Query 030692
Match_columns 173
No_of_seqs 22 out of 24
Neff 2.2
Searched_HMMs 46136
Date Fri Mar 29 03:08:56 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030692.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030692hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF07544 Med9: RNA polymerase 98.1 9.3E-06 2E-10 58.4 6.9 77 86-166 5-83 (83)
2 PF00804 Syntaxin: Syntaxin; 88.4 2.8 6E-05 28.3 6.4 58 103-164 45-102 (103)
3 PF00435 Spectrin: Spectrin re 85.4 4.2 9.1E-05 26.4 5.8 35 136-170 35-69 (105)
4 PF10186 Atg14: UV radiation r 85.0 6.1 0.00013 31.6 7.6 59 109-167 58-116 (302)
5 smart00150 SPEC Spectrin repea 83.5 9.7 0.00021 24.7 7.0 63 107-171 5-67 (101)
6 PF09177 Syntaxin-6_N: Syntaxi 81.2 9.1 0.0002 27.6 6.6 60 105-168 37-96 (97)
7 KOG0992 Uncharacterized conser 75.8 11 0.00024 36.9 7.2 62 87-148 215-279 (613)
8 PF05008 V-SNARE: Vesicle tran 75.8 22 0.00048 24.1 7.8 45 86-131 5-49 (79)
9 PRK00808 hypothetical protein; 74.6 32 0.0007 26.3 8.3 72 82-162 21-95 (150)
10 KOG3598 Thyroid hormone recept 71.9 1.9 4.1E-05 46.6 1.3 34 79-114 2167-2200(2220)
11 PRK08027 flgL flagellar hook-a 70.5 15 0.00033 31.6 6.2 80 84-167 199-280 (317)
12 TIGR02481 hemeryth_dom hemeryt 69.5 39 0.00085 24.3 7.5 74 81-163 16-93 (126)
13 PRK10869 recombination and rep 69.3 7.8 0.00017 36.1 4.5 29 142-170 296-324 (553)
14 TIGR00634 recN DNA repair prot 69.1 14 0.0003 34.0 6.0 61 110-170 269-329 (563)
15 PF04048 Sec8_exocyst: Sec8 ex 66.5 14 0.00031 28.5 4.8 61 106-166 57-124 (142)
16 PRK07192 flgL flagellar hook-a 65.9 40 0.00087 28.1 7.7 77 83-166 189-268 (305)
17 PRK08870 flgL flagellar hook-a 64.0 50 0.0011 29.0 8.2 81 83-167 287-368 (404)
18 PRK06663 flagellar hook-associ 63.3 29 0.00063 31.1 6.8 74 84-168 310-383 (419)
19 PF04108 APG17: Autophagy prot 62.5 29 0.00062 31.2 6.6 23 106-128 209-231 (412)
20 PRK14692 lagellar hook-associa 61.7 40 0.00087 33.7 7.9 82 83-168 630-714 (749)
21 COG0497 RecN ATPase involved i 60.5 16 0.00036 35.2 5.0 29 142-170 297-325 (557)
22 TIGR02833 spore_III_AB stage I 59.8 77 0.0017 25.3 8.0 79 85-165 66-154 (170)
23 PF04129 Vps52: Vps52 / Sac2 f 55.0 32 0.0007 31.7 5.8 25 145-169 59-83 (508)
24 PF10458 Val_tRNA-synt_C: Valy 54.7 66 0.0014 21.9 6.1 54 105-158 2-62 (66)
25 PF07197 DUF1409: Protein of u 54.2 9.6 0.00021 26.5 1.8 35 111-145 16-50 (51)
26 PF12729 4HB_MCP_1: Four helix 53.3 76 0.0016 22.2 8.6 43 86-129 59-101 (181)
27 cd00176 SPEC Spectrin repeats, 53.3 64 0.0014 23.3 6.0 35 136-170 34-68 (213)
28 PRK08412 flgL flagellar hook-a 52.6 66 0.0014 32.6 7.8 84 81-168 702-792 (827)
29 KOG4747 Two-component phosphor 52.5 62 0.0013 26.9 6.5 28 136-163 109-136 (150)
30 KOG3661 Uncharacterized conser 51.7 11 0.00024 38.4 2.4 48 98-145 577-627 (1019)
31 PF10264 Stork_head: Winged he 50.9 11 0.00024 28.1 1.8 38 81-118 5-45 (80)
32 PRK12717 flgL flagellar hook-a 50.9 93 0.002 29.2 8.1 80 84-167 406-487 (523)
33 PF08385 DHC_N1: Dynein heavy 50.7 1.3E+02 0.0029 26.6 8.6 66 100-169 142-208 (579)
34 PRK10132 hypothetical protein; 50.3 1.1E+02 0.0025 23.4 7.2 68 106-173 15-86 (108)
35 cd07671 F-BAR_PSTPIP1 The F-BA 50.1 1E+02 0.0022 26.1 7.5 62 109-170 101-185 (242)
36 PF02268 TFIIA_gamma_N: Transc 49.5 38 0.00083 23.2 4.1 30 87-119 14-43 (49)
37 COG1293 Predicted RNA-binding 48.6 59 0.0013 30.8 6.5 70 88-171 267-339 (564)
38 PF10158 LOH1CR12: Tumour supp 48.5 70 0.0015 25.3 6.0 57 108-167 32-88 (131)
39 PRK08307 stage III sporulation 47.6 1.3E+02 0.0028 24.1 7.5 79 85-165 67-155 (171)
40 PRK07701 flgL flagellar hook-a 46.8 93 0.002 26.0 6.8 65 84-153 190-254 (298)
41 cd07596 BAR_SNX The Bin/Amphip 46.5 1.3E+02 0.0027 22.8 9.2 82 87-170 46-128 (218)
42 PF10828 DUF2570: Protein of u 44.6 1.1E+02 0.0024 22.8 6.2 33 141-173 59-91 (110)
43 PF03114 BAR: BAR domain; Int 44.5 1.3E+02 0.0028 22.4 8.0 83 87-169 72-158 (229)
44 TIGR02135 phoU_full phosphate 44.4 1.2E+02 0.0027 22.6 6.5 28 106-133 112-139 (212)
45 KOG3598 Thyroid hormone recept 43.2 17 0.00037 39.8 2.3 10 9-18 2062-2071(2220)
46 cd00522 Hemerythrin Hemerythri 42.1 1.3E+02 0.0029 21.8 8.3 45 82-129 19-63 (113)
47 PF10925 DUF2680: Protein of u 41.9 35 0.00076 23.7 3.1 26 138-163 3-29 (59)
48 PF14966 DNA_repr_REX1B: DNA r 41.6 79 0.0017 23.6 5.1 59 90-149 24-84 (97)
49 PF02609 Exonuc_VII_S: Exonucl 41.2 1E+02 0.0022 20.2 6.0 51 118-168 3-53 (53)
50 TIGR00293 prefoldin, archaeal 40.8 1.2E+02 0.0026 22.2 6.0 28 142-169 82-109 (126)
51 KOG3691 Exocyst complex subuni 40.6 63 0.0014 33.6 5.7 65 105-169 62-137 (982)
52 cd00446 GrpE GrpE is the adeni 40.6 77 0.0017 24.0 5.0 44 84-127 40-83 (137)
53 PRK00409 recombination and DNA 40.3 1.7E+02 0.0037 28.8 8.4 50 101-154 514-563 (782)
54 PF13949 ALIX_LYPXL_bnd: ALIX 40.1 67 0.0015 26.2 4.9 79 88-167 11-95 (296)
55 PF05852 DUF848: Gammaherpesvi 40.1 1.1E+02 0.0024 25.1 6.1 59 101-169 55-113 (146)
56 PF10146 zf-C4H2: Zinc finger- 39.7 1E+02 0.0022 26.4 6.1 51 111-168 5-55 (230)
57 PF02601 Exonuc_VII_L: Exonucl 39.5 1.4E+02 0.0031 25.1 6.9 62 106-167 157-224 (319)
58 PF07304 SRA1: Steroid recepto 38.8 23 0.0005 28.2 2.0 43 85-127 90-132 (157)
59 PF10359 Fmp27_WPPW: RNA pol I 38.7 1E+02 0.0022 28.3 6.3 59 109-169 172-230 (475)
60 PRK12718 flgL flagellar hook-a 38.4 1.5E+02 0.0032 28.2 7.5 81 84-168 392-474 (510)
61 PF13964 Kelch_6: Kelch motif 38.3 19 0.00042 22.1 1.2 13 7-19 37-49 (50)
62 PF05377 FlaC_arch: Flagella a 38.0 73 0.0016 22.4 4.2 35 123-161 9-44 (55)
63 PF12072 DUF3552: Domain of un 38.0 1.5E+02 0.0033 24.0 6.6 55 114-168 78-132 (201)
64 PF14703 DUF4463: Domain of un 37.7 81 0.0018 21.3 4.3 30 142-171 3-32 (85)
65 COG3945 Uncharacterized conser 37.6 1.5E+02 0.0033 25.5 6.8 84 85-172 96-186 (189)
66 cd09237 V_ScBro1_like Protein- 37.0 97 0.0021 27.0 5.7 75 96-170 62-142 (356)
67 TIGR02550 flagell_flgL flagell 36.0 97 0.0021 25.5 5.3 53 107-166 217-269 (306)
68 PF01031 Dynamin_M: Dynamin ce 35.7 1.2E+02 0.0027 25.2 5.9 77 82-172 56-132 (295)
69 PRK01917 cation-binding hemery 35.4 2E+02 0.0043 21.9 7.6 71 82-162 21-91 (139)
70 PF10498 IFT57: Intra-flagella 35.4 1E+02 0.0022 27.9 5.7 59 110-168 216-282 (359)
71 PF08376 NIT: Nitrate and nitr 34.8 1.6E+02 0.0034 22.6 5.9 55 116-170 41-104 (247)
72 PF00015 MCPsignal: Methyl-acc 34.6 1.5E+02 0.0033 22.2 5.7 61 108-168 129-189 (213)
73 PRK10404 hypothetical protein; 34.4 2E+02 0.0044 21.7 6.8 68 106-173 8-80 (101)
