Query 013486
Match_columns 442
No_of_seqs 139 out of 225
Neff 6.8
Searched_HMMs 46136
Date Fri Mar 29 04:20:31 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/013486.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/013486hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4749 Inositol polyphosphate 100.0 3.1E-80 6.7E-85 595.1 22.7 365 3-441 1-366 (375)
2 PF06090 Ins_P5_2-kin: Inosito 100.0 1.2E-75 2.7E-80 587.0 23.9 309 15-431 1-312 (312)
3 PRK10824 glutaredoxin-4; Provi 64.9 23 0.00051 30.5 6.4 52 192-252 28-81 (115)
4 KOG4749 Inositol polyphosphate 48.7 5.7 0.00012 40.2 -0.1 47 63-109 56-102 (375)
5 PF05415 Peptidase_C36: Beet n 37.7 17 0.00037 29.9 1.1 28 1-28 65-92 (104)
6 PF06956 RtcR: Regulator of RN 20.4 1E+02 0.0022 28.7 3.1 30 407-436 151-180 (183)
7 cd03031 GRX_GRX_like Glutaredo 18.1 3.5E+02 0.0076 24.2 6.0 54 191-252 13-71 (147)
8 TIGR02172 Fb_sc_TIGR02172 Fibr 16.9 1E+02 0.0022 29.3 2.5 31 9-44 2-32 (226)
9 COG4077 Uncharacterized protei 16.5 62 0.0013 28.7 0.7 25 362-387 117-141 (156)
10 KOG0623 Glutamine amidotransfe 14.8 1.2E+02 0.0026 31.2 2.3 58 218-280 7-72 (541)
No 1
>KOG4749 consensus Inositol polyphosphate kinase [Signal transduction mechanisms]
Probab=100.00 E-value=3.1e-80 Score=595.14 Aligned_cols=365 Identities=52% Similarity=0.786 Sum_probs=326.4
Q ss_pred cccccCCCCCeEEEeeCCceEEEEecCCCCCccceEEEEeeccCCCCCcchhhhhcCCCccccccchhhcccchhhcccc
Q 013486 3 VVLDQNDAADWIYRGEGAANLVLAYAGSSPAFVGKVLRIPKAWRNGKPEESLAQCVNGGSVFGKHEQLLWGDNQELLSSS 82 (442)
Q Consensus 3 ~~~~~~d~~~w~Y~gEG~ANiV~~y~g~~~~~~gkvLRlrK~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~ 82 (442)
|++++.|+.+|.|+|||++|.|++|+|.+|.|.|++.|..|++...... +|+
T Consensus 1 iv~E~kDa~dW~YRgEG~vNLVLay~gssp~fl~f~~~akk~~e~~kt~---------------~e~------------- 52 (375)
T KOG4749|consen 1 IVFEPKDAVDWSYRGEGVVNLVLAYSGSSPLFLGFVMRAKKRRERKKTS---------------EEI------------- 52 (375)
T ss_pred CcccccchhheeeccCCceeEEEEecCCCceehhhhhhhhhcccccccH---------------HHH-------------
Confidence 5789999999999999999999999999999999999998887554331 110
Q ss_pred hhhHHHHHHHHHhhccCCCCCCCCCceEEEcCHHHHHHHHHHhcCCCCccccCCcccccCCceEEEecCCCCCCCCCC-C
Q 013486 83 SKETMEQMYVEKIMSPLLGPKYIDAGMCVRVTREFLESVQKNVTGQRPAWRVDAADIKIPCDSVLLMSDHTLFPQGIL-G 161 (442)
Q Consensus 83 ~~e~~~~~f~~~vi~PLlg~~~l~~~~lV~l~~~~l~~L~~~i~~~RP~~R~~~~~id~~~~~~ll~~D~t~~p~~~~-~ 161 (442)
