consensus 17 l~~~~Pe~FLspq~ela~~~~sltK~LYd~~k~~---~~~spL~ELvvegFD~EQIWQQLELqN~plL~~l~~~v~---~ 90 (553)
.++++|++||++++.||..+++++|++|...+.. .+++||++|||+|||.+||||||+|+|.|++.+|.+.+. .
T Consensus 4 ~~~~~P~~fl~~~~~la~~~~~~~k~~~~~~~~~~~~~~~~~L~eL~vdGFD~eQIWqQl~l~~~~v~~~L~~~~~~~~~ 83 (600)
T PF04006_consen 4 KLSKNPENFLSPQDSLAQDARSLIKNLYDLFKKEPSSKEKSPLDELYVDGFDAEQIWQQLELVNDPVLQELEKKIVELLR 83 (600)
T ss_pred hhccCchhhcCcCHHHHHHHHHHHHHHHHHHhhcccccCCCcchhhccCCCChHHHHHHHHHHhhHhHHHHHHHHHHhhh
Confidence 4689999999999999999999999988776533 335899999999999999999999999999999999443 2
Q ss_pred HhcCcccchhhhhhhhccchhhcccccchhhhhhhhcccCCCcccc---cCCC------CCCC--CCCCCCC-cchhhhH
Q 038342 91 FEKKPEEIGKIREVLEGEKKVVESVGKVLEGERRVLAVESDDFDED---LDDG------LDDD--DDDDDDD-DEEEEEE 158 (553)
Q Consensus 91 ~~~~~~~~~l~~e~~~~~~~~~~~~~~~~e~~~~~~~~e~~~e~e~---~~~e------~ee~--~~~~~~d-~~~e~~e 158 (553)
++..+..+..+.+. .......++.+..+. ++..+.+..+++ ++.+ ..+. ++.++.. .+..+++
T Consensus 84 ~~~~~~~l~~~~~~----~~~~~~ed~~d~~d~-d~~~e~d~~eeeee~Ee~d~~~e~d~~~~~e~d~ed~~d~e~ed~e 158 (600)
T PF04006_consen 84 EVQNDEELSSSDEE----DEEEESEDDEDEEDE-DEEEESDDDEEEEEDEEEDMIDEEDEEDEDESDEEDEEDEEEEDEE 158 (600)
T ss_pred hccCcccccccccc----ccccccccccccccc-cccccccccccccccccccccccccchhhccccccccccchhhccc
Confidence 23333334332110 100111110000000 000000000000 0000 0000 0000000 0000000
Q ss_pred hhhcCCch---hhh-hcCCCCCCCCccccccChHHHHHHHHHHHHHHhcCCCCCchhhhcCCCccCCCCCCCCccccCCc
Q 038342 159 EEVEGSEG---EEE-KKGKGGPEGGIEDEFLKINELQEYLEEDEAREYGLKKDSNDSRKKGGRRVLDNEEDEDEDEDEDE 234 (553)
Q Consensus 159 ~e~~~~~~---~~e-~~~k~~~~s~VdD~FFkL~eme~fLe~~e~~e~~~~~~~~~~k~~~~~~~~~~~~~~~dd~~~~~ 234 (553)
........ ... ...++..+++|||+||+|++|++||+.+|+++++... +.+++++...
T Consensus 159 ~~~~~e~~~~~~~~~~~~~~~d~~glnD~FFsidEfnk~~e~~E~~e~~~~~------------------d~d~eeD~~~ 220 (600)
T PF04006_consen 159 EEEEDEESEESSEEEEEEKKEDKSGLNDGFFSIDEFNKQLEEEERQEEGRDD------------------DEDDEEDEDI 220 (600)
T ss_pred ccccchhhhhccccccccccccCCCcCCCcCCHHHHHHHHHHHHHHhhcccc------------------cccccccccc
Confidence 00000000 000 1223445788999999999999999999998766211 0000000000
Q ss_pred ccchhhhccCCCCCCCchhhHHHhhhhccCCcccccCCcccCCC-------------------------CCCch---h-h
Q 038342 235 EDEDEEELGVFGDSDDNEEEDEHRQKLENAGYEDFFGKLEEDSG-------------------------LDDEE---D-E 285 (553)
Q Consensus 235 e~~d~~d~d~f~d~~~~~~~~~~~~~~~~~~Y~DFF~~~~~~~~-------------------------~~de~---~-e 285 (553)
+..+ +..++|...+++++ ....+++|.|||+++.+..+ ..+++ + .
