Query 006157
Match_columns 658
No_of_seqs 144 out of 187
Neff 4.1
Searched_HMMs 46136
Date Thu Mar 28 19:12:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/006157.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/006157hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF01803 LIM_bind: LIM-domain 100.0 1.1E-65 2.5E-70 514.2 22.5 237 70-328 1-240 (240)
2 KOG2181 LIM domain binding pro 100.0 6.4E-35 1.4E-39 299.4 15.4 208 70-335 51-263 (415)
3 COG4907 Predicted membrane pro 41.1 18 0.00038 41.6 2.2 17 157-173 150-166 (595)
4 PF06249 EutQ: Ethanolamine ut 30.0 47 0.001 32.8 3.0 36 174-209 76-111 (152)
5 PF06752 E_Pc_C: Enhancer of P 28.5 41 0.00088 35.4 2.3 6 226-231 169-174 (230)
6 KOG3598 Thyroid hormone recept 28.4 30 0.00065 44.5 1.6 35 17-51 2133-2184(2220)
7 KOG4369 RTK signaling protein 26.7 1.3E+02 0.0028 38.7 6.2 27 12-39 1862-1888(2131)
8 PRK15457 ethanolamine utilizat 21.3 1.2E+02 0.0027 32.1 4.2 39 172-210 154-192 (233)
9 PF11197 DUF2835: Protein of u 18.3 2.2E+02 0.0048 24.7 4.5 54 152-218 12-67 (68)
10 cd00781 ketosteroid_isomerase 18.1 6.6E+02 0.014 22.0 9.3 66 144-216 45-110 (122)
No 1
>PF01803 LIM_bind: LIM-domain binding protein; InterPro: IPR002691 The LIM-domain binding protein, binds to the LIM domain IPR001781 from INTERPRO of LIM homeodomain proteins which are transcriptional regulators of development. Nuclear LIM interactor (NLI) / LIM domain-binding protein 1 (LDB1) P70662 from SWISSPROT is located in the nuclei of neuronal cells during development, it is co-expressed with Isl1 in early motor neuron differentiation and has a suggested role in the Isl1 dependent development of motor neurons []. It is suggested that these proteins act synergistically to enhance transcriptional efficiency by acting as co-factors for LIM homeodomain and Otx class transcription factors both of which have essential roles in development []. The Drosophila melanogaster protein Chip O18353 from SWISSPROT is required for segmentation and activity of a remote wing margin enhancer []. Chip is a ubiquitous chromosomal factor required for normal expression of diverse genes at many stages of development []. It is suggested that Chip cooperates with different LIM domain proteins and other factors to structurally support remote enhancer-promoter interactions [].; GO: 0003712 transcription cofactor activity, 0005634 nucleus