. ...-..|.++++++.+|..|+..+++|..+..+..++-......+|+.+... .+|+.+.++++|+|+|.++.+.. +
T Consensus 53 s-~q~ltt~~K~I~kef~~~~y~~~~eive~~~v~v~ql~ll~~~~~~~~ic~~-~~dt~r~~al~m~dlT~l~~~~~~~ 130 (375)
T KOG4749|consen 53 S-LQNLTTFEKNIWKEFLGLNYVHNKEVVEYPLVKVVQLPLLGSKHVNPGICKF-SVDTNRSTALLMDDLTQLQTYHFEE 130 (375)
T ss_pred H-HHHHHHHHHHHHHhhccccccccCceecchhhhhhhhhccccccCCcccccc-ccCcccchhhhccchhhcceeeecc
Confidence 0 0012468999999999999999999999999999999999999999998876 79999999999999999987644 4
Q ss_pred CCCeeEEEecccccccCCCCCcccccccccCCchHHHHHHhhhcccccCCCCCCCccCCCCCCHHHHHHHHHHHHcCCCc
Q 013486 162 EEPCLAVEIKPKCGFLPISRFIAEENAIKRSVTRFQLHQALKLSEQEISERSEYDPLDLFSGSKERICKAIKALYTNPQN 241 (442)
Q Consensus 162 ~~~~i~vEiKPKwgfl~~s~~~~~~~~~k~~~CR~c~~q~~K~~~~~~~~~s~yCPldLfsg~~~r~~~al~~L~~~PqN 241 (442)
+.+++||||||||||+|.|+++.++ .|||||||.+|.++++|+++|.|||||||||+.+||.+||++|+.+|||
T Consensus 131 h~p~l~VEIKPKcGF~~~ss~v~~e------~cr~cm~QvlK~~~~~~sqisey~PLDLfSG~k~rm~~AikaL~~~pqn 204 (375)
T KOG4749|consen 131 HHPILCVEIKPKCGFIPFSSDVAEE------ICRFCMHQVLKLRENHISQISEYDPLDLFSGSKERMHKAIKALYSTPQN 204 (375)
T ss_pred CCceEEEEecCccccccCCcccchh------hhHHHHHHHHHHhhcchhhhhccCchhhccccHHHHHHHHHHHhhcccc
Confidence 5699999999999999999998754 6999999999999999999999999999999999999999999999999
Q ss_pred cceeeeCCceeecCCCCCCCCCcchhhHHHHHHHhhhhhcCCCcchhhHHHHHHhhccCCchHHHHHHHhccCcCCcchh
Q 013486 242 NLRVFLNGSLIFGSLGGGMCGNSVAVGEAFEDALKCTIKADNGLRTDSFIQLVAETVHQAGILDRLLEVQKLDNFDIEGA 321 (442)
Q Consensus 242 Nlrif~~g~~i~~~~~~~~~~~~~~~~~~l~~~L~~~~~~~~~~~~~~f~~~l~~~L~~s~vL~~L~~lQ~LD~~dIeg~ 321 (442)
|||||+||++||+|+++|++++...+...|+++++.++.+ +.|...|+.+++++..+++||.+|+++|+||.+||||
T Consensus 205 nlrvF~nG~lv~gg~~~g~~kt~s~i~~~~~~~~k~~l~s--d~ra~~~~~~~~~~~~~~~vL~qlL~vQklD~~~Ieg- 281 (375)
T KOG4749|consen 205 NLRVFLNGSLVFGGLGGGICKTTSEIELAFEDALKDFLKS--DLRALSFIELVAETVYRSGVLDQLLEVQKLDKLDIEG- 281 (375)
T ss_pred ceeEEeccceeecccCCCcccchhhhhHHHHHHHHHHhhh--hhhhhhhhhhhHhHhhccchHHHHHHHhhhhhccchh-
Confidence 9999999999999999999998878888899999999977 3888999999999999999999999999999999999
Q ss_pred HHHHHhhhcCccchhccchhhhhhhcccccCCCChhhhHHHHHHHHHHhhhCceeEEEEeecCCCCCCCCCCceeeccCC
Q 013486 322 IHAYYNIISQPCRVCRELDEEKASHLCTSLHSIPMNESLKIVKDYLIAATAKDCSLMICFRPKSNEFSGSYNSIYLESTN 401 (442)
Q Consensus 322 ~~~~~~l~~~p~~~~~~l~~~~~~~~~~~l~~~~~~e~~~~l~~yllaaTaKDCSimIs~~~~~~~~~~~~~~~~~~~~~ 401 (442)
+|.|++++.+||-. ++|++| ||||||||||| .+++.++..++++.
