Query 012355
Match_columns 465
No_of_seqs 249 out of 574
Neff 5.4
Searched_HMMs 46136
Date Fri Mar 29 01:46:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/012355.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/012355hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2154 Predicted nucleolar pr 100.0 5.5E-66 1.2E-70 529.6 25.0 326 11-421 166-493 (505)
2 KOG2038 CAATT-binding transcri 100.0 6.8E-50 1.5E-54 427.8 19.7 254 133-409 468-764 (988)
3 PF03914 CBF: CBF/Mak21 family 100.0 1.5E-40 3.2E-45 306.8 13.4 162 190-365 1-164 (164)
4 COG5593 Nucleic-acid-binding p 100.0 5.6E-32 1.2E-36 281.8 20.0 252 132-419 362-621 (821)
5 COG5117 NOC3 Protein involved 99.9 2.3E-21 4.9E-26 200.3 18.9 205 136-370 406-654 (657)
6 KOG2153 Protein involved in th 99.8 4.5E-21 9.7E-26 204.8 11.0 220 136-433 459-692 (704)
7 KOG2153 Protein involved in th 98.0 9.7E-06 2.1E-10 88.5 7.2 146 196-369 544-700 (704)
8 KOG1058 Vesicle coat complex C 72.9 33 0.00071 39.8 11.2 150 136-291 278-434 (948)
9 PF14500 MMS19_N: Dos2-interac 50.7 2.6E+02 0.0056 28.2 12.1 111 174-285 41-156 (262)
10 COG1384 LysS Lysyl-tRNA synthe 31.5 91 0.002 34.7 5.7 40 196-237 468-508 (521)
11 PF08167 RIX1: rRNA processing 29.4 1.4E+02 0.003 27.7 6.0 36 252-287 111-148 (165)
12 PF06465 DUF1087: Domain of Un 28.9 52 0.0011 26.7 2.6 38 343-382 23-60 (66)
13 PF09068 EF-hand_2: EF hand; 27.6 1.1E+02 0.0025 27.5 4.9 67 135-201 44-125 (127)
14 PF10979 DUF2786: Protein of u 25.1 1.4E+02 0.003 22.1 4.0 35 251-285 3-39 (43)
15 cd00183 TFIIS_I N-terminal dom 24.4 59 0.0013 26.4 2.2 23 348-370 48-70 (76)
16 PF09660 DUF2397: Protein of u 20.8 4.4E+02 0.0095 29.1 8.6 95 137-243 100-201 (486)
17 PF01602 Adaptin_N: Adaptin N 20.2 1.1E+03 0.023 25.2 12.3 133 151-285 353-486 (526)
No 1
>KOG2154 consensus Predicted nucleolar protein involved in ribosome biogenesis [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=5.5e-66 Score=529.56 Aligned_cols=326 Identities=38% Similarity=0.623 Sum_probs=283.8
Q ss_pred ccccceeeehHHHHHHHHHhhccCCCCCCCCCCCCCCcccccchhHHHHHHHHHHHHhcCCCCCCCccccccccccCCCC
Q 012355 11 INYFIAFYFTYISMEKLARSLEGKGISDDKTGSADENSESHSRASIELSLRKSYYILSKIPSMEDNNEKSEHEMWSGSGS 90 (465)
Q Consensus 11 ~~y~Dvr~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~n~~~~l~~~~~~~~~~~~~~~~~~~~~~~ 90 (465)
-.|+|.+|.+|....+.+.+.....+.| + +.+..|.+.+++.++.+-.....+ .|..++.
T Consensus 166 ~~~t~k~f~~~~~~~~~~~s~~~q~~~D-------------p----~v~~~N~~~~ls~v~~p~~~~S~~---~~~~~~~ 225 (505)
T KOG2154|consen 166 VGYTDKYFKYFDITLTQVRSVVPQHPTD-------------P----PVIANNELEILSLVSLPLSVSSTS---SYVLEPI 225 (505)
T ss_pred ccchhHHHHHHHHHHHHHHHhccCCCCC-------------C----chhhcchHHHhhhccCCCCcccHh---hhccccC
Confidence 4589999999998888887765422211 1 477889999999998754322222 2332211
Q ss_pred CCccchhHHhhhhhhccccCccccccCcchhhhhchHHHHHHHHHHHHHHHHHHhccCCCChhhHHHHHHHhhhhhhccc
Q 012355 91 SSEEGNLKEASKKSKTKVKMPKAEKSNNNSCLQALSAAIISKKMKSKFTKAWITFLRLPLPVDIYKEVLVTLHRAVIPFL 170 (465)
Q Consensus 91 ~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~awL~~Lk~al~~~l~k~vL~~L~k~i~pHl 170 (465)
+ +.+...++.|+.|+.+|+++++..++..+++++|.+++++|+||+
T Consensus 226 ----------------------p------------~~~~~~~~~~k~f~~~Wls~l~~~ls~~lykkil~vih~rvip~l 271 (505)
T KOG2154|consen 226 ----------------------P------------KQTENEKQIRKSFQNMWLSSLNGELSLKLYKKILLVIHKRVIPHL 271 (505)
T ss_pred ----------------------c------------cccccHHHHHHHHHHHHHHHhcCcCcHHHHHHHHHHHHHHHhHhh
Confidence 0 111123456999999999999999999999999999999999999
Q ss_pred CChhhHhhHHHHhhc-cCcchHHHHHHHHHHHHHhhCCCchhHHHHHHHhhCccccccccHHHHHHHHHHHhcCCCChHH
Q 012355 171 SNPIMLCDFLTRSYD-IGGVVSVMALSSLFILMTQHGLEYPNFYEKLYALLVPSIFMAKHRAKFFELLDSCLRSPLLPAY 249 (465)
Q Consensus 171 ~Np~ll~DFL~d~~d-~gg~~SllAL~~LF~Li~~~Nld~~rFY~~LY~LLdp~l~~s~~ra~fL~LL~~~Lks~~lp~~ 249 (465)
..|..++|||+++|| .||++||+||+|||+||++||++||.||.+||+||+|++||.+||+|||+|+|.||+|+|||++
T Consensus 272 ~~P~kl~DFLtdsyd~~~g~vslLALngLF~Lm~khNleYP~FY~KLY~Ll~Pslfh~KyRarff~L~D~FLSSTHLpa~ 351 (505)
T KOG2154|consen 272 ISPTKLMDFLTDSYDDIGGVVSLLALNGLFILMTKHNLEYPDFYEKLYALLNPSLFHVKYRARFFRLADLFLSSTHLPAY 351 (505)
T ss_pred cChHHHHHHHHHHHhccCCchhHHHHhHHHHHHHHcCCCCchHHHHHHHhcCchHHHHHHHHHHHHHHHHHhhcccchHH
Confidence 999999999999999 8999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhccCChhHHHHHHHHHHHHHHhCccccccccccCCCCCCCCChhhHHHhHHhhhhhcccCCCCCCCCC
Q 012355 250 LAAAFVKKLSRLSILVPPSGALVIMALIHNLLRRHPSINCLLHREDGNETHNDDSKAEKEIVDAATVANISSIKPGIDHF 329 (465)
Q Consensus 250 RVAAFiKRLlqlaL~~pP~~~~~iL~lI~nLLkrhP~l~~LL~~~~~~~~~~~~~~~e~~d~de~~~~~~~~~~~~~d~Y 329 (465)
.||||+|||+|+||.+||.+++.+|+||+||++|||+|+.|+|++...+ ...|||
T Consensus 352 LvAsFlKrLaRlaL~APpeA~~~vipfI~Nll~rHp~c~~lvhr~~~~~-------------------------~~~Dpf 406 (505)
T KOG2154|consen 352 LVASFLKRLARLALEAPPEAIVIVIPFICNLLRRHPNCQPLVHRSHALS-------------------------LYDDPF 406 (505)
T ss_pred HHHHHHHHHHHHhccCCcccchhhHHHHHHHHHhCCchhhhhccccccc-------------------------CCCCCC
Confidence 9999999999999999999999999999999999999999999987632 234999
Q ss_pred CCCCCCCcCCCCCcchhHHHHHHhhccChHHHHHHHHhhccccccccccccccCcCCCCcHHHHHHHHHhhhcCCC-Ccc
Q 012355 330 DDEESNPVKSNAMRSSLWEIDTLRHHYCPPVSRFVLSLENDLTVRAKTTEINVKDFCSGSYATIFGEEIRRRVKQV-PLA 408 (465)
Q Consensus 330 dp~~rDP~~~nA~~SsLWEL~~L~~HyHPsVa~~A~~L~~g~~~~~k~~~y~~~dfld~sy~~~ld~el~k~~k~~-p~~ 408 (465)
|+.+.||..++|++||||||.+||.||||+|+..|+.+.+++++ ++|+++|++|++|..++|+|++|+.|.. |++
T Consensus 407 d~~EtDP~ks~ALeSSLWEL~~Lq~Hy~p~Va~~A~~~~q~~~k----~ef~~ed~ld~~y~~l~d~el~~kgk~~p~le 482 (505)
T KOG2154|consen 407 DNDETDPKKSGALESSLWELELLQTHYHPEVAKAASFFNQSLYK----PEFGLEDGLDSKYSVLQDGELSRKGKRFPPLE 482 (505)
T ss_pred CCCCCChhhhhhHHHHHHHHHHHHHhhcHHHHHHHHHHhccCcc----ccccCcchhhhhhHHhhcchhhcccCCCCCcc
Confidence 99999999999999999999999999999999999999999886 6899999999999999999999999954 555
Q ss_pred cccCCCCccCCCC
Q 012355 409 FYKTTPTSLFSDS 421 (465)
Q Consensus 409 ~~~~~p~~lf~~~ 421 (465)
+.+ ++++++..
