Query 040635
Match_columns 177
No_of_seqs 121 out of 1323
Neff 8.4
Searched_HMMs 46136
Date Fri Mar 29 10:19:40 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040635.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040635hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0014 MADS box transcription 100.0 1.1E-37 2.4E-42 239.5 9.2 155 1-155 1-170 (195)
2 cd00266 MADS_SRF_like SRF-like 100.0 2.2E-34 4.7E-39 192.2 5.2 80 2-82 1-80 (83)
3 cd00265 MADS_MEF2_like MEF2 (m 100.0 8.5E-34 1.8E-38 186.7 3.3 74 2-77 1-74 (77)
4 smart00432 MADS MADS domain. 100.0 3E-32 6.5E-37 169.6 3.8 59 2-60 1-59 (59)
5 cd00120 MADS MADS: MCM1, Agamo 100.0 1.5E-31 3.3E-36 166.5 3.4 59 2-60 1-59 (59)
6 PF00319 SRF-TF: SRF-type tran 99.9 8.8E-29 1.9E-33 149.2 -0.7 51 9-60 1-51 (51)
7 KOG0015 Regulator of arginine 99.8 9.1E-20 2E-24 144.1 1.5 76 2-78 63-146 (338)
8 COG5068 ARG80 Regulator of arg 99.4 1.5E-13 3.3E-18 113.4 3.3 60 1-60 81-140 (412)
9 PF01486 K-box: K-box region; 98.4 2.2E-06 4.8E-11 59.0 7.3 60 88-158 15-74 (100)
10 PRK04098 sec-independent trans 87.4 1 2.2E-05 33.5 4.0 93 42-155 14-106 (158)
11 PF07106 TBPIP: Tat binding pr 82.4 18 0.00038 26.9 9.0 60 90-160 77-138 (169)
12 PF06698 DUF1192: Protein of u 81.0 4.9 0.00011 24.8 4.4 32 124-155 15-46 (59)
13 PF10584 Proteasome_A_N: Prote 80.3 0.29 6.3E-06 24.3 -0.9 14 43-56 3-16 (23)
14 PTZ00046 rifin; Provisional 79.3 6.3 0.00014 33.2 5.9 27 37-73 40-66 (358)
15 KOG4603 TBP-1 interacting prot 76.6 24 0.00052 26.7 7.7 56 90-155 84-141 (201)
16 PF09432 THP2: Tho complex sub 76.0 26 0.00057 25.1 8.5 19 57-75 33-51 (132)
17 TIGR01477 RIFIN variant surfac 69.4 15 0.00032 30.9 5.8 27 37-73 43-69 (353)
18 PF10555 MraY_sig1: Phospho-N- 62.2 2.8 6.1E-05 17.8 0.1 6 172-177 4-9 (13)
19 PF08432 Vfa1: AAA-ATPase Vps4 59.5 13 0.00028 28.2 3.5 26 36-61 16-42 (182)
20 PRK13848 conjugal transfer pro 57.2 58 0.0012 22.0 6.6 23 88-110 6-28 (98)
21 TIGR01478 STEVOR variant surfa 55.3 35 0.00076 27.9 5.4 45 7-73 25-69 (295)
22 KOG3048 Molecular chaperone Pr 53.4 33 0.00072 25.1 4.5 32 124-155 7-38 (153)
23 PF14723 SSFA2_C: Sperm-specif 50.3 18 0.0004 27.2 2.8 20 133-152 159-178 (179)
24 PRK00182 tatB sec-independent 50.2 9.9 0.00021 28.3 1.4 36 34-75 9-44 (160)
25 PF10491 Nrf1_DNA-bind: NLS-bi 50.1 23 0.0005 27.5 3.4 47 26-73 35-87 (214)
26 PF07820 TraC: TraC-like prote 49.9 78 0.0017 21.3 7.6 59 89-154 6-64 (92)
27 PF11232 Med25: Mediator compl 49.7 14 0.0003 27.3 2.1 25 37-61 109-134 (152)
28 PF04417 DUF501: Protein of un 47.4 94 0.002 22.5 6.2 37 39-75 7-47 (139)
29 KOG4316 Uncharacterized conser 46.7 9.4 0.0002 28.0 0.8 45 33-77 43-96 (172)
30 PRK00708 sec-independent trans 46.4 28 0.00061 27.1 3.5 36 34-75 8-43 (209)
31 COG4575 ElaB Uncharacterized c 45.2 1E+02 0.0022 21.3 7.2 28 128-155 32-59 (104)
32 TIGR03007 pepcterm_ChnLen poly 44.8 2.1E+02 0.0046 24.9 9.1 45 64-108 140-184 (498)
33 PF02009 Rifin_STEVOR: Rifin/s 44.7 54 0.0012 27.0 5.0 14 60-73 33-46 (299)
34 KOG0854 Alkyl hydroperoxide re 41.3 27 0.00059 26.7 2.6 30 43-72 132-168 (224)
35 PF11629 Mst1_SARAH: C termina 36.7 65 0.0014 19.0 3.2 28 127-154 5-36 (49)
36 PF13252 DUF4043: Protein of u 36.0 20 0.00042 30.1 1.2 29 31-59 270-299 (341)
37 KOG4637 Adaptor for phosphoino 36.0 37 0.0008 28.9 2.8 43 33-76 367-413 (464)
38 PF11944 DUF3461: Protein of u 34.6 69 0.0015 22.8 3.6 24 132-155 101-124 (125)
39 PRK03100 sec-independent trans 34.6 17 0.00037 26.4 0.6 35 34-74 9-43 (136)
40 PLN03230 acetyl-coenzyme A car 33.6 86 0.0019 27.2 4.7 69 63-152 56-124 (431)
41 PRK14860 tatA twin arginine tr 32.7 8.9 0.00019 24.1 -1.0 37 34-76 8-44 (64)
42 PF09151 DUF1936: Domain of un 32.3 29 0.00062 18.5 1.1 21 35-55 3-23 (36)
43 PF02416 MttA_Hcf106: mttA/Hcf 32.3 6.1 0.00013 23.7 -1.7 28 43-74 12-39 (53)
44 COG5256 TEF1 Translation elong 32.2 1.7E+02 0.0037 25.4 6.2 68 39-106 107-177 (428)
45 PF13082 DUF3931: Protein of u 31.6 14 0.00031 22.1 -0.2 38 4-41 6-45 (66)
46 PRK01470 tatA twin arginine tr 31.4 10 0.00022 22.6 -0.8 29 43-75 14-42 (51)
47 COG5000 NtrY Signal transducti 31.0 36 0.00078 31.0 2.1 23 36-58 374-396 (712)
48 PF09941 DUF2173: Uncharacteri 30.6 63 0.0014 22.5 2.9 38 33-71 4-42 (108)
49 KOG1681 Enoyl-CoA isomerase [L 30.3 2.7E+02 0.0058 22.4 6.6 101 13-121 38-138 (292)
50 PHA02592 52 DNA topisomerase I 30.1 1.7E+02 0.0036 25.6 6.0 42 26-74 285-326 (439)
51 PF14263 DUF4354: Domain of un 30.1 16 0.00034 26.1 -0.2 40 11-55 41-80 (124)
52 PF07956 DUF1690: Protein of U 29.7 2.2E+02 0.0048 20.7 8.4 43 47-97 1-43 (142)
53 PLN03229 acetyl-coenzyme A car 29.0 3.6E+02 0.0078 25.3 8.0 89 42-151 49-144 (762)
54 PF00992 Troponin: Troponin; 28.9 2.2E+02 0.0048 20.4 6.4 27 126-152 39-65 (132)
55 TIGR01005 eps_transp_fam exopo 28.8 2.3E+02 0.005 26.2 7.1 76 64-144 173-248 (754)
56 PF15372 DUF4600: Domain of un 28.7 2.2E+02 0.0049 20.4 6.3 29 127-155 48-76 (129)
57 KOG4797 Transcriptional regula 28.5 2.1E+02 0.0045 20.0 5.2 44 92-143 67-110 (123)
58 COG4917 EutP Ethanolamine util 28.1 45 0.00098 24.2 1.8 23 34-56 58-80 (148)
59 PF07830 PP2C_C: Protein serin 27.8 1.5E+02 0.0032 19.5 4.1 17 157-173 54-70 (81)
60 PF11460 DUF3007: Protein of u 27.3 1.8E+02 0.004 20.0 4.6 17 127-143 87-103 (104)
61 COG4465 CodY Pleiotropic trans 27.2 1.5E+02 0.0033 23.4 4.7 19 127-145 180-198 (261)
62 PF01166 TSC22: TSC-22/dip/bun 27.0 1.2E+02 0.0027 18.6 3.3 22 88-109 17-38 (59)
63 PF00816 Histone_HNS: H-NS his 26.7 1.5E+02 0.0033 19.4 4.2 38 90-135 3-43 (93)
64 PTZ00370 STEVOR; Provisional 26.5 1.2E+02 0.0025 25.0 4.1 43 8-73 26-68 (296)
65 PRK01770 sec-independent trans 26.5 1.9E+02 0.0042 21.8 5.1 36 34-75 8-43 (171)
66 COG2938 Uncharacterized conser 26.3 47 0.001 22.5 1.6 32 111-144 27-58 (94)
67 KOG0183 20S proteasome, regula 26.3 34 0.00073 26.9 1.0 16 41-56 4-19 (249)
68 PRK10265 chaperone-modulator p 26.2 76 0.0016 21.5 2.7 15 32-46 10-24 (101)
69 PRK04654 sec-independent trans 25.8 26 0.00057 27.3 0.3 28 42-73 14-41 (214)
70 smart00782 PhnA_Zn_Ribbon PhnA 25.5 37 0.00081 19.8 0.9 22 28-49 2-23 (47)
71 PRK14626 hypothetical protein; 24.3 56 0.0012 22.7 1.8 18 92-109 12-29 (110)
72 PF10623 PilI: Plasmid conjuga 24.2 81 0.0018 20.6 2.3 32 42-74 8-41 (83)
73 PF03656 Pam16: Pam16; InterP 24.2 1.3E+02 0.0029 21.4 3.7 43 62-106 70-112 (127)
74 KOG0184 20S proteasome, regula 24.1 39 0.00084 26.7 1.0 21 36-56 3-23 (254)
75 PRK12540 RNA polymerase sigma 24.1 1.6E+02 0.0036 21.7 4.5 51 127-177 125-179 (182)
76 PRK09822 lipopolysaccharide co 23.9 39 0.00084 27.0 0.9 33 20-53 119-154 (269)
77 PF10312 Cactin_mid: Conserved 23.1 3.5E+02 0.0075 20.7 6.6 59 87-147 97-160 (191)
78 PRK13677 hypothetical protein; 23.1 1.5E+02 0.0032 21.0 3.6 24 132-155 101-124 (125)
79 PF14009 DUF4228: Domain of un 22.7 72 0.0016 23.1 2.2 35 39-74 12-46 (181)
80 TIGR03017 EpsF chain length de 22.4 3.3E+02 0.0073 23.1 6.5 44 64-107 150-193 (444)
81 PF06020 Roughex: Drosophila r 22.3 41 0.00088 27.6 0.8 16 36-51 183-198 (334)
82 KOG2958 Galactose-1-phosphate 22.3 86 0.0019 25.9 2.6 28 45-74 111-140 (354)
83 PF12925 APP_E2: E2 domain of 22.2 3.7E+02 0.008 20.7 7.0 15 64-78 8-22 (193)
84 smart00415 HSF heat shock fact 22.2 84 0.0018 21.3 2.3 39 37-75 12-51 (105)
85 PF09278 MerR-DNA-bind: MerR, 22.0 1.9E+02 0.0041 17.2 4.3 22 134-155 33-54 (65)
86 PF06574 FAD_syn: FAD syntheta 21.4 1.8E+02 0.0039 21.3 4.1 25 27-51 23-47 (157)
87 PRK13877 conjugal transfer rel 21.1 3E+02 0.0065 19.2 5.4 41 113-153 71-111 (114)
88 KOG4302 Microtubule-associated 20.8 4E+02 0.0087 24.7 6.8 31 126-156 153-183 (660)
89 PF13591 MerR_2: MerR HTH fami 20.3 80 0.0017 20.5 1.8 16 32-47 3-18 (84)
90 PF09584 Phageshock_PspD: Phag 20.1 19 0.00041 22.7 -1.2 23 25-52 4-27 (66)
91 KOG4311 Histidinol dehydrogena 20.0 5E+02 0.011 21.3 7.1 137 15-155 180-337 (359)
No 1
>KOG0014 consensus MADS box transcription factor [Transcription]
Probab=100.00 E-value=1.1e-37 Score=239.46 Aligned_cols=155 Identities=28% Similarity=0.340 Sum_probs=115.0
Q ss_pred CCCcccceeeccCCCcccchhhcccchhhhhhhhhhhccCCceeeEEeecCCCCCcccCCchHHHHHHHHhhcCcccccc
Q 040635 1 MGRRRVQHELISKESVRKVTFKKRRAGLKKKLSELTTLCGVTACAIICASFDHQPEIWPSPAEAVRVLDKFNNFPIKRRG 80 (177)
Q Consensus 1 mgR~ki~i~~I~n~~~R~vtf~KRr~GL~KKA~ELs~LC~~~va~ivfsp~gk~~~~~ps~~~v~~vl~ry~~~~~~~~~ 80 (177)
|||+||+|++|+|+++|+|||+|||+||||||+||||||||+||+|||||+|++|.|||++.++.+|+++|...+.....
T Consensus 1 M~R~ki~i~~Ien~~~RqvTFsKRr~GL~KKA~ELsvLCd~eiavIifsp~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~ 80 (195)
T KOG0014|consen 1 MGRGKIEIKRIENESSRQVTFSKRRNGLFKKASELSVLCDAEIAVIVFSPSGKLYEFGSSDESVDAVVDRFLNLTEPSRK 80 (195)
T ss_pred CCCCccceeeccccchhhhhhHHHHhhHHHHHHHHHHhcCCeEEEEEECCCCCccccCCcchhHHHHHHHHHhhhhhhhc
Confidence 99999999999999999999999999999999999999999999999999999999999877799999999998887777
Q ss_pred ccccchhhhHHHH-HHHHHHHHHHHHH-----Hhh----hHHHHHHH----HHhhcCCCCCCCCCH-HHHHHHHHHHHHH
Q 040635 81 KYMMNQNTFLSKK-ISNLFERMRKERK-----KNR----GLEMDLMF----TQCLAGKDMNNFDCL-EDLKDLDHLLKEK 145 (177)
Q Consensus 81 k~~~~~~~~l~~~-~~kl~e~l~k~~~-----~~~----~~e~~~l~----~~~~~~~~~l~~Ls~-eeL~~l~~~Le~~ 145 (177)
+...+.+.++... +..+......+.. .+. ...+..+. .+....+.++.+++. .+|..++..++..
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~l~~l~~~~~l~~~~~~l~~~ 160 (195)
T KOG0014|consen 81 KKRVNLESFLRNKKLTELVEEEEKEELKLQLKKSLESSLKVDPEDLELLELEQRKLTGEDLQSLSSLNELNSLESQLESS 160 (195)
T ss_pred ccccchhhHhhhhhhhcccchhhhhhccchhhhhhhhhhhcchhhhhhhHHHHHHHhccccccCCHHHHhcchhhHHHHh
Confidence 7766666665433 2222111111110 000 01111111 111122677888888 8899999998888
Q ss_pred HHHHHHHHHH
Q 040635 146 IKVIADKIEC 155 (177)
Q Consensus 146 l~~v~~r~~~ 155 (177)
+..++.+...
T Consensus 161 ~~~~~~~~~~ 170 (195)
T KOG0014|consen 161 LHNSRSSKSK 170 (195)
T ss_pred hcCCCCCCCc
Confidence 8777776655
No 2
>cd00266 MADS_SRF_like SRF-like/Type I subfamily of MADS (MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptional regulators. Binds DNA and exists as hetero- and homo-dimers. Differs from the MEF-like/Type II subgroup mainly in position of the alpha 2 helix responsible for the dimerization interface. Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi.
Probab=100.00 E-value=2.2e-34 Score=192.21 Aligned_cols=80 Identities=36% Similarity=0.597 Sum_probs=74.6
Q ss_pred CCcccceeeccCCCcccchhhcccchhhhhhhhhhhccCCceeeEEeecCCCCCcccCCchHHHHHHHHhhcCccccccc
Q 040635 2 GRRRVQHELISKESVRKVTFKKRRAGLKKKLSELTTLCGVTACAIICASFDHQPEIWPSPAEAVRVLDKFNNFPIKRRGK 81 (177)
Q Consensus 2 gR~ki~i~~I~n~~~R~vtf~KRr~GL~KKA~ELs~LC~~~va~ivfsp~gk~~~~~ps~~~v~~vl~ry~~~~~~~~~k 81 (177)
||+||+|++|+|+.+|++||+|||.||||||+||||||||+||+|||||+|+.|.+||++. +..+|++|..++..++.+
T Consensus 1 gr~Ki~i~~I~~~~~R~~tf~KRk~gl~kKa~ELs~Lc~~~v~~iv~sp~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~~ 79 (83)
T cd00266 1 GRKKIKIKRIENKKKRAVTFSKRRQGLFKKASELSTLCGAEVAVIVYSPSGKLYVFWPSSE-VEGVISRFEVLSALERKK 79 (83)
T ss_pred CCccceeEEeeccchhhhhHHHhhhhHHHHHHHHHHhhCCcEEEEEECCCCCcceecCcHH-HHHHHHHHhhcCHhhhhc
Confidence 7999999999999999999999999999999999999999999999999999999999765 999999999988766554
Q ss_pred c
Q 040635 82 Y 82 (177)
Q Consensus 82 ~ 82 (177)
+
T Consensus 80 ~ 80 (83)
T cd00266 80 K 80 (83)
T ss_pred c
Confidence 3
No 3
>cd00265 MADS_MEF2_like MEF2 (myocyte enhancer factor 2)-like/Type II subfamily of MADS ( MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptional regulators. Binds DNA and exists as hetero and homo-dimers. Differs from SRF-like/Type I subgroup mainly in position of the alpha helix responsible for the dimerization interface. Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi.
