Query 036470
Match_columns 697
No_of_seqs 216 out of 316
Neff 4.0
Searched_HMMs 46136
Date Fri Mar 29 02:26:51 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/036470.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/036470hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2427 Uncharacterized conser 100.0 1.5E-69 3.3E-74 573.3 17.1 374 10-697 4-391 (391)
2 PF04424 DUF544: Protein of un 100.0 9.1E-38 2E-42 287.9 7.3 120 50-176 1-120 (121)
3 KOG2427 Uncharacterized conser 75.0 0.63 1.4E-05 51.9 -1.3 50 499-548 338-387 (391)
4 PF13898 DUF4205: Domain of un 65.7 6 0.00013 43.7 3.6 51 35-85 33-94 (342)
5 PF10757 YbaJ: Biofilm formati 40.9 17 0.00036 35.0 1.8 28 146-179 33-60 (122)
6 PRK10667 Hha toxicity attenuat 39.7 17 0.00037 34.9 1.6 54 146-206 33-90 (122)
7 COG3343 RpoE DNA-directed RNA 38.2 32 0.00069 35.0 3.3 59 45-128 15-73 (175)
8 cd04144 Ras2 Ras2 subfamily. 29.8 29 0.00062 33.6 1.5 14 684-697 177-190 (190)
9 TIGR03281 methan_mark_12 putat 29.2 32 0.0007 38.0 1.8 63 109-171 107-206 (326)
10 PF02809 UIM: Ubiquitin intera 19.1 75 0.0016 21.2 1.4 15 235-249 2-16 (18)
No 1
>KOG2427 consensus Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=1.5e-69 Score=573.32 Aligned_cols=374 Identities=40% Similarity=0.627 Sum_probs=276.9
Q ss_pred hcCCCCCCCceeeEEEEEECCeeceeeecCCCCCCcHHHHHHHHHhcCcCCCCCCcccccHHHHHHHHHHHHhccCCCCC
Q 036470 10 QQQPTAMKECMHKTKAIQFLGRTTPIILQNDNGPCPLLAICNVLLLRNNLNLSPDTGEISQEKLLSLVAERLIDSNSNVN 89 (697)
Q Consensus 10 ~~~~~~~~~~~y~VK~I~f~Gr~tpIllQNeNGPCPLIAI~NVLLLr~~I~L~pd~~~VS~e~Ll~lV~d~Ll~~~~~~~ 89 (697)
..+.+++.+.+|++|.|.|.|++++|||||+|||||||||||||+|++.+.+++++-.++...|..++.+.|.+...-..
T Consensus 4 ~~s~~~~~~~~~~tk~i~~~g~~~~IllQn~nGpCpLiAl~NvLilk~~~~~~~~~~~~~~~~~~~lt~~~l~~~~~~~~ 83 (391)
T KOG2427|consen 4 DNSRPPPMEIFFKTKKIQFNGQRCNILLQNENGPCPLIALCNVLILKPNLTRPSNYLLVSVNDLPNLTLDELIEALAYND 83 (391)
T ss_pred ccCCCCccceeeeecccccCceeeeEEEecCCCCcchHHHhHHHhccccccccchhhhhhhhccchhhHHHHHHhhhhhh
Confidence 35678899999999999999999999999999999999999999999999999999999998888888888887654322
Q ss_pred CCcchhhhhhhhcHHHHHhhccccccCccccccccccCCCccCCccccccccCCCeeeEeecCCCChhhHhhhcCCCHHH
Q 036470 90 NKDAGYVENQQQNIADAIDLLPRLATGIDVNIKFRRIDDFEFTPECAIFDLLDIPLYHGWIVDPQDYDTANAIGSKSYNA 169 (697)
Q Consensus 90 ~~d~~~~~n~e~ni~dai~~LP~L~tGLdVNprF~~i~~FE~T~E~~LFdLl~IpLvHGWLvDPqD~e~~~aig~~SYN~ 169 (697)
.++.+ +..++.|+|.+||+|++||||||+|++|++||||+||+|||||+||||||||+||++.+.+.+||.+|||.
