Query psy7859
Match_columns 455
No_of_seqs 78 out of 80
Neff 3.7
Searched_HMMs 46136
Date Fri Aug 16 20:39:27 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy7859.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/7859hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0447|consensus 100.0 6E-106 1E-110 837.2 24.1 288 158-455 538-980 (980)
2 KOG0447|consensus 100.0 2E-70 4.3E-75 571.6 16.1 223 1-232 673-935 (980)
3 cd04769 HTH_MerR2 Helix-Turn-H 59.7 19 0.0004 31.3 4.9 51 403-453 60-114 (116)
4 cd00379 Ribosomal_L10_P0 Ribos 53.0 13 0.00029 33.0 3.0 67 105-181 3-74 (155)
5 cd04770 HTH_HMRTR Helix-Turn-H 52.4 33 0.00071 29.8 5.2 49 403-451 61-112 (123)
6 cd04787 HTH_HMRTR_unk Helix-Tu 51.9 30 0.00065 30.8 5.0 49 403-451 61-112 (133)
7 cd04783 HTH_MerR1 Helix-Turn-H 51.4 33 0.00072 30.1 5.2 50 403-452 61-111 (126)
8 cd01109 HTH_YyaN Helix-Turn-He 49.7 34 0.00073 29.5 4.8 47 403-449 61-110 (113)
9 cd04786 HTH_MerR-like_sg7 Heli 47.8 42 0.00092 30.2 5.4 50 403-452 61-112 (131)
10 cd01107 HTH_BmrR Helix-Turn-He 43.6 43 0.00093 28.8 4.6 45 403-449 62-106 (108)
11 cd01282 HTH_MerR-like_sg3 Heli 43.2 41 0.00089 29.1 4.4 46 403-448 60-111 (112)
12 cd01106 HTH_TipAL-Mta Helix-Tu 42.7 41 0.0009 28.5 4.3 40 404-446 62-101 (103)
13 PF00466 Ribosomal_L10: Riboso 41.3 40 0.00087 28.0 3.9 66 104-179 5-76 (100)
14 PF02083 Urotensin_II: Urotens 40.6 9.7 0.00021 22.2 0.1 7 198-204 4-10 (12)
15 KOG2069|consensus 37.3 2.5E+02 0.0055 31.9 10.2 118 317-440 139-267 (581)
16 COG0244 RplJ Ribosomal protein 37.2 48 0.001 31.4 4.2 67 104-180 7-78 (175)
17 PF15079 DUF4546: Domain of un 36.5 75 0.0016 31.1 5.3 37 400-451 51-91 (205)
18 TIGR02051 MerR Hg(II)-responsi 35.0 83 0.0018 27.8 5.1 50 403-452 60-110 (124)
19 cd04784 HTH_CadR-PbrR Helix-Tu 34.8 91 0.002 27.4 5.3 50 403-452 61-113 (127)
20 PF09226 Endonuc-HincII: Restr 32.1 38 0.00083 33.7 2.7 34 144-177 213-248 (257)
21 cd04785 HTH_CadR-PbrR-like Hel 31.8 1E+02 0.0022 27.2 5.1 48 403-450 61-111 (126)
22 PF05400 FliT: Flagellar prote 31.2 48 0.001 26.1 2.7 41 401-441 38-78 (84)
23 PRK00099 rplJ 50S ribosomal pr 30.9 69 0.0015 29.6 4.1 66 104-179 5-75 (172)
24 cd01108 HTH_CueR Helix-Turn-He 29.2 1E+02 0.0022 27.3 4.6 49 403-451 61-112 (127)
25 TIGR02044 CueR Cu(I)-responsiv 29.0 1.2E+02 0.0027 26.7 5.2 49 403-451 61-112 (127)
26 TIGR02047 CadR-PbrR Cd(II)/Pb( 28.4 1.1E+02 0.0023 27.3 4.7 49 403-451 61-112 (127)
27 PF09006 Surfac_D-trimer: Lung 26.9 1.3E+02 0.0029 23.5 4.3 32 386-424 1-32 (46)
28 TIGR02865 spore_II_E stage II 26.8 2.1E+02 0.0045 33.1 7.7 98 342-440 345-448 (764)
29 TIGR01950 SoxR redox-sensitive 24.3 1.5E+02 0.0033 27.1 5.0 46 404-449 62-111 (142)
30 PF04799 Fzo_mitofusin: fzo-li 24.2 1.8E+02 0.004 28.1 5.7 64 368-437 98-163 (171)
31 KOG3915|consensus 23.9 3.3E+02 0.0071 30.7 8.1 73 370-445 500-580 (641)
32 PF13270 DUF4061: Domain of un 23.7 2.4E+02 0.0052 24.5 5.8 49 397-450 3-51 (90)
33 PRK09514 zntR zinc-responsive 22.8 1.8E+02 0.004 26.3 5.2 49 403-451 62-114 (140)
34 PF06705 SF-assemblin: SF-asse 22.7 4.4E+02 0.0095 25.8 8.2 80 374-454 60-140 (247)
35 cd05797 Ribosomal_L10 Ribosoma 22.7 1.2E+02 0.0027 27.4 4.1 66 104-179 4-74 (157)
36 TIGR02043 ZntR Zn(II)-responsi 22.7 2E+02 0.0044 25.6 5.4 49 403-451 62-114 (131)
37 PF08651 DASH_Duo1: DASH compl 22.6 1.2E+02 0.0025 25.6 3.6 25 429-453 2-26 (78)
38 PRK15002 redox-sensitivie tran 22.6 1.6E+02 0.0035 27.5 4.9 47 403-449 71-121 (154)
39 cd01110 HTH_SoxR Helix-Turn-He 22.4 1.5E+02 0.0033 26.8 4.6 47 403-449 61-111 (139)
40 PF03359 GKAP: Guanylate-kinas 22.1 2.1E+02 0.0045 30.2 6.1 62 155-228 217-278 (357)
41 cd04790 HTH_Cfa-like_unk Helix 21.9 1.7E+02 0.0036 27.5 4.9 45 404-451 63-107 (172)
42 PRK13752 putative transcriptio 21.8 1.7E+02 0.0036 26.9 4.7 50 403-452 68-118 (144)
43 PHA02754 hypothetical protein; 20.9 1.4E+02 0.003 24.7 3.5 30 384-413 2-31 (67)
44 cd05529 Bromo_WDR9_I_like Brom 20.3 2.6E+02 0.0056 25.1 5.6 48 95-142 16-82 (128)
No 1
>KOG0447|consensus
Probab=100.00 E-value=6e-106 Score=837.15 Aligned_cols=288 Identities=61% Similarity=1.031 Sum_probs=282.2
Q ss_pred HHHHHHHHHHHHHHhhhcccccCCccccccccccchhhhHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHhhhccccccc
Q psy7859 158 YRHHFLIQSLAKALDCKKGFYMDGVTLSSQVTTRNLSFAVSECFWKMVRETVEQQADAFKATRFNLETEWKNSFPRIREL 237 (455)
Q Consensus 158 YRrHFL~~al~~A~~CRs~ffk~G~~~~~q~tt~nl~~avs~~FWrmvr~sl~qQ~~~~~a~rfnLEtEwKn~fp~~rel 237 (455)
|-..|.+. |++|++|+++|+|+||+|||+|||+|||||||+|||||+|+|+|+||||||||||+|||+||+
T Consensus 538 YEE~FF~n---------SkLl~~~vlkphQvTtRNlSLAVSDcFWkMVResiEqQaDaFkAtrFNLEtEWKNnfpRlRel 608 (980)
T KOG0447|consen 538 YEEEFFQN---------SKLLKTSMLKAHQVTTRNLSLAVSDCFWKMVRESVEQQADSFKATRFNLETEWKNNYPRLREL 608 (980)
T ss_pred HHHHHhhh---------hHHHHhhccchhhhcccchhHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhcChHhhhc
Confidence 67777665 689999999999999999999999999999999999999999999999999999999999999
Q ss_pred chHHHHHHHhhhHHHHhhhccCCChhhHHHHHHHHHhhhhccchhhhhcccccccCCCCCcchhHHHhHhhhhhhhccch
Q psy7859 238 DRDELFEKARGEILDEIVNLSQVSVQHWEEVLLTQLWNKVSNYVFETIYLPAAQSGNTNAFNTQMDIKLRQWADQQLPLQ 317 (455)
Q Consensus 238 dRdELFekak~eild~v~~l~~~~~~~wE~~L~~klW~~i~~~v~~~IylpAaq~~s~~~Fnt~vDikL~~wa~~~Lp~~ 317 (455)
+|||||+||||||||||++||+|+|++||++|+..+|+.||.|+|++||+|||++.|+|+|||+|||||++|++++||++
T Consensus 609 ~RdELfdKAkgEILDEvi~lsqv~~k~w~e~l~~~~~e~vs~~~~~~~~lpaA~~~~sg~FnttvdIklk~w~DKqL~~k 688 (980)
T KOG0447|consen 609 DRNELFEKAKNEILDEVISLSQVTPKHWEEILQQSLWERVSTHVIENIYLPAAQTMNSGTFNTTVDIKLKQWTDKQLPNK 688 (980)
T ss_pred ChHHHHHHhhhhHHHHHHhhhhcChhhHHHHHHHHHHHHhhhhhhhhccchhhhcccccccceeehhhhhhhhhhhcchh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHHHHHHHHHHhhhcCCCCchhhHHHHHHHHHHHHhhcCCCCC------------------------------
Q psy7859 318 SIEAGWEVLKAEFVNFFEKEKNSKDHDGIFDNLKAAVIEEALRRHSWEHK------------------------------ 367 (455)
Q Consensus 318 sve~gwetL~~eF~~~l~~~k~~~d~d~ifd~Lk~aV~~e~~~rh~W~~~------------------------------ 367 (455)
||++||+||+++|.++|+.-+ ++|||||||+||+||++|++.+|.|+++
T Consensus 689 ~ve~~w~tl~e~f~r~~~~~~-~k~hd~ifd~lkeav~ee~~~~h~w~d~a~d~lrviq~na~EDR~v~DKq~WDaA~~F 767 (980)
T KOG0447|consen 689 AVEVAWETLQEEFSRFMTEPK-GKEHDDIFDKLKEAVKEESIKRHKWNDFAEDSLRVIQHNALEDRSISDKQQWDAAIYF 767 (980)
T ss_pred hhHHHHHHHHHHHHHHhcccc-ccccchHHHHHHHHHHHHHHHhcccchhhHHHHHHHhhhhhhhcccccHHHHHHHHHH
Confidence 999999999999999999766 8899999999999999999999999987
Q ss_pred --------------------------------------------------------------------------------
Q psy7859 368 -------------------------------------------------------------------------------- 367 (455)
Q Consensus 368 -------------------------------------------------------------------------------- 367 (455)
T Consensus 768 le~a~~arL~~te~~l~~m~GPgw~~rwl~Wk~~Tqdq~~~~~~knEL~kiLk~d~eH~~~Lt~DeiTtvRkNle~~gVe 847 (980)
T KOG0447|consen 768 MEEALQARLKDTENAIENMVGPDWKKRWLYWKNRTQEQCVHNETKNELEKMLKCNEEHPAYLASDEITTVRKNLESRGVE 847 (980)
