Query 040642
Match_columns 233
No_of_seqs 183 out of 1511
Neff 7.7
Searched_HMMs 46136
Date Fri Mar 29 10:22:52 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040642.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040642hhsearch_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 7.6E-36 1.7E-40 247.2 7.2 152 1-152 1-167 (195)
2 cd00266 MADS_SRF_like SRF-like 100.0 3.8E-32 8.1E-37 195.5 4.0 81 2-83 1-81 (83)
3 cd00265 MADS_MEF2_like MEF2 (m 100.0 7.5E-31 1.6E-35 186.1 3.0 73 2-76 1-73 (77)
4 smart00432 MADS MADS domain. 100.0 8.5E-30 1.8E-34 170.8 3.6 58 2-59 1-58 (59)
5 cd00120 MADS MADS: MCM1, Agamo 100.0 2.7E-29 5.7E-34 168.5 3.4 59 2-60 1-59 (59)
6 PF00319 SRF-TF: SRF-type tran 99.9 1.8E-26 3.8E-31 149.9 -2.3 51 9-60 1-51 (51)
7 KOG0015 Regulator of arginine 99.7 8.4E-19 1.8E-23 149.5 1.7 66 2-69 63-128 (338)
8 COG5068 ARG80 Regulator of arg 99.3 3E-13 6.6E-18 120.5 2.4 59 1-59 81-139 (412)
9 PF01486 K-box: K-box region; 98.0 3.1E-05 6.7E-10 57.4 7.2 58 88-156 15-72 (100)
10 PF08248 Tryp_FSAP: Tryptophyl 82.8 0.69 1.5E-05 20.5 0.8 9 225-233 3-11 (12)
11 KOG4603 TBP-1 interacting prot 82.4 15 0.00031 30.0 8.7 63 89-161 83-147 (201)
12 PF07106 TBPIP: Tat binding pr 79.4 22 0.00048 28.4 9.2 60 90-159 77-138 (169)
13 PRK04098 sec-independent trans 75.0 5 0.00011 32.2 4.1 99 42-161 14-112 (158)
14 PF06698 DUF1192: Protein of u 73.2 9.4 0.0002 25.4 4.4 31 124-154 15-45 (59)
15 PRK02793 phi X174 lysis protei 68.6 27 0.00057 24.1 6.1 23 135-157 34-56 (72)
16 PRK00295 hypothetical protein; 65.1 37 0.00079 23.1 6.2 22 136-157 32-53 (68)
17 PRK04406 hypothetical protein; 64.8 33 0.00072 23.9 6.0 19 139-157 41-59 (75)
18 PF11944 DUF3461: Protein of u 62.4 11 0.00023 28.9 3.4 25 132-156 101-125 (125)
19 PRK02119 hypothetical protein; 62.3 41 0.00089 23.3 6.1 19 139-157 39-57 (73)
20 PRK00846 hypothetical protein; 61.2 45 0.00099 23.4 6.2 24 134-157 38-61 (77)
21 PF04102 SlyX: SlyX; InterPro 58.4 15 0.00032 25.1 3.3 21 137-157 32-52 (69)
22 PF15372 DUF4600: Domain of un 56.8 50 0.0011 25.6 6.3 58 88-154 18-75 (129)
23 COG4575 ElaB Uncharacterized c 52.6 95 0.0021 23.1 7.5 30 128-157 32-61 (104)
24 PRK13677 hypothetical protein; 51.9 21 0.00045 27.2 3.4 25 132-156 101-125 (125)
25 PRK00736 hypothetical protein; 51.6 74 0.0016 21.6 6.0 18 140-157 36-53 (68)
26 PRK04325 hypothetical protein; 49.7 85 0.0018 21.7 6.4 18 140-157 40-57 (74)
27 KOG3048 Molecular chaperone Pr 48.9 44 0.00096 26.4 4.9 35 124-158 7-41 (153)
28 TIGR01478 STEVOR variant surfa 48.5 33 0.00071 30.2 4.6 45 7-73 25-69 (295)
29 PF10584 Proteasome_A_N: Prote 48.3 2.5 5.4E-05 22.7 -1.4 13 44-56 4-16 (23)
30 KOG4311 Histidinol dehydrogena 47.5 56 0.0012 28.6 5.8 135 15-153 180-335 (359)
31 PF07820 TraC: TraC-like prote 46.0 1.1E+02 0.0025 22.2 8.3 29 88-116 5-33 (92)
32 PF09278 MerR-DNA-bind: MerR, 43.8 65 0.0014 21.0 4.6 25 134-158 33-57 (65)
33 PF14282 FlxA: FlxA-like prote 43.8 1.3E+02 0.0028 22.2 7.0 31 128-158 42-72 (106)
34 PRK13848 conjugal transfer pro 41.3 1.4E+02 0.003 21.8 7.0 54 88-152 6-59 (98)
35 TIGR03007 pepcterm_ChnLen poly 41.3 1.3E+02 0.0029 28.1 7.9 46 63-108 139-184 (498)
36 PTZ00046 rifin; Provisional 41.1 46 0.00099 30.3 4.5 27 37-73 40-66 (358)
37 PHA02592 52 DNA topisomerase I 39.9 1.1E+02 0.0024 28.7 7.0 42 26-74 285-326 (439)
38 PLN03230 acetyl-coenzyme A car 38.8 1.8E+02 0.0039 27.2 8.0 71 63-154 56-126 (431)
39 PF10491 Nrf1_DNA-bind: NLS-bi 38.3 19 0.00042 30.1 1.5 43 31-74 44-88 (214)
40 PF12925 APP_E2: E2 domain of 35.6 1.8E+02 0.0039 24.1 6.8 57 64-134 8-64 (193)
41 PF11460 DUF3007: Protein of u 34.0 91 0.002 23.2 4.3 18 127-144 87-104 (104)
42 PTZ00108 DNA topoisomerase 2-l 33.9 1.6E+02 0.0035 31.8 7.7 26 44-73 962-987 (1388)
43 PF14723 SSFA2_C: Sperm-specif 33.1 2.5E+02 0.0054 22.9 7.0 16 135-150 161-176 (179)
44 PF09432 THP2: Tho complex sub 32.8 2.3E+02 0.0051 21.9 8.6 17 58-74 34-50 (132)
45 PF05700 BCAS2: Breast carcino 32.0 1.7E+02 0.0036 24.6 6.3 65 88-158 100-164 (221)
46 TIGR02231 conserved hypothetic 31.4 3.8E+02 0.0083 25.4 9.4 24 129-152 123-146 (525)
47 PF00521 DNA_topoisoIV: DNA gy 30.6 2.1E+02 0.0046 26.5 7.3 62 3-74 243-315 (426)
48 PF07106 TBPIP: Tat binding pr 29.9 2.5E+02 0.0054 22.2 6.8 29 128-156 140-168 (169)
49 PF08181 DegQ: DegQ (SacQ) fam 29.5 1.4E+02 0.003 18.3 4.3 21 132-152 6-26 (46)
50 PF13082 DUF3931: Protein of u 28.6 26 0.00056 22.7 0.6 37 4-40 6-44 (66)
51 PF06020 Roughex: Drosophila r 27.7 28 0.00061 30.7 0.9 17 35-51 182-198 (334)
52 PF15290 Syntaphilin: Golgi-lo 27.6 1.9E+02 0.004 25.6 5.8 13 64-76 35-47 (305)
53 TIGR03156 GTP_HflX GTP-binding 26.8 4.7E+02 0.01 23.5 8.7 20 87-106 111-130 (351)
54 PF04417 DUF501: Protein of un 26.7 2.9E+02 0.0063 21.5 6.4 38 39-76 7-48 (139)
55 PF13252 DUF4043: Protein of u 26.4 36 0.00078 30.8 1.4 30 30-59 269-299 (341)
56 COG4917 EutP Ethanolamine util 26.1 37 0.00081 26.5 1.2 23 34-56 58-80 (148)
57 PLN03229 acetyl-coenzyme A car 25.9 3.9E+02 0.0084 27.0 8.3 88 43-152 50-145 (762)
58 COG2900 SlyX Uncharacterized p 25.3 2.4E+02 0.0052 19.6 6.0 28 133-160 32-59 (72)
59 KOG3650 Predicted coiled-coil 24.9 1.2E+02 0.0025 22.4 3.5 16 33-48 7-22 (120)
60 PF14263 DUF4354: Domain of un 24.3 31 0.00067 26.5 0.5 41 11-56 41-81 (124)
61 KOG4252 GTP-binding protein [S 23.4 3.9E+02 0.0085 22.3 6.7 28 39-74 91-118 (246)
62 PRK00182 tatB sec-independent 23.3 43 0.00092 26.9 1.1 36 34-75 9-44 (160)
63 TIGR01477 RIFIN variant surfac 23.3 1.1E+02 0.0024 27.9 3.8 27 37-73 43-69 (353)
64 TIGR02894 DNA_bind_RsfA transc 23.2 4E+02 0.0087 21.5 8.2 21 90-110 109-129 (161)
65 PF10666 Phage_Gp14: Phage pro 23.0 3.6E+02 0.0078 20.8 6.1 25 127-151 59-83 (140)
66 PRK01770 sec-independent trans 22.8 1.1E+02 0.0023 25.0 3.3 35 34-74 8-42 (171)
67 PF00992 Troponin: Troponin; 22.8 3.6E+02 0.0078 20.7 7.7 27 126-152 39-65 (132)
68 PF03112 DUF244: Uncharacteriz 22.3 3.1E+02 0.0067 21.8 5.6 64 91-156 76-146 (158)
69 TIGR01005 eps_transp_fam exopo 22.0 3.8E+02 0.0082 26.7 7.8 90 64-158 173-265 (754)
70 PF10312 Cactin_mid: Conserved 21.9 4.3E+02 0.0093 21.7 6.8 58 87-147 97-160 (191)
71 smart00787 Spc7 Spc7 kinetocho 21.8 4.5E+02 0.0097 23.4 7.4 32 126-157 197-228 (312)
72 PF08946 Osmo_CC: Osmosensory 21.8 1.1E+02 0.0025 19.1 2.5 24 136-159 11-34 (46)
73 TIGR03017 EpsF chain length de 21.7 3E+02 0.0065 25.2 6.6 45 63-107 149-193 (444)
74 PF08432 Vfa1: AAA-ATPase Vps4 21.5 1.5E+02 0.0032 24.1 4.0 23 39-61 11-42 (182)
75 PTZ00370 STEVOR; Provisional 21.3 1.3E+02 0.0027 26.7 3.7 27 37-73 42-68 (296)
76 PF00816 Histone_HNS: H-NS his 21.1 2E+02 0.0043 20.4 4.2 37 91-135 4-43 (93)
77 smart00782 PhnA_Zn_Ribbon PhnA 20.5 52 0.0011 20.8 0.9 22 28-49 2-23 (47)
78 TIGR02338 gimC_beta prefoldin, 20.3 3.6E+02 0.0078 19.8 8.7 13 62-74 3-15 (110)
79 PF04521 Viral_P18: ssRNA posi 20.2 2.3E+02 0.0049 21.7 4.4 22 18-39 4-25 (120)
80 COG5256 TEF1 Translation elong 20.1 1.9E+02 0.0041 27.0 4.7 67 40-106 108-177 (428)
81 PRK09458 pspB phage shock prot 20.1 3.2E+02 0.0069 19.1 5.5 31 127-158 33-63 (75)
No 1
>KOG0014 consensus MADS box transcription factor [Transcription]
Probab=100.00 E-value=7.6e-36 Score=247.17 Aligned_cols=152 Identities=32% Similarity=0.474 Sum_probs=111.0
Q ss_pred CCCcccceeeecCCccccccccccccchhhhhhhhhcccCCceeeeeecCCCCCCccCCCCcchhHHhhhhccChhhhhh
Q 040642 1 MTRKKVKLAYISNDSARKATFKKRKKGLLKKVSELKTLCGIDVCAIIFSPYDDQPEIWPSPLGVQRVLSRFKKMPEMEKS 80 (233)
Q Consensus 1 mgR~Ki~i~~I~n~~~R~~TF~KRr~GL~KKa~ELs~LCd~evavIvfsp~gk~~~~~ps~~~v~~Vl~ry~~~~~~~~~ 80 (233)
|||+||+|++|+|+++|+|||+|||.||||||+||||||||+||||||||+|++|+|||++.+|+.|++||...+...+.