T Consensus 221 D~~~-d~~dD~~~~~~~~~-----~~~~~~~Y~DFFd~~~kd~~~d~e~~~~~~~~~~~~~~~d~~~~~~~~~d~~~e~~ 294 (600)
T PF04006_consen 221 DDDE-DEEDDFGDDDDEDD-----EDEDDIKYEDFFDPKDKDNGDDDESDDDEDDEEADEKEGDEDDEEEDEEDDEEEED 294 (600)
T ss_pred cccc-cccccccccccccc-----cchhhhhhcccccccccccccccccccccccchhhhhhcccccccchhhhhhhhhh
Confidence 0000 00001221111111 45568999999999621000 00000 0 0
Q ss_pred ----HHH---------hhh-------hcCCCCChHHHHHHHHHHHHHHHHHhcCCCCCcccccccccCCCCCcccccccc
Q 038342 286 ----DEA---------VET-------KKNDNLSTHEKQSEQLRAEIEKMEKANLDPKTWTMQGEVTAAQRPKNSALEVDL 345 (553)
Q Consensus 286 ----~e~---------~~~-------~~~~~~S~~ekrq~kl~~~I~~LE~e~v~~K~W~L~GEv~a~~RP~NSLLEedL 345 (553)
+.. +.. .....+|+|++||++|+++|++||++||++|+|+|+|||+|+.||+||||+++|
T Consensus 295 ~d~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~S~~ek~q~~l~~~I~~lE~~~~~~k~W~l~GE~~a~~Rp~nSLLee~l 374 (600)
T PF04006_consen 295 EDEEEEDEDAMDDVEDDESEEDDEDEEEDEELSTFEKRQEKLQKQIEELEKENVAEKPWQLKGEVSARDRPENSLLEEDL 374 (600)
T ss_pred hhhhhhhhcccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHhcCCCCceeeeeeccccCCccchhccCc
Confidence 000 000 235569999999999999999999999999999999999999999999999999
Q ss_pred ccccCCCCCCCcchhhhhhHHHHHHHHhhhCCCCccccccCCCC--CCccccccccccccchhHHHHHHHHHHhhhCCCC
Q 038342 346 DFQHNVRPAPVITEEFTASLEEMIKKRIIEGQFDDVEKAASLPS--KAPRELKELDENKSKKGLAEVYEEEYVQKTNPAA 423 (553)
Q Consensus 346 dFe~~~kpaPvITEE~T~~LEdiIKqRI~d~~FDDV~rk~~~~~--~~~~~~~eLd~eKSK~sLaEiYE~eY~k~~~~~~ 423 (553)
+|+|++||+||||+++|.+||+||||||++++||||+|+.++.. ..++..++|+++|||+|||+|||++|++++.++.
T Consensus 375 ~fe~~~k~~pvit~e~t~~lE~~Ik~RI~~~~fDdv~r~~~~~~~~~~~~~~~el~~~Ksk~sLaeiYe~ey~~~~~~~~ 454 (600)
T PF04006_consen 375 DFERTAKPVPVITEEVTESLEDLIKQRIKDQNFDDVVRRRPPDEEPFEYKKRVELDDEKSKKSLAEIYEQEYLKQTDGAF 454 (600)
T ss_pred cccccCCCCCCCCHHHHHHHHHHHHHHHHhccccccccccCCCccccccccccccccccccccHHHHHHHHHHHhhcccc
Confidence 99999999999999999999999999999999999999987654 4678889999999999999999999999987643
Q ss_pred -CCCCCChHHHHHHHHHHHHHHHHHhhhccCCcCCCCCcccccccccCcccccccccccccccccccCChhhccC-CCCC
Q 038342 424 -APLTFSDEQKKEASMLFKKLCLKLDALSHFHFTPKPVIEDMSIQANVPALAMEEIAPVAVSDAAMLAPEEVFAG-RGDV 501 (553)
Q Consensus 424 -~~~~~~d~~k~EI~~lf~~L~~kLDaLSn~hFtPKp~~~e~~i~~n~pai~mEEv~PvavS~a~~lAPEEV~~~-~g~~ 501 (553)
....+.+++|.||..||+.||+|||||||||||||||+++++|++|+|||+||+|+||+||+|++|||||||++ ++..