Probab=99.98 E-value=8.5e-34 Score=186.69 Aligned_cols=74 Identities=31% Similarity=0.514 Sum_probs=67.9
Q ss_pred CCcccceeeccCCCcccchhhcccchhhhhhhhhhhccCCceeeEEeecCCCCCcccCCchHHHHHHHHhhcCccc
Q 040635 2 GRRRVQHELISKESVRKVTFKKRRAGLKKKLSELTTLCGVTACAIICASFDHQPEIWPSPAEAVRVLDKFNNFPIK 77 (177)
Q Consensus 2 gR~ki~i~~I~n~~~R~vtf~KRr~GL~KKA~ELs~LC~~~va~ivfsp~gk~~~~~ps~~~v~~vl~ry~~~~~~ 77 (177)
||+||+|++|+|+.+|++||+||+.||||||+|||+||||+||+|||||+|+++. |++ +++++||+||+..+..
T Consensus 1 gr~ki~i~~i~~~~~r~~tf~kR~~gl~kKa~Els~Lc~~~v~lvv~sp~gk~~~-f~s-~s~~~vl~ry~~~~~~ 74 (77)
T cd00265 1 GRGKIEIKRIENSTNRQVTFSKRRNGLLKKAHELSVLCDAEVALIIFSSSGKLYE-FSS-PSMEKIIERYQKTSGS 74 (77)
T ss_pred CCCcceeEEecCccHHHHHHHHhhhhhhhcceeheeccCCceeEEEEcCCCceEE-ecC-CCHHHHHHHHHhcccc
Confidence 8999999999999999999999999999999999999999999999999998766 554 4579999999987643
No 4
>smart00432 MADS MADS domain.
Probab=99.97 E-value=3e-32 Score=169.58 Aligned_cols=59 Identities=36% Similarity=0.549 Sum_probs=57.5
Q ss_pred CCcccceeeccCCCcccchhhcccchhhhhhhhhhhccCCceeeEEeecCCCCCcccCC
Q 040635 2 GRRRVQHELISKESVRKVTFKKRRAGLKKKLSELTTLCGVTACAIICASFDHQPEIWPS 60 (177)
Q Consensus 2 gR~ki~i~~I~n~~~R~vtf~KRr~GL~KKA~ELs~LC~~~va~ivfsp~gk~~~~~ps 60 (177)
||+||+|++|+|+.+|++||+||+.||+|||+||||||||+||+|||||+|+.+.|||+
T Consensus 1 gR~Ki~i~~I~~~~~R~~tf~kRk~gl~kKa~Els~Lc~~~v~~iv~sp~g~~~~~~~p 59 (59)
T smart00432 1 GRRKIEIKRIENKTNRQVTFSKRRNGLFKKAHELSVLCDAEVALIVFSPTGKLYEFASP 59 (59)
T ss_pred CCCcceeEEeeCcchhhhhhHhhhhhHHHHHHHHhhccCCeEEEEEECCCCCeeeccCC
Confidence 89999999999999999999999999999999999999999999999999999999974
No 5
>cd00120 MADS MADS: MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptonal regulators. Binds DNA and exists as hetero and homo-dimers. Composed of 2 main subgroups: SRF-like/Type I and MEF2-like (myocyte enhancer factor 2)/ Type II. These subgroups differ mainly in position of the alpha 2 helix responsible for the dimerization interface; Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi.
Probab=99.97 E-value=1.5e-31 Score=166.55 Aligned_cols=59 Identities=39% Similarity=0.652 Sum_probs=57.2
Q ss_pred CCcccceeeccCCCcccchhhcccchhhhhhhhhhhccCCceeeEEeecCCCCCcccCC
Q 040635 2 GRRRVQHELISKESVRKVTFKKRRAGLKKKLSELTTLCGVTACAIICASFDHQPEIWPS 60 (177)
Q Consensus 2 gR~ki~i~~I~n~~~R~vtf~KRr~GL~KKA~ELs~LC~~~va~ivfsp~gk~~~~~ps 60 (177)
||+||+|++|+|+..|++||+||+.||+|||+||||||||+||+|||||+|+.+.+||+
T Consensus 1 gr~Ki~i~~I~~~~~R~~tf~kR~~gl~kKa~Els~Lc~~~v~~iv~sp~g~~~~~~~~ 59 (59)
T cd00120 1 GRGKIEIKRIENKTSRQVTFSKRRNGLFKKASELSVLCDAEVAVIVFSPSGKLYEFWSS 59 (59)
T ss_pred CCccceeEEeeCcchhhhhHHHHhchHHHhhhhheeccCCcEEEEEECCCCCcccccCC
Confidence 79999999999999999999999999999999999999999999999999999998874
No 6
>PF00319 SRF-TF: SRF-type transcription factor (DNA-binding and dimerisation domain); InterPro: IPR002100 Human serum response factor (SRF) is a ubiquitous nuclear protein important for cell proliferation and differentiation. SRF function is essential for transcriptional regulation of numerous growth-factor-inducible genes, such as c-fos oncogene and muscle-specific actin genes. A core domain of around 90 amino acids is sufficient for the activities of DNA-binding, dimerisation and interaction with accessory factors. Within the core is a DNA-binding region, designated the MADS box [], that is highly similar to many eukaryotic regulatory proteins: among these are MCM1, the regulator of cell type-specific genes in fission yeast; DSRF, a Drosophila trachea development factor; the MEF2 family of myocyte-specific enhancer factors; and the Agamous and Deficiens families of plant homeotic proteins. In SRF, the MADS box has been shown to be involved in DNA-binding and dimerisation []. Proteins belonging to the MADS family function as dimers, the primary DNA-binding element of which is an anti-parallel coiled coil of two amphipathic alpha-helices, one from each subunit. The DNA wraps around the coiled coil allowing the basic N-termini of the helices to fit into the DNA major groove. The chain extending from the helix N-termini reaches over the DNA backbone and penetrates into the minor groove. A 4-stranded, anti-parallel beta-sheet packs against the coiled-coil face opposite the DNA and is the central element of the dimerisation interface. The MADS-box domain is commonly found associated with K-box region see IPR002487 from INTERPRO ; GO: 0003677 DNA binding, 0046983 protein dimerization activity; PDB: 1MNM_B 1N6J_A 1TQE_S 3MU6_D 3P57_I 1EGW_A 1C7U_B 3KOV_A 1HBX_A 1K6O_C ....
Probab=99.94 E-value=8.8e-29 Score=149.20 Aligned_cols=51 Identities=47% Similarity=0.656 Sum_probs=45.3
Q ss_pred eeccCCCcccchhhcccchhhhhhhhhhhccCCceeeEEeecCCCCCcccCC
Q 040635 9 ELISKESVRKVTFKKRRAGLKKKLSELTTLCGVTACAIICASFDHQPEIWPS 60 (177)
Q Consensus 9 ~~I~n~~~R~vtf~KRr~GL~KKA~ELs~LC~~~va~ivfsp~gk~~~~~ps 60 (177)
|+|+|+..|++||+|||.||||||+||||||||+||+|||||+|+++. |||
T Consensus 1 K~I~n~~~R~~tf~KRk~gL~KKa~ELs~LC~~~v~~iv~~~~g~~~~-f~s 51 (51)
T PF00319_consen 1 KRIENKSRRKVTFSKRKKGLFKKASELSTLCGVDVALIVFSPDGKLYT-FPS 51 (51)
T ss_dssp S--SSHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEEETTSEEEE-EES
T ss_pred CCccchhHhHhHHHHHHhhhhhccceeeeecCCeEEEEEECCCCCEEE-ecC
Confidence 589999999999999999999999999999999999999999998765 774
No 7
>KOG0015 consensus Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription]
Probab=99.76 E-value=9.1e-20 Score=144.07 Aligned_cols=76 Identities=30% Similarity=0.452 Sum_probs=64.7
Q ss_pred CCcccceeeccCCCcccchhhcccchhhhhhhhhhhccCCceeeEEeecCCCCCcccCCc--------hHHHHHHHHhhc
Q 040635 2 GRRRVQHELISKESVRKVTFKKRRAGLKKKLSELTTLCGVTACAIICASFDHQPEIWPSP--------AEAVRVLDKFNN 73 (177)
Q Consensus 2 gR~ki~i~~I~n~~~R~vtf~KRr~GL~KKA~ELs~LC~~~va~ivfsp~gk~~~~~ps~--------~~v~~vl~ry~~ 73 (177)
||+||+|++|+|+..|.|||||||.||||||+|||||+|.+|-|+|.|.+|-+|.| .-+ ..=+.+|....+
T Consensus 63 gr~kik~eyIenK~rR~~tFSKRK~GImKKAyELs~LTGtqVllLVaSEtGhVyTF-aTpKLep~i~s~~Gk~lIq~cLn 141 (338)
T KOG0015|consen 63 GRVKIKMEYIENKLRRYVTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTF-ATPKLEPMITSDEGKALIQACLN 141 (338)
T ss_pred ceeeccchhhcccceeeeeehhhhhhhHHHHHHhhhcccceEEEEEEecCcceEEe-ccccccccccchhhHHHHHHHhc
Confidence 79999999999999999999999999999999999999999999999999987664 211 233677777777
Q ss_pred Ccccc
Q 040635 74 FPIKR 78 (177)
Q Consensus 74 ~~~~~ 78 (177)
.+..+
T Consensus 142 ~pd~~ 146 (338)
T KOG0015|consen 142 APDTP 146 (338)
T ss_pred CCCCC
Confidence 65543
No 8
>COG5068 ARG80 Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription]
Probab=99.39 E-value=1.5e-13 Score=113.41 Aligned_cols=60 Identities=25% Similarity=0.376 Sum_probs=56.8
Q ss_pred CCCcccceeeccCCCcccchhhcccchhhhhhhhhhhccCCceeeEEeecCCCCCcccCC
Q 040635 1 MGRRRVQHELISKESVRKVTFKKRRAGLKKKLSELTTLCGVTACAIICASFDHQPEIWPS 60 (177)
Q Consensus 1 mgR~ki~i~~I~n~~~R~vtf~KRr~GL~KKA~ELs~LC~~~va~ivfsp~gk~~~~~ps 60 (177)
|||+|+.|..|+|+.+|.|||+||+.||+|||.||++|.|.+|.++|.|..|..+.|+++
T Consensus 81 ~~~~~~~is~i~nk~~r~vtf~Krk~gI~kka~ElsvLt~~~vl~lvise~g~v~tf~tp 140 (412)
T COG5068 81 VTGRKIGISYITNKTKRSVTFSKRKHGINKKAFELSVLTGTEVLLLVISENGLVHTFTTP 140 (412)
T ss_pred cccccCCcccccCcccccchhhhhhhhhhhhhhhhhhccCCceEEEEecCCCceeeecCC
Confidence 789999999999999999999999999999999999999999999999999988776553
No 9
>PF01486 K-box: K-box region; InterPro: IPR002487 MADS genes in plants encode key developmental regulators of vegetative and reproductive development. The majority of the plant MADS proteins share a stereotypical MIKC structure. It comprises (from N- to C-terminal) an N-terminal domain, which is, however, present only in a minority of proteins; a MADS domain (see PDOC00302 from PROSITEDOC, IPR002100 from INTERPRO), which is the major determinant of DNA-binding but which also performs dimerisation and accessory factor binding functions; a weakly conserved intervening (I) domain, which constitutes a key molecular determinant for the selective formation of DNA-binding dimers; a keratin-like (K-box) domain, which promotes protein dimerisation; and a C-terminal (C) domain, which is involved in transcriptional activation or in the formation of ternary or quaternary protein complexes. The 80-amino acid K-box domain was originally identified as a region with low but significant similarity to a region of keratin, which is part of the coiled-coil sequence constituting the central rod-shaped domain of keratin [, , ]. The K-box protein-protein interaction domain which mediates heterodimerization of MIKC-type MADS proteins contains several heptad repeats in which the first and the fourth positions are occupied by hydrophobic amino acids suggesting that the K-box domain forms three amphipathic alpha-helices referred to as K1, K2, and K3 [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=98.36 E-value=2.2e-06 Score=59.03 Aligned_cols=60 Identities=15% Similarity=0.210 Sum_probs=50.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHhhcCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 040635 88 TFLSKKISNLFERMRKERKKNRGLEMDLMFTQCLAGKDMNNFDCLEDLKDLDHLLKEKIKVIADKIECEMG 158 (177)
Q Consensus 88 ~~l~~~~~kl~e~l~k~~~~~~~~e~~~l~~~~~~~~~~l~~Ls~eeL~~l~~~Le~~l~~v~~r~~~~l~ 158 (177)
.++..++.++..+++.++.. .++++ |+++++||++||..|+..|+.++..||+|+.+++.
T Consensus 15 e~~~~e~~~L~~~~~~L~~~-----~R~~~------GedL~~Ls~~eL~~LE~~Le~aL~~VR~rK~~~l~ 74 (100)
T PF01486_consen 15 EELQQEIAKLRKENESLQKE-----LRHLM------GEDLESLSLKELQQLEQQLESALKRVRSRKDQLLM 74 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHH-----Hhccc------cccccccchHHHHHHHHhhhhhHHHHHHHHHHHHH
Confidence 56777888888888777653 44666 88999999999999999999999999999999543
No 10
>PRK04098 sec-independent translocase; Provisional
Probab=87.44 E-value=1 Score=33.45 Aligned_cols=93 Identities=16% Similarity=0.211 Sum_probs=46.9
Q ss_pred ceeeEEeecCCCCCcccCCchHHHHHHHHhhcCccccccccccchhhhHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHhh
Q 040635 42 TACAIICASFDHQPEIWPSPAEAVRVLDKFNNFPIKRRGKYMMNQNTFLSKKISNLFERMRKERKKNRGLEMDLMFTQCL 121 (177)
Q Consensus 42 ~va~ivfsp~gk~~~~~ps~~~v~~vl~ry~~~~~~~~~k~~~~~~~~l~~~~~kl~e~l~k~~~~~~~~e~~~l~~~~~ 121 (177)
=||||||+|. ++|.+- ..+...+..|+.....- +...+.+ + .+..++++..+.++. +.......
T Consensus 14 vVaLlvfGP~-KLP~~~---r~lGk~ir~~K~~~~~~--k~~l~~E--i--~~~elk~e~~k~k~~-----l~~~~~~l- 77 (158)
T PRK04098 14 VVAIIFLGPD-KLPQAM---VDIAKFFKAVKKTINDA--KSTLDKE--I--NIEEIKEEALKYKKE-----FESAVESL- 77 (158)
T ss_pred HHHHhhcCch-HHHHHH---HHHHHHHHHHHHHHHHH--HHHHHHH--H--hhHHHHHHHHHHHHH-----HHHHHHHH-
Confidence 4789999998 577741 35777777777643221 1111111 0 122233332222211 11111101
Q ss_pred cCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 040635 122 AGKDMNNFDCLEDLKDLDHLLKEKIKVIADKIEC 155 (177)
Q Consensus 122 ~~~~~l~~Ls~eeL~~l~~~Le~~l~~v~~r~~~ 155 (177)
-..+++++|.++...+....+.+.+-...
T Consensus 78 -----~~~~~~eel~~~~~~~~~~~~~~~~~~~~ 106 (158)
T PRK04098 78 -----KKKLKFEELDDLKITAENEIKSIQDLLQD 106 (158)
T ss_pred -----HhccChHHHHHHhhhhhhcchhHHHHHhh
Confidence 02377888888877766666666665555
No 11
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=82.41 E-value=18 Score=26.86 Aligned_cols=60 Identities=22% Similarity=0.281 Sum_probs=41.4
Q ss_pred HHHHHHHHHHHHHHHHHHhhh--HHHHHHHHHhhcCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Q 040635 90 LSKKISNLFERMRKERKKNRG--LEMDLMFTQCLAGKDMNNFDCLEDLKDLDHLLKEKIKVIADKIECEMGLK 160 (177)
Q Consensus 90 l~~~~~kl~e~l~k~~~~~~~--~e~~~l~~~~~~~~~~l~~Ls~eeL~~l~~~Le~~l~~v~~r~~~~l~~~ 160 (177)
+..++..+++++..++.+... .++..+. ..++.+||......|+..+..+.+|+.. |...