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 99999999999999999999999999999999999999999999999999999999999877799999999998888888
Q ss_pred hccccchhHHHHH-HHHHHHHHHHH-----HHHHHH----HHHHHH----HhhhccCCCCCCCCCH-HHHHHHHHHHHHH
Q 040642 81 KKMVSQDSFLRQR-IAKAYEQLKKQ-----RKDNRE----KEMERV----MFQSLTGSNVFLNMNM-IGLNDLGLQIEHN 145 (233)
Q Consensus 81 kk~~~~e~~l~q~-i~Kl~e~l~kl-----~~~n~e----~e~~~l----m~~~l~~~~~l~~Ls~-~eL~~L~~~Le~~ 145 (233)
++.++.+.++... +..+....... ...+.+ ..+..+ ..+....+..+.+++. .+|..++.+++..
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~l~~l~~~~~l~~~~~~l~~~ 160 (195)
T KOG0014|consen 81 KKRVNLESFLRNKKLTELVEEEEKEELKLQLKKSLESSLKVDPEDLELLELEQRKLTGEDLQSLSSLNELNSLESQLESS 160 (195)
T ss_pred ccccchhhHhhhhhhhcccchhhhhhccchhhhhhhhhhhcchhhhhhhHHHHHHHhccccccCCHHHHhcchhhHHHHh
Confidence 8888777766533 11111100000 001111 111111 0111222556788888 7788888777777
Q ss_pred HHHHHHH
Q 040642 146 IREICRR 152 (233)
Q Consensus 146 lk~ir~R 152 (233)
+..++.+
T Consensus 161 ~~~~~~~ 167 (195)
T KOG0014|consen 161 LHNSRSS 167 (195)
T ss_pred hcCCCCC
Confidence 7655544
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=99.97 E-value=3.8e-32 Score=195.49 Aligned_cols=81 Identities=46% Similarity=0.778 Sum_probs=76.2
Q ss_pred CCcccceeeecCCccccccccccccchhhhhhhhhcccCCceeeeeecCCCCCCccCCCCcchhHHhhhhccChhhhhhh
Q 040642 2 TRKKVKLAYISNDSARKATFKKRKKGLLKKVSELKTLCGIDVCAIIFSPYDDQPEIWPSPLGVQRVLSRFKKMPEMEKSK 81 (233)
Q Consensus 2 gR~Ki~i~~I~n~~~R~~TF~KRr~GL~KKa~ELs~LCd~evavIvfsp~gk~~~~~ps~~~v~~Vl~ry~~~~~~~~~k 81 (233)
||+||+|++|+|+.+|++||+|||.||||||+||||||||+||+|||||+|+.|.+||++. ++.+|++|..++..++.+
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 8999999999999999999999999999999999999999999999999999999998765 999999999998887766
Q ss_pred cc
Q 040642 82 KM 83 (233)
Q Consensus 82 k~ 83 (233)
+.
T Consensus 80 ~~ 81 (83)
T cd00266 80 KA 81 (83)
T ss_pred cC
Confidence 54
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=99.96 E-value=7.5e-31 Score=186.06 Aligned_cols=73 Identities=37% Similarity=0.646 Sum_probs=67.3
Q ss_pred CCcccceeeecCCccccccccccccchhhhhhhhhcccCCceeeeeecCCCCCCccCCCCcchhHHhhhhccChh
Q 040642 2 TRKKVKLAYISNDSARKATFKKRKKGLLKKVSELKTLCGIDVCAIIFSPYDDQPEIWPSPLGVQRVLSRFKKMPE 76 (233)
Q Consensus 2 gR~Ki~i~~I~n~~~R~~TF~KRr~GL~KKa~ELs~LCd~evavIvfsp~gk~~~~~ps~~~v~~Vl~ry~~~~~ 76 (233)
||+||+|++|+|+.+|++||+|||.||||||+|||+||||+||+|||||+|+.+. |++ +++++||+||+..+.
T Consensus 1 gr~ki~i~~i~~~~~r~~tf~kR~~gl~kKa~Els~Lc~~~v~lvv~sp~gk~~~-f~s-~s~~~vl~ry~~~~~ 73 (77)
T cd00265 1 GRGKIEIKRIENSTNRQVTFSKRRNGLLKKAHELSVLCDAEVALIIFSSSGKLYE-FSS-PSMEKIIERYQKTSG 73 (77)
T ss_pred CCCcceeEEecCccHHHHHHHHhhhhhhhcceeheeccCCceeEEEEcCCCceEE-ecC-CCHHHHHHHHHhccc
Confidence 8999999999999999999999999999999999999999999999999998766 444 568999999988643
No 4
>smart00432 MADS MADS domain.
Probab=99.96 E-value=8.5e-30 Score=170.79 Aligned_cols=58 Identities=40% Similarity=0.676 Sum_probs=57.0
Q ss_pred CCcccceeeecCCccccccccccccchhhhhhhhhcccCCceeeeeecCCCCCCccCC
Q 040642 2 TRKKVKLAYISNDSARKATFKKRKKGLLKKVSELKTLCGIDVCAIIFSPYDDQPEIWP 59 (233)
Q Consensus 2 gR~Ki~i~~I~n~~~R~~TF~KRr~GL~KKa~ELs~LCd~evavIvfsp~gk~~~~~p 59 (233)
||+||+|++|+|++.|++||+|||.||||||+||||||||+||+|||||+|+.+.|||
T Consensus 1 gR~Ki~i~~I~~~~~R~~tf~kRk~gl~kKa~Els~Lc~~~v~~iv~sp~g~~~~~~~ 58 (59)
T smart00432 1 GRRKIEIKRIENKTNRQVTFSKRRNGLFKKAHELSVLCDAEVALIVFSPTGKLYEFAS 58 (59)
T ss_pred CCCcceeEEeeCcchhhhhhHhhhhhHHHHHHHHhhccCCeEEEEEECCCCCeeeccC
Confidence 8999999999999999999999999999999999999999999999999999999986
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=99.95 E-value=2.7e-29 Score=168.53 Aligned_cols=59 Identities=44% Similarity=0.784 Sum_probs=57.2
Q ss_pred CCcccceeeecCCccccccccccccchhhhhhhhhcccCCceeeeeecCCCCCCccCCC
Q 040642 2 TRKKVKLAYISNDSARKATFKKRKKGLLKKVSELKTLCGIDVCAIIFSPYDDQPEIWPS 60 (233)
Q Consensus 2 gR~Ki~i~~I~n~~~R~~TF~KRr~GL~KKa~ELs~LCd~evavIvfsp~gk~~~~~ps 60 (233)
||+||+|++|+|+..|++||+|||.||||||+||||||||+||+|||||+|+.+.+||+
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 79999999999999999999999999999999999999999999999999999998863
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=99.91 E-value=1.8e-26 Score=149.91 Aligned_cols=51 Identities=59% Similarity=0.877 Sum_probs=45.0
Q ss_pred eeecCCccccccccccccchhhhhhhhhcccCCceeeeeecCCCCCCccCCC
Q 040642 9 AYISNDSARKATFKKRKKGLLKKVSELKTLCGIDVCAIIFSPYDDQPEIWPS 60 (233)
Q Consensus 9 ~~I~n~~~R~~TF~KRr~GL~KKa~ELs~LCd~evavIvfsp~gk~~~~~ps 60 (233)
|+|+|++.|++||+|||.||||||+||||||||+||+|||||+|+.+. |||
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 689999999999999999999999999999999999999999998755 764
No 7
>KOG0015 consensus Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription]
Probab=99.73 E-value=8.4e-19 Score=149.52 Aligned_cols=66 Identities=33% Similarity=0.485 Sum_probs=59.3
Q ss_pred CCcccceeeecCCccccccccccccchhhhhhhhhcccCCceeeeeecCCCCCCccCCCCcchhHHhh
Q 040642 2 TRKKVKLAYISNDSARKATFKKRKKGLLKKVSELKTLCGIDVCAIIFSPYDDQPEIWPSPLGVQRVLS 69 (233)
Q Consensus 2 gR~Ki~i~~I~n~~~R~~TF~KRr~GL~KKa~ELs~LCd~evavIvfsp~gk~~~~~ps~~~v~~Vl~ 69 (233)
||+||+|.||+|+..|.+||+|||.|+||||+|||||+|.+|-|+|.|.+|-.|.| +.+..+.||.
T Consensus 63 gr~kik~eyIenK~rR~~tFSKRK~GImKKAyELs~LTGtqVllLVaSEtGhVyTF--aTpKLep~i~ 128 (338)
T KOG0015|consen 63 GRVKIKMEYIENKLRRYVTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTF--ATPKLEPMIT 128 (338)
T ss_pred ceeeccchhhcccceeeeeehhhhhhhHHHHHHhhhcccceEEEEEEecCcceEEe--cccccccccc
Confidence 79999999999999999999999999999999999999999999999999987765 4555555554
No 8
>COG5068 ARG80 Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription]
Probab=99.35 E-value=3e-13 Score=120.54 Aligned_cols=59 Identities=34% Similarity=0.502 Sum_probs=56.1
Q ss_pred CCCcccceeeecCCccccccccccccchhhhhhhhhcccCCceeeeeecCCCCCCccCC
Q 040642 1 MTRKKVKLAYISNDSARKATFKKRKKGLLKKVSELKTLCGIDVCAIIFSPYDDQPEIWP 59 (233)
Q Consensus 1 mgR~Ki~i~~I~n~~~R~~TF~KRr~GL~KKa~ELs~LCd~evavIvfsp~gk~~~~~p 59 (233)
|||+||.|.+|+|+.+|.|||+||+.||+|||.||++|+|.+|.++|.|..|..+.|+.
T Consensus 81 ~~~~~~~is~i~nk~~r~vtf~Krk~gI~kka~ElsvLt~~~vl~lvise~g~v~tf~t 139 (412)
T COG5068 81 VTGRKIGISYITNKTKRSVTFSKRKHGINKKAFELSVLTGTEVLLLVISENGLVHTFTT 139 (412)
T ss_pred cccccCCcccccCcccccchhhhhhhhhhhhhhhhhhccCCceEEEEecCCCceeeecC
Confidence 78999999999999999999999999999999999999999999999999999776643
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=97.98 E-value=3.1e-05 Score=57.43 Aligned_cols=58 Identities=22% Similarity=0.330 Sum_probs=47.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040642 88 SFLRQRIAKAYEQLKKQRKDNREKEMERVMFQSLTGSNVFLNMNMIGLNDLGLQIEHNIREICRRMETL 156 (233)
Q Consensus 88 ~~l~q~i~Kl~e~l~kl~~~n~e~e~~~lm~~~l~~~~~l~~Ls~~eL~~L~~~Le~~lk~ir~R~~~L 156 (233)
.++..++.+++.+++.++... ++++ |++|++||++||..|+..|+.+|+.||.|+.++
T Consensus 15 e~~~~e~~~L~~~~~~L~~~~-----R~~~------GedL~~Ls~~eL~~LE~~Le~aL~~VR~rK~~~ 72 (100)
T PF01486_consen 15 EELQQEIAKLRKENESLQKEL-----RHLM------GEDLESLSLKELQQLEQQLESALKRVRSRKDQL 72 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHHH-----hccc------cccccccchHHHHHHHHhhhhhHHHHHHHHHHH
Confidence 567778888888887777543 4565 556999999999999999999999999997665
No 10
>PF08248 Tryp_FSAP: Tryptophyllin-3 skin active peptide; InterPro: IPR013266 PdT-3 or Tryptophyllin-3 peptide is a subfamily of the family Tryptophyllin and of the superfamily FSAP (Frog Skin Active Peptide). Originally identified in skin extracts of Neotropical leaf frogs, Phyllomedusa sp. This subfamily has an average length of 13 amino acids. The pharmacological activity of the tryptophyllins remains to be established [] but it seems that these peptides possess an action on liver protein synthesis and body weight []. It is thought to possesses insulin-releasing activity [].
Probab=82.80 E-value=0.69 Score=20.51 Aligned_cols=9 Identities=56% Similarity=1.700 Sum_probs=7.9
Q ss_pred CCCCCCCCC
Q 040642 225 NLWPNPFYP 233 (233)
Q Consensus 225 ~~~~~~~~~ 233 (233)
.|||-|++|
T Consensus 3 pfw~ppiyp 11 (12)
T PF08248_consen 3 PFWPPPIYP 11 (12)
T ss_pred ccCCCCccc
Confidence 589999997
No 11
>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms]
Probab=82.36 E-value=15 Score=29.96 Aligned_cols=63 Identities=10% Similarity=0.179 Sum_probs=47.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHH--HHHHHHHHhhhccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 040642 89 FLRQRIAKAYEQLKKQRKDNR--EKEMERVMFQSLTGSNVFLNMNMIGLNDLGLQIEHNIREICRRMETLNNIAT 161 (233)
Q Consensus 89 ~l~q~i~Kl~e~l~kl~~~n~--e~e~~~lm~~~l~~~~~l~~Ls~~eL~~L~~~Le~~lk~ir~R~~~L~~~~~ 161 (233)
-|...|.++.+++..++...+ +.|++.| -..|++++++.=...|..-.+..+.|+..++....