T Consensus 282 ih~yyd~~dq~~kt--------------s~~d~~-------------a~Takdcsimi--------~~SS~~n~~l~st~ 326 (375)
T KOG4749|consen 282 IHAYYDLIDQPCKT--------------SLHDLP-------------AATAKDCSIMI--------DASSDQNPVLPSTR 326 (375)
T ss_pred hHHHHhhccccccc--------------cccccc-------------ccccccceeEe--------ccccCCCccccccc
Confidence 78899999988733 457775 99999999999 12344567888999
Q ss_pred ceeEEEEEEEeCCCCCCCChHHHHHHHHHHHHHHHHHhhc
Q 013486 402 QVFDYKAYFVDLDLKPFKKMEEHYAKDKKISSCYIQMLKS 441 (442)
Q Consensus 402 ~~f~~~v~VVDLD~K~~~Kl~~w~~~D~~I~~~y~~~~~~ 441 (442)
++|+|+|.++|||+||++|+++|+++|++|+++|.++++.
T Consensus 327 ~rf~~~v~~iDld~~p~~~~~~yykldkki~~~y~~t~~~ 366 (375)
T KOG4749|consen 327 QRFAYKVHFIDLDLKPLKSMEQYYKLDKKIINYYSKTVKA 366 (375)
T ss_pred ceeEEEEEEeecccchhhhhhHHHhcchhHHHHHHHHHHh
Confidence 9999999999999999999999999999999999998764
No 2
>PF06090 Ins_P5_2-kin: Inositol-pentakisphosphate 2-kinase; InterPro: IPR009286 This is a family of inositol-pentakisphosphate 2-kinases (also known as inositol 1,3,4,5,6-pentakisphosphate 2-kinase, Ins(1,3,4,5,6)P5 2-kinase) and InsP5 2-kinase). This enzyme phosphorylates Ins(1,3,4,5,6)P5 to form Ins(1,2,3,4,5,6)P6 (also known as InsP6 or phytate). InsP6 is involved in many processes such as mRNA export, nonhomologous end-joining, endocytosis and ion channel regulation [].; GO: 0005524 ATP binding, 0035299 inositol pentakisphosphate 2-kinase activity; PDB: 2XAN_A 2XAL_A 2XAO_B 3UDZ_B 4AQK_A 2XAM_A 3UDT_B 3UDS_A 2XAR_B.
Probab=100.00 E-value=1.2e-75 Score=586.99 Aligned_cols=309 Identities=40% Similarity=0.653 Sum_probs=228.7
Q ss_pred EEeeCCceEEEEecCCCCCccceEEEEeeccCCCCCcchhhhhcCCCccccccchhhcccchhhcccchhhHHHHHHHHH
Q 013486 15 YRGEGAANLVLAYAGSSPAFVGKVLRIPKAWRNGKPEESLAQCVNGGSVFGKHEQLLWGDNQELLSSSSKETMEQMYVEK 94 (442)
Q Consensus 15 Y~gEG~ANiV~~y~g~~~~~~gkvLRlrK~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~e~~~~~f~~~ 94 (442)
|+|||||||||+|+|++|.|.|+|||+||...+.... ......++|+++
T Consensus 1 Y~gEG~ANiV~~~~~~~~~l~~~vLRlrK~~~~~~~~-------------------------------~~~~~~~~f~~~ 49 (312)
T PF06090_consen 1 YVGEGNANIVFSYRGPDPYLRGKVLRLRKAPPSESSN-------------------------------APTEENYDFFER 49 (312)
T ss_dssp EEEE-SSEEEEEE-SS-TTTTTEEEEEEEEESSHT-S-------------------------------SHHHHHHHHHHH