T Consensus 483 fe~--~t~~~g~~ 493 (505)
T KOG2154|consen 483 FER--RTGLGGRF 493 (505)
T ss_pred ccc--ccccCCch
Confidence 544 78888763
No 2
>KOG2038 consensus CAATT-binding transcription factor/60S ribosomal subunit biogenesis protein [Translation, ribosomal structure and biogenesis; Transcription]
Probab=100.00 E-value=6.8e-50 Score=427.80 Aligned_cols=254 Identities=26% Similarity=0.374 Sum_probs=220.6
Q ss_pred HHHHHHHHHHHHhccCCCC-----hhhHHHHHHHhhhhhhcccCChhhHhhHHHHhhccCcchHHHHHHHHHHHHHhhCC
Q 012355 133 KMKSKFTKAWITFLRLPLP-----VDIYKEVLVTLHRAVIPFLSNPIMLCDFLTRSYDIGGVVSVMALSSLFILMTQHGL 207 (465)
Q Consensus 133 ~~k~~~~~awL~~Lk~al~-----~~l~k~vL~~L~k~i~pHl~Np~ll~DFL~d~~d~gg~~SllAL~~LF~Li~~~Nl 207 (465)
+..+++.+|.|||+|||+| .+.+..++..|++ +.|.+| |+ +|||||++|||++....+
T Consensus 468 e~nsrllSAlLTGvNRAfPfaq~~ddk~~~~~~tLFk--l~HssN------FN---------TsVQaLmLlfQvs~~~~~ 530 (988)
T KOG2038|consen 468 ELNSRLLSALLTGVNRAFPFAQTADDKLEEQMKTLFK--LTHSSN------FN---------TSVQALMLLFQVSKKNDY 530 (988)
T ss_pred hhhHHHHHHHHhcccccCCcccCchHHHHHHhHHHHH--HHhhcc------cc---------hhHHHHHHHHHHHHhhhh
Confidence 5689999999999999987 5789999999999 999999 99 999999999999999999
Q ss_pred CchhHHHHHHH-hhCccccccccHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHhccCChhHHHHHHHHHHHHHHhCcc
Q 012355 208 EYPNFYEKLYA-LLVPSIFMAKHRAKFFELLDSCLRSPLLPAYLAAAFVKKLSRLSILVPPSGALVIMALIHNLLRRHPS 286 (465)
Q Consensus 208 d~~rFY~~LY~-LLdp~l~~s~~ra~fL~LL~~~Lks~~lp~~RVAAFiKRLlqlaL~~pP~~~~~iL~lI~nLLkrhP~ 286 (465)
.++|||++||+ ||||+++.++++++||+||+++|+.|. ++.||+||||||+|||++.+|+++||+|.++++|++..|.
T Consensus 531 vSDRyY~aLY~kLLdP~l~~sSKq~m~LnLlykslK~D~-ni~RV~AFvKRlLQVa~~q~P~~i~G~l~Llsel~Karp~ 609 (988)
T KOG2038|consen 531 VSDRYYRALYRKLLDPRLMNSSKQAMFLNLLYKSLKEDI-NIQRVRAFVKRLLQVAVQQQPPFICGILFLLSELLKARPT 609 (988)
T ss_pred hHHHHHHHHHHHhcCcccCchHHHHHHHHHHHHHHHhhh-hHHHHHHHHHHHHHHHHhcCCchhHhHHHHHHHHHHhcch
Confidence 99999999999 999999999999999999999999997 9999999999999999999999999999999999999999
Q ss_pred ccccccccCCCCCCCC--------ChhhHH-HhHHhh---------------------hhhcc-------cCCCCCCCCC
Q 012355 287 INCLLHREDGNETHND--------DSKAEK-EIVDAA---------------------TVANI-------SSIKPGIDHF 329 (465)
Q Consensus 287 l~~LL~~~~~~~~~~~--------~~~~e~-~d~de~---------------------~~~~~-------~~~~~~~d~Y 329 (465)
++.|+.+.+..+.+++ +.++|. .|.|.+ ..+.+ -+.....++|
T Consensus 610 l~~lv~~~~~~D~e~dv~~~~e~DD~deek~vd~Dke~~~vdk~~~e~~~~e~ds~s~k~E~~~~~~~d~~~~~~~~~~Y 689 (988)
T KOG2038|consen 610 LRKLVVNSEDIDPEEDVVAQMENDDVDEEKKVDLDKEGKEVDKNGVEEEVEEEDSVSEKKEDLDKKKVDPIGARGAKTPY 689 (988)
T ss_pred HHHHhhCCcccChhhhhhhhhcccccchhhhccccccceeecccccccccccccccccchhhhhhhhccccccccCCCCC
Confidence 9999976655333221 111111 000000 00111 1233456799
Q ss_pred CCCCCCCcCCCCCcchhHHHHHHhhccChHHHHHHHHhhccccccccccccccCcCCCCcHHHHHHHHHhhhcCCCCccc
Q 012355 330 DDEESNPVKSNAMRSSLWEIDTLRHHYCPPVSRFVLSLENDLTVRAKTTEINVKDFCSGSYATIFGEEIRRRVKQVPLAF 409 (465)
Q Consensus 330 dp~~rDP~~~nA~~SsLWEL~~L~~HyHPsVa~~A~~L~~g~~~~~k~~~y~~~dfld~sy~~~ld~el~k~~k~~p~~~ 409 (465)
||..|||.||||..||||||..|.+||||+|+.||+.|.+|..++ |+++|+.|||+++|||+|+.|.+|++-.+.