T Consensus 83 ~ld~~i~~l~ek~q~l~~t~s~veaEik~L----------~s~Lt~eemQe~i~~L~kev~~~~erl~~~k~g~~ 147 (201)
T KOG4603|consen 83 VLDGKIVALTEKVQSLQQTCSYVEAEIKEL----------SSALTTEEMQEEIQELKKEVAGYRERLKNIKAGTN 147 (201)
T ss_pred HHhHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHhcChHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 455677778888777776655 3444443 24789999999999999999999999998876554
No 12
>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=79.37 E-value=22 Score=28.40 Aligned_cols=60 Identities=20% Similarity=0.236 Sum_probs=45.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH--HHHHHhhhccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 040642 90 LRQRIAKAYEQLKKQRKDNREKE--MERVMFQSLTGSNVFLNMNMIGLNDLGLQIEHNIREICRRMETLNNI 159 (233)
Q Consensus 90 l~q~i~Kl~e~l~kl~~~n~e~e--~~~lm~~~l~~~~~l~~Ls~~eL~~L~~~Le~~lk~ir~R~~~L~~~ 159 (233)
+..++..+++++..++.+....+ ++.+ ...++.+||......|+..+..+..|+..|+..
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 LDAEIKELREELAELKKEVKSLEAELASL----------SSEPTNEELREEIEELEEEIEELEEKLEKLRSG 138 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------hcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 44457777777777776655332 2222 457899999999999999999999999999873
No 13
>PRK04098 sec-independent translocase; Provisional
Probab=74.98 E-value=5 Score=32.16 Aligned_cols=99 Identities=19% Similarity=0.268 Sum_probs=50.5
Q ss_pred ceeeeeecCCCCCCccCCCCcchhHHhhhhccChhhhhhhccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 040642 42 DVCAIIFSPYDDQPEIWPSPLGVQRVLSRFKKMPEMEKSKKMVSQDSFLRQRIAKAYEQLKKQRKDNREKEMERVMFQSL 121 (233)
Q Consensus 42 evavIvfsp~gk~~~~~ps~~~v~~Vl~ry~~~~~~~~~kk~~~~e~~l~q~i~Kl~e~l~kl~~~n~e~e~~~lm~~~l 121 (233)
=||+|||+|. ++|++ --.+-..+..|++.....+ ..++.+- .+..++++..+.++ .+.......
T Consensus 14 vVaLlvfGP~-KLP~~---~r~lGk~ir~~K~~~~~~k--~~l~~Ei----~~~elk~e~~k~k~-----~l~~~~~~l- 77 (158)
T PRK04098 14 VVAIIFLGPD-KLPQA---MVDIAKFFKAVKKTINDAK--STLDKEI----NIEEIKEEALKYKK-----EFESAVESL- 77 (158)
T ss_pred HHHHhhcCch-HHHHH---HHHHHHHHHHHHHHHHHHH--HHHHHHH----hhHHHHHHHHHHHH-----HHHHHHHHH-
Confidence 3688999987 67774 1345666666666433211 1111111 12222222222211 111111111
Q ss_pred cCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 040642 122 TGSNVFLNMNMIGLNDLGLQIEHNIREICRRMETLNNIAT 161 (233)
Q Consensus 122 ~~~~~l~~Ls~~eL~~L~~~Le~~lk~ir~R~~~L~~~~~ 161 (233)
-..+++++|.++...+....+.+.+-+..++....
T Consensus 78 -----~~~~~~eel~~~~~~~~~~~~~~~~~~~~~~~~~~ 112 (158)
T PRK04098 78 -----KKKLKFEELDDLKITAENEIKSIQDLLQDYKKSLE 112 (158)
T ss_pred -----HhccChHHHHHHhhhhhhcchhHHHHHhhhhhccc
Confidence 12378889988887777777777776666654333
No 14
>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=73.23 E-value=9.4 Score=25.44 Aligned_cols=31 Identities=10% Similarity=0.073 Sum_probs=26.1
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q 040642 124 SNVFLNMNMIGLNDLGLQIEHNIREICRRME 154 (233)
Q Consensus 124 ~~~l~~Ls~~eL~~L~~~Le~~lk~ir~R~~ 154 (233)
|.+|+.||++||.+-...|+.-+..++.-+.
T Consensus 15 g~dLs~lSv~EL~~RIa~L~aEI~R~~~~~~ 45 (59)
T PF06698_consen 15 GEDLSLLSVEELEERIALLEAEIARLEAAIA 45 (59)
T ss_pred CCCchhcCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5679999999999999999988887776543
No 15
>PRK02793 phi X174 lysis protein; Provisional
Probab=68.61 E-value=27 Score=24.12 Aligned_cols=23 Identities=4% Similarity=0.120 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Q 040642 135 LNDLGLQIEHNIREICRRMETLN 157 (233)
Q Consensus 135 L~~L~~~Le~~lk~ir~R~~~L~ 157 (233)
.+.-...|...++.+..|+..+.
T Consensus 34 Qq~~I~~L~~~l~~L~~rl~~~~ 56 (72)
T PRK02793 34 HEMEMAKLRDHLRLLTEKLKASQ 56 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhc
Confidence 33334555566666666666654
No 16
>PRK00295 hypothetical protein; Provisional
Probab=65.06 E-value=37 Score=23.14 Aligned_cols=22 Identities=9% Similarity=0.211 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHh
Q 040642 136 NDLGLQIEHNIREICRRMETLN 157 (233)
Q Consensus 136 ~~L~~~Le~~lk~ir~R~~~L~ 157 (233)
+.-...|...++.+..|+..+.
T Consensus 32 q~~I~~L~~ql~~L~~rl~~~~ 53 (68)
T PRK00295 32 QRVIERLQLQMAALIKRQEEMV 53 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHhh
Confidence 3333455566666667766664
No 17
>PRK04406 hypothetical protein; Provisional
Probab=64.76 E-value=33 Score=23.87 Aligned_cols=19 Identities=0% Similarity=0.293 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHHHHHHHh
Q 040642 139 GLQIEHNIREICRRMETLN 157 (233)
Q Consensus 139 ~~~Le~~lk~ir~R~~~L~ 157 (233)
...|...++.+..|+..+.
T Consensus 41 I~~L~~ql~~L~~rl~~~~ 59 (75)
T PRK04406 41 ITKMQDQMKYVVGKVKNMD 59 (75)
T ss_pred HHHHHHHHHHHHHHHHhhc
Confidence 3444555666666665543
No 18
>PF11944 DUF3461: Protein of unknown function (DUF3461); InterPro: IPR020911 This entry describes proteins of unknown function.
Probab=62.38 E-value=11 Score=28.89 Aligned_cols=25 Identities=32% Similarity=0.413 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 040642 132 MIGLNDLGLQIEHNIREICRRMETL 156 (233)
Q Consensus 132 ~~eL~~L~~~Le~~lk~ir~R~~~L 156 (233)
++||..||..+..++.+|+++++.|
T Consensus 101 L~dL~HLE~Vv~~KIaEIe~dlekL 125 (125)
T PF11944_consen 101 LDDLRHLEKVVNSKIAEIERDLEKL 125 (125)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 4599999999999999999998864
No 19
>PRK02119 hypothetical protein; Provisional
Probab=62.32 E-value=41 Score=23.25 Aligned_cols=19 Identities=5% Similarity=0.251 Sum_probs=10.6
Q ss_pred HHHHHHHHHHHHHHHHHHh
Q 040642 139 GLQIEHNIREICRRMETLN 157 (233)
Q Consensus 139 ~~~Le~~lk~ir~R~~~L~ 157 (233)
...|...++.+..|+..+.
T Consensus 39 id~L~~ql~~L~~rl~~~~ 57 (73)
T PRK02119 39 IDKMQVQLRYMANKLKDMQ 57 (73)
T ss_pred HHHHHHHHHHHHHHHHhhc
Confidence 3444555666666665554
No 20
>PRK00846 hypothetical protein; Provisional
Probab=61.22 E-value=45 Score=23.41 Aligned_cols=24 Identities=13% Similarity=0.142 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Q 040642 134 GLNDLGLQIEHNIREICRRMETLN 157 (233)
Q Consensus 134 eL~~L~~~Le~~lk~ir~R~~~L~ 157 (233)
+.+.....|...++.+..|+..+.
T Consensus 38 ~qq~~I~~L~~ql~~L~~rL~~~~ 61 (77)
T PRK00846 38 DARLTGARNAELIRHLLEDLGKVR 61 (77)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhc
Confidence 445555555666666666665555
No 21
>PF04102 SlyX: SlyX; InterPro: IPR007236 The SlyX protein has no known function. It is short, less than 80 amino acids, and its gene is found close to the slyD gene. The SlyX protein has a conserved PPH(Y/W) motif at its C terminus. The protein may be a coiled-coil structure.; PDB: 3EFG_A.
Probab=58.38 E-value=15 Score=25.08 Aligned_cols=21 Identities=14% Similarity=0.245 Sum_probs=7.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHh
Q 040642 137 DLGLQIEHNIREICRRMETLN 157 (233)
Q Consensus 137 ~L~~~Le~~lk~ir~R~~~L~ 157 (233)
.-...|...++.+..|+..+.
T Consensus 32 ~~I~~L~~~l~~L~~rl~~~~ 52 (69)
T PF04102_consen 32 RQIDRLQRQLRLLRERLRELE 52 (69)
T ss_dssp HHHHHHHHHHHHHHHT-----
T ss_pred HHHHHHHHHHHHHHHHHHHhc
Confidence 333444445555555555444
No 22
>PF15372 DUF4600: Domain of unknown function (DUF4600)
Probab=56.80 E-value=50 Score=25.58 Aligned_cols=58 Identities=21% Similarity=0.276 Sum_probs=37.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q 040642 88 SFLRQRIAKAYEQLKKQRKDNREKEMERVMFQSLTGSNVFLNMNMIGLNDLGLQIEHNIREICRRME 154 (233)
Q Consensus 88 ~~l~q~i~Kl~e~l~kl~~~n~e~e~~~lm~~~l~~~~~l~~Ls~~eL~~L~~~Le~~lk~ir~R~~ 154 (233)
.+|..+|.-+++++.+.+.-...+- .- -+..+.|+++.|+.|..+|+.-.+.+...+.
T Consensus 18 ~QLekqi~~l~~kiek~r~n~~drl-----~s----iR~ye~Ms~~~l~~llkqLEkeK~~Le~qlk 75 (129)
T PF15372_consen 18 DQLEKQIIILREKIEKIRGNPSDRL-----SS----IRRYEQMSVESLNQLLKQLEKEKRSLENQLK 75 (129)
T ss_pred HHHHHHHHHHHHHHHHHhCCCcccc-----HH----HHHHhhccHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4666677777777766664322110 00 0125788999999999999888777665543
No 23
>COG4575 ElaB Uncharacterized conserved protein [Function unknown]
Probab=52.59 E-value=95 Score=23.12 Aligned_cols=30 Identities=13% Similarity=0.109 Sum_probs=27.4
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 040642 128 LNMNMIGLNDLGLQIEHNIREICRRMETLN 157 (233)
Q Consensus 128 ~~Ls~~eL~~L~~~Le~~lk~ir~R~~~L~ 157 (233)
.+++.+++..|...++..|++++.|+..+.