T Consensus 77 ld~ei~~L~~el~~l~~~~k~l~~eL~~L~----------~~~t~~el~~~i~~l~~e~~~l~~kL~~-l~~~ 138 (169)
T PF07106_consen 77 LDAEIKELREELAELKKEVKSLEAELASLS----------SEPTNEELREEIEELEEEIEELEEKLEK-LRSG 138 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh----------cCCCHHHHHHHHHHHHHHHHHHHHHHHH-HHhC
Confidence 344566677777666655442 2333332 5778899999999999999999999998 6543
No 12
>PF06698 DUF1192: Protein of unknown function (DUF1192); InterPro: IPR009579 This family consists of several short, hypothetical, bacterial proteins of around 60 residues in length. The function of this family is unknown.
Probab=81.01 E-value=4.9 Score=24.81 Aligned_cols=32 Identities=19% Similarity=0.201 Sum_probs=27.7
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 040635 124 KDMNNFDCLEDLKDLDHLLKEKIKVIADKIEC 155 (177)
Q Consensus 124 ~~~l~~Ls~eeL~~l~~~Le~~l~~v~~r~~~ 155 (177)
|.+++.||++||.+-...|+.-+..++.-+..
T Consensus 15 g~dLs~lSv~EL~~RIa~L~aEI~R~~~~~~~ 46 (59)
T PF06698_consen 15 GEDLSLLSVEELEERIALLEAEIARLEAAIAK 46 (59)
T ss_pred CCCchhcCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 67899999999999999999888887776665
No 13
>PF10584 Proteasome_A_N: Proteasome subunit A N-terminal signature; InterPro: IPR000426 The proteasome (or macropain) (3.4.25.1 from EC) [, , , , ] is a eukaryotic and archaeal multicatalytic proteinase complex that seems to be involved in an ATP/ubiquitin-dependent nonlysosomal proteolytic pathway. In eukaryotes the proteasome is composed of about 28 distinct subunits which form a highly ordered ring-shaped structure (20S ring) of about 700 kDa. Most proteasome subunits can be classified, on the basis on sequence similarities into two groups, alpha (A) and beta (B). This family contains the alpha subunit sequences which range from 210 to 290 amino acids. These sequences are classified as non-peptidase homologues in MEROPS peptidase family T1 (clan PB(T)). ; GO: 0004175 endopeptidase activity, 0006511 ubiquitin-dependent protein catabolic process, 0019773 proteasome core complex, alpha-subunit complex; PDB: 3H4P_M 1IRU_O 3UN4_U 1FNT_A 3OEV_G 3OEU_U 3SDK_U 3DY3_G 3MG7_G 3L5Q_C ....
Probab=80.33 E-value=0.29 Score=24.32 Aligned_cols=14 Identities=0% Similarity=-0.218 Sum_probs=10.5
Q ss_pred eeeEEeecCCCCCc
Q 040635 43 ACAIICASFDHQPE 56 (177)
Q Consensus 43 va~ivfsp~gk~~~ 56 (177)
-.+.+|||+|+++.
T Consensus 3 ~~~t~FSp~Grl~Q 16 (23)
T PF10584_consen 3 RSITTFSPDGRLFQ 16 (23)
T ss_dssp SSTTSBBTTSSBHH
T ss_pred CCceeECCCCeEEe
Confidence 34668999999754
No 14
>PTZ00046 rifin; Provisional
Probab=79.32 E-value=6.3 Score=33.19 Aligned_cols=27 Identities=22% Similarity=0.509 Sum_probs=19.3
Q ss_pred hccCCceeeEEeecCCCCCcccCCchHHHHHHHHhhc
Q 040635 37 TLCGVTACAIICASFDHQPEIWPSPAEAVRVLDKFNN 73 (177)
Q Consensus 37 ~LC~~~va~ivfsp~gk~~~~~ps~~~v~~vl~ry~~ 73 (177)
+||..|. |+| . |=++|.|++|.+.|..
T Consensus 40 ~LcECeL----Y~p-n-----YDNDPeMK~Vme~F~r 66 (358)
T PTZ00046 40 LLCECEL----YSS-N-----YDNDPEMKSVMENFDR 66 (358)
T ss_pred hhhhhhc----CCC-C-----CCCcHHHHHHHHHHhH
Confidence 5777765 555 2 2367899999999965
No 15
>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms]
Probab=76.58 E-value=24 Score=26.69 Aligned_cols=56 Identities=16% Similarity=0.204 Sum_probs=38.3
Q ss_pred HHHHHHHHHHHHHHHHHHhh--hHHHHHHHHHhhcCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 040635 90 LSKKISNLFERMRKERKKNR--GLEMDLMFTQCLAGKDMNNFDCLEDLKDLDHLLKEKIKVIADKIEC 155 (177)
Q Consensus 90 l~~~~~kl~e~l~k~~~~~~--~~e~~~l~~~~~~~~~~l~~Ls~eeL~~l~~~Le~~l~~v~~r~~~ 155 (177)
|...+.++.++++.+++... +.|++.+- ..|+++|++.-...|..-...-++|+..
T Consensus 84 ld~~i~~l~ek~q~l~~t~s~veaEik~L~----------s~Lt~eemQe~i~~L~kev~~~~erl~~ 141 (201)
T KOG4603|consen 84 LDGKIVALTEKVQSLQQTCSYVEAEIKELS----------SALTTEEMQEEIQELKKEVAGYRERLKN 141 (201)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HhcChHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44556667777777766554 34444443 4678888888888888888888888777
No 16
>PF09432 THP2: Tho complex subunit THP2; InterPro: IPR018557 The THO complex plays a role in coupling transcription elongation to mRNA export. It is composed of subunits THP2, HPR1, THO2 and MFT1 [].
Probab=76.02 E-value=26 Score=25.09 Aligned_cols=19 Identities=32% Similarity=0.646 Sum_probs=16.0
Q ss_pred ccCCchHHHHHHHHhhcCc
Q 040635 57 IWPSPAEAVRVLDKFNNFP 75 (177)
Q Consensus 57 ~~ps~~~v~~vl~ry~~~~ 75 (177)
-||++..+.+||+.|...+
T Consensus 33 ~~~pP~el~~iLe~y~~~~ 51 (132)
T PF09432_consen 33 DWNPPKELQSILEKYNTPS 51 (132)
T ss_pred CCCCCHHHHHHHHHHcCCC
Confidence 4888889999999998743
No 17
>TIGR01477 RIFIN variant surface antigen, rifin family. This model represents the rifin branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of rifin sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 20 bits.
Probab=69.41 E-value=15 Score=30.95 Aligned_cols=27 Identities=19% Similarity=0.491 Sum_probs=18.4
Q ss_pred hccCCceeeEEeecCCCCCcccCCchHHHHHHHHhhc
Q 040635 37 TLCGVTACAIICASFDHQPEIWPSPAEAVRVLDKFNN 73 (177)
Q Consensus 37 ~LC~~~va~ivfsp~gk~~~~~ps~~~v~~vl~ry~~ 73 (177)
+||..|. |+ .. |=++|.|++|.+.|..
T Consensus 43 ~LcECeL----y~-~n-----YDNDPeMK~Vm~nF~r 69 (353)
T TIGR01477 43 SLCECEL----YS-SN-----YDNDPEMKSVMEQFDR 69 (353)
T ss_pred hhhhhhc----cc-cc-----CCCcHHHHHHHHHHhH
Confidence 4776665 44 22 2367899999999975
No 18
>PF10555 MraY_sig1: Phospho-N-acetylmuramoyl-pentapeptide-transferase signature 1 ; InterPro: IPR018480 Phospho-N-acetylmuramoyl-pentapeptide-transferase (2.7.8.13 from EC) (MraY) is a bacterial enzyme responsible for the formation of the first lipid intermediate of the cell wall peptidoglycan synthesis []. It catalyses the formation of undecaprenyl-pyrophosphoryl-N-acetylmuramoyl-pentapeptide from UDP-MurNAc-pentapeptide and undecaprenyl-phosphate. MraY is an integral membrane protein with probably ten transmembrane domains. It belongs to family 4 of glycosyl transferases. Homologues of MraY have been found in archaebacteria Methanobacterium thermoautotrophicum and in Arabidopsis thaliana (Mouse-ear cress). This entry represents two conserved sites found in these proteins. The first site is located at the end of the first cytoplasmic loop and the beginning of the second transmembrane domain. The second site is located in the third cytoplasmic loop.
Probab=62.25 E-value=2.8 Score=17.77 Aligned_cols=6 Identities=67% Similarity=1.204 Sum_probs=4.7
Q ss_pred ccCCCC
Q 040635 172 RPTKGG 177 (177)
Q Consensus 172 ~~~~~~ 177 (177)
-|+|||
T Consensus 4 TPTMGG 9 (13)
T PF10555_consen 4 TPTMGG 9 (13)
T ss_pred Ccccee
Confidence 488887
No 19
>PF08432 Vfa1: AAA-ATPase Vps4-associated protein 1; InterPro: IPR013640 This is a family of fungal proteins of unknown function.
Probab=59.54 E-value=13 Score=28.19 Aligned_cols=26 Identities=12% Similarity=0.169 Sum_probs=13.6
Q ss_pred hhccCCceeeEEeecCCC-CCcccCCc
Q 040635 36 TTLCGVTACAIICASFDH-QPEIWPSP 61 (177)
Q Consensus 36 s~LC~~~va~ivfsp~gk-~~~~~ps~ 61 (177)
|.-|-=+-..|.+.|+++ ++++||+|
T Consensus 16 C~IC~KpsttVL~t~~~~DfFY~C~~H 42 (182)
T PF08432_consen 16 CFICYKPSTTVLITPDNKDFFYVCPSH 42 (182)
T ss_pred eeEecCCCceEEecCCCCCeEEeCccc
Confidence 333433444444455455 56678876
No 20
>PRK13848 conjugal transfer protein TraC; Provisional
Probab=57.18 E-value=58 Score=22.01 Aligned_cols=23 Identities=13% Similarity=0.368 Sum_probs=16.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHhhh
Q 040635 88 TFLSKKISNLFERMRKERKKNRG 110 (177)
Q Consensus 88 ~~l~~~~~kl~e~l~k~~~~~~~ 110 (177)
.-+..++.+|+++++.......+
T Consensus 6 s~I~~eI~kLqe~lk~~e~keAE 28 (98)
T PRK13848 6 SKIREEIAKLQEQLKQAETREAE 28 (98)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34667888898888777665444
No 21
>TIGR01478 STEVOR variant surface antigen, stevor family. This model represents the stevor branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of stevor sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 8 bits.
Probab=55.25 E-value=35 Score=27.88 Aligned_cols=45 Identities=16% Similarity=0.215 Sum_probs=31.7
Q ss_pred ceeeccCCCcccchhhcccchhhhhhhhhhhccCCceeeEEeecCCCCCcccCCchHHHHHHHHhhc
Q 040635 7 QHELISKESVRKVTFKKRRAGLKKKLSELTTLCGVTACAIICASFDHQPEIWPSPAEAVRVLDKFNN 73 (177)
Q Consensus 7 ~i~~I~n~~~R~vtf~KRr~GL~KKA~ELs~LC~~~va~ivfsp~gk~~~~~ps~~~v~~vl~ry~~ 73 (177)
.+..|.|.+.|..+=++ .||..|.+ +.| . |=++|+|++|+|.|..
T Consensus 25 n~~li~n~tqr~t~~sR-------------~L~Ecel~---~~p-----~-Y~nDpEmK~iid~~n~ 69 (295)
T TIGR01478 25 NVSYIQNNTQMTSTKSR-------------LLAEIQRP---KNP-----H-YHNDPELKEIIDKLNE 69 (295)
T ss_pred ceecccCccccccccce-------------ehhhhccc---cCC-----C-CCCcHHHHHHHHHHhH
Confidence 56788888888766332 47777765 444 2 3367899999999975
No 22
>KOG3048 consensus Molecular chaperone Prefoldin, subunit 5 [Posttranslational modification, protein turnover, chaperones]
Probab=53.40 E-value=33 Score=25.14 Aligned_cols=32 Identities=16% Similarity=0.186 Sum_probs=26.5
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 040635 124 KDMNNFDCLEDLKDLDHLLKEKIKVIADKIEC 155 (177)
Q Consensus 124 ~~~l~~Ls~eeL~~l~~~Le~~l~~v~~r~~~ 155 (177)
+.++..||+++|.++.+++|.-+.-+..-+..
T Consensus 7 ~idltkLsleQL~~lk~q~dqEl~~lq~Sl~~ 38 (153)
T KOG3048|consen 7 GIDLTKLSLEQLGALKKQFDQELNFLQDSLNA 38 (153)
T ss_pred CCChhhCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45788999999999999998888777776666
No 23
>PF14723 SSFA2_C: Sperm-specific antigen 2 C-terminus
Probab=50.33 E-value=18 Score=27.22 Aligned_cols=20 Identities=15% Similarity=0.564 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 040635 133 EDLKDLDHLLKEKIKVIADK 152 (177)
Q Consensus 133 eeL~~l~~~Le~~l~~v~~r 152 (177)
.||++||.+|++.+..+++.
T Consensus 159 qElqELE~QL~DRl~~l~e~ 178 (179)
T PF14723_consen 159 QELQELEFQLEDRLLQLREQ 178 (179)
T ss_pred HHHHHHHHHHHHHHHHHHcc
Confidence 57778888888887777653
No 24
>PRK00182 tatB sec-independent translocase; Provisional
Probab=50.25 E-value=9.9 Score=28.34 Aligned_cols=36 Identities=14% Similarity=0.068 Sum_probs=24.6
Q ss_pred hhhhccCCceeeEEeecCCCCCcccCCchHHHHHHHHhhcCc
Q 040635 34 ELTTLCGVTACAIICASFDHQPEIWPSPAEAVRVLDKFNNFP 75 (177)
Q Consensus 34 ELs~LC~~~va~ivfsp~gk~~~~~ps~~~v~~vl~ry~~~~ 75 (177)
||-+++ =||||||+|. ++|.+- ..+...+..|++..
T Consensus 9 EllvIl--vIaLlVfGPe-rLP~~~---r~lg~~ir~~R~~~ 44 (160)
T PRK00182 9 EILLLL--IVGLIVIGPE-RLPRLI---EDVRAALLAARTAI 44 (160)
T ss_pred HHHHHH--HHHHHhcCch-HHHHHH---HHHHHHHHHHHHHH
Confidence 555554 4789999997 577742 35777888887643
No 25
>PF10491 Nrf1_DNA-bind: NLS-binding and DNA-binding and dimerisation domains of Nrf1; InterPro: IPR019525 Nuclear respiratory factor-1 is a transcriptional activator that has been implicated in the nuclear control of respiratory chain expression in vertebrates. The first 26 amino acids of nuclear respiratory factor-1 are required for the binding of dynein light chain. The interaction with dynein light chain is observed for both ewg and Nrf-1, transcription factors that are structurally and functionally similar between humans and Drosophila []. In Drosophila, the erect wing (ewg) protein is required for proper development of the central nervous system and the indirect flight muscles. The fly ewg gene encodes a novel DNA-binding domain that is also found in four genes previously identified in sea urchin, chicken, zebrafish, and human []. The highest level of expression of both ewg and Nrf-1 was found in the central nervous system, somites, first branchial arch, optic vesicle, and otic vesicle. In the mouse Nrf-1 protein, Q8C4C0 from SWISSPROT, there is also an NLS domain at 88-116, and a DNA binding and dimerisation domain at 127-282. Ewg is a site-specific transcriptional activator, and evolutionarily conserved regions of ewg contribute both positively and negatively to transcriptional activity [].
Probab=50.10 E-value=23 Score=27.53 Aligned_cols=47 Identities=21% Similarity=0.316 Sum_probs=36.1
Q ss_pred chhhhh----hhhhhhccCCceeeEEeecCCC--CCcccCCchHHHHHHHHhhc
Q 040635 26 AGLKKK----LSELTTLCGVTACAIICASFDH--QPEIWPSPAEAVRVLDKFNN 73 (177)
Q Consensus 26 ~GL~KK----A~ELs~LC~~~va~ivfsp~gk--~~~~~ps~~~v~~vl~ry~~ 73 (177)
+-|+.| ..|++|-+|-.+.|+|.+|+.. .+.+|.. ..++.|+..|+.