T Consensus 690 D~r~R~P~f~nAd~tslWEl~~ls~HfHPSVa~~Akall~G~~i~-----y~g~~L~dfTL~~FLDrF~yRnPK~~t~~~ 764 (988)
T KOG2038|consen 690 DPRKRNPLFCNADHTSLWELLLLSKHFHPSVATFAKALLEGEEIQ-----YGGPPLNDFTLMAFLDRFAYRNPKQVTKAR 764 (988)
T ss_pred CcccCCccccCCccchHHHHHHHhhhcCchHHHHHHHHhcCceee-----cCCCchhHHHHHHHHHHHHhcCcccccccC
Confidence 999999999999999999999999999999999999999999875 999999999999999999999999876543
No 3
>PF03914 CBF: CBF/Mak21 family; InterPro: IPR005612 This domain is present in the CAATT-binding protein which is essential for growth and necessary for 60S ribosomal subunit biogenesis. Other proteins containing this domain stimulate transcription from the HSP70 promoter.
Probab=100.00 E-value=1.5e-40 Score=306.83 Aligned_cols=162 Identities=41% Similarity=0.700 Sum_probs=142.9
Q ss_pred hHHHHHHHHHHHHHhhCCCchhHHHHHHHhh-CccccccccH-HHHHHHHHHHhcCCCChHHHHHHHHHHHHHHhccCCh
Q 012355 190 VSVMALSSLFILMTQHGLEYPNFYEKLYALL-VPSIFMAKHR-AKFFELLDSCLRSPLLPAYLAAAFVKKLSRLSILVPP 267 (465)
Q Consensus 190 ~SllAL~~LF~Li~~~Nld~~rFY~~LY~LL-dp~l~~s~~r-a~fL~LL~~~Lks~~lp~~RVAAFiKRLlqlaL~~pP 267 (465)
++|+||.++|+|++++|+|+++||++||++| +|..++++++ .+||++|+++|+++++|..|||||||||+|+|+++||
T Consensus 1 ~~i~al~~l~~l~~~~n~d~~~FY~~LY~~L~~p~~~~~~~~~~~~l~lL~~~l~~~~~~~~rvaAFiKRLl~~sl~~~~ 80 (164)
T PF03914_consen 1 TCIQALFLLFQLLSGQNIDLDRFYRALYSLLLDPELFSSSDKSALLLNLLDKSLKSDHLPIQRVAAFIKRLLQLSLHLPP 80 (164)
T ss_pred CHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHcchhhccccchHHHHHHHHHHHHcccCCcHHHHHHHHHHHHHHHHcCCH
Confidence 5899999999999999999999999999966 9999998865 5599999999999999999999999999999999999
Q ss_pred hHHHHHHHHHHHHHHhCccccccccccCCCCCCCCChhhHHHhHHhhhhhcccCCCCCCCCCCCCCCCCcCCCCCcchhH
Q 012355 268 SGALVIMALIHNLLRRHPSINCLLHREDGNETHNDDSKAEKEIVDAATVANISSIKPGIDHFDDEESNPVKSNAMRSSLW 347 (465)
Q Consensus 268 ~~~~~iL~lI~nLLkrhP~l~~LL~~~~~~~~~~~~~~~e~~d~de~~~~~~~~~~~~~d~Ydp~~rDP~~~nA~~SsLW 347 (465)
++++++|.+|++|+++||.|+.|+++++...+. ++.++++ .....++|+|+.+||++|||..|+||
T Consensus 81 ~~~~~~L~~i~~ll~~~p~l~~ll~~~~~~~~~--~~~~~~~------------~~~~~~~Y~p~~~dP~~~~a~~s~lW 146 (164)
T PF03914_consen 81 SFALAILALIRKLLKRHPNLKSLLDNEEKKADS--GSEEEDE------------EDKSEDKYDPEKRDPEFSNALASSLW 146 (164)
T ss_pred HHHHHHHHHHHHHHHHCHHHHHHhcCCcccccc--chhhccc------------ccccccccCcCCCCHhHcCCchhHHH
Confidence 999999999999999999999999887763210 0011111 11356799999999999999999999
Q ss_pred HHHHHhhccChHHHHHHH
Q 012355 348 EIDTLRHHYCPPVSRFVL 365 (465)
Q Consensus 348 EL~~L~~HyHPsVa~~A~ 365 (465)
||.+|++||||+|+.+|+
T Consensus 147 EL~lL~~H~hP~V~~~A~ 164 (164)
T PF03914_consen 147 ELNLLRNHYHPSVRQFAR 164 (164)
T ss_pred HHHHHHHCCCcHHHHHhC
Confidence 999999999999999985
No 4
>COG5593 Nucleic-acid-binding protein possibly involved in ribosomal biogenesis [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=5.6e-32 Score=281.85 Aligned_cols=252 Identities=20% Similarity=0.199 Sum_probs=210.8
Q ss_pred HHHHHHHHHHHHHhccCCCC-----hhhHHHHHHHhhhhhhcccCChhhHhhHHHHhhccCcchHHHHHHHHHHHHHhhC
Q 012355 132 KKMKSKFTKAWITFLRLPLP-----VDIYKEVLVTLHRAVIPFLSNPIMLCDFLTRSYDIGGVVSVMALSSLFILMTQHG 206 (465)
Q Consensus 132 ~~~k~~~~~awL~~Lk~al~-----~~l~k~vL~~L~k~i~pHl~Np~ll~DFL~d~~d~gg~~SllAL~~LF~Li~~~N 206 (465)
.+..+.+.++.|+|+||+.| ...++.++.+|++ +.|..+ |+ +++|||++++|..-..-
T Consensus 362 ~eknS~~~savLtG~nRa~pfa~l~~~~~~~Hm~tlfk--ith~~~------fn---------ts~qalmli~q~~~~~~ 424 (821)
T COG5593 362 TEKNSFYGSAVLTGCNRAGPFALLFRNAVKSHMMTLFK--ITHEFL------FN---------TSEQALMLIDQEFYRFL 424 (821)
T ss_pred HhhhhHHHHHHHhcccccCchhhhhHHHHHHHHHHHHh--hhhhhh------hh---------HHHHHHHHHHHHHHHHh
Confidence 34568889999999999855 6888999999999 999998 88 99999999999999999
Q ss_pred CCchhHHHHHHH-hhCccccccccHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHhcc-CChhHHHHHHHHHHHHHHhC
Q 012355 207 LEYPNFYEKLYA-LLVPSIFMAKHRAKFFELLDSCLRSPLLPAYLAAAFVKKLSRLSIL-VPPSGALVIMALIHNLLRRH 284 (465)
Q Consensus 207 ld~~rFY~~LY~-LLdp~l~~s~~ra~fL~LL~~~Lks~~lp~~RVAAFiKRLlqlaL~-~pP~~~~~iL~lI~nLLkrh 284 (465)
++.+|||+.||. |+||.+..+++++.+++|++++|+-+. ++.||-||+||++|+|-+ +.++++-|....+.+|-..-
T Consensus 425 l~SdryY~~lYesl~dprls~ssKqgiylnllykSL~vd~-nV~rv~af~kr~lQv~S~w~~~p~~tg~f~~l~ql~~a~ 503 (821)
T COG5593 425 LDSDRYYTPLYESLIDPRLSESSKQGIYLNLLYKSLRVDT-NVHRVDAFRKRALQVISGWMVLPFDTGDFMSLLQLEMAC 503 (821)
