Query 038848
Match_columns 446
No_of_seqs 175 out of 1232
Neff 4.7
Searched_HMMs 46136
Date Fri Mar 29 03:55:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/038848.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/038848hhsearch_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 5.5E-33 1.2E-37 257.0 10.3 150 1-150 1-166 (195)
2 cd00266 MADS_SRF_like SRF-like 99.9 5.5E-28 1.2E-32 200.2 6.3 81 2-83 1-81 (83)
3 cd00265 MADS_MEF2_like MEF2 (m 99.9 6.1E-27 1.3E-31 191.6 4.4 73 2-76 1-73 (77)
4 smart00432 MADS MADS domain. 99.9 1E-25 2.2E-30 176.2 4.9 58 2-59 1-58 (59)
5 cd00120 MADS MADS: MCM1, Agamo 99.9 3E-25 6.6E-30 173.5 4.6 59 2-60 1-59 (59)
6 PF00319 SRF-TF: SRF-type tran 99.8 3.8E-22 8.1E-27 152.0 0.6 49 9-57 1-49 (51)
7 KOG0015 Regulator of arginine 99.6 3.6E-16 7.7E-21 155.0 1.3 65 2-68 63-127 (338)
8 COG5068 ARG80 Regulator of arg 99.1 2.8E-11 6.2E-16 124.8 2.8 59 1-59 81-139 (412)
9 PF01486 K-box: K-box region; 97.8 7.1E-05 1.5E-09 63.8 7.7 58 88-155 15-72 (100)
10 PF07106 TBPIP: Tat binding pr 75.6 25 0.00055 32.5 9.6 60 90-158 77-138 (169)
11 KOG4603 TBP-1 interacting prot 75.5 25 0.00055 33.9 9.5 95 39-157 48-144 (201)
12 PRK04098 sec-independent trans 73.7 3.4 7.4E-05 38.9 3.3 95 42-156 14-108 (158)
13 PHA02592 52 DNA topisomerase I 71.6 15 0.00032 39.8 7.9 46 22-74 281-326 (439)
14 PF10491 Nrf1_DNA-bind: NLS-bi 70.1 9 0.0002 37.6 5.4 46 28-74 41-88 (214)
15 PF00521 DNA_topoisoIV: DNA gy 67.6 16 0.00035 39.0 7.2 143 3-154 243-413 (426)
16 COG2900 SlyX Uncharacterized p 67.0 40 0.00087 28.1 7.7 15 90-104 6-20 (72)
17 PRK13729 conjugal transfer pil 66.0 23 0.0005 38.7 8.0 40 61-106 51-90 (475)
18 PRK00846 hypothetical protein; 64.7 35 0.00076 28.6 7.1 21 136-156 41-61 (77)
19 PTZ00046 rifin; Provisional 63.6 17 0.00037 38.4 6.3 29 37-75 40-68 (358)
20 PRK02119 hypothetical protein; 61.7 59 0.0013 26.7 7.9 17 90-106 7-23 (73)
21 PF15079 DUF4546: Domain of un 61.2 50 0.0011 31.8 8.3 32 128-159 78-109 (205)
22 PRK02793 phi X174 lysis protei 60.8 62 0.0014 26.5 7.9 17 90-106 6-22 (72)
23 PRK04406 hypothetical protein; 60.5 62 0.0013 26.8 7.9 17 90-106 9-25 (75)
24 KOG4252 GTP-binding protein [S 60.3 24 0.00052 34.6 6.1 28 38-73 90-117 (246)
25 PF06698 DUF1192: Protein of u 58.8 20 0.00043 28.7 4.4 33 121-153 13-45 (59)
26 PRK00736 hypothetical protein; 58.5 66 0.0014 26.0 7.6 17 139-155 36-52 (68)
27 TIGR03007 pepcterm_ChnLen poly 58.5 42 0.00091 35.8 8.4 47 63-109 139-185 (498)
28 PF04102 SlyX: SlyX; InterPro 57.8 51 0.0011 26.5 6.8 16 91-106 3-18 (69)
29 KOG0047 Catalase [Inorganic io 57.5 4.6 0.0001 43.4 0.9 15 432-446 292-306 (505)
30 PTZ00108 DNA topoisomerase 2-l 57.1 35 0.00075 42.0 8.1 26 44-73 962-987 (1388)
31 PRK00295 hypothetical protein; 56.8 69 0.0015 25.9 7.4 18 139-156 36-53 (68)
32 KOG1924 RhoA GTPase effector D 54.5 66 0.0014 37.6 9.2 22 141-162 500-521 (1102)
33 KOG1029 Endocytic adaptor prot 52.5 1E+02 0.0022 36.1 10.2 36 9-44 430-466 (1118)
34 TIGR01477 RIFIN variant surfac 50.3 36 0.00078 36.0 6.0 29 37-75 43-71 (353)
35 PF04521 Viral_P18: ssRNA posi 49.8 42 0.00091 30.4 5.6 23 17-39 3-25 (120)
36 KOG4311 Histidinol dehydrogena 48.6 68 0.0015 33.1 7.4 126 27-155 201-338 (359)
37 TIGR01005 eps_transp_fam exopo 47.4 71 0.0015 36.2 8.3 77 63-144 172-249 (754)
38 PF04417 DUF501: Protein of un 46.5 81 0.0018 29.0 7.1 69 39-107 7-79 (139)
39 PF00846 Hanta_nucleocap: Hant 46.1 25 0.00055 37.6 4.2 74 130-207 43-121 (428)
40 PLN03237 DNA topoisomerase 2; 45.9 1.1E+02 0.0024 38.0 9.9 44 24-73 970-1013(1465)
41 PF14282 FlxA: FlxA-like prote 45.8 1.3E+02 0.0028 26.2 7.9 52 92-155 19-70 (106)
42 PF15372 DUF4600: Domain of un 45.7 80 0.0017 29.0 6.8 57 88-152 18-74 (129)
43 COG4575 ElaB Uncharacterized c 44.5 99 0.0022 27.5 6.9 29 127-155 32-60 (104)
44 TIGR03017 EpsF chain length de 43.4 1.3E+02 0.0029 31.4 9.2 48 62-109 148-195 (444)
45 COG3416 Uncharacterized protei 42.3 2.1E+02 0.0045 28.6 9.4 17 142-158 61-77 (233)
46 PF01519 DUF16: Protein of unk 41.9 2.2E+02 0.0047 25.3 8.6 24 132-156 78-101 (102)
47 PF09432 THP2: Tho complex sub 40.7 1.9E+02 0.0042 26.7 8.4 18 58-75 34-51 (132)
48 PF07439 DUF1515: Protein of u 40.2 98 0.0021 27.8 6.3 61 90-155 6-66 (112)
49 PRK11519 tyrosine kinase; Prov 40.1 1E+02 0.0022 35.1 8.1 45 63-107 245-289 (719)
50 KOG1924 RhoA GTPase effector D 39.9 1.5E+02 0.0034 34.8 9.2 13 262-274 619-631 (1102)
51 PRK09841 cryptic autophosphory 39.7 1.8E+02 0.0039 33.2 10.0 45 63-107 245-289 (726)
52 PF12761 End3: Actin cytoskele 39.3 2.8E+02 0.006 27.2 9.7 71 88-158 99-193 (195)
53 KOG4302 Microtubule-associated 38.9 1.8E+02 0.004 33.3 9.7 31 125-155 153-183 (660)
54 PF00816 Histone_HNS: H-NS his 38.6 49 0.0011 27.6 4.1 38 90-134 3-43 (93)
55 PF05549 Allexi_40kDa: Allexiv 38.2 3.8E+02 0.0082 27.5 10.7 27 129-155 111-137 (271)
56 PLN03230 acetyl-coenzyme A car 37.7 79 0.0017 34.4 6.3 72 64-156 57-129 (431)
57 smart00787 Spc7 Spc7 kinetocho 37.5 2.1E+02 0.0045 29.7 9.2 32 124-155 196-227 (312)
58 PF00804 Syntaxin: Syntaxin; 36.9 1.4E+02 0.0029 24.2 6.4 28 131-158 44-71 (103)
59 PF10359 Fmp27_WPPW: RNA pol I 36.8 1E+02 0.0023 33.4 7.3 25 86-110 164-188 (475)
60 KOG1760 Molecular chaperone Pr 36.8 1.9E+02 0.0042 26.6 7.7 64 63-135 17-83 (131)
61 cd04120 Rab12 Rab12 subfamily. 36.0 20 0.00044 34.0 1.5 16 38-53 70-85 (202)
62 TIGR02338 gimC_beta prefoldin, 35.7 2.9E+02 0.0063 23.9 8.7 12 62-73 3-14 (110)
63 PF08432 Vfa1: AAA-ATPase Vps4 35.3 57 0.0012 30.9 4.4 13 39-51 11-23 (182)
64 PF09403 FadA: Adhesion protei 34.8 1.9E+02 0.0042 26.3 7.5 23 132-154 89-111 (126)
65 KOG0804 Cytoplasmic Zn-finger 34.8 1.4E+02 0.003 32.8 7.6 27 91-117 381-408 (493)
66 PLN02372 violaxanthin de-epoxi 34.7 1.1E+02 0.0025 33.2 6.8 17 40-56 313-329 (455)
67 cd00187 TOP4c DNA Topoisomeras 34.6 1.4E+02 0.0031 32.4 7.8 60 7-74 257-327 (445)
68 PF11944 DUF3461: Protein of u 34.2 1.3E+02 0.0028 27.5 6.2 25 131-155 101-125 (125)
69 PF07106 TBPIP: Tat binding pr 34.0 3E+02 0.0066 25.3 8.9 30 126-155 139-168 (169)
70 PRK10132 hypothetical protein; 33.5 1.7E+02 0.0037 25.9 6.8 56 90-156 10-65 (108)
71 KOG4797 Transcriptional regula 33.1 2.4E+02 0.0052 25.5 7.5 43 91-140 66-108 (123)
72 TIGR01478 STEVOR variant surfa 33.0 54 0.0012 33.9 4.0 45 7-73 25-69 (295)
73 PRK06851 hypothetical protein; 32.9 1.5E+02 0.0033 31.4 7.5 28 25-52 43-70 (367)
74 PF15290 Syntaphilin: Golgi-lo 32.8 1.2E+02 0.0025 31.5 6.3 13 133-145 125-137 (305)
75 TIGR02231 conserved hypothetic 32.7 2.5E+02 0.0054 30.6 9.4 25 128-152 123-147 (525)
76 PLN03128 DNA topoisomerase 2; 32.2 1.8E+02 0.0038 35.5 8.7 27 44-74 961-987 (1135)
77 smart00503 SynN Syntaxin N-ter 32.1 3E+02 0.0066 23.0 8.1 65 93-159 9-73 (117)
78 PF05308 Mito_fiss_reg: Mitoch 32.0 1.1E+02 0.0024 30.8 6.1 25 130-155 117-141 (253)
79 KOG1318 Helix loop helix trans 31.1 3.2E+02 0.007 29.7 9.6 28 12-39 228-259 (411)
80 COG3883 Uncharacterized protei 31.0 2.4E+02 0.0053 28.8 8.3 29 130-158 78-106 (265)
81 PRK04325 hypothetical protein; 31.0 3E+02 0.0065 22.6 7.7 17 90-106 7-23 (74)
82 PF05852 DUF848: Gammaherpesvi 30.7 4E+02 0.0087 25.0 9.0 33 126-158 83-115 (146)
83 PF05164 ZapA: Cell division p 30.6 56 0.0012 26.4 3.1 62 86-156 19-85 (89)
84 TIGR03545 conserved hypothetic 29.5 1.8E+02 0.0038 32.6 7.6 30 26-56 89-120 (555)
85 PF09278 MerR-DNA-bind: MerR, 29.5 1.2E+02 0.0026 23.2 4.6 24 134-157 34-57 (65)
86 PF08317 Spc7: Spc7 kinetochor 29.5 3.4E+02 0.0074 27.9 9.3 31 125-155 202-232 (325)
87 PLN03229 acetyl-coenzyme A car 29.2 2.3E+02 0.005 33.0 8.5 96 42-158 49-152 (762)
88 PF14193 DUF4315: Domain of un 29.1 2.7E+02 0.0059 23.6 7.0 48 92-143 15-62 (83)
89 PF09781 NDUF_B5: NADH:ubiquin 28.9 2.7E+02 0.0058 27.2 7.7 74 37-120 74-161 (187)
90 PF07820 TraC: TraC-like prote 28.7 2.6E+02 0.0056 24.4 6.8 22 89-110 6-27 (92)
91 KOG0639 Transducin-like enhanc 28.3 2.7E+02 0.0059 31.3 8.5 20 88-107 33-52 (705)
92 KOG2991 Splicing regulator [RN 28.2 1.6E+02 0.0035 30.3 6.4 58 93-157 237-299 (330)
93 PF08181 DegQ: DegQ (SacQ) fam 28.0 90 0.0019 23.5 3.4 14 131-144 6-19 (46)
94 PF06632 XRCC4: DNA double-str 27.6 2.7E+02 0.006 29.3 8.2 24 89-112 155-178 (342)
95 PF11285 DUF3086: Protein of u 27.5 5.4E+02 0.012 26.5 9.9 64 90-160 9-75 (283)
96 PF13094 CENP-Q: CENP-Q, a CEN 27.2 4.8E+02 0.01 23.8 9.0 56 88-155 30-85 (160)
97 COG5293 Predicted ATPase [Gene 26.4 2.4E+02 0.0053 31.3 7.7 69 87-158 337-408 (591)
98 PF08232 Striatin: Striatin fa 26.4 4.9E+02 0.011 23.6 8.9 30 132-161 49-78 (134)
99 PF07889 DUF1664: Protein of u 26.1 1.6E+02 0.0034 26.9 5.4 17 89-105 65-81 (126)
100 PRK00846 hypothetical protein; 26.0 2.7E+02 0.0058 23.4 6.3 26 130-155 28-53 (77)
101 KOG3990 Uncharacterized conser 25.7 1.7E+02 0.0036 30.1 6.0 14 94-107 227-240 (305)
102 PTZ00370 STEVOR; Provisional 25.6 84 0.0018 32.6 3.9 27 37-73 42-68 (296)
103 TIGR01010 BexC_CtrB_KpsE polys 25.3 2.9E+02 0.0062 28.4 7.9 22 86-107 171-192 (362)
104 PF15058 Speriolin_N: Sperioli 25.3 6.7E+02 0.014 24.8 11.5 12 204-215 103-114 (200)
105 KOG4657 Uncharacterized conser 25.3 2.6E+02 0.0057 28.2 7.1 40 63-106 26-65 (246)
106 KOG0994 Extracellular matrix g 25.3 1.4E+02 0.0031 36.5 6.1 22 132-153 1731-1752(1758)
107 KOG4603 TBP-1 interacting prot 25.1 4.2E+02 0.0091 25.8 8.2 61 94-158 118-178 (201)
108 PF07957 DUF3294: Protein of u 25.1 6.6E+02 0.014 25.1 9.8 28 128-155 69-96 (216)
109 PRK10404 hypothetical protein; 25.1 3.8E+02 0.0083 23.4 7.4 29 128-156 30-58 (101)
110 PF10168 Nup88: Nuclear pore c 25.0 6.2E+02 0.013 29.4 11.1 32 127-158 680-711 (717)
111 PF00992 Troponin: Troponin; 25.0 3.8E+02 0.0082 24.4 7.7 31 125-155 39-69 (132)
112 KOG3833 Uncharacterized conser 24.9 41 0.00088 35.6 1.6 48 337-384 87-134 (505)
113 PHA03034 hypothetical protein; 24.9 28 0.00061 31.6 0.4 26 276-301 93-118 (145)
114 KOG2264 Exostosin EXT1L [Signa 24.5 4.4E+02 0.0095 30.2 9.3 20 422-441 445-467 (907)
115 KOG4460 Nuclear pore complex, 24.3 7E+02 0.015 28.5 10.8 11 122-132 646-656 (741)
116 PRK12758 DNA topoisomerase IV 24.2 7.4E+02 0.016 29.6 11.5 63 3-74 268-340 (869)
117 TIGR02894 DNA_bind_RsfA transc 24.1 4.5E+02 0.0097 25.1 8.1 11 61-71 79-89 (161)
118 TIGR03156 GTP_HflX GTP-binding 23.3 5.4E+02 0.012 26.8 9.5 43 29-71 19-62 (351)
119 PF09789 DUF2353: Uncharacteri 23.2 8.9E+02 0.019 25.5 11.0 77 19-110 33-111 (319)
120 COG5493 Uncharacterized conser 23.2 6.6E+02 0.014 25.1 9.3 27 130-156 75-101 (231)
121 PTZ00400 DnaK-type molecular c 23.0 3.4E+02 0.0074 30.8 8.5 23 130-152 614-636 (663)
122 COG3853 TelA Uncharacterized p 23.0 3.8E+02 0.0083 28.9 8.3 16 59-74 127-142 (386)
123 COG5134 Uncharacterized conser 22.5 2.3E+02 0.0049 28.5 6.1 21 36-57 82-102 (272)
124 PF14077 WD40_alt: Alternative 22.5 69 0.0015 24.6 2.0 29 82-110 8-36 (48)
125 COG0753 KatE Catalase [Inorgan 22.0 41 0.00089 36.9 1.0 25 422-446 260-298 (496)
126 PF12004 DUF3498: Domain of un 21.8 30 0.00065 38.1 0.0 65 90-155 374-445 (495)
127 PF05700 BCAS2: Breast carcino 21.8 2.4E+02 0.0051 27.5 6.2 22 89-110 140-161 (221)
128 PRK10884 SH3 domain-containing 21.7 4.7E+02 0.01 25.5 8.2 19 91-109 92-110 (206)
129 PF06637 PV-1: PV-1 protein (P 21.6 6.3E+02 0.014 27.5 9.5 14 27-40 216-229 (442)
130 KOG4010 Coiled-coil protein TP 21.5 6E+02 0.013 25.0 8.6 78 60-154 27-106 (208)
131 PF10312 Cactin_mid: Conserved 21.4 3.2E+02 0.0069 26.4 6.8 60 87-146 97-160 (191)
132 PF15066 CAGE1: Cancer-associa 21.4 4.6E+02 0.01 29.1 8.6 67 88-155 341-416 (527)
133 TIGR01462 greA transcription e 21.4 4E+02 0.0087 24.3 7.2 63 94-157 7-70 (151)
134 PF12128 DUF3584: Protein of u 21.1 3.6E+02 0.0079 32.8 8.7 41 113-153 755-795 (1201)
135 PF03938 OmpH: Outer membrane 21.1 5.8E+02 0.013 22.7 8.2 28 127-154 71-98 (158)
136 COG2433 Uncharacterized conser 20.9 3.2E+02 0.0069 31.3 7.5 28 128-155 473-500 (652)
137 PF04912 Dynamitin: Dynamitin 20.8 2.6E+02 0.0057 29.4 6.7 23 17-39 262-284 (388)
138 PRK00888 ftsB cell division pr 20.8 3.3E+02 0.0071 23.7 6.2 21 90-110 32-52 (105)
139 PRK00290 dnaK molecular chaper 20.7 3.3E+02 0.0072 30.4 7.8 23 130-152 573-595 (627)
140 PLN03184 chloroplast Hsp70; Pr 20.6 4E+02 0.0087 30.3 8.5 23 130-152 612-634 (673)
141 KOG3156 Uncharacterized membra 20.6 3.6E+02 0.0078 27.0 7.0 20 136-155 174-193 (220)
142 PF14723 SSFA2_C: Sperm-specif 20.5 5.9E+02 0.013 24.7 8.2 28 93-120 106-133 (179)
143 PF06008 Laminin_I: Laminin Do 20.3 6.4E+02 0.014 24.9 8.9 39 114-152 104-143 (264)
144 TIGR01063 gyrA DNA gyrase, A s 20.3 1.4E+02 0.003 34.8 4.8 25 16-40 349-374 (800)
145 PF09849 DUF2076: Uncharacteri 20.0 3.1E+02 0.0066 27.7 6.6 24 135-158 47-70 (247)
146 PF08702 Fib_alpha: Fibrinogen 20.0 2.5E+02 0.0055 25.9 5.6 24 50-73 9-32 (146)
No 1
>KOG0014 consensus MADS box transcription factor [Transcription]
Probab=99.98 E-value=5.5e-33 Score=256.99 Aligned_cols=150 Identities=29% Similarity=0.466 Sum_probs=115.6
Q ss_pred CCccceeeEecCCccchhhHhhhcchhhhhhhhhhhhccCCcEEEEEeCCCCCCCccCCCCchHHHHHHHhcCCchhhhh
Q 038848 1 MTRKKVKLNWIANDSARKASLKKRKVGLLKKVSELTTLCDVNAFIIIYSPDESEPAMWPSRPVVEQLLARFNNMPEMEKS 80 (446)
Q Consensus 1 MgRkKIkIK~IeNesaRqVTFsKRR~GLfKKAsELStLCGaeVAVIVFSP~GK~pefWPS~psVe~VIdRYk~lpe~er~ 80 (446)
|||+||+|++|+|++.|+|||+|||+||||||+||||||||+||||||||+|++|+|||++.+|++|+++|...++.++.
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 99999999999999999999999999999999999999999999999999999999999888899999999999998888
Q ss_pred hhccchhhHHHHH-HHHHHHHHHHH--------------HHHHHHHHHHHHHHhhccCCCCCCCCH-HHHHHHHHHHHHH
Q 038848 81 KKMMNQETYLKER-VVKSQDQLKKN--------------SRKNKVMEVSNLMEQFHLGKKTDDFNI-NELQGLVWLMEER 144 (446)
Q Consensus 81 KKm~dqEeyLkqr-IeKLqeQLkKL--------------kKKNrEkEl~elm~q~~~Ge~LddLSl-eELqqLe~~LEek 144 (446)
++.++.+.++... +.++..+..+. ++.....+......+.+.+.++.+++. ++|..++..|+..
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~l~~l~~~~~l~~~~~~l~~~ 160 (195)
T KOG0014|consen 81 KKRVNLESFLRNKKLTELVEEEEKEELKLQLKKSLESSLKVDPEDLELLELEQRKLTGEDLQSLSSLNELNSLESQLESS 160 (195)
T ss_pred ccccchhhHhhhhhhhcccchhhhhhccchhhhhhhhhhhcchhhhhhhHHHHHHHhccccccCCHHHHhcchhhHHHHh
Confidence 8888888877644 22221111111 111111111111233466778888888 7888888777776
Q ss_pred HHHHHH
Q 038848 145 KKDLRK 150 (446)
Q Consensus 145 LK~VRk 150 (446)
+..++.