T ss_pred HHHHHHHHHHHHHHHHHhhhCccHHhhhhhhcCccHHHHHHHHHHHHHHHHhcCCcccccccccchHHHHHhhhhhcCcc
Confidence
Q ss_pred ---------------------------------------------CCchHHHHHHHHHHHHHhHHHHHHHHHhHHHHHHH
Q psy7859 368 ---------------------------------------------DCCDVVLFWRIQQMLKVTSNALRQQIMNREARRLD 402 (455)
Q Consensus 368 ---------------------------------------------~C~dVvlFwRiq~ml~~T~n~LRqqi~n~e~rrLe 402 (455)
+|+|||||||||+|+++|||||||||+|+|+||||
T Consensus 848 Vdt~~Ir~tW~~VyrkHFL~~aln~~kdCr~~yy~Y~q~~~e~ei~C~dvVLFwRIQ~m~~iT~NaLRQQ~tNtE~RRLe 927 (980)
T KOG0447|consen 848 VDPSLIKDTWHQVYRRHFLKTALNHCNLCRRGFYYYQRHFVDSELECNDVVLFWRIQRMLAITANTLRQQLTNTEVRRLE 927 (980)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccccceeeehHHHHHHHHHhHHHHHHHHhhHHHHHHH
Confidence 99999999999999999999999999999999999
Q ss_pred HHHHHHHHhccccHHHHhhhhccchhhhHHHHHHHHHHHHHHHHHHHHHhhcC
Q psy7859 403 KEIKEVLEDYSQDQEKKMILLTGRRVTLAEELKRVKQIQEKLEEFIKALNTEK 455 (455)
Q Consensus 403 ~eik~vLd~~s~d~~~k~~lltGrrV~LAEeLk~vr~iqekLeef~~~L~~ek 455 (455)
||||+||||||+|+++|.+||||+||+|||||++||+|||||++||++|++||
T Consensus 928 KeiKeVLddfs~d~ekK~klLTGkRV~LAEel~kvr~IqEkLd~Fiesl~qeK 980 (980)
T KOG0447|consen 928 KNVKEVLEDFAEDGEKKIKLLTGKRVQLAEDLKKVREIQEKLDAFIEALHQEK 980 (980)
T ss_pred HHHHHHHHHhhhchhhhheeeccchhHHHHHHHHHHHHHHHHHHHHHHhhcCC
Confidence 99999999999999999999999999999999999999999999999999997
No 2
>KOG0447|consensus
Probab=100.00 E-value=2e-70 Score=571.57 Aligned_cols=223 Identities=41% Similarity=0.774 Sum_probs=213.3
Q ss_pred CccchhhhhhhhccchhHHHHHHHHHHHHHHHHHhhhcCCCCcchhHHHHHHHHHHHHHhccccccchhhhhhhhhcccc
Q psy7859 1 MDIKLRQWADQQLPLQSIEAGWEVLKAEFVNFFEKEKNSKDHDGIFDNLKAAVIEEALRRHSWEHKGSEMLRILQLNTLE 80 (455)
Q Consensus 1 VDIkLkqWAdk~LP~~SVe~gwetL~eeF~~~l~~~k~~~dhD~iFd~LK~aV~eEa~~rH~W~~kA~d~LRVIQlNALE 80 (455)
||||||+|+|++||++|||+||+||+|+|.++|+..+ .++||||||+||+||++|++.+|.|+++|.|+|||||+||||
T Consensus 673 vdIklk~w~DKqL~~k~ve~~w~tl~e~f~r~~~~~~-~k~hd~ifd~lkeav~ee~~~~h~w~d~a~d~lrviq~na~E 751 (980)
T KOG0447|consen 673 VDIKLKQWTDKQLPNKAVEVAWETLQEEFSRFMTEPK-GKEHDDIFDKLKEAVKEESIKRHKWNDFAEDSLRVIQHNALE 751 (980)
T ss_pred ehhhhhhhhhhhcchhhhHHHHHHHHHHHHHHhcccc-ccccchHHHHHHHHHHHHHHHhcccchhhHHHHHHHhhhhhh
Confidence 7999999999999999999999999999999999875 899999999999999999999999999999999999999999
Q ss_pred cccc--------------------------------CCCccccccccccCCHHHHHHHHHHHHHHHHHhcCCCCCCCCCh
Q psy7859 81 DQCV--------------------------------SPSLSERWMYWKYSTEEQVKRSYVKSELDKVLQSDTHHKPVLSP 128 (455)
Q Consensus 81 DR~V--------------------------------gP~~~~RWl~W~s~T~eQ~~r~~i~~ELeklL~~~~~H~~~L~~ 128 (455)
||+| ||||..||+||+++|+||+.++.+++||+++|+++|+|+|+||.
T Consensus 752 DR~v~DKq~WDaA~~Fle~a~~arL~~te~~l~~m~GPgw~~rwl~Wk~~Tqdq~~~~~~knEL~kiLk~d~eH~~~Lt~ 831 (980)
T KOG0447|consen 752 DRSISDKQQWDAAIYFMEEALQARLKDTENAIENMVGPDWKKRWLYWKNRTQEQCVHNETKNELEKMLKCNEEHPAYLAS 831 (980)
T ss_pred hcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCccHHhhhhhhcCccHHHHHHHHHHHHHHHHhcCCccccccccc
Confidence 9986 79999999999999999999999999999999999999999999
Q ss_pred hhHHHHHhhhhhCCccCChhhHHHhhHHHHHHHHHHHHHHHHHhhhcccc--cCCccccccccccchhhhHHHHHHHHHH
Q psy7859 129 DELTTIRKNLQRSNIDCDADYIKDCWDPVYRHHFLIQSLAKALDCKKGFY--MDGVTLSSQVTTRNLSFAVSECFWKMVR 206 (455)
Q Consensus 129 DElttVRkNLq~~gveVd~e~IretW~~vYRrHFL~~al~~A~~CRs~ff--k~G~~~~~q~tt~nl~~avs~~FWrmvr 206 (455)
||+||||||||++|||||+++|++||++|||+|||++||++|++|+++|| .+|++.+ +++|..+++|||++|
T Consensus 832 DeiTtvRkNle~~gVeVdt~~Ir~tW~~VyrkHFL~~aln~~kdCr~~yy~Y~q~~~e~------ei~C~dvVLFwRIQ~ 905 (980)
T KOG0447|consen 832 DEITTVRKNLESRGVEVDPSLIKDTWHQVYRRHFLKTALNHCNLCRRGFYYYQRHFVDS------ELECNDVVLFWRIQR 905 (980)
T ss_pred chHHHHHhhhhhcCccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccc------ccccceeeehHHHHH
Confidence 99999999999999999999999999999999999999999999999985 7777654 788888889999999
Q ss_pred ------HHHHHHHHHHHHhhhhhHhHHhhhcc
Q psy7859 207 ------ETVEQQADAFKATRFNLETEWKNSFP 232 (455)
Q Consensus 207 ------~sl~qQ~~~~~a~rfnLEtEwKn~fp 232 (455)
++||||+.|++++| ||.|.|.-..
T Consensus 906 m~~iT~NaLRQQ~tNtE~RR--LeKeiKeVLd 935 (980)
T KOG0447|consen 906 MLAITANTLRQQLTNTEVRR--LEKNVKEVLE 935 (980)
T ss_pred HHHHhHHHHHHHHhhHHHHH--HHHHHHHHHH
Confidence 69999999999999 9998886543
No 3
>cd04769 HTH_MerR2 Helix-Turn-Helix DNA binding domain of MerR2-like transcription regulators. Helix-turn-helix (HTH) transcription regulator MerR2 and related proteins. MerR2 in Bacillus cereus RC607 regulates resistance to organomercurials. The MerR family transcription regulators have been shown to mediate responses to stress including exposure to heavy metals, drugs, or oxygen radicals in eubacterial and some archaeal species. They regulate transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=59.67 E-value=19 Score=31.32 Aligned_cols=51 Identities=14% Similarity=0.287 Sum_probs=42.9
Q ss_pred HHHHHHHHhcccc----HHHHhhhhccchhhhHHHHHHHHHHHHHHHHHHHHHhh
Q psy7859 403 KEIKEVLEDYSQD----QEKKMILLTGRRVTLAEELKRVKQIQEKLEEFIKALNT 453 (455)
Q Consensus 403 ~eik~vLd~~s~d----~~~k~~lltGrrV~LAEeLk~vr~iqekLeef~~~L~~ 453 (455)
++|+++++....+ ...-..++..++-+|.++++.+...+..|+.++..+..
T Consensus 60 ~eI~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~~~~~~~ 114 (116)
T cd04769 60 AELKAIFAGHEGRAVLPWPHLQQALEDKKQEIRAQITELQQLLARLDAFEASLKD 114 (116)
T ss_pred HHHHHHHhccccCCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 6888888887654 24557899999999999999999999999999988754
No 4
>cd00379 Ribosomal_L10_P0 Ribosomal protein L10 family; composed of the large subunit ribosomal protein called L10 in bacteria, P0 in eukaryotes, and L10e in archaea, as well as uncharacterized P0-like eukaryotic proteins. In all three kingdoms, L10 forms a tight complex with multiple copies of the small acidic protein L12(e). This complex forms a stalk structure on the large subunit of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein and forms the base of the L7/L12 stalk, while the extended C-terminal helix binds to two or three dimers of the NTD of L7/L12 (L7 and L12 are identical except for an acetylated N-terminus). The L7/L12 stalk is known to contain the binding site for elongation factors G and Tu (EF-G and EF-Tu, respectively); however, there is disagreement as to whether or not L10 is involved in forming the binding site. The stalk is believed to be associated with GTPase activities in protein synthesis. In a neuroblastoma cell line, L10 has been sho
Probab=53.00 E-value=13 Score=33.02 Aligned_cols=67 Identities=19% Similarity=0.205 Sum_probs=54.4
Q ss_pred HHHHHHHHHHHHhcCC----CCCCCCChhhHHHHHhhhhhCCccCChhhHHHhhHHHHHHHHHHHHHHHHH-hhhccccc
Q psy7859 105 RSYVKSELDKVLQSDT----HHKPVLSPDELTTIRKNLQRSNIDCDADYIKDCWDPVYRHHFLIQSLAKAL-DCKKGFYM 179 (455)
Q Consensus 105 r~~i~~ELeklL~~~~----~H~~~L~~DElttVRkNLq~~gveVd~e~IretW~~vYRrHFL~~al~~A~-~CRs~ffk 179 (455)
...+.+++..+|+..+ -|-..++..++..+|+.|...|+++ .||+.-.++.|+..+. ++-..++.