T ss_pred hccchhhhhHHHHHhhhhhhcccccchhHHHHHHHHHHhc-CchHHHHHHHHHHHHhhccccCCccchHHHHHHHHHHHh
Confidence 999999999999 999999999999999999999999998 999999999999999654 67888889999999999999
Q ss_pred ccccccccccCCCCCCCCC-hhhHHHhHHhhhhhcccCCCCCCCCCCCCCCCCcCCCCCcchhHHHHHHhhccChHHHHH
Q 012355 285 PSINCLLHREDGNETHNDD-SKAEKEIVDAATVANISSIKPGIDHFDDEESNPVKSNAMRSSLWEIDTLRHHYCPPVSRF 363 (465)
Q Consensus 285 P~l~~LL~~~~~~~~~~~~-~~~e~~d~de~~~~~~~~~~~~~d~Ydp~~rDP~~~nA~~SsLWEL~~L~~HyHPsVa~~ 363 (465)
|.++.|+.+.+-+=+-+.+ +++.|+ .......||.++|||.++||..|||||+..+.+||||+|..+
T Consensus 504 ~~lk~l~tn~~vd~e~e~d~~eeq~d------------kd~krkeydgrkrdpk~anae~s~lwei~~finhfhptv~~~ 571 (821)
T COG5593 504 GDLKNLLTNTPVDYEYESDAEEEQGD------------KDIKRKEYDGRKRDPKFANAEKSSLWEINNFINHFHPTVKTY 571 (821)
T ss_pred HHHHHHhcCCCcccccccchhhhhcc------------cchhhhhccCcccCcccccccccchhhhhhhhhhcccHHHHH
Confidence 9999999877652221111 111111 112234699999999999999999999999999999999999
Q ss_pred HHHhhccccccccccccccCcCCCCcHHHHHHHHHhhhcCCCCcccccCCCCccCC
Q 012355 364 VLSLENDLTVRAKTTEINVKDFCSGSYATIFGEEIRRRVKQVPLAFYKTTPTSLFS 419 (465)
Q Consensus 364 A~~L~~g~~~~~k~~~y~~~dfld~sy~~~ld~el~k~~k~~p~~~~~~~p~~lf~ 419 (465)
|+.+..|..+ ..-.++.=||+..|||+++.|.+|+--.+--..|-.-||+
T Consensus 572 a~a~v~ge~~------i~kp~l~l~tl~hfldrf~yr~~kqt~~arg~simqpl~~ 621 (821)
T COG5593 572 ANAYVTGEEQ------IAKPDLGLFTLSHFLDRFVYRSAKQTNTARGTSIMQPLFS 621 (821)
T ss_pred HHHhhhhhhh------hcCCCcchhhHHHHHHHHHhcCcccccccccchhhhhhhc
Confidence 9999999865 3345677799999999999999887655543333333443
No 5
>COG5117 NOC3 Protein involved in the nuclear export of pre-ribosomes [Translation, ribosomal structure and biogenesis / Intracellular trafficking and secretion]
Probab=99.87 E-value=2.3e-21 Score=200.28 Aligned_cols=205 Identities=20% Similarity=0.247 Sum_probs=174.5
Q ss_pred HHHHHHHHHhccCCCChhhHHHHHHHhhhhhhcccCChhhHhhHHHHhhcc---------Cc---chHHHHHHHHHHHHH
Q 012355 136 SKFTKAWITFLRLPLPVDIYKEVLVTLHRAVIPFLSNPIMLCDFLTRSYDI---------GG---VVSVMALSSLFILMT 203 (465)
Q Consensus 136 ~~~~~awL~~Lk~al~~~l~k~vL~~L~k~i~pHl~Np~ll~DFL~d~~d~---------gg---~~SllAL~~LF~Li~ 203 (465)
+..+..||.+|+. -..+++..||+||.| +.|++||++++|||..++.. |. .-+++|+.+.|.|++
T Consensus 406 kiif~~Yf~vLk~-~~k~lig~vleGl~k--~~~~~n~eflGD~Levl~eL~~d~~~dk~ss~a~r~alLcI~tAF~i~S 482 (657)
T COG5117 406 KIIFRLYFMVLKG-DRKDLIGYVLEGLVK--YRKIINPEFLGDLLEVLYELLNDNPLDKISSDARRQALLCILTAFEIAS 482 (657)
T ss_pred HHHHHHHHHHHhc-chHHHHHHHHHHHHH--HHhhcCHHHHhHHHHHHHHHHcCCchhhhhHHHHHHHHHHhhHHHHHhh
Confidence 4455677777762 345799999999999 99999999999999998853 21 357899999999987
Q ss_pred h-----hCCCchhHHHHHHHhhCccccc--------------------------cccHHHHHHHHHH-HhcCCCChHHHH
Q 012355 204 Q-----HGLEYPNFYEKLYALLVPSIFM--------------------------AKHRAKFFELLDS-CLRSPLLPAYLA 251 (465)
Q Consensus 204 ~-----~Nld~~rFY~~LY~LLdp~l~~--------------------------s~~ra~fL~LL~~-~Lks~~lp~~RV 251 (465)
. .|+|...|...||+++.|=-+. +-...+++.+++. |+++.+....|.
T Consensus 483 ~t~ygk~n~Dl~~fVd~lY~~v~p~~l~pD~dLn~k~~RL~DP~~~~~~~~VN~tt~~e~LlK~~~~~Ffksk~~~~~r~ 562 (657)
T COG5117 483 ATLYGKENYDLGGFVDLLYSMVHPMNLEPDADLNLKIKRLKDPDAPSKPFVVNATTDNEELLKIVRLLFFKSKQPVHRRH 562 (657)
T ss_pred hhhhhhccccHHHHHHHHHHHhCcccCCcchhhhhhhhhhcCCcccccCccccccccHHHHHHHHHHHheeccCchHHHH
Confidence 5 6899999999999986441111 1234677887765 678888888999
Q ss_pred HHHHHHHHHHhccCChhHHHHHHHHHHHHHHhCccccccccccCCCCCCCCChhhHHHhHHhhhhhcccCCCCCCCCCCC
Q 012355 252 AAFVKKLSRLSILVPPSGALVIMALIHNLLRRHPSINCLLHREDGNETHNDDSKAEKEIVDAATVANISSIKPGIDHFDD 331 (465)
Q Consensus 252 AAFiKRLlqlaL~~pP~~~~~iL~lI~nLLkrhP~l~~LL~~~~~~~~~~~~~~~e~~d~de~~~~~~~~~~~~~d~Ydp 331 (465)
.+|-|||+-+|.+.|..++.++|.++..|+.|+|.|..|..++.+ +|.|.|+|
T Consensus 563 ~~f~krl~~c~s~~pe~~~~ail~~~~kl~~rys~~s~l~~sE~~---------------------------ig~g~~~~ 615 (657)
T COG5117 563 VIFKKRLLYCCSRSPEEFKGAILDISAKLDIRYSDCSNLKCSEFD---------------------------IGAGNVDS 615 (657)
T ss_pred HHHHHHHHHHHccChHHHHHHHHHHHHHHHhhhhhccCccCchhh---------------------------cCCccccc
Confidence 999999999999999999999999999999999999999988765 57899999
Q ss_pred CCCCCcCCCCCcchhHHHHHHhhccChHHHHHHHHhhcc
Q 012355 332 EESNPVKSNAMRSSLWEIDTLRHHYCPPVSRFVLSLEND 370 (465)
Q Consensus 332 ~~rDP~~~nA~~SsLWEL~~L~~HyHPsVa~~A~~L~~g 370 (465)
...||..+|.....|||-.+|.+||+|.|++-|+.|+..