T Consensus 32 g~~a~~e~~~lR~r~~~~Lk~~r~rl~~~~ 61 (104)
T COG4575 32 GSLAGDEAEELRSKAESALKEARDRLGDTG 61 (104)
T ss_pred ccchhhHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 678899999999999999999999988774
No 24
>PRK13677 hypothetical protein; Provisional
Probab=51.89 E-value=21 Score=27.21 Aligned_cols=25 Identities=28% Similarity=0.355 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 040642 132 MIGLNDLGLQIEHNIREICRRMETL 156 (233)
Q Consensus 132 ~~eL~~L~~~Le~~lk~ir~R~~~L 156 (233)
++||..|+..+..++.+|.+.++.|
T Consensus 101 L~dLrHLE~Vv~~KIaEIe~dLekL 125 (125)
T PRK13677 101 LDDLRHLESVVANKISEIEADLEKL 125 (125)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 4699999999999999999998764
No 25
>PRK00736 hypothetical protein; Provisional
Probab=51.59 E-value=74 Score=21.60 Aligned_cols=18 Identities=17% Similarity=0.359 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHHHHHHHh
Q 040642 140 LQIEHNIREICRRMETLN 157 (233)
Q Consensus 140 ~~Le~~lk~ir~R~~~L~ 157 (233)
..|...++.+..|+..+.
T Consensus 36 ~~L~~ql~~L~~rl~~~~ 53 (68)
T PRK00736 36 EQMRKKLDALTERFLSLE 53 (68)
T ss_pred HHHHHHHHHHHHHHHHhc
Confidence 344455555666655543
No 26
>PRK04325 hypothetical protein; Provisional
Probab=49.69 E-value=85 Score=21.70 Aligned_cols=18 Identities=17% Similarity=0.300 Sum_probs=9.8
Q ss_pred HHHHHHHHHHHHHHHHHh
Q 040642 140 LQIEHNIREICRRMETLN 157 (233)
Q Consensus 140 ~~Le~~lk~ir~R~~~L~ 157 (233)
..|...++.+..|+..+.
T Consensus 40 ~~L~~ql~~L~~rl~~~~ 57 (74)
T PRK04325 40 DLLQAQLRLLYQQMRDAN 57 (74)
T ss_pred HHHHHHHHHHHHHHHHhc
Confidence 444555556666665543
No 27
>KOG3048 consensus Molecular chaperone Prefoldin, subunit 5 [Posttranslational modification, protein turnover, chaperones]
Probab=48.93 E-value=44 Score=26.40 Aligned_cols=35 Identities=11% Similarity=0.202 Sum_probs=30.0
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 040642 124 SNVFLNMNMIGLNDLGLQIEHNIREICRRMETLNN 158 (233)
Q Consensus 124 ~~~l~~Ls~~eL~~L~~~Le~~lk~ir~R~~~L~~ 158 (233)
+-+|..||+++|..|..++|+-+.-+..-+..|+.
T Consensus 7 ~idltkLsleQL~~lk~q~dqEl~~lq~Sl~~L~~ 41 (153)
T KOG3048|consen 7 GIDLTKLSLEQLGALKKQFDQELNFLQDSLNALKG 41 (153)
T ss_pred CCChhhCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34688999999999999999999988888777764
No 28
>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=48.54 E-value=33 Score=30.21 Aligned_cols=45 Identities=16% Similarity=0.346 Sum_probs=32.9
Q ss_pred ceeeecCCccccccccccccchhhhhhhhhcccCCceeeeeecCCCCCCccCCCCcchhHHhhhhcc
Q 040642 7 KLAYISNDSARKATFKKRKKGLLKKVSELKTLCGIDVCAIIFSPYDDQPEIWPSPLGVQRVLSRFKK 73 (233)
Q Consensus 7 ~i~~I~n~~~R~~TF~KRr~GL~KKa~ELs~LCd~evavIvfsp~gk~~~~~ps~~~v~~Vl~ry~~ 73 (233)
.+..|.|.+.|..+=++ .||..|.+ |.|. |-++|++++|+|+|..
T Consensus 25 n~~li~n~tqr~t~~sR-------------~L~Ecel~---~~p~------Y~nDpEmK~iid~~n~ 69 (295)
T TIGR01478 25 NVSYIQNNTQMTSTKSR-------------LLAEIQRP---KNPH------YHNDPELKEIIDKLNE 69 (295)
T ss_pred ceecccCccccccccce-------------ehhhhccc---cCCC------CCCcHHHHHHHHHHhH
Confidence 46788888888777332 47877776 5552 3478999999999965
No 29
>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=48.35 E-value=2.5 Score=22.68 Aligned_cols=13 Identities=23% Similarity=0.212 Sum_probs=9.9
Q ss_pred eeeeecCCCCCCc
Q 040642 44 CAIIFSPYDDQPE 56 (233)
Q Consensus 44 avIvfsp~gk~~~ 56 (233)
.+.+|||.|+++.
T Consensus 4 ~~t~FSp~Grl~Q 16 (23)
T PF10584_consen 4 SITTFSPDGRLFQ 16 (23)
T ss_dssp STTSBBTTSSBHH
T ss_pred CceeECCCCeEEe
Confidence 4568999998654
No 30
>KOG4311 consensus Histidinol dehydrogenase [Amino acid transport and metabolism]
Probab=47.48 E-value=56 Score=28.63 Aligned_cols=135 Identities=19% Similarity=0.287 Sum_probs=73.1
Q ss_pred ccccccccccccch---------hhhhhhhhcccCCceeeeeecCCCCCC-------ccCCCC---cchhHHhh-hhccC
Q 040642 15 SARKATFKKRKKGL---------LKKVSELKTLCGIDVCAIIFSPYDDQP-------EIWPSP---LGVQRVLS-RFKKM 74 (233)
Q Consensus 15 ~~R~~TF~KRr~GL---------~KKa~ELs~LCd~evavIvfsp~gk~~-------~~~ps~---~~v~~Vl~-ry~~~ 74 (233)
+.+.|-||+-|..| +-+.-.+.|=||-+.-+.|.-+.|+-+ .|+-+. -+.+++|. |-...
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 34556667666634 555667889999998887777777622 221111 23566655 44445
Q ss_pred hhhhhhhccccchhHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHhhhccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q 040642 75 PEMEKSKKMVSQDSFLRQRIAKAYEQLKKQR-KDNREKEMERVMFQSLTGSNVFLNMNMIGLNDLGLQIEHNIREICRRM 153 (233)
Q Consensus 75 ~~~~~~kk~~~~e~~l~q~i~Kl~e~l~kl~-~~n~e~e~~~lm~~~l~~~~~l~~Ls~~eL~~L~~~Le~~lk~ir~R~ 153 (233)
|+..-+.+..+-...|...|...-++|-... +.+---||..+|+-.+. .-.-.+.+ |++.+..|+-+-+.+..|+
T Consensus 260 PeeSyTrRLftD~aLL~aKI~EEAeELc~a~~k~e~~wEmADl~YfA~~-~lv~~gVs---l~Dv~~~LnmkhrKvtrrk 335 (359)
T KOG4311|consen 260 PEESYTRRLFTDDALLCAKIREEAEELCRALEKNETPWEMADLLYFAMV-LLVKRGVS---LEDVLEVLNMKHRKVTRRK 335 (359)
T ss_pred CchhhHHHhhCChHHHHHHHHHHHHHHHHhhcccCChHHHHHHHHHHHH-HHHhcCCc---HHHHHHHhhhHHHhHhhhc
Confidence 5544344445444556655554444443322 22233567777754322 00112334 5556667777767776664
No 31
>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=46.04 E-value=1.1e+02 Score=22.16 Aligned_cols=29 Identities=31% Similarity=0.313 Sum_probs=20.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040642 88 SFLRQRIAKAYEQLKKQRKDNREKEMERV 116 (233)
Q Consensus 88 ~~l~q~i~Kl~e~l~kl~~~n~e~e~~~l 116 (233)
+-+..+|.+|+++++.+.....|+=-+..
T Consensus 5 s~I~~eIekLqe~lk~~e~keaERigr~A 33 (92)
T PF07820_consen 5 SKIREEIEKLQEQLKQAETKEAERIGRIA 33 (92)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34778899999999888766555443333
No 32
>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=43.84 E-value=65 Score=20.96 Aligned_cols=25 Identities=20% Similarity=0.260 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Q 040642 134 GLNDLGLQIEHNIREICRRMETLNN 158 (233)
Q Consensus 134 eL~~L~~~Le~~lk~ir~R~~~L~~ 158 (233)
...+....++..+..|.++++.|+.
T Consensus 33 ~~~~~~~~l~~~~~~i~~~i~~L~~ 57 (65)
T PF09278_consen 33 PCADRRALLEEKLEEIEEQIAELQA 57 (65)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444557889999999999988864
No 33
>PF14282 FlxA: FlxA-like protein
Probab=43.79 E-value=1.3e+02 Score=22.19 Aligned_cols=31 Identities=6% Similarity=0.130 Sum_probs=24.0
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 040642 128 LNMNMIGLNDLGLQIEHNIREICRRMETLNN 158 (233)
Q Consensus 128 ~~Ls~~eL~~L~~~Le~~lk~ir~R~~~L~~ 158 (233)
.+|+.++-..-...|..-|..|...|..|+.
T Consensus 42 ~~~~~e~k~~q~q~Lq~QI~~LqaQI~qlq~ 72 (106)
T PF14282_consen 42 SDLDAEQKQQQIQLLQAQIQQLQAQIAQLQS 72 (106)
T ss_pred cCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4678888888888888888888888777764
No 34
>PRK13848 conjugal transfer protein TraC; Provisional
Probab=41.27 E-value=1.4e+02 Score=21.79 Aligned_cols=54 Identities=22% Similarity=0.280 Sum_probs=31.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHH
Q 040642 88 SFLRQRIAKAYEQLKKQRKDNREKEMERVMFQSLTGSNVFLNMNMIGLNDLGLQIEHNIREICRR 152 (233)
Q Consensus 88 ~~l~q~i~Kl~e~l~kl~~~n~e~e~~~lm~~~l~~~~~l~~Ls~~eL~~L~~~Le~~lk~ir~R 152 (233)
+-+..+|.+|+++++.+.....|+=-+..+. ..|.+|.++| ..|+..+.+|..|
T Consensus 6 s~I~~eI~kLqe~lk~~e~keAERigRiAlK------AGLgeieI~d-----~eL~~aFeeiAaR 59 (98)
T PRK13848 6 SKIREEIAKLQEQLKQAETREAERIGRIALK------AGLGEIEIEE-----AELQAAFEELAKR 59 (98)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------cCccccccCH-----HHHHHHHHHHHHH
Confidence 3467789999999988776655544444332 2355554443 2234445555555
No 35
>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=41.27 E-value=1.3e+02 Score=28.12 Aligned_cols=46 Identities=20% Similarity=0.191 Sum_probs=28.4
Q ss_pred chhHHhhhhccChhhhhhhccccchhHHHHHHHHHHHHHHHHHHHH
Q 040642 63 GVQRVLSRFKKMPEMEKSKKMVSQDSFLRQRIAKAYEQLKKQRKDN 108 (233)
Q Consensus 63 ~v~~Vl~ry~~~~~~~~~kk~~~~e~~l~q~i~Kl~e~l~kl~~~n 108 (233)
-++.+++.|.......+.........|+.+++.++++++...+..-
T Consensus 139 i~n~l~~~yi~~~~~~~~~~~~~~~~fl~~ql~~~~~~L~~ae~~l 184 (498)
T TIGR03007 139 VVQTLLTIFVEETLGSKRQDSDSAQRFIDEQIKTYEKKLEAAENRL 184 (498)
T ss_pred HHHHHHHHHHHhhcccchhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3566677787643322222222345789999999988887776543
No 36
>PTZ00046 rifin; Provisional
Probab=41.13 E-value=46 Score=30.32 Aligned_cols=27 Identities=19% Similarity=0.536 Sum_probs=20.7
Q ss_pred cccCCceeeeeecCCCCCCccCCCCcchhHHhhhhcc
Q 040642 37 TLCGIDVCAIIFSPYDDQPEIWPSPLGVQRVLSRFKK 73 (233)
Q Consensus 37 ~LCd~evavIvfsp~gk~~~~~ps~~~v~~Vl~ry~~ 73 (233)
+||..|. |+|+ |-++|.|++|.+.|.+
T Consensus 40 ~LcECeL----Y~pn------YDNDPeMK~Vme~F~r 66 (358)
T PTZ00046 40 LLCECEL----YSSN------YDNDPEMKSVMENFDR 66 (358)
T ss_pred hhhhhhc----CCCC------CCCcHHHHHHHHHHhH
Confidence 5787775 6652 4478999999999976
No 37
>PHA02592 52 DNA topisomerase II medium subunit; Provisional
Probab=39.89 E-value=1.1e+02 Score=28.69 Aligned_cols=42 Identities=7% Similarity=0.147 Sum_probs=27.5
Q ss_pred cchhhhhhhhhcccCCceeeeeecCCCCCCccCCCCcchhHHhhhhccC
Q 040642 26 KGLLKKVSELKTLCGIDVCAIIFSPYDDQPEIWPSPLGVQRVLSRFKKM 74 (233)
Q Consensus 26 ~GL~KKa~ELs~LCd~evavIvfsp~gk~~~~~ps~~~v~~Vl~ry~~~ 74 (233)
++|+|+- .|.+- ..+-+++|+++|+...+ .++.+||+.|-.+
T Consensus 285 ~~L~k~~-~L~~~--~~~Nm~~~d~~g~~~~~----~~~~~Il~~f~~~ 326 (439)
T PHA02592 285 EKIMKDF-GLIER--VSQNITVINENGKLKVY----ENAEDLIRDFVEI 326 (439)
T ss_pred HHHHHhc-Cchhe--eeeeEEEEecCCeeeec----CCHHHHHHHHHHH
Confidence 4666543 33332 24778899999875543 3589999999663
No 38
>PLN03230 acetyl-coenzyme A carboxylase carboxyl transferase; Provisional
Probab=38.82 E-value=1.8e+02 Score=27.24 Aligned_cols=71 Identities=17% Similarity=0.336 Sum_probs=40.0
Q ss_pred chhHHhhhhccChhhhhhhccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCCCHHHHHHHHHHH
Q 040642 63 GVQRVLSRFKKMPEMEKSKKMVSQDSFLRQRIAKAYEQLKKQRKDNREKEMERVMFQSLTGSNVFLNMNMIGLNDLGLQI 142 (233)
Q Consensus 63 ~v~~Vl~ry~~~~~~~~~kk~~~~e~~l~q~i~Kl~e~l~kl~~~n~e~e~~~lm~~~l~~~~~l~~Ls~~eL~~L~~~L 142 (233)
++-+.|.+|+-+....+.. .+ + +.+.|..+++++..++.-.. ... -+++ +++..|+..+
T Consensus 56 ~~~~~~~~~~~~~~~~~~~-~l---~-fe~pi~ele~ki~el~~~~~--------------~~~-~~~~-~ei~~l~~~~ 114 (431)
T PLN03230 56 GALKILNRFKPLKNKPKPV-TL---P-FEKPIVDLENRIDEVRELAN--------------KTG-VDFS-AQIAELEERY 114 (431)
T ss_pred cHHHHHHhcCCCCCCCCCC-cc---c-hhhHHHHHHHHHHHHHhhhh--------------ccc-ccHH-HHHHHHHHHH
Confidence 3445899998765433211 11 1 34557777777766664321 001 1222 4788888888
Q ss_pred HHHHHHHHHHHH
Q 040642 143 EHNIREICRRME 154 (233)
Q Consensus 143 e~~lk~ir~R~~ 154 (233)
++..++|...+.