Probab=100.00 E-value=1.1e-65 Score=514.20 Aligned_cols=237 Identities=36% Similarity=0.601 Sum_probs=220.8
Q ss_pred HHHHHHHHHHhcCC-CCCCchHHHHHHHHHhcCCCCceeEEeeccCCCCCccccCccccccccccCCCCCceeeEcccch
Q 006157 70 ARRLTHYMYQQQHR-PEDNNIEFWRKFVAEYFAPNAKKKWCVSMYGSGRQATGVFPQDVWHCEICNRKPGRGFEATVEVL 148 (658)
Q Consensus 70 ~lRL~qfie~Ls~r-p~~ndIeYWqkFV~EFFSP~AvlR~~ls~~~~~~~ttGvfpqdlw~~d~~~tk~~KqFEIt~~vL 148 (658)
++||++|+++|+++ ++++|++||++||+|||+|+|+||||+..+++. ..+|+|||++++|
T Consensus 1 ilRl~~~~~~l~~~~~~~~~~~yW~~fv~~fF~~~a~lr~~~~~~~~~-------------------~~~k~FEi~~~~l 61 (240)
T PF01803_consen 1 ILRLLEFIERLSNFSPNLNDIEYWQKFVHEFFSPDAVLRISLWNEDGN-------------------GSPKQFEITRPLL 61 (240)
T ss_pred CchHHHHHHHHHhhcCCCCcHHHHHHHHHHHcCCCeeEEEEEEcCCCC-------------------CCCeeEEEchHHH
Confidence 48999999999998 899999999999999999999999998754310 1249999999999
Q ss_pred hHHHHHHhhcCcceEEEEecCCcceecCCCcEEEEeCceEEEEEec-CeEEEEEeEEEEEeCCCcceeEEEEeecceeec
Q 006157 149 PRLFKIKYESGTLEELLYVDMPREYQNASGQIVLDYAKAIQESVFE-QLRVVRDGQLRIVFSPDLKICSWEFCARRHEEL 227 (658)
Q Consensus 149 PRyF~t~FeSGV~~iqL~Ld~prE~vLsNGsI~lEc~KAs~iy~Ye-gS~Vv~~G~LRa~FdpdLKIE~wEF~t~sHeEy 227 (658)
||||+++|++||++|+|+++++||++++||+|+|||+||+++|||+ |++|+++|+||++||++|||||||||+++|+||
T Consensus 62 PR~f~~~~~sGv~~~~~~l~~~~e~~l~ng~i~ie~~~~~~~~~y~~gs~v~~~G~lr~~f~~~lKIe~~df~~~~~~e~ 141 (240)
T PF01803_consen 62 PRYFRTLFESGVKRMQLVLDGPREQVLPNGSIFIECPRATFIYWYEDGSQVVHEGQLRAQFDPDLKIEWWDFCTRSHEEY 141 (240)
T ss_pred HHHHHHHhcCCceEEEEEecCCceEEcCCCeEEEEECCEEEEEEECCceEEEEEeEEEEEECccccEEEEEEEeeccccc
Confidence 9999999999999999999999999999999999999999999997 699999999999999999999999999999999
Q ss_pred cccchhhhHHhhhhHHHHHHHHHhhcCCCCCCchHhhhhhhhhHHHHHHHHHhccCCcccCCCccchhhhhhhHHHHHhc
Q 006157 228 IPRRLLIPQVSQLGAAAQKYQAATQNASSNLSAPELQNNCNMFVASARQLAKALEVPLVNDLGYTKRYVRCLQISEVVNS 307 (658)
Q Consensus 228 IpRs~L~~qvs~l~~~aqk~qs~~qN~sd~ksspElsKn~n~f~~a~rQLas~l~~p~Vn~~GIp~~vMR~LQIsEVMSq 307 (658)
|+|++|++++.+.+.++++|++.. ++.|.++|++|+++.+..+.+++.+.|+.++|+++|+|+++||||||+|||++
T Consensus 142 I~r~~l~~~~~~~~~~~~~~~~~~---~~~k~~~~~~~~~~~~~~~~~~~~~~Lp~~~v~~~Gi~~~~mr~Lqi~evms~ 218 (240)
T PF01803_consen 142 IPRSALEQQASNLHPSVQIFQKLS---PDQKQSPDMSKNSKARQQKSPQLPPSLPSSNVNEFGIPERVMRCLQIAEVMSQ 218 (240)
T ss_pred CcHHHHHHhhccchhhhHHhhhcc---cccccccchhhhhhhhhhcccccCCCcccCCCCcCCCCHHHHHHHHHHHHHHH
Confidence 999999999999999999999874 45778999999998888888888888988999999999999999999999999