T ss_pred CCCCCcCEEEEEeCCCccccCCEEEEeeccCCccccC-------------------------------ccHHHHHHHHHH
Confidence 9999999999999999999999999999998761110 012345899999
Q ss_pred hhccCCCCCCCCCceEEEcCHHHHHHHHHHhcCCCCccccCCcccccCCceEEEecCCCCCCCCCC-CCCCeeEEEeccc
Q 013486 95 IMSPLLGPKYIDAGMCVRVTREFLESVQKNVTGQRPAWRVDAADIKIPCDSVLLMSDHTLFPQGIL-GEEPCLAVEIKPK 173 (442)
Q Consensus 95 vi~PLlg~~~l~~~~lV~l~~~~l~~L~~~i~~~RP~~R~~~~~id~~~~~~ll~~D~t~~p~~~~-~~~~~i~vEiKPK 173 (442)
+|+||||++||+.+++|.|+.+|+++|++.+.+.||++|+++ .+|.++.+|++|+||+..|.... ...++|+||||||
T Consensus 50 ~i~Pll~~~~l~~~~lV~l~~~~l~~L~~~~~~~Rp~~r~~~-~~d~~~~~~ll~~D~~~~~~~~~~~~~~~i~vEiKPK 128 (312)
T PF06090_consen 50 VIRPLLGEDYLVDMELVRLPREFLQQLNKIIRPQRPAKRRGK-KIDISEDYGLLMPDMTPLPSSSQSLGSDTICVEIKPK 128 (312)
T ss_dssp TTHHHHTSTSB---EEEEE-HHHHHHHHHHHGGGS-HHHHHH-EE-TT-SEEEEEE-TTSSSSSS----S-EEEEEE---
T ss_pred HHHHhCCcccccccEEEEECHHHHHHHHhhhcccCchhhccc-cccccCCeEEEcccCCCCCCcccccCCceeEEEeccc
Confidence 999999999999999999999999999999999999999987 89999999999999998765322 3468999999999
Q ss_pred ccccCCCCCcccccccccCCchHHHHHHhhhcccccCCCCCCCccCCCCCCHHHHHHHHHHHHcC-CCccceeeeCCcee
Q 013486 174 CGFLPISRFIAEENAIKRSVTRFQLHQALKLSEQEISERSEYDPLDLFSGSKERICKAIKALYTN-PQNNLRVFLNGSLI 252 (442)
Q Consensus 174 wgfl~~s~~~~~~~~~k~~~CR~c~~q~~K~~~~~~~~~s~yCPldLfsg~~~r~~~al~~L~~~-PqNNlrif~~g~~i 252 (442)
|||.+ |+ +++|+.+|||||||.+|.++|++.+.+.|||+|||||+++||++|+.+|+.+ ||||||||.||+++
T Consensus 129 w~~~s--~~----~~~~~~~CR~C~~q~~K~~~~~~~~~~~yCPldLfs~~~~r~~~al~~l~~~~p~nNlrif~~g~~~ 202 (312)
T PF06090_consen 129 WGFQS--PS----APIKARYCRFCMHQLLKLSQGKISRESKYCPLDLFSGDPERVRRALEALIASGPQNNLRIFVNGNLI 202 (312)
T ss_dssp --S-G--------GGGGGTS-HHHHHHHHHHHTTSSSS-----HHHHTSS-HHHHHHHHHHHHHS--BTTEEEEETTEEE
T ss_pred ccccc--cc----cccCCCcCchHHHHHhhhccCCCCCCCCCChhhhcCCCHHHHHHHHHHHHhhccccccccccccccc
Confidence 99983 33 4478999999999999998899999999999999999999999999999999 99999999999999
Q ss_pred ecCCCCCCCCCcchhhHHHHHHHhhhhhcCCCcchhhHHHHHHhhccC-CchHHHHHHHhccCcCCcchhHHHHHhhhcC
Q 013486 253 FGSLGGGMCGNSVAVGEAFEDALKCTIKADNGLRTDSFIQLVAETVHQ-AGILDRLLEVQKLDNFDIEGAIHAYYNIISQ 331 (442)
Q Consensus 253 ~~~~~~~~~~~~~~~~~~l~~~L~~~~~~~~~~~~~~f~~~l~~~L~~-s~vL~~L~~lQ~LD~~dIeg~~~~~~~l~~~ 331 (442)
+++. ...|+++++.+|.+ ++||++|+++|+++.... ..