T Consensus 455 ~~~~~~~~~~~~ei~~l~~~l~~kLDaLsn~hf~Pk~~~~~~~v~~~~~ai~mEe~~p~~~s~~~~lAPeEi~~~~~~~~ 534 (600)
T PF04006_consen 455 DEKDEKLDKEHEEIKELFKKLCYKLDALSNFHFTPKPPQPEIKVVSNVPAISMEEAQPVAVSDASLLAPEEIYKPGKAKL 534 (600)
T ss_pred ccccccchHHHHHHHHHHHHHHHHhhccccCCcCCCCCccccccccCCccceecccccceechhhhcchHhhcccccccc
Confidence 33456778999999999999999999999999999999999999999999999999999999999999999985 3443
Q ss_pred -cccccCCHHHHHHHHHhHHHHhHHHHh
Q 038342 502 -KEEAELTKAERKRRRASKKRKFKAEAT 528 (553)
Q Consensus 502 -k~~~E~T~~erkr~Rr~KK~k~k~~~~ 528 (553)
+++.|||+++|+|+||++|+++|+..+
T Consensus 535 ~~~~~E~t~~ek~r~Rr~~K~~~~~~~k 562 (600)
T PF04006_consen 535 EKGKEEMTREEKKRLRRKKKRKRRKEKK 562 (600)
T ss_pred cccccccCHHHHHHHHHHHHHHHHHHHh
Confidence 899999999999999999988877443
No 2
>KOG2600 consensus U3 small nucleolar ribonucleoprotein (snoRNP) subunit - Mpp10p [RNA processing and modification]
Probab=100.00 E-value=6.4e-102 Score=820.41 Aligned_cols=510 Identities=38% Similarity=0.568 Sum_probs=341.1
Q ss_pred hHhhhhHHHHHH-hhhcCCCCCCCCChhHHHHHHHHHHHHHHhcC---CCCCCCCCchhhhcCCChHHHHHHHHhhhhhh
Q 038342 5 SEASLNLDLLHR-LKSTEPPVWLAPRAELSETARKASKIIFSYLR---PYAPKSPLDQLLIEGFDAEQIWQQIDLQSQPL 80 (553)
Q Consensus 5 ~~~~~~~~~l~~-l~~~~Pe~FLspq~ela~~~~sltK~LYd~~k---~~~~~spL~ELvvegFD~EQIWQQLELqN~pl 80 (553)
|.-..++.++.. +.++.|.+||.| ..++++++.+|.++. +..+++|||+||++|||+|||||||+|||.|+
T Consensus 3 s~~~~~~~~~~e~k~tk~Ps~Fl~p-----~~i~~li~~~y~~~~s~~~~~~k~pl~~lv~~g~D~eQIWqQl~lqn~~i 77 (596)
T KOG2600|consen 3 SKKEDVFKEIAETKITKSPSKFLDP-----SDIKQLISSVYEVSISNEPINKKSPLPELVSKGLDEEQIWQQLKLQNDPI 77 (596)
T ss_pred hhhhhhHHHhhhccccCChhhhcCh-----HHHHHHHHHHHHHHHhcCCCCCCCcchHHHhccCCHHHHHHHHHHhhhHH
Confidence 445566677766 888999999999 689999999999882 55667999999999999999999999999999
Q ss_pred HHHHHHHHHHHhcCcccchhhhhhhhccchhhcccccchhhhhhhhcccCCCcc-cccCCCCCCCCCCCCCCc-chhhhH
Q 038342 81 LSSLKREVKKFEKKPEEIGKIREVLEGEKKVVESVGKVLEGERRVLAVESDDFD-EDLDDGLDDDDDDDDDDD-EEEEEE 158 (553)
Q Consensus 81 L~~l~~~v~~~~~~~~~~~l~~e~~~~~~~~~~~~~~~~e~~~~~~~~e~~~e~-e~~~~e~ee~~~~~~~d~-~~e~~e 158 (553)
|++|+..|+++........-+++.- .....++..++.++...+ +.+..+ ++++.+....++.++.+. +..+.+
T Consensus 78 l~~l~q~~~el~~~~~~~~e~~e~~-~~~s~~~~ed~~Dee~~e----e~d~~d~Dded~g~~~n~s~~~~de~~~~d~~ 152 (596)
T KOG2600|consen 78 LQDLKQFVSELIDKSEPSDEGSEDG-ELDSEIGHEDDEDEEEME----EEDLSDIDDEDEGEQSNDSLSDDDEESAEDKE 152 (596)
T ss_pred HHHHHHHHHHhhccCCccccccccc-cccccccccccchhhhhh----ccccccccchhhhhhcccccccccccchhhhc
Confidence 9999999999988543111100000 001112222211111100 000000 000000000011111111 000000
Q ss_pred -hhhcCCchhhh----hcCCCCCCCCccccccChHHHHHHHHHHHHHHhcCCC-CC------chhhhcCCCccCCCCCCC
Q 038342 159 -EEVEGSEGEEE----KKGKGGPEGGIEDEFLKINELQEYLEEDEAREYGLKK-DS------NDSRKKGGRRVLDNEEDE 226 (553)
Q Consensus 159 -~e~~~~~~~~e----~~~k~~~~s~VdD~FFkL~eme~fLe~~e~~e~~~~~-~~------~~~k~~~~~~~~~~~~~~ 226 (553)
..+.+-+...+ ...|...+++|+|+||+|++|+.||++-++.+++..+ .+ +++..++.+---++++++
T Consensus 153 ~ds~~~~Ee~~e~~~qEq~K~~d~~gi~DkFF~~~dle~Fle~tea~E~~~d~~eg~~~~~Dk~~~~gk~~dff~~~eSd 232 (596)
T KOG2600|consen 153 MDSEEKAEEKEEEEEQEQPKKFDKSGINDKFFKLDDLEDFLEDTEAAEDEEDAEEGEMMDEDKKSWDGKDEDFFGQNESD 232 (596)
T ss_pred cchhHHHHHHHHHhhhcccCccccccccccccchHHHHHHHHHHhhccccccccccccccccccccccccccccCccccc
Confidence 00000000111 1234456899999999999999999998887755332 00 011111000000111221
Q ss_pred CccccCC----ccc----chhhhccCCCCCCCchhhHHHhhhhccCCcccccCCccc--CCC-CCCchh-hHHHhhhhcC
Q 038342 227 DEDEDED----EED----EDEEELGVFGDSDDNEEEDEHRQKLENAGYEDFFGKLEE--DSG-LDDEED-EDEAVETKKN 294 (553)
Q Consensus 227 ~dd~~~~----~e~----~d~~d~d~f~d~~~~~~~~~~~~~~~~~~Y~DFF~~~~~--~~~-~~de~~-e~e~~~~~~~ 294 (553)
++++.+. .++ .+..+.+.|+..+..+ + .......|.+||+..-. -+. ...+++ ..+..+.. .