74 PHA02562 46 endonuclease subun 34.2 1.8E+02 0.0039 25.8 7.0 24 137-160 332-355 (562)
75 PF02828 L27: L27 domain; Int 33.8 1.4E+02 0.003 19.6 5.0 47 117-170 3-51 (56)
76 PF09392 MxiH: Type III secret 33.7 1.7E+02 0.0038 20.7 6.3 30 142-171 61-90 (90)
77 PF11932 DUF3450: Protein of u 32.7 1.5E+02 0.0033 24.4 5.9 48 112-159 54-101 (251)
78 cd08915 V_Alix_like Protein-in 31.9 1.6E+02 0.0034 25.3 6.1 28 104-131 74-101 (342)
79 PRK11115 transcriptional regul 31.8 2.6E+02 0.0056 22.1 8.1 43 90-133 107-149 (236)
80 PRK09039 hypothetical protein; 31.8 1.6E+02 0.0034 26.1 6.2 57 109-165 139-199 (343)
81 PF09789 DUF2353: Uncharacteri 31.8 2.2E+02 0.0047 25.9 7.2 61 107-167 158-228 (319)
82 COG1694 MazG Predicted pyropho 31.5 1.9E+02 0.0042 20.6 7.7 42 85-129 35-76 (102)
83 PF05944 Phage_term_smal: Phag 31.4 61 0.0013 25.6 3.3 30 143-172 14-43 (132)
84 PF08557 Lipid_DES: Sphingolip 31.4 38 0.00083 22.4 1.8 21 152-173 17-37 (39)
85 TIGR01069 mutS2 MutS2 family p 31.4 1.5E+02 0.0032 29.3 6.4 64 101-168 509-573 (771)
86 PF14735 HAUS4: HAUS augmin-li 31.2 2.7E+02 0.0059 24.0 7.4 64 106-169 39-119 (238)
87 PF01025 GrpE: GrpE; InterPro 31.1 1.1E+02 0.0024 23.2 4.5 43 85-127 67-109 (165)
88 PTZ00419 valyl-tRNA synthetase 30.8 1.6E+02 0.0034 29.5 6.6 59 105-163 927-992 (995)
89 COG2973 TrpR Trp operon repres 30.8 55 0.0012 25.8 2.9 20 152-172 41-60 (103)
90 PF13418 Kelch_4: Galactose ox 30.5 22 0.00047 21.7 0.5 12 7-18 38-49 (49)
91 PF14523 Syntaxin_2: Syntaxin- 30.5 1.9E+02 0.0041 20.1 8.1 82 86-170 12-96 (102)
92 PF06782 UPF0236: Uncharacteri 30.4 1.6E+02 0.0035 27.1 6.2 72 85-163 286-358 (470)
93 PRK11637 AmiB activator; Provi 30.2 1.8E+02 0.0038 25.8 6.3 38 117-154 92-129 (428)
94 PHA02562 46 endonuclease subun 30.1 2.5E+02 0.0053 25.0 7.1 34 136-169 324-357 (562)
95 PF02607 B12-binding_2: B12 bi 30.0 1.4E+02 0.003 19.7 4.4 27 87-114 3-29 (79)
96 PF09325 Vps5: Vps5 C terminal 29.9 2.7E+02 0.0059 21.8 8.6 67 105-171 80-147 (236)
97 PF06295 DUF1043: Protein of u 29.8 90 0.002 24.0 3.9 23 145-167 28-50 (128)
98 TIGR00996 Mtu_fam_mce virulenc 29.7 1.6E+02 0.0034 24.3 5.5 14 87-100 134-147 (291)
99 PRK10328 DNA binding protein, 29.3 1.1E+02 0.0023 24.4 4.3 29 137-165 37-65 (134)
100 COG1293 Predicted RNA-binding 29.1 65 0.0014 30.5 3.6 84 78-169 325-416 (564)
101 PF08580 KAR9: Yeast cortical 29.0 2.1E+02 0.0045 28.2 7.0 77 84-170 68-144 (683)
102 PF04716 ETC_C1_NDUFA5: ETC co 29.0 37 0.00081 23.4 1.5 12 159-170 25-36 (57)
103 PRK10328 DNA binding protein, 28.9 85 0.0018 25.0 3.7 62 107-170 16-77 (134)
104 PF05565 Sipho_Gp157: Siphovir 28.9 2.7E+02 0.0059 22.0 6.6 23 122-144 30-52 (162)
105 PF03127 GAT: GAT domain; Int 28.6 2.2E+02 0.0049 20.4 8.2 71 88-166 22-92 (100)
106 PRK10947 global DNA-binding tr 28.6 80 0.0017 25.2 3.5 22 144-165 44-65 (135)
107 KOG3091 Nuclear pore complex, 28.6 2.5E+02 0.0055 27.4 7.4 57 110-167 431-487 (508)
108 PF07996 T4SS: Type IV secreti 28.5 1.4E+02 0.003 23.2 4.8 53 106-158 125-189 (195)
109 PF02561 FliS: Flagellar prote 28.4 2.5E+02 0.0053 20.8 6.0 38 88-133 32-69 (122)
110 PF04423 Rad50_zn_hook: Rad50 28.3 78 0.0017 20.6 2.9 18 153-170 34-51 (54)
111 PHA01794 hypothetical protein 28.3 3.1E+02 0.0068 22.6 6.9 70 89-165 56-133 (134)
112 PF05769 DUF837: Protein of un 28.2 3.4E+02 0.0074 22.3 7.8 67 101-170 22-109 (181)
113 PRK04778 septation ring format 27.9 4.6E+02 0.0099 24.5 8.7 61 109-169 350-410 (569)
114 COG3352 FlaC Putative archaeal 27.9 2.3E+02 0.005 23.9 6.1 45 117-161 47-95 (157)
115 smart00502 BBC B-Box C-termina 27.8 2.1E+02 0.0044 19.7 7.0 67 104-170 36-103 (127)
116 PRK10947 global DNA-binding tr 27.6 1.2E+02 0.0026 24.2 4.3 62 107-170 16-77 (135)
117 KOG2629 Peroxisomal membrane a 27.6 3.7E+02 0.008 24.7 7.9 52 94-146 110-161 (300)
118 PF09969 DUF2203: Uncharacteri 27.4 2.9E+02 0.0063 21.3 7.9 24 146-169 44-67 (120)
119 cd07647 F-BAR_PSTPIP The F-BAR 27.4 3.5E+02 0.0076 22.2 9.6 29 140-168 151-183 (239)
120 PF13339 AATF-Che1: Apoptosis 27.3 2.6E+02 0.0056 20.9 5.9 25 142-166 101-125 (131)
121 cd07589 BAR_DNMBP The Bin/Amph 27.3 1.3E+02 0.0029 24.2 4.7 31 100-130 2-32 (195)
122 PF00611 FCH: Fes/CIP4, and EF 27.1 1.7E+02 0.0038 19.3 4.5 33 138-170 19-51 (91)
123 PRK12333 nucleoside triphospha 27.1 78 0.0017 27.1 3.4 35 74-114 23-57 (204)
124 PF05546 She9_MDM33: She9 / Md 26.9 2.6E+02 0.0056 24.2 6.5 54 105-163 7-60 (207)
125 PLN02381 valyl-tRNA synthetase 26.7 2E+02 0.0044 29.4 6.7 59 105-163 995-1060(1066)
126 PLN02943 aminoacyl-tRNA ligase 26.7 1.8E+02 0.0039 29.3 6.3 59 105-163 887-952 (958)
127 cd00179 SynN Syntaxin N-termin 26.6 2.6E+02 0.0057 20.5 9.0 42 87-128 23-69 (151)
128 TIGR00295 conserved hypothetic 26.6 78 0.0017 24.7 3.1 31 86-116 113-143 (164)
129 cd07591 BAR_Rvs161p The Bin/Am 25.7 1.1E+02 0.0023 25.6 3.9 25 100-124 8-32 (224)
130 COG5200 LUC7 U1 snRNP componen 25.2 3.2E+02 0.007 24.6 6.9 32 136-167 145-176 (258)
131 PF00038 Filament: Intermediat 25.2 2.7E+02 0.0059 23.1 6.2 23 144-166 282-307 (312)
132 COG1463 Ttg2C ABC-type transpo 25.2 3.2E+02 0.007 23.9 6.9 57 115-172 233-294 (359)
133 PF06785 UPF0242: Uncharacteri 25.1 1.5E+02 0.0031 28.2 5.0 64 106-169 151-214 (401)
134 PF05615 THOC7: Tho complex su 25.1 3E+02 0.0066 20.7 8.0 33 90-122 29-61 (139)
135 PF13949 ALIX_LYPXL_bnd: ALIX 24.6 3.2E+02 0.007 22.3 6.5 25 141-165 147-171 (296)
136 PRK02292 V-type ATP synthase s 24.5 3.5E+02 0.0075 21.2 6.4 24 146-169 63-86 (188)
137 PF07851 TMPIT: TMPIT-like pro 24.4 2E+02 0.0044 26.2 5.7 10 137-146 41-50 (330)
138 PRK14162 heat shock protein Gr 24.3 1.6E+02 0.0034 24.8 4.7 53 84-140 94-146 (194)
139 PF09720 Unstab_antitox: Putat 24.3 2E+02 0.0044 18.6 4.3 33 87-120 9-41 (54)
140 KOG3182 Predicted cation trans 24.0 86 0.0019 27.4 3.1 41 85-126 156-196 (212)
141 TIGR01220 Pmev_kin_Gr_pos phos 24.0 1.2E+02 0.0027 26.4 4.1 34 87-128 256-289 (358)
142 PRK00977 exodeoxyribonuclease 23.7 2.9E+02 0.0063 20.0 6.4 56 116-171 12-67 (80)
143 PF05769 DUF837: Protein of un 23.6 1.1E+02 0.0024 25.2 3.6 14 157-170 85-98 (181)
144 PF11101 DUF2884: Protein of u 23.4 2.5E+02 0.0055 23.4 5.7 69 87-155 151-219 (229)
145 PF12022 DUF3510: Domain of un 23.4 1.4E+02 0.003 22.8 3.8 15 142-156 87-101 (125)
146 KOG1883 Cofactor required for 23.4 68 0.0015 34.6 2.8 7 26-33 1407-1413(1517)
147 KOG2911 Uncharacterized conser 23.3 2.8E+02 0.0061 26.6 6.5 62 109-171 289-362 (439)