T Consensus 115 ~~~~~~i~~~Lt 126 (431)
T PLN03230 115 DQVRRELYSRLT 126 (431)
T ss_pred HHHHHHHHhcCC
Confidence 877777776543
No 39
>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=38.25 E-value=19 Score=30.09 Aligned_cols=43 Identities=14% Similarity=0.281 Sum_probs=34.2
Q ss_pred hhhhhhcccCCceeeeeecCCCC--CCccCCCCcchhHHhhhhccC
Q 040642 31 KVSELKTLCGIDVCAIIFSPYDD--QPEIWPSPLGVQRVLSRFKKM 74 (233)
Q Consensus 31 Ka~ELs~LCd~evavIvfsp~gk--~~~~~ps~~~v~~Vl~ry~~~ 74 (233)
=..|++|-+|-.|+|++.+|+.. .+.+|.. .-.+.|+..|+.+
T Consensus 44 ~~de~~trvGqqavvl~~~p~kp~~~f~vfGa-~pL~~vv~~~~~~ 88 (214)
T PF10491_consen 44 TIDEYTTRVGQQAVVLCCTPSKPNPVFKVFGA-APLENVVRNLKPV 88 (214)
T ss_pred HHHHHHHhhhceeEEEEecCCCCCCceeeecc-hhHHHHHHHHHHH
Confidence 35799999999999999999854 4556754 4489999999774
No 40
>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=35.63 E-value=1.8e+02 Score=24.13 Aligned_cols=57 Identities=18% Similarity=0.310 Sum_probs=31.4
Q ss_pred hhHHhhhhccChhhhhhhccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCCCHHH
Q 040642 64 VQRVLSRFKKMPEMEKSKKMVSQDSFLRQRIAKAYEQLKKQRKDNREKEMERVMFQSLTGSNVFLNMNMIG 134 (233)
Q Consensus 64 v~~Vl~ry~~~~~~~~~kk~~~~e~~l~q~i~Kl~e~l~kl~~~n~e~e~~~lm~~~l~~~~~l~~Ls~~e 134 (233)
..+++|.|...+.... -.+++.++++.|+...++. +..+|-+|-..+.-..+|-..|
T Consensus 8 ~~~~~D~Y~~~~~~~~----------Eh~~f~~Ak~rLe~~hr~r----~~~VmkeW~eaE~~~~~l~~~D 64 (193)
T PF12925_consen 8 TSDAVDPYFEHPDPEN----------EHQRFKEAKERLEEKHRER----MTKVMKEWSEAEERYKELPKAD 64 (193)
T ss_dssp ---HHHHHHHSSTTST----------HHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHTTTTSHHHH
T ss_pred CCCCCChHhhcCCCCc----------hHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHhchhhh
Confidence 3356799988765431 2345566666665555443 4556666644344566776666
No 41
>PF11460 DUF3007: Protein of unknown function (DUF3007); InterPro: IPR021562 This is a family of uncharacterised proteins found in bacteria and eukaryotes.
Probab=34.02 E-value=91 Score=23.22 Aligned_cols=18 Identities=22% Similarity=0.261 Sum_probs=15.5
Q ss_pred CCCCCHHHHHHHHHHHHH
Q 040642 127 FLNMNMIGLNDLGLQIEH 144 (233)
Q Consensus 127 l~~Ls~~eL~~L~~~Le~ 144 (233)
++.|+.+|+..|...|++
T Consensus 87 le~l~~eE~~~L~~eiee 104 (104)
T PF11460_consen 87 LEELSPEELEALQAEIEE 104 (104)
T ss_pred HHhCCHHHHHHHHHHhcC
Confidence 789999999999888763
No 42
>PTZ00108 DNA topoisomerase 2-like protein; Provisional
Probab=33.87 E-value=1.6e+02 Score=31.83 Aligned_cols=26 Identities=12% Similarity=0.184 Sum_probs=21.1
Q ss_pred eeeeecCCCCCCccCCCCcchhHHhhhhcc
Q 040642 44 CAIIFSPYDDQPEIWPSPLGVQRVLSRFKK 73 (233)
Q Consensus 44 avIvfsp~gk~~~~~ps~~~v~~Vl~ry~~ 73 (233)
.+++|.+.|+.|.+ .++..||+.|..
T Consensus 962 Nm~~~d~~g~i~~~----~~~~~Il~~f~~ 987 (1388)
T PTZ00108 962 NMVLFDENGKIKKY----SDALDILKEFYL 987 (1388)
T ss_pred eEEEEeCCCCccee----CCHHHHHHHHHH
Confidence 57899999998875 358899999865
No 43
>PF14723 SSFA2_C: Sperm-specific antigen 2 C-terminus
Probab=33.12 E-value=2.5e+02 Score=22.92 Aligned_cols=16 Identities=25% Similarity=0.528 Sum_probs=7.4
Q ss_pred HHHHHHHHHHHHHHHH
Q 040642 135 LNDLGLQIEHNIREIC 150 (233)
Q Consensus 135 L~~L~~~Le~~lk~ir 150 (233)
|++||.+|++.+..|+
T Consensus 161 lqELE~QL~DRl~~l~ 176 (179)
T PF14723_consen 161 LQELEFQLEDRLLQLR 176 (179)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3444444444444444
No 44
>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=32.83 E-value=2.3e+02 Score=21.90 Aligned_cols=17 Identities=24% Similarity=0.712 Sum_probs=14.1
Q ss_pred CCCCcchhHHhhhhccC
Q 040642 58 WPSPLGVQRVLSRFKKM 74 (233)
Q Consensus 58 ~ps~~~v~~Vl~ry~~~ 74 (233)
|+.+.++..||++|...
T Consensus 34 ~~pP~el~~iLe~y~~~ 50 (132)
T PF09432_consen 34 WNPPKELQSILEKYNTP 50 (132)
T ss_pred CCCCHHHHHHHHHHcCC
Confidence 76677899999999873
No 45
>PF05700 BCAS2: Breast carcinoma amplified sequence 2 (BCAS2); InterPro: IPR008409 This family consists of several eukaryotic sequences of unknown function. The mammalian members of this family are annotated as breast carcinoma amplified sequence 2 (BCAS2) proteins []. BCAS2 is a putative spliceosome associated protein [].
Probab=31.97 E-value=1.7e+02 Score=24.55 Aligned_cols=65 Identities=17% Similarity=0.252 Sum_probs=43.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 040642 88 SFLRQRIAKAYEQLKKQRKDNREKEMERVMFQSLTGSNVFLNMNMIGLNDLGLQIEHNIREICRRMETLNN 158 (233)
Q Consensus 88 ~~l~q~i~Kl~e~l~kl~~~n~e~e~~~lm~~~l~~~~~l~~Ls~~eL~~L~~~Le~~lk~ir~R~~~L~~ 158 (233)
.-|...+..+..++..+.......+ ||..+ |.+.=-.....|..+...+++.|..++..++.+..
T Consensus 100 ~~w~~al~na~a~lehq~~R~~NLe---Ll~~~---g~naW~~~n~~Le~~~~~le~~l~~~k~~ie~vN~ 164 (221)
T PF05700_consen 100 EAWKEALDNAYAQLEHQRLRLENLE---LLSKY---GENAWLIHNEQLEAMLKRLEKELAKLKKEIEEVNR 164 (221)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH---HHHHH---hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4577777777777776554333222 44333 22222245578999999999999999999888864
No 46
>TIGR02231 conserved hypothetical protein. This family consists of proteins over 500 amino acids long in Caenorhabditis elegans and several bacteria (Pseudomonas aeruginosa, Nostoc sp. PCC 7120, Leptospira interrogans, etc.). The function is unknown.
Probab=31.43 E-value=3.8e+02 Score=25.40 Aligned_cols=24 Identities=4% Similarity=-0.162 Sum_probs=14.2
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHH
Q 040642 129 NMNMIGLNDLGLQIEHNIREICRR 152 (233)
Q Consensus 129 ~Ls~~eL~~L~~~Le~~lk~ir~R 152 (233)
..++.++.++...+.+.+..++.+
T Consensus 123 ~~~~~~~~~~~~~~~~~~~~~~~~ 146 (525)
T TIGR02231 123 EPDLKEWFQAFDFNGSEIERLLTE 146 (525)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHH
Confidence 456777777666555555444433
No 47
>PF00521 DNA_topoisoIV: DNA gyrase/topoisomerase IV, subunit A; InterPro: IPR002205 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type II topoisomerases are ATP-dependent enzymes, and can be subdivided according to their structure and reaction mechanisms: type IIA (topoisomerase II or gyrase, and topoisomerase IV) and type IIB (topoisomerase VI). These enzymes are responsible for relaxing supercoiled DNA as well as for introducing both negative and positive supercoils []. Type IIA topoisomerases together manage chromosome integrity and topology in cells. Topoisomerase II (called gyrase in bacteria) primarily introduces negative supercoils into DNA. In bacteria, topoisomerase II consists of two polypeptide subunits, gyrA and gyrB, which form a heterotetramer: (BA)2. In most eukaryotes, topoisomerase II consists of a single polypeptide, where the N- and C-terminal regions correspond to gyrB and gyrA, respectively; this topoisomerase II forms a homodimer that is equivalent to the bacterial heterotetramer. There are four functional domains in topoisomerase II: domain 1 (N-terminal of gyrB) is an ATPase, domain 2 (C-terminal of gyrB) is responsible for subunit interactions (differs between eukaryotic and bacterial enzymes), domain 3 (N-terminal of gyrA) is responsible for the breaking-rejoining function through its capacity to form protein-DNA bridges, and domain 4 (C-terminal of gyrA) is able to non-specifically bind DNA []. Topoisomerase IV primarily decatenates DNA and relaxes positive supercoils, which is important in bacteria, where the circular chromosome becomes catenated, or linked, during replication []. Topoisomerase IV consists of two polypeptide subunits, parE and parC, where parC is homologous to gyrA and parE is homologous to gyrB. This entry represents subunit A (gyrA and parC) of bacterial gyrase and topoisomerase IV, and the equivalent C-terminal region in eukaryotic topoisomerase II composed of a single polypeptide. This subunit has DNA-binding capacity. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003918 DNA topoisomerase (ATP-hydrolyzing) activity, 0005524 ATP binding, 0006265 DNA topological change, 0005694 chromosome; PDB: 1ZVU_A 1AB4_A 1X75_A 3NUH_A 1BJT_A 1BGW_A 2RGR_A 3KSB_B 3FOE_B 2NOV_C ....