T Consensus 616 ~~~nP~~SN~~tA~l~e~fLlk~hy~P~Vsq~~k~L~~~ 654 (657)
T COG5117 616 IPSNPDLSNSSTAVLFEYFLLKQHYSPAVSQSAKELLKS 654 (657)
T ss_pred CCCCcccCCchhHHHHHHHHHHhhcCHHhHHHHHHHHhh
Confidence 999999999999999999999999999999999998764
No 6
>KOG2153 consensus Protein involved in the nuclear export of pre-ribosomes [Translation, ribosomal structure and biogenesis; Intracellular trafficking, secretion, and vesicular transport]
Probab=99.84 E-value=4.5e-21 Score=204.83 Aligned_cols=220 Identities=18% Similarity=0.216 Sum_probs=175.6
Q ss_pred HHHHHHHHHhccCCCChhhHHHHHHHhhhhhhcccCChhhHhhHHHHhhcc------CcchHHHHHHHHHHHHHh----h
Q 012355 136 SKFTKAWITFLRLPLPVDIYKEVLVTLHRAVIPFLSNPIMLCDFLTRSYDI------GGVVSVMALSSLFILMTQ----H 205 (465)
Q Consensus 136 ~~~~~awL~~Lk~al~~~l~k~vL~~L~k~i~pHl~Np~ll~DFL~d~~d~------gg~~SllAL~~LF~Li~~----~ 205 (465)
+..+.+|+.+|+...-. ++..+|+||++ +.|++|++++.|++..+-++ +..-+++|++++|.|+++ .
T Consensus 459 kiVFtiYFrILkn~~~t-ll~~vlEGlak--f~h~invef~~dll~vlk~ll~d~~~~~re~l~cvqtaf~IlS~qg~~l 535 (704)
T KOG2153|consen 459 KIVFTIYFRILKNDRYT-LLGAVLEGLAK--FAHLINVEFLGDLLKVLKELLEDIELSYREALLCVQTAFCILSGQGEKL 535 (704)
T ss_pred HHHHHHHHHHHhcchhh-HHHHHHhhHHH--HhhhccHHHhhhHHHHHHHHHHhhhHHHHHHHHHHHHHHHhhhccceee
Confidence 34455899999877666 99999999999 99999999999998665542 446789999999999986 6
Q ss_pred CCCchhHHHHHHHhhCcccccccc---HHHHHHHHHHHh-cCCCChHHHHHHHHHHHHHHhccCChhHHHHHHHHHHHHH
Q 012355 206 GLEYPNFYEKLYALLVPSIFMAKH---RAKFFELLDSCL-RSPLLPAYLAAAFVKKLSRLSILVPPSGALVIMALIHNLL 281 (465)
Q Consensus 206 Nld~~rFY~~LY~LLdp~l~~s~~---ra~fL~LL~~~L-ks~~lp~~RVAAFiKRLlqlaL~~pP~~~~~iL~lI~nLL 281 (465)
|+|+.+||.+||+++-| +..... -.+.++|++..+ +... |..+|.+|++||+.+++|.-+...+ .++..+
T Consensus 536 niD~~~fv~~lY~~l~~-~~~~~~~~~~~~ilr~~d~~~~k~r~-~v~~~~~~~~~Ll~~~~h~~~~s~~----~s~~~~ 609 (704)
T KOG2153|consen 536 NIDLGKFVDHLYKMLFP-MNLGPDDDGFAIILRLLDPLLIKIRK-PVVNVITKMERLLKCSLHVFFNSKL----ISKYRD 609 (704)
T ss_pred ccCHHHHHHHHHHHhcc-cccCCCcchHHHHHHHhhHhhhhhhh-hHHHHHHHHHHHHHHHHHHhhcccc----hHHHHH
Confidence 89999999999998766 222222 347889999875 4555 8888999999999999998877666 667777
Q ss_pred HhCccccccccccCCCCCCCCChhhHHHhHHhhhhhcccCCCCCCCCCCCCCCCCcCCCCCcchhHHHHHHhhccChHHH
Q 012355 282 RRHPSINCLLHREDGNETHNDDSKAEKEIVDAATVANISSIKPGIDHFDDEESNPVKSNAMRSSLWEIDTLRHHYCPPVS 361 (465)
Q Consensus 282 krhP~l~~LL~~~~~~~~~~~~~~~e~~d~de~~~~~~~~~~~~~d~Ydp~~rDP~~~nA~~SsLWEL~~L~~HyHPsVa 361 (465)
..++.|..|+.++ -|+||++....|||+.+++ |||.|+
T Consensus 610 ~~fsk~~~~~~~~----------------------------------------~pe~~s~a~~al~e~~l~r--y~~~~~ 647 (704)
T KOG2153|consen 610 IEFSKRLNLLDSE----------------------------------------TPEYCSIASLALFEKLLLR--YHPISR 647 (704)
T ss_pred HHhhhhhhhhhcc----------------------------------------CccccccccHHHHHHHHHh--cchHHH
Confidence 7888877776432 1999999999999999999 999999
Q ss_pred HHHHHhhccccccccccccccCcCCCCcHHHHHHHHHhhhcCCCCcccccCCCCccCCCCCCCCceeccCcc
Q 012355 362 RFVLSLENDLTVRAKTTEINVKDFCSGSYATIFGEEIRRRVKQVPLAFYKTTPTSLFSDSDFAGWTFICDKT 433 (465)
Q Consensus 362 ~~A~~L~~g~~~~~k~~~y~~~dfld~sy~~~ld~el~k~~k~~p~~~~~~~p~~lf~~~d~~~~~f~~~~~ 433 (465)
.||..+.-|.+. | ....++.|+++. ....||.. +...|.|+|+++
T Consensus 648 ~~a~~~~~G~~~------~---------~~~a~~p~~s~~-----------sa~~L~~~-~~~~~~~~P~v~ 692 (704)
T KOG2153|consen 648 LMASEIAIGVGA------T---------GEGALPPELSNL-----------SAAELFEQ-DLLEMHYNPTVP 692 (704)
T ss_pred HHHHHHhhcCCc------c---------CcCCCCccccCc-----------hHHHHhhh-HHHHhccCCCCC
Confidence 999999999885 2 123334444444 45678876 888999999988
No 7
>KOG2153 consensus Protein involved in the nuclear export of pre-ribosomes [Translation, ribosomal structure and biogenesis; Intracellular trafficking, secretion, and vesicular transport]
Probab=98.02 E-value=9.7e-06 Score=88.50 Aligned_cols=146 Identities=24% Similarity=0.322 Sum_probs=109.6
Q ss_pred HHHHHHHHhhCCCc--hhHHHHHHHhhCccccccc--------cHHHHHHHH-HHHhcCCCChHHHHHHHHHHHHHHhcc
Q 012355 196 SSLFILMTQHGLEY--PNFYEKLYALLVPSIFMAK--------HRAKFFELL-DSCLRSPLLPAYLAAAFVKKLSRLSIL 264 (465)
Q Consensus 196 ~~LF~Li~~~Nld~--~rFY~~LY~LLdp~l~~s~--------~ra~fL~LL-~~~Lks~~lp~~RVAAFiKRLlqlaL~ 264 (465)
.+++.++-..|+++ +.||. +-+++||.+.... .+-+++.+. ..+..+..++.+|..+|-||+.-++.+
T Consensus 544 ~~lY~~l~~~~~~~~~~~~~~-ilr~~d~~~~k~r~~v~~~~~~~~~Ll~~~~h~~~~s~~~s~~~~~~fsk~~~~~~~~ 622 (704)
T KOG2153|consen 544 DHLYKMLFPMNLGPDDDGFAI-ILRLLDPLLIKIRKPVVNVITKMERLLKCSLHVFFNSKLISKYRDIEFSKRLNLLDSE 622 (704)
T ss_pred HHHHHHhcccccCCCcchHHH-HHHHhhHhhhhhhhhHHHHHHHHHHHHHHHHHHhhcccchHHHHHHHhhhhhhhhhcc
Confidence 44555555444443 45554 3456666322211 122333332 234466778999999999999999999
Q ss_pred CChhHHHHHHHHHHHHHHhCccccccccccCCCCCCCCChhhHHHhHHhhhhhcccCCCCCCCCCCCCCCCCcCCCCCcc
Q 012355 265 VPPSGALVIMALIHNLLRRHPSINCLLHREDGNETHNDDSKAEKEIVDAATVANISSIKPGIDHFDDEESNPVKSNAMRS 344 (465)
Q Consensus 265 ~pP~~~~~iL~lI~nLLkrhP~l~~LL~~~~~~~~~~~~~~~e~~d~de~~~~~~~~~~~~~d~Ydp~~rDP~~~nA~~S 344 (465)
.|....++.++|+-.+|-|++.+-.++..+.. .|.+.|.+...+|+.+|...+
T Consensus 623 ~pe~~s~a~~al~e~~l~ry~~~~~~~a~~~~---------------------------~G~~~~~~~a~~p~~s~~sa~ 675 (704)
T KOG2153|consen 623 TPEYCSIASLALFEKLLLRYHPISRLMASEIA---------------------------IGVGATGEGALPPELSNLSAA 675 (704)
T ss_pred CccccccccHHHHHHHHHhcchHHHHHHHHHh---------------------------hcCCccCcCCCCccccCchHH
Confidence 99999999999999999998888777765543 578999999999999999999
Q ss_pred hhHHHHHHhhccChHHHHHHHHhhc
Q 012355 345 SLWEIDTLRHHYCPPVSRFVLSLEN 369 (465)
Q Consensus 345 sLWEL~~L~~HyHPsVa~~A~~L~~ 369 (465)
.|||-.+|+.||+|+|..-++.+..