T Consensus 203 ~~~~------------------------------~~~~~~~l~~~L~~~~~vL~~L~~lQ~~~~~~~----~~------- 241 (312)
T PF06090_consen 203 YSDE------------------------------ADEFIDLLAEYLLNDSPVLQRLLALQRLDESLR----SS------- 241 (312)
T ss_dssp ES-S------------------------------SSHHHHHHHHHHHH-HTHHHHHHHHHTT--TTH----HH-------
T ss_pred cccc------------------------------hhHHHHHHHHHHHhccHHHHHHHHHHHhhhhhc----cc-------
Confidence 8751 12567778888888 999999999999881111 00
Q ss_pred ccchhccchhhhhhhcccccCCCChhhhHHHHHHHHHHhhhCceeEEEEeecCCCCCCCCCCceeeccCCceeEEEEEEE
Q 013486 332 PCRVCRELDEEKASHLCTSLHSIPMNESLKIVKDYLIAATAKDCSLMICFRPKSNEFSGSYNSIYLESTNQVFDYKAYFV 411 (442)
Q Consensus 332 p~~~~~~l~~~~~~~~~~~l~~~~~~e~~~~l~~yllaaTaKDCSimIs~~~~~~~~~~~~~~~~~~~~~~~f~~~v~VV 411 (442)
...+..+..++...+++|+||||||||||||+|++... .++..+.|+|+||
T Consensus 242 -----------------~~~~~~~~~~~~~~~~~~~lamTlkDCSi~i~~~~~~~------------~~~~~~~~~v~vv 292 (312)
T PF06090_consen 242 -----------------SARDSLGIESARDVLRRFLLAMTLKDCSIFISFRPDNS------------GRGRKFSYRVKVV 292 (312)
T ss_dssp -----------------HHHHCS-HHHHHHHHHHHHHHHHHHH-EEEEEEEECST------------TTTEEEEEEEEEE
T ss_pred -----------------ccccccCchhhHHHHHHHHHHHhhccceEEEEeccccc------------cCCCcceEEEEEE
Confidence 01133444577888999999999999999999998643 2567788999999
Q ss_pred eCCCCCCCChHHHHHHHHHH
Q 013486 412 DLDLKPFKKMEEHYAKDKKI 431 (442)
Q Consensus 412 DLD~K~~~Kl~~w~~~D~~I 431 (442)
|||+||.+|+.||+++|++|
T Consensus 293 DLD~K~~~Kl~~w~~~e~~L 312 (312)
T PF06090_consen 293 DLDLKPLSKLPHWQKTEREL 312 (312)
T ss_dssp ------TTHHHHHHHHHHHH
T ss_pred ECCCCChHHHHHHHHHhhcC
Confidence 99999999999999999986
No 3
>PRK10824 glutaredoxin-4; Provisional
Probab=64.86 E-value=23 Score=30.48 Aligned_cols=52 Identities=17% Similarity=0.291 Sum_probs=34.8
Q ss_pred CCchHHH--HHHhhhcccccCCCCCCCccCCCCCCHHHHHHHHHHHHcCCCccceeeeCCcee
Q 013486 192 SVTRFQL--HQALKLSEQEISERSEYDPLDLFSGSKERICKAIKALYTNPQNNLRVFLNGSLI 252 (442)
Q Consensus 192 ~~CR~c~--~q~~K~~~~~~~~~s~yCPldLfsg~~~r~~~al~~L~~~PqNNlrif~~g~~i 252 (442)
.+|.||. .+.++.. .+ .|--+|+... ..++.+|..+-..| .-..||+||+.|
T Consensus 28 p~Cpyc~~ak~lL~~~--~i----~~~~idi~~d--~~~~~~l~~~sg~~-TVPQIFI~G~~I 81 (115)
T PRK10824 28 PSCGFSAQAVQALSAC--GE----RFAYVDILQN--PDIRAELPKYANWP-TFPQLWVDGELV 81 (115)
T ss_pred CCCchHHHHHHHHHHc--CC----CceEEEecCC--HHHHHHHHHHhCCC-CCCeEEECCEEE
Confidence 4699994 4566543 12 4556777643 45888888885442 346799999988
No 4
>KOG4749 consensus Inositol polyphosphate kinase [Signal transduction mechanisms]
Probab=48.70 E-value=5.7 Score=40.15 Aligned_cols=47 Identities=28% Similarity=0.439 Sum_probs=42.6
Q ss_pred cccccchhhcccchhhcccchhhHHHHHHHHHhhccCCCCCCCCCce
Q 013486 63 VFGKHEQLLWGDNQELLSSSSKETMEQMYVEKIMSPLLGPKYIDAGM 109 (442)
Q Consensus 63 ~~t~~~~~~~~~~~~~~~~~~~e~~~~~f~~~vi~PLlg~~~l~~~~ 109 (442)
.+++.++.+|++..+.....+.|+..+.|+..++.||+|+.++.++.