Probab=30.61 E-value=2.1e+02 Score=26.51 Aligned_cols=62 Identities=26% Similarity=0.460 Sum_probs=35.2
Q ss_pred CcccceeeecCCcccccccc---cc-------ccchhhhhhhhhcccCCcee-eeeecCCCCCCccCCCCcchhHHhhhh
Q 040642 3 RKKVKLAYISNDSARKATFK---KR-------KKGLLKKVSELKTLCGIDVC-AIIFSPYDDQPEIWPSPLGVQRVLSRF 71 (233)
Q Consensus 3 R~Ki~i~~I~n~~~R~~TF~---KR-------r~GL~KKa~ELs~LCd~eva-vIvfsp~gk~~~~~ps~~~v~~Vl~ry 71 (233)
.+||+|.-|.|.+.+.+.|. || ..+|+|+- -|.+-. .+. +++|.. + |.+ .++.+||+.|
T Consensus 243 ~~~i~I~d~~D~Sd~~v~ivI~lk~~~~~~~~~~~L~k~t-~Lq~s~--~~n~~~l~~~-~--p~~----~~~~eIL~~f 312 (426)
T PF00521_consen 243 DKKIKISDYRDESDRGVRIVIELKRGADPEKILEGLYKKT-KLQSSI--STNNMVLFDN-G--PKY----DSLKEILKEF 312 (426)
T ss_dssp TTSSTEEEEEE-BBTBS-EEEEESTTSHHHHHHHHHHHHS-TTEEEE--EEETEEEETT-E--EEE----SSHHHHHHHH
T ss_pred cCcchhhHHHhcCCCceeEEEEecCCccHHHHHHHHHHHh-hhhccc--cchheEEecC-c--cee----CCHHHHHHHH
Confidence 35677778888888877662 22 34666653 233222 222 345555 4 554 3589999999
Q ss_pred ccC
Q 040642 72 KKM 74 (233)
Q Consensus 72 ~~~ 74 (233)
-.+
T Consensus 313 ~~~ 315 (426)
T PF00521_consen 313 YEF 315 (426)
T ss_dssp HHH
T ss_pred HHH
Confidence 663
No 48
>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=29.91 E-value=2.5e+02 Score=22.22 Aligned_cols=29 Identities=10% Similarity=-0.034 Sum_probs=25.0
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040642 128 LNMNMIGLNDLGLQIEHNIREICRRMETL 156 (233)
Q Consensus 128 ~~Ls~~eL~~L~~~Le~~lk~ir~R~~~L 156 (233)
..++.+|...+........+..+.|+...
T Consensus 140 ~~vs~ee~~~~~~~~~~~~k~w~kRKri~ 168 (169)
T PF07106_consen 140 KPVSPEEKEKLEKEYKKWRKEWKKRKRIC 168 (169)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 44899999999999999999999987643
No 49
>PF08181 DegQ: DegQ (SacQ) family; InterPro: IPR012554 This family consists of the DegQ (formerly sacQ) regulatory peptides. The DegQ family of peptides control the rates of synthesis of a class of both secreted and intracellular degradative enzymes in Bacillus subtilis. DegQ is 46 amino acids long and activates the synthesis of degradative enzymes. The expression of this peptide was shown to be subjected both to catabolite repression and DegS-DegU-mediated control. Thus allowing an increase in the rate of synthesis of degQ under conditions of nitrogen starvation [].
Probab=29.52 E-value=1.4e+02 Score=18.27 Aligned_cols=21 Identities=29% Similarity=0.387 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 040642 132 MIGLNDLGLQIEHNIREICRR 152 (233)
Q Consensus 132 ~~eL~~L~~~Le~~lk~ir~R 152 (233)
++||.+|.+.||.-+++..+-
T Consensus 6 ieelkqll~rle~eirett~s 26 (46)
T PF08181_consen 6 IEELKQLLWRLENEIRETTDS 26 (46)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 456777777777655554443
No 50
>PF13082 DUF3931: Protein of unknown function (DUF3931)
Probab=28.59 E-value=26 Score=22.72 Aligned_cols=37 Identities=27% Similarity=0.409 Sum_probs=29.8
Q ss_pred cccceeeecCCccccccccccccchhhhhhhhh--cccC
Q 040642 4 KKVKLAYISNDSARKATFKKRKKGLLKKVSELK--TLCG 40 (233)
Q Consensus 4 ~Ki~i~~I~n~~~R~~TF~KRr~GL~KKa~ELs--~LCd 40 (233)
+|-.+--|.-+....-||+--+--.-.|.+|+| +|||
T Consensus 6 kkcnvisidgkkkksdtysypklvvenktyefssfvlcg 44 (66)
T PF13082_consen 6 KKCNVISIDGKKKKSDTYSYPKLVVENKTYEFSSFVLCG 44 (66)
T ss_pred ccccEEEeccccccCCcccCceEEEeCceEEEEEEEEEc
Confidence 566667788888888899988888889999998 5775
No 51
>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=27.66 E-value=28 Score=30.68 Aligned_cols=17 Identities=12% Similarity=0.454 Sum_probs=14.5
Q ss_pred hhcccCCceeeeeecCC
Q 040642 35 LKTLCGIDVCAIIFSPY 51 (233)
Q Consensus 35 Ls~LCd~evavIvfsp~ 51 (233)
..-+||+|||++||.-.
T Consensus 182 ~~~~~~~EICLavYek~ 198 (334)
T PF06020_consen 182 GGQVSGFEICLAVYEKG 198 (334)
T ss_pred CCccccceEEeeehhhh
Confidence 35689999999999876
No 52
>PF15290 Syntaphilin: Golgi-localised syntaxin-1-binding clamp
Probab=27.59 E-value=1.9e+02 Score=25.56 Aligned_cols=13 Identities=15% Similarity=0.225 Sum_probs=6.8
Q ss_pred hhHHhhhhccChh
Q 040642 64 VQRVLSRFKKMPE 76 (233)
Q Consensus 64 v~~Vl~ry~~~~~ 76 (233)
+..--.||..+.+
T Consensus 35 ~~rr~~rY~~C~d 47 (305)
T PF15290_consen 35 TMRRSGRYMSCGD 47 (305)
T ss_pred CCCCCCceeeccc
Confidence 3344467766543
No 53
>TIGR03156 GTP_HflX GTP-binding protein HflX. This protein family is one of a number of homologous small, well-conserved GTP-binding proteins with pleiotropic effects. Bacterial members are designated HflX, following the naming convention in Escherichia coli where HflX is encoded immediately downstream of the RNA chaperone Hfq, and immediately upstream of HflKC, a membrane-associated protease pair with an important housekeeping function. Over large numbers of other bacterial genomes, the pairing with hfq is more significant than with hflK and hlfC. The gene from Homo sapiens in this family has been named PGPL (pseudoautosomal GTP-binding protein-like).
Probab=26.80 E-value=4.7e+02 Score=23.51 Aligned_cols=20 Identities=15% Similarity=0.081 Sum_probs=10.2
Q ss_pred hhHHHHHHHHHHHHHHHHHH
Q 040642 87 DSFLRQRIAKAYEQLKKQRK 106 (233)
Q Consensus 87 e~~l~q~i~Kl~e~l~kl~~ 106 (233)
|.-|+.++..++-.+.++..
T Consensus 111 e~klqv~la~l~~~l~r~~~ 130 (351)
T TIGR03156 111 EGKLQVELAQLKYLLPRLVG 130 (351)
T ss_pred HHHHHHHHHhccchhhhhhh
Confidence 44455555555555554443
No 54
>PF04417 DUF501: Protein of unknown function (DUF501); InterPro: IPR007511 This is a family of uncharacterised bacterial proteins.
Probab=26.65 E-value=2.9e+02 Score=21.50 Aligned_cols=38 Identities=16% Similarity=0.226 Sum_probs=23.8
Q ss_pred cCCceeeeeec--CCCC-CC-ccCCCCcchhHHhhhhccChh
Q 040642 39 CGIDVCAIIFS--PYDD-QP-EIWPSPLGVQRVLSRFKKMPE 76 (233)
Q Consensus 39 Cd~evavIvfs--p~gk-~~-~~~ps~~~v~~Vl~ry~~~~~ 76 (233)
||....|.++- ++|+ +| .||=+.|.+...++|....-.
T Consensus 7 ~G~P~Vi~~~P~l~~g~PFPTlfwLtcP~L~~~isrLE~~G~ 48 (139)
T PF04417_consen 7 CGFPQVIRTAPRLVDGKPFPTLFWLTCPYLVKAISRLEAEGG 48 (139)
T ss_pred CCCCeEEEeccCCCCCccCCccHhhcCHHHHHHHHHHHhcCH
Confidence 46666555553 3444 44 447677888888888876433
No 55
>PF13252 DUF4043: Protein of unknown function (DUF4043)
Probab=26.40 E-value=36 Score=30.78 Aligned_cols=30 Identities=17% Similarity=0.184 Sum_probs=23.1
Q ss_pred hhhhhhhcccCCceeeeeecC-CCCCCccCC
Q 040642 30 KKVSELKTLCGIDVCAIIFSP-YDDQPEIWP 59 (233)
Q Consensus 30 KKa~ELs~LCd~evavIvfsp-~gk~~~~~p 59 (233)
..+-.-++|||+.++++.|+. .+..+.+|.
T Consensus 269 ~~~v~ralLlGaQA~~~A~G~~~~~~~~~w~ 299 (341)
T PF13252_consen 269 NVAVARALLLGAQALVIAFGKSGSGMRFFWV 299 (341)
T ss_pred CcceeeeeeechhheeeeeeccCCCcccccc
Confidence 345566899999999999999 455666674
No 56
>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]
Probab=26.09 E-value=37 Score=26.52 Aligned_cols=23 Identities=22% Similarity=0.270 Sum_probs=18.7
Q ss_pred hhhcccCCceeeeeecCCCCCCc
Q 040642 34 ELKTLCGIDVCAIIFSPYDDQPE 56 (233)
Q Consensus 34 ELs~LCd~evavIvfsp~gk~~~ 56 (233)
=+.++|||+|-++|.+-+.+..-
T Consensus 58 L~tt~~dadvi~~v~~and~~s~ 80 (148)
T COG4917 58 LITTLQDADVIIYVHAANDPESR 80 (148)
T ss_pred HHHHhhccceeeeeecccCcccc
Confidence 36789999999999999876443
No 57
>PLN03229 acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha; Provisional
Probab=25.86 E-value=3.9e+02 Score=26.98 Aligned_cols=88 Identities=16% Similarity=0.261 Sum_probs=45.6
Q ss_pred eeeeeecCCCCCC-ccCCCCc------chhHHhhhhccChhhhhhhccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040642 43 VCAIIFSPYDDQP-EIWPSPL------GVQRVLSRFKKMPEMEKSKKMVSQDSFLRQRIAKAYEQLKKQRKDNREKEMER 115 (233)
Q Consensus 43 vavIvfsp~gk~~-~~~ps~~------~v~~Vl~ry~~~~~~~~~kk~~~~e~~l~q~i~Kl~e~l~kl~~~n~e~e~~~ 115 (233)
+.|+.---.||.+ +-||.++ ++-..|.+|+-+.+..+ .+-. + +.+-|..++.++..++.-..