Q ss_pred hHHHHHHhhhc-CCChHHHHhh
Q 006157 308 MKDLIDYSRVT-GTGPMESLAK 328 (658)
Q Consensus 308 MKdLM~FSk~n-~lSP~EALk~ 328 (658)
|+|||.|++.+ ++||+|||++
T Consensus 219 M~~Lm~fs~~~~~~sP~eaL~~ 240 (240)
T PF01803_consen 219 MKDLMSFSKQNNILSPLEALEQ 240 (240)
T ss_pred HHHHHHHHHHcCCCCHHHHhcC
Confidence 99999999965 5999999985
No 2
>KOG2181 consensus LIM domain binding protein LDB1/NLI/CLIM [Transcription]
Probab=100.00 E-value=6.4e-35 Score=299.44 Aligned_cols=208 Identities=19% Similarity=0.370 Sum_probs=182.5
Q ss_pred HHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCCCCceeEEeeccCCCCCccccCccccccccccCCCCCceeeEcccchh
Q 006157 70 ARRLTHYMYQQQHRPEDNNIEFWRKFVAEYFAPNAKKKWCVSMYGSGRQATGVFPQDVWHCEICNRKPGRGFEATVEVLP 149 (658)
Q Consensus 70 ~lRL~qfie~Ls~rp~~ndIeYWqkFV~EFFSP~AvlR~~ls~~~~~~~ttGvfpqdlw~~d~~~tk~~KqFEIt~~vLP 149 (658)
-.|++++-.+|+.+.+.+|..||+.|..|||.++|+|.|.+.+.+ ++|.|.|++.+||
T Consensus 51 e~Ri~emNkRLq~~se~sdN~WWDaFstEFFeDDa~Lt~~fclEd----------------------gpkRYtIgRtlIP 108 (415)
T KOG2181|consen 51 EFRIHEMNKRLQIFSEVSDNQWWDAFSTEFFEDDAKLTFVFCLED----------------------GPKRYTIGRTLIP 108 (415)
T ss_pred hhhHHHHHHHHHHhcccchhhhHHhhhhhhhcCCceEEEEEEecC----------------------CcceeeeccchhH
Confidence 468888888888899999999999999999999999988765332 4799999999999
Q ss_pred HHHHHHhhcCcceEEEEecCCcceecCCCcEEEEeCceEEEEEecC---eEEEEEeEEEEEeCCC--cceeEEEEeecce
Q 006157 150 RLFKIKYESGTLEELLYVDMPREYQNASGQIVLDYAKAIQESVFEQ---LRVVRDGQLRIVFSPD--LKICSWEFCARRH 224 (658)
Q Consensus 150 RyF~t~FeSGV~~iqL~Ld~prE~vLsNGsI~lEc~KAs~iy~Yeg---S~Vv~~G~LRa~Fdpd--LKIE~wEF~t~sH 224 (658)
|||+++||+||++++++|.+++| .+.||++.+||+.|++++.|+. .+|+++|+|.++|..| +||+.|+|.+++|
T Consensus 109 rfFrsIfegG~~eLyyvLkh~ke-t~hn~s~~~dcdq~~~iTqhgkp~ft~VctegrL~lEF~fDd~MRIK~Wh~~ik~~ 187 (415)
T KOG2181|consen 109 RFFRSIFEGGMRELYYVLKHPKE-TLHNGSQAYDCDQVLQITQHGKPSFTEVCTEGRLYLEFAFDDVMRIKAWHLEIKRS 187 (415)
T ss_pred HHHHHHHhcchhhhhhhhcCchh-hhcCCceeeeccceeEEeecCCccceeeeccceEEEEeehhhhhhhhheeeeeecc
Confidence 99999999999999999999988 5899999999999999999984 9999999999999776 9999999999999
Q ss_pred eeccccchhhhHHhhhhHHHHHHHHHhhcCCCCCCchHhhhhhhhhHHHHHHHHHhccCCcccCCCccchhhhhhhHHHH
Q 006157 225 EELIPRRLLIPQVSQLGAAAQKYQAATQNASSNLSAPELQNNCNMFVASARQLAKALEVPLVNDLGYTKRYVRCLQISEV 304 (658)
Q Consensus 225 eEyIpRs~L~~qvs~l~~~aqk~qs~~qN~sd~ksspElsKn~n~f~~a~rQLas~l~~p~Vn~~GIp~~vMR~LQIsEV 304 (658)