T Consensus 35 ~rllrkl~~~~de~~trvGqqavvl~~~p~kp~~~f~vfGa-~pL~~vv~~~~~ 87 (214)
T PF10491_consen 35 TRLLRKLRQTIDEYTTRVGQQAVVLCCTPSKPNPVFKVFGA-APLENVVRNLKP 87 (214)
T ss_pred HHHHHHHHHHHHHHHHhhhceeEEEEecCCCCCCceeeecc-hhHHHHHHHHHH
Confidence 345555 4699999999999999999854 3456754 468999999975
No 26
>PF07820 TraC: TraC-like protein; InterPro: IPR012930 The members of this family are sequences that are similar to TraC (Q84HT8 from SWISSPROT) from Rhizobium etli. The gene encoding this protein is one of a group of genes found on plasmid p42a of Rhizobium etli (strain CFN 42/ATCC 51251) that are thought to be involved in the process of plasmid self-transmission. Mobilisation of plasmid p42a is of importance as it is required for transfer of plasmid p42d, the symbiotic plasmid which carries most of the genes required for nodulation and nitrogen fixation by this symbiotic bacterium. The predicted protein products of p42a are similar to known transfer proteins of Agrobacterium tumefaciens plasmid pTiC58 []. ; GO: 0000746 conjugation
Probab=49.86 E-value=78 Score=21.33 Aligned_cols=59 Identities=14% Similarity=0.110 Sum_probs=30.6
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHhhcCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q 040635 89 FLSKKISNLFERMRKERKKNRGLEMDLMFTQCLAGKDMNNFDCLEDLKDLDHLLKEKIKVIADKIE 154 (177)
Q Consensus 89 ~l~~~~~kl~e~l~k~~~~~~~~e~~~l~~~~~~~~~~l~~Ls~eeL~~l~~~Le~~l~~v~~r~~ 154 (177)
-+..++.+|+++++.......++ +..+.. .-+|.+|.+++= +|...+++.....+.-..
T Consensus 6 ~I~~eIekLqe~lk~~e~keaER-igr~Al-----KaGL~eieI~d~-eL~~~FeeIa~RFrk~~~ 64 (92)
T PF07820_consen 6 KIREEIEKLQEQLKQAETKEAER-IGRIAL-----KAGLGEIEISDA-ELQAAFEEIAARFRKGKK 64 (92)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH-HHHHHH-----HcccccccCCHH-HHHHHHHHHHHHHhcccc
Confidence 46678888888887776544432 222221 234555554443 344445554444444333
No 27
>PF11232 Med25: Mediator complex subunit 25 PTOV activation and synapsin 2; InterPro: IPR021394 Mediator is a large complex of up to 33 proteins that is conserved from plants to fungi to humans - the number and representation of individual subunits varying with species [],[]. It is arranged into four different sections, a core, a head, a tail and a kinase-active part, and the number of subunits within each of these is what varies with species. Overall, Mediator regulates the transcriptional activity of RNA polymerase II but it would appear that each of the four different sections has a slightly different function []. The overall function of the full-length Med25 is efficiently to coordinate the transcriptional activation of RAR/RXR (retinoic acid receptor/retinoic X receptor) in higher eukaryotic cells. Human Med25 consists of several domains with different binding properties, the N-terminal, VWA domain, an SD1 - synapsin 1 - domain from residues 229-381, a PTOV(B) or ACID domain from 395-545, an SD2 domain from residues 564-645 and a C-terminal NR box-containing domain (646-650) from 646-747. This family is the combined PTOV and SD2 domains. the PTOV domain being the domain through which Med25 co-operates with the histone acetyltransferase CBP, but the function of the SD2 domain is unclear []. ; PDB: 2KY6_A 2L23_A 2XNF_A 2L6U_A.
Probab=49.73 E-value=14 Score=27.31 Aligned_cols=25 Identities=8% Similarity=0.191 Sum_probs=18.6
Q ss_pred hccCCceeeEEeecCCCCCc-ccCCc
Q 040635 37 TLCGVTACAIICASFDHQPE-IWPSP 61 (177)
Q Consensus 37 ~LC~~~va~ivfsp~gk~~~-~~ps~ 61 (177)
.-|++.|-+++|||..+.+. +-|.+
T Consensus 109 p~c~iKvL~LlYs~kk~~flG~IP~D 134 (152)
T PF11232_consen 109 PPCEIKVLMLLYSPKKKAFLGFIPND 134 (152)
T ss_dssp SSSS-SEEEEEEETTTTEEEEEEEST
T ss_pred CCCceEEEEEEEcCCCceEEEEcCCC
Confidence 56999999999999988543 45654
No 28
>PF04417 DUF501: Protein of unknown function (DUF501); InterPro: IPR007511 This is a family of uncharacterised bacterial proteins.
Probab=47.39 E-value=94 Score=22.51 Aligned_cols=37 Identities=14% Similarity=0.267 Sum_probs=26.5
Q ss_pred cCCceeeEEee--cCCC-CC-cccCCchHHHHHHHHhhcCc
Q 040635 39 CGVTACAIICA--SFDH-QP-EIWPSPAEAVRVLDKFNNFP 75 (177)
Q Consensus 39 C~~~va~ivfs--p~gk-~~-~~~ps~~~v~~vl~ry~~~~ 75 (177)
||.+..+.++- ++|+ +| .||=..|.+...++|.....
T Consensus 7 ~G~P~Vi~~~P~l~~g~PFPTlfwLtcP~L~~~isrLE~~G 47 (139)
T PF04417_consen 7 CGFPQVIRTAPRLVDGKPFPTLFWLTCPYLVKAISRLEAEG 47 (139)
T ss_pred CCCCeEEEeccCCCCCccCCccHhhcCHHHHHHHHHHHhcC
Confidence 57777766663 4666 44 36877789999999998644
No 29
>KOG4316 consensus Uncharacterized conserved protein [Function unknown]
Probab=46.73 E-value=9.4 Score=27.98 Aligned_cols=45 Identities=16% Similarity=0.136 Sum_probs=26.2
Q ss_pred hhhhhccCCceeeEEee----cCCC-CCcccCC----chHHHHHHHHhhcCccc
Q 040635 33 SELTTLCGVTACAIICA----SFDH-QPEIWPS----PAEAVRVLDKFNNFPIK 77 (177)
Q Consensus 33 ~ELs~LC~~~va~ivfs----p~gk-~~~~~ps----~~~v~~vl~ry~~~~~~ 77 (177)
+++++||+++..+.--. |+.- -..+|+. --.|.+|||||..+.-.
T Consensus 43 ~a~~~lcq~p~vla~r~a~~~Ps~~r~~t~Fs~~kGkrktvkaVldRFkRL~~G 96 (172)
T KOG4316|consen 43 SARNLLCQHPSVLANRMAPVLPSVVRSLTYFSARKGKRKTVKAVLDRFKRLHCG 96 (172)
T ss_pred hHHHhHhcCcHHHHhccCCCCcchhhhhhhhhhhhcccccHHHHHHHHHhcccC
Confidence 57899998876554211 2211 0112221 14699999999987543
No 30
>PRK00708 sec-independent translocase; Provisional
Probab=46.42 E-value=28 Score=27.12 Aligned_cols=36 Identities=11% Similarity=0.246 Sum_probs=23.2
Q ss_pred hhhhccCCceeeEEeecCCCCCcccCCchHHHHHHHHhhcCc
Q 040635 34 ELTTLCGVTACAIICASFDHQPEIWPSPAEAVRVLDKFNNFP 75 (177)
Q Consensus 34 ELs~LC~~~va~ivfsp~gk~~~~~ps~~~v~~vl~ry~~~~ 75 (177)
||-++. =|+||||+|.. +|..- ..+...+.+|+.+.
T Consensus 8 ELlvI~--vVaLvV~GPkr-LP~~~---R~lGk~v~k~R~~a 43 (209)
T PRK00708 8 ELLVIA--IVLIVVVGPKD-LPPML---RAFGKMTARMRKMA 43 (209)
T ss_pred HHHHHH--HHHHhhcCchH-HHHHH---HHHHHHHHHHHHHH
Confidence 444443 37889999984 66541 35777777777543
No 31
>COG4575 ElaB Uncharacterized conserved protein [Function unknown]
Probab=45.20 E-value=1e+02 Score=21.30 Aligned_cols=28 Identities=11% Similarity=0.096 Sum_probs=25.8
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 040635 128 NFDCLEDLKDLDHLLKEKIKVIADKIEC 155 (177)
Q Consensus 128 ~~Ls~eeL~~l~~~Le~~l~~v~~r~~~ 155 (177)
.+.+-+++.++...++..|++++.|+..
T Consensus 32 g~~a~~e~~~lR~r~~~~Lk~~r~rl~~ 59 (104)
T COG4575 32 GSLAGDEAEELRSKAESALKEARDRLGD 59 (104)
T ss_pred ccchhhHHHHHHHHHHHHHHHHHHHHHh
Confidence 5778899999999999999999999987
No 32
>TIGR03007 pepcterm_ChnLen polysaccharide chain length determinant protein, PEP-CTERM locus subfamily. Members of this protein family belong to the family of polysaccharide chain length determinant proteins (pfam02706). All are found in species that encode the PEP-CTERM/exosortase system predicted to act in protein sorting in a number of Gram-negative bacteria, and are found near the epsH homolog that is the putative exosortase gene.
Probab=44.81 E-value=2.1e+02 Score=24.86 Aligned_cols=45 Identities=9% Similarity=0.180 Sum_probs=28.0
Q ss_pred HHHHHHHhhcCccccccccccchhhhHHHHHHHHHHHHHHHHHHh
Q 040635 64 AVRVLDKFNNFPIKRRGKYMMNQNTFLSKKISNLFERMRKERKKN 108 (177)
Q Consensus 64 v~~vl~ry~~~~~~~~~k~~~~~~~~l~~~~~kl~e~l~k~~~~~ 108 (177)
++.+++.|.......+.....+...|+.+++.++++++...+...
T Consensus 140 ~n~l~~~yi~~~~~~~~~~~~~~~~fl~~ql~~~~~~L~~ae~~l 184 (498)
T TIGR03007 140 VQTLLTIFVEETLGSKRQDSDSAQRFIDEQIKTYEKKLEAAENRL 184 (498)
T ss_pred HHHHHHHHHHhhcccchhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555666677654332222222345789999999998887766543
No 33
>PF02009 Rifin_STEVOR: Rifin/stevor family; InterPro: IPR002858 Malaria is still a major cause of mortality in many areas of the world. Plasmodium falciparum causes the most severe human form of the disease and is responsible for most fatalities. Severe cases of malaria can occur when the parasite invades and then proliferates within red blood cell erythrocytes. The parasite produces many variant antigenic proteins, encoded by multigene families, which are present on the surface of the infected erythrocyte and play important roles in virulence. A crucial survival mechanism for the malaria parasite is its ability to evade the immune response by switching these variant surface antigens. The high virulence of P. falciparum relative to other malarial parasites is in large part due to the fact that in this organism many of these surface antigens mediate the binding of infected erythrocytes to the vascular endothelium (cytoadherence) and non-infected erythrocytes (rosetting). This can lead to the accumulation of infected cells in the vasculature of a variety of organs, blocking the blood flow and reducing the oxygen supply. Clinical symptoms of severe infection can include fever, progressive anaemia, multi-organ dysfunction and coma. For more information see []. Several multicopy gene families have been described in Plasmodium falciparum, including the stevor family of subtelomeric open reading frames and the rif interspersed repetitive elements. Both families contain three predicted transmembrane segments. It has been proposed that stevor and rif are members of a larger superfamily that code for variant surface antigens [].
Probab=44.67 E-value=54 Score=27.04 Aligned_cols=14 Identities=21% Similarity=0.494 Sum_probs=12.2
Q ss_pred CchHHHHHHHHhhc
Q 040635 60 SPAEAVRVLDKFNN 73 (177)
Q Consensus 60 s~~~v~~vl~ry~~ 73 (177)
++|.|++|++.|.+
T Consensus 33 NDPeMK~Vme~F~r 46 (299)
T PF02009_consen 33 NDPEMKSVMENFDR 46 (299)
T ss_pred CcHHHHHHHHHHHH
Confidence 67899999999975
No 34
>KOG0854 consensus Alkyl hydroperoxide reductase, thiol specific antioxidant and related enzymes [Posttranslational modification, protein turnover, chaperones]
Probab=41.32 E-value=27 Score=26.68 Aligned_cols=30 Identities=20% Similarity=0.380 Sum_probs=21.7
Q ss_pred eeeEEeecCCC--CCcccCCc-----hHHHHHHHHhh
Q 040635 43 ACAIICASFDH--QPEIWPSP-----AEAVRVLDKFN 72 (177)
Q Consensus 43 va~ivfsp~gk--~~~~~ps~-----~~v~~vl~ry~ 72 (177)
-||.|++|+.| +.++||+. .++-.+|+..+
T Consensus 132 Ravfvi~pdkKirLs~lYP~ttGRN~dEiLRvidsLq 168 (224)
T KOG0854|consen 132 RAVFVIDPDKKIRLSFLYPSTTGRNFDEILRVIDSLQ 168 (224)
T ss_pred EEEEEECCCceEEEEEEcccccCcCHHHHHHHHHHHh
Confidence 46889999987 57789976 34555666665
No 35
>PF11629 Mst1_SARAH: C terminal SARAH domain of Mst1; InterPro: IPR024205 The SARAH (Sav/Rassf/Hpo) domain is found at the C terminus in three classes of eukaryotic tumour suppressors that give the domain its name. In the Sav (Salvador) and Hpo (Hippo) families, the SARAH domain mediates signal transduction from Hpo via the Sav scaffolding protein to the downstream component Wts (Warts); the phosphorylation of Wts by Hpo triggers cell cycle arrest and apoptosis by down-regulating cyclin E, Diap 1 and other targets []. The SARAH domain is also involved in dimerisation, as in the human Hpo orthologue, Mst1, which homodimerises via its C-terminal SARAH domain. The SARAH domain is found associated with other domains, such as protein kinase domains, WW/rsp5/WWP domain (IPR001202 from INTERPRO), C1 domain (IPR002219 from INTERPRO), LIM domain (IPR001781 from INTERPRO), or the Ras-associating (RA) domain (IPR000159 from INTERPRO).; GO: 0004674 protein serine/threonine kinase activity; PDB: 2JO8_A.
Probab=36.72 E-value=65 Score=19.04 Aligned_cols=28 Identities=18% Similarity=0.272 Sum_probs=17.4
Q ss_pred CCCCCHHHHHHHHHHH----HHHHHHHHHHHH
Q 040635 127 NNFDCLEDLKDLDHLL----KEKIKVIADKIE 154 (177)
Q Consensus 127 l~~Ls~eeL~~l~~~L----e~~l~~v~~r~~ 154 (177)
+..+|.+||++....| |.-+.+++.|=.
T Consensus 5 Lk~ls~~eL~~rl~~LD~~ME~Eieelr~RY~ 36 (49)
T PF11629_consen 5 LKFLSYEELQQRLASLDPEMEQEIEELRQRYQ 36 (49)
T ss_dssp GGGS-HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HhhCCHHHHHHHHHhCCHHHHHHHHHHHHHHH
Confidence 4578888887766655 555666666543
No 36
>PF13252 DUF4043: Protein of unknown function (DUF4043)
Probab=36.03 E-value=20 Score=30.14 Aligned_cols=29 Identities=17% Similarity=0.120 Sum_probs=22.3
Q ss_pred hhhhhhhccCCceeeEEeecC-CCCCcccC
Q 040635 31 KLSELTTLCGVTACAIICASF-DHQPEIWP 59 (177)
Q Consensus 31 KA~ELs~LC~~~va~ivfsp~-gk~~~~~p 59 (177)
.+-.-++|||+.++++.|+.. +..+++|.
T Consensus 270 ~~v~ralLlGaQA~~~A~G~~~~~~~~~w~ 299 (341)
T PF13252_consen 270 VAVARALLLGAQALVIAFGKSGSGMRFFWV 299 (341)
T ss_pred cceeeeeeechhheeeeeeccCCCcccccc
Confidence 344557899999999999994 44666786
No 37
>KOG4637 consensus Adaptor for phosphoinositide 3-kinase [Signal transduction mechanisms]
Probab=36.00 E-value=37 Score=28.91 Aligned_cols=43 Identities=9% Similarity=0.099 Sum_probs=28.5
Q ss_pred hhhhhccCCce--eeEEeecCCCCCcccCCc--hHHHHHHHHhhcCcc
Q 040635 33 SELTTLCGVTA--CAIICASFDHQPEIWPSP--AEAVRVLDKFNNFPI 76 (177)
Q Consensus 33 ~ELs~LC~~~v--a~ivfsp~gk~~~~~ps~--~~v~~vl~ry~~~~~ 76 (177)
+-|||+||-+| |||--...|= -|--|-+ +++.+.+..|+..+-
T Consensus 367 yalSV~~~~~V~HClIy~tatG~-GFa~pyn~y~tlk~lV~hY~h~SL 413 (464)
T KOG4637|consen 367 YALSVVHDGEVKHCLIYQTATGF-GFAEPYNLYSTLKELVLHYQHTSL 413 (464)
T ss_pred eEEEEEECCceeeeEEeeccccc-cccchhHHHHHHHHHHHHHhhhhH
Confidence 46899998766 6666555662 1222322 679999999987653
No 38
>PF11944 DUF3461: Protein of unknown function (DUF3461); InterPro: IPR020911 This entry describes proteins of unknown function.
Probab=34.63 E-value=69 Score=22.77 Aligned_cols=24 Identities=33% Similarity=0.599 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 040635 132 LEDLKDLDHLLKEKIKVIADKIEC 155 (177)
Q Consensus 132 ~eeL~~l~~~Le~~l~~v~~r~~~ 155 (177)
++||.-|+.++..++.+|++.++.