T Consensus 161 ~~~~~~ 166 (195)
T KOG0014|consen 161 LHNSRS 166 (195)
T ss_pred hcCCCC
Confidence 655553
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=99.94 E-value=5.5e-28 Score=200.20 Aligned_cols=81 Identities=41% Similarity=0.731 Sum_probs=76.7
Q ss_pred CccceeeEecCCccchhhHhhhcchhhhhhhhhhhhccCCcEEEEEeCCCCCCCccCCCCchHHHHHHHhcCCchhhhhh
Q 038848 2 TRKKVKLNWIANDSARKASLKKRKVGLLKKVSELTTLCDVNAFIIIYSPDESEPAMWPSRPVVEQLLARFNNMPEMEKSK 81 (446)
Q Consensus 2 gRkKIkIK~IeNesaRqVTFsKRR~GLfKKAsELStLCGaeVAVIVFSP~GK~pefWPS~psVe~VIdRYk~lpe~er~K 81 (446)
||+||+|++|+|+.+|++||+|||.||||||+||||||||+||+|||||+|+.++|||+.. ++.+|++|..++..++.+
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 7999999999999999999999999999999999999999999999999999999998776 999999999999887765
Q ss_pred hc
Q 038848 82 KM 83 (446)
Q Consensus 82 Km 83 (446)
+.
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=99.93 E-value=6.1e-27 Score=191.56 Aligned_cols=73 Identities=33% Similarity=0.612 Sum_probs=69.0
Q ss_pred CccceeeEecCCccchhhHhhhcchhhhhhhhhhhhccCCcEEEEEeCCCCCCCccCCCCchHHHHHHHhcCCch
Q 038848 2 TRKKVKLNWIANDSARKASLKKRKVGLLKKVSELTTLCDVNAFIIIYSPDESEPAMWPSRPVVEQLLARFNNMPE 76 (446)
Q Consensus 2 gRkKIkIK~IeNesaRqVTFsKRR~GLfKKAsELStLCGaeVAVIVFSP~GK~pefWPS~psVe~VIdRYk~lpe 76 (446)
||+||+|++|+|+++|++||+|||+||||||.|||+||||+||+|||||+|++++| +++++++||+||++.+.
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 GRGKIEIKRIENSTNRQVTFSKRRNGLLKKAHELSVLCDAEVALIIFSSSGKLYEF--SSPSMEKIIERYQKTSG 73 (77)
T ss_pred CCCcceeEEecCccHHHHHHHHhhhhhhhcceeheeccCCceeEEEEcCCCceEEe--cCCCHHHHHHHHHhccc
Confidence 89999999999999999999999999999999999999999999999999999998 45778999999998654
No 4
>smart00432 MADS MADS domain.
Probab=99.92 E-value=1e-25 Score=176.15 Aligned_cols=58 Identities=33% Similarity=0.617 Sum_probs=57.3
Q ss_pred CccceeeEecCCccchhhHhhhcchhhhhhhhhhhhccCCcEEEEEeCCCCCCCccCC
Q 038848 2 TRKKVKLNWIANDSARKASLKKRKVGLLKKVSELTTLCDVNAFIIIYSPDESEPAMWP 59 (446)
Q Consensus 2 gRkKIkIK~IeNesaRqVTFsKRR~GLfKKAsELStLCGaeVAVIVFSP~GK~pefWP 59 (446)
||+||+|++|+|+++|++||+|||.||||||+||||||||+||+|||||+|+.++|||
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 7999999999999999999999999999999999999999999999999999999997
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=99.91 E-value=3e-25 Score=173.49 Aligned_cols=59 Identities=37% Similarity=0.723 Sum_probs=57.6
Q ss_pred CccceeeEecCCccchhhHhhhcchhhhhhhhhhhhccCCcEEEEEeCCCCCCCccCCC
Q 038848 2 TRKKVKLNWIANDSARKASLKKRKVGLLKKVSELTTLCDVNAFIIIYSPDESEPAMWPS 60 (446)
Q Consensus 2 gRkKIkIK~IeNesaRqVTFsKRR~GLfKKAsELStLCGaeVAVIVFSP~GK~pefWPS 60 (446)
||+||+|++|+|+.+|++||+|||.||||||+||||||||+||+|||||+|+.++|||+
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 79999999999999999999999999999999999999999999999999999999973
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=99.83 E-value=3.8e-22 Score=151.96 Aligned_cols=49 Identities=47% Similarity=0.729 Sum_probs=44.4
Q ss_pred EecCCccchhhHhhhcchhhhhhhhhhhhccCCcEEEEEeCCCCCCCcc
Q 038848 9 NWIANDSARKASLKKRKVGLLKKVSELTTLCDVNAFIIIYSPDESEPAM 57 (446)
Q Consensus 9 K~IeNesaRqVTFsKRR~GLfKKAsELStLCGaeVAVIVFSP~GK~pef 57 (446)
|+|+|+++|++||+|||.||||||.||||||||+||||||||+|++++|
T Consensus 1 K~I~n~~~R~~tf~KRk~gL~KKa~ELs~LC~~~v~~iv~~~~g~~~~f 49 (51)
T PF00319_consen 1 KRIENKSRRKVTFSKRKKGLFKKASELSTLCGVDVALIVFSPDGKLYTF 49 (51)
T ss_dssp S--SSHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEEETTSEEEEE
T ss_pred CCccchhHhHhHHHHHHhhhhhccceeeeecCCeEEEEEECCCCCEEEe
Confidence 6899999999999999999999999999999999999999999998875
No 7
>KOG0015 consensus Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription]
Probab=99.58 E-value=3.6e-16 Score=155.02 Aligned_cols=65 Identities=29% Similarity=0.508 Sum_probs=59.2
Q ss_pred CccceeeEecCCccchhhHhhhcchhhhhhhhhhhhccCCcEEEEEeCCCCCCCccCCCCchHHHHH
Q 038848 2 TRKKVKLNWIANDSARKASLKKRKVGLLKKVSELTTLCDVNAFIIIYSPDESEPAMWPSRPVVEQLL 68 (446)
Q Consensus 2 gRkKIkIK~IeNesaRqVTFsKRR~GLfKKAsELStLCGaeVAVIVFSP~GK~pefWPS~psVe~VI 68 (446)
||+||+|+||+|+..|.+||+|||.|+||||+|||||+|.+|-|+|.|..|-+|.| ..+..+.||
T Consensus 63 gr~kik~eyIenK~rR~~tFSKRK~GImKKAyELs~LTGtqVllLVaSEtGhVyTF--aTpKLep~i 127 (338)
T KOG0015|consen 63 GRVKIKMEYIENKLRRYVTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTF--ATPKLEPMI 127 (338)
T ss_pred ceeeccchhhcccceeeeeehhhhhhhHHHHHHhhhcccceEEEEEEecCcceEEe--ccccccccc
Confidence 69999999999999999999999999999999999999999999999999999998 455444443
No 8
>COG5068 ARG80 Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription]
Probab=99.11 E-value=2.8e-11 Score=124.80 Aligned_cols=59 Identities=25% Similarity=0.436 Sum_probs=57.2
Q ss_pred CCccceeeEecCCccchhhHhhhcchhhhhhhhhhhhccCCcEEEEEeCCCCCCCccCC
Q 038848 1 MTRKKVKLNWIANDSARKASLKKRKVGLLKKVSELTTLCDVNAFIIIYSPDESEPAMWP 59 (446)
Q Consensus 1 MgRkKIkIK~IeNesaRqVTFsKRR~GLfKKAsELStLCGaeVAVIVFSP~GK~pefWP 59 (446)
|+|+|+.|.+|+|+.+|.|||+|||.||+|||.||++|.|.+|.++|.|..|+++.|+.
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 78999999999999999999999999999999999999999999999999999999854
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=97.82 E-value=7.1e-05 Score=63.84 Aligned_cols=58 Identities=21% Similarity=0.319 Sum_probs=45.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038848 88 TYLKERVVKSQDQLKKNSRKNKVMEVSNLMEQFHLGKKTDDFNINELQGLVWLMEERKKDLRKRMDYY 155 (446)
Q Consensus 88 eyLkqrIeKLqeQLkKLkKKNrEkEl~elm~q~~~Ge~LddLSleELqqLe~~LEekLK~VRkRke~L 155 (446)
+++..++.+++.+++.++.. .+.+.|++|++|+++||..|+..|+..|+.||.||..+
T Consensus 15 e~~~~e~~~L~~~~~~L~~~----------~R~~~GedL~~Ls~~eL~~LE~~Le~aL~~VR~rK~~~ 72 (100)
T PF01486_consen 15 EELQQEIAKLRKENESLQKE----------LRHLMGEDLESLSLKELQQLEQQLESALKRVRSRKDQL 72 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHH----------HhccccccccccchHHHHHHHHhhhhhHHHHHHHHHHH
Confidence 34555555555555555433 23577999999999999999999999999999999865
No 10
>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=75.57 E-value=25 Score=32.46 Aligned_cols=60 Identities=17% Similarity=0.292 Sum_probs=41.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH--HHHHHHHhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 038848 90 LKERVVKSQDQLKKNSRKNKVM--EVSNLMEQFHLGKKTDDFNINELQGLVWLMEERKKDLRKRMDYYEQI 158 (446)
Q Consensus 90 LkqrIeKLqeQLkKLkKKNrEk--El~elm~q~~~Ge~LddLSleELqqLe~~LEekLK~VRkRke~Leqi 158 (446)
+..++..|++++..++.+.+.. |+..+ ...++.+||......|++.++.+..|++.|+..
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 3445666666666666655443 22222 246788999999999999999999999888763
No 11
>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms]
Probab=75.48 E-value=25 Score=33.88 Aligned_cols=95 Identities=12% Similarity=0.142 Sum_probs=50.5
Q ss_pred cCCcEEEEEeCCCCCCCccCCCCchHHHHHHHhcCCchhhhhhhccchhhHHHHHHHHHHHHHHHHHHHHHH--HHHHHH
Q 038848 39 CDVNAFIIIYSPDESEPAMWPSRPVVEQLLARFNNMPEMEKSKKMMNQETYLKERVVKSQDQLKKNSRKNKV--MEVSNL 116 (446)
Q Consensus 39 CGaeVAVIVFSP~GK~pefWPS~psVe~VIdRYk~lpe~er~KKm~dqEeyLkqrIeKLqeQLkKLkKKNrE--kEl~el 116 (446)
|=++.+=|.+--+||+-.|.-. =|.|...+..+ ...|...+.+++++++.+++.... .|++.+
T Consensus 48 ~La~~Gki~~K~YGKqKIY~a~-------QDqF~~~~~ee--------l~~ld~~i~~l~ek~q~l~~t~s~veaEik~L 112 (201)
T KOG4603|consen 48 QLAQQGKIKEKMYGKQKIYFAD-------QDQFDMVSDEE--------LQVLDGKIVALTEKVQSLQQTCSYVEAEIKEL 112 (201)
T ss_pred HHHHcCchhHHhccceeeEeec-------HHhhcCCChHH--------HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5566666777777766544210 01222222111 123445566666666666555443 333332
Q ss_pred HHhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 038848 117 MEQFHLGKKTDDFNINELQGLVWLMEERKKDLRKRMDYYEQ 157 (446)
Q Consensus 117 m~q~~~Ge~LddLSleELqqLe~~LEekLK~VRkRke~Leq 157 (446)
. ..|+++|+++=...|++-.+..++|+..++.
T Consensus 113 ~---------s~Lt~eemQe~i~~L~kev~~~~erl~~~k~ 144 (201)
T KOG4603|consen 113 S---------SALTTEEMQEEIQELKKEVAGYRERLKNIKA 144 (201)
T ss_pred H---------HhcChHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 2 2567777777777777777777777766643
No 12
>PRK04098 sec-independent translocase; Provisional
Probab=73.74 E-value=3.4 Score=38.91 Aligned_cols=95 Identities=16% Similarity=0.255 Sum_probs=49.6
Q ss_pred cEEEEEeCCCCCCCccCCCCchHHHHHHHhcCCchhhhhhhccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 038848 42 NAFIIIYSPDESEPAMWPSRPVVEQLLARFNNMPEMEKSKKMMNQETYLKERVVKSQDQLKKNSRKNKVMEVSNLMEQFH 121 (446)
Q Consensus 42 eVAVIVFSP~GK~pefWPS~psVe~VIdRYk~lpe~er~KKm~dqEeyLkqrIeKLqeQLkKLkKKNrEkEl~elm~q~~ 121 (446)
=||||||+|. ++|++ --.+-..+.+|++....- +..++.| -++..++++.++.++.. .......
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-KLPQA---MVDIAKFFKAVKKTINDA--KSTLDKE----INIEEIKEEALKYKKEF-----ESAVESL- 77 (158)
T ss_pred HHHHhhcCch-HHHHH---HHHHHHHHHHHHHHHHHH--HHHHHHH----HhhHHHHHHHHHHHHHH-----HHHHHHH-
Confidence 4788999997 57765 245556666666543321 1112211 12344444444443221 1111111
Q ss_pred cCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038848 122 LGKKTDDFNINELQGLVWLMEERKKDLRKRMDYYE 156 (446)
Q Consensus 122 ~Ge~LddLSleELqqLe~~LEekLK~VRkRke~Le 156 (446)
. ..+++++|.++...++...+.++..+..++
T Consensus 78 ~----~~~~~eel~~~~~~~~~~~~~~~~~~~~~~ 108 (158)
T PRK04098 78 K----KKLKFEELDDLKITAENEIKSIQDLLQDYK 108 (158)
T ss_pred H----hccChHHHHHHhhhhhhcchhHHHHHhhhh
Confidence 0 237888999888777776666665555443
No 13
>PHA02592 52 DNA topisomerase II medium subunit; Provisional
Probab=71.61 E-value=15 Score=39.82 Aligned_cols=46 Identities=15% Similarity=0.213 Sum_probs=31.6
Q ss_pred hhcchhhhhhhhhhhhccCCcEEEEEeCCCCCCCccCCCCchHHHHHHHhcCC
Q 038848 22 KKRKVGLLKKVSELTTLCDVNAFIIIYSPDESEPAMWPSRPVVEQLLARFNNM 74 (446)
Q Consensus 22 sKRR~GLfKKAsELStLCGaeVAVIVFSP~GK~pefWPS~psVe~VIdRYk~l 74 (446)
.+-.+.|+|+- .|.+- ..+-+++|+++|+...| .++++||+.|...
T Consensus 281 ~~~~~~L~k~~-~L~~~--~~~Nm~~~d~~g~~~~~----~~~~~Il~~f~~~ 326 (439)
T PHA02592 281 EATHEKIMKDF-GLIER--VSQNITVINENGKLKVY----ENAEDLIRDFVEI 326 (439)
T ss_pred HHHHHHHHHhc-Cchhe--eeeeEEEEecCCeeeec----CCHHHHHHHHHHH
Confidence 34445777653 33332 24778999999987665 5799999999663
No 14
>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=70.12 E-value=9 Score=37.65 Aligned_cols=46 Identities=15% Similarity=0.319 Sum_probs=35.9
Q ss_pred hhhhhhhhhhccCCcEEEEEeCCCCCC--CccCCCCchHHHHHHHhcCC
Q 038848 28 LLKKVSELTTLCDVNAFIIIYSPDESE--PAMWPSRPVVEQLLARFNNM 74 (446)
Q Consensus 28 LfKKAsELStLCGaeVAVIVFSP~GK~--pefWPS~psVe~VIdRYk~l 74 (446)
|-.-..|++|-||-.|+|+|.+|+... |.+| +....+.||.+|+.+
T Consensus 41 l~~~~de~~trvGqqavvl~~~p~kp~~~f~vf-Ga~pL~~vv~~~~~~ 88 (214)
T PF10491_consen 41 LRQTIDEYTTRVGQQAVVLCCTPSKPNPVFKVF-GAAPLENVVRNLKPV 88 (214)
T ss_pred HHHHHHHHHHhhhceeEEEEecCCCCCCceeee-cchhHHHHHHHHHHH
Confidence 333457999999999999999997654 3444 778899999998763
No 15
>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=67.62 E-value=16 Score=38.96 Aligned_cols=143 Identities=19% Similarity=0.236 Sum_probs=69.4
Q ss_pred ccceeeEecCCccchhhHh---hh-------cchhhhhhhhhhhhccCCcEEEEEeCCCCCCCccCCCCchHHHHHHHhc
Q 038848 3 RKKVKLNWIANDSARKASL---KK-------RKVGLLKKVSELTTLCDVNAFIIIYSPDESEPAMWPSRPVVEQLLARFN 72 (446)
Q Consensus 3 RkKIkIK~IeNesaRqVTF---sK-------RR~GLfKKAsELStLCGaeVAVIVFSP~GK~pefWPS~psVe~VIdRYk 72 (446)
.+||+|+-+.+++.+.|.| -| ...+|+|+- .|.+-..+- .+++|.. + +.| .++++||+.|.
T Consensus 243 ~~~i~I~d~~D~Sd~~v~ivI~lk~~~~~~~~~~~L~k~t-~Lq~s~~~n-~~~l~~~-~--p~~----~~~~eIL~~f~ 313 (426)
T PF00521_consen 243 DKKIKISDYRDESDRGVRIVIELKRGADPEKILEGLYKKT-KLQSSISTN-NMVLFDN-G--PKY----DSLKEILKEFY 313 (426)
T ss_dssp TTSSTEEEEEE-BBTBS-EEEEESTTSHHHHHHHHHHHHS-TTEEEEEEE-TEEEETT-E--EEE----SSHHHHHHHHH
T ss_pred cCcchhhHHHhcCCCceeEEEEecCCccHHHHHHHHHHHh-hhhccccch-heEEecC-c--cee----CCHHHHHHHHH
Confidence 3556666777777776655 22 235666662 233322222 1345555 4 555 58999999997
Q ss_pred CCchhhhhhhccchhhHHHHHHHHHH------HHHHHHH----HH-----HH---HHHHHHHHHhhccCCCCCCCCHHHH
Q 038848 73 NMPEMEKSKKMMNQETYLKERVVKSQ------DQLKKNS----RK-----NK---VMEVSNLMEQFHLGKKTDDFNINEL 134 (446)
Q Consensus 73 ~lpe~er~KKm~dqEeyLkqrIeKLq------eQLkKLk----KK-----Nr---EkEl~elm~q~~~Ge~LddLSleEL 134 (446)
..-..--.++..-...-++.++..++ .+++... .+ .+ ..++.+-..+++..-.|..|+.++.
T Consensus 314 ~~R~~~~~kR~~~~l~kl~~~l~il~gl~~~~~~idfIi~vI~~s~~~~~~k~~L~~~L~~~q~~yLL~m~L~~LT~~e~ 393 (426)
T PF00521_consen 314 EFRLEYYQKRKQYLLEKLEERLHILEGLIKALNKIDFIIEVIRGSIDKNKAKKDLIEELSEEQADYLLSMPLRRLTKEEI 393 (426)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHSSSHHHHHHHHHHHHCHHHHHHHHTSBGGGGSHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHhccccchHHHHHHHhhchHHHHHHHHhchHHHhhHHHH
Confidence 63221100110000111222222222 2211111 00 00 0112222344566778889999999
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 038848 135 QGLVWLMEERKKDLRKRMDY 154 (446)
Q Consensus 135 qqLe~~LEekLK~VRkRke~ 154 (446)
+.|.+.+++..+++..=...
T Consensus 394 ~kL~~e~~~l~~ei~~l~~~ 413 (426)
T PF00521_consen 394 EKLQKEIKELEKEIEELEKI 413 (426)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 99888877776666554443
No 16
>COG2900 SlyX Uncharacterized protein conserved in bacteria [Function unknown]
Probab=66.98 E-value=40 Score=28.06 Aligned_cols=15 Identities=20% Similarity=0.348 Sum_probs=7.9
Q ss_pred HHHHHHHHHHHHHHH
Q 038848 90 LKERVVKSQDQLKKN 104 (446)
Q Consensus 90 LkqrIeKLqeQLkKL 104 (446)
|.+|+..|+.++.-.
T Consensus 6 lE~Ri~eLE~r~AfQ 20 (72)
T COG2900 6 LEARIIELEIRLAFQ 20 (72)
T ss_pred HHHHHHHHHHHHHHH
Confidence 455666665554433
No 17
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=65.97 E-value=23 Score=38.73 Aligned_cols=40 Identities=13% Similarity=0.106 Sum_probs=19.7
Q ss_pred CchHHHHHHHhcCCchhhhhhhccchhhHHHHHHHHHHHHHHHHHH
Q 038848 61 RPVVEQLLARFNNMPEMEKSKKMMNQETYLKERVVKSQDQLKKNSR 106 (446)
Q Consensus 61 ~psVe~VIdRYk~lpe~er~KKm~dqEeyLkqrIeKLqeQLkKLkK 106 (446)
.+.|..||+...... ....+. +.-+.+..+|++||++++.