T Consensus 233 ~e~e~e~~~~~ke~dk~~~E~~e~~~~~~~D~k~--d---~~~~ee~~~e~~~~~~e~~~d~d~~~EDe~~~e~~~~~-~ 306 (596)
T KOG2600|consen 233 DEEEPEEKAIEKEDDKKAEEKVEKDSDDGKDKKE--D---EALDEEEEDEFVDKEQEDKLDLDADSEDEPVAEGEDLE-S 306 (596)
T ss_pred cccchhhhhcchhccccccccccccccccCCcch--h---hhhccchhhhhhhccccccccccccccccchhcccCCC-C
Confidence 1111000 000 0000000000000000 0 12233445555554410 000 000111 11111111 2
Q ss_pred CCCChHHHHHHHHHHHHHHHHHhcCCCCCcccccccccCCCCCccccccccccccCCCCCCCcchhhhhhHHHHHHHHhh
Q 038342 295 DNLSTHEKQSEQLRAEIEKMEKANLDPKTWTMQGEVTAAQRPKNSALEVDLDFQHNVRPAPVITEEFTASLEEMIKKRII 374 (553)
Q Consensus 295 ~~~S~~ekrq~kl~~~I~~LE~e~v~~K~W~L~GEv~a~~RP~NSLLEedLdFe~~~kpaPvITEE~T~~LEdiIKqRI~ 374 (553)
...|+|++||.+|..+|++||++||++|+|+|+|||+|++||+||||+++|+|+|++||+||||+|+|.+||+||||||+
T Consensus 307 ~k~SSfEkrq~km~ekI~~lE~e~l~~K~W~l~GEVtA~~RP~NSLLe~~l~Fd~~akp~pviTeE~t~~lEdiIkqRIr 386 (596)
T KOG2600|consen 307 PKQSSFEKRQAKMDEKIEELEKENLAPKSWTLKGEVTAKKRPQNSLLEEELDFDHGAKPAPVITEEVTDSLEDIIKQRIR 386 (596)
T ss_pred cccchHHHHHHHHHHHHHHHHHHhcCCccceecceeecccCCcchhhhhhhhhccCCCCCCccchhhhHHHHHHHHHHHH
Confidence 23499999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hCCCCccccccCCCC--CCccccccccccccchhHHHHHHHHHHhh--hCCCCCCCCCChHHHHHHHHHHHHHHHHHhhh
Q 038342 375 EGQFDDVEKAASLPS--KAPRELKELDENKSKKGLAEVYEEEYVQK--TNPAAAPLTFSDEQKKEASMLFKKLCLKLDAL 450 (553)
Q Consensus 375 d~~FDDV~rk~~~~~--~~~~~~~eLd~eKSK~sLaEiYE~eY~k~--~~~~~~~~~~~d~~k~EI~~lf~~L~~kLDaL 450 (553)
+++||||+|+.++.. ..++..++|++.||++|||+|||.+|++. ..++........+.|.||..||+.||++||||
T Consensus 387 d~~fDDv~r~~~~~~~~~~~~~~~~l~e~ksk~sLaeiYE~ey~~~~~~d~~~~~~e~~~e~h~ei~~~~~~l~~kLDaL 466 (596)
T KOG2600|consen 387 DKAFDDVQRRIRPEVTIAEYRPEFELDESKSKLSLAEIYEAEYQQIFKADGAAPATEKNMEEHKEIKSLMKSLFLKLDAL 466 (596)
T ss_pred hccchhhhhhccccccccccchhhhhcchhhHHHHHHHHHHHHHHHhccCCCCCccccchhhHHHHHHHHHHHHHhhhhh
Confidence 999999999876543 45678899999999999999999999984 33332222233378999999999999999999
Q ss_pred ccCCcCCCCCcccccccccCcccccccccccccccccccCChhhccC--CCCCcccccCCHHHHHHHHHhHHHHhHHHHh
Q 038342 451 SHFHFTPKPVIEDMSIQANVPALAMEEIAPVAVSDAAMLAPEEVFAG--RGDVKEEAELTKAERKRRRASKKRKFKAEAT 528 (553)
Q Consensus 451 Sn~hFtPKp~~~e~~i~~n~pai~mEEv~PvavS~a~~lAPEEV~~~--~g~~k~~~E~T~~erkr~Rr~KK~k~k~~~~ 528 (553)
|||||+|+||.++|+||+|+|||+||+|+||+||+|++|||||||++ +|.++.++|||+|+|+|+||+||||+|+.+.