T Consensus 50 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~l-d-fEkpi~ele~ki~el~~~~~------ 118 (762)
T PLN03229 50 LAVVAKIRKGKKHEYPWPADPDPNVKGGVLSYLSHFKPLKEKPK---PVTL-D-FEKPLVDLEKKIVDVRKMAN------ 118 (762)
T ss_pred eEEEeeeccccccCCCCCCCCCCCcccchhhHhhccCCCCCCCC---CCCc-c-hhhHHHHHHHHHHHHHhhhh------
Confidence 3344333445533 3388643 35566777766544321 1111 1 34556667666666654211
Q ss_pred HHhhhccCCCCCCCCC-HHHHHHHHHHHHHHHHHHHHH
Q 040642 116 VMFQSLTGSNVFLNMN-MIGLNDLGLQIEHNIREICRR 152 (233)
Q Consensus 116 lm~~~l~~~~~l~~Ls-~~eL~~L~~~Le~~lk~ir~R 152 (233)
. .+++ .+++..|+..+++..++|..+
T Consensus 119 --------~---~~~~~~~ei~~Le~k~~~~~~~iy~~ 145 (762)
T PLN03229 119 --------E---TGLDFSDQIISLESKYQQALKDLYTH 145 (762)
T ss_pred --------c---ccccHHHHHHHHHHHHHHHHHHHHcc
Confidence 0 1122 246778887777777766644
No 58
>COG2900 SlyX Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.29 E-value=2.4e+02 Score=19.56 Aligned_cols=28 Identities=11% Similarity=0.135 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 040642 133 IGLNDLGLQIEHNIREICRRMETLNNIA 160 (233)
Q Consensus 133 ~eL~~L~~~Le~~lk~ir~R~~~L~~~~ 160 (233)
.+.......+...|+.+..|+..++...
T Consensus 32 aEq~~~i~k~q~qlr~L~~kl~~~~~~~ 59 (72)
T COG2900 32 AEQQLVIDKLQAQLRLLTEKLKDLQPSA 59 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcccc
Confidence 3445555555566666666655554433
No 59
>KOG3650 consensus Predicted coiled-coil protein [General function prediction only]
Probab=24.89 E-value=1.2e+02 Score=22.45 Aligned_cols=16 Identities=25% Similarity=0.154 Sum_probs=12.2
Q ss_pred hhhhcccCCceeeeee
Q 040642 33 SELKTLCGIDVCAIIF 48 (233)
Q Consensus 33 ~ELs~LCd~evavIvf 48 (233)
.|=+.|.|.+.++.|-
T Consensus 7 ~ddipl~d~d~~v~I~ 22 (120)
T KOG3650|consen 7 EDDIPLTDIDLAVDID 22 (120)
T ss_pred cccCcccCCCcccccc
Confidence 3556789999998883
No 60
>PF14263 DUF4354: Domain of unknown function (DUF4354); PDB: 3NRF_B 3SB3_A.
Probab=24.29 E-value=31 Score=26.55 Aligned_cols=41 Identities=22% Similarity=0.305 Sum_probs=29.7
Q ss_pred ecCCccccccccccccchhhhhhhhhcccCCceeeeeecCCCCCCc
Q 040642 11 ISNDSARKATFKKRKKGLLKKVSELKTLCGIDVCAIIFSPYDDQPE 56 (233)
Q Consensus 11 I~n~~~R~~TF~KRr~GL~KKa~ELs~LCd~evavIvfsp~gk~~~ 56 (233)
|.++.....||.-.-.-|-++.=+|+.+| ++.|++.|+.+.
T Consensus 41 v~~k~~ytktF~V~vaN~s~~~idLsk~C-----f~a~~~~gk~f~ 81 (124)
T PF14263_consen 41 VGGKSFYTKTFDVTVANLSDKDIDLSKMC-----FKAYSPDGKEFK 81 (124)
T ss_dssp ETTEEEEEEEEEEEEEE-SSS-EE-TT-E-----EEEEETTS-EEE
T ss_pred ecCccceEEEEEEEEecCCCCccccccch-----hhhccccCCEEE
Confidence 45666677888888899999999999997 999999998544
No 61
>KOG4252 consensus GTP-binding protein [Signal transduction mechanisms]
Probab=23.38 E-value=3.9e+02 Score=22.27 Aligned_cols=28 Identities=21% Similarity=0.426 Sum_probs=20.2
Q ss_pred cCCceeeeeecCCCCCCccCCCCcchhHHhhhhccC
Q 040642 39 CGIDVCAIIFSPYDDQPEIWPSPLGVQRVLSRFKKM 74 (233)
Q Consensus 39 Cd~evavIvfsp~gk~~~~~ps~~~v~~Vl~ry~~~ 74 (233)
-||.+||+|||.++.. +.+.+++=|...
T Consensus 91 rgaqa~vLVFSTTDr~--------SFea~~~w~~kv 118 (246)
T KOG4252|consen 91 RGAQASVLVFSTTDRY--------SFEATLEWYNKV 118 (246)
T ss_pred ccccceEEEEecccHH--------HHHHHHHHHHHH
Confidence 4899999999999752 244566666553
No 62
>PRK00182 tatB sec-independent translocase; Provisional
Probab=23.34 E-value=43 Score=26.95 Aligned_cols=36 Identities=22% Similarity=0.204 Sum_probs=23.1
Q ss_pred hhhcccCCceeeeeecCCCCCCccCCCCcchhHHhhhhccCh
Q 040642 34 ELKTLCGIDVCAIIFSPYDDQPEIWPSPLGVQRVLSRFKKMP 75 (233)
Q Consensus 34 ELs~LCd~evavIvfsp~gk~~~~~ps~~~v~~Vl~ry~~~~ 75 (233)
||-+++ =||+|||+|. ++|++ -..+...+..|++..
T Consensus 9 EllvIl--vIaLlVfGPe-rLP~~---~r~lg~~ir~~R~~~ 44 (160)
T PRK00182 9 EILLLL--IVGLIVIGPE-RLPRL---IEDVRAALLAARTAI 44 (160)
T ss_pred HHHHHH--HHHHHhcCch-HHHHH---HHHHHHHHHHHHHHH
Confidence 554444 3678999986 67775 134666777776643
No 63
>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=23.28 E-value=1.1e+02 Score=27.85 Aligned_cols=27 Identities=19% Similarity=0.602 Sum_probs=19.3
Q ss_pred cccCCceeeeeecCCCCCCccCCCCcchhHHhhhhcc
Q 040642 37 TLCGIDVCAIIFSPYDDQPEIWPSPLGVQRVLSRFKK 73 (233)
Q Consensus 37 ~LCd~evavIvfsp~gk~~~~~ps~~~v~~Vl~ry~~ 73 (233)
+||..|. |+ .. |-++|.|++|.+.|.+
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 5787776 44 21 3377899999999976
No 64
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=23.25 E-value=4e+02 Score=21.45 Aligned_cols=21 Identities=10% Similarity=0.140 Sum_probs=11.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 040642 90 LRQRIAKAYEQLKKQRKDNRE 110 (233)
Q Consensus 90 l~q~i~Kl~e~l~kl~~~n~e 110 (233)
+..++.+++.+++.|++++.+
T Consensus 109 l~~e~~~l~~~~e~Le~e~~~ 129 (161)
T TIGR02894 109 LKNQNESLQKRNEELEKELEK 129 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 444555555555555555543
No 65
>PF10666 Phage_Gp14: Phage protein Gp14; InterPro: IPR018923 This Listeria phage Gp14 protein family is of unknown function but is expressed from within a cluster of tail- and base plate genes [].
Probab=23.04 E-value=3.6e+02 Score=20.84 Aligned_cols=25 Identities=16% Similarity=0.053 Sum_probs=17.6
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHH
Q 040642 127 FLNMNMIGLNDLGLQIEHNIREICR 151 (233)
Q Consensus 127 l~~Ls~~eL~~L~~~Le~~lk~ir~ 151 (233)
.+.+|.+++..|+......|++.-+
T Consensus 59 ~~EmS~e~~~aLe~~~re~L~ea~~ 83 (140)
T PF10666_consen 59 DREMSSEEYRALEEQQREALKEAIE 83 (140)
T ss_pred hhhcCHHHHHHHHHHHHHHHHHHHH
Confidence 3667888888887777777765443
No 66
>PRK01770 sec-independent translocase; Provisional
Probab=22.79 E-value=1.1e+02 Score=24.97 Aligned_cols=35 Identities=14% Similarity=0.229 Sum_probs=20.7
Q ss_pred hhhcccCCceeeeeecCCCCCCccCCCCcchhHHhhhhccC
Q 040642 34 ELKTLCGIDVCAIIFSPYDDQPEIWPSPLGVQRVLSRFKKM 74 (233)
Q Consensus 34 ELs~LCd~evavIvfsp~gk~~~~~ps~~~v~~Vl~ry~~~ 74 (233)
||-+++ =||+|||+|. ++|++ --.+-..+.+|+++
T Consensus 8 ELllI~--vVaLlV~GPe-rLP~~---~r~lg~~i~~~R~~ 42 (171)
T PRK01770 8 ELLLVF--VIGLVVLGPQ-RLPVA---VKTVAGWIRALRSL 42 (171)
T ss_pred HHHHHH--HHHHHhcCch-HHHHH---HHHHHHHHHHHHHH
Confidence 444443 3678999987 56664 12355566666654
No 67
>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=22.76 E-value=3.6e+02 Score=20.75 Aligned_cols=27 Identities=11% Similarity=0.193 Sum_probs=22.5
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHH
Q 040642 126 VFLNMNMIGLNDLGLQIEHNIREICRR 152 (233)
Q Consensus 126 ~l~~Ls~~eL~~L~~~Le~~lk~ir~R 152 (233)
.+++++..+|+.+...+...+..+..-
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 477899999999999999888877654
No 68
>PF03112 DUF244: Uncharacterized protein family (ORF7) DUF; InterPro: IPR004335 Many of the proteins in this entry are Borrelia burgdorferi plasmid proteins of unknown function.
Probab=22.33 E-value=3.1e+02 Score=21.84 Aligned_cols=64 Identities=16% Similarity=0.337 Sum_probs=39.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH--HHHHHhhhccCCCCCCCCCHH-----HHHHHHHHHHHHHHHHHHHHHHH
Q 040642 91 RQRIAKAYEQLKKQRKDNREKE--MERVMFQSLTGSNVFLNMNMI-----GLNDLGLQIEHNIREICRRMETL 156 (233)
Q Consensus 91 ~q~i~Kl~e~l~kl~~~n~e~e--~~~lm~~~l~~~~~l~~Ls~~-----eL~~L~~~Le~~lk~ir~R~~~L 156 (233)
..+|..++.++.|.+.++++++ ++.++.... +.-....++. .+.+..-.++.+.+.|..|...|
T Consensus 76 L~EI~~lq~ElnKiqnEn~k~ekp~Kd~LK~ki--~~I~~~~~Li~~vnYrf~~fvF~~d~~KRAIsDRfK~l 146 (158)
T PF03112_consen 76 LMEIDSLQTELNKIQNENKKREKPIKDLLKIKI--DEIMNKYPLINHVNYRFKEFVFNYDPKKRAISDRFKGL 146 (158)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHH--HHHHhhccHHHHHHHHHHHHHHhcCchhhHHHHHHccc
Confidence 3578888888888888877544 444433221 1112223332 46667777788888888886655
No 69
>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=21.96 E-value=3.8e+02 Score=26.66 Aligned_cols=90 Identities=12% Similarity=0.069 Sum_probs=43.9
Q ss_pred hhHHhhhhccChhhhhhhccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCCCHHHHHHHHHHHH
Q 040642 64 VQRVLSRFKKMPEMEKSKKMVSQDSFLRQRIAKAYEQLKKQRKDNREKEMERVMFQSLTGSNVFLNMNMIGLNDLGLQIE 143 (233)
Q Consensus 64 v~~Vl~ry~~~~~~~~~kk~~~~e~~l~q~i~Kl~e~l~kl~~~n~e~e~~~lm~~~l~~~~~l~~Ls~~eL~~L~~~Le 143 (233)
++.+++-|.......+.........|+..++..++.++...+.+-. .+..+.-..+..-..+...+|.+|..+|.
T Consensus 173 aN~la~~Y~~~~~~~k~~~~~~a~~~L~~ql~~l~~~l~~aE~~l~-----~fk~~~~l~~~~~~~~~~~~L~~l~~ql~ 247 (754)
T TIGR01005 173 PDAIAAAYIAGQGAAKSESNTAAADFLAPEIADLSKQSRDAEAEVA-----AYRAQSDLLMGNNATLATQQLAELNTELS 247 (754)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHcCCcccCCccchHHHHHHHHHHHH
Confidence 5666777765332222222222346888888888877765554322 22211100011122344467777776665
Q ss_pred HHHH---HHHHHHHHHhh
Q 040642 144 HNIR---EICRRMETLNN 158 (233)
Q Consensus 144 ~~lk---~ir~R~~~L~~ 158 (233)
.... ....|...++.