.|+|||+.|...+. .|......++| ++++.|+++.++.+|.+|.|
T Consensus 188 rElvprsil~~~a~----------------~dp~~ldq~~k-------------------NitR~G~~nsTlNylrlcvI 232 (415)
T KOG2181|consen 188 RELVPRSILQNTAD----------------YDPEALDQEQK-------------------NITRMGFFNSTLNYLRLCVI 232 (415)
T ss_pred ccccchhhhhccCC----------------CChhhhChhhc-------------------cccccccchhhHHHHHHHHH
Confidence 99999998764321 01111222233 48999999999999999999
Q ss_pred HhchHHHHHHhhhcCCChHHHHhhhhhhcCC
Q 006157 305 VNSMKDLIDYSRVTGTGPMESLAKFPRRTSG 335 (658)
Q Consensus 305 MSqMKdLM~FSk~n~lSP~EALk~yv~~~~~ 335 (658)
++.|++||+.+|.+.|+|+||||..+.++-.
T Consensus 233 LePMQelMSrhKayalsPRdclKttLFQkwQ 263 (415)
T KOG2181|consen 233 LEPMQELMSRHKAYALSPRDCLKTTLFQKWQ 263 (415)
T ss_pred HhHHHHHHHhccccCCCHHHHHHHHHHHHhh
Confidence 9999999999999999999999999988743
No 3
>COG4907 Predicted membrane protein [Function unknown]
Probab=41.14 E-value=18 Score=41.60 Aligned_cols=17 Identities=18% Similarity=0.360 Sum_probs=10.5
Q ss_pred hcCcceEEEEecCCcce
Q 006157 157 ESGTLEELLYVDMPREY 173 (658)
Q Consensus 157 eSGV~~iqL~Ld~prE~ 173 (658)
+-|+.+....++.|-|-
T Consensus 150 ~~~~~S~K~~I~lPVen 166 (595)
T COG4907 150 QQGISSVKVTIELPVEN 166 (595)
T ss_pred cCCcceEEEEEEccccc
Confidence 34666666667777653
No 4
>PF06249 EutQ: Ethanolamine utilisation protein EutQ; InterPro: IPR010424 The eut operon of Salmonella typhimurium encodes proteins involved in the cobalamin-dependent degradation of ethanolamine. The role of EutQ in this process is unclear [].; PDB: 2PYT_B 3LWC_A.
Probab=30.02 E-value=47 Score=32.84 Aligned_cols=36 Identities=17% Similarity=0.317 Sum_probs=27.8
Q ss_pred ecCCCcEEEEeCceEEEEEecCeEEEEEeEEEEEeC
Q 006157 174 QNASGQIVLDYAKAIQESVFEQLRVVRDGQLRIVFS 209 (658)
Q Consensus 174 vLsNGsI~lEc~KAs~iy~YegS~Vv~~G~LRa~Fd 209 (658)
.++-|.+.+|-....|+|.||...+|++|+|.+..+
T Consensus 76 ~l~~Gf~~le~~~f~wtl~YDEi~~VlEG~L~i~~~ 111 (152)
T PF06249_consen 76 RLSAGFMELEKTSFPWTLTYDEIKYVLEGTLEISID 111 (152)
T ss_dssp SSEEEEEEEEEEEEEEE-SSEEEEEEEEEEEEEEET
T ss_pred ceeeEEEEEeCCCccEEeecceEEEEEEeEEEEEEC
Confidence 577888888876666666667799999999998865
No 5
>PF06752 E_Pc_C: Enhancer of Polycomb C-terminus; InterPro: IPR009607 This entry represents the C terminus of eukaryotic enhancer of polycomb proteins, which have roles in heterochromatin formation []. This family contains several conserved motifs.