148 PRK13456 DNA protection protei 23.1 3.9E+02 0.0085 22.7 6.8 60 114-173 67-138 (186)
149 cd03415 CbiX_CbiC Archaeal sir 23.1 52 0.0011 25.3 1.5 23 96-118 6-28 (125)
150 KOG0083 GTPase Rab26/Rab37, sm 23.0 39 0.00085 28.7 0.9 38 90-127 58-97 (192)
151 PF05983 Med7: MED7 protein; 22.9 4E+02 0.0087 21.4 8.3 55 104-168 101-157 (162)
152 KOG4369 RTK signaling protein 22.7 54 0.0012 35.8 2.0 9 71-79 1884-1892(2131)
153 KOG0809 SNARE protein TLG2/Syn 22.6 2.6E+02 0.0057 25.6 6.0 25 107-131 104-128 (305)
154 PF12128 DUF3584: Protein of u 22.6 2.5E+02 0.0053 28.8 6.4 57 114-170 750-809 (1201)
155 TIGR01280 xseB exodeoxyribonuc 22.0 2.9E+02 0.0062 19.4 6.4 56 116-171 3-58 (67)
156 KOG1684 Enoyl-CoA hydratase [L 21.9 2.6E+02 0.0057 26.6 6.0 90 76-173 212-310 (401)
157 PRK14159 heat shock protein Gr 21.9 1.9E+02 0.0042 23.9 4.7 42 84-125 78-119 (176)
158 PF01017 STAT_alpha: STAT prot 21.9 1.7E+02 0.0036 23.5 4.2 19 149-167 72-90 (182)
159 PRK14149 heat shock protein Gr 21.9 1.9E+02 0.0042 24.3 4.7 30 84-113 91-120 (191)
160 TIGR01013 2a58 Phosphate:Na+ S 21.8 5.8E+02 0.012 22.9 8.0 54 78-131 336-399 (456)
161 PF08855 DUF1825: Domain of un 21.8 4E+02 0.0087 21.0 6.3 55 104-168 6-60 (108)
162 PF07904 Eaf7: Chromatin modif 21.8 88 0.0019 23.1 2.4 35 81-115 20-56 (91)
163 COG3879 Uncharacterized protei 21.7 3.4E+02 0.0074 24.1 6.4 55 107-165 54-108 (247)
164 COG1390 NtpE Archaeal/vacuolar 21.7 1.6E+02 0.0035 24.4 4.2 30 142-171 67-96 (194)
165 PF07445 priB_priC: Primosomal 21.4 4.4E+02 0.0095 21.3 7.5 57 106-165 69-125 (173)
166 cd09235 V_Alix Middle V-domain 21.3 4.3E+02 0.0092 23.1 6.9 45 88-133 58-102 (339)
167 PF10046 BLOC1_2: Biogenesis o 21.3 3.4E+02 0.0073 19.9 6.6 35 115-153 36-70 (99)
168 PF13675 PilJ: Type IV pili me 21.2 1.8E+02 0.0038 20.2 3.8 35 97-131 36-70 (112)
169 PLN02430 long-chain-fatty-acid 21.2 1.5E+02 0.0033 27.3 4.3 62 106-171 587-654 (660)
170 KOG4407 Predicted Rho GTPase-a 21.2 50 0.0011 36.2 1.4 17 132-148 423-439 (1973)
171 TIGR02609 doc_partner putative 21.2 1.5E+02 0.0034 20.6 3.5 26 145-170 48-74 (74)
172 PF08429 PLU-1: PLU-1-like pro 21.0 5.1E+02 0.011 21.8 7.4 62 89-157 134-195 (335)
173 PRK14140 heat shock protein Gr 20.9 2.4E+02 0.0052 23.6 5.1 26 84-109 92-117 (191)
174 PF06152 Phage_min_cap2: Phage 20.8 4.8E+02 0.01 23.3 7.2 36 134-169 43-78 (361)
175 TIGR03319 YmdA_YtgF conserved 20.7 3.2E+02 0.007 25.7 6.4 16 138-153 93-108 (514)
176 PF00435 Spectrin: Spectrin re 20.7 2.4E+02 0.0053 18.0 6.7 15 112-126 36-50 (105)
177 PF11945 WASH_WAHD: WAHD domai 20.7 90 0.002 27.7 2.7 29 107-137 50-78 (297)
178 TIGR00208 fliS flagellar biosy 20.5 3.9E+02 0.0085 20.3 6.4 64 109-172 47-124 (124)
179 PHA01076 putative encapsidatio 20.1 82 0.0018 29.2 2.4 23 151-173 40-62 (378)
180 PF03452 Anp1: Anp1; InterPro 20.1 1.4E+02 0.003 26.4 3.7 17 149-165 118-134 (269)
No 1
>PF07544 Med9: RNA polymerase II transcription mediator complex subunit 9; InterPro: IPR011425 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This entry represents subunit Med9 of the Mediator complex. Subunit Med9 is part of the middle module of the Mediator complex []; this associates with the core polymerase subunits to form the RNA polymerase II holoenzyme. Med9 alternatively known as the chromosome segregation protein, CSE2 (P33308 from SWISSPROT) is required, along with CSE1 (P33307 from SWISSPROT) for accurate mitotic chromosome segregation in Saccharomyces cerevisiae (Baker's yeast) [].; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=98.15 E-value=9.3e-06 Score=58.39 Aligned_cols=77 Identities=21% Similarity=0.406 Sum_probs=61.5
Q ss_pred HHHHHHHHHHhhh-CCcc-ccchHHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHHHH
Q 030692 86 LHLMENLADAIEN-GTRD-QQSDALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMN 163 (173)
Q Consensus 86 ~~Lve~LaDaie~-GtRD-Q~sDaLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kYr~ 163 (173)
+|.|-++-..+.+ +..| +..+.-+.+|..+|.+|..++.++.| |+ .+|+-|...+++.|..+...+++|.+||+
T Consensus 5 lP~i~~~l~~~~~d~~~~~kd~~~~~~~lk~Klq~ar~~i~~lpg-i~---~s~eeq~~~i~~Le~~i~~k~~~L~~~~~ 80 (83)
T PF07544_consen 5 LPLIFDILHQISKDPPLSSKDLDTATGSLKHKLQKARAAIRELPG-ID---RSVEEQEEEIEELEEQIRKKREVLQKFKE 80 (83)
T ss_pred cchHHHHHHHHhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHhCCC-cc---CCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444 5554 34567788899999999999999998 55 79999999999999999999999999999
Q ss_pred HHH
Q 030692 164 SVE 166 (173)
Q Consensus 164 sVE 166 (173)
.|+
T Consensus 81 ~~~ 83 (83)
T PF07544_consen 81 RVM 83 (83)
T ss_pred hhC
Confidence 885
No 2
>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=88.39 E-value=2.8 Score=28.34 Aligned_cols=58 Identities=24% Similarity=0.359 Sum_probs=43.8
Q ss_pred ccchHHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHHHHH
Q 030692 103 QQSDALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNS 164 (173)
Q Consensus 103 Q~sDaLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kYr~s 164 (173)
...|+|+.+++..|.+|..-|..|+.... +-++....-.+.+-+-|+...|..++++.
T Consensus 45 ~el~~l~~~i~~~~~~~~~~lk~l~~~~~----~~~~~~~~~~~~ri~~nq~~~L~~kf~~~ 102 (103)
T PF00804_consen 45 RELDELTDEIKQLFQKIKKRLKQLSKDNE----DSEGEEPSSNEVRIRKNQVQALSKKFQEV 102 (103)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHCTT--SHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhh----hhcccCCCcHHHHHHHHHHHHHHHHHHHH
Confidence 34588999999999999999999998743 44555556667777778888888887764
No 3
>PF00435 Spectrin: Spectrin repeat; InterPro: IPR002017 Spectrin repeats [] are found in several proteins involved in cytoskeletal structure. These include spectrin alpha and beta subunits [, ], alpha-actinin [] and dystrophin. The spectrin repeat forms a three-helix bundle. The second helix is interrupted by proline in some sequences. The repeats are defined by a characteristic tryptophan (W) residue at position 17 in helix A and a leucine (L) at 2 residues from the carboxyl end of helix C.; GO: 0005515 protein binding; PDB: 1HCI_A 1QUU_A 3FB2_B 1S35_A 1U5P_A 1U4Q_A 1CUN_B 1YDI_B 3EDV_A 1AJ3_A ....
Probab=85.36 E-value=4.2 Score=26.38 Aligned_cols=35 Identities=23% Similarity=0.406 Sum_probs=22.8
Q ss_pred chhhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030692 136 TVEGQRRKLEESEQLLNQRKELIDKYMNSVEELIE 170 (173)
Q Consensus 136 tV~gQk~~LeEseqlL~qRrdli~kYr~sVEel~~ 170 (173)
.|+-+.+++++.+..+..+++-|..-......|+.