T Consensus 51 ~~~~~~vV~~~Fddk--VnqSAL----teqQ~kasELEKqLaaLrq 90 (475)
T PRK13729 51 VPDMTGVVDTTFDDK--VRQHAT----TEMQVTAAQMQKQYEEIRR 90 (475)
T ss_pred CCCccceecchhHHH--HHHHHH----HHHHHHHHHHHHHHHHHHH
Confidence 366777777664421 111111 1123355666777776643
No 18
>PRK00846 hypothetical protein; Provisional
Probab=64.70 E-value=35 Score=28.60 Aligned_cols=21 Identities=10% Similarity=-0.184 Sum_probs=9.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 038848 136 GLVWLMEERKKDLRKRMDYYE 156 (446)
Q Consensus 136 qLe~~LEekLK~VRkRke~Le 156 (446)
.....|...++.+..|+..++
T Consensus 41 ~~I~~L~~ql~~L~~rL~~~~ 61 (77)
T PRK00846 41 LTGARNAELIRHLLEDLGKVR 61 (77)
T ss_pred HHHHHHHHHHHHHHHHHHHhc
Confidence 344444444555555444443
No 19
>PTZ00046 rifin; Provisional
Probab=63.58 E-value=17 Score=38.42 Aligned_cols=29 Identities=21% Similarity=0.544 Sum_probs=21.5
Q ss_pred hccCCcEEEEEeCCCCCCCccCCCCchHHHHHHHhcCCc
Q 038848 37 TLCDVNAFIIIYSPDESEPAMWPSRPVVEQLLARFNNMP 75 (446)
Q Consensus 37 tLCGaeVAVIVFSP~GK~pefWPS~psVe~VIdRYk~lp 75 (446)
+||.+|. |+| -|. ++|+|++|.+.|...+
T Consensus 40 ~LcECeL----Y~p---nYD---NDPeMK~Vme~F~rqT 68 (358)
T PTZ00046 40 LLCECEL----YSS---NYD---NDPEMKSVMENFDRQT 68 (358)
T ss_pred hhhhhhc----CCC---CCC---CcHHHHHHHHHHhHHH
Confidence 5788886 665 233 6899999999997743
No 20
>PRK02119 hypothetical protein; Provisional
Probab=61.66 E-value=59 Score=26.71 Aligned_cols=17 Identities=12% Similarity=0.268 Sum_probs=8.9
Q ss_pred HHHHHHHHHHHHHHHHH
Q 038848 90 LKERVVKSQDQLKKNSR 106 (446)
Q Consensus 90 LkqrIeKLqeQLkKLkK 106 (446)
+.+|+..|+.++.-+.+
T Consensus 7 ~e~Ri~~LE~rla~QE~ 23 (73)
T PRK02119 7 LENRIAELEMKIAFQEN 23 (73)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 44556666555544443
No 21
>PF15079 DUF4546: Domain of unknown function (DUF4546)
Probab=61.17 E-value=50 Score=31.82 Aligned_cols=32 Identities=31% Similarity=0.523 Sum_probs=26.7
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 038848 128 DFNINELQGLVWLMEERKKDLRKRMDYYEQIN 159 (446)
Q Consensus 128 dLSleELqqLe~~LEekLK~VRkRke~Leqi~ 159 (446)
+-+.|-|.++...+.+..+.+.+++..|-++.
T Consensus 78 DKDFDKL~EFVEIMKeMQkDMDEKMDvLiNiQ 109 (205)
T PF15079_consen 78 DKDFDKLHEFVEIMKEMQKDMDEKMDVLINIQ 109 (205)
T ss_pred hhhHHHHHHHHHHHHHHHHhHHHhhhHHhhcc
Confidence 55678899999999999999999999884443
No 22
>PRK02793 phi X174 lysis protein; Provisional
Probab=60.82 E-value=62 Score=26.45 Aligned_cols=17 Identities=18% Similarity=0.264 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHHHHHH
Q 038848 90 LKERVVKSQDQLKKNSR 106 (446)
Q Consensus 90 LkqrIeKLqeQLkKLkK 106 (446)
+.+|+.+|+.++.-+.+
T Consensus 6 ~e~Ri~~LE~~lafQe~ 22 (72)
T PRK02793 6 LEARLAELESRLAFQEI 22 (72)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 45667776666655544
No 23
>PRK04406 hypothetical protein; Provisional
Probab=60.49 E-value=62 Score=26.78 Aligned_cols=17 Identities=29% Similarity=0.329 Sum_probs=8.8
Q ss_pred HHHHHHHHHHHHHHHHH
Q 038848 90 LKERVVKSQDQLKKNSR 106 (446)
Q Consensus 90 LkqrIeKLqeQLkKLkK 106 (446)
+.+++..|+.++.-+.+
T Consensus 9 le~Ri~~LE~~lAfQE~ 25 (75)
T PRK04406 9 LEERINDLECQLAFQEQ 25 (75)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 34556666555544443
No 24
>KOG4252 consensus GTP-binding protein [Signal transduction mechanisms]
Probab=60.32 E-value=24 Score=34.63 Aligned_cols=28 Identities=18% Similarity=0.328 Sum_probs=20.5
Q ss_pred ccCCcEEEEEeCCCCCCCccCCCCchHHHHHHHhcC
Q 038848 38 LCDVNAFIIIYSPDESEPAMWPSRPVVEQLLARFNN 73 (446)
Q Consensus 38 LCGaeVAVIVFSP~GK~pefWPS~psVe~VIdRYk~ 73 (446)
--||.+||+|||-.+. .+.+.+++=|.+
T Consensus 90 yrgaqa~vLVFSTTDr--------~SFea~~~w~~k 117 (246)
T KOG4252|consen 90 YRGAQASVLVFSTTDR--------YSFEATLEWYNK 117 (246)
T ss_pred hccccceEEEEecccH--------HHHHHHHHHHHH
Confidence 3589999999999886 234566666655
No 25
>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=58.75 E-value=20 Score=28.67 Aligned_cols=33 Identities=18% Similarity=0.335 Sum_probs=27.5
Q ss_pred ccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q 038848 121 HLGKKTDDFNINELQGLVWLMEERKKDLRKRMD 153 (446)
Q Consensus 121 ~~Ge~LddLSleELqqLe~~LEekLK~VRkRke 153 (446)
..|++|+.||++||.+-...|+.-+.+++..+.
T Consensus 13 ~ig~dLs~lSv~EL~~RIa~L~aEI~R~~~~~~ 45 (59)
T PF06698_consen 13 EIGEDLSLLSVEELEERIALLEAEIARLEAAIA 45 (59)
T ss_pred ccCCCchhcCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 348899999999999999999888877776554
No 26
>PRK00736 hypothetical protein; Provisional
Probab=58.53 E-value=66 Score=26.02 Aligned_cols=17 Identities=18% Similarity=0.124 Sum_probs=8.5
Q ss_pred HHHHHHHHHHHHHHHHH
Q 038848 139 WLMEERKKDLRKRMDYY 155 (446)
Q Consensus 139 ~~LEekLK~VRkRke~L 155 (446)
..|...++.+..|+..+
T Consensus 36 ~~L~~ql~~L~~rl~~~ 52 (68)
T PRK00736 36 EQMRKKLDALTERFLSL 52 (68)
T ss_pred HHHHHHHHHHHHHHHHh
Confidence 34444555555555544
No 27
>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=58.48 E-value=42 Score=35.85 Aligned_cols=47 Identities=19% Similarity=0.285 Sum_probs=30.7
Q ss_pred hHHHHHHHhcCCchhhhhhhccchhhHHHHHHHHHHHHHHHHHHHHH
Q 038848 63 VVEQLLARFNNMPEMEKSKKMMNQETYLKERVVKSQDQLKKNSRKNK 109 (446)
Q Consensus 63 sVe~VIdRYk~lpe~er~KKm~dqEeyLkqrIeKLqeQLkKLkKKNr 109 (446)
-++.+++.|.......+........+||.+++.++++++++.+++..
T Consensus 139 i~n~l~~~yi~~~~~~~~~~~~~~~~fl~~ql~~~~~~L~~ae~~l~ 185 (498)
T TIGR03007 139 VVQTLLTIFVEETLGSKRQDSDSAQRFIDEQIKTYEKKLEAAENRLK 185 (498)
T ss_pred HHHHHHHHHHHhhcccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46677777876443333233334568899999999888877766543
No 28
>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=57.76 E-value=51 Score=26.53 Aligned_cols=16 Identities=19% Similarity=0.212 Sum_probs=8.5
Q ss_pred HHHHHHHHHHHHHHHH
Q 038848 91 KERVVKSQDQLKKNSR 106 (446)
Q Consensus 91 kqrIeKLqeQLkKLkK 106 (446)
.+++.+|+.++.-+.+
T Consensus 3 e~Ri~~LE~~la~qe~ 18 (69)
T PF04102_consen 3 EERIEELEIKLAFQED 18 (69)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHH
Confidence 4556666555544443
No 29
>KOG0047 consensus Catalase [Inorganic ion transport and metabolism]
Probab=57.46 E-value=4.6 Score=43.43 Aligned_cols=15 Identities=67% Similarity=1.382 Sum_probs=13.6
Q ss_pred CcccccccCCCCCCC
Q 038848 432 MPYDVTKQWPHNFYP 446 (446)
Q Consensus 432 ~~~~~~~~~~~~~~~ 446 (446)
-|+||||-|||.-||
T Consensus 292 npfDvTKvWP~~~~P 306 (505)
T KOG0047|consen 292 NPFDVTKVWPHKDYP 306 (505)
T ss_pred CccceeccccCcCcc
Confidence 389999999999887
No 30
>PTZ00108 DNA topoisomerase 2-like protein; Provisional
Probab=57.14 E-value=35 Score=42.00 Aligned_cols=26 Identities=8% Similarity=0.170 Sum_probs=22.0
Q ss_pred EEEEeCCCCCCCccCCCCchHHHHHHHhcC
Q 038848 44 FIIIYSPDESEPAMWPSRPVVEQLLARFNN 73 (446)
Q Consensus 44 AVIVFSP~GK~pefWPS~psVe~VIdRYk~ 73 (446)
-+++|.+.|+.+.| .++.+||+.|..
T Consensus 962 Nm~~~d~~g~i~~~----~~~~~Il~~f~~ 987 (1388)
T PTZ00108 962 NMVLFDENGKIKKY----SDALDILKEFYL 987 (1388)
T ss_pred eEEEEeCCCCccee----CCHHHHHHHHHH
Confidence 57889999998887 578999999965
No 31
>PRK00295 hypothetical protein; Provisional
Probab=56.82 E-value=69 Score=25.91 Aligned_cols=18 Identities=17% Similarity=0.021 Sum_probs=10.0
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 038848 139 WLMEERKKDLRKRMDYYE 156 (446)
Q Consensus 139 ~~LEekLK~VRkRke~Le 156 (446)
..|...++.+..|+..+.
T Consensus 36 ~~L~~ql~~L~~rl~~~~ 53 (68)
T PRK00295 36 ERLQLQMAALIKRQEEMV 53 (68)
T ss_pred HHHHHHHHHHHHHHHHhh
Confidence 444555556666665554
No 32
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=54.48 E-value=66 Score=37.64 Aligned_cols=22 Identities=18% Similarity=0.022 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHHHHhcCCCC
Q 038848 141 MEERKKDLRKRMDYYEQINPPP 162 (446)
Q Consensus 141 LEekLK~VRkRke~Leqi~~LQ 162 (446)
.+++++.+...+..|....++.
T Consensus 500 ~e~Ki~~l~ae~~al~s~~~~~ 521 (1102)
T KOG1924|consen 500 HEEKIKLLEAEKQALSSPSQLL 521 (1102)
T ss_pred hhhhcccCchhhhhccCcccCC
Confidence 3455555556666665555544
No 33
>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=52.49 E-value=1e+02 Score=36.13 Aligned_cols=36 Identities=31% Similarity=0.380 Sum_probs=26.5
Q ss_pred EecCCccchhhHhhhcchhhhhhhhhhh-hccCCcEE
Q 038848 9 NWIANDSARKASLKKRKVGLLKKVSELT-TLCDVNAF 44 (446)
Q Consensus 9 K~IeNesaRqVTFsKRR~GLfKKAsELS-tLCGaeVA 44 (446)
++|.-..+++.+..-+-..|=-|-.+|+ -||||.+-
T Consensus 430 e~iv~~nak~~ql~~eletLn~k~qqls~kl~Dvr~~ 466 (1118)
T KOG1029|consen 430 EWIVYLNAKKKQLQQELETLNFKLQQLSGKLQDVRVD 466 (1118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhheec
Confidence 3444456677777777888888888887 58888875
No 34
>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=50.30 E-value=36 Score=36.00 Aligned_cols=29 Identities=24% Similarity=0.611 Sum_probs=20.0
Q ss_pred hccCCcEEEEEeCCCCCCCccCCCCchHHHHHHHhcCCc
Q 038848 37 TLCDVNAFIIIYSPDESEPAMWPSRPVVEQLLARFNNMP 75 (446)
Q Consensus 37 tLCGaeVAVIVFSP~GK~pefWPS~psVe~VIdRYk~lp 75 (446)
+||.+|. |+ .-|. ++|+|++|.+.|...+
T Consensus 43 ~LcECeL----y~---~nYD---NDPeMK~Vm~nF~rqT 71 (353)
T TIGR01477 43 SLCECEL----YS---SNYD---NDPEMKSVMEQFDRQT 71 (353)
T ss_pred hhhhhhc----cc---ccCC---CcHHHHHHHHHHhHHH
Confidence 4788876 33 1122 5789999999997743
No 35
>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=49.76 E-value=42 Score=30.43 Aligned_cols=23 Identities=17% Similarity=0.300 Sum_probs=18.2
Q ss_pred hhhHhhhcchhhhhhhhhhhhcc
Q 038848 17 RKASLKKRKVGLLKKVSELTTLC 39 (446)
Q Consensus 17 RqVTFsKRR~GLfKKAsELStLC 39 (446)
.-.+++|+|..++||-.+-.+-|
T Consensus 3 ~~~~~rk~R~~~y~~lgl~~vkC 25 (120)
T PF04521_consen 3 SFRCVRKYRASVYKKLGLSAVKC 25 (120)
T ss_pred chHHHHHHHHHHHHHcCCeeeee
Confidence 34689999999999988866633
No 36
>KOG4311 consensus Histidinol dehydrogenase [Amino acid transport and metabolism]
Probab=48.56 E-value=68 Score=33.12 Aligned_cols=126 Identities=13% Similarity=0.264 Sum_probs=75.3
Q ss_pred hhhhhhhhhhhccCCcEEEEEeCCCCCCCc-------cCC---CCchHHHHHH-HhcCCchhhhhhhccchhhHHHHHHH
Q 038848 27 GLLKKVSELTTLCDVNAFIIIYSPDESEPA-------MWP---SRPVVEQLLA-RFNNMPEMEKSKKMMNQETYLKERVV 95 (446)
Q Consensus 27 GLfKKAsELStLCGaeVAVIVFSP~GK~pe-------fWP---S~psVe~VId-RYk~lpe~er~KKm~dqEeyLkqrIe 95 (446)
|=+.+.-++.|=||-+.-..+.-++|+.+. |.- +--+.+.+|. |-...|+..-..+..+....|..+|.
T Consensus 201 gn~q~ll~i~vDCD~D~l~f~v~q~g~gfCHl~t~~Cfg~~~~gL~~LEs~l~~Rk~~aPeeSyTrRLftD~aLL~aKI~ 280 (359)
T KOG4311|consen 201 GNFQNLLDIYVDCDRDSLIFLVTQDGPGFCHLGTETCFGTSVFGLYSLESILSKRKETAPEESYTRRLFTDDALLCAKIR 280 (359)
T ss_pred cCceeeEEEeeccCccceEEEEecCCCcccccCcceeeeeechhhhhHHHHHHHhhhcCCchhhHHHhhCChHHHHHHHH
Confidence 345566789999999998888888888542 210 1234666665 44456665555566666667777666
Q ss_pred HHHHHHHHHHHHH-HHHHHHHHHHhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038848 96 KSQDQLKKNSRKN-KVMEVSNLMEQFHLGKKTDDFNINELQGLVWLMEERKKDLRKRMDYY 155 (446)
Q Consensus 96 KLqeQLkKLkKKN-rEkEl~elm~q~~~Ge~LddLSleELqqLe~~LEekLK~VRkRke~L 155 (446)
+.-++|-....++ ---||.++|+-.+.--.-.+.+++ +++..|+-+.+.+..|+..-
T Consensus 281 EEAeELc~a~~k~e~~wEmADl~YfA~~~lv~~gVsl~---Dv~~~LnmkhrKvtrrkGda 338 (359)
T KOG4311|consen 281 EEAEELCRALEKNETPWEMADLLYFAMVLLVKRGVSLE---DVLEVLNMKHRKVTRRKGDA 338 (359)
T ss_pred HHHHHHHHhhcccCChHHHHHHHHHHHHHHHhcCCcHH---HHHHHhhhHHHhHhhhcchh
Confidence 6555555443333 336777777433211112244444 55666777777777777543
No 37
>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=47.35 E-value=71 Score=36.20 Aligned_cols=77 Identities=13% Similarity=0.125 Sum_probs=38.9
Q ss_pred hHHHHHHHhcCCchhhhhhhccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-ccCCCCCCCCHHHHHHHHHHH
Q 038848 63 VVEQLLARFNNMPEMEKSKKMMNQETYLKERVVKSQDQLKKNSRKNKVMEVSNLMEQF-HLGKKTDDFNINELQGLVWLM 141 (446)
Q Consensus 63 sVe~VIdRYk~lpe~er~KKm~dqEeyLkqrIeKLqeQLkKLkKKNrEkEl~elm~q~-~~Ge~LddLSleELqqLe~~L 141 (446)
-++.+++-|....-..+........+||.+++.++++++++.+.+ +..+..+. .....-..+..++|.+|..+|
T Consensus 172 iaN~la~~Y~~~~~~~k~~~~~~a~~~L~~ql~~l~~~l~~aE~~-----l~~fk~~~~l~~~~~~~~~~~~L~~l~~ql 246 (754)
T TIGR01005 172 IPDAIAAAYIAGQGAAKSESNTAAADFLAPEIADLSKQSRDAEAE-----VAAYRAQSDLLMGNNATLATQQLAELNTEL 246 (754)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHcCCcccCCccchHHHHHHHHHHH
Confidence 356666667653332222222233567777777777776655443 33333222 212222344456777776666
Q ss_pred HHH
Q 038848 142 EER 144 (446)
Q Consensus 142 Eek 144 (446)
...
T Consensus 247 ~~a 249 (754)
T TIGR01005 247 SRA 249 (754)
T ss_pred HHH
Confidence 543
No 38
>PF04417 DUF501: Protein of unknown function (DUF501); InterPro: IPR007511 This is a family of uncharacterised bacterial proteins.
Probab=46.47 E-value=81 Score=28.97 Aligned_cols=69 Identities=12% Similarity=0.212 Sum_probs=41.5
Q ss_pred cCCcEEEEEeC--CCCCCC--ccCCCCchHHHHHHHhcCCchhhhhhhccchhhHHHHHHHHHHHHHHHHHHH
Q 038848 39 CDVNAFIIIYS--PDESEP--AMWPSRPVVEQLLARFNNMPEMEKSKKMMNQETYLKERVVKSQDQLKKNSRK 107 (446)
Q Consensus 39 CGaeVAVIVFS--P~GK~p--efWPS~psVe~VIdRYk~lpe~er~KKm~dqEeyLkqrIeKLqeQLkKLkKK 107 (446)
||.+..|.++- ++|+.+ .||=..|.+...|+|....-....-.+.++...-|.+.+.+..+...+++.+
T Consensus 7 ~G~P~Vi~~~P~l~~g~PFPTlfwLtcP~L~~~isrLE~~G~i~~l~~~l~~d~~l~~~~~~aH~~y~~~R~~ 79 (139)
T PF04417_consen 7 CGFPQVIRTAPRLVDGKPFPTLFWLTCPYLVKAISRLEAEGGIAELEERLAEDEELAEAYRRAHRRYAALRWS 79 (139)
T ss_pred CCCCeEEEeccCCCCCccCCccHhhcCHHHHHHHHHHHhcCHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHH
Confidence 57777766664 567654 5787889999999999875444333333333333455555555544444433
No 39
>PF00846 Hanta_nucleocap: Hantavirus nucleocapsid protein; InterPro: IPR002214 Hantaviruses are ssRNA negative-strand viruses. The nucleocapsid protein is an internal protein of the virus particle [, ].; GO: 0019013 viral nucleocapsid; PDB: 2IC9_A 2IC6_A 2K48_A 4FI5_A.
Probab=46.10 E-value=25 Score=37.61 Aligned_cols=74 Identities=15% Similarity=0.171 Sum_probs=20.5
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC-----chhhhhh
Q 038848 130 NINELQGLVWLMEERKKDLRKRMDYYEQINPPPQESLPPPPHPPQLPAPEDSTAGVGGSTGGGGRNLT-----ESAQWDQ 204 (446)
Q Consensus 130 SleELqqLe~~LEekLK~VRkRke~Leqi~~LQ~s~~~~~P~pp~~pvEE~~~s~~~~~~~~d~~~n~-----~~mq~~q 204 (446)
++.+-+.-...|+.++.+++..+..+-...+...+..-|+-..|.-.+.|-+ .+.||..-++|+ ..=|-.+
T Consensus 43 ~~~~R~~~v~~~~~Ki~elkr~lAd~v~~~k~~~~~~dptG~epdDhl~~kS----~LrYGnvlD~N~idleEPsGqtAd 118 (428)
T PF00846_consen 43 TLQQRQSVVSALQDKIAELKRQLADRVAAGKQSAKPVDPTGVEPDDHLKEKS----MLRYGNVLDVNPIDLEEPSGQTAD 118 (428)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCH------------------------------------------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhccccccCCCCCCCCCCchhhhHhh----hccccceeccccccccCCCCCCCc
Confidence 3455556677788888888888876533333333334444444443444444 677777778775 2234457
Q ss_pred hHH
Q 038848 205 WFI 207 (446)
Q Consensus 205 W~m 207 (446)
|+.
T Consensus 119 W~~ 121 (428)
T PF00846_consen 119 WLS 121 (428)
T ss_dssp ---
T ss_pred HHH
Confidence 864
No 40
>PLN03237 DNA topoisomerase 2; Provisional
Probab=45.92 E-value=1.1e+02 Score=38.04 Aligned_cols=44 Identities=27% Similarity=0.356 Sum_probs=31.0
Q ss_pred cchhhhhhhhhhhhccCCcEEEEEeCCCCCCCccCCCCchHHHHHHHhcC
Q 038848 24 RKVGLLKKVSELTTLCDVNAFIIIYSPDESEPAMWPSRPVVEQLLARFNN 73 (446)
Q Consensus 24 RR~GLfKKAsELStLCGaeVAVIVFSP~GK~pefWPS~psVe~VIdRYk~ 73 (446)
..++|+|+ ..|.+.-.+ --+++|.+.|+.+.| .++++||+.|..