Probab=28.47 E-value=41 Score=35.39 Aligned_cols=6 Identities=33% Similarity=0.434 Sum_probs=3.1
Q ss_pred eccccc
Q 006157 226 ELIPRR 231 (658)
Q Consensus 226 EyIpRs 231 (658)
--++|.
T Consensus 169 ~h~pRt 174 (230)
T PF06752_consen 169 RHNPRT 174 (230)
T ss_pred cccccc
Confidence 345664
No 6
>KOG3598 consensus Thyroid hormone receptor-associated protein complex, subunit TRAP230 [Transcription]
Probab=28.38 E-value=30 Score=44.51 Aligned_cols=35 Identities=40% Similarity=0.409 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHH-----------------HHhhcCCCCCCCcchhhhh
Q 006157 17 QQQRYLQLQQQHQQQQ-----------------LLKAMPQQRPQLPQHFVQQ 51 (658)
Q Consensus 17 ~~~~~~~~~~~~~q~~-----------------~~~~~~~q~~~~~~~~~~q 51 (658)
|||++.|.|||+|+|+ -++++++++|+++-|-|+|
T Consensus 2133 qQq~~~q~qQqqq~q~qq~~q~~q~~q~Qq~~~~~qa~qq~qplf~RQglqq 2184 (2220)
T KOG3598|consen 2133 QQQEAYQKQQQQQEQKQQIEQNNQIMQEQQREEAYQAEQQRQPLFRRQGLQQ 2184 (2220)
T ss_pred HHHHHHHHHhhhhhhhhcccchhHHHHHHhhhcccccccccchhhHHHHHHH
No 7
>KOG4369 consensus RTK signaling protein MASK/UNC-44 [Signal transduction mechanisms]
Probab=26.73 E-value=1.3e+02 Score=38.74 Aligned_cols=27 Identities=44% Similarity=0.447 Sum_probs=12.3
Q ss_pred HHhHHHHHHHHHHHHHHHHHHHHhhcCC
Q 006157 12 QMNLLQQQRYLQLQQQHQQQQLLKAMPQ 39 (658)
Q Consensus 12 ~~~~~~~~~~~~~~~~~~q~~~~~~~~~ 39 (658)
||-.|||+.-+|.|| +.+||+-+.++|
T Consensus 1862 ~iq~lq~~q~lqqqq-q~~qq~~~~~~q 1888 (2131)
T KOG4369|consen 1862 QIQHLQQQQALQQQQ-QRIQQFQQQYQQ 1888 (2131)
T ss_pred HHHHHHHHHHHHHHH-hHHHHHHHHHhc
Confidence 344555555555222 234444444443
No 8
>PRK15457 ethanolamine utilization protein EutQ; Provisional
Probab=21.31 E-value=1.2e+02 Score=32.06 Aligned_cols=39 Identities=15% Similarity=0.186 Sum_probs=32.0
Q ss_pred ceecCCCcEEEEeCceEEEEEecCeEEEEEeEEEEEeCC
Q 006157 172 EYQNASGQIVLDYAKAIQESVFEQLRVVRDGQLRIVFSP 210 (658)
Q Consensus 172 E~vLsNGsI~lEc~KAs~iy~YegS~Vv~~G~LRa~Fdp 210 (658)
+..++-|.+.+|.....|+|.|+....+++|.+++..+-
T Consensus 154 ~s~m~aGf~~~~~~sf~wtl~~dEi~YVLEGe~~l~IdG 192 (233)
T PRK15457 154 GSSMAAGFMQWENAFFPWTLNYDEIDMVLEGELHVRHEG 192 (233)
T ss_pred CCceeeEEEEEecCccceeccceEEEEEEEeEEEEEECC
Confidence 346788888888877777777778999999999998864
No 9
>PF11197 DUF2835: Protein of unknown function (DUF2835); InterPro: IPR021363 This is a bacterial family of uncharacterised proteins. One member of this family (A4VM42 from SWISSPROT) is annotated as the A subunit of Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV).