T Consensus 35 ~~~~~~~~~~~~~~ei~~~~~~l~~l~~~~~~L~~ 69 (105)
T PF00435_consen 35 ELEEQLKKHKELQEEIESRQERLESLNEQAQQLID 69 (105)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHH
Confidence 56666666666666666666666666666666544
No 4
>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking. In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy
Probab=85.00 E-value=6.1 Score=31.64 Aligned_cols=59 Identities=24% Similarity=0.406 Sum_probs=37.7
Q ss_pred HHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHHHHHHHH
Q 030692 109 VNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEE 167 (173)
Q Consensus 109 v~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kYr~sVEe 167 (173)
+.++..+.++++.=++.|...|......++.-|+++++.+..|..|+..++.+...+++
T Consensus 58 ~~~~~~~~~~~~~r~~~l~~~i~~~~~~i~~~r~~l~~~~~~l~~~~~~l~~~~~~~~~ 116 (302)
T PF10186_consen 58 IQQLKREIEELRERLERLRERIERLRKRIEQKRERLEELRESLEQRRSRLSASQDLVES 116 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555555555566665555555677777788888888888888777755444443
No 5
>smart00150 SPEC Spectrin repeats.
Probab=83.53 E-value=9.7 Score=24.67 Aligned_cols=63 Identities=27% Similarity=0.266 Sum_probs=39.9
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 030692 107 ALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEELIEY 171 (173)
Q Consensus 107 aLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kYr~sVEel~~~ 171 (173)
.-+++|.+-++.....|++.. +++..-.|+.+.+++++.+.-+..+++-|..-....++|+..
T Consensus 5 ~~~~~l~~Wl~~~e~~l~~~~--~~~d~~~~~~~~~~~~~~~~e~~~~~~~v~~~~~~~~~L~~~ 67 (101)
T smart00150 5 RDADELEAWLSEKEALLASED--LGKDLESVEALLKKHEALEAELEAHEERVEALNELGEQLIEE 67 (101)
T ss_pred HHHHHHHHHHHHHHHHHhCCC--CCCCHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHc
Confidence 334555555555556665433 334455777777777777777777777777776666666654
No 6
>PF09177 Syntaxin-6_N: Syntaxin 6, N-terminal; InterPro: IPR015260 Members of this entry, which are found in the amino terminus of various SNARE proteins, adopt a structure consisting of an antiparallel three-helix bundle. Their exact function has not been determined, though it is known that they regulate the SNARE motif, as well as mediate various protein-protein interactions involved in membrane-transport []. ; GO: 0048193 Golgi vesicle transport, 0016020 membrane; PDB: 1LVF_B 2C5I_T 2C5J_A 2C5K_T 4DND_A.
Probab=81.18 E-value=9.1 Score=27.59 Aligned_cols=60 Identities=22% Similarity=0.350 Sum_probs=44.4
Q ss_pred chHHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHHHHHHHHH
Q 030692 105 SDALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEEL 168 (173)
Q Consensus 105 sDaLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kYr~sVEel 168 (173)
.+.+.+||.+-+..+.--|.-+..+|. .|+.--.+--=++..|..||..|+..+.-|.+|
T Consensus 37 ~~~~~~eL~~~l~~ie~~L~DL~~aV~----ive~np~kF~l~~~Ei~~Rr~fv~~~~~~i~~~ 96 (97)
T PF09177_consen 37 LKWLKRELRNALQSIEWDLEDLEEAVR----IVEKNPSKFNLSEEEISRRRQFVSAIRNQIKQM 96 (97)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHCCHHHHT-HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHhCccccCCCHHHHHHHHHHHHHHHHHHHhc
Confidence 466778888888888888888887766 444433333334567999999999999998875
No 7
>KOG0992 consensus Uncharacterized conserved protein [Function unknown]
Probab=75.83 E-value=11 Score=36.94 Aligned_cols=62 Identities=29% Similarity=0.412 Sum_probs=48.5
Q ss_pred HHHHHHHHHhhhCCccccchHHHHH---HHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHH
Q 030692 87 HLMENLADAIENGTRDQQSDALVNE---LNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESE 148 (173)
Q Consensus 87 ~Lve~LaDaie~GtRDQ~sDaLv~E---Lts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEse 148 (173)
+.++.-+++.+.-++.+..-++++| |+.|+++.--+++++.||-|..-.-.+.++-.|||-.
T Consensus 215 ~~~~s~~e~l~kl~~EqQlq~~~~ehkllee~~~rl~~~~s~VegS~S~~~l~~ek~r~~lee~~ 279 (613)
T KOG0992|consen 215 IVEESRLESLGKLNSEQQLQALIREHKLLEEHLERLHLQLSDVEGSWSGQNLALEKQRSRLEEQV 279 (613)
T ss_pred HHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHH
Confidence 4455556677777777777777766 7788999999999999999988888888887777643
No 8
>PF05008 V-SNARE: Vesicle transport v-SNARE protein N-terminus; InterPro: IPR007705 V-SNARE proteins are required for protein traffic between eukaryotic organelles. The v-SNAREs on transport vesicles interact with t-SNAREs on target membranes in order to facilitate this []. This domain is the N-terminal half of the V-Snare proteins. ; GO: 0006886 intracellular protein transport, 0016020 membrane; PDB: 2V8S_V 1VCS_A 3ONL_C 3ONJ_A 2QYW_A.
Probab=75.80 E-value=22 Score=24.14 Aligned_cols=45 Identities=16% Similarity=0.351 Sum_probs=32.3
Q ss_pred HHHHHHHHHHhhhCCccccchHHHHHHHHHHHHHHHHHhhhhhccc
Q 030692 86 LHLMENLADAIENGTRDQQSDALVNELNNHFEKCQQLLSSISESLD 131 (173)
Q Consensus 86 ~~Lve~LaDaie~GtRDQ~sDaLv~ELts~F~kcQQlLnSiS~Si~ 131 (173)
+.-|.+.-+.+..-+.|+. .++|.++...++.|..+|..|..-+.
T Consensus 5 ~~~i~~~l~~~~~~~~~~r-~~~i~~~e~~l~ea~~~l~qMe~E~~ 49 (79)
T PF05008_consen 5 TAEIKSKLERIKNLSGEQR-KSLIREIERDLDEAEELLKQMELEVR 49 (79)
T ss_dssp HHHHHHHHHHGGGS-CHHH-HHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHhhccChHHH-HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444455554444555 89999999999999999999986655
No 9
>PRK00808 hypothetical protein; Provisional
Probab=74.57 E-value=32 Score=26.35 Aligned_cols=72 Identities=15% Similarity=0.230 Sum_probs=47.7
Q ss_pred hhhHHHHHHHHHHHhhhCCccc---cchHHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHH
Q 030692 82 NFHLLHLMENLADAIENGTRDQ---QSDALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELI 158 (173)
Q Consensus 82 HfhL~~Lve~LaDaie~GtRDQ---~sDaLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli 158 (173)
|--|+.+|..|.+++..|.++. -.+.|++-...||..=+.++..+.-+ ..+.- ..+++..+..=+++.
T Consensus 21 H~~L~~lin~l~~a~~~~~~~~i~~~l~~L~~y~~~HF~~EE~lM~~~~Yp------~~~~H---~~~H~~fl~~l~~l~ 91 (150)
T PRK00808 21 HKRIVDYINHLHDAQDSPDRLAVAEVIDELIDYTLSHFAFEESLMEEAGYP------FLVPH---KRVHELFIKRVEEYR 91 (150)
T ss_pred HHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCC------CHHHH---HHHHHHHHHHHHHHH
Confidence 6679999999999998886431 24556666678899999999887644 22222 234555555555555
Q ss_pred HHHH
Q 030692 159 DKYM 162 (173)
Q Consensus 159 ~kYr 162 (173)
.+|+
T Consensus 92 ~~~~ 95 (150)
T PRK00808 92 ERFQ 95 (150)
T ss_pred HHHH
Confidence 5543
No 10
>KOG3598 consensus Thyroid hormone receptor-associated protein complex, subunit TRAP230 [Transcription]
Probab=71.94 E-value=1.9 Score=46.56 Aligned_cols=34 Identities=21% Similarity=0.192 Sum_probs=14.1
Q ss_pred hhhhhhHHHHHHHHHHHhhhCCccccchHHHHHHHH
Q 030692 79 LASNFHLLHLMENLADAIENGTRDQQSDALVNELNN 114 (173)
Q Consensus 79 LASHfhL~~Lve~LaDaie~GtRDQ~sDaLv~ELts 114 (173)
++.-.-=.||.-+-+.- .---.|.-.|||+-|--
T Consensus 2167 ~qa~qq~qplf~RQglq--qtqqQqqtaalVRQlQ~ 2200 (2220)
T KOG3598|consen 2167 YQAEQQRQPLFRRQGLQ--QTQQQQQTAALVRQLQM 2200 (2220)
T ss_pred cccccccchhhHHHHHH--HHHHHHHHHHHHHHHHH
Confidence 33333444555554321 11122334566655543
No 11
>PRK08027 flgL flagellar hook-associated protein FlgL; Reviewed
Probab=70.49 E-value=15 Score=31.61 Aligned_cols=80 Identities=13% Similarity=0.179 Sum_probs=43.4
Q ss_pred hHHHHHHHHHHHhhhCCccccc--hHHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHH
Q 030692 84 HLLHLMENLADAIENGTRDQQS--DALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKY 161 (173)
Q Consensus 84 hL~~Lve~LaDaie~GtRDQ~s--DaLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kY 161 (173)
.+|..+++|.++++.|+.|... .+....|..-......-++.|+.... .|.+.-..||-....+..+.-.+.+-
T Consensus 199 ~if~~l~~l~~~l~~~~~~~~~~~~~~~~~l~~a~~~id~~~~~v~~~~a----~vGar~n~le~~~~~~~~~~l~~~~~ 274 (317)
T PRK08027 199 NLFAMLDSAIAALKTPVAGSDADKETAAAALDKTNRGLKNSLNNVLTVRA----ELGTQLNELESLDSLGSDRALGQKQQ 274 (317)
T ss_pred hHHHHHHHHHHHhcCCCCCchhhHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHhccchHHHHHHHH
Confidence 5788899999999988755211 22334444333344444444443222 45555555555555555555555555
Q ss_pred HHHHHH
Q 030692 162 MNSVEE 167 (173)
Q Consensus 162 r~sVEe 167 (173)
++.+|+
T Consensus 275 ~s~led 280 (317)
T PRK08027 275 MSDLVD 280 (317)
T ss_pred HHhhhc
Confidence 555544
No 12
>TIGR02481 hemeryth_dom hemerythrin-like metal-binding domain. This model describes both members of the hemerythrin (TIGR00058) family of marine invertebrates and a broader collection of bacterial and archaeal homologs. Many of the latter group are multidomain proteins with signal-transducing domains such as the GGDEF diguanylate cyclase domain (TIGR00254, pfam00990) and methyl-accepting chemotaxis protein signaling domain (pfam00015). Most hemerythrins are oxygen-carriers with a bound non-heme iron, but at least one example is a cadmium-binding protein, apparently with a role in sequestering toxic metals rather than in binding oxygen. Patterns of conserved residues suggest that all prokaryotic instances of this domain bind iron or another heavy metal, but the exact function is unknown. Not surprisingly, the prokaryote with the most instances of this domain is Magnetococcus sp. MC-1, a magnetotactic bacterium.