T Consensus 467 s~fhf~Pkp~~~evkIvsN~pai~MEeVaP~avSdA~lLAPeEI~~~~k~g~~ksk~E~d~tDK~ReRR~kK~K~~a~~~ 546 (596)
T KOG2600|consen 467 SNFHFVPKPAREEVKIVSNTPAIAMEEVAPTAVSDAALLAPEEIYKKSKKGIAKSKTERDRTDKNRERRKKKRKQRAILE 546 (596)
T ss_pred cceeecCCCCCcceeeeccCcchhhhhccchhhchhhhhCcHHHhcccccccccchhhhchhHHHHHHHHHHHHHHHHhh
Confidence 99999999999999999999999999999999999999999999986 6889999999999999999999999998776
Q ss_pred hh
Q 038342 529 KR 530 (553)
Q Consensus 529 ~~ 530 (553)
+-
T Consensus 547 ~~ 548 (596)
T KOG2600|consen 547 NE 548 (596)
T ss_pred hh
Confidence 54
No 3
>COG5384 Mpp10 U3 small nucleolar ribonucleoprotein component [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.3e-73 Score=586.87 Aligned_cols=457 Identities=30% Similarity=0.435 Sum_probs=326.2
Q ss_pred HhhhcCCCCCCCCChhHHHHHHHHHHHHHHhcCCCCCCCCCchhhhcCCChHHHHHHHHhhhhhhHHHHHHHHHHHhcCc
Q 038342 16 RLKSTEPPVWLAPRAELSETARKASKIIFSYLRPYAPKSPLDQLLIEGFDAEQIWQQIDLQSQPLLSSLKREVKKFEKKP 95 (553)
Q Consensus 16 ~l~~~~Pe~FLspq~ela~~~~sltK~LYd~~k~~~~~spL~ELvvegFD~EQIWQQLELqN~plL~~l~~~v~~~~~~~ 95 (553)
+|...-|.+|+.|...-..+....+...|.+++. ..++||++++|+|.|++|||-|+-|.-.+++.-|.+-+-.+ ++|
T Consensus 3 EL~~~~~si~~~P~~~D~K~~id~~I~~~~N~~I-~~~a~l~~I~~~GLD~~Qv~~Q~~L~~~~~~~DL~Q~~~E~-~D~ 80 (569)
T COG5384 3 ELFGVLKSILKDPTSKDVKAYIDSVINTCKNGSI-TKKAELDEITVDGLDANQVWWQVKLVLDSIDGDLIQGIQEL-KDP 80 (569)
T ss_pred hhhhcchHhhhCCchHHHHHHHHHHHHHhcCCcc-CCcCccceeeeccchHHHHHHHHHHHHHHhccchhhhhhhc-cCc
Confidence 4556678899999888777777777777777743 23589999999999999999999999999999998855543 444
Q ss_pred ccchhhhhhhhccchhhcccccchhhhhhhhcc--cCCCcccccCCCCCCCCCCCCCCcchhhhHhhhcCCchh---hh-
Q 038342 96 EEIGKIREVLEGEKKVVESVGKVLEGERRVLAV--ESDDFDEDLDDGLDDDDDDDDDDDEEEEEEEEVEGSEGE---EE- 169 (553)
Q Consensus 96 ~~~~l~~e~~~~~~~~~~~~~~~~e~~~~~~~~--e~~~e~e~~~~e~ee~~~~~~~d~~~e~~e~e~~~~~~~---~e- 169 (553)
. ++|..+ ++...++.+.++..+ ++..... -+.+..++.+.+...+.+++.-.++.....+ ++
T Consensus 81 ~--------~D~~T~---~~~~~eEs~~eE~~~~~~~~~~~~-AD~~~i~~~~~d~L~e~DE~~s~D~~~~~AE~~~EE~ 148 (569)
T COG5384 81 S--------LDGSTL---NSSSGEESELEEAESVFKEKQMLS-ADVSEIEEQSNDSLSENDEEPSMDDEKTSAEAAREEF 148 (569)
T ss_pred c--------cccccc---ccCCcchhhHHHHHHHHHhhcccc-ccHHHHhhcCCcchhhcccCcccccccchHHHHHHHh
Confidence 3 233233 222223333211100 0000000 0000011111111111111111111111111 11