T Consensus 3 K~~~v~~l~~~l~~~~~v~v~~~~~l~~~~~~~lR~~l~~~~~~~----------~v~KNtl~~~Al~~t~~~~~~~~l~ 72 (155)
T cd00379 3 KEELVEELKELLKKYKSVVVVDYRGLTVAQLTELRKELRESGAKL----------KVGKNTLMRRALKGTGFEELKPLLK 72 (155)
T ss_pred hHHHHHHHHHHHHhCCEEEEEecCCCcHHHHHHHHHHHHHcCCEE----------EEEehHHHHHHHcCCCccchhhhCc
Confidence 3567788999999887 4555899999999999999998765 6899999999999887 66666664
Q ss_pred CC
Q psy7859 180 DG 181 (455)
Q Consensus 180 ~G 181 (455)
..
T Consensus 73 G~ 74 (155)
T cd00379 73 GP 74 (155)
T ss_pred CC
Confidence 43
No 5
>cd04770 HTH_HMRTR Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators. Helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR): MerR1 (mercury), CueR (copper), CadR (cadmium), PbrR (lead), ZntR (zinc), and other related proteins. These transcription regulators mediate responses to heavy metal stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=52.39 E-value=33 Score=29.78 Aligned_cols=49 Identities=16% Similarity=0.274 Sum_probs=38.6
Q ss_pred HHHHHHHHhccc---cHHHHhhhhccchhhhHHHHHHHHHHHHHHHHHHHHH
Q psy7859 403 KEIKEVLEDYSQ---DQEKKMILLTGRRVTLAEELKRVKQIQEKLEEFIKAL 451 (455)
Q Consensus 403 ~eik~vLd~~s~---d~~~k~~lltGrrV~LAEeLk~vr~iqekLeef~~~L 451 (455)
+||+++|+...+ +......++.++.-+|.++++.+..+...|+.++...
T Consensus 61 ~eI~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~~~~~ 112 (123)
T cd04770 61 AEIRELLSLRDDGAAPCAEVRALLEEKLAEVEAKIAELQALRAELAGLLSAC 112 (123)
T ss_pred HHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 467777776532 2356678999999999999999999999999887543
No 6
>cd04787 HTH_HMRTR_unk Helix-Turn-Helix DNA binding domain of putative Heavy Metal Resistance transcription regulators. Putative helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR), unknown subgroup. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to heavy metal stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules, such as, metal ions, drugs, and organic substrates. This subgroup lacks one of the c
Probab=51.92 E-value=30 Score=30.83 Aligned_cols=49 Identities=18% Similarity=0.346 Sum_probs=38.7
Q ss_pred HHHHHHHHhccccH---HHHhhhhccchhhhHHHHHHHHHHHHHHHHHHHHH
Q psy7859 403 KEIKEVLEDYSQDQ---EKKMILLTGRRVTLAEELKRVKQIQEKLEEFIKAL 451 (455)
Q Consensus 403 ~eik~vLd~~s~d~---~~k~~lltGrrV~LAEeLk~vr~iqekLeef~~~L 451 (455)
+||+++|+....++ .....++.++.-+|.+++..+..+.+.|+.++...
T Consensus 61 ~eI~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~~~~~ 112 (133)
T cd04787 61 KDIKEILSHADQGESPCPMVRRLIEQRLAETERRIKELLKLRDRMQQAVSQW 112 (133)
T ss_pred HHHHHHHhhhccCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46888887664432 34568899999999999999999999998887765
No 7
>cd04783 HTH_MerR1 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator. Helix-turn-helix (HTH) transcription regulator MerR1. MerR1 transcription regulators, such as Tn21 MerR and Tn501 MerR, mediate response to mercury exposure in eubacteria. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines that define a mercury binding site. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=51.36 E-value=33 Score=30.13 Aligned_cols=50 Identities=20% Similarity=0.297 Sum_probs=40.2
Q ss_pred HHHHHHHHhccc-cHHHHhhhhccchhhhHHHHHHHHHHHHHHHHHHHHHh
Q psy7859 403 KEIKEVLEDYSQ-DQEKKMILLTGRRVTLAEELKRVKQIQEKLEEFIKALN 452 (455)
Q Consensus 403 ~eik~vLd~~s~-d~~~k~~lltGrrV~LAEeLk~vr~iqekLeef~~~L~ 452 (455)
++||++|+..+. +...-..++..+.-.|.+++..+..+...|+.++..+.
T Consensus 61 ~eI~~~l~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~l~~~~~~~~ 111 (126)
T cd04783 61 DEIAELLELDDGTDCSEARELAEQKLAEVDEKIADLQRMRASLQELVSQCA 111 (126)
T ss_pred HHHHHHHhcccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 578888876643 34566788999999999999999999999998886553
No 8
>cd01109 HTH_YyaN Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB. Putative helix-turn-helix (HTH) MerR-like transcription regulators of Bacillus subtilis, YyaN and YraB, and related proteins; N-terminal domain. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=49.68 E-value=34 Score=29.48 Aligned_cols=47 Identities=26% Similarity=0.312 Sum_probs=36.2
Q ss_pred HHHHHHHHhcccc---HHHHhhhhccchhhhHHHHHHHHHHHHHHHHHHH
Q psy7859 403 KEIKEVLEDYSQD---QEKKMILLTGRRVTLAEELKRVKQIQEKLEEFIK 449 (455)
Q Consensus 403 ~eik~vLd~~s~d---~~~k~~lltGrrV~LAEeLk~vr~iqekLeef~~ 449 (455)
+||+++|+..... ...-..+|.++...|.++++.+....+.|+..+.
T Consensus 61 ~eI~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~~~ 110 (113)
T cd01109 61 KDIKEYAELRREGDSTIPERLELLEEHREELEEQIAELQETLAYLDYKID 110 (113)
T ss_pred HHHHHHHHHHccCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4777777755332 2456789999999999999999999888887654
No 9
>cd04786 HTH_MerR-like_sg7 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 7) with a conserved cysteine present in the C-terminal portion of the protein. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic su
Probab=47.75 E-value=42 Score=30.19 Aligned_cols=50 Identities=16% Similarity=0.239 Sum_probs=38.7
Q ss_pred HHHHHHHHhcc--ccHHHHhhhhccchhhhHHHHHHHHHHHHHHHHHHHHHh
Q psy7859 403 KEIKEVLEDYS--QDQEKKMILLTGRRVTLAEELKRVKQIQEKLEEFIKALN 452 (455)
Q Consensus 403 ~eik~vLd~~s--~d~~~k~~lltGrrV~LAEeLk~vr~iqekLeef~~~L~ 452 (455)
++|+++|+... .+.+.-..+|..+..++.++++.+..++..|..++..+.
T Consensus 61 ~eI~~ll~~~~~~~~~~~~~~~l~~k~~~i~~~i~~L~~~~~~L~~~i~~~~ 112 (131)
T cd04786 61 DEIRQLLPADASNWQHDELLAALERKVADIEALEARLAQNKAQLLVLIDLIE 112 (131)
T ss_pred HHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 46666676442 234555678899999999999999999999999998775
No 10
>cd01107 HTH_BmrR Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator. Helix-turn-helix (HTH) multidrug-efflux transporter transcription regulator, BmrR and YdfL of Bacillus subtilis, and related proteins; N-terminal domain. Bmr is a membrane protein which causes the efflux of a variety of toxic substances and antibiotics. BmrR is comprised of two distinct domains that harbor a regulatory (effector-binding) site and an active (DNA-binding) site. The conserved N-terminal domain contains a winged HTH motif that mediates DNA binding, while the C-terminal domain binds coactivating, toxic compounds. BmrR shares the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=43.59 E-value=43 Score=28.78 Aligned_cols=45 Identities=29% Similarity=0.447 Sum_probs=37.5
Q ss_pred HHHHHHHHhccccHHHHhhhhccchhhhHHHHHHHHHHHHHHHHHHH
Q psy7859 403 KEIKEVLEDYSQDQEKKMILLTGRRVTLAEELKRVKQIQEKLEEFIK 449 (455)
Q Consensus 403 ~eik~vLd~~s~d~~~k~~lltGrrV~LAEeLk~vr~iqekLeef~~ 449 (455)
++|+.+++..+ .+....++.++.-.|.++++.....++.|+.++.