Probab=69.48 E-value=39 Score=24.29 Aligned_cols=74 Identities=23% Similarity=0.409 Sum_probs=50.6
Q ss_pred hhhhHHHHHHHHHHHhhhCCcccc----chHHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHH
Q 030692 81 SNFHLLHLMENLADAIENGTRDQQ----SDALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKE 156 (173)
Q Consensus 81 SHfhL~~Lve~LaDaie~GtRDQ~----sDaLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrd 156 (173)
-|--|+.+|.+|.+++.+|..+.. .+.|+.-+..||..=+.++..+.-+ ..+.- .++++..+..=++
T Consensus 16 qH~~l~~~in~l~~a~~~~~~~~~~~~~l~~L~~y~~~HF~~EE~~M~~~~yp------~~~~H---~~~H~~~l~~l~~ 86 (126)
T TIGR02481 16 QHKELFELINELYDALSAGNGKDELKEILDELIDYTENHFADEEELMEEYGYP------DLEEH---KKEHEKFVKKIEE 86 (126)
T ss_pred HHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCC------CHHHH---HHHHHHHHHHHHH
Confidence 466799999999999998765543 3456666677899999999887643 22222 3456666666556
Q ss_pred HHHHHHH
Q 030692 157 LIDKYMN 163 (173)
Q Consensus 157 li~kYr~ 163 (173)
+..+|+.
T Consensus 87 l~~~~~~ 93 (126)
T TIGR02481 87 LQEAVAE 93 (126)
T ss_pred HHHHHHc
Confidence 6555543
No 13
>PRK10869 recombination and repair protein; Provisional
Probab=69.29 E-value=7.8 Score=36.06 Aligned_cols=29 Identities=38% Similarity=0.343 Sum_probs=25.8
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030692 142 RKLEESEQLLNQRKELIDKYMNSVEELIE 170 (173)
Q Consensus 142 ~~LeEseqlL~qRrdli~kYr~sVEel~~ 170 (173)
..|++.+..|+.=+.|..||..++|+|+.
T Consensus 296 ~~l~~ie~Rl~~l~~L~rKyg~~~~~~~~ 324 (553)
T PRK10869 296 NRLAELEQRLSKQISLARKHHVSPEELPQ 324 (553)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCHHHHHH
Confidence 34899999999999999999999999875
No 14
>TIGR00634 recN DNA repair protein RecN. All proteins in this family for which functions are known are ATP binding proteins involved in the initiation of recombination and recombinational repair.
Probab=69.10 E-value=14 Score=34.05 Aligned_cols=61 Identities=30% Similarity=0.323 Sum_probs=39.4
Q ss_pred HHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030692 110 NELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEELIE 170 (173)
Q Consensus 110 ~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kYr~sVEel~~ 170 (173)
.++...++.+.-.|..++..|....=.++.=-..|++.+..|..=+.|..||..+++++++
T Consensus 269 ~~~~~~l~~~~~~l~d~~~~l~~~~~~l~~dp~~L~ele~RL~~l~~LkrKyg~s~e~l~~ 329 (563)
T TIGR00634 269 RELAEQVGNALTEVEEATRELQNYLDELEFDPERLNEIEERLAQIKRLKRKYGASVEEVLE 329 (563)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHhCCCHHHHHH
Confidence 4444444444444444554444332233444456889999999999999999999988875
No 15
>PF04048 Sec8_exocyst: Sec8 exocyst complex component specific domain; InterPro: IPR007191 Sec8 is a component of the exocyst complex involved in the docking of exocystic vesicles with a fusion site on the plasma membrane. The exocyst complex is composed of Sec3, Sec5, Sec6, Sec8, Sec10, Sec15, Exo70 and Exo84.; GO: 0006904 vesicle docking involved in exocytosis, 0015031 protein transport, 0000145 exocyst
Probab=66.51 E-value=14 Score=28.45 Aligned_cols=61 Identities=25% Similarity=0.371 Sum_probs=44.8
Q ss_pred hHHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHH-------HHHHHHH
Q 030692 106 DALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELID-------KYMNSVE 166 (173)
Q Consensus 106 DaLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~-------kYr~sVE 166 (173)
+.+|++=-.-|.++=.-.+.|..+|+.-.-.|..=|..|+++..+|.-||+-+. +|+.|++
T Consensus 57 ~~vV~eh~q~Fn~sI~sy~~i~~~i~~sq~~i~~lK~~L~~ak~~L~~~~~eL~~L~~~s~~~~~mi~ 124 (142)
T PF04048_consen 57 QEVVNEHYQGFNSSIGSYSQILSSISESQERIRELKESLQEAKSLLGCRREELKELWQRSQEYKEMIE 124 (142)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHH
Confidence 455555555588777777777777766666888889999999999988877653 5666654
No 16
>PRK07192 flgL flagellar hook-associated protein FlgL; Reviewed
Probab=65.93 E-value=40 Score=28.14 Aligned_cols=77 Identities=14% Similarity=0.242 Sum_probs=41.0
Q ss_pred hhHHHHHHHHHHHhhhCCccccc---hHHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHH
Q 030692 83 FHLLHLMENLADAIENGTRDQQS---DALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELID 159 (173)
Q Consensus 83 fhL~~Lve~LaDaie~GtRDQ~s---DaLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~ 159 (173)
..+|..+..+.+++.++.-+-.. .+.+.+....|+.+..-|...-+.| ...-..||.....+...+..+.
T Consensus 189 ~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~l~~ld~a~~~l~~~ra~i-------Ga~~~rle~~~~~~~~~~~~l~ 261 (305)
T PRK07192 189 LDVFNTLDKLIDLLETPALPAADAALTAAVDEALGAIDDALDNVLTVRTEL-------GSRQNELDLLDGNHEDRKLQYQ 261 (305)
T ss_pred chHHHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHhhhhHHHHHH
Confidence 36777777788888766532111 2333433334444444444443444 4444555666666666666665
Q ss_pred HHHHHHH
Q 030692 160 KYMNSVE 166 (173)
Q Consensus 160 kYr~sVE 166 (173)
..++.+|
T Consensus 262 ~~~s~i~ 268 (305)
T PRK07192 262 KILSDLQ 268 (305)
T ss_pred HHHHHhh
Confidence 5555554
No 17
>PRK08870 flgL flagellar hook-associated protein FlgL; Reviewed
Probab=63.97 E-value=50 Score=29.00 Aligned_cols=81 Identities=15% Similarity=0.245 Sum_probs=45.1
Q ss_pred hhHHHHHHHHHHHhhhCCccc-cchHHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHH
Q 030692 83 FHLLHLMENLADAIENGTRDQ-QSDALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKY 161 (173)
Q Consensus 83 fhL~~Lve~LaDaie~GtRDQ-~sDaLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kY 161 (173)
..+|-.+..+.++++.++-|- ..+++-..|..-.+....-++.|..... .|.+....||.....+..++..+.+.