Probab=18.34 E-value=2.2e+02 Score=24.73 Aligned_cols=54 Identities=20% Similarity=0.270 Sum_probs=32.6
Q ss_pred HHHHhhcCcceEEEEecCCcceecCCCcE--EEEeCceEEEEEecCeEEEEEeEEEEEeCCCcceeEEE
Q 006157 152 FKIKYESGTLEELLYVDMPREYQNASGQI--VLDYAKAIQESVFEQLRVVRDGQLRIVFSPDLKICSWE 218 (658)
Q Consensus 152 F~t~FeSGV~~iqL~Ld~prE~vLsNGsI--~lEc~KAs~iy~YegS~Vv~~G~LRa~FdpdLKIE~wE 218 (658)
|..+|...+.++...-+..+.-.+|-..+ || ++-=+.|.+|+.||.+.|+..+|
T Consensus 12 ~l~~Y~G~a~~V~v~s~~Gr~v~~Pa~~lRpFv-------------t~~Gv~G~F~l~~d~~~kf~sle 67 (68)
T PF11197_consen 12 FLAYYQGAASKVVVRSDDGRRVQFPARHLRPFV-------------THDGVHGRFRLEFDDNNKFVSLE 67 (68)
T ss_pred HHHhccccccEEEEEecCCcEEEEeHHHCccee-------------cCCCceEEEEEEECCCCCEEEeE
Confidence 45566666666665544444322322221 11 23335799999999999999876
No 10
>cd00781 ketosteroid_isomerase ketosteroid isomerase: Many biological reactions proceed by enzymatic cleavage of a C-H bond adjacent to carbonyl or a carboxyl group, leading to an enol or a enolate intermediate that is subsequently re-protonated at the same or an adjacent carbon. Ketosteroid isomerases are important members of this class of enzymes which are the most proficient of all enzymes known and have served as a paradigm for enzymatic enolizations since its discovery in 1954. This CD includes members of this class that calalyze the isomerization of various beta,gamma-unsaturated isomers at nearly a diffusion-controlled rate. These enzymes are widely distributed in bacteria.
Probab=18.15 E-value=6.6e+02 Score=21.95 Aligned_cols=66 Identities=15% Similarity=0.117 Sum_probs=37.2
Q ss_pred cccchhHHHHHHhhcCcceEEEEecCCcceecCCCcEEEEeCceEEEEEecCeEEEEEeEEEEEeCCCcceeE
Q 006157 144 TVEVLPRLFKIKYESGTLEELLYVDMPREYQNASGQIVLDYAKAIQESVFEQLRVVRDGQLRIVFSPDLKICS 216 (658)
Q Consensus 144 t~~vLPRyF~t~FeSGV~~iqL~Ld~prE~vLsNGsI~lEc~KAs~iy~YegS~Vv~~G~LRa~FdpdLKIE~ 216 (658)
+...+-+||...+... .++.+.. ... ...++..+++. .+.+.+.|..+..+|.-.+.|+.+.||..
T Consensus 45 G~~~i~~~~~~~~~~~-~~~~~~~--~~~-~~~g~~~~~~~---~~~~~~~g~~~~~~~~~v~~~~~dGkI~~ 110 (122)
T cd00781 45 GRAAIAAFYAQSLGGA-KRLELTG--PVR-ASHGGEAAFAF---RVEFEWEGQPCVVRVIDVMRFDADGRIVS 110 (122)
T ss_pred CHHHHHHHHHHHhccC-ceEEecC--cee-eecCCEEEEEE---EEEEEeCCceEEEEEEEEEEECCCccChH
Confidence 3456777888776652 2322211 111 12233334432 33455667778888888888887888853
Done!