T Consensus 101 L~dL~HLE~Vv~~KIaEIe~dlek 124 (125)
T PF11944_consen 101 LDDLRHLEKVVNSKIAEIERDLEK 124 (125)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhc
Confidence 589999999999999999999876
No 39
>PRK03100 sec-independent translocase; Provisional
Probab=34.60 E-value=17 Score=26.35 Aligned_cols=35 Identities=20% Similarity=0.242 Sum_probs=22.9
Q ss_pred hhhhccCCceeeEEeecCCCCCcccCCchHHHHHHHHhhcC
Q 040635 34 ELTTLCGVTACAIICASFDHQPEIWPSPAEAVRVLDKFNNF 74 (177)
Q Consensus 34 ELs~LC~~~va~ivfsp~gk~~~~~ps~~~v~~vl~ry~~~ 74 (177)
||-|+. =||||||+|. ++|.+- ..+...+..|+++
T Consensus 9 EllvI~--vVaLvv~GPk-rLP~~~---r~lG~~vr~~R~~ 43 (136)
T PRK03100 9 EMLVLV--VAGLVILGPE-RLPGAI---RWTARALRQARDY 43 (136)
T ss_pred HHHHHH--HHHHhhcCch-HHHHHH---HHHHHHHHHHHHH
Confidence 444443 4789999987 477642 3567777777653
No 40
>PLN03230 acetyl-coenzyme A carboxylase carboxyl transferase; Provisional
Probab=33.60 E-value=86 Score=27.23 Aligned_cols=69 Identities=16% Similarity=0.236 Sum_probs=35.8
Q ss_pred HHHHHHHHhhcCccccccccccchhhhHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHhhcCCCCCCCCCHHHHHHHHHHH
Q 040635 63 EAVRVLDKFNNFPIKRRGKYMMNQNTFLSKKISNLFERMRKERKKNRGLEMDLMFTQCLAGKDMNNFDCLEDLKDLDHLL 142 (177)
Q Consensus 63 ~v~~vl~ry~~~~~~~~~k~~~~~~~~l~~~~~kl~e~l~k~~~~~~~~e~~~l~~~~~~~~~~l~~Ls~eeL~~l~~~L 142 (177)
.+-..|.+|.-+.....+.. ++ +.+.+..|+++++.++.-.. ... -+++ +|+..|+..+
T Consensus 56 ~~~~~~~~~~~~~~~~~~~~-l~----fe~pi~ele~ki~el~~~~~--------------~~~-~~~~-~ei~~l~~~~ 114 (431)
T PLN03230 56 GALKILNRFKPLKNKPKPVT-LP----FEKPIVDLENRIDEVRELAN--------------KTG-VDFS-AQIAELEERY 114 (431)
T ss_pred cHHHHHHhcCCCCCCCCCCc-cc----hhhHHHHHHHHHHHHHhhhh--------------ccc-ccHH-HHHHHHHHHH
Confidence 34458888876654432211 11 23456677777766654211 011 1222 5677777776
Q ss_pred HHHHHHHHHH
Q 040635 143 KEKIKVIADK 152 (177)
Q Consensus 143 e~~l~~v~~r 152 (177)
++..+++...
T Consensus 115 ~~~~~~i~~~ 124 (431)
T PLN03230 115 DQVRRELYSR 124 (431)
T ss_pred HHHHHHHHhc
Confidence 6666655543
No 41
>PRK14860 tatA twin arginine translocase protein A; Provisional
Probab=32.66 E-value=8.9 Score=24.07 Aligned_cols=37 Identities=11% Similarity=0.187 Sum_probs=26.0
Q ss_pred hhhhccCCceeeEEeecCCCCCcccCCchHHHHHHHHhhcCcc
Q 040635 34 ELTTLCGVTACAIICASFDHQPEIWPSPAEAVRVLDKFNNFPI 76 (177)
Q Consensus 34 ELs~LC~~~va~ivfsp~gk~~~~~ps~~~v~~vl~ry~~~~~ 76 (177)
||-+++= ||+|||+|. ++|.+ . .++...+..|++...
T Consensus 8 ElliI~v--IalllfGp~-kLP~l--~-r~lGk~ir~fkk~~~ 44 (64)
T PRK14860 8 ELIVILV--IALVVFGPA-KLPQL--G-QALGGAIRNFKKASN 44 (64)
T ss_pred HHHHHHH--HHHhhcCch-HHHHH--H-HHHHHHHHHHHHHcc
Confidence 5555553 789999998 67764 1 467888888887543
No 42
>PF09151 DUF1936: Domain of unknown function (DUF1936); InterPro: IPR015234 This domain is found in a set of hypothetical archaeal proteins. Its exact function has not, as yet, been defined. ; PDB: 2QH1_B 1PVM_B.
Probab=32.29 E-value=29 Score=18.46 Aligned_cols=21 Identities=19% Similarity=0.241 Sum_probs=15.6
Q ss_pred hhhccCCceeeEEeecCCCCC
Q 040635 35 LTTLCGVTACAIICASFDHQP 55 (177)
Q Consensus 35 Ls~LC~~~va~ivfsp~gk~~ 55 (177)
||--|||-|-+-||...|..-
T Consensus 3 lcpkcgvgvl~pvy~~kgeik 23 (36)
T PF09151_consen 3 LCPKCGVGVLEPVYNQKGEIK 23 (36)
T ss_dssp B-TTTSSSBEEEEE-TTS-EE
T ss_pred cCCccCceEEEEeecCCCcEE
Confidence 677899999999999999743
No 43
>PF02416 MttA_Hcf106: mttA/Hcf106 family; InterPro: IPR003369 Members of this protein family are involved in a sec-independent translocation mechanism. This pathway has been called the DeltapH pathway in chloroplasts []. Members of this family in Escherichia coli are involved in export of redox proteins with a "twin arginine" leader motif (S/T-R-R-X-F-L-K) []. This sec-independent pathway is termed TAT for twin-arginine translocation system. This system mainly transports proteins with bound cofactors that require folding prior to export.; GO: 0008565 protein transporter activity, 0015031 protein transport; PDB: 2L16_A.
Probab=32.28 E-value=6.1 Score=23.70 Aligned_cols=28 Identities=11% Similarity=0.275 Sum_probs=18.2
Q ss_pred eeeEEeecCCCCCcccCCchHHHHHHHHhhcC
Q 040635 43 ACAIICASFDHQPEIWPSPAEAVRVLDKFNNF 74 (177)
Q Consensus 43 va~ivfsp~gk~~~~~ps~~~v~~vl~ry~~~ 74 (177)
|++|+|+|. ++|.+ . .++...+..|++.
T Consensus 12 valllfGp~-kLP~~-~--r~lG~~ir~fk~~ 39 (53)
T PF02416_consen 12 VALLLFGPK-KLPEL-A--RSLGKAIREFKKA 39 (53)
T ss_dssp HHHHHS-TT-THHHH-H--HHHHHHHHHHHHH
T ss_pred HHHHHhCch-HHHHH-H--HHHHHHHHHHHHH
Confidence 678899996 57764 1 3566777777653
No 44
>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]
Probab=32.22 E-value=1.7e+02 Score=25.41 Aligned_cols=68 Identities=9% Similarity=0.053 Sum_probs=44.0
Q ss_pred cCCceeeEEeecCCCCCc-ccC--CchHHHHHHHHhhcCccccccccccchhhhHHHHHHHHHHHHHHHHH
Q 040635 39 CGVTACAIICASFDHQPE-IWP--SPAEAVRVLDKFNNFPIKRRGKYMMNQNTFLSKKISNLFERMRKERK 106 (177)
Q Consensus 39 C~~~va~ivfsp~gk~~~-~~p--s~~~v~~vl~ry~~~~~~~~~k~~~~~~~~l~~~~~kl~e~l~k~~~ 106 (177)
.-||+|++|.+....-++ .+. +.+.-..+|.|+......--....+|.-+|-.+++..+..++..+.+
T Consensus 107 sqAD~aVLVV~a~~~efE~g~~~~gQtrEH~~La~tlGi~~lIVavNKMD~v~wde~rf~ei~~~v~~l~k 177 (428)
T COG5256 107 SQADVAVLVVDARDGEFEAGFGVGGQTREHAFLARTLGIKQLIVAVNKMDLVSWDEERFEEIVSEVSKLLK 177 (428)
T ss_pred hhccEEEEEEECCCCccccccccCCchhHHHHHHHhcCCceEEEEEEcccccccCHHHHHHHHHHHHHHHH
Confidence 368999999998754222 111 22456778999987554433333445555667888888888887654
No 45
>PF13082 DUF3931: Protein of unknown function (DUF3931)
Probab=31.63 E-value=14 Score=22.11 Aligned_cols=38 Identities=18% Similarity=0.319 Sum_probs=30.0
Q ss_pred cccceeeccCCCcccchhhcccchhhhhhhhhh--hccCC
Q 040635 4 RRVQHELISKESVRKVTFKKRRAGLKKKLSELT--TLCGV 41 (177)
Q Consensus 4 ~ki~i~~I~n~~~R~vtf~KRr~GL~KKA~ELs--~LC~~ 41 (177)
+|-..--|..+....-|||--+--+-.|.+|+| +|||-
T Consensus 6 kkcnvisidgkkkksdtysypklvvenktyefssfvlcge 45 (66)
T PF13082_consen 6 KKCNVISIDGKKKKSDTYSYPKLVVENKTYEFSSFVLCGE 45 (66)
T ss_pred ccccEEEeccccccCCcccCceEEEeCceEEEEEEEEEcc
Confidence 455566788888888899988888889999997 57763
No 46
>PRK01470 tatA twin arginine translocase protein A; Provisional
Probab=31.37 E-value=10 Score=22.63 Aligned_cols=29 Identities=10% Similarity=0.189 Sum_probs=21.7
Q ss_pred eeeEEeecCCCCCcccCCchHHHHHHHHhhcCc
Q 040635 43 ACAIICASFDHQPEIWPSPAEAVRVLDKFNNFP 75 (177)
Q Consensus 43 va~ivfsp~gk~~~~~ps~~~v~~vl~ry~~~~ 75 (177)
|++|+|+|. ++|..- .++..-+..|++..
T Consensus 14 i~llvFGp~-KLP~l~---r~lG~~i~~Fk~~~ 42 (51)
T PRK01470 14 IIFVLFGAG-KLPQVM---SDLAKGLKAFKDGM 42 (51)
T ss_pred HHHHhcCch-HhHHHH---HHHHHHHHHHHHHh
Confidence 788999996 788752 45778888888643
No 47
>COG5000 NtrY Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]
Probab=31.04 E-value=36 Score=31.00 Aligned_cols=23 Identities=22% Similarity=0.127 Sum_probs=20.2
Q ss_pred hhccCCceeeEEeecCCCCCccc
Q 040635 36 TTLCGVTACAIICASFDHQPEIW 58 (177)
Q Consensus 36 s~LC~~~va~ivfsp~gk~~~~~ 58 (177)
|+|.|+.++||.|.+.|..+.+-
T Consensus 374 ~VLsgvtaGVi~~d~~g~i~t~N 396 (712)
T COG5000 374 AVLSGLTAGVIGFDNRGCITTVN 396 (712)
T ss_pred HHHhcCceeEEEEcCCCeeEeec
Confidence 69999999999999999876653
No 48
>PF09941 DUF2173: Uncharacterized conserved protein (DUF2173); InterPro: IPR018685 This family of various hypothetical prokaryotic proteins has no known function.
Probab=30.60 E-value=63 Score=22.48 Aligned_cols=38 Identities=24% Similarity=0.145 Sum_probs=25.1
Q ss_pred hhhhhccCCceeeEEeecCCCCCcccCC-chHHHHHHHHh
Q 040635 33 SELTTLCGVTACAIICASFDHQPEIWPS-PAEAVRVLDKF 71 (177)
Q Consensus 33 ~ELs~LC~~~va~ivfsp~gk~~~~~ps-~~~v~~vl~ry 71 (177)
.+|..|-|| +|...||++|++.++... ++..-+++.++
T Consensus 4 ~~Lm~lpGv-~AAg~Fs~~G~l~e~~G~l~~~~a~m~A~m 42 (108)
T PF09941_consen 4 DKLMKLPGV-VAAGEFSDDGKLVEYKGELDEEMAEMLAKM 42 (108)
T ss_pred HHhhcCCCe-EEEEEECCCCeEEeeecCCCHHHHHHHHHH
Confidence 467777777 556789999998776553 23444555554
No 49
>KOG1681 consensus Enoyl-CoA isomerase [Lipid transport and metabolism]
Probab=30.29 E-value=2.7e+02 Score=22.43 Aligned_cols=101 Identities=9% Similarity=-0.021 Sum_probs=53.8
Q ss_pred CCCcccchhhcccchhhhhhhhhhhccCCceeeEEeecCCCCCcccCCchHHHHHHHHhhcCccccccccccchhhhHHH
Q 040635 13 KESVRKVTFKKRRAGLKKKLSELTTLCGVTACAIICASFDHQPEIWPSPAEAVRVLDKFNNFPIKRRGKYMMNQNTFLSK 92 (177)
Q Consensus 13 n~~~R~vtf~KRr~GL~KKA~ELs~LC~~~va~ivfsp~gk~~~~~ps~~~v~~vl~ry~~~~~~~~~k~~~~~~~~l~~ 92 (177)
|.++.--+|++=---=|||+.. ++--|.+.-+||.|..||. |+++-.-......+-......+...+ ..+++.
T Consensus 38 nRPsk~Nal~~~~w~E~~~cf~-~l~~dpdcr~iilsg~GKh--FcaGIDl~~~~~~~~~~~~~dd~aR~----g~~lrr 110 (292)
T KOG1681|consen 38 NRPSKLNALNKVFWREFKECFD-SLDRDPDCRAIILSGAGKH--FCAGIDLNDMASDRILQPEGDDVARK----GRSLRR 110 (292)
T ss_pred cCcchhhhhhHHHHHHHHHHHH-hhccCCCceEEEEecCCcc--eecccCcchhhhhhccccccchHhhh----hHHHHH
Confidence 3444444444444444677766 5667899999999999985 35553211112222222222222211 235677
Q ss_pred HHHHHHHHHHHHHHHhhhHHHHHHHHHhh
Q 040635 93 KISNLFERMRKERKKNRGLEMDLMFTQCL 121 (177)
Q Consensus 93 ~~~kl~e~l~k~~~~~~~~e~~~l~~~~~ 121 (177)
.+..+|+....+++ ...--+..+...|+
T Consensus 111 ~Ik~~Q~~~t~ie~-CpKPVIaavHg~Ci 138 (292)
T KOG1681|consen 111 IIKRYQDTFTAIER-CPKPVIAAVHGACI 138 (292)
T ss_pred HHHHHHHHHHHHHh-CChhHHHHHHhhhc
Confidence 77788888777654 23333434444554
No 50
>PHA02592 52 DNA topisomerase II medium subunit; Provisional
Probab=30.13 E-value=1.7e+02 Score=25.61 Aligned_cols=42 Identities=10% Similarity=0.053 Sum_probs=27.9
Q ss_pred chhhhhhhhhhhccCCceeeEEeecCCCCCcccCCchHHHHHHHHhhcC
Q 040635 26 AGLKKKLSELTTLCGVTACAIICASFDHQPEIWPSPAEAVRVLDKFNNF 74 (177)
Q Consensus 26 ~GL~KKA~ELs~LC~~~va~ivfsp~gk~~~~~ps~~~v~~vl~ry~~~ 74 (177)
++|+|+ ..|.+-- .+-+++|.++|+...+ . ++.+||+.|-..
T Consensus 285 ~~L~k~-~~L~~~~--~~Nm~~~d~~g~~~~~-~---~~~~Il~~f~~~ 326 (439)
T PHA02592 285 EKIMKD-FGLIERV--SQNITVINENGKLKVY-E---NAEDLIRDFVEI 326 (439)
T ss_pred HHHHHh-cCchhee--eeeEEEEecCCeeeec-C---CHHHHHHHHHHH
Confidence 466654 3444432 4778999999976654 2 488999999653
No 51
>PF14263 DUF4354: Domain of unknown function (DUF4354); PDB: 3NRF_B 3SB3_A.
Probab=30.09 E-value=16 Score=26.09 Aligned_cols=40 Identities=20% Similarity=0.218 Sum_probs=27.8
Q ss_pred ccCCCcccchhhcccchhhhhhhhhhhccCCceeeEEeecCCCCC
Q 040635 11 ISKESVRKVTFKKRRAGLKKKLSELTTLCGVTACAIICASFDHQP 55 (177)
Q Consensus 11 I~n~~~R~vtf~KRr~GL~KKA~ELs~LC~~~va~ivfsp~gk~~ 55 (177)
|.++.....||.=.-.-+-++.-+|+.+| ++.|+|.|+-+
T Consensus 41 v~~k~~ytktF~V~vaN~s~~~idLsk~C-----f~a~~~~gk~f 80 (124)
T PF14263_consen 41 VGGKSFYTKTFDVTVANLSDKDIDLSKMC-----FKAYSPDGKEF 80 (124)
T ss_dssp ETTEEEEEEEEEEEEEE-SSS-EE-TT-E-----EEEEETTS-EE
T ss_pred ecCccceEEEEEEEEecCCCCccccccch-----hhhccccCCEE
Confidence 44566677788888888888988999986 99999999843
No 52
>PF07956 DUF1690: Protein of Unknown function (DUF1690) ; InterPro: IPR012471 Family of uncharacterised fungal proteins.