T Consensus 287 ~~if~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~ld~a~~~v~~~~a----~iGar~nrle~~~~~~~~~~~~l~~~ 362 (404)
T PRK08870 287 ASIFDTLDDAIAALESPVSTPAADAALQNALAQALRNLDNALNNVLTARA----SVGARLNELDSAEAVHEDNKLQNTSA 362 (404)
T ss_pred CCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHH----HHhHHHHHHHHHHhhhHHHHHHHHHH
Confidence 468888888888888886431 1222222333333333333444432222 45555666666666666666666666
Q ss_pred HHHHHH
Q 030692 162 MNSVEE 167 (173)
Q Consensus 162 r~sVEe 167 (173)
.+.+|+
T Consensus 363 ~s~led 368 (404)
T PRK08870 363 LSDLED 368 (404)
T ss_pred HHHhhc
Confidence 666654
No 18
>PRK06663 flagellar hook-associated protein FlgL; Validated
Probab=63.27 E-value=29 Score=31.07 Aligned_cols=74 Identities=14% Similarity=0.269 Sum_probs=45.8
Q ss_pred hHHHHHHHHHHHhhhCCccccchHHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHHHH
Q 030692 84 HLLHLMENLADAIENGTRDQQSDALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMN 163 (173)
Q Consensus 84 hL~~Lve~LaDaie~GtRDQ~sDaLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kYr~ 163 (173)
.+|-.+..|.++++.|+++- ++......++.. ++.|..... .|.+.-..||.....+..++..+.+.++
T Consensus 310 ~if~~l~~l~~~l~~~~~~~----~~~~al~~ld~a---~~~v~~~ra----~iGar~n~le~~~~~~~~~~~~l~~~~S 378 (419)
T PRK06663 310 SIFDSLIQLRDALLNNDQEL----IGGRALGEIDEA---LDNLLTTLA----DLGAKENRLDRSYARISKEKLDMTEALS 378 (419)
T ss_pred cHHHHHHHHHHHHhCCChhh----HHHHHHHHHHHH---HHHHHHHHH----HhhHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 58889999999999995532 333333333333 333332221 5556666777777777777777777777
Q ss_pred HHHHH
Q 030692 164 SVEEL 168 (173)
Q Consensus 164 sVEel 168 (173)
.+|++
T Consensus 379 ~ledv 383 (419)
T PRK06663 379 KNEDI 383 (419)
T ss_pred hccCc
Confidence 76654
No 19
>PF04108 APG17: Autophagy protein Apg17 ; InterPro: IPR007240 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Autophagy protein 17 (Apg17) is required for activating Apg1 protein kinases. This entry also contains Autophagy protein 11 which is involved in cytoplasm to vacuole transport (Cvt) and pexophagy. ; GO: 0006914 autophagy
Probab=62.50 E-value=29 Score=31.21 Aligned_cols=23 Identities=26% Similarity=0.612 Sum_probs=18.5
Q ss_pred hHHHHHHHHHHHHHHHHHhhhhh
Q 030692 106 DALVNELNNHFEKCQQLLSSISE 128 (173)
Q Consensus 106 DaLv~ELts~F~kcQQlLnSiS~ 128 (173)
-++.+-||+||++|...+.-.+|
T Consensus 209 a~lL~sLt~HfDqC~~a~~~~eg 231 (412)
T PF04108_consen 209 ASLLESLTNHFDQCVTAVRHTEG 231 (412)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcc
Confidence 35677899999999999986554
No 20
>PRK14692 lagellar hook-associated protein FlgL; Provisional
Probab=61.67 E-value=40 Score=33.68 Aligned_cols=82 Identities=12% Similarity=0.192 Sum_probs=58.9
Q ss_pred hhHHHHHHHHHHHhhhCCccc---cchHHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHH
Q 030692 83 FHLLHLMENLADAIENGTRDQ---QSDALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELID 159 (173)
Q Consensus 83 fhL~~Lve~LaDaie~GtRDQ---~sDaLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~ 159 (173)
..+|--++++.++++.|..|- ..|+....|.+.......+++.|+.... .|..+...||-....+..+.--+.
T Consensus 630 ~dvF~~Ld~lI~AL~sg~~~~~~~~~d~~~aglq~aL~~LD~~~D~V~~~rA----~vGAr~NrlE~~~~r~e~~~l~l~ 705 (749)
T PRK14692 630 VDIIKDLDSMIDAVLKGNMRADSESEDPRNTGMQGALERLDHLADHVSKLNT----TMGAYHNTIEGVNTRTSFLSVNVQ 705 (749)
T ss_pred hhHHHHHHHHHHHHhCCCcccccccchhhhhHHHHHHHHHHHHHHHHHHHHH----HHhHHHHHHHHHHHhhHHHHHHHH
Confidence 368888999999999996431 2355555666656666667777665544 677788888888888888888787
Q ss_pred HHHHHHHHH
Q 030692 160 KYMNSVEEL 168 (173)
Q Consensus 160 kYr~sVEel 168 (173)
+.++-+|++
T Consensus 706 ~~lS~leDv 714 (749)
T PRK14692 706 SIKSNVIDV 714 (749)
T ss_pred HHHHhhhcc
Confidence 777777653
No 21
>COG0497 RecN ATPase involved in DNA repair [DNA replication, recombination, and repair]
Probab=60.52 E-value=16 Score=35.20 Aligned_cols=29 Identities=41% Similarity=0.549 Sum_probs=26.3
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030692 142 RKLEESEQLLNQRKELIDKYMNSVEELIE 170 (173)
Q Consensus 142 ~~LeEseqlL~qRrdli~kYr~sVEel~~ 170 (173)
..|++.|..|..=+-|..||...|++|+.
T Consensus 297 ~~L~~ve~Rl~~L~~l~RKY~~~~~~l~~ 325 (557)
T COG0497 297 NRLEEVEERLFALKSLARKYGVTIEDLLE 325 (557)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCHHHHHH
Confidence 46999999999999999999999999875
No 22
>TIGR02833 spore_III_AB stage III sporulation protein AB. A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. This protein, a member of this panel, is designated stage III sporulation protein AB.
Probab=59.78 E-value=77 Score=25.31 Aligned_cols=79 Identities=16% Similarity=0.244 Sum_probs=49.9
Q ss_pred HHHHHHHHHHHhhhCCccccchHHHHHHHHHHH------HHHHHHhhhhhcccccccchhhhhcchHHHHHHH----HHH
Q 030692 85 LLHLMENLADAIENGTRDQQSDALVNELNNHFE------KCQQLLSSISESLDTKAMTVEGQRRKLEESEQLL----NQR 154 (173)
Q Consensus 85 L~~Lve~LaDaie~GtRDQ~sDaLv~ELts~F~------kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL----~qR 154 (173)
+-.+...+|+.++.++-+--.++.-+.+..... .=..+|..++.+|+ ..++++|.+.++-+...| +.-
T Consensus 66 ~~~~f~~~a~~L~~~~g~s~~~~w~~~~~~~~~~~~L~~~d~eiL~~lG~~LG--~~D~e~Q~k~i~L~~~~L~~~~~~a 143 (170)
T TIGR02833 66 VNLLFESASERLKEGEGLTVYEAWKKALNEVWKQTALQKSEKEILLQFGKTLG--ESDREGQQKHINLTLEHLERQLTEA 143 (170)
T ss_pred HHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhhhccCCCHHHHHHHHHHHHHHC--cCcHHHHHHHHHHHHHHHHHHHHHH
Confidence 445566777777777655444544333332211 13567788888877 479999999988775544 445
Q ss_pred HHHHHHHHHHH
Q 030692 155 KELIDKYMNSV 165 (173)
Q Consensus 155 rdli~kYr~sV 165 (173)
|+-..||.|+.
T Consensus 144 ~~~~~k~~Kmy 154 (170)
T TIGR02833 144 EDEQKKNEKMY 154 (170)
T ss_pred HHHHHhcccHH
Confidence 66666766654
No 23
>PF04129 Vps52: Vps52 / Sac2 family ; InterPro: IPR007258 Vps52 complexes with Vps53 and Vps54 to form a multi-subunit complex involved in regulating membrane trafficking events [].
Probab=55.02 E-value=32 Score=31.68 Aligned_cols=25 Identities=16% Similarity=0.312 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 030692 145 EESEQLLNQRKELIDKYMNSVEELI 169 (173)
Q Consensus 145 eEseqlL~qRrdli~kYr~sVEel~ 169 (173)
.+....|+.||.+.++-...|++|+
T Consensus 59 ~~l~~~L~Nrk~~~~~L~~~i~~i~ 83 (508)
T PF04129_consen 59 SSLNVKLKNRKAVEEKLSPFIDDIV 83 (508)
T ss_pred HHHHHHHHhHHHHHHHHHHHHHHHc
Confidence 3456789999999999999998876
No 24
>PF10458 Val_tRNA-synt_C: Valyl tRNA synthetase tRNA binding arm; InterPro: IPR019499 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the C-terminal domain of Valyl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Valyl-tRNA synthetase (6.1.1.9 from EC) is an alpha monomer that belongs to class Ia.; GO: 0000166 nucleotide binding, 0004832 valine-tRNA ligase activity, 0005524 ATP binding, 0006438 valyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1IVS_B 1GAX_B.
Probab=54.74 E-value=66 Score=21.91 Aligned_cols=54 Identities=28% Similarity=0.447 Sum_probs=42.6
Q ss_pred chHHHHHHHHHHHHHHHHHhhhhhccccccc-------chhhhhcchHHHHHHHHHHHHHH
Q 030692 105 SDALVNELNNHFEKCQQLLSSISESLDTKAM-------TVEGQRRKLEESEQLLNQRKELI 158 (173)
Q Consensus 105 sDaLv~ELts~F~kcQQlLnSiS~Si~sk~~-------tV~gQk~~LeEseqlL~qRrdli 158 (173)
.++.+..|....++++.-+.++.+-|++... .|+.-|.+|++++..+..=++-|
T Consensus 2 ~~~E~~rL~Kel~kl~~~i~~~~~kL~n~~F~~kAP~eVve~er~kl~~~~~~~~~l~~~l 62 (66)
T PF10458_consen 2 VEAEIERLEKELEKLEKEIERLEKKLSNENFVEKAPEEVVEKEREKLEELEEELEKLEEAL 62 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHCSTTHHHHS-CCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHcCccccccCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3678889999999999999999988887544 68888888888887766544433
No 25
>PF07197 DUF1409: Protein of unknown function (DUF1409); InterPro: IPR010811 This represents a short conserved region (approximately 50 residues long), sometimes repeated, within a number of hypothetical Oryza sativa proteins of unknown function.