T Consensus 970 ~~~~L~k~-~kL~~s~~~-~nm~l~d~~G~i~k~----~~~~~Il~~F~~ 1013 (1465)
T PLN03237 970 KQEGLLKK-FKLTTTIST-SNMHLFDSKGVIKKY----DTPEQILEEFFH 1013 (1465)
T ss_pred HHHHHHHh-hcCcceece-eEEEEEcCCCCccee----CCHHHHHHHHHH
Confidence 45677744 344443322 367899999998887 689999999965
No 41
>PF14282 FlxA: FlxA-like protein
Probab=45.82 E-value=1.3e+02 Score=26.20 Aligned_cols=52 Identities=13% Similarity=0.266 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038848 92 ERVVKSQDQLKKNSRKNKVMEVSNLMEQFHLGKKTDDFNINELQGLVWLMEERKKDLRKRMDYY 155 (446)
Q Consensus 92 qrIeKLqeQLkKLkKKNrEkEl~elm~q~~~Ge~LddLSleELqqLe~~LEekLK~VRkRke~L 155 (446)
.+|+.|+++++.|.++..+. . . -.+|+.++-..-...|..-+..|...+..|
T Consensus 19 ~~I~~L~~Qi~~Lq~ql~~l-----~------~-~~~~~~e~k~~q~q~Lq~QI~~LqaQI~ql 70 (106)
T PF14282_consen 19 SQIEQLQKQIKQLQEQLQEL-----S------Q-DSDLDAEQKQQQIQLLQAQIQQLQAQIAQL 70 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHH-----H------c-ccCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45666666666666544321 1 0 145677777777777777777777777766
No 42
>PF15372 DUF4600: Domain of unknown function (DUF4600)
Probab=45.75 E-value=80 Score=28.99 Aligned_cols=57 Identities=14% Similarity=0.285 Sum_probs=32.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q 038848 88 TYLKERVVKSQDQLKKNSRKNKVMEVSNLMEQFHLGKKTDDFNINELQGLVWLMEERKKDLRKRM 152 (446)
Q Consensus 88 eyLkqrIeKLqeQLkKLkKKNrEkEl~elm~q~~~Ge~LddLSleELqqLe~~LEekLK~VRkRk 152 (446)
++|+.++.-+++++++++....+.-.. =+..+.|+++.|..|..+||+-.+.+...+
T Consensus 18 ~QLekqi~~l~~kiek~r~n~~drl~s--------iR~ye~Ms~~~l~~llkqLEkeK~~Le~ql 74 (129)
T PF15372_consen 18 DQLEKQIIILREKIEKIRGNPSDRLSS--------IRRYEQMSVESLNQLLKQLEKEKRSLENQL 74 (129)
T ss_pred HHHHHHHHHHHHHHHHHhCCCccccHH--------HHHHhhccHHHHHHHHHHHHHHHHHHHHHH
Confidence 445555555665555554322211000 012578899999998888887655554444
No 43
>COG4575 ElaB Uncharacterized conserved protein [Function unknown]
Probab=44.48 E-value=99 Score=27.46 Aligned_cols=29 Identities=21% Similarity=0.153 Sum_probs=26.2
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038848 127 DDFNINELQGLVWLMEERKKDLRKRMDYY 155 (446)
Q Consensus 127 ddLSleELqqLe~~LEekLK~VRkRke~L 155 (446)
.+..-+|+.+|...++..|++++.|+..+
T Consensus 32 g~~a~~e~~~lR~r~~~~Lk~~r~rl~~~ 60 (104)
T COG4575 32 GSLAGDEAEELRSKAESALKEARDRLGDT 60 (104)
T ss_pred ccchhhHHHHHHHHHHHHHHHHHHHHHhh
Confidence 46788999999999999999999999876
No 44
>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=43.45 E-value=1.3e+02 Score=31.42 Aligned_cols=48 Identities=8% Similarity=0.140 Sum_probs=31.4
Q ss_pred chHHHHHHHhcCCchhhhhhhccchhhHHHHHHHHHHHHHHHHHHHHH
Q 038848 62 PVVEQLLARFNNMPEMEKSKKMMNQETYLKERVVKSQDQLKKNSRKNK 109 (446)
Q Consensus 62 psVe~VIdRYk~lpe~er~KKm~dqEeyLkqrIeKLqeQLkKLkKKNr 109 (446)
.-++.+++.|.......+.........||.+++.++++++++.+++..
T Consensus 148 ~i~n~~~~~y~~~~~~~~~~~~~~~~~fl~~ql~~~~~~l~~ae~~l~ 195 (444)
T TIGR03017 148 TVANAFAQAYIDTNIELKVEPAQKAALWFVQQIAALREDLARAQSKLS 195 (444)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 346667777876544444444444568888888888888877765543
No 45
>COG3416 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=42.34 E-value=2.1e+02 Score=28.63 Aligned_cols=17 Identities=24% Similarity=0.319 Sum_probs=9.3
Q ss_pred HHHHHHHHHHHHHHHhc
Q 038848 142 EERKKDLRKRMDYYEQI 158 (446)
Q Consensus 142 EekLK~VRkRke~Leqi 158 (446)
...++++++|+..|++.
T Consensus 61 ~~~i~eLe~ri~~lq~~ 77 (233)
T COG3416 61 STQIKELEKRIAILQAG 77 (233)
T ss_pred HHHHHHHHHHHHHHhcc
Confidence 34455556666666554
No 46
>PF01519 DUF16: Protein of unknown function DUF16; InterPro: IPR002862 Proteins that contain this domain are of unknown function. It appears to be confined to proteins from Mycoplasma pneumoniae [].; PDB: 2BA2_C.
Probab=41.90 E-value=2.2e+02 Score=25.31 Aligned_cols=24 Identities=25% Similarity=0.322 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 038848 132 NELQGLVWLMEERKKDLRKRMDYYE 156 (446)
Q Consensus 132 eELqqLe~~LEekLK~VRkRke~Le 156 (446)
.+...| +.|.+.|..+.+|++.++
T Consensus 78 ~qgktL-~~I~~~L~~inkRLD~~E 101 (102)
T PF01519_consen 78 AQGKTL-QLILKTLQSINKRLDKME 101 (102)
T ss_dssp HHHHHH-HHHHHHHHHHHHHHHHHC
T ss_pred HHHHHH-HHHHHHHHHHHHHHhhcc
Confidence 444555 777888889999988764
No 47
>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=40.74 E-value=1.9e+02 Score=26.66 Aligned_cols=18 Identities=17% Similarity=0.573 Sum_probs=15.1
Q ss_pred CCCCchHHHHHHHhcCCc
Q 038848 58 WPSRPVVEQLLARFNNMP 75 (446)
Q Consensus 58 WPS~psVe~VIdRYk~lp 75 (446)
|+.+.++.+|+++|-..+
T Consensus 34 ~~pP~el~~iLe~y~~~~ 51 (132)
T PF09432_consen 34 WNPPKELQSILEKYNTPS 51 (132)
T ss_pred CCCCHHHHHHHHHHcCCC
Confidence 777889999999998833
No 48
>PF07439 DUF1515: Protein of unknown function (DUF1515); InterPro: IPR010889 This family consists of several hypothetical bacterial proteins of around 130 residues in length. Members of this family seem to be found exclusively in Rhizobium species. The function of this family is unknown.
Probab=40.25 E-value=98 Score=27.77 Aligned_cols=61 Identities=13% Similarity=0.120 Sum_probs=37.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038848 90 LKERVVKSQDQLKKNSRKNKVMEVSNLMEQFHLGKKTDDFNINELQGLVWLMEERKKDLRKRMDYY 155 (446)
Q Consensus 90 LkqrIeKLqeQLkKLkKKNrEkEl~elm~q~~~Ge~LddLSleELqqLe~~LEekLK~VRkRke~L 155 (446)
+.++...++++++++++..++.|-+-... +.-..--+|||.+....||..+..+++.+..+
T Consensus 6 ~~~q~~~l~~~v~~lRed~r~SEdrsa~S-----Ra~mhrRlDElV~Rv~~lEs~~~~lk~dVsem 66 (112)
T PF07439_consen 6 LHQQLGTLNAEVKELREDIRRSEDRSAAS-----RASMHRRLDELVERVTTLESSVSTLKADVSEM 66 (112)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhh-----hHHHHHhHHHHHHHHHHHHHHHHHHHhhHHhc
Confidence 34556666667777766665544332111 11112246888888888888888888877654
No 49
>PRK11519 tyrosine kinase; Provisional
Probab=40.13 E-value=1e+02 Score=35.06 Aligned_cols=45 Identities=11% Similarity=0.226 Sum_probs=28.4
Q ss_pred hHHHHHHHhcCCchhhhhhhccchhhHHHHHHHHHHHHHHHHHHH
Q 038848 63 VVEQLLARFNNMPEMEKSKKMMNQETYLKERVVKSQDQLKKNSRK 107 (446)
Q Consensus 63 sVe~VIdRYk~lpe~er~KKm~dqEeyLkqrIeKLqeQLkKLkKK 107 (446)
-++.+++.|.......+.....+..+||++++.+++++|+..+++
T Consensus 245 iaN~l~~~Yi~~~~~~k~~~a~~a~~fL~~ql~~l~~~L~~aE~~ 289 (719)
T PRK11519 245 ILNSITRNYLEQNIERKSEEASKSLAFLAQQLPEVRSRLDVAENK 289 (719)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466677777664444443334445578888888888877766543
No 50
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=39.87 E-value=1.5e+02 Score=34.79 Aligned_cols=13 Identities=31% Similarity=0.386 Sum_probs=6.0
Q ss_pred CCCCccCCccccc
Q 038848 262 LGLPHVNPRAYNI 274 (446)
Q Consensus 262 ~~~~~~~~~~~~~ 274 (446)
+|=|-+--|.+|-
T Consensus 619 ~~k~e~~Mrr~nW 631 (1102)
T KOG1924|consen 619 VYKPEVPMRRFNW 631 (1102)
T ss_pred cCCCCCccccCCc
Confidence 4444444454443
No 51
>PRK09841 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional
Probab=39.72 E-value=1.8e+02 Score=33.18 Aligned_cols=45 Identities=7% Similarity=0.214 Sum_probs=27.2
Q ss_pred hHHHHHHHhcCCchhhhhhhccchhhHHHHHHHHHHHHHHHHHHH
Q 038848 63 VVEQLLARFNNMPEMEKSKKMMNQETYLKERVVKSQDQLKKNSRK 107 (446)
Q Consensus 63 sVe~VIdRYk~lpe~er~KKm~dqEeyLkqrIeKLqeQLkKLkKK 107 (446)
-++.+++.|....-..+........+||.+|+.++++++++.+++
T Consensus 245 ilN~la~~Yi~~~l~~k~~~a~~a~~fL~~qL~~l~~~L~~aE~~ 289 (726)
T PRK09841 245 ILNSIANNYLQQNIARQAAQDSQSLEFLQRQLPEVRSELDQAEEK 289 (726)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355666677654444443334344578888888887777766443
No 52
>PF12761 End3: Actin cytoskeleton-regulatory complex protein END3
Probab=39.27 E-value=2.8e+02 Score=27.24 Aligned_cols=71 Identities=17% Similarity=0.289 Sum_probs=41.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHH-------------HHHHHHHH----hh--cc-CCCCCCCCH----HHHHHHHHHHHH
Q 038848 88 TYLKERVVKSQDQLKKNSRKNKV-------------MEVSNLME----QF--HL-GKKTDDFNI----NELQGLVWLMEE 143 (446)
Q Consensus 88 eyLkqrIeKLqeQLkKLkKKNrE-------------kEl~elm~----q~--~~-Ge~LddLSl----eELqqLe~~LEe 143 (446)
--|+.++..|+++|.+.+++... .|.+.++. ++ .. +..-.+.++ +||..++.+++.
T Consensus 99 vrLkrELa~Le~~l~~~~~~~~~~~~~~~~~~~lvk~e~EqLL~YK~~ql~~~~~~~~~~~~~l~~v~~Dl~~ie~QV~~ 178 (195)
T PF12761_consen 99 VRLKRELAELEEKLSKVEQAAESRRSDTDSKPALVKREFEQLLDYKERQLRELEEGRSKSGKNLKSVREDLDTIEEQVDG 178 (195)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcccCCcchHHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCHHHHHHHHHHHHHHHHH
Confidence 34677777777777776554331 22333321 11 11 222333333 678888888887
Q ss_pred HHHHHHHHHHHHHhc
Q 038848 144 RKKDLRKRMDYYEQI 158 (446)
Q Consensus 144 kLK~VRkRke~Leqi 158 (446)
.-.-++.|+..|++-
T Consensus 179 Le~~L~~k~~eL~~L 193 (195)
T PF12761_consen 179 LESHLSSKKQELQQL 193 (195)
T ss_pred HHHHHHHHHHHHHHh
Confidence 777788888887653
No 53
>KOG4302 consensus Microtubule-associated protein essential for anaphase spindle elongation [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=38.89 E-value=1.8e+02 Score=33.30 Aligned_cols=31 Identities=19% Similarity=0.343 Sum_probs=25.9
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038848 125 KTDDFNINELQGLVWLMEERKKDLRKRMDYY 155 (446)
Q Consensus 125 ~LddLSleELqqLe~~LEekLK~VRkRke~L 155 (446)
+..+|+++.|.+|...|.+..++...|++..
T Consensus 153 D~~dlsl~kLeelr~~L~~L~~ek~~Rlekv 183 (660)
T KOG4302|consen 153 DESDLSLEKLEELREHLNELQKEKSDRLEKV 183 (660)
T ss_pred CcccccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4558999999999999999888888888754
No 54
>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=38.61 E-value=49 Score=27.64 Aligned_cols=38 Identities=16% Similarity=0.388 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHH---HHHHHHHHhhccCCCCCCCCHHHH
Q 038848 90 LKERVVKSQDQLKKNSRKNKV---MEVSNLMEQFHLGKKTDDFNINEL 134 (446)
Q Consensus 90 LkqrIeKLqeQLkKLkKKNrE---kEl~elm~q~~~Ge~LddLSleEL 134 (446)
|.+++.++++++++.+++.++ .++..+|.+ .+++++||
T Consensus 3 L~~~~~~l~~~~~~~~~~e~~~~~~~i~~~~~~-------~Gis~~el 43 (93)
T PF00816_consen 3 LEAQIKELEKEIEERRKQEREEAIAEIRELMAE-------YGISPEEL 43 (93)
T ss_dssp HHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHH-------TT--HHHC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------hCCCHHHh
Confidence 556667777776666555443 344444433 25667776
No 55
>PF05549 Allexi_40kDa: Allexivirus 40kDa protein; InterPro: IPR008398 This family of sequences contains the 40 kDa polypeptides from garlic viruses (Allexiviruses), which do not resemble any other plant virus gene products reported so far []. Rod-shaped flexuous viruses have been isolated from garlic plants, Allium sativum. Infection by this virus creates typical mosaic symptoms. The core-like sequence of a zinc finger protein preceded by a cluster of basic amino acid residues shows similarities to the corresponding 12K proteins of the potexviruses and carlaviruses []. Viral epidemics by allexiviruses are also known to be caused by aphids and eriophyid mites (Aceria tulipae) carrying Potyviruses, Carlaviruses, and Allexiviruses [].
Probab=38.15 E-value=3.8e+02 Score=27.51 Aligned_cols=27 Identities=15% Similarity=0.102 Sum_probs=14.9
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038848 129 FNINELQGLVWLMEERKKDLRKRMDYY 155 (446)
Q Consensus 129 LSleELqqLe~~LEekLK~VRkRke~L 155 (446)
.+-.++..-...||..|+.+..|+.+|
T Consensus 111 ~~~~~~~~~l~~iet~L~~lh~kld~l 137 (271)
T PF05549_consen 111 PSSSKLLKKLASIETSLESLHIKLDEL 137 (271)
T ss_pred ccchhHHHHHHHHHhHHHHHHHHHHHH
Confidence 333444444455566666666676655
No 56
>PLN03230 acetyl-coenzyme A carboxylase carboxyl transferase; Provisional
Probab=37.66 E-value=79 Score=34.37 Aligned_cols=72 Identities=13% Similarity=0.275 Sum_probs=41.8
Q ss_pred HHHHHHHhcCCchhhhhhhccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCCH-HHHHHHHHHHH
Q 038848 64 VEQLLARFNNMPEMEKSKKMMNQETYLKERVVKSQDQLKKNSRKNKVMEVSNLMEQFHLGKKTDDFNI-NELQGLVWLME 142 (446)
Q Consensus 64 Ve~VIdRYk~lpe~er~KKm~dqEeyLkqrIeKLqeQLkKLkKKNrEkEl~elm~q~~~Ge~LddLSl-eELqqLe~~LE 142 (446)
+-..|.+|+-+.+..+.. .++ +++.|.+|+++++.|++-.. + .++++ +|+..|+..++
T Consensus 57 ~~~~~~~~~~~~~~~~~~-~l~----fe~pi~ele~ki~el~~~~~--------------~--~~~~~~~ei~~l~~~~~ 115 (431)
T PLN03230 57 ALKILNRFKPLKNKPKPV-TLP----FEKPIVDLENRIDEVRELAN--------------K--TGVDFSAQIAELEERYD 115 (431)
T ss_pred HHHHHHhcCCCCCCCCCC-ccc----hhhHHHHHHHHHHHHHhhhh--------------c--ccccHHHHHHHHHHHHH
Confidence 445888998776543321 112 24556667766666554211 1 11222 67888888888
Q ss_pred HHHHHHHHHHHHHH
Q 038848 143 ERKKDLRKRMDYYE 156 (446)
Q Consensus 143 ekLK~VRkRke~Le 156 (446)
+..++|...+..++
T Consensus 116 ~~~~~i~~~Lt~wq 129 (431)
T PLN03230 116 QVRRELYSRLTPVQ 129 (431)
T ss_pred HHHHHHHhcCCHHH
Confidence 88877777665553
No 57
>smart00787 Spc7 Spc7 kinetochore protein. This domain is found in cell division proteins which are required for kinetochore-spindle association.
Probab=37.47 E-value=2.1e+02 Score=29.69 Aligned_cols=32 Identities=9% Similarity=0.128 Sum_probs=23.8
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038848 124 KKTDDFNINELQGLVWLMEERKKDLRKRMDYY 155 (446)
Q Consensus 124 e~LddLSleELqqLe~~LEekLK~VRkRke~L 155 (446)
..+++++.++|..+...|.+...++..++..+
T Consensus 196 ~e~~~~d~~eL~~lk~~l~~~~~ei~~~~~~l 227 (312)
T smart00787 196 DELEDCDPTELDRAKEKLKKLLQEIMIKVKKL 227 (312)
T ss_pred HHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45778889999888888877777666666544
No 58
>PF00804 Syntaxin: Syntaxin; InterPro: IPR006011 Syntaxins A and B are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane. Syntaxins are a family of receptors for intracellular transport vesicles. Each target membrane may be identified by a specific member of the syntaxin family []. Members of the syntaxin family [, ] have a size ranging from 30 Kd to 40 Kd; a C-terminal extremity which is highly hydrophobic and anchors the protein on the cytoplasmic surface of cellular membranes; a central, well conserved region, which seems to be in a coiled-coil conformation. ; GO: 0016020 membrane; PDB: 1S94_B 1EZ3_A 3C98_B 1BR0_A 1FIO_A 2XHE_B.
Probab=36.93 E-value=1.4e+02 Score=24.22 Aligned_cols=28 Identities=18% Similarity=0.201 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 038848 131 INELQGLVWLMEERKKDLRKRMDYYEQI 158 (446)
Q Consensus 131 leELqqLe~~LEekLK~VRkRke~Leqi 158 (446)
-++|..|...+......++.++..|+..
T Consensus 44 ~~el~~l~~~i~~~~~~~~~~lk~l~~~ 71 (103)
T PF00804_consen 44 KRELDELTDEIKQLFQKIKKRLKQLSKD 71 (103)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3577777777788888888888887655
No 59
>PF10359 Fmp27_WPPW: RNA pol II promoter Fmp27 protein domain; InterPro: IPR019449 The function of the FMP27 protein is not known. FMP27 is the product of a nuclear encoded gene but it is detected in highly purified mitochondria in high-throughput studies []. This entry represents a domain within FMP27 that contains characteristic HQR and WPPW sequence motifs.
Probab=36.83 E-value=1e+02 Score=33.41 Aligned_cols=25 Identities=24% Similarity=0.319 Sum_probs=18.9
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHH
Q 038848 86 QETYLKERVVKSQDQLKKNSRKNKV 110 (446)
Q Consensus 86 qEeyLkqrIeKLqeQLkKLkKKNrE 110 (446)
|...+++|+..|++|+++++++..+
T Consensus 164 Q~~L~~~Rl~~L~~qi~~~~~~l~~ 188 (475)
T PF10359_consen 164 QIELIQERLDELEEQIEKHEEKLGE 188 (475)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 5577888888888888887766554
No 60
>KOG1760 consensus Molecular chaperone Prefoldin, subunit 4 [Posttranslational modification, protein turnover, chaperones]
Probab=36.77 E-value=1.9e+02 Score=26.58 Aligned_cols=64 Identities=14% Similarity=0.246 Sum_probs=32.2
Q ss_pred hHHHHHHHhcCCchhhhhhhccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHhhccCCCCCCCCHHHHH
Q 038848 63 VVEQLLARFNNMPEMEKSKKMMNQETYLKERVVKSQDQLKKNSRKNKVMEVSN---LMEQFHLGKKTDDFNINELQ 135 (446)
Q Consensus 63 sVe~VIdRYk~lpe~er~KKm~dqEeyLkqrIeKLqeQLkKLkKKNrEkEl~e---lm~q~~~Ge~LddLSleELq 135 (446)
+-++-|.+|-.+.. ..+-|++.+...+.+++.+..-..|.++.+ .+.+|..|+-.-.++.+.++
T Consensus 17 EDQq~iN~Fsrl~~---------R~~~lk~dik~~k~~~enledA~~EieL~Dedd~~Ip~~vGdvF~~~~~~~~~ 83 (131)
T KOG1760|consen 17 EDQQNINEFSRLNS---------RKDDLKADIKEAKTEIENLEDASNEIELLDEDDEDIPFKVGDVFIHVKLDKLQ 83 (131)
T ss_pred HHHHHHHHHHHHHh---------hHHHHHHHHHHHHHHHHHHHHHHhhHhhcCccccccceehhhhheeccHHHHH
Confidence 34566667755322 123355666666666666655444444322 23344555555555555443
No 61
>cd04120 Rab12 Rab12 subfamily. Rab12 was first identified in canine cells, where it was localized to the Golgi complex. The specific function of Rab12 remains unknown, and inconsistent results about its cellular localization have been reported. More recent studies have identified Rab12 associated with post-Golgi vesicles, or with other small vesicle-like structures but not with the Golgi complex. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic
Probab=36.05 E-value=20 Score=34.01 Aligned_cols=16 Identities=13% Similarity=0.368 Sum_probs=12.7
Q ss_pred ccCCcEEEEEeCCCCC
Q 038848 38 LCDVNAFIIIYSPDES 53 (446)
Q Consensus 38 LCGaeVAVIVFSP~GK 53 (446)
+-+++++++||+-+..