Probab=29.65 E-value=2.2e+02 Score=20.66 Aligned_cols=43 Identities=2% Similarity=0.098 Sum_probs=23.4
Q ss_pred EeecCCCCCcccCCchHHHHHHHHhhcCccccccccccchhhhHHHHHHHH
Q 040635 47 ICASFDHQPEIWPSPAEAVRVLDKFNNFPIKRRGKYMMNQNTFLSKKISNL 97 (177)
Q Consensus 47 vfsp~gk~~~~~ps~~~v~~vl~ry~~~~~~~~~k~~~~~~~~l~~~~~kl 97 (177)
||.|.... . ++ ..+|++....++.+ ..+....+.+++.++..-
T Consensus 1 vf~~~~pv-~-fS-----~~ll~~L~~s~etD-~sR~q~~e~~iq~Rva~e 43 (142)
T PF07956_consen 1 VFTPSTPV-Q-FS-----QSLLSQLQSSTETD-SSRAQTLELHIQERVAEE 43 (142)
T ss_pred CCCCCCCc-c-cC-----HHHHHHHhCCCCCC-hhHHHHHHHHHHHHHHHH
Confidence 56776632 2 32 25888888766554 223334445666655433
No 53
>PLN03229 acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha; Provisional
Probab=28.99 E-value=3.6e+02 Score=25.33 Aligned_cols=89 Identities=12% Similarity=0.180 Sum_probs=42.0
Q ss_pred ceeeEEeecCCCCC-cccCCc--hH----HHHHHHHhhcCccccccccccchhhhHHHHHHHHHHHHHHHHHHhhhHHHH
Q 040635 42 TACAIICASFDHQP-EIWPSP--AE----AVRVLDKFNNFPIKRRGKYMMNQNTFLSKKISNLFERMRKERKKNRGLEMD 114 (177)
Q Consensus 42 ~va~ivfsp~gk~~-~~~ps~--~~----v~~vl~ry~~~~~~~~~k~~~~~~~~l~~~~~kl~e~l~k~~~~~~~~e~~ 114 (177)
++.|+.---.|+.+ +-||.+ ++ +-..|.+|.-+.....+.. . + +...+..|+.++..++.-..
T Consensus 49 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-l---d-fEkpi~ele~ki~el~~~~~----- 118 (762)
T PLN03229 49 DLAVVAKIRKGKKHEYPWPADPDPNVKGGVLSYLSHFKPLKEKPKPVT-L---D-FEKPLVDLEKKIVDVRKMAN----- 118 (762)
T ss_pred ceEEEeeeccccccCCCCCCCCCCCcccchhhHhhccCCCCCCCCCCC-c---c-hhhHHHHHHHHHHHHHhhhh-----
Confidence 34444444456543 349854 33 4445555544433221111 1 1 23456667777666554211
Q ss_pred HHHHHhhcCCCCCCCCCHHHHHHHHHHHHHHHHHHHH
Q 040635 115 LMFTQCLAGKDMNNFDCLEDLKDLDHLLKEKIKVIAD 151 (177)
Q Consensus 115 ~l~~~~~~~~~~l~~Ls~eeL~~l~~~Le~~l~~v~~ 151 (177)
...+ +++ +++..|+..++...+.+..
T Consensus 119 ---------~~~~-~~~-~ei~~Le~k~~~~~~~iy~ 144 (762)
T PLN03229 119 ---------ETGL-DFS-DQIISLESKYQQALKDLYT 144 (762)
T ss_pred ---------cccc-cHH-HHHHHHHHHHHHHHHHHHc
Confidence 0111 222 5677777777666665443
No 54
>PF00992 Troponin: Troponin; InterPro: IPR001978 The troponin (Tn) complex regulates Ca2+ induced muscle contraction. Tn contains three subunits, Ca2+ binding (TnC), inhibitory (TnI), and tropomyosin binding (TnT). This family includes troponin T and troponin I. Troponin I binds to actin and troponin T binds to tropomyosin [, , ].; PDB: 1J1D_C 1MXL_I 1LXF_I 2KRD_I 1J1E_F 2L1R_B 2KGB_I 1YTZ_I 1YV0_I 1VDJ_A ....
Probab=28.90 E-value=2.2e+02 Score=20.36 Aligned_cols=27 Identities=19% Similarity=0.204 Sum_probs=20.7
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHH
Q 040635 126 MNNFDCLEDLKDLDHLLKEKIKVIADK 152 (177)
Q Consensus 126 ~l~~Ls~eeL~~l~~~Le~~l~~v~~r 152 (177)
.+++++.++|+++...+.+.+..+.+-
T Consensus 39 ~~~g~~~~eL~~~~k~lh~ri~~leeE 65 (132)
T PF00992_consen 39 KLDGLSRAELQELCKELHERIDKLEEE 65 (132)
T ss_dssp -GTTSSHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCcccHHHHHHHHHHHHHHHHHHHHH
Confidence 477899999999988887777665543
No 55
>TIGR01005 eps_transp_fam exopolysaccharide transport protein family. The model describes the exopolysaccharide transport protein family in bacteria. The transport protein is part of a large genetic locus which is associated with exopolysaccharide (EPS) biosynthesis. Detailed molecular characterization and gene fusion analysis revealed atleast seven gene products are involved in the overall regulation, which among other things, include exopolysaccharide biosynthesis, property of conferring virulence and exopolysaccharide export.
Probab=28.76 E-value=2.3e+02 Score=26.18 Aligned_cols=76 Identities=13% Similarity=0.059 Sum_probs=36.3
Q ss_pred HHHHHHHhhcCccccccccccchhhhHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHhhcCCCCCCCCCHHHHHHHHHHHH
Q 040635 64 AVRVLDKFNNFPIKRRGKYMMNQNTFLSKKISNLFERMRKERKKNRGLEMDLMFTQCLAGKDMNNFDCLEDLKDLDHLLK 143 (177)
Q Consensus 64 v~~vl~ry~~~~~~~~~k~~~~~~~~l~~~~~kl~e~l~k~~~~~~~~e~~~l~~~~~~~~~~l~~Ls~eeL~~l~~~Le 143 (177)
++.+++-|.......+........+|+..++..++.+++..+.+. ..+..+.-..+..-..+..++|.++..++.
T Consensus 173 aN~la~~Y~~~~~~~k~~~~~~a~~~L~~ql~~l~~~l~~aE~~l-----~~fk~~~~l~~~~~~~~~~~~L~~l~~ql~ 247 (754)
T TIGR01005 173 PDAIAAAYIAGQGAAKSESNTAAADFLAPEIADLSKQSRDAEAEV-----AAYRAQSDLLMGNNATLATQQLAELNTELS 247 (754)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHcCCcccCCccchHHHHHHHHHHHH
Confidence 455566665433222111112234677777777777776554332 222211100011223345577777777765
Q ss_pred H
Q 040635 144 E 144 (177)
Q Consensus 144 ~ 144 (177)
.
T Consensus 248 ~ 248 (754)
T TIGR01005 248 R 248 (754)
T ss_pred H
Confidence 4
No 56
>PF15372 DUF4600: Domain of unknown function (DUF4600)
Probab=28.70 E-value=2.2e+02 Score=20.41 Aligned_cols=29 Identities=14% Similarity=0.221 Sum_probs=21.6
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 040635 127 NNFDCLEDLKDLDHLLKEKIKVIADKIEC 155 (177)
Q Consensus 127 l~~Ls~eeL~~l~~~Le~~l~~v~~r~~~ 155 (177)
.+.|+.+.|..+..+|+.-...+...+..
T Consensus 48 ye~Ms~~~l~~llkqLEkeK~~Le~qlk~ 76 (129)
T PF15372_consen 48 YEQMSVESLNQLLKQLEKEKRSLENQLKD 76 (129)
T ss_pred HhhccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 47889999999999988766665554443
No 57
>KOG4797 consensus Transcriptional regulator [Transcription]
Probab=28.49 E-value=2.1e+02 Score=19.97 Aligned_cols=44 Identities=23% Similarity=0.333 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHHHHHhhhHHHHHHHHHhhcCCCCCCCCCHHHHHHHHHHHH
Q 040635 92 KKISNLFERMRKERKKNRGLEMDLMFTQCLAGKDMNNFDCLEDLKDLDHLLK 143 (177)
Q Consensus 92 ~~~~kl~e~l~k~~~~~~~~e~~~l~~~~~~~~~~l~~Ls~eeL~~l~~~Le 143 (177)
++.+-|++++..+.+.+...|-.+-..+ ...|.++|.+|...+.
T Consensus 67 EEVe~Lk~qI~eL~er~~~Le~EN~lLk--------~~~spe~L~ql~~~~~ 110 (123)
T KOG4797|consen 67 EEVEVLKEQIRELEERNSALERENSLLK--------TLASPEQLAQLPAQLS 110 (123)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH--------hhCCHHHHHHHHHhcc
Confidence 4455555555555554442222111111 2457788877766543
No 58
>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]
Probab=28.07 E-value=45 Score=24.20 Aligned_cols=23 Identities=22% Similarity=0.185 Sum_probs=18.4
Q ss_pred hhhhccCCceeeEEeecCCCCCc
Q 040635 34 ELTTLCGVTACAIICASFDHQPE 56 (177)
Q Consensus 34 ELs~LC~~~va~ivfsp~gk~~~ 56 (177)
=+.++|||+|-++|-+.+.+..-
T Consensus 58 L~tt~~dadvi~~v~~and~~s~ 80 (148)
T COG4917 58 LITTLQDADVIIYVHAANDPESR 80 (148)
T ss_pred HHHHhhccceeeeeecccCcccc
Confidence 36789999999999998876443
No 59
>PF07830 PP2C_C: Protein serine/threonine phosphatase 2C, C-terminal domain; InterPro: IPR012911 Protein phosphatase 2C (PP2C) is involved in regulating cellular responses to stress in various eukaryotes. It consists of two domains: an N-terminal catalytic domain and a C-terminal domain characteristic of mammalian PP2Cs. This domain consists of three antiparallel alpha helices, one of which packs against two corresponding alpha-helices of the N-terminal domain. The C-terminal domain does not seem to play a role in catalysis, but it may provide protein substrate specificity due to the cleft that is created between it and the catalytic domain []. ; GO: 0000287 magnesium ion binding, 0004721 phosphoprotein phosphatase activity, 0030145 manganese ion binding; PDB: 2P8E_A 3FXL_A 3FXO_A 1A6Q_A 3FXK_A 3FXM_A 3FXJ_A.
Probab=27.79 E-value=1.5e+02 Score=19.47 Aligned_cols=17 Identities=18% Similarity=0.386 Sum_probs=9.4
Q ss_pred hccCCCCCCCCCCcccc
Q 040635 157 MGLKSIPANTDGHNIRP 173 (177)
Q Consensus 157 l~~~~~~~~~~g~~~~~ 173 (177)
|.++.+|.-.+|+.+.+
T Consensus 54 L~~e~ip~LPPGGGl~s 70 (81)
T PF07830_consen 54 LASEDIPGLPPGGGLAS 70 (81)
T ss_dssp HHHTT-SS--TTTTCGG
T ss_pred HHhccCCCCcCCcCHHH
Confidence 55566888888877653
No 60
>PF11460 DUF3007: Protein of unknown function (DUF3007); InterPro: IPR021562 This is a family of uncharacterised proteins found in bacteria and eukaryotes.
Probab=27.33 E-value=1.8e+02 Score=20.02 Aligned_cols=17 Identities=18% Similarity=0.087 Sum_probs=14.7
Q ss_pred CCCCCHHHHHHHHHHHH
Q 040635 127 NNFDCLEDLKDLDHLLK 143 (177)
Q Consensus 127 l~~Ls~eeL~~l~~~Le 143 (177)
++.|+.+|+++|...++
T Consensus 87 le~l~~eE~~~L~~eie 103 (104)
T PF11460_consen 87 LEELSPEELEALQAEIE 103 (104)
T ss_pred HHhCCHHHHHHHHHHhc
Confidence 47999999999988876
No 61
>COG4465 CodY Pleiotropic transcriptional repressor [Transcription]
Probab=27.23 E-value=1.5e+02 Score=23.43 Aligned_cols=19 Identities=16% Similarity=0.314 Sum_probs=16.3
Q ss_pred CCCCCHHHHHHHHHHHHHH
Q 040635 127 NNFDCLEDLKDLDHLLKEK 145 (177)
Q Consensus 127 l~~Ls~eeL~~l~~~Le~~ 145 (177)
++.||..||.++++-+++.
T Consensus 180 i~tLSYSEleAve~I~eEL 198 (261)
T COG4465 180 ISTLSYSELEAVEHIFEEL 198 (261)
T ss_pred HhhccHHHHHHHHHHHHhc
Confidence 5789999999999988764
No 62
>PF01166 TSC22: TSC-22/dip/bun family; InterPro: IPR000580 Several eukaryotic proteins are evolutionary related and are thought to be involved in transcriptional regulation. These proteins are highly similar in a region of about 50 residues that include a conserved leucine-zipper domain most probably involved in homo- or hetero-dimerisation. Proteins containing this signature include: Vertebrate protein TSC-22 [], a transcriptional regulator which seems to act on C-type natriuretic peptide (CNP) promoter. Mammalian protein DIP (DSIP-immunoreactive peptide) [], a protein whose function is not yet known. Drosophila protein bunched [] (gene bun) (also known as shortsighted), a probable transcription factor required for peripheral nervous system morphogenesis, eye development and oogenesis. Caenorhabditis elegans hypothetical protein T18D3.7. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1DIP_B.
Probab=26.95 E-value=1.2e+02 Score=18.58 Aligned_cols=22 Identities=27% Similarity=0.371 Sum_probs=17.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHhh
Q 040635 88 TFLSKKISNLFERMRKERKKNR 109 (177)
Q Consensus 88 ~~l~~~~~kl~e~l~k~~~~~~ 109 (177)
+.|+.++.+|.+++..++.+|.
T Consensus 17 evLK~~I~eL~~~n~~Le~EN~ 38 (59)
T PF01166_consen 17 EVLKEQIAELEERNSQLEEENN 38 (59)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 5788888888888888877764
No 63
>PF00816 Histone_HNS: H-NS histone family Partial NMR structure.; InterPro: IPR001801 The histone-like nucleoid-structuring (H-NS) protein belongs to a family of bacterial proteins that play a role in the formation of nucleoid structure and affect gene expression under certain conditions [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2LEV_A 1HNS_A 1LR1_B 1HNR_A 1NI8_A 1OV9_A 2JR1_A 3NR7_A 2L93_A 2L92_A.
Probab=26.72 E-value=1.5e+02 Score=19.42 Aligned_cols=38 Identities=24% Similarity=0.301 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHHHHHhh---hHHHHHHHHHhhcCCCCCCCCCHHHH
Q 040635 90 LSKKISNLFERMRKERKKNR---GLEMDLMFTQCLAGKDMNNFDCLEDL 135 (177)
Q Consensus 90 l~~~~~kl~e~l~k~~~~~~---~~e~~~l~~~~~~~~~~l~~Ls~eeL 135 (177)
|...+.+++.+++..+...+ -.++..++..+ +++++||
T Consensus 3 L~~~~~~l~~~~~~~~~~e~~~~~~~i~~~~~~~--------Gis~~el 43 (93)
T PF00816_consen 3 LEAQIKELEKEIEERRKQEREEAIAEIRELMAEY--------GISPEEL 43 (93)
T ss_dssp HHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHT--------T--HHHC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--------CCCHHHh
Confidence 34455556655555544333 23444445333 5677777
No 64
>PTZ00370 STEVOR; Provisional
Probab=26.53 E-value=1.2e+02 Score=24.97 Aligned_cols=43 Identities=26% Similarity=0.390 Sum_probs=26.6
Q ss_pred eeeccCCCcccchhhcccchhhhhhhhhhhccCCceeeEEeecCCCCCcccCCchHHHHHHHHhhc
Q 040635 8 HELISKESVRKVTFKKRRAGLKKKLSELTTLCGVTACAIICASFDHQPEIWPSPAEAVRVLDKFNN 73 (177)
Q Consensus 8 i~~I~n~~~R~vtf~KRr~GL~KKA~ELs~LC~~~va~ivfsp~gk~~~~~ps~~~v~~vl~ry~~ 73 (177)
+..|.|.+.|. |-+-| .||..|. ++| . |=++|+|++|+|.|..
T Consensus 26 ~~li~n~t~~~-t~~sR------------~L~Ecel----~~p-----~-YdNDpemK~i~d~~n~ 68 (296)
T PTZ00370 26 VSLIQNNTQRT-TIKSR------------LLAQTQN----HNP-----H-YHNDPELKEIIDKMNE 68 (296)
T ss_pred cccccCCCccc-cccee------------ehhhhhc----CCC-----C-CCCcHHHHHHHHHHhH
Confidence 44566666654 22222 4666554 555 2 3367899999999975
No 65
>PRK01770 sec-independent translocase; Provisional
Probab=26.51 E-value=1.9e+02 Score=21.80 Aligned_cols=36 Identities=8% Similarity=0.095 Sum_probs=23.3
Q ss_pred hhhhccCCceeeEEeecCCCCCcccCCchHHHHHHHHhhcCc
Q 040635 34 ELTTLCGVTACAIICASFDHQPEIWPSPAEAVRVLDKFNNFP 75 (177)
Q Consensus 34 ELs~LC~~~va~ivfsp~gk~~~~~ps~~~v~~vl~ry~~~~ 75 (177)
||-+.+ =||||||+|. ++|.+- ..+...+.+|+.+.