Probab=54.19 E-value=9.6 Score=26.53 Aligned_cols=35 Identities=26% Similarity=0.303 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHHhhhhhcccccccchhhhhcchH
Q 030692 111 ELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLE 145 (173)
Q Consensus 111 ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~Le 145 (173)
.+.++|+.|+-.|..=-.-+-+-+.++|-+|-||+
T Consensus 16 ~IrarleE~qa~i~~e~~~l~~~~~~lEq~~~KL~ 50 (51)
T PF07197_consen 16 SIRARLEEIQAQIPDELAKLATPAVYLEQHQFKLE 50 (51)
T ss_pred hHHHHHHHHHHHhhHHHHHhcChHHHHHHHHHHhc
Confidence 46789999998887766666677788888888875
No 26
>PF12729 4HB_MCP_1: Four helix bundle sensory module for signal transduction; InterPro: IPR024478 This entry represents a four-helix bundle that operates as a ubiquitous sensory module in prokaryotic signal-transduction, which is known as four-helix bundles methyl-accepting chemotaxis protein (4HB_MCP) domain. The 4HB_MCP is always found between two predicted transmembrane helices indicating that it detects only extracellular signals. In many cases the domain is associated with a cytoplasmic HAMP domain suggesting that most proteins carrying the bundle might share the mechanism of transmembrane signalling which is well-characterised in E coli chemoreceptors [].
Probab=53.27 E-value=76 Score=22.18 Aligned_cols=43 Identities=7% Similarity=0.123 Sum_probs=25.2
Q ss_pred HHHHHHHHHHhhhCCccccchHHHHHHHHHHHHHHHHHhhhhhc
Q 030692 86 LHLMENLADAIENGTRDQQSDALVNELNNHFEKCQQLLSSISES 129 (173)
Q Consensus 86 ~~Lve~LaDaie~GtRDQ~sDaLv~ELts~F~kcQQlLnSiS~S 129 (173)
..+--.+.+.+-..+.+. .++...++.....++...+..+...
T Consensus 59 ~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~ 101 (181)
T PF12729_consen 59 QRIRRALRRYLLATDPEE-RQEIEKEIDEARAEIDEALEEYEKL 101 (181)
T ss_pred HHHHHHHHHhhhcCCHHH-HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 333344444555544433 3666777777777777777777654
No 27
>cd00176 SPEC Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; the repeats are independent folding units; tandem repeats are found in differing numbers and arrange in an antiparallel manner to form dimers; the repeats are defined by a characteristic tryptophan (W) residue in helix A and a leucine (L) at the carboxyl end of helix C and separated by a linker of 5 residues; two copies of the repeat are present here
Probab=53.26 E-value=64 Score=23.27 Aligned_cols=35 Identities=31% Similarity=0.322 Sum_probs=17.3
Q ss_pred chhhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030692 136 TVEGQRRKLEESEQLLNQRKELIDKYMNSVEELIE 170 (173)
Q Consensus 136 tV~gQk~~LeEseqlL~qRrdli~kYr~sVEel~~ 170 (173)
.|+.+.++++....-+..|+.-+.+-....++|+.
T Consensus 34 ~~~~~l~~~~~~~~e~~~~~~~~~~l~~~~~~L~~ 68 (213)
T cd00176 34 SVEALLKKHEALEAELAAHEERVEALNELGEQLIE 68 (213)
T ss_pred HHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHh
Confidence 45555555555555555555444444444444443
No 28
>PRK08412 flgL flagellar hook-associated protein FlgL; Validated
Probab=52.62 E-value=66 Score=32.60 Aligned_cols=84 Identities=12% Similarity=0.129 Sum_probs=57.0
Q ss_pred hhhhHHHHHHHHHHHhhhCCcccc-------chHHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHH
Q 030692 81 SNFHLLHLMENLADAIENGTRDQQ-------SDALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQ 153 (173)
Q Consensus 81 SHfhL~~Lve~LaDaie~GtRDQ~-------sDaLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~q 153 (173)
.+..+|-.+++|.++++.|..+.. +++.-..|..-.+....++..|+..+. .|.++-..||.....+..
T Consensus 702 p~~dIF~tLd~lI~AL~sg~~~~~~~~~s~~~~~r~~~I~~aL~~ID~alD~V~~~rA----~VGARlNrLE~~~~r~ed 777 (827)
T PRK08412 702 PSVNFFDQLDNIITAVRKGIYRPDALGDTYSSDMRNIGIQNGITLIDHLSDHVEKMHA----KNGAHSNAFENIIRRNEV 777 (827)
T ss_pred CCccHHHHHHHHHHHHhCCCCccccccccccchhhHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHhhHH
Confidence 456789999999999999863321 112233444455566666666665443 777777888888888887
Q ss_pred HHHHHHHHHHHHHHH
Q 030692 154 RKELIDKYMNSVEEL 168 (173)
Q Consensus 154 Rrdli~kYr~sVEel 168 (173)
++--+.+.++-+|++
T Consensus 778 ~~l~l~~~lSdleDl 792 (827)
T PRK08412 778 LKTQVQSIRSEVIGT 792 (827)
T ss_pred HHHHHHHHHHhhhcc
Confidence 777777777777653
No 29
>KOG4747 consensus Two-component phosphorelay intermediate involved in MAP kinase cascade regulation [Signal transduction mechanisms]
Probab=52.53 E-value=62 Score=26.89 Aligned_cols=28 Identities=18% Similarity=0.258 Sum_probs=23.0
Q ss_pred chhhhhcchHHHHHHHHHHHHHHHHHHH
Q 030692 136 TVEGQRRKLEESEQLLNQRKELIDKYMN 163 (173)
Q Consensus 136 tV~gQk~~LeEseqlL~qRrdli~kYr~ 163 (173)
-++|++|.|++-+..+..=|.-+..|..
T Consensus 109 n~egcvr~l~~v~ie~~~lkkkL~~~f~ 136 (150)
T KOG4747|consen 109 NIEGCVRCLQQVKIEYSLLKKKLETLFQ 136 (150)
T ss_pred cchhHhhchHHHHHHHHHHHHHHHHHHH
Confidence 6799999999988888777777777776
No 30
>KOG3661 consensus Uncharacterized conserved protein [Function unknown]
Probab=51.70 E-value=11 Score=38.37 Aligned_cols=48 Identities=29% Similarity=0.524 Sum_probs=40.5
Q ss_pred hCCccccchHHHHHHHHH---HHHHHHHHhhhhhcccccccchhhhhcchH
Q 030692 98 NGTRDQQSDALVNELNNH---FEKCQQLLSSISESLDTKAMTVEGQRRKLE 145 (173)
Q Consensus 98 ~GtRDQ~sDaLv~ELts~---F~kcQQlLnSiS~Si~sk~~tV~gQk~~Le 145 (173)
+|+-|.+-|+-|.||..+ +++..+||+||+..+++.+....|=+-+|.
T Consensus 577 TgdLdtkIDekvaEisrrl~~yA~~kkll~SmaS~lns~~~Sl~~Sr~Sl~ 627 (1019)
T KOG3661|consen 577 TGDLDTKIDEKVAEISRRLHKYAKLKKLLDSMASTLNSGAFSLAGSRFSLA 627 (1019)
T ss_pred ccchhhhhhHHHHHHHHHHHHHHHHHHHHHHHhhccCCcccccccceeccc
Confidence 688999999999999876 888999999999999998887776555544
No 31
>PF10264 Stork_head: Winged helix Storkhead-box1 domain; InterPro: IPR019391 In humans the Storkhead-box protein controls polyploidization of extravillus trophoblast and is implicated in pre-eclampsia []. This entry represents the conserved N-terminal winged-helix domain, which is likely to bind DNA.
Probab=50.95 E-value=11 Score=28.08 Aligned_cols=38 Identities=24% Similarity=0.285 Sum_probs=32.1
Q ss_pred hhhhHHHHHHHHHHHhhhCCccccc---hHHHHHHHHHHHH
Q 030692 81 SNFHLLHLMENLADAIENGTRDQQS---DALVNELNNHFEK 118 (173)
Q Consensus 81 SHfhL~~Lve~LaDaie~GtRDQ~s---DaLv~ELts~F~k 118 (173)
+..++.||-|.|-+||..=|+++.+ |+|++.|+.+|-.
T Consensus 5 ~Q~qfiPL~EvlC~~I~dln~~~~~at~E~l~~~L~~~yp~ 45 (80)
T PF10264_consen 5 SQSQFIPLPEVLCWVISDLNAAGQPATQETLREHLRKHYPG 45 (80)
T ss_pred ccccceeHHHHHHHHHHHHhccCCcchHHHHHHHHHHhCCC
Confidence 5678999999999999998888864 7888888888865
No 32
>PRK12717 flgL flagellar hook-associated protein FlgL; Provisional
Probab=50.89 E-value=93 Score=29.16 Aligned_cols=80 Identities=11% Similarity=0.161 Sum_probs=43.8
Q ss_pred hHHHHHHHHHHHhhhCCccccc--hHHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHH
Q 030692 84 HLLHLMENLADAIENGTRDQQS--DALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKY 161 (173)
Q Consensus 84 hL~~Lve~LaDaie~GtRDQ~s--DaLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kY 161 (173)
.+|.-|..+.+|+++++-+... .++.++|..-......-++.|...- -.|.+....||........++..+.+-
T Consensus 406 svf~tl~~~i~al~~p~~~~~~~~~a~~~~l~~~L~~ld~a~~~v~~~~----a~iG~rln~ld~~~~~~~~~~l~~~~~ 481 (523)
T PRK12717 406 NILDTLSQLRKALSTPTDGDPAARQALRAALASALGNLASAIDQVDTAR----SSIGARGNALDIQGTTNESLSLANTTT 481 (523)
T ss_pred hHHHHHHHHHHHhcCCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5788888888888887655332 2455566555444444444443111 144455555555555555555555555
Q ss_pred HHHHHH
Q 030692 162 MNSVEE 167 (173)
Q Consensus 162 r~sVEe 167 (173)
++.+|+
T Consensus 482 ls~led 487 (523)
T PRK12717 482 QSSIRD 487 (523)
T ss_pred Hhhhhc
Confidence 555544
No 33
>PF08385 DHC_N1: Dynein heavy chain, N-terminal region 1; InterPro: IPR013594 Dynein heavy chains interact with other heavy chains to form dimers, and with intermediate chain-light chain complexes to form a basal cargo binding unit []. The region featured in this family includes the sequences implicated in mediating these interactions []. It is thought to be flexible and not to adopt a rigid conformation [].