T Consensus 62 ~~i~~l~~~~~--~~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~l~ 106 (108)
T cd01107 62 EEIKEILDADN--DDELRKLLREKLAELEAEIEELQRILRLLEDRLK 106 (108)
T ss_pred HHHHHHHhcCC--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 46777777655 3788899999999999999999999999988765
No 11
>cd01282 HTH_MerR-like_sg3 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 3). Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=43.20 E-value=41 Score=29.14 Aligned_cols=46 Identities=13% Similarity=0.323 Sum_probs=35.6
Q ss_pred HHHHHHHHhcccc------HHHHhhhhccchhhhHHHHHHHHHHHHHHHHHH
Q psy7859 403 KEIKEVLEDYSQD------QEKKMILLTGRRVTLAEELKRVKQIQEKLEEFI 448 (455)
Q Consensus 403 ~eik~vLd~~s~d------~~~k~~lltGrrV~LAEeLk~vr~iqekLeef~ 448 (455)
++|+++++..... ......++..+...|.+++..+...+..|+.++
T Consensus 60 ~eI~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~l 111 (112)
T cd01282 60 EEIREFLPCLRGGEPTFRPCPDLLAVLRRELARIDRQIADLTRSRDRLDAYL 111 (112)
T ss_pred HHHHHHHHHhhCCCccCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4677777655332 245678999999999999999999999888765
No 12
>cd01106 HTH_TipAL-Mta Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA. Helix-turn-helix (HTH) TipAL, Mta, and SkgA transcription regulators, and related proteins, N-terminal domain. TipAL regulates resistance to and activation by numerous cyclic thiopeptide antibiotics, such as thiostrepton. Mta is a global transcriptional regulator; the N-terminal DNA-binding domain of Mta interacts directly with the promoters of mta, bmr, blt, and ydfK, and induces transcription of these multidrug-efflux transport genes. SkgA has been shown to control stationary-phase expression of catalase-peroxidase in Caulobacter crescentus. These proteins are comprised of distinct domains that harbor an N-terminal active (DNA-binding) site and a regulatory (effector-binding) site. The conserved N-terminal domain of these transcription regulators contains winged HTH motifs that mediate DNA binding. These proteins share the N-terminal DNA binding domain with other transcrip
Probab=42.65 E-value=41 Score=28.45 Aligned_cols=40 Identities=30% Similarity=0.456 Sum_probs=32.0
Q ss_pred HHHHHHHhccccHHHHhhhhccchhhhHHHHHHHHHHHHHHHH
Q psy7859 404 EIKEVLEDYSQDQEKKMILLTGRRVTLAEELKRVKQIQEKLEE 446 (455)
Q Consensus 404 eik~vLd~~s~d~~~k~~lltGrrV~LAEeLk~vr~iqekLee 446 (455)
+|+++++... +.-..++.+++..|.+++.++..+...|++
T Consensus 62 ~i~~~~~~~~---~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~ 101 (103)
T cd01106 62 EIKELLKDPS---EDLLEALREQKELLEEKKERLDKLIKTIDR 101 (103)
T ss_pred HHHHHHHcCc---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5666776554 667788999999999999999888887764
No 13
>PF00466 Ribosomal_L10: Ribosomal protein L10; InterPro: IPR001790 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. On the basis of sequence similarities the following prokaryotic and eukaryotic ribosomal proteins can be grouped: Bacterial 50S ribosomal protein L10; Archaebacterial acidic ribosomal protein P0 homologue (L10E); Eukaryotic 60S ribosomal protein P0 (L10E). This entry represents the ribosomal protein L10P family, with includes the above mentioned ribosomal proteins.; GO: 0042254 ribosome biogenesis, 0005622 intracellular; PDB: 3A1Y_G 3D5D_J 3PYT_I 3PYV_I 3D5B_J 3PYO_I 3PYR_I 3MS1_I 3MRZ_I 1VQ9_G ....
Probab=41.29 E-value=40 Score=28.03 Aligned_cols=66 Identities=18% Similarity=0.246 Sum_probs=50.9
Q ss_pred HHHHHHHHHHHHHhcCC----CCCCCCChhhHHHHHhhhhhCCccCChhhHHHhhHHHHHHHHHHHHHHHHHh--hhccc
Q psy7859 104 KRSYVKSELDKVLQSDT----HHKPVLSPDELTTIRKNLQRSNIDCDADYIKDCWDPVYRHHFLIQSLAKALD--CKKGF 177 (455)
Q Consensus 104 ~r~~i~~ELeklL~~~~----~H~~~L~~DElttVRkNLq~~gveVd~e~IretW~~vYRrHFL~~al~~A~~--CRs~f 177 (455)
....+-+|+.++|...+ -|-..|+..+++.+|+.|+..|+.+ .+|+..-++.|+..... +-+++
T Consensus 5 ~K~~~v~~~~~~l~~~~~v~v~~~~~l~~~~~~~lR~~l~~~~~~~----------~v~KN~l~~~Al~~~~~~~~l~~~ 74 (100)
T PF00466_consen 5 KKEEIVEELKELLKKSKYVIVVDYNGLSANQLQELRKELRKKGGKF----------KVVKNTLMKKALKNTGFEEALSPL 74 (100)
T ss_dssp HHHHHHHHHHHHHHCSSEEEEEECTTSCHHHHHHHHHHHHHHTEEE----------EECSHHHHHHHHHHHHTSSSSSCC
T ss_pred HHHHHHHHHHHHHHhCCEEEEEEeCCCCHHHHHHHHHHHHhcCcEE----------EEecHHHHHHHHhcCccccCcccc
Confidence 34567789999999887 5667999999999999999988765 56777777777777654 45555
Q ss_pred cc
Q psy7859 178 YM 179 (455)
Q Consensus 178 fk 179 (455)
+.
T Consensus 75 l~ 76 (100)
T PF00466_consen 75 LK 76 (100)
T ss_dssp TS
T ss_pred cc
Confidence 53
No 14
>PF02083 Urotensin_II: Urotensin II; InterPro: IPR001483 Urotensin II, a small peptide that contains a disulphide bridge, was originally isolated from the caudal portion of the spinal cord of teleost and elasmobranch fish []. The peptide has also been found in the brain of frogs []. Urotensin II seems to be involved in smooth muscle stimulation.; GO: 0005179 hormone activity, 0005576 extracellular region
Probab=40.60 E-value=9.7 Score=22.19 Aligned_cols=7 Identities=86% Similarity=1.972 Sum_probs=5.5
Q ss_pred HHHHHHH
Q psy7859 198 SECFWKM 204 (455)
Q Consensus 198 s~~FWrm 204 (455)
++||||-
T Consensus 4 ~~CFWKY 10 (12)
T PF02083_consen 4 SECFWKY 10 (12)
T ss_pred cchhhhh
Confidence 5799984
No 15
>KOG2069|consensus
Probab=37.31 E-value=2.5e+02 Score=31.89 Aligned_cols=118 Identities=20% Similarity=0.271 Sum_probs=85.1
Q ss_pred hhHHHHHHHHHHHHHHHHHhhhcCCCCchhhHHHHHHHHHHHH-------h--hcCCCCCCCchHHHHHHHHHHHHHhHH
Q psy7859 317 QSIEAGWEVLKAEFVNFFEKEKNSKDHDGIFDNLKAAVIEEAL-------R--RHSWEHKDCCDVVLFWRIQQMLKVTSN 387 (455)
Q Consensus 317 ~sve~gwetL~~eF~~~l~~~k~~~d~d~ifd~Lk~aV~~e~~-------~--rh~W~~~~C~dVvlFwRiq~ml~~T~n 387 (455)
.||+.|.=-.--+|+......+..-++-|+++.+-..|..-.. . +---.=..|--||.|=| +|+..|.|
T Consensus 139 ~cir~~~~~ealel~a~~~RL~~~~~~~pvi~~i~~~v~~tv~~ll~qL~~~l~~pl~l~~cirvv~ylr--~~~~~t~~ 216 (581)
T KOG2069|consen 139 RCIRNGYYDEALELAAYASRLKQRFGTIPVIQEIATEVEQTVQKLLEQLIQQLRTPLQLPECIRVVGYLR--RMAVLTEN 216 (581)
T ss_pred HHHHhhhhhhHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHH--HHHHhhhh
Confidence 7999998888889988888765444455777777666554331 1 11111128999998755 68899999
Q ss_pred HHHHHHHhHHHHHHHHHHHHHHHhcccc--HHHHhhhhccchhhhHHHHHHHHHH
Q psy7859 388 ALRQQIMNREARRLDKEIKEVLEDYSQD--QEKKMILLTGRRVTLAEELKRVKQI 440 (455)
Q Consensus 388 ~LRqqi~n~e~rrLe~eik~vLd~~s~d--~~~k~~lltGrrV~LAEeLk~vr~i 440 (455)
.||-+.+..+..-|++ +|.+++.+ ..--+++|+-=||.+=-=+-+.|-|
T Consensus 217 ~LRl~fl~~rd~~l~k----~l~~I~~~~~~~~l~~~i~~~r~~lf~~i~qY~ai 267 (581)
T KOG2069|consen 217 QLRLKFLQARDAWLEK----ILEDISTNNPYLYLKKTIEIIRVNLFDIITQYLAV 267 (581)
T ss_pred hHHHHHHHHHHHHHHH----HHHhcccccHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 9999999998888888 89999887 6677778877777765555555444
No 16
>COG0244 RplJ Ribosomal protein L10 [Translation, ribosomal structure and biogenesis]
Probab=37.25 E-value=48 Score=31.39 Aligned_cols=67 Identities=18% Similarity=0.247 Sum_probs=53.7
Q ss_pred HHHHHHHHHHHHHhcCC----CCCCCCChhhHHHHHhhhhhCCccCChhhHHHhhHHHHHHHHHHHHHHHHH-hhhcccc
Q psy7859 104 KRSYVKSELDKVLQSDT----HHKPVLSPDELTTIRKNLQRSNIDCDADYIKDCWDPVYRHHFLIQSLAKAL-DCKKGFY 178 (455)
Q Consensus 104 ~r~~i~~ELeklL~~~~----~H~~~L~~DElttVRkNLq~~gveVd~e~IretW~~vYRrHFL~~al~~A~-~CRs~ff 178 (455)
....+-+||..+++..+ =|-..|+..++|.+|+.|...|.++ -|+|.--+.+|+..+. +|...++
T Consensus 7 ~K~~~v~el~e~~~~s~~~~i~dy~Gl~~~ql~~lR~~lr~~g~~l----------kV~KNtL~~rAl~~~~~e~l~~~l 76 (175)
T COG0244 7 WKKELVAELKELIKESPSVVIVDYRGLTVAQLTELRKKLREAGAKL----------KVVKNTLLRRALEEAGLEGLDDLL 76 (175)
T ss_pred HHHHHHHHHHHHHhhCCEEEEEEeCCCcHHHHHHHHHHHHhCCcEE----------EEEhhHHHHHHHHhcchhhHHHhc
Confidence 45566799999999998 4666999999999999999888875 5788888999998775 4555565
Q ss_pred cC
Q psy7859 179 MD 180 (455)
Q Consensus 179 k~ 180 (455)
..
T Consensus 77 ~G 78 (175)
T COG0244 77 KG 78 (175)
T ss_pred cC
Confidence 44
No 17
>PF15079 DUF4546: Domain of unknown function (DUF4546)
Probab=36.52 E-value=75 Score=31.07 Aligned_cols=37 Identities=38% Similarity=0.663 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHhccccHHHHhhhhccchhhhHHHHHHHHHH----HHHHHHHHHHH
Q psy7859 400 RLDKEIKEVLEDYSQDQEKKMILLTGRRVTLAEELKRVKQI----QEKLEEFIKAL 451 (455)
Q Consensus 400 rLe~eik~vLd~~s~d~~~k~~lltGrrV~LAEeLk~vr~i----qekLeef~~~L 451 (455)
.|-+|++||=+++- +--||||++..| ..||+||++-+
T Consensus 51 eLkNeLREVREELk---------------EKmeEIKQIKdiMDKDFDKL~EFVEIM 91 (205)
T PF15079_consen 51 ELKNELREVREELK---------------EKMEEIKQIKDIMDKDFDKLHEFVEIM 91 (205)
T ss_pred HHHHHHHHHHHHHH---------------HHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence 46677777766654 235788888888 56899998754
No 18
>TIGR02051 MerR Hg(II)-responsive transcriptional regulator. This model represents the mercury (II) responsive transcriptional activator of the mer organomercurial resistance operon. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X(8)-Cys-Pro, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=35.02 E-value=83 Score=27.76 Aligned_cols=50 Identities=16% Similarity=0.201 Sum_probs=38.3
Q ss_pred HHHHHHHHhccc-cHHHHhhhhccchhhhHHHHHHHHHHHHHHHHHHHHHh
Q psy7859 403 KEIKEVLEDYSQ-DQEKKMILLTGRRVTLAEELKRVKQIQEKLEEFIKALN 452 (455)
Q Consensus 403 ~eik~vLd~~s~-d~~~k~~lltGrrV~LAEeLk~vr~iqekLeef~~~L~ 452 (455)
+|||++|+.... +......++..+...|-+++..+..++..|++++....