T Consensus 84 ~kn~~----~~~~~~dl~~iL~~L~~GldvN~~f~~i~dFE~tpe~sIF~Ll~V~LyHGWlvDpq~~e~~~ai~~~Syn~ 159 (391)
T KOG2427|consen 84 EKNIR----ACGNIQDLMDILPRLHTGLDVNPKFNGIDDFEFTPELSIFDLLGVPLYHGWLVDPQDVEIVDAIGNRSYNE 159 (391)
T ss_pred ccccc----ccccHHHHHHHHHHHHhccCcceeeeccccccccchhhhhhhcCCcceeeeecCCccHHHHHHhcccchhh
Confidence 22211 55679999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred HHHHHHhhhccCCCCCCCCcchhhhHHhhhhhhcCCCCCccccCccCCCCCCCcchhhhhccCChHHHHHHHHHhhccCC
Q 036470 170 IMGELVALETMGGDCKSNSEEDCVDFAAATTATLGVPSPCLSKARSFDDSPRSVSDQQTLRKGDLEEEEELLRALKLSES 249 (697)
Q Consensus 170 LvekLv~~~~~~~~~k~~~~~~~~d~~a~~~a~~gvpsp~~s~~~sf~~~~~s~~~~~~~rkgd~ee~~~l~~~l~ls~~ 249 (697)
+...++.. .+++
T Consensus 160 ~~~~~tq~---------------------------------------------------ve~~----------------- 171 (391)
T KOG2427|consen 160 LETLLTQL---------------------------------------------------VEKQ----------------- 171 (391)
T ss_pred hhhhHHHH---------------------------------------------------HHHh-----------------
Confidence 77111110 0000
Q ss_pred CCCCCCCCCcccccCCCCCCccCCCCCCCCCCCCCCcccccccccccccccccCCCCCCCCCCCCcccccccCCcccccc
Q 036470 250 DVPSSPGNSVLANVNGATMPVSSDESTCSNMDVPADSVHTLERRTVVESESFHQPESSISDKNGSFWEYCWGRSKFTLKA 329 (697)
Q Consensus 250 e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~ 329 (697)
.+. . +.|
T Consensus 172 --------------~~~-------------------------------------~----------~~E------------ 178 (391)
T KOG2427|consen 172 --------------CGC-------------------------------------A----------STE------------ 178 (391)
T ss_pred --------------ccc-------------------------------------c----------cch------------
Confidence 000 0 000
Q ss_pred CCCccCCCCCcccccccccchhhhhhhchhhhhhhhhhhccCCCCCcccccchhhhcccCCccccCCCCCCCCCCCCCCc
Q 036470 330 DGSMKLDQPSKMESVAHNISKDLVEKKSVQKLVQIEETILFSPGKDTATVVETQVEISQGGKEVENEPTSTNVHEPVDNL 409 (697)
Q Consensus 330 d~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 409 (697)
T Consensus 179 -------------------------------------------------------------------------------- 178 (391)
T KOG2427|consen 179 -------------------------------------------------------------------------------- 178 (391)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred cccCCCcccccccCCCCCCCCCCccccCCCCCCCCCCCCCCCCcccCcchhccCCCCccCCCCccccchhhhhhhccccc
Q 036470 410 SRCSTTEVSCLSVHNGDSDSSSGRVQLSDVPENFTSSVDGSEPIYEGEECILDSGTAMYEDREPVYEGEVILAEQADKST 489 (697)
Q Consensus 410 ~~~~~~~~~~~s~~~~~s~~~~~~~~~~d~~~~~~~~~~~~ep~yegee~~~~~~~~~~~~~e~vyEge~vlae~ad~~~ 489 (697)
++ +. +
T Consensus 179 ----------------------------------------------------~s--------~~------i--------- 183 (391)