Q ss_pred hcCC-CCCCCCccccccChHHHHHHHHHHHHHHhcCCCCCchhhhcCCCccCCCCCCCCccccCCcccchhhhccCCCCC
Q 038342 170 KKGK-GGPEGGIEDEFLKINELQEYLEEDEAREYGLKKDSNDSRKKGGRRVLDNEEDEDEDEDEDEEDEDEEELGVFGDS 248 (553)
Q Consensus 170 ~~~k-~~~~s~VdD~FFkL~eme~fLe~~e~~e~~~~~~~~~~k~~~~~~~~~~~~~~~dd~~~~~e~~d~~d~d~f~d~ 248 (553)
...+ .....+++|+||.|+.+++-.-..+..+.+. .+ + ++++||||.|-
T Consensus 149 ~e~~~~~D~~GiND~FFDle~FNr~TLA~Ed~~E~~---------------------~G-------~--EDe~ID~~~D~ 198 (569)
T COG5384 149 AEEKRIPDPYGINDKFFDLEKFNRDTLAAEDSNEAS---------------------EG-------S--EDEDIDYFQDM 198 (569)
T ss_pred hhhhcCCCccccCccccchhhcchhhhhcccccccc---------------------cC-------C--cccCchhhcCC
Confidence 1112 2346779999999999988744433332221 11 1 12268999986
Q ss_pred CCchhhHHHhhhhccCCcccccCCcccCCC--------------CCCchhhHHHh-------------------hhhcCC
Q 038342 249 DDNEEEDEHRQKLENAGYEDFFGKLEEDSG--------------LDDEEDEDEAV-------------------ETKKND 295 (553)
Q Consensus 249 ~~~~~~~~~~~~~~~~~Y~DFF~~~~~~~~--------------~~de~~e~e~~-------------------~~~~~~ 295 (553)
++++++. ..|+|+|||+++...+- .+.+++++-.+ +.+...
T Consensus 199 ~~~~Ee~------EaI~YEDFF~~~T~~~~k~~~~~K~~~~~~~~~~EE~~~a~D~~~~~~~~~~~D~~~ae~~~e~S~~ 272 (569)
T COG5384 199 PSDDEEE------EAIYYEDFFDKPTKEPVKKHSDVKDPKEDEELDEEEHDSAMDKVKLDLFADEEDEPNAEGVGEASDK 272 (569)
T ss_pred Cccchhh------hhhHHHhhcCCcchhhhhhhhhccCchhhhhhchhhccchhhhhhhhccccccccccccccccchhh
Confidence 5544322 25999999999962111 11111100000 002356
Q ss_pred CCChHHHHHHHHHHHHHHHHHhcCCCCCcccccccccCCCCCccccccccccccCCCCCCCcchhhhhhHHHHHHHHhhh
Q 038342 296 NLSTHEKQSEQLRAEIEKMEKANLDPKTWTMQGEVTAAQRPKNSALEVDLDFQHNVRPAPVITEEFTASLEEMIKKRIIE 375 (553)
Q Consensus 296 ~~S~~ekrq~kl~~~I~~LE~e~v~~K~W~L~GEv~a~~RP~NSLLEedLdFe~~~kpaPvITEE~T~~LEdiIKqRI~d 375 (553)
.||+|+++|.+|.+||++||+++|++|.|+|+|||+|+.||.||||.++|+|+++++|+||+|.++|.+||+||+|||++
T Consensus 273 ~LSS~Ek~q~~m~eqIeeLE~e~Va~K~W~~~GEvsaK~RP~nsLL~eeLeF~~gakpVPv~T~e~tEslEdii~~RI~~ 352 (569)
T COG5384 273 NLSSFEKQQIEMDEQIEELEKELVAPKEWKYAGEVSAKKRPKNSLLAEELEFKQGAKPVPVSTKEDTESLEDIILQRIRE 352 (569)
T ss_pred hhhhHHHHHHHHHHHHHHHHHHhcCcccceecceeeccCCCccchhhhhhccccCCCCcccccccchHHHHHHHHHHHhh
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCccccccCCCC--CCccccccccccccchhHHHHHHHHHHhhhCCCCCCCCCChHHHHHHHHHHHHHHHHHhhhccC
Q 038342 376 GQFDDVEKAASLPS--KAPRELKELDENKSKKGLAEVYEEEYVQKTNPAAAPLTFSDEQKKEASMLFKKLCLKLDALSHF 453 (553)