T Consensus 8 ELllI~--vVaLlV~GPe-rLP~~~---r~lg~~i~~~R~~~ 43 (171)
T PRK01770 8 ELLLVF--VIGLVVLGPQ-RLPVAV---KTVAGWIRALRSLA 43 (171)
T ss_pred HHHHHH--HHHHHhcCch-HHHHHH---HHHHHHHHHHHHHH
Confidence 444444 4789999998 466541 35777777777643
No 66
>COG2938 Uncharacterized conserved protein [Function unknown]
Probab=26.35 E-value=47 Score=22.47 Aligned_cols=32 Identities=22% Similarity=0.285 Sum_probs=22.1
Q ss_pred HHHHHHHHHhhcCCCCCCCCCHHHHHHHHHHHHH
Q 040635 111 LEMDLMFTQCLAGKDMNNFDCLEDLKDLDHLLKE 144 (177)
Q Consensus 111 ~e~~~l~~~~~~~~~~l~~Ls~eeL~~l~~~Le~ 144 (177)
+|+..+..... ...++.||.+|+.+++..|+.
T Consensus 27 rElDlil~~Fa--e~~~~~lsd~el~~f~~LLe~ 58 (94)
T COG2938 27 RELDLILGPFA--EKEFDSLSDEELDEFERLLEC 58 (94)
T ss_pred HHHHHHHHHHH--HHHHhhCCHHHHHHHHHHHcC
Confidence 55666654443 345788999999988888754
No 67
>KOG0183 consensus 20S proteasome, regulatory subunit alpha type PSMA7/PRE6 [Posttranslational modification, protein turnover, chaperones]
Probab=26.34 E-value=34 Score=26.87 Aligned_cols=16 Identities=6% Similarity=-0.025 Sum_probs=12.6
Q ss_pred CceeeEEeecCCCCCc
Q 040635 41 VTACAIICASFDHQPE 56 (177)
Q Consensus 41 ~~va~ivfsp~gk~~~ 56 (177)
-|-|+-||||+|.++.
T Consensus 4 ydraltvFSPDGhL~Q 19 (249)
T KOG0183|consen 4 YDRALTVFSPDGHLFQ 19 (249)
T ss_pred cccceEEECCCCCEEe
Confidence 4668899999998654
No 68
>PRK10265 chaperone-modulator protein CbpM; Provisional
Probab=26.24 E-value=76 Score=21.49 Aligned_cols=15 Identities=20% Similarity=0.379 Sum_probs=12.2
Q ss_pred hhhhhhccCCceeeE
Q 040635 32 LSELTTLCGVTACAI 46 (177)
Q Consensus 32 A~ELs~LC~~~va~i 46 (177)
..|||..||++...|
T Consensus 10 ~~Elc~~~gi~~~~l 24 (101)
T PRK10265 10 ITEFCLHTGVSEEEL 24 (101)
T ss_pred HHHHHHHHCcCHHHH
Confidence 369999999987765
No 69
>PRK04654 sec-independent translocase; Provisional
Probab=25.80 E-value=26 Score=27.31 Aligned_cols=28 Identities=7% Similarity=-0.009 Sum_probs=19.5
Q ss_pred ceeeEEeecCCCCCcccCCchHHHHHHHHhhc
Q 040635 42 TACAIICASFDHQPEIWPSPAEAVRVLDKFNN 73 (177)
Q Consensus 42 ~va~ivfsp~gk~~~~~ps~~~v~~vl~ry~~ 73 (177)
=|+||||+|. ++|.+ . ..+...+.+|++
T Consensus 14 VVALlV~GPe-rLPe~--a-RtlGk~irk~R~ 41 (214)
T PRK04654 14 VVALVVLGPE-RLPKA--A-RFAGLWVRRARM 41 (214)
T ss_pred HHHHHhcCch-HHHHH--H-HHHHHHHHHHHH
Confidence 3789999998 46653 1 457777777774
No 70
>smart00782 PhnA_Zn_Ribbon PhnA Zinc-Ribbon. This protein family includes an uncharacterised member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterised phosphonoacetate hydrolase designated PhnA.
Probab=25.52 E-value=37 Score=19.84 Aligned_cols=22 Identities=23% Similarity=0.401 Sum_probs=16.4
Q ss_pred hhhhhhhhhhccCCceeeEEee
Q 040635 28 LKKKLSELTTLCGVTACAIICA 49 (177)
Q Consensus 28 L~KKA~ELs~LC~~~va~ivfs 49 (177)
|.+-+..-+=||+++..+.+|-
T Consensus 2 L~~Rs~~kCELC~a~~~L~vy~ 23 (47)
T smart00782 2 LLARCESKCELCGSDSPLVVYA 23 (47)
T ss_pred hhHHcCCcccCcCCCCCceEEe
Confidence 3445556688999999988875
No 71
>PRK14626 hypothetical protein; Provisional
Probab=24.30 E-value=56 Score=22.69 Aligned_cols=18 Identities=17% Similarity=0.403 Sum_probs=11.4
Q ss_pred HHHHHHHHHHHHHHHHhh
Q 040635 92 KKISNLFERMRKERKKNR 109 (177)
Q Consensus 92 ~~~~kl~e~l~k~~~~~~ 109 (177)
.+..++++++++.+++..
T Consensus 12 kqaq~mQ~km~~~qeeL~ 29 (110)
T PRK14626 12 KQMQSIKENVEKAKEELK 29 (110)
T ss_pred HHHHHHHHHHHHHHHHHh
Confidence 455667777777766544
No 72
>PF10623 PilI: Plasmid conjugative transfer protein PilI; InterPro: IPR018897 The thin pilus of plasmid R64 belongs to the type IV family and is required for liquid matings. PilI is one of 14 genes that have been identified as being involved in biogenesis of the R64 thin pilus [].
Probab=24.22 E-value=81 Score=20.61 Aligned_cols=32 Identities=3% Similarity=0.033 Sum_probs=23.9
Q ss_pred ceeeEEeecCCC--CCcccCCchHHHHHHHHhhcC
Q 040635 42 TACAIICASFDH--QPEIWPSPAEAVRVLDKFNNF 74 (177)
Q Consensus 42 ~va~ivfsp~gk--~~~~~ps~~~v~~vl~ry~~~ 74 (177)
.+-|+|++..++ ++. .+.+...+.++.+|...
T Consensus 8 rl~VLVv~n~c~~kL~~-~~~~~D~~~i~r~f~Tp 41 (83)
T PF10623_consen 8 RLQVLVVSNHCERKLFD-TKPDNDPDKIARRFCTP 41 (83)
T ss_pred eEEEEEEeCCcceeEee-cCCCCCHHHHHhhccCc
Confidence 467889999876 443 45556799999999863
No 73
>PF03656 Pam16: Pam16; InterPro: IPR005341 The Pam16 protein is the fifth essential subunit of the pre-sequence translocase-associated protein import motor (PAM) []. In Saccharomyces cerevisiae (Baker's yeast), Pam16 is required for preprotein translocation into the matrix, but not for protein insertion into the inner membrane [].; PDB: 2GUZ_J.
Probab=24.15 E-value=1.3e+02 Score=21.44 Aligned_cols=43 Identities=14% Similarity=0.148 Sum_probs=27.1
Q ss_pred hHHHHHHHHhhcCccccccccccchhhhHHHHHHHHHHHHHHHHH
Q 040635 62 AEAVRVLDKFNNFPIKRRGKYMMNQNTFLSKKISNLFERMRKERK 106 (177)
Q Consensus 62 ~~v~~vl~ry~~~~~~~~~k~~~~~~~~l~~~~~kl~e~l~k~~~ 106 (177)
.+.+.|..+|..+-....+.+.- .-||+.++...++.|+.+-+
T Consensus 70 ~~~eeI~k~y~~Lf~~Nd~~kGG--SfYLQSKV~rAKErl~~El~ 112 (127)
T PF03656_consen 70 LSREEIQKRYKHLFKANDPSKGG--SFYLQSKVFRAKERLEQELK 112 (127)
T ss_dssp -SHHHHHHHHHHHHHHT-CCCTS---HHHHHHHHHHHHHHHHHHH
T ss_pred cCHHHHHHHHHHHHhccCCCcCC--CHHHHHHHHHHHHHHHHHHH
Confidence 45788999998764432222211 24889998888888876553
No 74
>KOG0184 consensus 20S proteasome, regulatory subunit alpha type PSMA3/PRE10 [Posttranslational modification, protein turnover, chaperones]
Probab=24.15 E-value=39 Score=26.68 Aligned_cols=21 Identities=10% Similarity=-0.097 Sum_probs=16.8
Q ss_pred hhccCCceeeEEeecCCCCCc
Q 040635 36 TTLCGVTACAIICASFDHQPE 56 (177)
Q Consensus 36 s~LC~~~va~ivfsp~gk~~~ 56 (177)
||=.|-|.|.-+|||+|+.+.
T Consensus 3 sIGtGyDls~s~fSpdGrvfQ 23 (254)
T KOG0184|consen 3 SIGTGYDLSASTFSPDGRVFQ 23 (254)
T ss_pred cccccccccceeeCCCCceeh
Confidence 455678899999999998654
No 75
>PRK12540 RNA polymerase sigma factor; Provisional
Probab=24.08 E-value=1.6e+02 Score=21.71 Aligned_cols=51 Identities=14% Similarity=0.153 Sum_probs=32.1
Q ss_pred CCCCCHHHHHHHHHH----HHHHHHHHHHHHHHHhccCCCCCCCCCCccccCCCC
Q 040635 127 NNFDCLEDLKDLDHL----LKEKIKVIADKIECEMGLKSIPANTDGHNIRPTKGG 177 (177)
Q Consensus 127 l~~Ls~eeL~~l~~~----Le~~l~~v~~r~~~~l~~~~~~~~~~g~~~~~~~~~ 177 (177)
++++|.+|+-+.... +...+...+.++..+|.....+.-..+....+..||
T Consensus 125 ~~g~s~~EIA~~Lgis~~tV~~~l~RAr~~Lr~~l~~~~~~~~~~~~~~~~~~~~ 179 (182)
T PRK12540 125 ASGFSYEDAAAICGCAVGTIKSRVNRARSKLSALLYVDGAEDFGPDDTVRAVIGG 179 (182)
T ss_pred HcCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHhccccccCCCcccccccCC
Confidence 467888877665433 556666666666665655555544556666666666
No 76
>PRK09822 lipopolysaccharide core biosynthesis protein; Provisional
Probab=23.86 E-value=39 Score=26.96 Aligned_cols=33 Identities=15% Similarity=0.311 Sum_probs=23.9
Q ss_pred hhhcccchhhhhhhhhhhccCCceee---EEeecCCC
Q 040635 20 TFKKRRAGLKKKLSELTTLCGVTACA---IICASFDH 53 (177)
Q Consensus 20 tf~KRr~GL~KKA~ELs~LC~~~va~---ivfsp~gk 53 (177)
-|.+-+.|++||. .+.+||+.+-++ |.||+.++
T Consensus 119 ~~~~~~~~~~~~~-~~~~L~~~~~~l~~~v~fS~~~r 154 (269)
T PRK09822 119 FYRREKGGFLKKI-KFNILKRVHKALLISVPLSKRGR 154 (269)
T ss_pred hhhhccCchhhhh-HHHHHhhhhhhhEEEeeccccCC
Confidence 3445588899988 689999766554 55888765
No 77
>PF10312 Cactin_mid: Conserved mid region of cactin; InterPro: IPR018816 This entry represents the conserved central domain of a family of proteins referred to as cactins. It contains two of three predicted coiled-coil motifs. Most proteins containing this domain also have IPR019134 from INTERPRO at the C-terminal end. Upstream of this domain in Drosophila proteins are a serine-rich region, some non-typical RD motifs and three predicted bipartite nuclear localisation signals, none of which are well-conserved. Cactin associates with IkappaB-cactus as one of the intracellular members of the Rel (NF-kappaB) pathway which is conserved in invertebrates and vertebrates. In mammals, this pathway controls the activities of the immune and inflammatory response genes as well as viral genes, and is critical for cell growth and survival. In Drosophila, the Rel pathway functions in the innate cellular and humoral immune response, in muscle development, and in the establishment of dorsal-ventral polarity in the early embryo [].
Probab=23.10 E-value=3.5e+02 Score=20.68 Aligned_cols=59 Identities=19% Similarity=0.300 Sum_probs=32.7
Q ss_pred hhhHHHHHHHHHHHHHHHHHHhh-hHH----HHHHHHHhhcCCCCCCCCCHHHHHHHHHHHHHHHH
Q 040635 87 NTFLSKKISNLFERMRKERKKNR-GLE----MDLMFTQCLAGKDMNNFDCLEDLKDLDHLLKEKIK 147 (177)
Q Consensus 87 ~~~l~~~~~kl~e~l~k~~~~~~-~~e----~~~l~~~~~~~~~~l~~Ls~eeL~~l~~~Le~~l~ 147 (177)
.+||..-..=-..++.+.+.... ... +..-..... ...+.+-|.+||..|+..+..+|.
T Consensus 97 ~~fW~~~~~v~~del~~~~~~~~~~~~~~~~ih~sV~~dI--~~il~gKs~~eL~~Le~qI~~KL~ 160 (191)
T PF10312_consen 97 REFWEAMLVVCEDELAKLRKKEPEGRAVRSGIHSSVAADI--QKILSGKSYEELEELEQQIKAKLR 160 (191)
T ss_pred HHHHHHHHHHHHHHHHHhhcccccccchhhcccHHHHHHH--HHHHccCCHHHHHHHHHHHHHHhh
Confidence 35887766556666666553111 000 000000000 134578899999999999887774
No 78
>PRK13677 hypothetical protein; Provisional
Probab=23.09 E-value=1.5e+02 Score=21.01 Aligned_cols=24 Identities=33% Similarity=0.588 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 040635 132 LEDLKDLDHLLKEKIKVIADKIEC 155 (177)
Q Consensus 132 ~eeL~~l~~~Le~~l~~v~~r~~~ 155 (177)
++||.-|+..+-.++.+|.+.++.
T Consensus 101 L~dLrHLE~Vv~~KIaEIe~dLek 124 (125)
T PRK13677 101 LDDLRHLESVVANKISEIEADLEK 124 (125)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhc
Confidence 589999999999999999988875
No 79
>PF14009 DUF4228: Domain of unknown function (DUF4228)
Probab=22.65 E-value=72 Score=23.14 Aligned_cols=35 Identities=14% Similarity=0.072 Sum_probs=21.4
Q ss_pred cCCceeeEEeecCCCCCcccCCchHHHHHHHHhhcC
Q 040635 39 CGVTACAIICASFDHQPEIWPSPAEAVRVLDKFNNF 74 (177)
Q Consensus 39 C~~~va~ivfsp~gk~~~~~ps~~~v~~vl~ry~~~ 74 (177)
|+...++-|..++|+.-+|.. +..+.+|+..|=..
T Consensus 12 ~~~~~~vkvv~~~G~v~~~~~-pv~a~evm~~~P~h 46 (181)
T PF14009_consen 12 SSSAATVKVVHPDGKVEEFKR-PVTAAEVMLENPGH 46 (181)
T ss_pred cCCCceEEEEcCCCcEEEeCC-CcCHHHHHHHCCCC
Confidence 334444444448888655432 35689999988653
No 80
>TIGR03017 EpsF chain length determinant protein EpsF. Sequences in this family of proteins are members of the chain length determinant family (pfam02706) which includes the wzc protein from E.coli. This family of proteins are homologous to the EpsF protein of the methanolan biosynthesis operon of Methylobacillus species strain 12S. The distribution of this protein appears to be restricted to a subset of exopolysaccharide operons containing a syntenic grouping of genes including a variant of the EpsH exosortase protein. Exosortase has been proposed to be involved in the targetting and processing of proteins containing the PEP-CTERM domain to the exopolysaccharide layer.
Probab=22.43 E-value=3.3e+02 Score=23.12 Aligned_cols=44 Identities=14% Similarity=0.187 Sum_probs=27.2
Q ss_pred HHHHHHHhhcCccccccccccchhhhHHHHHHHHHHHHHHHHHH
Q 040635 64 AVRVLDKFNNFPIKRRGKYMMNQNTFLSKKISNLFERMRKERKK 107 (177)
Q Consensus 64 v~~vl~ry~~~~~~~~~k~~~~~~~~l~~~~~kl~e~l~k~~~~ 107 (177)
++.+++.|.......+.........|+..++..+++++...+..