T KOG2427|consen 179 ----------------------------------------------------NS--------ED------V--------- 183 (391)
T ss_pred ----------------------------------------------------hh--------hh------h---------
Confidence 00 00 0
Q ss_pred ccccccccccchhHHHHHHHHHHHhcCCCcccHHHHHHHHhcCCCCceEEEEecCceeeEeeeCCeEEEEeccccccCCC
Q 036470 490 LDACNVWSKDEITQQQGELIKSFLKNNANQLTFYGLFCLQDGLKERELCVFFRNNHFSTMFKYDGELYLLATDQGYINQP 569 (697)
Q Consensus 490 ~~~~~~~~~~~~t~~q~~~i~~FL~~saTQLT~~GL~~L~~~l~~~~~aVfFRNnHFsTl~K~~~~Ly~LVTD~gy~~~~ 569 (697)
.+.+.....|+++++||||+|||..|++.+++|+++|+|||+||+||||+.++||+||||.||.+++
T Consensus 184 -------------~s~~~~~~~f~~~s~tqlt~~Gl~~l~e~~~egel~V~frn~hfst~~k~~~~~~~lvtd~~~~~~~ 250 (391)
T KOG2427|consen 184 -------------LSDCLMLESFLDESATQLTEHGLLRLREIVKEGELVVVFRNNHFSTMTKNPDELYLLVTDDGFLNEE 250 (391)
T ss_pred -------------hhHHHHHHHhhccchHHHHHhhhhhhhhhhcCCeEEEEEehhhcccccCCCCceeEEEecccccccc
Confidence 0112356699999999999999999999999999999999999999999999999999999999999
Q ss_pred CceEEEcccccCC-cceecCCceeccccCCC---CCCcccc-cccccchhhhhcccccC----CCCCCCccHHHHHHHHh
Q 036470 570 DLVWEKLNEVNGD-TLFMTSNFNEFKVESHA---NDSWDEH-GAMASTADYLAHYDTAT----HGGSDMNSDLQLAIALQ 640 (697)
Q Consensus 570 ~iVWEsL~~V~Gd-~~f~~gdF~~~~~~~~~---~~~~~~~-~~~~~~~dyl~~~~~~~----q~~~~~~sD~~LA~~LQ 640 (697)
+||||++.+|||+ ..||+|+|.+....... ++..... .....+.+|......+. ...++..+|.++|++||
T Consensus 251 ~~~wes~~~vdg~~~~~~~~~~~~~~~~~~~~~~~~~s~s~it~~~~D~~~~~~~s~q~~~~~~dv~~~~sd~e~a~~~~ 330 (391)
T KOG2427|consen 251 DIVWESLHSVDGDCDVFFTGEFDAASGNPETTNSSGESESKITQKKEDQNYGKLLSKQEESETDDVSQIVSDKELAKKLQ 330 (391)
T ss_pred cccceecccccCccceecCCCccccccCCCCccCCCCccccccccccCccccchhhhhhcccccCcccccCcHhHhhccC
Confidence 9999999999998 79999999877543221 1000000 00111122222111110 12256899999999999
Q ss_pred HHHHHhcCCCCCcccCCCCCCCCCccccCC---ccc-ccCCCCCCC-CCCCCCCCCCCcccC
Q 036470 641 QQEFEQQPQRPNVQQQQPPVTGSSKLITGP---QVA-RASGRGSSS-SSKSDGKSKDKCSIM 697 (697)
Q Consensus 641 qeEde~~~~~~~~~~qq~~~~~~~~~~~~~---~~~-~~~~r~~~~-~~r~~~k~K~~CiiM 697 (697)
++|.+|+....+. ..++.+-+.+..++.. ... -..+|.+.. .+|+..|.|+.||||
T Consensus 331 s~E~~r~~~~~q~-~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~cv~~ 391 (391)
T KOG2427|consen 331 SQEDRRASGNTQE-QEEAKAGFHSESVTQLTWAGLKKDKSGRKSGELERKAREKHKSTCVVT 391 (391)
T ss_pred chhhhccCcccch-hhhhhccchhhhhhhccccccCcccccccccchhhhhcCccccccccC
Confidence 9999998533221 1222222222222222 112 222344443 667777889999998
No 2
>PF04424 DUF544: Protein of unknown function (DUF544) ; InterPro: IPR007518 This is a eukaryotic protein of unknown function.