Q Consensus 376 ~~FDDV~rk~~~~~--~~~~~~~eLd~eKSK~sLaEiYE~eY~k~~~~~~~~~~~~d~~k~EI~~lf~~L~~kLDaLSn~ 453 (553)
+.|||+.|+.++.. ..++..++|...||.+|||++||.+|++..... +-....+.-|.||..||..|.++||.|+.|
T Consensus 353 ~tFDd~~~r~~~~Vt~~~~~p~fel~e~ks~~SLaeeyE~d~~q~~~~S-~~~~~~~k~H~ei~~l~sei~~~ldtl~s~ 431 (569)
T COG5384 353 GTFDDHAYRIREEVTIADEIPEFELLESKSILSLAEEYEGDLMQIVDES-ALSEELDKGHNEIFVLDSEIRMVLDTLKSL 431 (569)
T ss_pred ccccchhhhhhhhhhhcccccccccccchhHHHHHHHHHHHHHHHHhhh-hhhhhhhhccccccchhhHHHHHHhhhccc
Confidence 99999999987543 456788999999999999999999999987322 112234556899999999999999999999
Q ss_pred CcCCCCCcccccccccCcccccccccccccccccccCChhhccC-C----CC-------CcccccCCHHHHHHHHHhHHH
Q 038342 454 HFTPKPVIEDMSIQANVPALAMEEIAPVAVSDAAMLAPEEVFAG-R----GD-------VKEEAELTKAERKRRRASKKR 521 (553)
Q Consensus 454 hFtPKp~~~e~~i~~n~pai~mEEv~PvavS~a~~lAPEEV~~~-~----g~-------~k~~~E~T~~erkr~Rr~KK~ 521 (553)
||+|||+...+.|++|+|+|+||+|+|+++|+|+.|||||||+. + |. .+.++|||+++|.|+||.-||
T Consensus 432 h~vpkP~a~Sleii~n~ptl~meD~QP~~~S~~~sLAPQEiY~~~~~~kdGE~~~k~GvAmS~~El~~e~K~~~RR~~kR 511 (569)
T COG5384 432 HSVPKPGAKSLEIIKNVPTLKMEDAQPLYMSNASSLAPQEIYNVGKAEKDGEIRLKNGVAMSKEELTREDKNRLRRALKR 511 (569)
T ss_pred cccCCCCccceeeeecCcceecccccchhhccccccCcHHhcCccccccCcceeeccccccchhhhhHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999973 2 33 246799999999998887776
Q ss_pred Hh
Q 038342 522 KF 523 (553)
Q Consensus 522 k~ 523 (553)
|+
T Consensus 512 K~ 513 (569)
T COG5384 512 KR 513 (569)
T ss_pred hh
Confidence 64
No 4
>PF10446 DUF2457: Protein of unknown function (DUF2457); InterPro: IPR018853 This entry represents a family of uncharacterised proteins.
Probab=48.62 E-value=13 Score=41.41 Aligned_cols=24 Identities=29% Similarity=0.299 Sum_probs=11.6
Q ss_pred CCCccccccChHHHHHHHHHHHHH
Q 038342 177 EGGIEDEFLKINELQEYLEEDEAR 200 (553)
Q Consensus 177 ~s~VdD~FFkL~eme~fLe~~e~~ 200 (553)
+=.|+|..=|=..+-+--+++|++
T Consensus 25 KlTi~DtlkKE~~IRkLgeEaEEE 48 (458)
T PF10446_consen 25 KLTINDTLKKENAIRKLGEEAEEE 48 (458)
T ss_pred cccHHHHHHHHHHHhhhhHHHHHH
Confidence 444777754444444443444433
No 5
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=30.57 E-value=57 Score=39.75 Aligned_cols=6 Identities=17% Similarity=0.163 Sum_probs=2.7
Q ss_pred ccCCCC
Q 038342 242 LGVFGD 247 (553)
Q Consensus 242 ~d~f~d 247 (553)
+.+|..