T Consensus 676 ~L~~~~~~~~~~~P~v~~~~kql~~ 700 (704)
T KOG2153|consen 676 ELFEQDLLEMHYNPTVPLSLKQLYK 700 (704)
T ss_pred HHhhhHHHHhccCCCCCchHHHHHH
Confidence 9999999999999999988777654
No 8
>KOG1058 consensus Vesicle coat complex COPI, beta subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=72.94 E-value=33 Score=39.76 Aligned_cols=150 Identities=16% Similarity=0.159 Sum_probs=78.1
Q ss_pred HHHHHHHHHhccCCCChhhHHHHHHHhhhhhhcccCChh----hHhhHHHHhhccCcchHHHHHHHHHHHHHhhCCC-ch
Q 012355 136 SKFTKAWITFLRLPLPVDIYKEVLVTLHRAVIPFLSNPI----MLCDFLTRSYDIGGVVSVMALSSLFILMTQHGLE-YP 210 (465)
Q Consensus 136 ~~~~~awL~~Lk~al~~~l~k~vL~~L~k~i~pHl~Np~----ll~DFL~d~~d~gg~~SllAL~~LF~Li~~~Nld-~~ 210 (465)
++-.++|+..+-......+.--+|+.|.. +. -.+-. +.+|+|..+-..+-.+.=-||...+.|.+.||+. --
T Consensus 278 k~Aa~~~i~l~~kesdnnvklIvldrl~~--l~-~~~~~il~~l~mDvLrvLss~dldvr~Ktldi~ldLvssrNvediv 354 (948)
T KOG1058|consen 278 KAAASTYIDLLVKESDNNVKLIVLDRLSE--LK-ALHEKILQGLIMDVLRVLSSPDLDVRSKTLDIALDLVSSRNVEDIV 354 (948)
T ss_pred HHHHHHHHHHHHhccCcchhhhhHHHHHH--Hh-hhhHHHHHHHHHHHHHHcCcccccHHHHHHHHHHhhhhhccHHHHH
Confidence 33445677666444333333344444443 22 12222 3344442211112235567888888888888863 33
Q ss_pred hHHHHHHH-hhCc-cccccccHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHhccCChhHHHHHHHHHHHHHHhCcccc
Q 012355 211 NFYEKLYA-LLVP-SIFMAKHRAKFFELLDSCLRSPLLPAYLAAAFVKKLSRLSILVPPSGALVIMALIHNLLRRHPSIN 288 (465)
Q Consensus 211 rFY~~LY~-LLdp-~l~~s~~ra~fL~LL~~~Lks~~lp~~RVAAFiKRLlqlaL~~pP~~~~~iL~lI~nLLkrhP~l~ 288 (465)
.|..+=.. .-+. .--..+||..+.+-+..|-.. .|. ..+.-|-=|+-----..+.++.++|.||++.+.+.|+++
T Consensus 355 ~~Lkke~~kT~~~e~d~~~~yRqlLiktih~cav~--Fp~-~aatvV~~ll~fisD~N~~aas~vl~FvrE~iek~p~Lr 431 (948)
T KOG1058|consen 355 QFLKKEVMKTHNEESDDNGKYRQLLIKTIHACAVK--FPE-VAATVVSLLLDFISDSNEAAASDVLMFVREAIEKFPNLR 431 (948)
T ss_pred HHHHHHHHhccccccccchHHHHHHHHHHHHHhhc--ChH-HHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHhCchHH
Confidence 44433322 2111 111245566666555544221 122 122333333333334678889999999999999999988
Q ss_pred ccc
Q 012355 289 CLL 291 (465)
Q Consensus 289 ~LL 291 (465)
..|
T Consensus 432 ~~i 434 (948)
T KOG1058|consen 432 ASI 434 (948)
T ss_pred HHH
Confidence 765
No 9
>PF14500 MMS19_N: Dos2-interacting transcription regulator of RNA-Pol-II
Probab=50.69 E-value=2.6e+02 Score=28.19 Aligned_cols=111 Identities=20% Similarity=0.230 Sum_probs=76.2
Q ss_pred hhHhhHHHHhhccCcchHHHHHHHHHHHHHhhCCCc---hhHHHHHHHhhCccccccccHHHHHHHHHHHhcCCCCh-HH
Q 012355 174 IMLCDFLTRSYDIGGVVSVMALSSLFILMTQHGLEY---PNFYEKLYALLVPSIFMAKHRAKFFELLDSCLRSPLLP-AY 249 (465)
Q Consensus 174 ~ll~DFL~d~~d~gg~~SllAL~~LF~Li~~~Nld~---~rFY~~LY~LLdp~l~~s~~ra~fL~LL~~~Lks~~lp-~~ 249 (465)
..|.+|+.+.++-.. ....||.|+..|+...+... ...-+.++.-.+++....+.|-.+++++...+..-... ..