T Consensus 70 ~~~ad~iIlVfDvtd~ 85 (202)
T cd04120 70 YRSAKGIILVYDITKK 85 (202)
T ss_pred hcCCCEEEEEEECcCH
Confidence 3488999999998765
No 62
>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=35.70 E-value=2.9e+02 Score=23.86 Aligned_cols=12 Identities=33% Similarity=0.601 Sum_probs=8.6
Q ss_pred chHHHHHHHhcC
Q 038848 62 PVVEQLLARFNN 73 (446)
Q Consensus 62 psVe~VIdRYk~ 73 (446)
|.++.++.+|..
T Consensus 3 ~~~q~~~~~~q~ 14 (110)
T TIGR02338 3 PQVQNQLAQLQQ 14 (110)
T ss_pred HHHHHHHHHHHH
Confidence 567777777766
No 63
>PF08432 Vfa1: AAA-ATPase Vps4-associated protein 1; InterPro: IPR013640 This is a family of fungal proteins of unknown function.
Probab=35.29 E-value=57 Score=30.95 Aligned_cols=13 Identities=38% Similarity=0.682 Sum_probs=10.3
Q ss_pred cCCcEEEEEeCCC
Q 038848 39 CDVNAFIIIYSPD 51 (446)
Q Consensus 39 CGaeVAVIVFSP~ 51 (446)
.++..|+|||-|+
T Consensus 11 ~~~k~C~IC~Kps 23 (182)
T PF08432_consen 11 TDAKACFICYKPS 23 (182)
T ss_pred CCCCceeEecCCC
Confidence 6788888888874
No 64
>PF09403 FadA: Adhesion protein FadA; InterPro: IPR018543 FadA (Fusobacterium adhesin A) is an adhesin which forms two alpha helices. ; PDB: 3ETZ_B 3ETY_A 2GL2_B 3ETX_C 3ETW_A.
Probab=34.79 E-value=1.9e+02 Score=26.31 Aligned_cols=23 Identities=17% Similarity=0.208 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 038848 132 NELQGLVWLMEERKKDLRKRMDY 154 (446)
Q Consensus 132 eELqqLe~~LEekLK~VRkRke~ 154 (446)
++..+|....++.++.+.+.+..
T Consensus 89 ~eYk~llk~y~~~~~~L~k~I~~ 111 (126)
T PF09403_consen 89 DEYKELLKKYKDLLNKLDKEIAE 111 (126)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 66666666666666666655543
No 65
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=34.77 E-value=1.4e+02 Score=32.82 Aligned_cols=27 Identities=22% Similarity=0.268 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHHHHHHH-HHHHHHHH
Q 038848 91 KERVVKSQDQLKKNSRKNK-VMEVSNLM 117 (446)
Q Consensus 91 kqrIeKLqeQLkKLkKKNr-EkEl~elm 117 (446)
.+++++++.+++|+.++.. ++|+...+
T Consensus 381 e~k~~q~q~k~~k~~kel~~~~E~n~~l 408 (493)
T KOG0804|consen 381 ERKLQQLQTKLKKCQKELKEEREENKKL 408 (493)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445556666666655433 24444433
No 66
>PLN02372 violaxanthin de-epoxidase
Probab=34.68 E-value=1.1e+02 Score=33.18 Aligned_cols=17 Identities=18% Similarity=0.317 Sum_probs=12.1
Q ss_pred CCcEEEEEeCCCCCCCc
Q 038848 40 DVNAFIIIYSPDESEPA 56 (446)
Q Consensus 40 GaeVAVIVFSP~GK~pe 56 (446)
|.-..+|||.++++.|+
T Consensus 313 dgYgGAVvyTrs~~lP~ 329 (455)
T PLN02372 313 DGYGGAVVYTRSSTLPE 329 (455)
T ss_pred ccccceEEEecCCCCCh
Confidence 34456788999888654
No 67
>cd00187 TOP4c DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA topology by catalysing the concerted breakage and rejoining of DNA strands during normal cellular growth.
Probab=34.59 E-value=1.4e+02 Score=32.39 Aligned_cols=60 Identities=20% Similarity=0.388 Sum_probs=34.2
Q ss_pred eeEecCCccchh-hHhh---hc-------chhhhhhhhhhhhccCCcEEEEEeCCCCCCCccCCCCchHHHHHHHhcCC
Q 038848 7 KLNWIANDSARK-ASLK---KR-------KVGLLKKVSELTTLCDVNAFIIIYSPDESEPAMWPSRPVVEQLLARFNNM 74 (446)
Q Consensus 7 kIK~IeNesaRq-VTFs---KR-------R~GLfKKAsELStLCGaeVAVIVFSP~GK~pefWPS~psVe~VIdRYk~l 74 (446)
.|+-|.+++.|. +.|- || .++|+|+ ..|.+--.+ -++++.++|+.-.| ++.+||+.|...
T Consensus 257 ~I~~~~D~s~~~~vrivI~lk~~~~~~~~~~~L~k~-t~L~~s~~~--Nm~~~~~~g~p~~~-----~l~~iL~~f~~~ 327 (445)
T cd00187 257 GISDVRDESDREGIRFVIELKRGAMAEVVLNGLYKV-TKLQTTFGI--NMVAFDPNGRPKKL-----NLKEILQEFLDH 327 (445)
T ss_pred ccceeeeccCCCceEEEEEECCCccHHHHHHHHHHh-cCCceeeee--eEEEEecCCeeEEe-----CHHHHHHHHHHH
Confidence 355566666662 3331 22 2355543 333333333 67777888874333 799999999763
No 68
>PF11944 DUF3461: Protein of unknown function (DUF3461); InterPro: IPR020911 This entry describes proteins of unknown function.
Probab=34.24 E-value=1.3e+02 Score=27.53 Aligned_cols=25 Identities=8% Similarity=0.359 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 038848 131 INELQGLVWLMEERKKDLRKRMDYY 155 (446)
Q Consensus 131 leELqqLe~~LEekLK~VRkRke~L 155 (446)
++||.-|+..+..++.+|+++++.|
T Consensus 101 L~dL~HLE~Vv~~KIaEIe~dlekL 125 (125)
T PF11944_consen 101 LDDLRHLEKVVNSKIAEIERDLEKL 125 (125)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 5799999999999999999998864
No 69
>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=33.99 E-value=3e+02 Score=25.31 Aligned_cols=30 Identities=17% Similarity=0.166 Sum_probs=25.8
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038848 126 TDDFNINELQGLVWLMEERKKDLRKRMDYY 155 (446)
Q Consensus 126 LddLSleELqqLe~~LEekLK~VRkRke~L 155 (446)
-..++.+|...+........+..++|+...
T Consensus 139 ~~~vs~ee~~~~~~~~~~~~k~w~kRKri~ 168 (169)
T PF07106_consen 139 SKPVSPEEKEKLEKEYKKWRKEWKKRKRIC 168 (169)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 344899999999999999999999998753
No 70
>PRK10132 hypothetical protein; Provisional
Probab=33.53 E-value=1.7e+02 Score=25.91 Aligned_cols=56 Identities=14% Similarity=0.091 Sum_probs=36.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038848 90 LKERVVKSQDQLKKNSRKNKVMEVSNLMEQFHLGKKTDDFNINELQGLVWLMEERKKDLRKRMDYYE 156 (446)
Q Consensus 90 LkqrIeKLqeQLkKLkKKNrEkEl~elm~q~~~Ge~LddLSleELqqLe~~LEekLK~VRkRke~Le 156 (446)
++.++++|..+++.|-...++ ++ ....+.+-+++.++...++..|+..+++...++
T Consensus 10 ~~~q~e~L~~Dl~~L~~~le~-----ll------~~~~~~~~~~~~~lR~r~~~~L~~ar~~l~~~~ 65 (108)
T PRK10132 10 VDDGVQDIQNDVNQLADSLES-----VL------KSWGSDAKGEAEAARRKAQALLKETRARMHGRT 65 (108)
T ss_pred hhhHHHHHHHHHHHHHHHHHH-----HH------HHHhhhhHHHHHHHHHHHHHHHHHHHHHHhhhH
Confidence 445566666666666554332 22 123455677888899999999999988877543
No 71
>KOG4797 consensus Transcriptional regulator [Transcription]
Probab=33.09 E-value=2.4e+02 Score=25.48 Aligned_cols=43 Identities=19% Similarity=0.192 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCCHHHHHHHHHH
Q 038848 91 KERVVKSQDQLKKNSRKNKVMEVSNLMEQFHLGKKTDDFNINELQGLVWL 140 (446)
Q Consensus 91 kqrIeKLqeQLkKLkKKNrEkEl~elm~q~~~Ge~LddLSleELqqLe~~ 140 (446)
+++++-|++|++.|.+++...|-+..+.+ ...+.|+|.+|...
T Consensus 66 REEVe~Lk~qI~eL~er~~~Le~EN~lLk-------~~~spe~L~ql~~~ 108 (123)
T KOG4797|consen 66 REEVEVLKEQIRELEERNSALERENSLLK-------TLASPEQLAQLPAQ 108 (123)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------hhCCHHHHHHHHHh
Confidence 55566666666666665554433322211 12355666655433
No 72
>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=33.03 E-value=54 Score=33.88 Aligned_cols=45 Identities=18% Similarity=0.468 Sum_probs=31.2
Q ss_pred eeEecCCccchhhHhhhcchhhhhhhhhhhhccCCcEEEEEeCCCCCCCccCCCCchHHHHHHHhcC
Q 038848 7 KLNWIANDSARKASLKKRKVGLLKKVSELTTLCDVNAFIIIYSPDESEPAMWPSRPVVEQLLARFNN 73 (446)
Q Consensus 7 kIK~IeNesaRqVTFsKRR~GLfKKAsELStLCGaeVAVIVFSP~GK~pefWPS~psVe~VIdRYk~ 73 (446)
.+.+|.|.+.|..+ +-| .||..|.+ |.| .| =.+|++++|+++|..
T Consensus 25 n~~li~n~tqr~t~-~sR------------~L~Ecel~---~~p-----~Y-~nDpEmK~iid~~n~ 69 (295)
T TIGR01478 25 NVSYIQNNTQMTST-KSR------------LLAEIQRP---KNP-----HY-HNDPELKEIIDKLNE 69 (295)
T ss_pred ceecccCccccccc-cce------------ehhhhccc---cCC-----CC-CCcHHHHHHHHHHhH
Confidence 45678888777665 323 47888876 444 12 268999999999965
No 73
>PRK06851 hypothetical protein; Provisional
Probab=32.92 E-value=1.5e+02 Score=31.38 Aligned_cols=28 Identities=25% Similarity=0.195 Sum_probs=21.6
Q ss_pred chhhhhhhhhhhhccCCcEEEEEeCCCC
Q 038848 25 KVGLLKKVSELTTLCDVNAFIIIYSPDE 52 (446)
Q Consensus 25 R~GLfKKAsELStLCGaeVAVIVFSP~G 52 (446)
|..|+|++.+...-+|-+|..++.+.+.
T Consensus 43 KStl~~~i~~~~~~~g~~Ve~~~~~~d~ 70 (367)
T PRK06851 43 KSTLMKKIGEEFLEKGYDVEFLHCSSDN 70 (367)
T ss_pred HHHHHHHHHHHHHHcCCeEEEEEcCCCC
Confidence 5678888887777788888888777754
No 74
>PF15290 Syntaphilin: Golgi-localised syntaxin-1-binding clamp
Probab=32.83 E-value=1.2e+02 Score=31.47 Aligned_cols=13 Identities=23% Similarity=0.394 Sum_probs=6.2
Q ss_pred HHHHHHHHHHHHH
Q 038848 133 ELQGLVWLMEERK 145 (446)
Q Consensus 133 ELqqLe~~LEekL 145 (446)
|+++|.+.+|...
T Consensus 125 EIkQLkQvieTmr 137 (305)
T PF15290_consen 125 EIKQLKQVIETMR 137 (305)
T ss_pred HHHHHHHHHHHHH
Confidence 4445555554433
No 75
>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=32.68 E-value=2.5e+02 Score=30.56 Aligned_cols=25 Identities=8% Similarity=-0.058 Sum_probs=13.8
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHH
Q 038848 128 DFNINELQGLVWLMEERKKDLRKRM 152 (446)
Q Consensus 128 dLSleELqqLe~~LEekLK~VRkRk 152 (446)
..+++++.++...+.+.+.+++.++
T Consensus 123 ~~~~~~~~~~~~~~~~~~~~~~~~~ 147 (525)
T TIGR02231 123 EPDLKEWFQAFDFNGSEIERLLTED 147 (525)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 4567777776655544444443333
No 76
>PLN03128 DNA topoisomerase 2; Provisional
Probab=32.22 E-value=1.8e+02 Score=35.48 Aligned_cols=27 Identities=15% Similarity=0.263 Sum_probs=21.7
Q ss_pred EEEEeCCCCCCCccCCCCchHHHHHHHhcCC
Q 038848 44 FIIIYSPDESEPAMWPSRPVVEQLLARFNNM 74 (446)
Q Consensus 44 AVIVFSP~GK~pefWPS~psVe~VIdRYk~l 74 (446)
-+++|++.++...| .++++||+.|..+
T Consensus 961 nm~l~d~~~~i~ky----~~~~~il~~f~~~ 987 (1135)
T PLN03128 961 NMHLFDKDGKIKKY----DSPEDILEEFFHL 987 (1135)
T ss_pred EEEEECCCCcccCC----CCHHHHHHHHHHH
Confidence 57889999988776 5799999999663
No 77
>smart00503 SynN Syntaxin N-terminal domain. Three-helix domain that (in Sso1p) slows the rate of its reaction with the SNAP-25 homologue Sec9p
Probab=32.06 E-value=3e+02 Score=22.98 Aligned_cols=65 Identities=20% Similarity=0.252 Sum_probs=34.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 038848 93 RVVKSQDQLKKNSRKNKVMEVSNLMEQFHLGKKTDDFNINELQGLVWLMEERKKDLRKRMDYYEQIN 159 (446)
Q Consensus 93 rIeKLqeQLkKLkKKNrEkEl~elm~q~~~Ge~LddLSleELqqLe~~LEekLK~VRkRke~Leqi~ 159 (446)
.++.++..|.++..... ++..+..+.....+-+.---++|..+...+....+.|+.++..|....
T Consensus 9 ~v~~I~~~I~~i~~~v~--~l~~l~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~i~~~lk~l~~~~ 73 (117)
T smart00503 9 KVEEIRANIQKISQNVA--ELQKLHEELLTPPDADKELREKLERLIDDIKRLAKEIRAKLKELEKEN 73 (117)
T ss_pred HHHHHHHHHHHHHHHHH--HHHHHHHHHhccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence 45555566655554432 233333333211110011125677777888888888888888775543
No 78
>PF05308 Mito_fiss_reg: Mitochondrial fission regulator; InterPro: IPR007972 This family consists of several uncharacterised eukaryotic proteins of unknown function.
Probab=31.97 E-value=1.1e+02 Score=30.85 Aligned_cols=25 Identities=24% Similarity=0.283 Sum_probs=17.2
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038848 130 NINELQGLVWLMEERKKDLRKRMDYY 155 (446)
Q Consensus 130 SleELqqLe~~LEekLK~VRkRke~L 155 (446)
+.+.|+.+ ..||+-|..+|++|.++
T Consensus 117 ~~~AlqKI-sALEdELs~LRaQIA~I 141 (253)
T PF05308_consen 117 NEAALQKI-SALEDELSRLRAQIAKI 141 (253)
T ss_pred CHHHHHHH-HHHHHHHHHHHHHHHHH
Confidence 34455555 67788888888888765
No 79
>KOG1318 consensus Helix loop helix transcription factor EB [Transcription]
Probab=31.10 E-value=3.2e+02 Score=29.67 Aligned_cols=28 Identities=18% Similarity=0.420 Sum_probs=19.8
Q ss_pred CCccchhhHh----hhcchhhhhhhhhhhhcc
Q 038848 12 ANDSARKASL----KKRKVGLLKKVSELTTLC 39 (446)
Q Consensus 12 eNesaRqVTF----sKRR~GLfKKAsELStLC 39 (446)
+.++.|+.+- ++||.-+=-+..||+.|-
T Consensus 228 ~rdr~Krd~HNeVERRRR~nIN~~IkeLg~li 259 (411)
T KOG1318|consen 228 ERDRRKRDNHNEVERRRRENINDRIKELGQLI 259 (411)
T ss_pred HHHHHHHhhhhHHHHHHHHHHHHHHHHHHHhC
Confidence 3344444443 578888989999999985
No 80
>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=31.04 E-value=2.4e+02 Score=28.83 Aligned_cols=29 Identities=17% Similarity=0.240 Sum_probs=22.9
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 038848 130 NINELQGLVWLMEERKKDLRKRMDYYEQI 158 (446)
Q Consensus 130 SleELqqLe~~LEekLK~VRkRke~Leqi 158 (446)
+-.++..|+..|+..-..|++|.+.|...
T Consensus 78 ~~~eik~l~~eI~~~~~~I~~r~~~l~~r 106 (265)
T COG3883 78 SKAEIKKLQKEIAELKENIVERQELLKKR 106 (265)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34677888888888888899988888544
No 81
>PRK04325 hypothetical protein; Provisional
Probab=31.01 E-value=3e+02 Score=22.59 Aligned_cols=17 Identities=18% Similarity=0.298 Sum_probs=8.5
Q ss_pred HHHHHHHHHHHHHHHHH
Q 038848 90 LKERVVKSQDQLKKNSR 106 (446)
Q Consensus 90 LkqrIeKLqeQLkKLkK 106 (446)
+.+++..|+.++.-+.+
T Consensus 7 ~e~Ri~~LE~klAfQE~ 23 (74)
T PRK04325 7 MEDRITELEIQLAFQED 23 (74)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 34455555555544443
No 82
>PF05852 DUF848: Gammaherpesvirus protein of unknown function (DUF848); InterPro: IPR008566 This family consists of several uncharacterised proteins from the Gammaherpesvirinae.
Probab=30.71 E-value=4e+02 Score=25.02 Aligned_cols=33 Identities=21% Similarity=0.280 Sum_probs=27.9
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 038848 126 TDDFNINELQGLVWLMEERKKDLRKRMDYYEQI 158 (446)
Q Consensus 126 LddLSleELqqLe~~LEekLK~VRkRke~Leqi 158 (446)
++.-.++++..|.+.+++...+|...++.|...
T Consensus 83 ~d~~kv~~~E~L~d~v~eLkeel~~el~~l~~~ 115 (146)
T PF05852_consen 83 FDRKKVEDLEKLTDRVEELKEELEFELERLQSA 115 (146)
T ss_pred cCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 566678899999999999999999999988655
No 83
>PF05164 ZapA: Cell division protein ZapA; InterPro: IPR007838 This entry a structural domain found in the cell division protein ZapA, as well as in related proteins. This domain has a core structure consisting of two layers alpha/beta, and has a long C-terminal helix that forms dimeric parallel and tetrameric antiparallel coiled coils []. ZapA interacts with FtsZ, where FtsZ is part of a mid-cell cytokinetic structure termed the Z-ring that recruits a hierarchy of fission related proteins early in the bacterial cell cycle. ZapA drives the polymerisation and filament bundling of FtsZ, thereby contributing to the spatio-temporal tuning of the Z-ring.; PDB: 1T3U_B 1W2E_B 3HNW_A.
Probab=30.64 E-value=56 Score=26.44 Aligned_cols=62 Identities=19% Similarity=0.305 Sum_probs=34.4
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHhhccCCCCCCCC-HHHHHHHHHHHHHHHH--HHHHHHHHHH
Q 038848 86 QETYLKERVVKSQDQLKKNSRKNKV--MEVSNLMEQFHLGKKTDDFN-INELQGLVWLMEERKK--DLRKRMDYYE 156 (446)
Q Consensus 86 qEeyLkqrIeKLqeQLkKLkKKNrE--kEl~elm~q~~~Ge~LddLS-leELqqLe~~LEekLK--~VRkRke~Le 156 (446)
.++++++-...+++++++++++... .+...+| -.|+ .+|+..+....+.... .++++++.|.
T Consensus 19 ~ee~l~~~a~~i~~~i~~~~~~~~~~~~~~~~vl---------aaLnla~e~~~~~~~~~~~~~~~~l~~~i~~L~ 85 (89)
T PF05164_consen 19 DEEYLRKAAELINEKINEIKKKYPKLSPERLAVL---------AALNLADELLKLKRELDELEELERLEERIEELN 85 (89)
T ss_dssp GHHHHHHHHHHHHHHHHHHCTTCCTSSHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHH---------HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence 4566666666677776666654322 1111111 1122 3566667777766666 7777777764
No 84
>TIGR03545 conserved hypothetical protein TIGR03545. This model represents a relatively rare but broadly distributed uncharacterized protein family, distributed in 1-2 percent of bacterial genomes, all of which have outer membranes. In many of these genomes, it is part of a two-gene pair.