T Consensus 60 ~eI~~~l~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~~~~ 110 (124)
T TIGR02051 60 EEIGGLLGLVDGTHCREMYELASRKLKSVQAKMADLLRIERLLEELLEQCP 110 (124)
T ss_pred HHHHHHHhcccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 467777765542 33556788999999999999999999999998876653
No 19
>cd04784 HTH_CadR-PbrR Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators. Helix-turn-helix (HTH) CadR and PbrR transcription regulators including Pseudomonas aeruginosa CadR and Ralstonia metallidurans PbrR that regulate expression of the cadmium and lead resistance operons, respectively. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines which form a putative metal binding site. Some members in this group have a histidine-rich C-terminal extension. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=34.83 E-value=91 Score=27.38 Aligned_cols=50 Identities=10% Similarity=0.228 Sum_probs=37.8
Q ss_pred HHHHHHHHhccc---cHHHHhhhhccchhhhHHHHHHHHHHHHHHHHHHHHHh
Q psy7859 403 KEIKEVLEDYSQ---DQEKKMILLTGRRVTLAEELKRVKQIQEKLEEFIKALN 452 (455)
Q Consensus 403 ~eik~vLd~~s~---d~~~k~~lltGrrV~LAEeLk~vr~iqekLeef~~~L~ 452 (455)
+|||++|+...+ +.+.-..++.++.-+|-+++..+..++..|+.++..+.
T Consensus 61 ~eI~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~~~~ 113 (127)
T cd04784 61 DEIRTLLQLQDDPEASCAEVNALIDEHLAHVRARIAELQALEKQLQALRERCD 113 (127)
T ss_pred HHHHHHHHhhhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 367777764422 23456788899999999999999999999988887654
No 20
>PF09226 Endonuc-HincII: Restriction endonuclease HincII; InterPro: IPR015307 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type II restriction endonucleases (3.1.21.4 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. These site-specific deoxyribonucleases catalyse the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. Of the 3000 restriction endonucleases that have been characterised, most are homodimeric or tetrameric enzymes that cleave target DNA at sequence-specific sites close to the recognition site. For homodimeric enzymes, the recognition site is usually a palindromic sequence 4-8 bp in length. Most enzymes require magnesium ions as a cofactor for catalysis. Although they can vary in their mode of recognition, many restriction endonucleases share a similar structural core comprising four beta-strands and one alpha-helix, as well as a similar mechanism of cleavage, suggesting a common ancestral origin []. However, there is still considerable diversity amongst restriction endonucleases [, ]. The target site recognition process triggers large conformational changes of the enzyme and the target DNA, leading to the activation of the catalytic centres. Like other DNA binding proteins, restriction enzymes are capable of non-specific DNA binding as well, which is the prerequisite for efficient target site location by facilitated diffusion. Non-specific binding usually does not involve interactions with the bases but only with the DNA backbone []. This entry represents the prokaryotic restriction endonuclease HincII, which recognises the double-stranded sequence 5'-GTYRAC-3' and cleave after Y-3 []. ; GO: 0003677 DNA binding, 0009036 Type II site-specific deoxyribonuclease activity, 0009307 DNA restriction-modification system; PDB: 3E41_A 3E40_A 1XHU_C 1KC6_D 3E3Y_A 2GIJ_A 3E45_A 3EBC_B 3E44_B 1XHV_B ....
Probab=32.08 E-value=38 Score=33.74 Aligned_cols=34 Identities=32% Similarity=0.556 Sum_probs=26.1
Q ss_pred cCChhhH--HHhhHHHHHHHHHHHHHHHHHhhhccc
Q psy7859 144 DCDADYI--KDCWDPVYRHHFLIQSLAKALDCKKGF 177 (455)
Q Consensus 144 eVd~e~I--retW~~vYRrHFL~~al~~A~~CRs~f 177 (455)
++|-.++ ++.|...|-+||+.+|-.+|.+-.-+|
T Consensus 213 dldQ~F~Gt~~eWa~~YlKHFV~qA~~Ra~~Mi~kF 248 (257)
T PF09226_consen 213 DLDQTFKGTKEEWAYAYLKHFVAQAKKRASDMITKF 248 (257)
T ss_dssp GS-----S-HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhhhhccCcHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555544 789999999999999999999988766
No 21
>cd04785 HTH_CadR-PbrR-like Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators. Helix-turn-helix (HTH) CadR- and PbrR-like transcription regulators. CadR and PbrR regulate expression of the cadmium and lead resistance operons, respectively. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines which comprise a putative metal binding site. Some members in this group have a histidine-rich C-terminal extension. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=31.76 E-value=1e+02 Score=27.22 Aligned_cols=48 Identities=10% Similarity=0.256 Sum_probs=36.7
Q ss_pred HHHHHHHHhcc---ccHHHHhhhhccchhhhHHHHHHHHHHHHHHHHHHHH
Q psy7859 403 KEIKEVLEDYS---QDQEKKMILLTGRRVTLAEELKRVKQIQEKLEEFIKA 450 (455)
Q Consensus 403 ~eik~vLd~~s---~d~~~k~~lltGrrV~LAEeLk~vr~iqekLeef~~~ 450 (455)
++||++|+-.. .+......++..+.-+|.+++..+..+...|+.++..
T Consensus 61 ~eI~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~~ 111 (126)
T cd04785 61 EEIRALLALSDRPDRSCAEADAIARAHLADVRARIADLRRLEAELKRMVAA 111 (126)
T ss_pred HHHHHHHhhhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45777776442 2345567889999999999999999999999888754
No 22
>PF05400 FliT: Flagellar protein FliT; InterPro: IPR008622 This entry represents the bacterial flagellar FliT family of dual-function proteins. Together with FlgN, FliT has been proposed to act as a substrate-specific export chaperone, facilitating the incorporation of the enterobacterial hook-associated axial proteins (HAPs) FlgK/FlgL and FliD into the growing flagellum []. FliT has also been shown to act as a transcriptional regulator in Salmonella typhimurium [].; GO: 0019861 flagellum; PDB: 3A7M_A 3H3M_B 3NKZ_C 2G42_A 2FZT_B.
Probab=31.18 E-value=48 Score=26.10 Aligned_cols=41 Identities=24% Similarity=0.383 Sum_probs=33.4
Q ss_pred HHHHHHHHHHhccccHHHHhhhhccchhhhHHHHHHHHHHH
Q psy7859 401 LDKEIKEVLEDYSQDQEKKMILLTGRRVTLAEELKRVKQIQ 441 (455)
Q Consensus 401 Le~eik~vLd~~s~d~~~k~~lltGrrV~LAEeLk~vr~iq 441 (455)
...++++.|..+-.....-..++.+++-+|+.+|..+++=.
T Consensus 38 ~~~~~~~~l~~Il~~d~~i~~ll~~~~~~l~~~l~~~~~~~ 78 (84)
T PF05400_consen 38 EQEELRELLRRILELDQEIRALLQARRDELKQELRQLRKGR 78 (84)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHH
T ss_pred hHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55667777777777778889999999999999998887644
No 23
>PRK00099 rplJ 50S ribosomal protein L10; Reviewed
Probab=30.91 E-value=69 Score=29.65 Aligned_cols=66 Identities=15% Similarity=0.249 Sum_probs=49.3
Q ss_pred HHHHHHHHHHHHHhcCC----CCCCCCChhhHHHHHhhhhhCCccCChhhHHHhhHHHHHHHHHHHHHHHHH-hhhcccc
Q psy7859 104 KRSYVKSELDKVLQSDT----HHKPVLSPDELTTIRKNLQRSNIDCDADYIKDCWDPVYRHHFLIQSLAKAL-DCKKGFY 178 (455)
Q Consensus 104 ~r~~i~~ELeklL~~~~----~H~~~L~~DElttVRkNLq~~gveVd~e~IretW~~vYRrHFL~~al~~A~-~CRs~ff 178 (455)
....+-++|..+|...+ -|-..|+..+++.+|+.|...|+.+ .|++.--++.|+..+. +|-++++
T Consensus 5 ~K~~~v~~l~~~l~~~~~v~v~~~~gl~~~~~~~lR~~lr~~~~~~----------~V~KNtL~~~Al~~~~~~~l~~~l 74 (172)
T PRK00099 5 EKKEIVAELAEKLKKAQSAVVADYRGLTVAQMTELRKKLREAGVEY----------KVVKNTLARRALEGTGFEGLDDLL 74 (172)
T ss_pred HHHHHHHHHHHHHHhCCEEEEEecCCCcHHHHHHHHHHHHHcCCEE----------EEehhHHHHHHHhcCCchhhhhhC
Confidence 45566789999999887 4455899999999999999887653 4677777788887753 3555555
Q ss_pred c
Q psy7859 179 M 179 (455)
Q Consensus 179 k 179 (455)
.
T Consensus 75 ~ 75 (172)
T PRK00099 75 K 75 (172)
T ss_pred c
Confidence 3
No 24
>cd01108 HTH_CueR Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators. Helix-turn-helix (HTH) transcription regulators CueR and ActP, copper efflux regulators. In Bacillus subtilis, copper induced CueR regulates the copZA operon, preventing copper toxicity. In Rhizobium leguminosarum, ActP controls copper homeostasis; it detects cytoplasmic copper stress and activates transcription in response to increasing copper concentrations. These proteins are comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain winged HTH motifs that mediate DNA binding, while the C-terminal domains have two conserved cysteines that define a monovalent copper ion binding site. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements
Probab=29.20 E-value=1e+02 Score=27.30 Aligned_cols=49 Identities=14% Similarity=0.286 Sum_probs=36.2
Q ss_pred HHHHHHHHhccc---cHHHHhhhhccchhhhHHHHHHHHHHHHHHHHHHHHH
Q psy7859 403 KEIKEVLEDYSQ---DQEKKMILLTGRRVTLAEELKRVKQIQEKLEEFIKAL 451 (455)
Q Consensus 403 ~eik~vLd~~s~---d~~~k~~lltGrrV~LAEeLk~vr~iqekLeef~~~L 451 (455)
++|+++|+...+ +......++..+.-+|.+++..+..+...|+.++...