T Consensus 41 ~~L~~F~~~rl~D~~-~~~~~l~gl~~L~~~~~~~~~~~~~i~~~l~~~~~~q~~~q~~R~~~~~ll~~l~~~~~~~l~~ 119 (262)
T PF14500_consen 41 QVLLDFFCSRLDDHA-CVQPALKGLLALVKMKNFSPESAVKILRSLFQNVDVQSLPQSTRYAVYQLLDSLLENHREALQS 119 (262)
T ss_pred HHHHHHHHHHhccHh-hHHHHHHHHHHHHhCcCCChhhHHHHHHHHHHhCChhhhhHHHHHHHHHHHHHHHHHhHHHHHh
Confidence 455668877664222 33455888888886666544 35566666666777777788989999998888662201 11
Q ss_pred HHHHHHHHHHHHhcc-CChhHHHHHHHHHHHHHHhCc
Q 012355 250 LAAAFVKKLSRLSIL-VPPSGALVIMALIHNLLRRHP 285 (465)
Q Consensus 250 RVAAFiKRLlqlaL~-~pP~~~~~iL~lI~nLLkrhP 285 (465)
.-..|++.+++++=. -.|--.+.+.-+++.+++..+
T Consensus 120 ~~~~fv~~~i~~~~gEkDPRnLl~~F~l~~~i~~~~~ 156 (262)
T PF14500_consen 120 MGDDFVYGFIQLIDGEKDPRNLLLSFKLLKVILQEFD 156 (262)
T ss_pred chhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHhcc
Confidence 235799999997765 367777788888888888888
No 10
>COG1384 LysS Lysyl-tRNA synthetase (class I) [Translation, ribosomal structure and biogenesis]
Probab=31.49 E-value=91 Score=34.68 Aligned_cols=40 Identities=20% Similarity=0.441 Sum_probs=28.3
Q ss_pred HHHHHHHHhhCCCchhHHHHHHH-hhCccccccccHHHHHHHH
Q 012355 196 SSLFILMTQHGLEYPNFYEKLYA-LLVPSIFMAKHRAKFFELL 237 (465)
Q Consensus 196 ~~LF~Li~~~Nld~~rFY~~LY~-LLdp~l~~s~~ra~fL~LL 237 (465)
..+|++...+++.+..||+.||+ ++..+ .+..-+-|+.++
T Consensus 468 ~~vy~~a~~~~~~~~~~F~~~Y~vliGk~--~GPRlg~Fla~l 508 (521)
T COG1384 468 NEVYEVAKKKGILPRAFFQALYRVLIGKE--RGPRLGSFLALL 508 (521)
T ss_pred HHHHHHHHhcCCCHHHHHHHHHHHHhCCC--CCccHHHHHHHh
Confidence 35788999999999999999999 55432 223334465554
No 11
>PF08167 RIX1: rRNA processing/ribosome biogenesis
Probab=29.44 E-value=1.4e+02 Score=27.68 Aligned_cols=36 Identities=17% Similarity=0.221 Sum_probs=24.7
Q ss_pred HHHHHHHHHHhccCC--hhHHHHHHHHHHHHHHhCccc
Q 012355 252 AAFVKKLSRLSILVP--PSGALVIMALIHNLLRRHPSI 287 (465)
Q Consensus 252 AAFiKRLlqlaL~~p--P~~~~~iL~lI~nLLkrhP~l 287 (465)
.-.+.++.+.++... +.....+|..+..++++||..
T Consensus 111 tp~l~~~i~~ll~l~~~~~~~~~~l~~L~~ll~~~ptt 148 (165)
T PF08167_consen 111 TPNLPKFIQSLLQLLQDSSCPETALDALATLLPHHPTT 148 (165)
T ss_pred hccHHHHHHHHHHHHhccccHHHHHHHHHHHHHHCCcc
Confidence 344444455444433 467778999999999999964
No 12
>PF06465 DUF1087: Domain of Unknown Function (DUF1087); InterPro: IPR009463 This is a group of proteins of unknown function.
Probab=28.88 E-value=52 Score=26.74 Aligned_cols=38 Identities=24% Similarity=0.301 Sum_probs=30.0
Q ss_pred cchhHHHHHHhhccChHHHHHHHHhhcccccccccccccc
Q 012355 343 RSSLWEIDTLRHHYCPPVSRFVLSLENDLTVRAKTTEINV 382 (465)
Q Consensus 343 ~SsLWEL~~L~~HyHPsVa~~A~~L~~g~~~~~k~~~y~~ 382 (465)
....||- +|++||+-.-...++.|..|..++ |.+.|.-
T Consensus 23 ~~~yWe~-LLr~~ye~~q~e~~~~LGKGKR~R-KqV~y~~ 60 (66)
T PF06465_consen 23 DPNYWEK-LLRHRYEQQQEEEEKALGKGKRSR-KQVNYAE 60 (66)
T ss_pred chHHHHH-HHHHHHHHHHHHHHHHhccccccc-ccccccc
Confidence 3578995 679999999999999999998875 3455543
No 13
>PF09068 EF-hand_2: EF hand; InterPro: IPR015153 Like other EF hand domains, this domain forms a helix-loop-helix motif, though since it does not contain the canonical pattern of calcium binding residues found in many EF hand domains, it does not bind calcium ions. The main function of this domain is the provision of specificity in beta-dystroglycan recognition, though in dystrophin it serves an additional role: stabilisation of the WW domain (IPR001202 from INTERPRO), enhancing dystroglycan binding []. ; PDB: 1EG3_A 1EG4_A.
Probab=27.61 E-value=1.1e+02 Score=27.45 Aligned_cols=67 Identities=19% Similarity=0.307 Sum_probs=39.1
Q ss_pred HHHHHHHHHHhc-cCCCChhhHHHHHHHhhhhh---hcccCC---------hhhHhhHHHHhhccC--cchHHHHHHHHH
Q 012355 135 KSKFTKAWITFL-RLPLPVDIYKEVLVTLHRAV---IPFLSN---------PIMLCDFLTRSYDIG--GVVSVMALSSLF 199 (465)
Q Consensus 135 k~~~~~awL~~L-k~al~~~l~k~vL~~L~k~i---~pHl~N---------p~ll~DFL~d~~d~g--g~~SllAL~~LF 199 (465)
-..|..-.+... -..++...+..+|..++..+ .|++.+ .+++..||...||.+ |.++++++...+
T Consensus 44 ~~~f~~~~l~~~~d~~l~v~~l~~~L~~iy~~l~~~~p~~~~i~~~~v~~a~~L~ln~Ll~vyD~~rtG~I~vls~KvaL 123 (127)
T PF09068_consen 44 IEAFREHGLNQSNDSSLSVSQLETLLSSIYEFLNKRLPTLHQIPSRPVDLAVDLLLNWLLNVYDSQRTGKIRVLSFKVAL 123 (127)
T ss_dssp HHHHHHTT---T-TSEEEHHHHHHHHHHHHHHHHHHSTTS--HH-----HHHHHHHHHHHHHH-TT--SEEEHHHHHHHH
T ss_pred HHHHHHcCCCcccCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCchhHHHHHHHHHHHHHHHhCCCCCCeeehhHHHHHH
Confidence 344554555554 23456666677777776211 566665 358888999999976 677888776665
Q ss_pred HH
Q 012355 200 IL 201 (465)
Q Consensus 200 ~L 201 (465)
.+
T Consensus 124 ~~ 125 (127)
T PF09068_consen 124 IT 125 (127)
T ss_dssp HH
T ss_pred HH
Confidence 54
No 14
>PF10979 DUF2786: Protein of unknown function (DUF2786); InterPro: IPR024498 This domain is found in proteins that have no known function.
Probab=25.06 E-value=1.4e+02 Score=22.09 Aligned_cols=35 Identities=17% Similarity=0.095 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHhcc--CChhHHHHHHHHHHHHHHhCc
Q 012355 251 AAAFVKKLSRLSIL--VPPSGALVIMALIHNLLRRHP 285 (465)
Q Consensus 251 VAAFiKRLlqlaL~--~pP~~~~~iL~lI~nLLkrhP 285 (465)
+..=|++|+.++=. .+|+-+-..+.-...||.+|-
T Consensus 3 il~kI~kLLalA~~~~~~~~EA~~A~~kAq~Lm~ky~ 39 (43)
T PF10979_consen 3 ILEKIRKLLALAESTGSNEHEAEAALAKAQRLMAKYG 39 (43)
T ss_pred HHHHHHHHHHHhhCCCCCHHHHHHHHHHHHHHHHHhC
Confidence 44558899999987 778889999999999999885
No 15
>cd00183 TFIIS_I N-terminal domain (domain I) of transcription elongation factor S-II (TFIIS); similar to a domain found in elongin A and CRSP70; likely to be involved in transcription; domain I from TFIIS interacts with RNA polymerase II holoenzyme
Probab=24.44 E-value=59 Score=26.43 Aligned_cols=23 Identities=17% Similarity=0.404 Sum_probs=19.8
Q ss_pred HHHHHhhccChHHHHHHHHhhcc
Q 012355 348 EIDTLRHHYCPPVSRFVLSLEND 370 (465)
Q Consensus 348 EL~~L~~HyHPsVa~~A~~L~~g 370 (465)
-+..|++|.+|.|+.+|+.|...