Probab=100.00 E-value=9.1e-38 Score=287.86 Aligned_cols=120 Identities=53% Similarity=0.899 Sum_probs=113.5
Q ss_pred HHHHHhcCcCCCCCCcccccHHHHHHHHHHHHhccCCCCCCCcchhhhhhhhcHHHHHhhccccccCccccccccccCCC
Q 036470 50 CNVLLLRNNLNLSPDTGEISQEKLLSLVAERLIDSNSNVNNKDAGYVENQQQNIADAIDLLPRLATGIDVNIKFRRIDDF 129 (697)
Q Consensus 50 ~NVLLLr~~I~L~pd~~~VS~e~Ll~lV~d~Ll~~~~~~~~~d~~~~~n~e~ni~dai~~LP~L~tGLdVNprF~~i~~F 129 (697)
||||+||++|+|+++.+.||+++|+++|+++|++..+. ...+++.++++++++||+|+|||||||||++|++|
T Consensus 1 ~NvLlL~~~i~L~~~~~~Vs~~~Ll~~l~~~ll~~~~~-------~~~~~~~~~~~~l~~Lp~L~tGLdVNp~F~~i~~F 73 (121)
T PF04424_consen 1 CNVLLLRGKITLPPDREEVSLDDLLQLLADYLLESNPK-------EQENYEQDIDDLLSLLPSLHTGLDVNPKFTGIDGF 73 (121)
T ss_pred CeEEEeCCCCcCCCCCCEECHHHHHHHHHHHHHhcCcc-------cccchhhhHHHHHHHHHhhhccceeeeEecccCCc
Confidence 79999999999999999999999999999999987653 23456789999999999999999999999999999
Q ss_pred ccCCccccccccCCCeeeEeecCCCChhhHhhhcCCCHHHHHHHHHh
Q 036470 130 EFTPECAIFDLLDIPLYHGWIVDPQDYDTANAIGSKSYNAIMGELVA 176 (697)
Q Consensus 130 E~T~E~~LFdLl~IpLvHGWLvDPqD~e~~~aig~~SYN~LvekLv~ 176 (697)
|+|+||+|||+||||||||||+||++.+++.+++++|||+|+|+||+
T Consensus 74 e~t~e~~lFdl~~I~LvHGWl~dp~~~~~~~~v~~~sYn~l~e~lv~ 120 (121)
T PF04424_consen 74 EDTPELSLFDLFNIPLVHGWLVDPQDPETYSAVGDLSYNELVEKLVS 120 (121)
T ss_pred CCCccchhHHhhCCCceeeeccCCCCHHHHHHHhcCCHHHHHHHHhc
Confidence 99999999999999999999999999999999999999999999996
No 3
>KOG2427 consensus Uncharacterized conserved protein [Function unknown]
Probab=75.00 E-value=0.63 Score=51.87 Aligned_cols=50 Identities=36% Similarity=0.297 Sum_probs=46.1
Q ss_pred cchhHHHHHHHHHHHhcCCCcccHHHHHHHHhcCCCCceEEEEecCceee
Q 036470 499 DEITQQQGELIKSFLKNNANQLTFYGLFCLQDGLKERELCVFFRNNHFST 548 (697)
Q Consensus 499 ~~~t~~q~~~i~~FL~~saTQLT~~GL~~L~~~l~~~~~aVfFRNnHFsT 548 (697)
.+.+..+.+++..|...+.+|+|.+|+.......+.|++++.||++||+|
T Consensus 338 ~~~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~ 387 (391)
T KOG2427|consen 338 SGNTQEQEEAKAGFHSESVTQLTWAGLKKDKSGRKSGELERKAREKHKST 387 (391)
T ss_pred CcccchhhhhhccchhhhhhhccccccCcccccccccchhhhhcCccccc
Confidence 44556778889999999999999999999999999999999999999998
No 4
>PF13898 DUF4205: Domain of unknown function (DUF4205)
Probab=65.69 E-value=6 Score=43.66 Aligned_cols=51 Identities=25% Similarity=0.368 Sum_probs=33.9
Q ss_pred eeecCCCCCCcHHHHHHHHHhcCcCCCCCC-------cccccHH----HHHHHHHHHHhccC
Q 036470 35 IILQNDNGPCPLLAICNVLLLRNNLNLSPD-------TGEISQE----KLLSLVAERLIDSN 85 (697)
Q Consensus 35 IllQNeNGPCPLIAI~NVLLLr~~I~L~pd-------~~~VS~e----~Ll~lV~d~Ll~~~ 85 (697)
=|.|.++|||-+||.+.+-+|+.=+=-.+. ...++.+ -|...|++.|.+..