T Consensus 150 ~n~~~~~y~~~~~~~~~~~~~~~~~fl~~ql~~~~~~l~~ae~~ 193 (444)
T TIGR03017 150 ANAFAQAYIDTNIELKVEPAQKAALWFVQQIAALREDLARAQSK 193 (444)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55566677765443322222234478888888888888776653
No 81
>PF06020 Roughex: Drosophila roughex protein; InterPro: IPR009259 This family consists of several roughex (RUX) proteins specific to Drosophila species. Roughex can influence the intracellular distribution of cyclin A and is therefore defined as a distinct and specialised cell cycle inhibitor for cyclin A-dependent kinase activity []. Rux is though to regulate the metaphase to anaphase transition during development [].
Probab=22.27 E-value=41 Score=27.62 Aligned_cols=16 Identities=13% Similarity=0.285 Sum_probs=13.3
Q ss_pred hhccCCceeeEEeecC
Q 040635 36 TTLCGVTACAIICASF 51 (177)
Q Consensus 36 s~LC~~~va~ivfsp~ 51 (177)
.-+||+|||++||--.
T Consensus 183 ~~~~~~EICLavYek~ 198 (334)
T PF06020_consen 183 GQVSGFEICLAVYEKG 198 (334)
T ss_pred CccccceEEeeehhhh
Confidence 4579999999999765
No 82
>KOG2958 consensus Galactose-1-phosphate uridylyltransferase [Energy production and conversion]
Probab=22.26 E-value=86 Score=25.93 Aligned_cols=28 Identities=18% Similarity=0.286 Sum_probs=21.1
Q ss_pred eEEeecCCC--CCcccCCchHHHHHHHHhhcC
Q 040635 45 AIICASFDH--QPEIWPSPAEAVRVLDKFNNF 74 (177)
Q Consensus 45 ~ivfsp~gk--~~~~~ps~~~v~~vl~ry~~~ 74 (177)
||||||... +|.. +...+..|++.|+++
T Consensus 111 Vicf~Pnh~ltLp~m--~~~~i~~vv~aw~~~ 140 (354)
T KOG2958|consen 111 VICFSPNHNLTLPLM--DVVEIRDVVDAWKKL 140 (354)
T ss_pred EEEeCCccccccccC--CHHHHHHHHHHHHHH
Confidence 799999876 3443 446899999998763
No 83
>PF12925 APP_E2: E2 domain of amyloid precursor protein; InterPro: IPR024329 Amyloid-beta precursor protein (APP, or A4) is associated with Alzheimer's disease (AD), because one of its breakdown products, amyloid-beta (A-beta), aggregates to form amyloid or senile plaques [, ]. Mutations in APP or in proteins that process APP have been linked with early-onset, familial AD. Individuals with Down's syndrome carry an extra copy of chromosome 21, which contains the APP gene, and almost invariably develop amyloid plaques and Alzheimer's symptoms. APP is important for the neurogenesis and neuronal regeneration, either through the intact protein, or through its many breakdown products []. APP consists of a large N-terminal extracellular region containing heparin-binding and copper-binding sites, a short hydrophobic transmembrane domain, and a short C-terminal intracellular domain. The N-terminal region is similar in structure to cysteine-rich growth factors and appears to function as a cell surface receptor, contributing to neurite growth, neuronal adhesion, axonogenesis and cell mobility []. APP acts as a kinesin I membrane receptor to mediate the axonal transport of beta-secretase and presenilin 1. The N-terminal domain can regulate neurite outgrowth through its binding to heparin and collagen I and IV, which are components of the extracellular matrix. APP is also coupled to apoptosis-inducing pathways, and is involved in copper homeostasis/oxidative stress through copper ion reduction, where copper-metallated APP induces neuronal death []. The C-terminal intracellular domain appears to be involved in transcription regulation through protein-protein interactions. APP can promote transcription activation through binding to APBB1/Tip60, and may bind to the adaptor protein FE65 to transactivate a wide variety of different promoters. APP can be processed by different sets of enzymes: In the non-amyloidogenic (non-plaque-forming) pathway, APP is cleaved by alpha-secretase to yield a soluble N-terminal sAPP-alpha (neuroprotective) and a membrane-bound CTF-alpha. CTF-alpha is broken-down by presenilin-containing gamma-secretase to yield soluble p3 and membrane-bound AICD (nuclear signalling). In the amyloidogenic pathway (plaque-forming), APP is broken down by beta-secretase to yield soluble sAPP-beta and membrane-bound CTF-beta. CTF-beta is broken down by gamma-secretase to yield soluble amyloid-beta and membrane-bound AICD. Amyloid-beta is required for neuronal function, but can aggregate to form amyloid plaques that seem to disrupt brain cells by clogging points of cell-cell contact. The E2 domain is the largest of the conserved domains in the amyloidogenic glycoproteins. The structure of E2 consists of two coiled-coil sub-structures connected through a continuous helix, and bears an unexpected resemblance to the spectrin family of protein structures. E2 can reversibly dimerise in solution, and the dimerisation occurs along the longest dimension of the molecule in an antiparallel orientation, which enables the N-terminal substructure of one monomer to pack against the C-terminal substructure of a second monomer. The high degree of conservation of residues at the putative dimer interface suggests that the E2 dimer observed in the crystal could be physiologically relevant. Heparin sulphate proteoglycans, the putative ligands for the precursor present in extracellular matrix, bind to E2 at a conserved and positively charged site near the dimer interface [].; PDB: 3K6B_A 3K66_A 1TKN_A 3NYL_A 3NYJ_A 3UMH_A 3UMK_A 3UMI_A 3QMK_B 3PMR_B ....
Probab=22.25 E-value=3.7e+02 Score=20.71 Aligned_cols=15 Identities=13% Similarity=0.262 Sum_probs=9.0
Q ss_pred HHHHHHHhhcCcccc
Q 040635 64 AVRVLDKFNNFPIKR 78 (177)
Q Consensus 64 v~~vl~ry~~~~~~~ 78 (177)
..+++|.|...+.+.
T Consensus 8 ~~~~~D~Y~~~~~~~ 22 (193)
T PF12925_consen 8 TSDAVDPYFEHPDPE 22 (193)
T ss_dssp ---HHHHHHHSSTTS
T ss_pred CCCCCChHhhcCCCC
Confidence 446679999877554
No 84
>smart00415 HSF heat shock factor.
Probab=22.22 E-value=84 Score=21.32 Aligned_cols=39 Identities=13% Similarity=0.114 Sum_probs=26.3
Q ss_pred hccCCcee-eEEeecCCCCCcccCCchHHHHHHHHhhcCc
Q 040635 37 TLCGVTAC-AIICASFDHQPEIWPSPAEAVRVLDKFNNFP 75 (177)
Q Consensus 37 ~LC~~~va-~ivfsp~gk~~~~~ps~~~v~~vl~ry~~~~ 75 (177)
+|.|.+.. +|-.+|+|+-..++....=...||-+|-+.+
T Consensus 12 ~l~~~~~~~iI~W~~~G~~f~I~d~~~f~~~vLp~~Fk~~ 51 (105)
T smart00415 12 LVEDPSTDKIISWSPSGKSFVIWDPEEFAKNLLPRYFKHN 51 (105)
T ss_pred HHhCCCCCCEEEECCCCCEEEEcCHHHHHHHHHHHhcCCC
Confidence 55666765 8899999986555543334567888886543
No 85
>PF09278 MerR-DNA-bind: MerR, DNA binding; InterPro: IPR015358 This entry represents a family of DNA-binding domains that are predominantly found in the prokaryotic transcriptional regulator MerR. They adopt a structure consisting of a core of three alpha helices, with an architecture that is similar to that of the 'winged helix' fold []. ; PDB: 3QAO_A 1R8D_B 1JBG_A 2VZ4_A 2ZHH_A 2ZHG_A 1Q09_A 1Q08_B 1Q0A_B 1Q07_A ....
Probab=22.02 E-value=1.9e+02 Score=17.23 Aligned_cols=22 Identities=32% Similarity=0.397 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 040635 134 DLKDLDHLLKEKIKVIADKIEC 155 (177)
Q Consensus 134 eL~~l~~~Le~~l~~v~~r~~~ 155 (177)
........++..+..|.+++..
T Consensus 33 ~~~~~~~~l~~~~~~i~~~i~~ 54 (65)
T PF09278_consen 33 PCADRRALLEEKLEEIEEQIAE 54 (65)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHHH
Confidence 3334446788888888888887
No 86
>PF06574 FAD_syn: FAD synthetase; InterPro: IPR015864 Riboflavin is converted into catalytically active cofactors (FAD and FMN) by the actions of riboflavin kinase (2.7.1.26 from EC), which converts it into FMN, and FAD synthetase (2.7.7.2 from EC), which adenylates FMN to FAD. Eukaryotes usually have two separate enzymes, while most prokaryotes have a single bifunctional protein that can carry out both catalyses, although exceptions occur in both cases. While eukaryotic monofunctional riboflavin kinase is orthologous to the bifunctional prokaryotic enzyme [], the monofunctional FAD synthetase differs from its prokaryotic counterpart, and is instead related to the PAPS-reductase family []. The bacterial FAD synthetase that is part of the bifunctional enzyme has remote similarity to nucleotidyl transferases and, hence, it may be involved in the adenylylation reaction of FAD synthetases []. This entry represents prokaryotic-type FAD synthetase, which occurs primarily as part of a bifunctional enzyme.; GO: 0003919 FMN adenylyltransferase activity, 0009231 riboflavin biosynthetic process; PDB: 2X0K_B 3OP1_B 1T6Z_A 2I1L_A 1T6Y_B 1T6X_B 1S4M_A 1MRZ_A.
Probab=21.44 E-value=1.8e+02 Score=21.29 Aligned_cols=25 Identities=20% Similarity=0.236 Sum_probs=21.1
Q ss_pred hhhhhhhhhhhccCCceeeEEeecC
Q 040635 27 GLKKKLSELTTLCGVTACAIICASF 51 (177)
Q Consensus 27 GL~KKA~ELs~LC~~~va~ivfsp~ 51 (177)
-|+++|.+++--=++..+|+.|.|.
T Consensus 23 ~Li~~~~~~a~~~~~~~~v~tF~~~ 47 (157)
T PF06574_consen 23 KLIKKAVEIAKEKGLKSVVLTFDPH 47 (157)
T ss_dssp HHHHHHHHHHHHCT-EEEEEEESS-
T ss_pred HHHHHHhhhhhhcccceEEEEcccC
Confidence 4899999999999999999999986
No 87
>PRK13877 conjugal transfer relaxosome component TraJ; Provisional
Probab=21.13 E-value=3e+02 Score=19.21 Aligned_cols=41 Identities=5% Similarity=-0.043 Sum_probs=31.2
Q ss_pred HHHHHHHhhcCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q 040635 113 MDLMFTQCLAGKDMNNFDCLEDLKDLDHLLKEKIKVIADKI 153 (177)
Q Consensus 113 ~~~l~~~~~~~~~~l~~Ls~eeL~~l~~~Le~~l~~v~~r~ 153 (177)
+..+...|++.+......+..++..|...++....++.+=+
T Consensus 71 lGgLlK~~l~~~~~~~~~~~~~i~~ll~~i~~~q~~~~~~~ 111 (114)
T PRK13877 71 LGGLLKLWLTDDVRTAQFGEATILALLGRIEATQDEMSEVM 111 (114)
T ss_pred HHHHHHHHHhCCCCcCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 45677788887777778899999888888887777665543
No 88
>KOG4302 consensus Microtubule-associated protein essential for anaphase spindle elongation [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=20.76 E-value=4e+02 Score=24.66 Aligned_cols=31 Identities=29% Similarity=0.243 Sum_probs=26.2
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040635 126 MNNFDCLEDLKDLDHLLKEKIKVIADKIECE 156 (177)
Q Consensus 126 ~l~~Ls~eeL~~l~~~Le~~l~~v~~r~~~~ 156 (177)
+..+||++.|.+|-..|...-++...|++.+
T Consensus 153 D~~dlsl~kLeelr~~L~~L~~ek~~Rlekv 183 (660)
T KOG4302|consen 153 DESDLSLEKLEELREHLNELQKEKSDRLEKV 183 (660)
T ss_pred CcccccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5678999999999999988888888887774
No 89
>PF13591 MerR_2: MerR HTH family regulatory protein
Probab=20.31 E-value=80 Score=20.54 Aligned_cols=16 Identities=25% Similarity=0.511 Sum_probs=12.4
Q ss_pred hhhhhhccCCceeeEE
Q 040635 32 LSELTTLCGVTACAII 47 (177)
Q Consensus 32 A~ELs~LC~~~va~iv 47 (177)
..|||..|+++.+.|.
T Consensus 3 ~~e~~~~~~i~~~~l~ 18 (84)
T PF13591_consen 3 LEEFCEACGIEPEFLR 18 (84)
T ss_pred HHHHHHHHCcCHHHHH
Confidence 3689999998877653
No 90
>PF09584 Phageshock_PspD: Phage shock protein PspD (Phageshock_PspD); InterPro: IPR014321 Members of this entry are phage shock protein PspD, they are found in a minority of bacteria that carry the defining genes of the phage shock regulon (pspA, pspB, pspC, and pspF). It is found in Escherichia coli, Yersinia pestis, and closely related species, where it is part of the phage shock operon. It is known to be expressed but its function is unknown.
Probab=20.06 E-value=19 Score=22.65 Aligned_cols=23 Identities=17% Similarity=0.252 Sum_probs=18.5
Q ss_pred cch-hhhhhhhhhhccCCceeeEEeecCC
Q 040635 25 RAG-LKKKLSELTTLCGVTACAIICASFD 52 (177)
Q Consensus 25 r~G-L~KKA~ELs~LC~~~va~ivfsp~g 52 (177)
|.| ++|+|..+.++. .+.|+|.|
T Consensus 4 ~~g~~lk~~~K~~l~~-----aL~ygPAG 27 (66)
T PF09584_consen 4 KPGPALKKAGKFILIL-----ALTYGPAG 27 (66)
T ss_pred CchHHHHHHHHHHHHH-----HHHhCcHH
Confidence 556 789999988775 77899988
No 91
>KOG4311 consensus Histidinol dehydrogenase [Amino acid transport and metabolism]
Probab=20.01 E-value=5e+02 Score=21.34 Aligned_cols=137 Identities=17% Similarity=0.156 Sum_probs=70.2
Q ss_pred Ccccchhhcccchhh---------hhhhhhhhccCCceeeEEeecCCCCC-------cccCCc---hHHHHHH-HHhhcC
Q 040635 15 SVRKVTFKKRRAGLK---------KKLSELTTLCGVTACAIICASFDHQP-------EIWPSP---AEAVRVL-DKFNNF 74 (177)
Q Consensus 15 ~~R~vtf~KRr~GL~---------KKA~ELs~LC~~~va~ivfsp~gk~~-------~~~ps~---~~v~~vl-~ry~~~ 74 (177)
..+-|-||+-|..|+ .+--.++|-||-|.-..+.-++|+.+ .|+-+. -+.+.+| +|-+..
T Consensus 180 ~g~gvy~SRsR~~lW~KGetSgn~q~ll~i~vDCD~D~l~f~v~q~g~gfCHl~t~~Cfg~~~~gL~~LEs~l~~Rk~~a 259 (359)
T KOG4311|consen 180 SGKGVYFSRSRSTLWTKGETSGNFQNLLDIYVDCDRDSLIFLVTQDGPGFCHLGTETCFGTSVFGLYSLESILSKRKETA 259 (359)
T ss_pred cCcceEEecccceeeeccccCcCceeeEEEeeccCccceEEEEecCCCcccccCcceeeeeechhhhhHHHHHHHhhhcC
Confidence 345666777776454 44567899999999888888888621 111111 2455555 455556
Q ss_pred ccccccccccchhhhHHHHHHHHHHHHHHHHHHh-hhHHHHHHHHHhhcCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q 040635 75 PIKRRGKYMMNQNTFLSKKISNLFERMRKERKKN-RGLEMDLMFTQCLAGKDMNNFDCLEDLKDLDHLLKEKIKVIADKI 153 (177)
Q Consensus 75 ~~~~~~k~~~~~~~~l~~~~~kl~e~l~k~~~~~-~~~e~~~l~~~~~~~~~~l~~Ls~eeL~~l~~~Le~~l~~v~~r~ 153 (177)
|+..-+.+..+...+|..++...-+++-.-..++ ---||-.++.-.+. --.-.+.+++ ..+..|+-+...+..|+
T Consensus 260 PeeSyTrRLftD~aLL~aKI~EEAeELc~a~~k~e~~wEmADl~YfA~~-~lv~~gVsl~---Dv~~~LnmkhrKvtrrk 335 (359)
T KOG4311|consen 260 PEESYTRRLFTDDALLCAKIREEAEELCRALEKNETPWEMADLLYFAMV-LLVKRGVSLE---DVLEVLNMKHRKVTRRK 335 (359)
T ss_pred CchhhHHHhhCChHHHHHHHHHHHHHHHHhhcccCChHHHHHHHHHHHH-HHHhcCCcHH---HHHHHhhhHHHhHhhhc
Confidence 6554444444444556655544444332222221 22344444311110 0011344444 44556666666666666
Q ss_pred HH
Q 040635 154 EC 155 (177)
Q Consensus 154 ~~ 155 (177)
.-
T Consensus 336 Gd 337 (359)
T KOG4311|consen 336 GD 337 (359)
T ss_pred ch
Confidence 54
Done!