T Consensus 48 ~V~~Lrkh~~~~i~~~A~~Lv~~ 70 (76)
T cd00183 48 KVNSLRKHSNEKIRKLAKALIKS 70 (76)
T ss_pred HHHHHHcCCcHHHHHHHHHHHHH
Confidence 37789999999999999988753
No 16
>PF09660 DUF2397: Protein of unknown function (DUF2397); InterPro: IPR013493 Proteins in this family are encoded within a conserved gene four-gene neighbourhood found sporadically in a phylogenetically broad range of bacteria including: Nocardia farcinica, Symbiobacterium thermophilum, Streptomyces avermitilis (Actinobacteria), Geobacillus kaustophilus (Firmicutes), Azoarcus sp. (strain EbN1) (Aromatoleum aromaticum (strain EbN1)) and Ralstonia solanacearum (Betaproteobacteria).
Probab=20.76 E-value=4.4e+02 Score=29.08 Aligned_cols=95 Identities=13% Similarity=0.170 Sum_probs=58.7
Q ss_pred HHHHHHHHhcc--CCCChhhHHHHHHHhhhhhhcccCChhhHhhHHHHhhccCc-chHHHHHHHHHHHHHhhCCCchhHH
Q 012355 137 KFTKAWITFLR--LPLPVDIYKEVLVTLHRAVIPFLSNPIMLCDFLTRSYDIGG-VVSVMALSSLFILMTQHGLEYPNFY 213 (465)
Q Consensus 137 ~~~~awL~~Lk--~al~~~l~k~vL~~L~k~i~pHl~Np~ll~DFL~d~~d~gg-~~SllAL~~LF~Li~~~Nld~~rFY 213 (465)
++...++..+- ..+...++..++..|-+ +..+.. +- ..+. ...-..+..||.-...++-.+.+||
T Consensus 100 R~v~~le~~~~~~gsL~~~~l~~I~~~L~~--L~~~~~---------~~-~~~d~~~~~~~w~~L~~~f~~L~~na~df~ 167 (486)
T PF09660_consen 100 RMVEELENLLGERGSLQRTLLERILERLRA--LAELAE---------SP-REGDAAEVYEWWRDLFEDFERLAQNAQDFY 167 (486)
T ss_pred HHHHHHHhhcccccccchhHHHHHHHHHHH--HHHHHh---------cc-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444432 35888999999999888 444431 00 0111 2334556777777777778899999
Q ss_pred HHHHHhhCcccccc----ccHHHHHHHHHHHhcC
Q 012355 214 EKLYALLVPSIFMA----KHRAKFFELLDSCLRS 243 (465)
Q Consensus 214 ~~LY~LLdp~l~~s----~~ra~fL~LL~~~Lks 243 (465)
..|++.+....+.. .|+..|+.-|..|+..
T Consensus 168 ~~L~~~~~~~~~~~e~Fl~yKd~Li~YL~~Fv~~ 201 (486)
T PF09660_consen 168 ASLQSVKAEEDMDTEAFLAYKDALIDYLRRFVQD 201 (486)
T ss_pred HHHHhhhhhhccChhHHHHHHHHHHHHHHHHHHH
Confidence 99999765443332 3566666666666654
No 17
>PF01602 Adaptin_N: Adaptin N terminal region; InterPro: IPR002553 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. Clathrin coats contain both clathrin and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors []. All AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). Each subunit has a specific function. Adaptin subunits recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal appendage domains. By contrast, GGAs are monomers composed of four domains, which have functions similar to AP subunits: an N-terminal VHS (Vps27p/Hrs/Stam) domain, a GAT (GGA and Tom1) domain, a hinge region, and a C-terminal GAE (gamma-adaptin ear) domain. The GAE domain is similar to the AP gamma-adaptin ear domain, being responsible for the recruitment of accessory proteins that regulate clathrin-mediated endocytosis []. While clathrin mediates endocytic protein transport from ER to Golgi, coatomers (COPI, COPII) primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the N-terminal domain of various adaptins from different AP clathrin adaptor complexes (including AP1, AP2, AP3 and AP4), and from the beta and gamma subunits of various coatomer (COP) adaptors. This domain has a 2-layer alpha/alpha fold that forms a right-handed superhelix, and is a member of the ARM repeat superfamily []. The N-terminal region of the various AP adaptor proteins share strong sequence identity; by contrast, the C-terminal domains of different adaptins share similar structural folds, but have little sequence identity []. It has been proposed that the N-terminal domain interacts with another uniform component of the coated vesicles. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 1W63_C 2JKR_A 2JKT_A 2XA7_A 2VGL_B 3TJZ_E.
Probab=20.17 E-value=1.1e+03 Score=25.16 Aligned_cols=133 Identities=20% Similarity=0.182 Sum_probs=60.0
Q ss_pred ChhhHHHHHHHhhhhhhcccCChhhHhhHHHHhhccCc-chHHHHHHHHHHHHHhhCCCchhHHHHHHHhhCcccccccc
Q 012355 151 PVDIYKEVLVTLHRAVIPFLSNPIMLCDFLTRSYDIGG-VVSVMALSSLFILMTQHGLEYPNFYEKLYALLVPSIFMAKH 229 (465)
Q Consensus 151 ~~~l~k~vL~~L~k~i~pHl~Np~ll~DFL~d~~d~gg-~~SllAL~~LF~Li~~~Nld~~rFY~~LY~LLdp~l~~s~~ 229 (465)
+.+....++..+.+-+..+-.++..+.|.+.+.+..+| .+.-.++..+..++....--...--..|+.+++. +....-
T Consensus 353 d~~~~~~~i~~I~~la~~~~~~~~~~v~~l~~ll~~~~~~~~~~~~~~i~~ll~~~~~~~~~~l~~L~~~l~~-~~~~~~ 431 (526)
T PF01602_consen 353 DPDFRRELIKAIGDLAEKFPPDAEWYVDTLLKLLEISGDYVSNEIINVIRDLLSNNPELREKILKKLIELLED-ISSPEA 431 (526)
T ss_dssp -HHHHHHHHHHHHHHHHHHGSSHHHHHHHHHHHHHCTGGGCHCHHHHHHHHHHHHSTTTHHHHHHHHHHHHTS-SSSHHH
T ss_pred chhhhhhHHHHHHHHHhccCchHHHHHHHHHHhhhhccccccchHHHHHHHHhhcChhhhHHHHHHHHHHHHH-hhHHHH
Confidence 34455555555555444445555556666666665433 3444555555555554333333344555554432 111111
Q ss_pred HHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHhccCChhHHHHHHHHHHHHHHhCc
Q 012355 230 RAKFFELLDSCLRSPLLPAYLAAAFVKKLSRLSILVPPSGALVIMALIHNLLRRHP 285 (465)
Q Consensus 230 ra~fL~LL~~~Lks~~lp~~RVAAFiKRLlqlaL~~pP~~~~~iL~lI~nLLkrhP 285 (465)
+...+-++-.+-....-.. .+.-++..+.......++..-+.+|..+.++..+.|
T Consensus 432 ~~~~~wilGEy~~~~~~~~-~~~~~~~~l~~~~~~~~~~vk~~ilt~~~Kl~~~~~ 486 (526)
T PF01602_consen 432 LAAAIWILGEYGELIENTE-SAPDILRSLIENFIEESPEVKLQILTALAKLFKRNP 486 (526)
T ss_dssp HHHHHHHHHHHCHHHTTTT-HHHHHHHHHHHHHTTSHHHHHHHHHHHHHHHHHHSC
T ss_pred HHHHHhhhcccCCcccccc-cHHHHHHHHHHhhccccHHHHHHHHHHHHHHHhhCC
Confidence 2222222222211100001 333444444444444555556666666666666666
Done!