T Consensus 33 gLvQ~~GGPCgVlA~VQA~iLK~LLF~~~~~~~~~~~~~~~s~~~q~~aLv~ALa~ILw~ag 94 (342)
T PF13898_consen 33 GLVQHKGGPCGVLAAVQAFILKYLLFERKGSDVNSSSLLQPSEEEQTEALVQALADILWQAG 94 (342)
T ss_pred EEEecCCCCchhHHHHHHHHHHHHhcCCCccccccccccCCCHHHHHHHHHHHHHHHHHhhc
Confidence 478999999999999998888755422111 1223332 37777788887643
No 5
>PF10757 YbaJ: Biofilm formation regulator YbaJ; InterPro: IPR019693 YbaJ regulates biofilm formation. It also has an important role in the regulation of motility in the biofilm. YbaJ functions in increasing conjugation, aggregation and decreasing the motility, resulting in an increase of biofilm [].
Probab=40.89 E-value=17 Score=34.99 Aligned_cols=28 Identities=25% Similarity=0.496 Sum_probs=22.0
Q ss_pred eeEeecCCCChhhHhhhcCCCHHHHHHHHHhhhc
Q 036470 146 YHGWIVDPQDYDTANAIGSKSYNAIMGELVALET 179 (697)
Q Consensus 146 vHGWLvDPqD~e~~~aig~~SYN~LvekLv~~~~ 179 (697)
-|||+-||... .+.--|+|+|-|.+|--
T Consensus 33 ~~gWvNDptS~------~nlqLNeLIEHIA~F~~ 60 (122)
T PF10757_consen 33 HHGWVNDPTSA------VNLQLNELIEHIAAFIW 60 (122)
T ss_pred CCCCcCCCchh------hhhhHHHHHHHHHHHHH
Confidence 49999999733 34678999999988753
No 6
>PRK10667 Hha toxicity attenuator; Provisional
Probab=39.65 E-value=17 Score=34.90 Aligned_cols=54 Identities=17% Similarity=0.256 Sum_probs=32.8
Q ss_pred eeEeecCCCChhhHhhhcCCCHHHHHHHHHhhhccCCCCCC----CCcchhhhHHhhhhhhcCCC
Q 036470 146 YHGWIVDPQDYDTANAIGSKSYNAIMGELVALETMGGDCKS----NSEEDCVDFAAATTATLGVP 206 (697)
Q Consensus 146 vHGWLvDPqD~e~~~aig~~SYN~LvekLv~~~~~~~~~k~----~~~~~~~d~~a~~~a~~gvp 206 (697)
-|||+-||...- +.-.|+|+|-|.+|-- .=+-|. ..-+..-+.+.-|+.+.|-|
T Consensus 33 ~hgWvNDptS~~------nlqLNeLIEHIa~f~~-~fKIKYp~~~~l~~~ideYLDeTy~LF~sy 90 (122)
T PRK10667 33 NHGWVNDPTSAV------NLQLNELIEHIATFAL-NFKIKYPEDSKLIEQIDEYLDDTYMLFSSY 90 (122)
T ss_pred CCCCcCCCchHh------hhhHHHHHHHHHHHHH-HhhccCCcHhhHHHHHHHHHHHHHHHhcCC
Confidence 499999997433 4568999999988754 111111 22223334556667776654
No 7
>COG3343 RpoE DNA-directed RNA polymerase, delta subunit [Transcription]
Probab=38.24 E-value=32 Score=35.05 Aligned_cols=59 Identities=12% Similarity=0.236 Sum_probs=43.6
Q ss_pred cHHHHHHHHHhcCcCCCCCCcccccHHHHHHHHHHHHhccCCCCCCCcchhhhhhhhcHHHHHhhccccccCcccccccc
Q 036470 45 PLLAICNVLLLRNNLNLSPDTGEISQEKLLSLVAERLIDSNSNVNNKDAGYVENQQQNIADAIDLLPRLATGIDVNIKFR 124 (697)
Q Consensus 45 PLIAI~NVLLLr~~I~L~pd~~~VS~e~Ll~lV~d~Ll~~~~~~~~~d~~~~~n~e~ni~dai~~LP~L~tGLdVNprF~ 124 (697)
.||+++++||=.. ...++++.|+.-|..+|--+ ..+.-+.|++++|-|++++||-
T Consensus 15 s~IevA~~ile~~-------~~~~~F~dii~EI~~~~~~s------------------~~ei~~~i~~FYTdln~DgrFi 69 (175)
T COG3343 15 SLIEVAHAILEEK-------KKPFNFSDIINEIQKLLGVS------------------KEEIRSRIGQFYTDLNIDGRFI 69 (175)
T ss_pred HHHHHHHHHHHHc-------CCCccHHHHHHHHHHHhCcC------------------HHHHHHHHHHHHHHhccCCcee
Confidence 4788888887632 22688999998888776421 1234567899999999999998
Q ss_pred ccCC
Q 036470 125 RIDD 128 (697)
Q Consensus 125 ~i~~ 128 (697)
+++.