T Consensus 56 ~ltt~~K~I~kef~~~~y~~~~eive~~~v~v~ql~ll~~~~~~~~i 102 (375)
T KOG4749|consen 56 NLTTFEKNIWKEFLGLNYVHNKEVVEYPLVKVVQLPLLGSKHVNPGI 102 (375)
T ss_pred HHHHHHHHHHHhhccccccccCceecchhhhhhhhhccccccCCccc
Confidence 56788999999999888888999999999999999999999999884
No 5
>PF05415 Peptidase_C36: Beet necrotic yellow vein furovirus-type papain-like endopeptidase; InterPro: IPR008746 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases correspond to MEROPS peptidase family C36 (clan CA). The type example is beet necrotic yellow vein furovirus-type papain-like endopeptidase (beet necrotic yellow vein virus), which is involved in processing the viral polyprotein.
Probab=37.71 E-value=17 Score=29.86 Aligned_cols=28 Identities=25% Similarity=0.309 Sum_probs=23.9
Q ss_pred CccccccCCCCCeEEEeeCCceEEEEec
Q 013486 1 MDVVLDQNDAADWIYRGEGAANLVLAYA 28 (442)
Q Consensus 1 ~~~~~~~~d~~~w~Y~gEG~ANiV~~y~ 28 (442)
|.+.+....|.+..|.++|++|+|..|-
T Consensus 65 m~vkV~~~~~~~l~~~~d~~~s~v~~~~ 92 (104)
T PF05415_consen 65 MQVKVLSDKPYDLLYFVDGAVSVVTLHL 92 (104)
T ss_pred EEEEEcCCCCceeeEeecCccceehhhh
Confidence 3456777889999999999999999985
No 6
>PF06956 RtcR: Regulator of RNA terminal phosphate cyclase; InterPro: IPR009715 RtcR is a sigma54-dependent enhancer binding protein [] that activates transcription of the rtcBA operon. The product of the rtcA gene is an RNA 3 -terminal phosphate cyclase []. This domain is found at the N terminus of the RtcR sequence. RtcR, and other sigma54-dependent activators, contain IPR002078 from INTERPRO in the central region of the protein sequence.
Probab=20.43 E-value=1e+02 Score=28.70 Aligned_cols=30 Identities=17% Similarity=0.495 Sum_probs=24.4
Q ss_pred EEEEEeCCCCCCCChHHHHHHHHHHHHHHH
Q 013486 407 KAYFVDLDLKPFKKMEEHYAKDKKISSCYI 436 (442)
Q Consensus 407 ~v~VVDLD~K~~~Kl~~w~~~D~~I~~~y~ 436 (442)
++.|||||+-.++++..-+..++.=.-.|.
T Consensus 151 ~~~iIDLDLsrYd~ia~Rf~~~~~e~~~fL 180 (183)
T PF06956_consen 151 TYEIIDLDLSRYDAIASRFAQEQQEAVSFL 180 (183)
T ss_pred cEEEEeccccchHHHHHHHHHHHHHHHHHh
Confidence 789999999999999999988877443433
No 7
>cd03031 GRX_GRX_like Glutaredoxin (GRX) family, GRX-like domain containing protein subfamily; composed of uncharacterized eukaryotic proteins containing a GRX-like domain having only one conserved cysteine, aligning to the C-terminal cysteine of the CXXC motif of GRXs. This subfamily is predominantly composed of plant proteins. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins via a redox active CXXC motif using a similar dithiol mechanism employed by TRXs. GRX has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. Proteins containing only the C-terminal cysteine are generally redox inactive.
Probab=18.11 E-value=3.5e+02 Score=24.25 Aligned_cols=54 Identities=17% Similarity=0.261 Sum_probs=35.3
Q ss_pred cCCchHH--HHHHhhhcccccCCCCCCCccCCCCCCHHHHHHHHHHHHcC---CCccceeeeCCcee
Q 013486 191 RSVTRFQ--LHQALKLSEQEISERSEYDPLDLFSGSKERICKAIKALYTN---PQNNLRVFLNGSLI 252 (442)
Q Consensus 191 ~~~CR~c--~~q~~K~~~~~~~~~s~yCPldLfsg~~~r~~~al~~L~~~---PqNNlrif~~g~~i 252 (442)
++.|-+| +.+.++.. .+ .|.-.|+... ...+..|..++.. +.--.+||++|..|
T Consensus 13 R~t~~~C~~ak~iL~~~--~V----~~~e~DVs~~--~~~~~EL~~~~g~~~~~~tvPqVFI~G~~I 71 (147)
T cd03031 13 RKTFEDCNNVRAILESF--RV----KFDERDVSMD--SGFREELRELLGAELKAVSLPRVFVDGRYL 71 (147)
T ss_pred CCcChhHHHHHHHHHHC--CC----cEEEEECCCC--HHHHHHHHHHhCCCCCCCCCCEEEECCEEE
Confidence 4568888 45666654 23 5777887532 4556677777654 23346899999877
No 8
>TIGR02172 Fb_sc_TIGR02172 Fibrobacter succinogenes paralogous family TIGR02172. This model describes a paralogous family of five proteins, likely to be enzymes, in the rumen bacterium Fibrobacter succinogenes S85. Members show homology to proteins described by PFAM model pfam01636, a phosphotransferase enzyme family associated with resistance to aminoglycoside antibiotics. However, members of this family score below the current trusted and noise cutoffs for pfam01636.