T Consensus 1497 ~~d~~s 1502 (1516)
T KOG1832|consen 1497 MQDFMS 1502 (1516)
T ss_pred hhcccC
Confidence 444443
No 6
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=30.57 E-value=25 Score=42.56 Aligned_cols=13 Identities=31% Similarity=0.618 Sum_probs=8.2
Q ss_pred cccccChHHHHHH
Q 038342 181 EDEFLKINELQEY 193 (553)
Q Consensus 181 dD~FFkL~eme~f 193 (553)
-|.|+-+=+|+.-
T Consensus 1370 ~D~~l~vIe~~~~ 1382 (1516)
T KOG1832|consen 1370 TDSFLGVIEMEDQ 1382 (1516)
T ss_pred ccceEEEEeccCh
Confidence 3677766666554
No 7
>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=28.42 E-value=56 Score=38.63 Aligned_cols=14 Identities=29% Similarity=0.373 Sum_probs=6.7
Q ss_pred hhhhhHHHHHHHHH
Q 038342 76 QSQPLLSSLKREVK 89 (553)
Q Consensus 76 qN~plL~~l~~~v~ 89 (553)
|...+|..+..+|=
T Consensus 600 ~~s~llR~~~~~vf 613 (784)
T PF04931_consen 600 QPSALLRKVSEQVF 613 (784)
T ss_pred CcchHHHHHHHHHH
Confidence 44445555444443
No 8
>PF11705 RNA_pol_3_Rpc31: DNA-directed RNA polymerase III subunit Rpc31; InterPro: IPR024661 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. RNA polymerase III contains seventeen subunits in yeasts and in human cells. Twelve of these are akin to RNA polymerase I or II and the other five are RNA polymerase III-specific, and form the functionally distinct groups: (i) Rpc31-Rpc34-Rpc82, and (ii) Rpc37-Rpc53. Rpc31, Rpc34 and Rpc82 form a cluster of enzyme-specific subunits that contribute to transcription initiation in Saccharomyces cerevisiae and Homo sapiens. There is evidence that these subunits are anchored at or near the N-terminal Zn-fold of Rpc1, itself prolonged by a highly conserved but RNA polymerase III-specific domain []. This entry represents the Rpc31 subunit.
Probab=24.06 E-value=44 Score=33.63 Aligned_cols=8 Identities=38% Similarity=0.426 Sum_probs=3.2
Q ss_pred ccChHHHH
Q 038342 184 FLKINELQ 191 (553)
Q Consensus 184 FFkL~eme 191 (553)
--+|..++
T Consensus 158 ~~~l~~le 165 (233)
T PF11705_consen 158 EKKLEELE 165 (233)
T ss_pred Hhhhhhhh
Confidence 33444443
No 9
>PF06491 Disulph_isomer: Disulphide isomerase; InterPro: IPR009474 This entry consists of several hypothetical bacterial proteins of unknown function.; PDB: 3FHK_F.
Probab=23.04 E-value=59 Score=31.04 Aligned_cols=60 Identities=27% Similarity=0.417 Sum_probs=38.4
Q ss_pred hHHHHHHhhhcCCCCCCCCChhHHHHHHHHHHHHHHhcCCCCCCCC-------------CchhhhcCCChHHHHHHHH
Q 038342 10 NLDLLHRLKSTEPPVWLAPRAELSETARKASKIIFSYLRPYAPKSP-------------LDQLLIEGFDAEQIWQQID 74 (553)
Q Consensus 10 ~~~~l~~l~~~~Pe~FLspq~ela~~~~sltK~LYd~~k~~~~~sp-------------L~ELvvegFD~EQIWQQLE 74 (553)
+..||+. .++|..+.|+=++.-..+++-+...| .++.|.|| ++.-.|+|.++++|-+.|.
T Consensus 57 ~~~al~~--~kkPD~lvTVFAGqDkEAt~~aR~yf---~~~pPSSPS~ALfKdGelvh~ieRh~IEGr~a~~Ia~~L~ 129 (136)
T PF06491_consen 57 AAMALQN--DKKPDHLVTVFAGQDKEATAKAREYF---EPYPPSSPSIALFKDGELVHFIERHHIEGRPAEEIAENLQ 129 (136)
T ss_dssp HHHHHHH--SS--SEEEEEETTTSHHHHHHHHHTS---TTS---SSEEEEEETTEEEEEE-GGGTTTS-HHHHHHHHH
T ss_pred HHHHHhC--CCCCCceEEeccCCCHHHHHHHHHhc---CCCCCCCchheeeeCCEEEEEeehhhcCCCCHHHHHHHHH
Confidence 3456665 88999888876666666666666544 46666666 6788899999999998874
No 10
>PF04931 DNA_pol_phi: DNA polymerase phi; InterPro: IPR007015 Proteins of this family are predominantly nucleolar. The majority are described as transcription factor transactivators. The family also includes the fifth essential DNA polymerase (Pol5p) of Schizosaccharomyces pombe (Fission yeast) and Saccharomyces cerevisiae (Baker's yeast) (2.7.7.7 from EC). Pol5p is localized exclusively to the nucleolus and binds near or at the enhancer region of rRNA-encoding DNA repeating units.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006351 transcription, DNA-dependent
Probab=19.35 E-value=1.4e+02 Score=35.34 Aligned_cols=11 Identities=27% Similarity=0.223 Sum_probs=5.4
Q ss_pred HHhhhhhhHHH
Q 038342 73 IDLQSQPLLSS 83 (553)
Q Consensus 73 LELqN~plL~~ 83 (553)
++....-||..
T Consensus 587 ~~vlveiLLsl 597 (784)
T PF04931_consen 587 SEVLVEILLSL 597 (784)
T ss_pred HHHHHHHHHHH
Confidence 44555555543
Done!