Probab=29.54 E-value=1.8e+02 Score=32.61 Aligned_cols=30 Identities=10% Similarity=-0.003 Sum_probs=16.1
Q ss_pred hhhhhhhhhhhh--ccCCcEEEEEeCCCCCCCc
Q 038848 26 VGLLKKVSELTT--LCDVNAFIIIYSPDESEPA 56 (446)
Q Consensus 26 ~GLfKKAsELSt--LCGaeVAVIVFSP~GK~pe 56 (446)
.-|++++=++.- |-|+.+.+.-.. .|+.|+
T Consensus 89 ~pLL~~~vvI~~l~l~g~~v~l~R~~-~G~~~~ 120 (555)
T TIGR03545 89 DALLRGKVVIEELAIEGLAFGTERST-SGAVPE 120 (555)
T ss_pred HHHhcCCcEEeEEEEecCEEEEEEcc-CCCCCC
Confidence 446666655543 346666655544 444454
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=29.52 E-value=1.2e+02 Score=23.16 Aligned_cols=24 Identities=13% Similarity=0.224 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Q 038848 134 LQGLVWLMEERKKDLRKRMDYYEQ 157 (446)
Q Consensus 134 LqqLe~~LEekLK~VRkRke~Leq 157 (446)
..+....++.++++|.+|++.|++
T Consensus 34 ~~~~~~~l~~~~~~i~~~i~~L~~ 57 (65)
T PF09278_consen 34 CADRRALLEEKLEEIEEQIAELQA 57 (65)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344447788899999999988754
No 86
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=29.47 E-value=3.4e+02 Score=27.87 Aligned_cols=31 Identities=16% Similarity=0.296 Sum_probs=22.2
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038848 125 KTDDFNINELQGLVWLMEERKKDLRKRMDYY 155 (446)
Q Consensus 125 ~LddLSleELqqLe~~LEekLK~VRkRke~L 155 (446)
.++.++.++|..+...|.+.-..|..++..+
T Consensus 202 e~~~~D~~eL~~lr~eL~~~~~~i~~~k~~l 232 (325)
T PF08317_consen 202 EIESCDQEELEALRQELAEQKEEIEAKKKEL 232 (325)
T ss_pred hhhhcCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4788888999888888877666666555433
No 87
>PLN03229 acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha; Provisional
Probab=29.22 E-value=2.3e+02 Score=33.01 Aligned_cols=96 Identities=14% Similarity=0.282 Sum_probs=0.0
Q ss_pred cEEEEEeCCCCCCCcc-CCCCch------HHHHHHHhcCCchhhhhhhccchhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038848 42 NAFIIIYSPDESEPAM-WPSRPV------VEQLLARFNNMPEMEKSKKMMNQETYLKERVVKSQDQLKKNSRKNKVMEVS 114 (446)
Q Consensus 42 eVAVIVFSP~GK~pef-WPS~ps------Ve~VIdRYk~lpe~er~KKm~dqEeyLkqrIeKLqeQLkKLkKKNrEkEl~ 114 (446)
++.|+.---.+|-++| ||..|. +-..+.+|+-+.+..+..-+- +.+-|..|++++..+++-..
T Consensus 49 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ld-----fEkpi~ele~ki~el~~~~~----- 118 (762)
T PLN03229 49 DLAVVAKIRKGKKHEYPWPADPDPNVKGGVLSYLSHFKPLKEKPKPVTLD-----FEKPLVDLEKKIVDVRKMAN----- 118 (762)
T ss_pred ceEEEeeeccccccCCCCCCCCCCCcccchhhHhhccCCCCCCCCCCCcc-----hhhHHHHHHHHHHHHHhhhh-----
Q ss_pred HHHHhhccCCCCCCCCH-HHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 038848 115 NLMEQFHLGKKTDDFNI-NELQGLVWLMEERKKDLRKRMDYYEQI 158 (446)
Q Consensus 115 elm~q~~~Ge~LddLSl-eELqqLe~~LEekLK~VRkRke~Leqi 158 (446)
-.++++ +|+..|+..+++.+++|..++..++..
T Consensus 119 -----------~~~~~~~~ei~~Le~k~~~~~~~iy~~LT~werV 152 (762)
T PLN03229 119 -----------ETGLDFSDQIISLESKYQQALKDLYTHLTPIQRV 152 (762)
T ss_pred -----------cccccHHHHHHHHHHHHHHHHHHHHccCCHHHHH
No 88
>PF14193 DUF4315: Domain of unknown function (DUF4315)
Probab=29.10 E-value=2.7e+02 Score=23.62 Aligned_cols=48 Identities=17% Similarity=0.275 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCCHHHHHHHHHHHHH
Q 038848 92 ERVVKSQDQLKKNSRKNKVMEVSNLMEQFHLGKKTDDFNINELQGLVWLMEE 143 (446)
Q Consensus 92 qrIeKLqeQLkKLkKKNrEkEl~elm~q~~~Ge~LddLSleELqqLe~~LEe 143 (446)
.++..++++|+.|..+..|.|-.+.+.-. .--.|+.+||..|......
T Consensus 15 ~Kiae~Q~rlK~Le~qk~E~EN~EIv~~V----R~~~mtp~eL~~~L~~~~~ 62 (83)
T PF14193_consen 15 EKIAELQARLKELEAQKTEAENLEIVQMV----RSMKMTPEELAAFLRAMKS 62 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHcCCCHHHHHHHHHHHHh
Confidence 44555555565555555554444433111 0127888998888665544
No 89
>PF09781 NDUF_B5: NADH:ubiquinone oxidoreductase, NDUFB5/SGDH subunit; InterPro: IPR019173 Members of this family mediate the transfer of electrons from NADH to the respiratory chain. The immediate electron acceptor for the enzyme is believed to be ubiquinone, the reaction that occurs being: NADH + ubiquinone = NAD(+) + ubiquinol [, ].
Probab=28.88 E-value=2.7e+02 Score=27.18 Aligned_cols=74 Identities=22% Similarity=0.268 Sum_probs=38.0
Q ss_pred hccCCcEEEEE------eCC-------CCCCCccCCC-CchHHHHHHHhcCCchhhhhhhccchhhHHHHHHHHHHHHHH
Q 038848 37 TLCDVNAFIII------YSP-------DESEPAMWPS-RPVVEQLLARFNNMPEMEKSKKMMNQETYLKERVVKSQDQLK 102 (446)
Q Consensus 37 tLCGaeVAVIV------FSP-------~GK~pefWPS-~psVe~VIdRYk~lpe~er~KKm~dqEeyLkqrIeKLqeQLk 102 (446)
.|.+++|++|| .+| .|=.|+.|-= .--+.+-|.||.--++.+.. +..+..+++|-+
T Consensus 74 lLg~IPv~~~it~vNvFiGpAeLaeIPEgY~P~hWEY~kHPItR~iAry~~~spq~~Y----------Ek~la~l~~e~e 143 (187)
T PF09781_consen 74 LLGGIPVAIIITYVNVFIGPAELAEIPEGYEPEHWEYYKHPITRWIARYFYPSPQKNY----------EKMLAYLQIENE 143 (187)
T ss_pred HHHHHHHHHHHHHhheeeeeeeeccCCCCCCCcceeeccCcHHHHHHHHccCCHHHHH----------HHHHHHHHHHHH
Confidence 35666776643 333 5556777741 12356666677654443322 223334444444
Q ss_pred HHHHHHHHHHHHHHHHhh
Q 038848 103 KNSRKNKVMEVSNLMEQF 120 (446)
Q Consensus 103 KLkKKNrEkEl~elm~q~ 120 (446)
|-+-...|+|++.+|.+.
T Consensus 144 k~~lr~~e~~Vr~lm~eR 161 (187)
T PF09781_consen 144 KAELRLLEKEVRRLMRER 161 (187)
T ss_pred HHHHHHHHHHHHHHHhcc
Confidence 443344566777777544
No 90
>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=28.67 E-value=2.6e+02 Score=24.42 Aligned_cols=22 Identities=32% Similarity=0.425 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 038848 89 YLKERVVKSQDQLKKNSRKNKV 110 (446)
Q Consensus 89 yLkqrIeKLqeQLkKLkKKNrE 110 (446)
-|.++|++|++|++.+.++.-|
T Consensus 6 ~I~~eIekLqe~lk~~e~keaE 27 (92)
T PF07820_consen 6 KIREEIEKLQEQLKQAETKEAE 27 (92)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3677888898888887765444
No 91
>KOG0639 consensus Transducin-like enhancer of split protein (contains WD40 repeats) [Chromatin structure and dynamics]
Probab=28.34 E-value=2.7e+02 Score=31.35 Aligned_cols=20 Identities=10% Similarity=0.139 Sum_probs=13.6
Q ss_pred hHHHHHHHHHHHHHHHHHHH
Q 038848 88 TYLKERVVKSQDQLKKNSRK 107 (446)
Q Consensus 88 eyLkqrIeKLqeQLkKLkKK 107 (446)
.||+.++..++-+.+||-.+
T Consensus 33 qflqaqyhslkleceKlA~E 52 (705)
T KOG0639|consen 33 QFLQAQYHSLKLECEKLASE 52 (705)
T ss_pred HHHHHHHHHHHHHHHHHhhh
Confidence 56677777777777777544
No 92
>KOG2991 consensus Splicing regulator [RNA processing and modification]
Probab=28.20 E-value=1.6e+02 Score=30.30 Aligned_cols=58 Identities=16% Similarity=0.387 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHHHHHHHH-----HHHHHHHHhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 038848 93 RVVKSQDQLKKNSRKNKV-----MEVSNLMEQFHLGKKTDDFNINELQGLVWLMEERKKDLRKRMDYYEQ 157 (446)
Q Consensus 93 rIeKLqeQLkKLkKKNrE-----kEl~elm~q~~~Ge~LddLSleELqqLe~~LEekLK~VRkRke~Leq 157 (446)
+|.+|.-+|...+..+.| .|+.++|.++ .++ ++-++.-.-.|.+.|+..|+++..|++
T Consensus 237 ria~Le~eLAmQKs~seElkssq~eL~dfm~eL--ded-----VEgmqsTiliLQq~Lketr~~Iq~l~k 299 (330)
T KOG2991|consen 237 RIAELEIELAMQKSQSEELKSSQEELYDFMEEL--DED-----VEGMQSTILILQQKLKETRKEIQRLKK 299 (330)
T ss_pred cHHHHHHHHHHHHhhHHHHHHhHHHHHHHHHHH--HHH-----HhcchhhHHHHHHHHHHHHHHHHHHHH
Confidence 455555555544443333 2344444332 122 344455566788889999988888743
No 93
>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=27.99 E-value=90 Score=23.48 Aligned_cols=14 Identities=43% Similarity=0.916 Sum_probs=8.5
Q ss_pred HHHHHHHHHHHHHH
Q 038848 131 INELQGLVWLMEER 144 (446)
Q Consensus 131 leELqqLe~~LEek 144 (446)
++||.+|.+.||.-
T Consensus 6 ieelkqll~rle~e 19 (46)
T PF08181_consen 6 IEELKQLLWRLENE 19 (46)
T ss_pred HHHHHHHHHHHHHH
Confidence 45666666666653
No 94
>PF06632 XRCC4: DNA double-strand break repair and V(D)J recombination protein XRCC4; InterPro: IPR010585 This entry represents the DNA double-strand break repair and V(D)J recombination protein XRCC4, which is found in certain Metazoans, fungi and plants. XRCC4 binds to DNA, and to DNA ligase IV (LIG4) to form the LIG4-XRCC4 complex []. The LIG4-XRCC4 complex is responsible for the ligation step in the non-homologous end joining (NHEJ) pathway of DNA double-strand break repair. XRCC4 enhances the joining activity of LIG4. It is thought that XRCC4 and LIG4 are essential for alignment-based gap filling, as well as for final ligation of the breaks []. Binding of the LIG4-XRCC4 complex to DNA ends is dependent on the assembly of the DNA-dependent protein kinase complex DNA-PK to these DNA ends. ; GO: 0003677 DNA binding, 0006302 double-strand break repair, 0006310 DNA recombination, 0005634 nucleus; PDB: 3RWR_R 1IK9_B 3SR2_E 3Q4F_H 3II6_B 1FU1_A 3MUD_B.
Probab=27.60 E-value=2.7e+02 Score=29.32 Aligned_cols=24 Identities=25% Similarity=0.158 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 038848 89 YLKERVVKSQDQLKKNSRKNKVME 112 (446)
Q Consensus 89 yLkqrIeKLqeQLkKLkKKNrEkE 112 (446)
-|+++..++.+|++++.....+.|
T Consensus 155 rL~~e~~~~~~qlE~~v~~K~~~E 178 (342)
T PF06632_consen 155 RLESEANKLLKQLEKFVNAKEEHE 178 (342)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356666677777777655444433
No 95
>PF11285 DUF3086: Protein of unknown function (DUF3086); InterPro: IPR021437 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=27.46 E-value=5.4e+02 Score=26.55 Aligned_cols=64 Identities=16% Similarity=0.174 Sum_probs=39.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCCH---HHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 038848 90 LKERVVKSQDQLKKNSRKNKVMEVSNLMEQFHLGKKTDDFNI---NELQGLVWLMEERKKDLRKRMDYYEQINP 160 (446)
Q Consensus 90 LkqrIeKLqeQLkKLkKKNrEkEl~elm~q~~~Ge~LddLSl---eELqqLe~~LEekLK~VRkRke~Leqi~~ 160 (446)
|+++.+.|+.++++|++.... ++.-|.. ...+.|- --++.+++.|--+|+.+..-.|+|+-..+
T Consensus 9 L~qrk~~Lq~eIe~LerR~~r--i~~Emrt-----sFaG~Sq~lA~RVqGFkdYLvGsLQDLa~saEqLeLv~~ 75 (283)
T PF11285_consen 9 LEQRKQALQIEIEQLERRRER--IEKEMRT-----SFAGQSQDLAIRVQGFKDYLVGSLQDLAQSAEQLELVPQ 75 (283)
T ss_pred HHHHHHHHHHHHHHHHHHHHH--HHHHHHc-----ccccchHHHHHHHhhhHHHHHHHHHHHHHHHHhhccCCC
Confidence 556666677777776544332 1122211 2223332 35677889999999999999998865543
No 96
>PF13094 CENP-Q: CENP-Q, a CENPA-CAD centromere complex subunit
Probab=27.18 E-value=4.8e+02 Score=23.79 Aligned_cols=56 Identities=13% Similarity=0.042 Sum_probs=29.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038848 88 TYLKERVVKSQDQLKKNSRKNKVMEVSNLMEQFHLGKKTDDFNINELQGLVWLMEERKKDLRKRMDYY 155 (446)
Q Consensus 88 eyLkqrIeKLqeQLkKLkKKNrEkEl~elm~q~~~Ge~LddLSleELqqLe~~LEekLK~VRkRke~L 155 (446)
..|.+++....++++.|+++.+..|... .-..+.|++|+..+...-..+++..+.+
T Consensus 30 ~~LE~qL~~~~~~l~lLq~e~~~~e~~l------------e~d~~~L~~Le~~~~~~~~e~~~~~~~~ 85 (160)
T PF13094_consen 30 RALERQLAANLHQLELLQEEIEKEEAAL------------ERDYEYLQELEKNAKALEREREEEEKKA 85 (160)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH------------HHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 3444555555555556665544332211 1134566677766666666665555543
No 97
>COG5293 Predicted ATPase [General function prediction only]
Probab=26.40 E-value=2.4e+02 Score=31.28 Aligned_cols=69 Identities=13% Similarity=0.208 Sum_probs=37.7
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHhhccCC-CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 038848 87 ETYLKERVVKSQDQLKKNSRKNKV--MEVSNLMEQFHLGK-KTDDFNINELQGLVWLMEERKKDLRKRMDYYEQI 158 (446)
Q Consensus 87 EeyLkqrIeKLqeQLkKLkKKNrE--kEl~elm~q~~~Ge-~LddLSleELqqLe~~LEekLK~VRkRke~Leqi 158 (446)
.+||+.++.+++..|+++..+.++ ++..+.. .++... -+++ ..-|++....++..|.+|+.|++.|.+.
T Consensus 337 ~~yl~~ei~~i~~dLk~~n~~~~~l~~~rae~l-~~Lk~~g~~e~--y~~l~ee~~~~~~elae~~~rie~l~k~ 408 (591)
T COG5293 337 HDYLQEEIAEIEGDLKEVNAELDDLGKRRAEGL-AFLKNRGVFEK--YQTLCEEIIALRGELAELEYRIEPLRKL 408 (591)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHhCCcHHH--HHHHHHHHHHHhhhHHHHHHhhhHHHHH
Confidence 589999999999999988766543 1111111 111111 1111 1223333344456677777777766443
No 98
>PF08232 Striatin: Striatin family; InterPro: IPR013258 This domain is associated with the N terminus of striatin. Striatin is an intracellular protein which has a caveolin-binding motif, a coiled-coil structure, a calmodulin-binding site, and a WD (IPR001680 from INTERPRO) repeat domain []. It acts as a scaffold protein [] and is involved in signalling pathways [, ].
Probab=26.39 E-value=4.9e+02 Score=23.60 Aligned_cols=30 Identities=13% Similarity=0.093 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 038848 132 NELQGLVWLMEERKKDLRKRMDYYEQINPP 161 (446)
Q Consensus 132 eELqqLe~~LEekLK~VRkRke~Leqi~~L 161 (446)
++|..-..+||..|+.-|.+...+......
T Consensus 49 ~dL~rrIkMLE~aLkqER~k~~~~~~~~~~ 78 (134)
T PF08232_consen 49 KDLKRRIKMLEYALKQERAKYKKLKYGTDL 78 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhcccccccc
Confidence 456677788999999988888776554443
No 99
>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function. The region featured in this family is approximately 100 amino acids long.
Probab=26.15 E-value=1.6e+02 Score=26.87 Aligned_cols=17 Identities=24% Similarity=0.468 Sum_probs=7.7
Q ss_pred HHHHHHHHHHHHHHHHH
Q 038848 89 YLKERVVKSQDQLKKNS 105 (446)
Q Consensus 89 yLkqrIeKLqeQLkKLk 105 (446)
.|.+||+.+..++++..
T Consensus 65 hLsqRId~vd~klDe~~ 81 (126)
T PF07889_consen 65 HLSQRIDRVDDKLDEQK 81 (126)
T ss_pred HHHHHHHHHHhhHHHHH
Confidence 34445554444444433
No 100
>PRK00846 hypothetical protein; Provisional
Probab=25.96 E-value=2.7e+02 Score=23.41 Aligned_cols=26 Identities=8% Similarity=-0.083 Sum_probs=16.5
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038848 130 NINELQGLVWLMEERKKDLRKRMDYY 155 (446)
Q Consensus 130 SleELqqLe~~LEekLK~VRkRke~L 155 (446)
.+++|++........+..++.++..|
T Consensus 28 tIe~LN~~v~~qq~~I~~L~~ql~~L 53 (77)
T PRK00846 28 ALTELSEALADARLTGARNAELIRHL 53 (77)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46677776666666666666666544
No 101
>KOG3990 consensus Uncharacterized conserved protein [Function unknown]
Probab=25.74 E-value=1.7e+02 Score=30.06 Aligned_cols=14 Identities=7% Similarity=0.273 Sum_probs=7.3
Q ss_pred HHHHHHHHHHHHHH
Q 038848 94 VVKSQDQLKKNSRK 107 (446)
Q Consensus 94 IeKLqeQLkKLkKK 107 (446)
|++|++++..|++-
T Consensus 227 i~~lkeeia~Lkk~ 240 (305)
T KOG3990|consen 227 IQKLKEEIARLKKL 240 (305)
T ss_pred HHHHHHHHHHHHHH
Confidence 44555555555443
No 102
>PTZ00370 STEVOR; Provisional
Probab=25.59 E-value=84 Score=32.55 Aligned_cols=27 Identities=15% Similarity=0.404 Sum_probs=19.2
Q ss_pred hccCCcEEEEEeCCCCCCCccCCCCchHHHHHHHhcC
Q 038848 37 TLCDVNAFIIIYSPDESEPAMWPSRPVVEQLLARFNN 73 (446)
Q Consensus 37 tLCGaeVAVIVFSP~GK~pefWPS~psVe~VIdRYk~ 73 (446)
.||..|. |.| -|. .+|+|++|+++|..
T Consensus 42 ~L~Ecel----~~p---~Yd---NDpemK~i~d~~n~ 68 (296)
T PTZ00370 42 LLAQTQN----HNP---HYH---NDPELKEIIDKMNE 68 (296)
T ss_pred ehhhhhc----CCC---CCC---CcHHHHHHHHHHhH
Confidence 4677765 555 122 68999999999965
No 103
>TIGR01010 BexC_CtrB_KpsE polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family. This family contains gamma proteobacterial proteins involved in capsule polysaccharide export.
Probab=25.34 E-value=2.9e+02 Score=28.44 Aligned_cols=22 Identities=9% Similarity=0.274 Sum_probs=14.3
Q ss_pred hhhHHHHHHHHHHHHHHHHHHH
Q 038848 86 QETYLKERVVKSQDQLKKNSRK 107 (446)
Q Consensus 86 qEeyLkqrIeKLqeQLkKLkKK 107 (446)
...|+++++.++++++++.+.+
T Consensus 171 a~~fl~~ql~~~~~~l~~ae~~ 192 (362)
T TIGR01010 171 TIAFAENEVKEAEQRLNATKAE 192 (362)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3467777777777776666543
No 104
>PF15058 Speriolin_N: Speriolin N terminus
Probab=25.33 E-value=6.7e+02 Score=24.77 Aligned_cols=12 Identities=8% Similarity=0.149 Sum_probs=7.7
Q ss_pred hhHHHhhcCccc
Q 038848 204 QWFIDMMKNSEN 215 (446)
Q Consensus 204 qW~mdl~~~~~~ 215 (446)
+=+.|++.+...
T Consensus 103 ~~L~~lL~~~~p 114 (200)
T PF15058_consen 103 SPLEDLLSSPAP 114 (200)
T ss_pred ccHHHhccCCCC
Confidence 456777777653
No 105
>KOG4657 consensus Uncharacterized conserved protein [Function unknown]
Probab=25.28 E-value=2.6e+02 Score=28.19 Aligned_cols=40 Identities=15% Similarity=0.230 Sum_probs=19.2
Q ss_pred hHHHHHHHhcCCchhhhhhhccchhhHHHHHHHHHHHHHHHHHH
Q 038848 63 VVEQLLARFNNMPEMEKSKKMMNQETYLKERVVKSQDQLKKNSR 106 (446)
Q Consensus 63 sVe~VIdRYk~lpe~er~KKm~dqEeyLkqrIeKLqeQLkKLkK 106 (446)
....++|+|...+ +.+-+-...+|++ ++...+++++++.+
T Consensus 26 n~~s~~D~f~q~~---r~~~~nS~~efar-~lS~~~~e~e~l~~ 65 (246)
T KOG4657|consen 26 NQRSKIDSFIQSP---RRRSMNSLVEFAR-ALSQSQVELENLKA 65 (246)
T ss_pred HHHHHHHHHHHHH---HHHHHHHHHHHHH-HHHHHHHHHHHHHH
Confidence 3556677776644 2222223346665 44444444444443
No 106
>KOG0994 consensus Extracellular matrix glycoprotein Laminin subunit beta [Extracellular structures]
Probab=25.27 E-value=1.4e+02 Score=36.52 Aligned_cols=22 Identities=27% Similarity=0.288 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 038848 132 NELQGLVWLMEERKKDLRKRMD 153 (446)
Q Consensus 132 eELqqLe~~LEekLK~VRkRke 153 (446)
.||-.|+..|++.|+.|.+|..