Probab=16.92 E-value=1e+02 Score=29.31 Aligned_cols=31 Identities=23% Similarity=0.393 Sum_probs=24.8
Q ss_pred CCCCeEEEeeCCceEEEEecCCCCCccceEEEEeec
Q 013486 9 DAADWIYRGEGAANLVLAYAGSSPAFVGKVLRIPKA 44 (442)
Q Consensus 9 d~~~w~Y~gEG~ANiV~~y~g~~~~~~gkvLRlrK~ 44 (442)
|-++|.-+|+|+.|-||...|. +.|||+...
T Consensus 2 ~~~~~~~i~~G~t~~~y~~~~~-----~~VlR~~~~ 32 (226)
T TIGR02172 2 DLSDWTQTGEGGNGESYTHKTG-----KWMLKLYNP 32 (226)
T ss_pred ChhHheeecCCCCcceeEecCC-----CEEEEeCCC
Confidence 6789999999999999984333 369999853
No 9
>COG4077 Uncharacterized protein conserved in archaea [Function unknown]
Probab=16.49 E-value=62 Score=28.65 Aligned_cols=25 Identities=20% Similarity=0.414 Sum_probs=19.1
Q ss_pred HHHHHHHHhhhCceeEEEEeecCCCC
Q 013486 362 IVKDYLIAATAKDCSLMICFRPKSNE 387 (442)
Q Consensus 362 ~l~~yllaaTaKDCSimIs~~~~~~~ 387 (442)
+..+|.+++| .|..+|+.+=...++
T Consensus 117 c~~~Y~~~~~-d~~gvfv~~y~Drsg 141 (156)
T COG4077 117 CECDYVIAKK-DNIGVFVCMYFDRSG 141 (156)
T ss_pred ceEEEEEEec-ccceEEEEEEeccCC
Confidence 3468899999 999999997765444
No 10
>KOG0623 consensus Glutamine amidotransferase/cyclase [Amino acid transport and metabolism]
Probab=14.80 E-value=1.2e+02 Score=31.23 Aligned_cols=58 Identities=26% Similarity=0.420 Sum_probs=36.3
Q ss_pred cCCCCCCHHHHHHHHHHH------HcCCCccceeeeCCceeecCCCC-C-CCCCcchhhHHHHHHHhhhhh
Q 013486 218 LDLFSGSKERICKAIKAL------YTNPQNNLRVFLNGSLIFGSLGG-G-MCGNSVAVGEAFEDALKCTIK 280 (442)
Q Consensus 218 ldLfsg~~~r~~~al~~L------~~~PqNNlrif~~g~~i~~~~~~-~-~~~~~~~~~~~l~~~L~~~~~ 280 (442)
+|.=+|+...++.||++| +++|.. |..-..+||++.+. + .++. -...+|...|..|+.
T Consensus 7 ld~~agn~~si~nal~hlg~~i~~v~~P~D---I~~a~rLIfPGVGnfg~~~D~--L~~~Gf~eplr~Yie 72 (541)
T KOG0623|consen 7 LDYGAGNVRSIRNALRHLGFSIKDVQTPGD---ILNADRLIFPGVGNFGPAMDV--LNRTGFAEPLRKYIE 72 (541)
T ss_pred EecCCccHHHHHHHHHhcCceeeeccCchh---hccCceEeecCcccchHHHHH--HhhhhhHHHHHHHHh
Confidence 566689999999999998 345655 33345577777443 1 1110 112567777877773
Done!