T Consensus 70 ~LGd 73 (175)
T COG3343 70 SLGD 73 (175)
T ss_pred eccc
Confidence 7765
No 8
>cd04144 Ras2 Ras2 subfamily. The Ras2 subfamily, found exclusively in fungi, was first identified in Ustilago maydis. In U. maydis, Ras2 is regulated by Sql2, a protein that is homologous to GEFs (guanine nucleotide exchange factors) of the CDC25 family. Ras2 has been shown to induce filamentous growth, but the signaling cascade through which Ras2 and Sql2 regulate cell morphology is not known. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins.
Probab=29.80 E-value=29 Score=33.60 Aligned_cols=14 Identities=50% Similarity=0.779 Sum_probs=12.0
Q ss_pred CCCCCCCCCCcccC
Q 036470 684 SKSDGKSKDKCSIM 697 (697)
Q Consensus 684 ~r~~~k~K~~CiiM 697 (697)
..+++|+|++|+||
T Consensus 177 ~~~~~~~~~~~~~~ 190 (190)
T cd04144 177 TKKKEKKKRKCVIM 190 (190)
T ss_pred CCcccccccCceeC
Confidence 46778899999998
No 9
>TIGR03281 methan_mark_12 putative methanogenesis marker protein 12. Members of this protein family, to date, are found in a completed prokaryotic genome if and only if the species is one of the archaeal methanogens. The exact function is unknown, but likely is linked to methanogenesis or a process closely connected to it.
Probab=29.18 E-value=32 Score=38.00 Aligned_cols=63 Identities=25% Similarity=0.384 Sum_probs=48.8
Q ss_pred hccccccCcc-ccccccccCCCccCCc---------------------------------cccccccCCCee-eEeecCC
Q 036470 109 LLPRLATGID-VNIKFRRIDDFEFTPE---------------------------------CAIFDLLDIPLY-HGWIVDP 153 (697)
Q Consensus 109 ~LP~L~tGLd-VNprF~~i~~FE~T~E---------------------------------~~LFdLl~IpLv-HGWLvDP 153 (697)
++|-||+|.+ ++|||+.+.+--.+|| -.|++.+|=.+. .||+-.|
T Consensus 107 ~iPGlH~~~~~~D~rfra~ySH~aSpEKi~iay~a~~~~~~~~~ivsDiSSNTVtlaVk~GKIVggidaciGAPG~lhGp 186 (326)
T TIGR03281 107 LIPGLHRGSPCLDPRFRAVYSHIASPEKVSIAYNAYCLTGFKDFIVSDISSNTVTLLIKDGKIIGGFDACVGAPGVLHGP 186 (326)
T ss_pred EcccccCCCcccCHHHHHHhcccCCHHHHHHHHHHHHHcCCCCEEEEecCCCeEEEEEECCEEEccccccccCcccccCc
Confidence 6799999999 9999994322222221 147888888887 8999999
Q ss_pred CChhhHhhhcC--CCHHHHH
Q 036470 154 QDYDTANAIGS--KSYNAIM 171 (697)
Q Consensus 154 qD~e~~~aig~--~SYN~Lv 171 (697)
-|.|.++.|+. ++=|++-
T Consensus 187 LDlE~ir~Id~g~~tan~aF 206 (326)
T TIGR03281 187 LDLEAIRNIDAGKKTANEAF 206 (326)
T ss_pred ccHHHHHhcccCcccHHHHH
Confidence 99999999998 7777765
No 10
>PF02809 UIM: Ubiquitin interaction motif; InterPro: IPR003903 The Ubiquitin Interacting Motif (UIM), or 'LALAL-motif', is a stretch of about 20 amino acid residues, which was first described in the 26S proteasome subunit PSD4/RPN-10 that is known to recognise ubiquitin [,]. In addition, the UIM is found, often in tandem or triplet arrays, in a variety of proteins either involved in ubiquitination and ubiquitin metabolism, or known to interact with ubiquitin-like modifiers. Among