T Consensus 248 ~a~~~~~~a~a~~~~l~~ 265 (754)
T TIGR01005 248 RARANRAAAEGTADSVKK 265 (754)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 5333 34445555543
No 70
>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=21.95 E-value=4.3e+02 Score=21.74 Aligned_cols=58 Identities=21% Similarity=0.297 Sum_probs=34.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHH-----H-HHHHhhhccCCCCCCCCCHHHHHHHHHHHHHHHH
Q 040642 87 DSFLRQRIAKAYEQLKKQRKDNREKE-----M-ERVMFQSLTGSNVFLNMNMIGLNDLGLQIEHNIR 147 (233)
Q Consensus 87 e~~l~q~i~Kl~e~l~kl~~~n~e~e-----~-~~lm~~~l~~~~~l~~Ls~~eL~~L~~~Le~~lk 147 (233)
..||..-..=.+.++.+++....... + ..+.... ..-+.+-|.++|..|+.+|..+|.
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 35888766666677776664111000 0 0000000 112678899999999999998885
No 71
>smart00787 Spc7 Spc7 kinetochore protein. This domain is found in cell division proteins which are required for kinetochore-spindle association.
Probab=21.78 E-value=4.5e+02 Score=23.44 Aligned_cols=32 Identities=13% Similarity=0.210 Sum_probs=23.6
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 040642 126 VFLNMNMIGLNDLGLQIEHNIREICRRMETLN 157 (233)
Q Consensus 126 ~l~~Ls~~eL~~L~~~Le~~lk~ir~R~~~L~ 157 (233)
.+++++.++|..+...|.....++..+...+.
T Consensus 197 e~~~~d~~eL~~lk~~l~~~~~ei~~~~~~l~ 228 (312)
T smart00787 197 ELEDCDPTELDRAKEKLKKLLQEIMIKVKKLE 228 (312)
T ss_pred HHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 47788899998888888877777766644443
No 72
>PF08946 Osmo_CC: Osmosensory transporter coiled coil; InterPro: IPR015041 The osmosensory transporter coiled coil is a C-terminal domain found in various bacterial osmoprotective transporters, such as ProP, Proline/betaine transporter, Proline permease 2 and the citrate proton symporters. It adopts an antiparallel coiled-coil structure, and is essential for osmosensory and osmoprotectant transporter function []. ; PDB: 1R48_B.
Probab=21.76 E-value=1.1e+02 Score=19.15 Aligned_cols=24 Identities=21% Similarity=0.259 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhc
Q 040642 136 NDLGLQIEHNIREICRRMETLNNI 159 (233)
Q Consensus 136 ~~L~~~Le~~lk~ir~R~~~L~~~ 159 (233)
++-...||+++..|.+.|..|+.+
T Consensus 11 qe~~d~IEqkiedid~qIaeLe~K 34 (46)
T PF08946_consen 11 QEHYDNIEQKIEDIDEQIAELEAK 34 (46)
T ss_dssp ----THHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHhHHHhHHHHHHHHHHHHHH
Confidence 444556677777777777777654
No 73
>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=21.73 E-value=3e+02 Score=25.22 Aligned_cols=45 Identities=13% Similarity=0.087 Sum_probs=28.2
Q ss_pred chhHHhhhhccChhhhhhhccccchhHHHHHHHHHHHHHHHHHHH
Q 040642 63 GVQRVLSRFKKMPEMEKSKKMVSQDSFLRQRIAKAYEQLKKQRKD 107 (233)
Q Consensus 63 ~v~~Vl~ry~~~~~~~~~kk~~~~e~~l~q~i~Kl~e~l~kl~~~ 107 (233)
-++.+++.|.......+.........|+..++..+++++...+..
T Consensus 149 i~n~~~~~y~~~~~~~~~~~~~~~~~fl~~ql~~~~~~l~~ae~~ 193 (444)
T TIGR03017 149 VANAFAQAYIDTNIELKVEPAQKAALWFVQQIAALREDLARAQSK 193 (444)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356666678765443333323334578888888888888776654
No 74
>PF08432 Vfa1: AAA-ATPase Vps4-associated protein 1; InterPro: IPR013640 This is a family of fungal proteins of unknown function.
Probab=21.54 E-value=1.5e+02 Score=24.14 Aligned_cols=23 Identities=22% Similarity=0.390 Sum_probs=13.5
Q ss_pred cCCceeeeeecCC--------CC-CCccCCCC
Q 040642 39 CGIDVCAIIFSPY--------DD-QPEIWPSP 61 (233)
Q Consensus 39 Cd~evavIvfsp~--------gk-~~~~~ps~ 61 (233)
.++..|.|||-|+ ++ ++.++|+|
T Consensus 11 ~~~k~C~IC~KpsttVL~t~~~~DfFY~C~~H 42 (182)
T PF08432_consen 11 TDAKACFICYKPSTTVLITPDNKDFFYVCPSH 42 (182)
T ss_pred CCCCceeEecCCCceEEecCCCCCeEEeCccc
Confidence 4566666666554 44 45556765
No 75
>PTZ00370 STEVOR; Provisional
Probab=21.25 E-value=1.3e+02 Score=26.68 Aligned_cols=27 Identities=7% Similarity=0.285 Sum_probs=19.9
Q ss_pred cccCCceeeeeecCCCCCCccCCCCcchhHHhhhhcc
Q 040642 37 TLCGIDVCAIIFSPYDDQPEIWPSPLGVQRVLSRFKK 73 (233)
Q Consensus 37 ~LCd~evavIvfsp~gk~~~~~ps~~~v~~Vl~ry~~ 73 (233)
.||..|. |+|. |-++|++++|+++|..
T Consensus 42 ~L~Ecel----~~p~------YdNDpemK~i~d~~n~ 68 (296)
T PTZ00370 42 LLAQTQN----HNPH------YHNDPELKEIIDKMNE 68 (296)
T ss_pred ehhhhhc----CCCC------CCCcHHHHHHHHHHhH
Confidence 5777665 6662 3478999999999965
No 76
>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=21.13 E-value=2e+02 Score=20.39 Aligned_cols=37 Identities=19% Similarity=0.342 Sum_probs=17.3
Q ss_pred HHHHHHHHHHHHHHHHHHH---HHHHHHHHhhhccCCCCCCCCCHHHH
Q 040642 91 RQRIAKAYEQLKKQRKDNR---EKEMERVMFQSLTGSNVFLNMNMIGL 135 (233)
Q Consensus 91 ~q~i~Kl~e~l~kl~~~n~---e~e~~~lm~~~l~~~~~l~~Ls~~eL 135 (233)
...+.++..++...+...+ -.+++.+|.. .++|++||
T Consensus 4 ~~~~~~l~~~~~~~~~~e~~~~~~~i~~~~~~--------~Gis~~el 43 (93)
T PF00816_consen 4 EAQIKELEKEIEERRKQEREEAIAEIRELMAE--------YGISPEEL 43 (93)
T ss_dssp HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHH--------TT--HHHC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------hCCCHHHh
Confidence 3444555555544443333 2345555544 35677777
No 77
>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=20.46 E-value=52 Score=20.78 Aligned_cols=22 Identities=27% Similarity=0.573 Sum_probs=17.2
Q ss_pred hhhhhhhhhcccCCceeeeeec
Q 040642 28 LLKKVSELKTLCGIDVCAIIFS 49 (233)
Q Consensus 28 L~KKa~ELs~LCd~evavIvfs 49 (233)
|.+.+..-+=||+++..+.+|-
T Consensus 2 L~~Rs~~kCELC~a~~~L~vy~ 23 (47)
T smart00782 2 LLARCESKCELCGSDSPLVVYA 23 (47)
T ss_pred hhHHcCCcccCcCCCCCceEEe
Confidence 4555666788999999998886
No 78
>TIGR02338 gimC_beta prefoldin, beta subunit, archaeal. Chaperonins are cytosolic, ATP-dependent molecular chaperones, with a conserved toroidal architecture, that assist in the folding of nascent and/or denatured polypeptide chains. The group I chaperonin system consists of GroEL and GroES, and is found (usually) in bacteria and organelles of bacterial origin. The group II chaperonin system, called the thermosome in Archaea and TRiC or CCT in the Eukaryota, is structurally similar but only distantly related. Prefoldin, also called GimC, is a complex in Archaea and Eukaryota, that works with group II chaperonins. Members of this protein family are the archaeal clade of the beta class of prefoldin subunit. Closely related, but outside the scope of this family are the eukaryotic beta-class prefoldin subunits, Gim-1,3,4 and 6. The alpha class prefoldin subunits are more distantly related.
Probab=20.27 E-value=3.6e+02 Score=19.77 Aligned_cols=13 Identities=23% Similarity=0.411 Sum_probs=9.3
Q ss_pred cchhHHhhhhccC
Q 040642 62 LGVQRVLSRFKKM 74 (233)
Q Consensus 62 ~~v~~Vl~ry~~~ 74 (233)
+.++.++..|+.+
T Consensus 3 ~~~q~~~~~~q~~ 15 (110)
T TIGR02338 3 PQVQNQLAQLQQL 15 (110)
T ss_pred HHHHHHHHHHHHH
Confidence 4577788888664
No 79
>PF04521 Viral_P18: ssRNA positive strand viral 18kD cysteine rich protein; InterPro: IPR007609 This family represents the 18kDa cysteine-rich protein from ssRNA positive strand viruses.
Probab=20.24 E-value=2.3e+02 Score=21.68 Aligned_cols=22 Identities=18% Similarity=0.259 Sum_probs=17.4
Q ss_pred cccccccccchhhhhhhhhccc
Q 040642 18 KATFKKRKKGLLKKVSELKTLC 39 (233)
Q Consensus 18 ~~TF~KRr~GL~KKa~ELs~LC 39 (233)
-..|+|+|..++||-.+-.+-|
T Consensus 4 ~~~~rk~R~~~y~~lgl~~vkC 25 (120)
T PF04521_consen 4 FRCVRKYRASVYKKLGLSAVKC 25 (120)
T ss_pred hHHHHHHHHHHHHHcCCeeeee
Confidence 4578999999999987766644
No 80
>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]
Probab=20.11 E-value=1.9e+02 Score=27.02 Aligned_cols=67 Identities=15% Similarity=0.133 Sum_probs=44.3
Q ss_pred CCceeeeeecCCCCCCccC--C-CCcchhHHhhhhccChhhhhhhccccchhHHHHHHHHHHHHHHHHHH
Q 040642 40 GIDVCAIIFSPYDDQPEIW--P-SPLGVQRVLSRFKKMPEMEKSKKMVSQDSFLRQRIAKAYEQLKKQRK 106 (233)
Q Consensus 40 d~evavIvfsp~gk~~~~~--p-s~~~v~~Vl~ry~~~~~~~~~kk~~~~e~~l~q~i~Kl~e~l~kl~~ 106 (233)
-||+||+|.+-....+|.= + +...-..+|.|+......--..+.+|.-+|-++++...+.++.++.+
T Consensus 108 qAD~aVLVV~a~~~efE~g~~~~gQtrEH~~La~tlGi~~lIVavNKMD~v~wde~rf~ei~~~v~~l~k 177 (428)
T COG5256 108 QADVAVLVVDARDGEFEAGFGVGGQTREHAFLARTLGIKQLIVAVNKMDLVSWDEERFEEIVSEVSKLLK 177 (428)
T ss_pred hccEEEEEEECCCCccccccccCCchhHHHHHHHhcCCceEEEEEEcccccccCHHHHHHHHHHHHHHHH
Confidence 5889999999876544421 0 12345678889988665544444455556777888888877777653
No 81
>PRK09458 pspB phage shock protein B; Provisional
Probab=20.07 E-value=3.2e+02 Score=19.10 Aligned_cols=31 Identities=13% Similarity=0.155 Sum_probs=23.6
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 040642 127 FLNMNMIGLNDLGLQIEHNIREICRRMETLNN 158 (233)
Q Consensus 127 l~~Ls~~eL~~L~~~Le~~lk~ir~R~~~L~~ 158 (233)
-.+||.+|.+.|+...+.+ +..++|++.|..
T Consensus 33 ~~~Ls~~d~~~L~~L~~~A-~rm~~RI~tLE~ 63 (75)
T PRK09458 33 SQGLSQEEQQRLAQLTEKA-ERMRERIQALEA 63 (75)
T ss_pred CCCCCHHHHHHHHHHHHHH-HHHHHHHHHHHH
Confidence 4579999988887766655 578899888764
Done!