T Consensus 61 ~eI~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~l~~~~~~~ 112 (127)
T cd01108 61 EEIRELLALWRDPSRASADVKALALEHIAELERKIAELQAMRRTLQQLADSC 112 (127)
T ss_pred HHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 456666664432 2355567899999999999999999999998887643
No 25
>TIGR02044 CueR Cu(I)-responsive transcriptional regulator. This model represents the copper-, silver- and gold- (I) responsive transcriptional activator of the gamma proteobacterial copper efflux system. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X7-Cys. This family also lacks a conserved cysteine at the N-terminal end of the dimerization helix which is required for the binding of divalent metals such as zinc; here it is replaced by a serine residue.
Probab=28.97 E-value=1.2e+02 Score=26.67 Aligned_cols=49 Identities=14% Similarity=0.285 Sum_probs=36.2
Q ss_pred HHHHHHHHhccc---cHHHHhhhhccchhhhHHHHHHHHHHHHHHHHHHHHH
Q psy7859 403 KEIKEVLEDYSQ---DQEKKMILLTGRRVTLAEELKRVKQIQEKLEEFIKAL 451 (455)
Q Consensus 403 ~eik~vLd~~s~---d~~~k~~lltGrrV~LAEeLk~vr~iqekLeef~~~L 451 (455)
++|+++|+.+.+ +......++..++-+|-+++..+..+.+.|+.++...
T Consensus 61 ~eI~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~~~ 112 (127)
T TIGR02044 61 EECKELLNLWNDPNRTSADVKARTLEKVAEIERKISELQSMRDQLEALAQAC 112 (127)
T ss_pred HHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 467777764422 2344567788889999999999999999999887643
No 26
>TIGR02047 CadR-PbrR Cd(II)/Pb(II)-responsive transcriptional regulator. This model represents the cadmium(II) and/or lead(II) responsive transcriptional activator of the proteobacterial metal efflux system. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X(6-9)-Cys, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=28.36 E-value=1.1e+02 Score=27.25 Aligned_cols=49 Identities=14% Similarity=0.190 Sum_probs=36.2
Q ss_pred HHHHHHHHhcccc---HHHHhhhhccchhhhHHHHHHHHHHHHHHHHHHHHH
Q psy7859 403 KEIKEVLEDYSQD---QEKKMILLTGRRVTLAEELKRVKQIQEKLEEFIKAL 451 (455)
Q Consensus 403 ~eik~vLd~~s~d---~~~k~~lltGrrV~LAEeLk~vr~iqekLeef~~~L 451 (455)
++||++|+...+. ...-..+|..+.-+|-+++..+..+...|+.++...
T Consensus 61 ~eI~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~~~ 112 (127)
T TIGR02047 61 AEIRQLLRYQDKPEKSCSDVNALLDEHISHVRARIIKLQALIEQLVDLRGRC 112 (127)
T ss_pred HHHHHHHHhhhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4677777643221 245567889999999999999999999999887643
No 27
>PF09006 Surfac_D-trimer: Lung surfactant protein D coiled-coil trimerisation; InterPro: IPR015097 This domain is found in the SFTPD family, which includes lung surfactant protein D (SFTPD), conglutinin, collectin-43 and collectin-46. It forms a triple-helical parallel coiled coil, and mediates trimerisation of the protein []. ; PDB: 4DN8_A 3G84_A 2RIE_C 3IKR_B 1B08_A 2GGX_B 2OS9_C 2ORK_B 1PWB_A 2RIA_C ....
Probab=26.86 E-value=1.3e+02 Score=23.51 Aligned_cols=32 Identities=38% Similarity=0.478 Sum_probs=23.9
Q ss_pred HHHHHHHHHhHHHHHHHHHHHHHHHhccccHHHHhhhhc
Q psy7859 386 SNALRQQIMNREARRLDKEIKEVLEDYSQDQEKKMILLT 424 (455)
Q Consensus 386 ~n~LRqqi~n~e~rrLe~eik~vLd~~s~d~~~k~~llt 424 (455)
.|+||||+. -|+.+|+..-..+| .-+|..|.-
T Consensus 1 i~aLrqQv~-----aL~~qv~~Lq~~fs--~yKKa~lFp 32 (46)
T PF09006_consen 1 INALRQQVE-----ALQGQVQRLQAAFS--QYKKAELFP 32 (46)
T ss_dssp HHHHHHHHH-----HHHHHHHHHHHHHH--HHHHHHHTT
T ss_pred ChHHHHHHH-----HHHHHHHHHHHHHH--HHHHHHHCC
Confidence 379999964 37788888888888 667777653
No 28
>TIGR02865 spore_II_E stage II sporulation protein E. Stage II sporulation protein E (SpoIIE) is a multiple membrane spanning protein with two separable functions. It plays a role in the switch to polar cell division during sporulation. By means of it protein phosphatase activity, located in the C-terminal region, it activates sigma-F. All proteins that score above the trusted cutoff to this model are found in endospore-forming Gram-positive bacteria. Surprisingly, a sequence from the Cyanobacterium-like (and presumably non-spore-forming) photosynthesizer Heliobacillus mobilis is homologous, and scores between the trusted and noise cutoffs.
Probab=26.79 E-value=2.1e+02 Score=33.06 Aligned_cols=98 Identities=18% Similarity=0.296 Sum_probs=64.8
Q ss_pred CCchhhHHHHHHHHHHHH-hhcCCCCCCCchHHHHHHHHHHHHHhHH---HHHHHHHhHH--HHHHHHHHHHHHHhcccc
Q psy7859 342 DHDGIFDNLKAAVIEEAL-RRHSWEHKDCCDVVLFWRIQQMLKVTSN---ALRQQIMNRE--ARRLDKEIKEVLEDYSQD 415 (455)
Q Consensus 342 d~d~ifd~Lk~aV~~e~~-~rh~W~~~~C~dVvlFwRiq~ml~~T~n---~LRqqi~n~e--~rrLe~eik~vLd~~s~d 415 (455)
+-+.+|+.+.+.|=.-|- +++=|+..-.+.--.|..+-+.++-..+ .+.+++..+= ..++-+++.+.++.+..+
T Consensus 345 ~~~~~~~~v~~~vC~~C~~~~~CW~~~~~~Ty~~~~~l~~~~e~~~~~~~~~p~~~~~~C~r~~~~~~~~~~~~~~~~~n 424 (764)
T TIGR02865 345 KSSYLLENLAERVCQSCNMKHRCWKREFDYTYSAMEELIENLEEKKDPNSKLPDEFERKCIKRKELINTTEDILNNYIIN 424 (764)
T ss_pred hHHHHHHHHhhchhhCCCCCchhhCcchHHHHHHHHHHHHHHHhcCCchhhhhHHHHHhCCCHHHHHHHHHHHHHHHHHH
Confidence 446677777777777664 4677877655555555555555554444 3444333221 235778899999999999
Q ss_pred HHHHhhhhccchhhhHHHHHHHHHH
Q psy7859 416 QEKKMILLTGRRVTLAEELKRVKQI 440 (455)
Q Consensus 416 ~~~k~~lltGrrV~LAEeLk~vr~i 440 (455)
..-|.++.-+|++ +||+|+-+-.|
T Consensus 425 ~~w~~rl~e~R~~-va~Ql~~~s~~ 448 (764)
T TIGR02865 425 EMWRKRLEEGRRL-VAEQLKGVAES 448 (764)
T ss_pred HHHHHHHHHHHHH-HHHHHHHHHHH
Confidence 9999999999886 56666555444
No 29
>TIGR01950 SoxR redox-sensitive transcriptional activator SoxR. SoxR is a MerR-family homodimeric transcription factor with a 2Fe-2S cluster in each monomer. The motif CIGCGCxxxxxC is conserved. Oxidation of the iron-sulfur cluster activates SoxR. The physiological role in E. coli is response to oxidative stress. It is activated by superoxide, singlet oxygen, nitric oxide (NO), and hydrogen peroxide. In E. coli, SoxR increases expression of transcription factor SoxS; different downstream targets may exist in other species.
Probab=24.35 E-value=1.5e+02 Score=27.11 Aligned_cols=46 Identities=20% Similarity=0.299 Sum_probs=35.2
Q ss_pred HHHHHHHhccc----cHHHHhhhhccchhhhHHHHHHHHHHHHHHHHHHH
Q psy7859 404 EIKEVLEDYSQ----DQEKKMILLTGRRVTLAEELKRVKQIQEKLEEFIK 449 (455)
Q Consensus 404 eik~vLd~~s~----d~~~k~~lltGrrV~LAEeLk~vr~iqekLeef~~ 449 (455)
+|+++|..+.. .......++..+...|.++++.+-.++..|+..+.
T Consensus 62 eI~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~ki~~L~~~~~~L~~~~~ 111 (142)
T TIGR01950 62 TIGEALAVLPEGRTPTADDWARLSSQWREELDERIDQLNALRDQLDGCIG 111 (142)
T ss_pred HHHHHHHhcccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 57777765432 23455678888899999999999999999998876
No 30
>PF04799 Fzo_mitofusin: fzo-like conserved region; InterPro: IPR006884 This entry represents the heptad repeat domain which is conserved at the C terminus of Fzo/mitofusion family of GTPases. Fzo is a mediator of mitochondrial fusion during spermatogenesis []. This conserved region is also found in the human mitofusin protein []. This domain forms a dimeric antiparallel coiled coil structure, which has been proposed to act as a mitochodrial tether before vesicle fusion [].; GO: 0003924 GTPase activity, 0006184 GTP catabolic process, 0008053 mitochondrial fusion, 0005741 mitochondrial outer membrane, 0016021 integral to membrane; PDB: 1T3J_A.
Probab=24.22 E-value=1.8e+02 Score=28.11 Aligned_cols=64 Identities=28% Similarity=0.377 Sum_probs=35.1
Q ss_pred CCchHHHHHHHHHHHHHhHHHHHHHHHhHHHHHHHHHHHHHHHhccc--cHHHHhhhhccchhhhHHHHHHH
Q psy7859 368 DCCDVVLFWRIQQMLKVTSNALRQQIMNREARRLDKEIKEVLEDYSQ--DQEKKMILLTGRRVTLAEELKRV 437 (455)
Q Consensus 368 ~C~dVvlFwRiq~ml~~T~n~LRqqi~n~e~rrLe~eik~vLd~~s~--d~~~k~~lltGrrV~LAEeLk~v 437 (455)
.|+.- ||+=|..|-.-|.+|+=.. .+.|+.||++.-+++.. +-..+-+.|.++-..|.-||...