the UIM proteins are two different subgroups of the UBP (ubiquitin carboxy-terminal hydrolase) family of deubiquitinating enzymes, one F-box protein, one family of HECT-containing ubiquitin-ligases (E3s) from plants, and several proteins containing ubiquitin-associated UBA and/or UBX domains []. In most of these proteins, the UIM occurs in multiple copies and in association with other domains such as UBA (IPR015940 from INTERPRO), UBX (IPR001012 from INTERPRO), ENTH, EH (IPR000261 from INTERPRO), VHS (IPR002014 from INTERPRO), SH3 (IPR001452 from INTERPRO), HECT (IPR000569 from INTERPRO), VWFA (IPR002035 from INTERPRO), EF-hand calcium-binding, WD-40 (IPR001680 from INTERPRO), F-box (IPR001810 from INTERPRO), LIM (IPR001781 from INTERPRO), protein kinase (IPR000719 from INTERPRO), ankyrin (IPR002110 from INTERPRO), PX (IPR001683 from INTERPRO), phosphatidylinositol 3- and 4-kinase (IPR000403 from INTERPRO), C2 (IPR000008 from INTERPRO), OTU (IPR003323 from INTERPRO), dnaJ (IPR001623 from INTERPRO), RING-finger (IPR001841 from INTERPRO) or FYVE-finger (IPR017455 from INTERPRO). UIMs have been shown to bind ubiquitin and to serve as a specific targeting signal important for monoubiquitination. Thus, UIMs may have several functions in ubiquitin metabolism each of which may require different numbers of UIMs [, , ]. The UIM is unlikely to form an independent folding domain. Instead, based on the spacing of the conserved residues, the motif probably forms a short alpha-helix that can be embedded into different protein folds []. Some proteins known to contain an UIM are listed below: Eukaryotic PSD4/RPN-10/S5, a multi-ubiquitin binding subunit of the 26S proteasome. Vertebrate Machado-Joseph disease protein 1 (Ataxin-3), which acts as a histone-binding protein that regulates transcription; defects in Ataxin-3 cause the neurodegenerative disorder Machado-Joseph disease (MJD). Vertebrate epsin and epsin2. Vertebrate hepatocyte growth factor-regulated tyrosine kinase substrate (HRS). Mammalian epidermal growth factor receptor substrate 15 (EPS15), which is involved in cell growth regulation. Mammalian epidermal growth factor receptor substrate EPS15R. Drosophila melanogaster (Fruit fly) liquid facets (lqf), an epsin. Yeast VPS27 vacuolar sorting protein, which is required for membrane traffic to the vacuole. ; PDB: 2KDE_A 2KDF_A 1YX6_A 1YX5_A 1YX4_A 1P9C_A 1UEL_B 1P9D_S 2KLZ_A.
Probab=19.05 E-value=75 Score=21.19 Aligned_cols=15 Identities=47% Similarity=0.720 Sum_probs=12.8
Q ss_pred HHHHHHHHHhhccCC
Q 036470 235 EEEEELLRALKLSES 249 (697)
Q Consensus 235 ee~~~l~~~l~ls~~ 249 (697)
+|++.|.+||.||..
T Consensus 2 ~Ed~~L~~Al~~S~~ 16 (18)
T PF02809_consen 2 DEDEDLQRALEMSLE 16 (18)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred chHHHHHHHHHhhhc
Confidence 588999999999963
Done!