T Consensus 1731 aeL~~Le~r~~~vl~~I~~rv~ 1752 (1758)
T KOG0994|consen 1731 AELAGLEKRVESVLDHINERVL 1752 (1758)
T ss_pred HHhhhHHHHHHHHHHHHhhhhh
Confidence 4666677777777777776654
No 107
>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms]
Probab=25.13 E-value=4.2e+02 Score=25.84 Aligned_cols=61 Identities=11% Similarity=0.199 Sum_probs=40.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 038848 94 VVKSQDQLKKNSRKNKVMEVSNLMEQFHLGKKTDDFNINELQGLVWLMEERKKDLRKRMDYYEQI 158 (446)
Q Consensus 94 IeKLqeQLkKLkKKNrEkEl~elm~q~~~Ge~LddLSleELqqLe~~LEekLK~VRkRke~Leqi 158 (446)
++.+++++.+|+++-++.+ +.+..+- ........+|..+....-+.+.+..|+|+.++..+
T Consensus 118 ~eemQe~i~~L~kev~~~~--erl~~~k--~g~~~vtpedk~~v~~~y~~~~~~wrk~krmf~ei 178 (201)
T KOG4603|consen 118 TEEMQEEIQELKKEVAGYR--ERLKNIK--AGTNHVTPEDKEQVYREYQKYCKEWRKRKRMFREI 178 (201)
T ss_pred hHHHHHHHHHHHHHHHHHH--HHHHHHH--HhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4456666667766554322 2221111 23567789999999999999999999999876443
No 108
>PF07957 DUF3294: Protein of unknown function (DUF3294); InterPro: IPR012917 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This is a family of mitochondrial ribosomal proteins, which appears to be fungal specific [].
Probab=25.12 E-value=6.6e+02 Score=25.08 Aligned_cols=28 Identities=18% Similarity=0.069 Sum_probs=22.6
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038848 128 DFNINELQGLVWLMEERKKDLRKRMDYY 155 (446)
Q Consensus 128 dLSleELqqLe~~LEekLK~VRkRke~L 155 (446)
--+-+||.+|...|+..|..+.+|--.=
T Consensus 69 ~aTNeDLVQLV~ELQgQLd~lEeRsiRR 96 (216)
T PF07957_consen 69 YATNEDLVQLVGELQGQLDNLEERSIRR 96 (216)
T ss_pred cccchhHHHHHHHHHHHHHHHHHHHHHH
Confidence 3466899999999999999888887643
No 109
>PRK10404 hypothetical protein; Provisional
Probab=25.06 E-value=3.8e+02 Score=23.36 Aligned_cols=29 Identities=21% Similarity=0.121 Sum_probs=22.4
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038848 128 DFNINELQGLVWLMEERKKDLRKRMDYYE 156 (446)
Q Consensus 128 dLSleELqqLe~~LEekLK~VRkRke~Le 156 (446)
+.+-+++.+|...++..|+..+.++..+.
T Consensus 30 ~~a~e~~~~lR~r~~~~L~~ar~~l~~~~ 58 (101)
T PRK10404 30 DPADQKYVELKARAEKALDDVKKRVSQAS 58 (101)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence 34777888888888888888888776553
No 110
>PF10168 Nup88: Nuclear pore component; InterPro: IPR019321 Nup88 can be divided into two structural domains; the N-terminal two-thirds of the protein have no obvious structural motifs. It is, however, where it binds to Nup98; one of the components of the nuclear pore. The C-terminal end is a predicted coiled-coil domain []. Nup88 is over expressed in tumour cells [].
Probab=24.99 E-value=6.2e+02 Score=29.36 Aligned_cols=32 Identities=3% Similarity=0.118 Sum_probs=22.7
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 038848 127 DDFNINELQGLVWLMEERKKDLRKRMDYYEQI 158 (446)
Q Consensus 127 ddLSleELqqLe~~LEekLK~VRkRke~Leqi 158 (446)
..|+..+.+.+...|.+.=++|++-+.+++++
T Consensus 680 ~~L~~~Q~~~I~~iL~~~~~~I~~~v~~ik~i 711 (717)
T PF10168_consen 680 IVLSESQKRTIKEILKQQGEEIDELVKQIKNI 711 (717)
T ss_pred ccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46788888888877777766666666666544
No 111
>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=24.97 E-value=3.8e+02 Score=24.36 Aligned_cols=31 Identities=29% Similarity=0.251 Sum_probs=24.3
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038848 125 KTDDFNINELQGLVWLMEERKKDLRKRMDYY 155 (446)
Q Consensus 125 ~LddLSleELqqLe~~LEekLK~VRkRke~L 155 (446)
.+++++.+||+++...+-+.+..+.+-+..+
T Consensus 39 ~~~g~~~~eL~~~~k~lh~ri~~leeEryd~ 69 (132)
T PF00992_consen 39 KLDGLSRAELQELCKELHERIDKLEEERYDL 69 (132)
T ss_dssp -GTTSSHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCcccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4778999999999988888887777666443
No 112
>KOG3833 consensus Uncharacterized conserved protein, contains RtcB domain [Function unknown]
Probab=24.93 E-value=41 Score=35.63 Aligned_cols=48 Identities=21% Similarity=0.414 Sum_probs=32.7
Q ss_pred ccCcCCCCCCCCCCccccCCCccCCCCCCcccccCCCCCCCCcccccc
Q 038848 337 DVGSDLGLPHGSPRAYNIGSDLRLPCGNPRAYNIGSGLGLPQGNINIG 384 (446)
Q Consensus 337 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 384 (446)
+|-++.+|.-|+--||.++.|...-.---=-|.|+||.-|-.-|+.++
T Consensus 87 DiHsGYGF~IGn~AAFD~nnPesVvSPGGVGfDINCGVRlLRTNL~e~ 134 (505)
T KOG3833|consen 87 DIHSGYGFAIGNMAAFDMNNPESVVSPGGVGFDINCGVRLLRTNLDEG 134 (505)
T ss_pred ccccccCccccceeeeccCCccceecCCccceecccchhhhhhccccc
Confidence 444567777777777777766665554455688888888777777665
No 113
>PHA03034 hypothetical protein; Provisional
Probab=24.90 E-value=28 Score=31.62 Aligned_cols=26 Identities=38% Similarity=0.379 Sum_probs=15.1
Q ss_pred CCCCCCCCCCcccccccCCCCCcCCC
Q 038848 276 SDLGLPHVNPRAYNIGSDLGLPHVNP 301 (446)
Q Consensus 276 ~~~~~~~~~~~~~~~~~~~~~~~~~~ 301 (446)
|||+|||.|---|||--.-.-+|+|+
T Consensus 93 s~~~fph~n~~~ynii~~~~c~h~nn 118 (145)
T PHA03034 93 SDFFFPHHNKLFYNIIINKTCEHKNN 118 (145)
T ss_pred eccccccchhHHHHhhccccCccccc
Confidence 45666666666666555555555554
No 114
>KOG2264 consensus Exostosin EXT1L [Signal transduction mechanisms]
Probab=24.52 E-value=4.4e+02 Score=30.22 Aligned_cols=20 Identities=30% Similarity=0.718 Sum_probs=14.5
Q ss_pred CCCCC---CCCCCCcccccccCC
Q 038848 422 GGSIP---GSDVGMPYDVTKQWP 441 (446)
Q Consensus 422 ~~~~~---~~~~~~~~~~~~~~~ 441 (446)
-|.+| |..+-.||.-+-+|-
T Consensus 445 ~GavPviLg~~~~LPyqd~idWr 467 (907)
T KOG2264|consen 445 LGAVPVILGNSQLLPYQDLIDWR 467 (907)
T ss_pred cCCeeEEeccccccchHHHHHHH
Confidence 35555 677888998888884
No 115
>KOG4460 consensus Nuclear pore complex, Nup88/rNup84 component [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=24.30 E-value=7e+02 Score=28.50 Aligned_cols=11 Identities=0% Similarity=-0.124 Sum_probs=5.4
Q ss_pred cCCCCCCCCHH
Q 038848 122 LGKKTDDFNIN 132 (446)
Q Consensus 122 ~Ge~LddLSle 132 (446)
.+..+-.++..
T Consensus 646 ~~~~lp~l~~A 656 (741)
T KOG4460|consen 646 FHSELPVLSDA 656 (741)
T ss_pred ccccCCcchhH
Confidence 34455555543
No 116
>PRK12758 DNA topoisomerase IV subunit A; Provisional
Probab=24.18 E-value=7.4e+02 Score=29.59 Aligned_cols=63 Identities=21% Similarity=0.305 Sum_probs=37.1
Q ss_pred ccceeeEecCCccchhhHh----------hhcchhhhhhhhhhhhccCCcEEEEEeCCCCCCCccCCCCchHHHHHHHhc
Q 038848 3 RKKVKLNWIANDSARKASL----------KKRKVGLLKKVSELTTLCDVNAFIIIYSPDESEPAMWPSRPVVEQLLARFN 72 (446)
Q Consensus 3 RkKIkIK~IeNesaRqVTF----------sKRR~GLfKKAsELStLCGaeVAVIVFSP~GK~pefWPS~psVe~VIdRYk 72 (446)
.+||+|+.|++++++.+.| .+..++|+|+- +|-+--.+-.|+|+ . + .|.| -++.+||..|.
T Consensus 268 ~~ki~I~di~D~s~~~vrivI~lk~~~~~~~~~~~Ly~~T-~lq~s~s~n~~vi~-d--~-~P~~----~~l~eiL~~~~ 338 (869)
T PRK12758 268 KGKIKIKKVEDNTAADVEILVHLAPGVSPDKTIDALYAFT-DCEVSISPNACVII-D--N-KPHF----LGVSDILRRST 338 (869)
T ss_pred cCCCceeeeEecCCCceEEEEEeCCCCCHHHHHHHHHhhc-CceeEeeeeEEEEE-C--C-eeeE----CCHHHHHHHHH
Confidence 3677788888877765443 33345675544 33333333445443 2 2 3555 57999999997
Q ss_pred CC
Q 038848 73 NM 74 (446)
Q Consensus 73 ~l 74 (446)
..
T Consensus 339 ~~ 340 (869)
T PRK12758 339 DH 340 (869)
T ss_pred HH
Confidence 64
No 117
>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=24.07 E-value=4.5e+02 Score=25.14 Aligned_cols=11 Identities=0% Similarity=0.196 Sum_probs=6.1
Q ss_pred CchHHHHHHHh
Q 038848 61 RPVVEQLLARF 71 (446)
Q Consensus 61 ~psVe~VIdRY 71 (446)
.-++++||.-.
T Consensus 79 ~ltl~~vI~fL 89 (161)
T TIGR02894 79 SLTLQDVISFL 89 (161)
T ss_pred cCCHHHHHHHH
Confidence 44566666543
No 118
>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=23.31 E-value=5.4e+02 Score=26.79 Aligned_cols=43 Identities=16% Similarity=0.277 Sum_probs=22.2
Q ss_pred hhhhhhhhhccCCcEEEEEeCCCC-CCCccCCCCchHHHHHHHh
Q 038848 29 LKKVSELTTLCDVNAFIIIYSPDE-SEPAMWPSRPVVEQLLARF 71 (446)
Q Consensus 29 fKKAsELStLCGaeVAVIVFSP~G-K~pefWPS~psVe~VIdRY 71 (446)
+.-+.+|+--||++|.-.+.-... .-|.|+-+.-.+++|.+.-
T Consensus 19 ~~E~~~L~~~~~~~v~~~~~~~~~~~~~~~~~g~gk~~e~~~~~ 62 (351)
T TIGR03156 19 LEELAELAETAGAEVVGTVTQKRSRPDPATYIGKGKVEEIAELV 62 (351)
T ss_pred HHHHHHHHHHCCCEEEEEEEEecCCCCCCeEecccHHHHHHHHH
Confidence 444444555558887775554432 2233333666666665543
No 119
>PF09789 DUF2353: Uncharacterized coiled-coil protein (DUF2353); InterPro: IPR019179 Members of this family have been annotated as being coiled-coil domain-containing protein 149, however they currently have no known function.
Probab=23.20 E-value=8.9e+02 Score=25.47 Aligned_cols=77 Identities=23% Similarity=0.265 Sum_probs=44.3
Q ss_pred hHhhhcchhhhhhhhhhhhccCCcEEEEEeCCCCCCCccCCC--CchHHHHHHHhcCCchhhhhhhccchhhHHHHHHHH
Q 038848 19 ASLKKRKVGLLKKVSELTTLCDVNAFIIIYSPDESEPAMWPS--RPVVEQLLARFNNMPEMEKSKKMMNQETYLKERVVK 96 (446)
Q Consensus 19 VTFsKRR~GLfKKAsELStLCGaeVAVIVFSP~GK~pefWPS--~psVe~VIdRYk~lpe~er~KKm~dqEeyLkqrIeK 96 (446)
-++..|..+|-||-.||.-.|. ..| -+.+.|. ..++-.++..++.. .++....-.-|++++.+
T Consensus 33 EqLqer~q~LKkk~~el~~~~~---------~~~-d~~~~~~~~~~~La~lL~~sre~-----Nk~L~~Ev~~Lrqkl~E 97 (319)
T PF09789_consen 33 EQLQERYQALKKKYRELIQEAA---------GFG-DPSIPPEKENKNLAQLLSESREQ-----NKKLKEEVEELRQKLNE 97 (319)
T ss_pred HHHHHHHHHHHHHHHHhhhhhc---------ccC-CccCCcccchhhHHHHHHHHHHH-----HHHHHHHHHHHHHHHHH
Confidence 3677899999999998874431 122 1223232 24455666666542 22222222457778888
Q ss_pred HHHHHHHHHHHHHH
Q 038848 97 SQDQLKKNSRKNKV 110 (446)
Q Consensus 97 LqeQLkKLkKKNrE 110 (446)
++.+++-++++...
T Consensus 98 ~qGD~KlLR~~la~ 111 (319)
T PF09789_consen 98 AQGDIKLLREKLAR 111 (319)
T ss_pred HhchHHHHHHHHHh
Confidence 88887777766543
No 120
>COG5493 Uncharacterized conserved protein containing a coiled-coil domain [Function unknown]
Probab=23.15 E-value=6.6e+02 Score=25.05 Aligned_cols=27 Identities=19% Similarity=0.234 Sum_probs=14.6
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038848 130 NINELQGLVWLMEERKKDLRKRMDYYE 156 (446)
Q Consensus 130 SleELqqLe~~LEekLK~VRkRke~Le 156 (446)
+-++|..|...+++.-..+.+++..|+
T Consensus 75 tke~lk~l~~~~~~~f~a~~edi~rlE 101 (231)
T COG5493 75 TKEDLKLLQRFQEEEFRATKEDIKRLE 101 (231)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445555555555555555555555443
No 121
>PTZ00400 DnaK-type molecular chaperone; Provisional
Probab=23.00 E-value=3.4e+02 Score=30.77 Aligned_cols=23 Identities=4% Similarity=0.211 Sum_probs=15.9
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHH
Q 038848 130 NINELQGLVWLMEERKKDLRKRM 152 (446)
Q Consensus 130 SleELqqLe~~LEekLK~VRkRk 152 (446)
+.+++++..+.|++.+..+-.++
T Consensus 614 d~~~i~~k~~eL~~~l~~l~~k~ 636 (663)
T PTZ00400 614 DVDSIKDKTKQLQEASWKISQQA 636 (663)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHH
Confidence 56777777777777777766654
No 122
>COG3853 TelA Uncharacterized protein involved in tellurite resistance [Inorganic ion transport and metabolism]
Probab=22.95 E-value=3.8e+02 Score=28.91 Aligned_cols=16 Identities=6% Similarity=0.569 Sum_probs=13.0
Q ss_pred CCCchHHHHHHHhcCC
Q 038848 59 PSRPVVEQLLARFNNM 74 (446)
Q Consensus 59 PS~psVe~VIdRYk~l 74 (446)
++..++++++.||++.
T Consensus 127 r~~~siqe~~~kYQt~ 142 (386)
T COG3853 127 RSKSSIQEIFSKYQTI 142 (386)
T ss_pred hhhhHHHHHHHHHHHH
Confidence 3457899999999884
No 123
>COG5134 Uncharacterized conserved protein [Function unknown]
Probab=22.51 E-value=2.3e+02 Score=28.52 Aligned_cols=21 Identities=19% Similarity=0.300 Sum_probs=13.0
Q ss_pred hhccCCcEEEEEeCCCCCCCcc
Q 038848 36 TTLCDVNAFIIIYSPDESEPAM 57 (446)
Q Consensus 36 StLCGaeVAVIVFSP~GK~pef 57 (446)
|++|+-.+|+ =.+|....|.+
T Consensus 82 C~~C~n~i~~-RTDPkN~~YV~ 102 (272)
T COG5134 82 CHLCSNPIDV-RTDPKNTEYVV 102 (272)
T ss_pred ccCCCCceee-ecCCCCceEEE
Confidence 5677777774 35666655544
No 124
>PF14077 WD40_alt: Alternative WD40 repeat motif
Probab=22.46 E-value=69 Score=24.63 Aligned_cols=29 Identities=14% Similarity=0.336 Sum_probs=22.5
Q ss_pred hccchhhHHHHHHHHHHHHHHHHHHHHHH
Q 038848 82 KMMNQETYLKERVVKSQDQLKKNSRKNKV 110 (446)
Q Consensus 82 Km~dqEeyLkqrIeKLqeQLkKLkKKNrE 110 (446)
.+.-..+.|+-++.+|+++...|+|.|++
T Consensus 8 nv~G~~e~l~vrv~eLEeEV~~LrKINrd 36 (48)
T PF14077_consen 8 NVLGDQEQLRVRVSELEEEVRTLRKINRD 36 (48)
T ss_pred cccCCcchheeeHHHHHHHHHHHHHHhHH
Confidence 33433456888999999999999998874
No 125
>COG0753 KatE Catalase [Inorganic ion transport and metabolism]
Probab=21.98 E-value=41 Score=36.89 Aligned_cols=25 Identities=44% Similarity=0.910 Sum_probs=19.2
Q ss_pred CCCCCCCCCCC--------------cccccccCCCCCCC
Q 038848 422 GGSIPGSDVGM--------------PYDVTKQWPHNFYP 446 (446)
Q Consensus 422 ~~~~~~~~~~~--------------~~~~~~~~~~~~~~ 446 (446)
-|.+|--++.. |+|.||-|||..||
T Consensus 260 ~Gd~P~W~l~VQvm~~~da~k~~f~~~D~TKvWp~~~~P 298 (496)
T COG0753 260 NGDFPEWDLYVQVMPEEDAEKFDFDPLDLTKLWPEEDYP 298 (496)
T ss_pred cCCCCceEEEEEecChhHhhcCCCCCCccccccccccCC
Confidence 46677666542 78999999998887
No 126
>PF12004 DUF3498: Domain of unknown function (DUF3498); InterPro: IPR021887 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is typically between 433 to 538 amino acids in length. This domain is found associated with PF00616 from PFAM, PF00168 from PFAM. This domain has two conserved sequence motifs: DLQ and PLSFQNP. ; PDB: 3BXJ_B.
Probab=21.85 E-value=30 Score=38.08 Aligned_cols=65 Identities=14% Similarity=0.163 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-----hc--cCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038848 90 LKERVVKSQDQLKKNSRKNKVMEVSNLMEQ-----FH--LGKKTDDFNINELQGLVWLMEERKKDLRKRMDYY 155 (446)
Q Consensus 90 LkqrIeKLqeQLkKLkKKNrEkEl~elm~q-----~~--~Ge~LddLSleELqqLe~~LEekLK~VRkRke~L 155 (446)
.+++|..||+.|+...++.+|-|-+.+... .+ +-..|++ +.+.|.+....=|..+|.|-.|+..+
T Consensus 374 YEqEI~~LkErL~~S~rkLeEyErrLl~QEqqt~Kll~qyq~RLed-SE~RLr~QQ~eKd~qmksII~RL~~v 445 (495)
T PF12004_consen 374 YEQEIQSLKERLRMSHRKLEEYERRLLSQEQQTQKLLLQYQARLED-SEERLRRQQEEKDSQMKSIISRLMAV 445 (495)
T ss_dssp -------------------------------------------------------------------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhhh-hHHHHHHHhhhhHHHHHHHHhhhhhh
Confidence 467899999988888877776554333211 10 0122333 55666666666677777777777544
No 127
>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=21.80 E-value=2.4e+02 Score=27.52 Aligned_cols=22 Identities=14% Similarity=0.164 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 038848 89 YLKERVVKSQDQLKKNSRKNKV 110 (446)
Q Consensus 89 yLkqrIeKLqeQLkKLkKKNrE 110 (446)
+|...+..+++++++++++..+
T Consensus 140 ~Le~~~~~le~~l~~~k~~ie~ 161 (221)
T PF05700_consen 140 QLEAMLKRLEKELAKLKKEIEE 161 (221)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3444555566666666555443
No 128
>PRK10884 SH3 domain-containing protein; Provisional
Probab=21.71 E-value=4.7e+02 Score=25.54 Aligned_cols=19 Identities=26% Similarity=0.321 Sum_probs=10.8
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 038848 91 KERVVKSQDQLKKNSRKNK 109 (446)
Q Consensus 91 kqrIeKLqeQLkKLkKKNr 109 (446)
+.++.+++.|+++++.+..