T Consensus 98 ncs~Q-----VqqeL~~tf~rL~~~Vd~~-~~eL~~eI~~L~~~i~~le~~~~~~k~LrnKa~~L~~eL~~F 163 (171)
T PF04799_consen 98 NCSHQ-----VQQELSSTFARLCQQVDQT-KNELEDEIKQLEKEIQRLEEIQSKSKTLRNKANWLESELERF 163 (171)
T ss_dssp -----------------HHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred chHHH-----HHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 78864 5888888999999988666 56677777766555532 23456677777777777666544
No 31
>KOG3915|consensus
Probab=23.89 E-value=3.3e+02 Score=30.66 Aligned_cols=73 Identities=32% Similarity=0.383 Sum_probs=46.9
Q ss_pred chHHHHHHHHHHHHHhHHHHHHHH--HhHHHHHH------HHHHHHHHHhccccHHHHhhhhccchhhhHHHHHHHHHHH
Q psy7859 370 CDVVLFWRIQQMLKVTSNALRQQI--MNREARRL------DKEIKEVLEDYSQDQEKKMILLTGRRVTLAEELKRVKQIQ 441 (455)
Q Consensus 370 ~dVvlFwRiq~ml~~T~n~LRqqi--~n~e~rrL------e~eik~vLd~~s~d~~~k~~lltGrrV~LAEeLk~vr~iq 441 (455)
+--.|.-.||-||++..-.-|+|= +..|...| |+|||+.|+-.-.++-+-+.++.-| |-.|=|.-|..|
T Consensus 500 S~eTll~niq~llkva~dnar~qekQiq~Ek~ELkmd~lrerelreslekql~~ErklR~~~qkr---~kkEkk~k~k~q 576 (641)
T KOG3915|consen 500 SIETLLTNIQGLLKVAIDNARAQEKQIQLEKTELKMDFLRERELRESLEKQLAMERKLRAIVQKR---LKKEKKAKRKLQ 576 (641)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHH
Confidence 334677899999999999999863 34555544 6788888887766665554444322 223445555556
Q ss_pred HHHH
Q psy7859 442 EKLE 445 (455)
Q Consensus 442 ekLe 445 (455)
+.|+
T Consensus 577 e~L~ 580 (641)
T KOG3915|consen 577 EALE 580 (641)
T ss_pred HHhh
Confidence 6554
No 32
>PF13270 DUF4061: Domain of unknown function (DUF4061)
Probab=23.69 E-value=2.4e+02 Score=24.53 Aligned_cols=49 Identities=22% Similarity=0.375 Sum_probs=36.1
Q ss_pred HHHHHHHHHHHHHHhccccHHHHhhhhccchhhhHHHHHHHHHHHHHHHHHHHH
Q psy7859 397 EARRLDKEIKEVLEDYSQDQEKKMILLTGRRVTLAEELKRVKQIQEKLEEFIKA 450 (455)
Q Consensus 397 e~rrLe~eik~vLd~~s~d~~~k~~lltGrrV~LAEeLk~vr~iqekLeef~~~ 450 (455)
++|+.|+.+-.+|+||- ..+.+.+=.|- =-|.+.+||.-||+|-.+--.
T Consensus 3 dv~~mE~~Ll~Ll~dF~--sGkl~aFG~~c---s~eqM~~IReqQE~LarlHfe 51 (90)
T PF13270_consen 3 DVRHMEKGLLQLLEDFH--SGKLQAFGKEC---SMEQMTKIREQQEKLARLHFE 51 (90)
T ss_pred hHHHHHHHHHHHHHHHh--hhHHHHcCCCC---cHHHHHHHHHHHHHHHHHHHH
Confidence 68999999999999996 34444433322 268999999999999765433
No 33
>PRK09514 zntR zinc-responsive transcriptional regulator; Provisional
Probab=22.79 E-value=1.8e+02 Score=26.29 Aligned_cols=49 Identities=12% Similarity=0.228 Sum_probs=35.9
Q ss_pred HHHHHHHHhcc----ccHHHHhhhhccchhhhHHHHHHHHHHHHHHHHHHHHH
Q psy7859 403 KEIKEVLEDYS----QDQEKKMILLTGRRVTLAEELKRVKQIQEKLEEFIKAL 451 (455)
Q Consensus 403 ~eik~vLd~~s----~d~~~k~~lltGrrV~LAEeLk~vr~iqekLeef~~~L 451 (455)
++|+++|+... .+......++..+.-+|.+++..+..++..|+.++...
T Consensus 62 ~eI~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~~~ 114 (140)
T PRK09514 62 EEIRELLSIRLDPEHHTCQEVKGIVDEKLAEVEAKIAELQHMRRSLQRLNDAC 114 (140)
T ss_pred HHHHHHHHhcccCCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 46777776442 23455677888888889999999999888888887654
No 34
>PF06705 SF-assemblin: SF-assemblin/beta giardin
Probab=22.74 E-value=4.4e+02 Score=25.83 Aligned_cols=80 Identities=11% Similarity=0.220 Sum_probs=47.5
Q ss_pred HHHHHHHHHHHhHHHHHHHHHhHHHHHHHHHHHHHHHhccccHHHHhhhhccchhhhHHHHHH-HHHHHHHHHHHHHHHh
Q psy7859 374 LFWRIQQMLKVTSNALRQQIMNREARRLDKEIKEVLEDYSQDQEKKMILLTGRRVTLAEELKR-VKQIQEKLEEFIKALN 452 (455)
Q Consensus 374 lFwRiq~ml~~T~n~LRqqi~n~e~rrLe~eik~vLd~~s~d~~~k~~lltGrrV~LAEeLk~-vr~iqekLeef~~~L~ 452 (455)
.+--||+++....+.+...+-+. .......++..|+.+..+=..-...|.--+.++-..+.. -..+...|.+|..+++
T Consensus 60 ~~~~lq~~~e~~i~~~~~~v~~~-~~~~~~~~~~~l~~L~~ri~~L~~~i~ee~~~r~~~ie~~~~~l~~~l~~l~~~~~ 138 (247)
T PF06705_consen 60 SNKKLQSKFEEQINNMQERVENQ-ISEKQEQLQSRLDSLNDRIEALEEEIQEEKEERPQDIEELNQELVRELNELQEAFE 138 (247)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 45567788888888887665554 555666777777777655444444444444444444432 2345666667766666
Q ss_pred hc
Q psy7859 453 TE 454 (455)
Q Consensus 453 ~e 454 (455)
.|
T Consensus 139 ~E 140 (247)
T PF06705_consen 139 NE 140 (247)
T ss_pred HH
Confidence 55
No 35
>cd05797 Ribosomal_L10 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein and forms the base of the L7/L12 stalk, while the extended C-terminal helix binds to two or three dimers of the NTD of L7/L12 (L7 and L12 are identical except for an acetylated N-terminus). The L7/L12 stalk is known to contain the binding site for elongation factors G and Tu (EF-G and EF-Tu, respectively); however, there is disagreement as to whether or not L10 is involved in forming the binding site. The stalk is believed to be associated with GTPase activities in protein synthesis. In a neuroblastoma cell line, L10 has been shown to interact with the SH3 domain of Src and to activate the binding of the Nck1 adaptor protein with skeletal proteins such as the Wiskott-Aldrich Syndrome Protein (WASP) and the WASP-in
Probab=22.70 E-value=1.2e+02 Score=27.39 Aligned_cols=66 Identities=18% Similarity=0.250 Sum_probs=48.8
Q ss_pred HHHHHHHHHHHHHhcCC----CCCCCCChhhHHHHHhhhhhCCccCChhhHHHhhHHHHHHHHHHHHHHHHH-hhhcccc
Q psy7859 104 KRSYVKSELDKVLQSDT----HHKPVLSPDELTTIRKNLQRSNIDCDADYIKDCWDPVYRHHFLIQSLAKAL-DCKKGFY 178 (455)
Q Consensus 104 ~r~~i~~ELeklL~~~~----~H~~~L~~DElttVRkNLq~~gveVd~e~IretW~~vYRrHFL~~al~~A~-~CRs~ff 178 (455)
....+-+||..+|...+ -|-..|+..+++.+|+.|...|+++ .||+.--++.|+..+. +|-..++
T Consensus 4 ~K~~~v~~l~~~l~~~~~v~v~~~~gl~~~~~~~lR~~lr~~~~~~----------~V~KNtL~~~Al~~t~~~~l~~~l 73 (157)
T cd05797 4 KKEEIVAELKEKLKEAKSVVVADYRGLTVAQLTELRKELREAGVKL----------KVVKNTLAKRALEGTGFEDLDDLL 73 (157)
T ss_pred HHHHHHHHHHHHHHhCCEEEEEecCCCcHHHHHHHHHHHHHcCCEE----------EEehhHHHHHHHhcCCchhhHhhC
Confidence 34566789999999887 5566999999999999999988653 4566777777777654 3444444
Q ss_pred c
Q psy7859 179 M 179 (455)
Q Consensus 179 k 179 (455)
.
T Consensus 74 ~ 74 (157)
T cd05797 74 K 74 (157)
T ss_pred c
Confidence 3
No 36
>TIGR02043 ZntR Zn(II)-responsive transcriptional regulator. This model represents the zinc and cadmium (II) responsive transcriptional activator of the gamma proteobacterial zinc efflux system. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-Cys-X(8-9)-Cys, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=22.68 E-value=2e+02 Score=25.59 Aligned_cols=49 Identities=18% Similarity=0.269 Sum_probs=36.6
Q ss_pred HHHHHHHHhccc----cHHHHhhhhccchhhhHHHHHHHHHHHHHHHHHHHHH
Q psy7859 403 KEIKEVLEDYSQ----DQEKKMILLTGRRVTLAEELKRVKQIQEKLEEFIKAL 451 (455)
Q Consensus 403 ~eik~vLd~~s~----d~~~k~~lltGrrV~LAEeLk~vr~iqekLeef~~~L 451 (455)
++|+++++.... +...-..++..+.-+|.+++..+..++..|+.++...
T Consensus 62 ~eI~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~~~ 114 (131)
T TIGR02043 62 DEIKELLSIKLDATEHSCAEVKAIVDAKLELVDEKINELTKIRRSLKKLSDAC 114 (131)
T ss_pred HHHHHHHHhhccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 467777764411 2345568889999999999999999999998887755
No 37
>PF08651 DASH_Duo1: DASH complex subunit Duo1; InterPro: IPR013960 The DASH complex is a ~10 subunit microtubule-binding complex that is transferred to the kinetochore prior to mitosis []. In Saccharomyces cerevisiae (Baker's yeast) DASH forms both rings and spiral structures on microtubules in vitro [, ].