T Consensus 92 ~~rlp~le~el~~l~~~l~ 110 (206)
T PRK10884 92 RTRVPDLENQVKTLTDKLN 110 (206)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4556666666666654433
No 129
>PF06637 PV-1: PV-1 protein (PLVAP); InterPro: IPR009538 This family consists of several PV-1 (PLVAP) proteins, which seem to be specific to mammals. PV-1 is a novel protein component of the endothelial fenestral and stomatal diaphragms []. The function of this family is unknown.
Probab=21.57 E-value=6.3e+02 Score=27.48 Aligned_cols=14 Identities=36% Similarity=0.311 Sum_probs=8.0
Q ss_pred hhhhhhhhhhhccC
Q 038848 27 GLLKKVSELTTLCD 40 (446)
Q Consensus 27 GLfKKAsELStLCG 40 (446)
+=++|+..||.--|
T Consensus 216 ~~lq~vq~~C~pLD 229 (442)
T PF06637_consen 216 EQLQKVQALCLPLD 229 (442)
T ss_pred HHHHHHHHHhcccc
Confidence 44566666665544
No 130
>KOG4010 consensus Coiled-coil protein TPD52 [General function prediction only]
Probab=21.52 E-value=6e+02 Score=25.05 Aligned_cols=78 Identities=18% Similarity=0.243 Sum_probs=49.9
Q ss_pred CCchHHHHHHHhcCCchhhhhhhccchhhHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHhhccCCCCCCCCHHHHHHH
Q 038848 60 SRPVVEQLLARFNNMPEMEKSKKMMNQETYLKERVVKSQDQLKKNSRKNKVME--VSNLMEQFHLGKKTDDFNINELQGL 137 (446)
Q Consensus 60 S~psVe~VIdRYk~lpe~er~KKm~dqEeyLkqrIeKLqeQLkKLkKKNrEkE--l~elm~q~~~Ge~LddLSleELqqL 137 (446)
-.+.+......+..+++.++ +.|++++.|++++|.-|+.-..-+| ..++. + .|.+.-|.+|
T Consensus 27 ~~~~~a~s~s~~~~LSe~Ek--------eelr~EL~kvEeEI~TLrqVLaAKerH~~ELK-R--------KLGlt~~~EL 89 (208)
T KOG4010|consen 27 VGTDVAASASEFEALSEEEK--------EELRTELAKVEEEIVTLRQVLAAKERHAAELK-R--------KLGLTVLKEL 89 (208)
T ss_pred CccchhhhhhHHhhhcHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-H--------HhCcchHHHH
Confidence 34566777777877777653 3588889999999888765432221 22221 1 3455567778
Q ss_pred HHHHHHHHHHHHHHHHH
Q 038848 138 VWLMEERKKDLRKRMDY 154 (446)
Q Consensus 138 e~~LEekLK~VRkRke~ 154 (446)
.+-|.+.++.+..--..
T Consensus 90 ~qnisksw~d~q~st~y 106 (208)
T KOG4010|consen 90 KQNISKSWKDVQASTAY 106 (208)
T ss_pred HHHHHHHHhhhhhHHHH
Confidence 88888888877765543
No 131
>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=21.42 E-value=3.2e+02 Score=26.39 Aligned_cols=60 Identities=15% Similarity=0.157 Sum_probs=35.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHhhc---cCCCCCCCCHHHHHHHHHHHHHHHH
Q 038848 87 ETYLKERVVKSQDQLKKNSRKNKVMEVS-NLMEQFH---LGKKTDDFNINELQGLVWLMEERKK 146 (446)
Q Consensus 87 EeyLkqrIeKLqeQLkKLkKKNrEkEl~-elm~q~~---~Ge~LddLSleELqqLe~~LEekLK 146 (446)
.+||.....=.+.++++++++..+..-. .-+.... -..-+.+-|.+||..|+..|+.+|.
T Consensus 97 ~~fW~~~~~v~~del~~~~~~~~~~~~~~~~ih~sV~~dI~~il~gKs~~eL~~Le~qI~~KL~ 160 (191)
T PF10312_consen 97 REFWEAMLVVCEDELAKLRKKEPEGRAVRSGIHSSVAADIQKILSGKSYEELEELEQQIKAKLR 160 (191)
T ss_pred HHHHHHHHHHHHHHHHHhhcccccccchhhcccHHHHHHHHHHHccCCHHHHHHHHHHHHHHhh
Confidence 4588887777778888876522110000 0000000 0112568899999999999988874
No 132
>PF15066 CAGE1: Cancer-associated gene protein 1 family
Probab=21.36 E-value=4.6e+02 Score=29.14 Aligned_cols=67 Identities=21% Similarity=0.284 Sum_probs=33.8
Q ss_pred hHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHH---hhccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038848 88 TYLKERVVKSQDQLKKNS------RKNKVMEVSNLME---QFHLGKKTDDFNINELQGLVWLMEERKKDLRKRMDYY 155 (446)
Q Consensus 88 eyLkqrIeKLqeQLkKLk------KKNrEkEl~elm~---q~~~Ge~LddLSleELqqLe~~LEekLK~VRkRke~L 155 (446)
.||..+++.|+.++.|.+ .|.+ ..+.++.. +.+..+.--+-.+..|++...-.++.|.+-|..++.|
T Consensus 341 ~yLe~kvkeLQ~k~~kQqvfvDiinkLk-~niEeLIedKY~viLEKnd~~k~lqnLqe~la~tqk~LqEsr~eKetL 416 (527)
T PF15066_consen 341 LYLEKKVKELQMKITKQQVFVDIINKLK-ENIEELIEDKYRVILEKNDIEKTLQNLQEALANTQKHLQESRNEKETL 416 (527)
T ss_pred HHHHHHHHHHHHHhhhhhHHHHHHHHHH-HHHHHHHHhHhHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHhhHHHH
Confidence 677777777777665542 1111 11222221 2232322223345556665556666666666666655
No 133
>TIGR01462 greA transcription elongation factor GreA. In the Chlamydias and some spirochetes, the region described by this model is found as the C-terminal region of a much larger protein.
Probab=21.35 E-value=4e+02 Score=24.33 Aligned_cols=63 Identities=13% Similarity=0.121 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh-ccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 038848 94 VVKSQDQLKKNSRKNKVMEVSNLMEQF-HLGKKTDDFNINELQGLVWLMEERKKDLRKRMDYYEQ 157 (446)
Q Consensus 94 IeKLqeQLkKLkKKNrEkEl~elm~q~-~~Ge~LddLSleELqqLe~~LEekLK~VRkRke~Leq 157 (446)
+.+|+++|+.|+...+. |+...+... -.|+--++-..++-++-...++..+..+.+++...+-
T Consensus 7 ~~~L~~el~~L~~~~r~-~~~~~~~~a~~~gDl~Ena~y~aak~~~~~~e~ri~~L~~~L~~a~i 70 (151)
T TIGR01462 7 YEKLKEELEYLKTVKRP-EISEEIAEAREHGDLSENAEYHAAKEEQGFNEGRIAELEDLLANAQV 70 (151)
T ss_pred HHHHHHHHHHHHhcccH-HHHHHHHHHHHCCChhhccchHHHHHHHHHHHHHHHHHHHHHHhCcc
Confidence 56677777777643221 111111111 2244344555556666666677777777766664443
No 134
>PF12128 DUF3584: Protein of unknown function (DUF3584); InterPro: IPR021979 This family consist of uncharacterised bacterial proteins.
Probab=21.07 E-value=3.6e+02 Score=32.78 Aligned_cols=41 Identities=22% Similarity=0.228 Sum_probs=24.9
Q ss_pred HHHHHHhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q 038848 113 VSNLMEQFHLGKKTDDFNINELQGLVWLMEERKKDLRKRMD 153 (446)
Q Consensus 113 l~elm~q~~~Ge~LddLSleELqqLe~~LEekLK~VRkRke 153 (446)
+...+.+-+.+..+|.-.+.+|..=...|++.|+.|..+..
T Consensus 755 le~~~~~eL~~~GvD~~~I~~l~~~i~~L~~~l~~ie~~r~ 795 (1201)
T PF12128_consen 755 LEQQYNQELAGKGVDPERIQQLKQEIEQLEKELKRIEERRA 795 (1201)
T ss_pred HHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence 33333334666777766666666666666677777666653
No 135
>PF03938 OmpH: Outer membrane protein (OmpH-like); InterPro: IPR005632 This entry includes outer membrane proteins such as OmpH (Skp) among others. OmpH (outer membrane protein H) is a major structural protein of the outer membrane. In Pasteurella multocida it acts as a channel-forming transmembrane porin []. Porins act as molecular sieves to allow the diffusion of small hydrophilic solutes through the outer membrane and also acts as a receptor for bacteriophages and bacteriocins. Porins are highly immunogenic and are conserved in bacterial families, making them attractive vaccine candidates []. The 17kDa protein (Skp, OmpH) of Escherichia coli is a homotrimeric periplasmic chaperone for newly synthesised outer-membrane proteins, the X-ray structure of which has been reported at resolutions of 2.35 A and 2.30 A [, ]. Three hairpin-shaped alpha-helical extensions reach out by approximately 60 A from a trimerisation domain, which is composed of three intersubunit beta-sheets that wind around a central axis. The alpha-helical extensions approach each other at their distal turns, resulting in a fold that resembles a 'three-pronged grasping forcep'. The overall shape of Skp is reminiscent of the cytosolic chaperone prefoldin (IPR009053 from INTERPRO), although it is based on a radically different topology. The peculiar architecture, with apparent plasticity of the prongs and distinct electrostatic and hydrophobic surface properties, supports the recently proposed biochemical mechanism of this chaperone: formation of a Skp(3)-Omp complex protects the outer membrane protein from aggregation during passage through the bacterial periplasm. The ability of Skp to prevent the aggregation of model substrates in vitro is independent of ATP. Skp can interact directly with membrane lipids and lipopolysaccharide. These interactions are needed for efficient Skp-assisted folding of membrane proteins [].; GO: 0051082 unfolded protein binding; PDB: 1SG2_C 1U2M_C.
Probab=21.06 E-value=5.8e+02 Score=22.72 Aligned_cols=28 Identities=11% Similarity=0.132 Sum_probs=15.5
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 038848 127 DDFNINELQGLVWLMEERKKDLRKRMDY 154 (446)
Q Consensus 127 ddLSleELqqLe~~LEekLK~VRkRke~ 154 (446)
..|+.++.+.+...|+.+...++.....
T Consensus 71 ~~ls~~~~~~~~~~l~~~~~~l~~~~~~ 98 (158)
T PF03938_consen 71 ATLSEEERQKRQQELQQKEQELQQFQQQ 98 (158)
T ss_dssp ---SSHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hccchhHHHHHHHHHHHHHHHHHHHHHH
Confidence 3667777766666666665555554443
No 136
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=20.89 E-value=3.2e+02 Score=31.26 Aligned_cols=28 Identities=18% Similarity=0.225 Sum_probs=13.8
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038848 128 DFNINELQGLVWLMEERKKDLRKRMDYY 155 (446)
Q Consensus 128 dLSleELqqLe~~LEekLK~VRkRke~L 155 (446)
+.-++.+..=...|+..|.+-++++++|
T Consensus 473 ~rei~~~~~~I~~L~~~L~e~~~~ve~L 500 (652)
T COG2433 473 DREIRARDRRIERLEKELEEKKKRVEEL 500 (652)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334444444444555555555555555
No 137
>PF04912 Dynamitin: Dynamitin ; InterPro: IPR006996 Dynamitin is a subunit of the microtubule-dependent motor complex, it is also implicated in cell adhesion by binding to macrophage-enriched myristoylated alanine-rice C kinase substrate (MacMARCKS) []. It is also thought to modulate cytoplasmic dynein binding to an organelle, and plays a role in prometaphase chromosome alignment and spindle organisation during mitosis. Dynamitin is also involved in anchoring microtubules to centrosomes and may play a role in synapse formation during brain development []. ; GO: 0007017 microtubule-based process, 0005869 dynactin complex
Probab=20.83 E-value=2.6e+02 Score=29.38 Aligned_cols=23 Identities=26% Similarity=0.372 Sum_probs=18.1
Q ss_pred hhhHhhhcchhhhhhhhhhhhcc
Q 038848 17 RKASLKKRKVGLLKKVSELTTLC 39 (446)
Q Consensus 17 RqVTFsKRR~GLfKKAsELStLC 39 (446)
.--.+.+|-+.|.+|+.+|+-.=
T Consensus 262 ~Ld~i~~rl~~L~~~~~~l~~~~ 284 (388)
T PF04912_consen 262 KLDSIERRLKSLLSELEELAEKR 284 (388)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcc
Confidence 34578889999999999987543
No 138
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=20.78 E-value=3.3e+02 Score=23.74 Aligned_cols=21 Identities=19% Similarity=0.248 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 038848 90 LKERVVKSQDQLKKNSRKNKV 110 (446)
Q Consensus 90 LkqrIeKLqeQLkKLkKKNrE 110 (446)
++++++.+++++++++.+|..
T Consensus 32 l~~q~~~~~~e~~~l~~~n~~ 52 (105)
T PRK00888 32 VNDQVAAQQQTNAKLKARNDQ 52 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 456667777777777766654
No 139
>PRK00290 dnaK molecular chaperone DnaK; Provisional
Probab=20.72 E-value=3.3e+02 Score=30.40 Aligned_cols=23 Identities=9% Similarity=0.153 Sum_probs=16.9
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHH
Q 038848 130 NINELQGLVWLMEERKKDLRKRM 152 (446)
Q Consensus 130 SleELqqLe~~LEekLK~VRkRk 152 (446)
+.+++++..+.|++.++.+..|+
T Consensus 573 ~~~~i~~k~~~L~~~~~~~~~~~ 595 (627)
T PRK00290 573 DKEAIKAKTEELTQASQKLGEAM 595 (627)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHH
Confidence 66777777777777777777654
No 140
>PLN03184 chloroplast Hsp70; Provisional
Probab=20.58 E-value=4e+02 Score=30.28 Aligned_cols=23 Identities=0% Similarity=0.172 Sum_probs=12.7
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHH
Q 038848 130 NINELQGLVWLMEERKKDLRKRM 152 (446)
Q Consensus 130 SleELqqLe~~LEekLK~VRkRk 152 (446)
+.+++++....+++.++.+-.++
T Consensus 612 d~~~ik~~~~~l~~~l~~l~~~~ 634 (673)
T PLN03184 612 STQKMKDAMAALNQEVMQIGQSL 634 (673)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHH
Confidence 45555555555555555555543
No 141
>KOG3156 consensus Uncharacterized membrane protein [Function unknown]
Probab=20.56 E-value=3.6e+02 Score=26.95 Aligned_cols=20 Identities=5% Similarity=0.232 Sum_probs=11.9
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 038848 136 GLVWLMEERKKDLRKRMDYY 155 (446)
Q Consensus 136 qLe~~LEekLK~VRkRke~L 155 (446)
++...||.-+..++..++..
T Consensus 174 e~s~kId~Ev~~lk~qi~s~ 193 (220)
T KOG3156|consen 174 EISTKIDQEVTNLKTQIESV 193 (220)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 44466666666666666543
No 142
>PF14723 SSFA2_C: Sperm-specific antigen 2 C-terminus
Probab=20.46 E-value=5.9e+02 Score=24.69 Aligned_cols=28 Identities=11% Similarity=0.090 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 038848 93 RVVKSQDQLKKNSRKNKVMEVSNLMEQF 120 (446)
Q Consensus 93 rIeKLqeQLkKLkKKNrEkEl~elm~q~ 120 (446)
+++-++.-+..-+....|.|+..+-.|.
T Consensus 106 Elq~mr~~ln~FR~qm~dlE~~l~~QQa 133 (179)
T PF14723_consen 106 ELQQMRRSLNSFREQMMDLELHLMRQQA 133 (179)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence 3444444455555555556655443333
No 143
>PF06008 Laminin_I: Laminin Domain I; InterPro: IPR009254 Laminins are glycoproteins that are major constituents of the basement membrane of cells. Laminins are trimeric molecules; laminin-1 is an alpha1 beta1 gamma1 trimer. It has been suggested that the domains I and II from laminin A, B1 and B2 may come together to form a triple helical coiled-coil structure []. Binding to cells via a high affinity receptor, laminin is thought to mediate the attachment, migration and organisation of cells into tissues during embryonic development by interacting with other extracellular matrix components.; GO: 0005102 receptor binding, 0030155 regulation of cell adhesion, 0030334 regulation of cell migration, 0045995 regulation of embryonic development, 0005606 laminin-1 complex
Probab=20.27 E-value=6.4e+02 Score=24.89 Aligned_cols=39 Identities=26% Similarity=0.355 Sum_probs=29.1
Q ss_pred HHHHHhh-ccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q 038848 114 SNLMEQF-HLGKKTDDFNINELQGLVWLMEERKKDLRKRM 152 (446)
Q Consensus 114 ~elm~q~-~~Ge~LddLSleELqqLe~~LEekLK~VRkRk 152 (446)
.+++.+. ..+.....++..+|.......+..|++||+|-
T Consensus 104 ~~l~~~~~~l~~~~~~~~~~~l~~~l~ea~~mL~emr~r~ 143 (264)
T PF06008_consen 104 QELIEQVESLNENGDQLPSEDLQRALAEAQRMLEEMRKRD 143 (264)
T ss_pred HHHHHHHHHhCcccCCCCHHHHHHHHHHHHHHHHHHHhcc
Confidence 3344433 23446778899999999999999999998884
No 144
>TIGR01063 gyrA DNA gyrase, A subunit. This model describes the common type II DNA topoisomerase (DNA gyrase). Two apparently independently arising families, one in the Proteobacteria and one in Gram-positive lineages, are both designated toposisomerase IV.
Probab=20.26 E-value=1.4e+02 Score=34.83 Aligned_cols=25 Identities=24% Similarity=0.280 Sum_probs=18.6
Q ss_pred chhhHhhhcchhhhhhhh-hhhhccC
Q 038848 16 ARKASLKKRKVGLLKKVS-ELTTLCD 40 (446)
Q Consensus 16 aRqVTFsKRR~GLfKKAs-ELStLCG 40 (446)
-|.-++.||+.=+++|+. +|.+|-|
T Consensus 349 ~r~~~~~~r~~~~l~~~~~~~~~~~g 374 (800)
T TIGR01063 349 HRKDVITRRTIFELRKAEERAHILEG 374 (800)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 477888999999888887 4555543
No 145
>PF09849 DUF2076: Uncharacterized protein conserved in bacteria (DUF2076); InterPro: IPR018648 This family of hypothetical prokaryotic proteins has no known function but includes putative perimplasmic ligand-binding sensor proteins.
Probab=20.04 E-value=3.1e+02 Score=27.72 Aligned_cols=24 Identities=21% Similarity=0.203 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhc
Q 038848 135 QGLVWLMEERKKDLRKRMDYYEQI 158 (446)
Q Consensus 135 qqLe~~LEekLK~VRkRke~Leqi 158 (446)
.+-.-+.|..|+....|+++|+..
T Consensus 47 aQ~vlvQE~AL~~a~~ri~eLe~q 70 (247)
T PF09849_consen 47 AQTVLVQEQALKQAQARIQELEAQ 70 (247)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344556688899999999988655
No 146
>PF08702 Fib_alpha: Fibrinogen alpha/beta chain family; InterPro: IPR012290 Fibrinogen plays key roles in both blood clotting and platelet aggregation. During blood clot formation, the conversion of soluble fibrinogen to insoluble fibrin is triggered by thrombin, resulting in the polymerisation of fibrin, which forms a soft clot; this is then converted to a hard clot by factor XIIIA, which cross-links fibrin molecules. Platelet aggregation involves the binding of the platelet protein receptor integrin alpha(IIb)-beta(3) to the C-terminal D domain of fibrinogen []. In addition to platelet aggregation, platelet-fibrinogen interaction mediates both adhesion and fibrin clot retraction. Fibrinogen occurs as a dimer, where each monomer is composed of three non-identical chains, alpha, beta and gamma, linked together by several disulphide bonds []. The N-terminals of all six chains come together to form the centre of the molecule (E domain), from which the monomers extend in opposite directions as coiled coils, followed by C-terminal globular domains (D domains). Therefore, the domain composition is: D-coil-E-coil-D. At each end, the C-terminal of the alpha chain extends beyond the D domain as a protuberance that is important for cross-linking the molecule. During clot formation, the N-terminal fragments of the alpha and beta chains (within the E domain) in fibrinogen are cleaved by thrombin, releasing fibrinopeptides A and B, respectively, and producing fibrin. This cleavage results in the exposure of four binding sites on the E domain, each of which can bind to a D domain from different fibrin molecules. The binding of fibrin molecules produces a polymer consisting of a lattice network of fibrins that form a long, branching, flexible fibre [, ]. Fibrin fibres interact with platelets to increase the size of the clot, as well as with several different proteins and cells, thereby promoting the inflammatory response and concentrating the cells required for wound repair at the site of damage. This entry represents the coiled-coil domain and part of the N-terminal E domain found in all three fibrinogen polypeptides, namely the alpha, beta and gamma chains. More information about these proteins can be found at Protein of the Month: Fibrinogen [].; GO: 0005102 receptor binding, 0030674 protein binding, bridging, 0007165 signal transduction, 0030168 platelet activation, 0051258 protein polymerization, 0005577 fibrinogen complex; PDB: 1LWU_D 1N73_D 1M1J_B 1JY2_R 1JY3_R 1RF0_A 2H43_D 1RE4_D 2XNY_D 2HPC_D ....
Probab=20.01 E-value=2.5e+02 Score=25.92 Aligned_cols=24 Identities=17% Similarity=0.357 Sum_probs=17.4
Q ss_pred CCCCCCccCCCCchHHHHHHHhcC
Q 038848 50 PDESEPAMWPSRPVVEQLLARFNN 73 (446)
Q Consensus 50 P~GK~pefWPS~psVe~VIdRYk~ 73 (446)
.++..-.++|+.=.+...|++|..
T Consensus 9 ~de~~G~~CPTgC~i~~~L~k~~~ 32 (146)
T PF08702_consen 9 ADEDFGSYCPTGCGIQDFLDKYER 32 (146)
T ss_dssp SSTTTTEEEE-HHHHHHHHHHHHH
T ss_pred cCccccCCCCCcchHHHHHHHHcc
Confidence 455566678877789999999965
Done!