Probab=22.60 E-value=1.2e+02 Score=25.64 Aligned_cols=25 Identities=28% Similarity=0.585 Sum_probs=22.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHhh
Q psy7859 429 TLAEELKRVKQIQEKLEEFIKALNT 453 (455)
Q Consensus 429 ~LAEeLk~vr~iqekLeef~~~L~~ 453 (455)
.|-.||..||.|-..++.|+..|..
T Consensus 2 aL~kEL~~Lr~IN~~ie~~~~~L~~ 26 (78)
T PF08651_consen 2 ALEKELEQLRKINPVIEGLIETLRS 26 (78)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4789999999999999999999874
No 38
>PRK15002 redox-sensitivie transcriptional activator SoxR; Provisional
Probab=22.57 E-value=1.6e+02 Score=27.45 Aligned_cols=47 Identities=15% Similarity=0.213 Sum_probs=37.2
Q ss_pred HHHHHHHHhccc----cHHHHhhhhccchhhhHHHHHHHHHHHHHHHHHHH
Q psy7859 403 KEIKEVLEDYSQ----DQEKKMILLTGRRVTLAEELKRVKQIQEKLEEFIK 449 (455)
Q Consensus 403 ~eik~vLd~~s~----d~~~k~~lltGrrV~LAEeLk~vr~iqekLeef~~ 449 (455)
++|+++|+.+.. +.+....++..+..+|.+++..+..+.+.|+..+.
T Consensus 71 ~eIk~ll~~~~~~~~~~~~~~~~ll~~k~~~l~~~I~~L~~~~~~L~~~i~ 121 (154)
T PRK15002 71 ATIGEAFGVLPEGHTLSAKEWKQLSSQWREELDRRIHTLVALRDELDGCIG 121 (154)
T ss_pred HHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 468888876532 24567788899999999999999999999998775
No 39
>cd01110 HTH_SoxR Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator. Helix-turn-helix (HTH) transcriptional regulator SoxR. The global regulator, SoxR, up-regulates gene expression of another transcription activator, SoxS, which directly stimulates the oxidative stress regulon genes in E. coli. The soxRS response renders the bacterial cell resistant to superoxide-generating agents, macrophage-generated nitric oxide, organic solvents, and antibiotics. The SoxR proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the unusually long spacer between the -35 and -10 promoter elements. They also harbor a regulatory C-terminal domain containing an iron-sulfur center.
Probab=22.37 E-value=1.5e+02 Score=26.80 Aligned_cols=47 Identities=26% Similarity=0.360 Sum_probs=34.7
Q ss_pred HHHHHHHHhcccc----HHHHhhhhccchhhhHHHHHHHHHHHHHHHHHHH
Q psy7859 403 KEIKEVLEDYSQD----QEKKMILLTGRRVTLAEELKRVKQIQEKLEEFIK 449 (455)
Q Consensus 403 ~eik~vLd~~s~d----~~~k~~lltGrrV~LAEeLk~vr~iqekLeef~~ 449 (455)
+||+++|...... ......+++.++..|.+++..+..+...|+.++.
T Consensus 61 ~eI~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~i~ 111 (139)
T cd01110 61 AEIAEALATLPEDRTPTKADWERLSRAWRDRLDERIAELQQLRDQLDGCIG 111 (139)
T ss_pred HHHHHHHHHhccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4677777654322 2344567788888899999999999999998886
No 40
>PF03359 GKAP: Guanylate-kinase-associated protein (GKAP) protein; InterPro: IPR005026 The protein called postsynaptic density (PSD) is a specialised submembranous structure within which synaptic membrane proteins are linked to cytoskeleton and signalling proteins. Guanylate-kinase-associated protein (PSD-95/synapse-associated protein 90) is one of the major components of PSD, and functions as a scaffold protein for various ion channels and associated signalling molecules.; GO: 0007267 cell-cell signaling
Probab=22.09 E-value=2.1e+02 Score=30.23 Aligned_cols=62 Identities=21% Similarity=0.318 Sum_probs=47.1
Q ss_pred HHHHHHHHHHHHHHHHHhhhcccccCCccccccccccchhhhHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHh
Q psy7859 155 DPVYRHHFLIQSLAKALDCKKGFYMDGVTLSSQVTTRNLSFAVSECFWKMVRETVEQQADAFKATRFNLETEWK 228 (455)
Q Consensus 155 ~~vYRrHFL~~al~~A~~CRs~ffk~G~~~~~q~tt~nl~~avs~~FWrmvr~sl~qQ~~~~~a~rfnLEtEwK 228 (455)
++|-...| +|-...|..|.. .+|-. .+||.+|. -||-||.-.|+.=-..|..-..=-++.|+
T Consensus 217 ~LL~~qKf-~QF~~L~~~~~~---~~~~~---~~t~~DL~-----GFWDmv~lqVedv~~kF~~L~~lk~n~W~ 278 (357)
T PF03359_consen 217 RLLMSQKF-KQFEGLCQQNEN---PSGEP---PTTCQDLA-----GFWDMVYLQVEDVDKKFDELEKLKANNWQ 278 (357)
T ss_pred HHHHHHHH-HHHHHHHHHhcC---cccCC---Ccchhhhh-----hHHHHHHHHHHHHHHHHHHHHHHHHCCCC
Confidence 46666665 777788888874 44443 57889998 99999999998888888876633488999
No 41
>cd04790 HTH_Cfa-like_unk Helix-Turn-Helix DNA binding domain of putative Cfa-like transcription regulators. Putative helix-turn-helix (HTH) MerR-like transcription regulator; conserved, Cfa-like, unknown proteins (~172 a.a.). The N-terminal domain of these proteins appears to be related to the HTH domain of Cfa, a cyclopropane fatty acid synthase. These Cfa-like proteins have a unique C-terminal domain with conserved histidines (motif HXXFX7HXXF). Based on sequence similarity of the N-terminal domains, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domain
Probab=21.90 E-value=1.7e+02 Score=27.53 Aligned_cols=45 Identities=22% Similarity=0.386 Sum_probs=33.1
Q ss_pred HHHHHHHhccccHHHHhhhhccchhhhHHHHHHHHHHHHHHHHHHHHH
Q psy7859 404 EIKEVLEDYSQDQEKKMILLTGRRVTLAEELKRVKQIQEKLEEFIKAL 451 (455)
Q Consensus 404 eik~vLd~~s~d~~~k~~lltGrrV~LAEeLk~vr~iqekLeef~~~L 451 (455)
+|+.+|+.... ....+|..+...|.+++..++.++..|...+...
T Consensus 63 eI~~ll~~~~~---~~~~~L~~~~~~l~~ei~~L~~~~~~l~~ll~~~ 107 (172)
T cd04790 63 DIRSLLQQPGD---DATDVLRRRLAELNREIQRLRQQQRAIATLLKQP 107 (172)
T ss_pred HHHHHHhcCCh---hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 57777765432 3456778888888889988888888888776543
No 42
>PRK13752 putative transcriptional regulator MerR; Provisional
Probab=21.77 E-value=1.7e+02 Score=26.90 Aligned_cols=50 Identities=20% Similarity=0.237 Sum_probs=36.4
Q ss_pred HHHHHHHHhccc-cHHHHhhhhccchhhhHHHHHHHHHHHHHHHHHHHHHh
Q psy7859 403 KEIKEVLEDYSQ-DQEKKMILLTGRRVTLAEELKRVKQIQEKLEEFIKALN 452 (455)
Q Consensus 403 ~eik~vLd~~s~-d~~~k~~lltGrrV~LAEeLk~vr~iqekLeef~~~L~ 452 (455)
++|+++|+.... +.+.-..++..+.-+|.+++..+..+...|..++....
T Consensus 68 ~eI~~ll~~~~~~~~~~~~~ll~~k~~~l~~~i~~L~~~~~~L~~~~~~~~ 118 (144)
T PRK13752 68 DEIAELLRLEDGTHCEEASSLAEHKLKDVREKMADLARMEAVLSELVCACH 118 (144)
T ss_pred HHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 467777764322 22445678888999999999999999999988876543
No 43
>PHA02754 hypothetical protein; Provisional
Probab=20.86 E-value=1.4e+02 Score=24.74 Aligned_cols=30 Identities=17% Similarity=0.431 Sum_probs=26.2
Q ss_pred HhHHHHHHHHHhHHHHHHHHHHHHHHHhcc
Q psy7859 384 VTSNALRQQIMNREARRLDKEIKEVLEDYS 413 (455)
Q Consensus 384 ~T~n~LRqqi~n~e~rrLe~eik~vLd~~s 413 (455)
++|.-+||-|||.-..+.=+|+|++|.+-+
T Consensus 2 skAeEi~k~i~eK~Fke~MRelkD~LSe~G 31 (67)
T PHA02754 2 SKAEEIPKAIMEKDFKEAMRELKDILSEAG 31 (67)
T ss_pred ccHHHHHHHHHHhHHHHHHHHHHHHHhhCc
Confidence 367889999999999999999999998754
No 44
>cd05529 Bromo_WDR9_I_like Bromodomain; WDR9 repeat I_like subfamily. WDR9 is a human gene located in the Down Syndrome critical region-2 of chromosome 21. It encodes for a nuclear protein containing WD40 repeats and two bromodomains, which may function as a transcriptional regulator involved in chromatin remodeling and play a role in embryonic development. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=20.34 E-value=2.6e+02 Score=25.10 Aligned_cols=48 Identities=25% Similarity=0.286 Sum_probs=35.5
Q ss_pred cccCCHHHHHHHHHHHHHHHHHh--cCCCCCCCC---Chh--------------hHHHHHhhhhhCC
Q psy7859 95 WKYSTEEQVKRSYVKSELDKVLQ--SDTHHKPVL---SPD--------------ELTTIRKNLQRSN 142 (455)
Q Consensus 95 W~s~T~eQ~~r~~i~~ELeklL~--~~~~H~~~L---~~D--------------ElttVRkNLq~~g 142 (455)
|..+.-....+..+...|++++. ..+...+.+ +.+ +++||+++|++..
T Consensus 16 ~~~~~~~~~~~~~i~~~l~~l~~~~~~~~~~~F~~pv~~~~~~p~Y~~iI~~PmdL~tI~~kl~~~~ 82 (128)
T cd05529 16 WEQPHIRDEERERLISGLDKLLLSLQLEIAEYFEYPVDLRAWYPDYWNRVPVPMDLETIRSRLENRY 82 (128)
T ss_pred CcCCCCCHHHHHHHHHHHHHHHhcccCcccccccCCCCccccCCcHHHHcCCCCCHHHHHHHHhcCC
Confidence 88888888999999999999995 333222221 223 8999999999863
Done!