Probab=50.67 E-value=1.3e+02 Score=26.58 Aligned_cols=66 Identities=23% Similarity=0.389 Sum_probs=46.5
Q ss_pred CccccchHHHHHHHHH-HHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030692 100 TRDQQSDALVNELNNH-FEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEELI 169 (173)
Q Consensus 100 tRDQ~sDaLv~ELts~-F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kYr~sVEel~ 169 (173)
-.+.+.-.|++.+++. ..+|...|+... |= .+.++.=+.+|.+.-..++.-++.+.+|+..++++.
T Consensus 142 ~~~~R~~~Ll~~isn~ii~~~~~~l~~~~--l~--~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 208 (579)
T PF08385_consen 142 YPPERMTSLLEKISNQIIQKCQKYLDPSD--LF--SGDYDEFIKKLNECIDILESWKETYEEFREQIRELT 208 (579)
T ss_pred CchhHHHHHHHHHHHHHHHHHHHHhCchh--hh--cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence 4677888999999999 889999884321 11 124555567777777777777777777777776553
No 34
>PRK10132 hypothetical protein; Provisional
Probab=50.31 E-value=1.1e+02 Score=23.39 Aligned_cols=68 Identities=15% Similarity=0.268 Sum_probs=38.8
Q ss_pred hHHHHHHHHHHHHHHHHHhhhhhcccccccchhhh-hcchHHHHHHHHHHHHHHHHHHHHH---HHHHhcCC
Q 030692 106 DALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQ-RRKLEESEQLLNQRKELIDKYMNSV---EELIEYEP 173 (173)
Q Consensus 106 DaLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQ-k~~LeEseqlL~qRrdli~kYr~sV---Eel~~~~p 173 (173)
+.|..||.+=.+....||.+.+..-+.+.-.++.. ...|++.+..|....+...++|..+ ++.|...|
T Consensus 15 e~L~~Dl~~L~~~le~ll~~~~~~~~~~~~~lR~r~~~~L~~ar~~l~~~~~~~~~~~~a~~~~~~~V~~~P 86 (108)
T PRK10132 15 QDIQNDVNQLADSLESVLKSWGSDAKGEAEAARRKAQALLKETRARMHGRTRVQQAARDAVGCADTFVRERP 86 (108)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHhCc
Confidence 68888888888888999988876543333222222 1234555555554445444555543 44444433
No 35
>cd07671 F-BAR_PSTPIP1 The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Proline-Serine-Threonine Phosphatase-Interacting Protein 1. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Proline-Serine-Threonine Phosphatase-Interacting Protein 1 (PSTPIP1), also known as CD2 Binding Protein 1 (CD2BP1), is mainly expressed in hematopoietic cells. It is a binding partner of the cell surface receptor CD2 and PTP-PEST, a tyrosine phosphatase which functions in cell motility and Rac1 regulation. It also plays a role in the activation of the Wiskott-Aldrich syndrome protein (WASP), which couples actin rearrangement and T cell activation. Mutations in the gene encoding PSTPIP1 cause the autoinflammatory disorder known as PAPA (pyogenic sterile arthritis, pyoderma gangrenosum, and acne) syndrome. PSTPIP1 contains an N-terminal F-BAR domain, PEST motifs, and a C-terminal SH3 domain. F-BAR
Probab=50.08 E-value=1e+02 Score=26.08 Aligned_cols=62 Identities=18% Similarity=0.238 Sum_probs=39.0
Q ss_pred HHHHHHHHHHHHHHHhhhhhccc-ccc------------------cchhhhhcchHHHHHHHHHHHHHH----HHHHHHH
Q 030692 109 VNELNNHFEKCQQLLSSISESLD-TKA------------------MTVEGQRRKLEESEQLLNQRKELI----DKYMNSV 165 (173)
Q Consensus 109 v~ELts~F~kcQQlLnSiS~Si~-sk~------------------~tV~gQk~~LeEseqlL~qRrdli----~kYr~sV 165 (173)
..++-+.|+|.|+...+.-..+. +|. +.-.+-...+|..++.++.++.-+ .+|++.|
T Consensus 101 rK~~e~~~eK~qk~~~~~~k~l~ksKk~Ye~~Cke~~~a~q~~~k~~~~~t~keleK~~~K~~k~~~~~~~a~~~Y~~~v 180 (242)
T cd07671 101 RKKYEAVMERVQKSKVSLYKKTMESKKTYEQRCREADEAEQTFERSSSTGNPKQSEKSQNKAKQCRDAATEAERVYKQNI 180 (242)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34466778888887765421111 000 011234556888999999988777 6799999
Q ss_pred HHHHh
Q 030692 166 EELIE 170 (173)
Q Consensus 166 Eel~~ 170 (173)
++|-+
T Consensus 181 ~~l~~ 185 (242)
T cd07671 181 EQLDK 185 (242)
T ss_pred HHHHH
Confidence 87744
No 36
>PF02268 TFIIA_gamma_N: Transcription initiation factor IIA, gamma subunit, helical domain; InterPro: IPR015872 Transcription factor IIA (TFIIA) is one of several factors that form part of a transcription pre-initiation complex along with RNA polymerase II, the TATA-box-binding protein (TBP) and TBP-associated factors, on the TATA-box sequence upstream of the initiation start site. After initiation, some components of the pre-initiation complex (including TFIIA) remain attached and re-initiate a subsequent round of transcription. TFIIA binds to TBP to stabilise TBP binding to the TATA element. TFIIA also inhibits the cytokine HMGB1 (high mobility group 1 protein) binding to TBP [], and can dissociate HMGB1 already bound to TBP/TATA-box. Human and Drosophila TFIIA have three subunits: two large subunits, LN/alpha and LC/beta, derived from the same gene, and a small subunit, S/gamma. Yeast TFIIA has two subunits: a large TOA1 subunit that shows sequence similarity to the N-terminal of LN/alpha and the C-terminal of LC/beta, and a small subunit, TOA2 that is highly homologous with S/gamma. The conserved regions of the large and small subunits of TFIIA combine to form two domains: a four-helix bundle (helical domain) composed of two helices from each of the N-terminal regions of TOA1 and TOA2 in yeast; and a beta-barrel (beta-barrel domain) composed of beta-sheets from the C-terminal regions of TOA1 and TOA2 []. This entry represents the alpha-helical domain found at the N-terminal of the gamma subunit of transcription factor TFIIA.; GO: 0006367 transcription initiation from RNA polymerase II promoter, 0005672 transcription factor TFIIA complex; PDB: 1NVP_D 1RM1_B 1YTF_D 1NH2_D.
Probab=49.53 E-value=38 Score=23.18 Aligned_cols=30 Identities=23% Similarity=0.446 Sum_probs=25.5
Q ss_pred HHHHHHHHHhhhCCccccchHHHHHHHHHHHHH
Q 030692 87 HLMENLADAIENGTRDQQSDALVNELNNHFEKC 119 (173)
Q Consensus 87 ~Lve~LaDaie~GtRDQ~sDaLv~ELts~F~kc 119 (173)
.|.|.|.|.|..|. -++.|...+-++|+||
T Consensus 14 aL~dtLDeli~~~~---I~p~La~kVL~~FDks 43 (49)
T PF02268_consen 14 ALTDTLDELIQEGK---ITPQLAMKVLEQFDKS 43 (49)
T ss_dssp HHHHHHHHHHHTTS---S-HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCC---CCHHHHHHHHHHHHHH
Confidence 68899999999875 4688999999999997
No 37
>COG1293 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]
Probab=48.63 E-value=59 Score=30.79 Aligned_cols=70 Identities=26% Similarity=0.340 Sum_probs=49.4
Q ss_pred HHHHHHHHhhhCCccccchHHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHH---HHHHHHHHHHHHHHH
Q 030692 88 LMENLADAIENGTRDQQSDALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQ---LLNQRKELIDKYMNS 164 (173)
Q Consensus 88 Lve~LaDaie~GtRDQ~sDaLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseq---lL~qRrdli~kYr~s 164 (173)
+-+.+.+-.++++-=+....+.+.|.++-+|++..|.....+ +++++. .+.++-+||.-|...
T Consensus 267 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~kl~~~i~~~~~~--------------~~~~~~~~~~~r~~g~ll~an~~~ 332 (564)
T COG1293 267 FNEALDEKFERDKIKQLASELEKKLEKELKKLENKLEKQEDE--------------LEELEKAAEELRQKGELLYANLQL 332 (564)
T ss_pred HHHHHHHHhhhhhHHHhHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 556777777777666655568888888888888766555444 444443 556777899999999
Q ss_pred HHHHHhc
Q 030692 165 VEELIEY 171 (173)
Q Consensus 165 VEel~~~ 171 (173)
||+..+.
T Consensus 333 i~~~~~~ 339 (564)
T COG1293 333 IEEGLKS 339 (564)
T ss_pred hhhhhhh
Confidence 9887764
No 38
>PF10158 LOH1CR12: Tumour suppressor protein; InterPro: IPR018780 This entry represents a region of 130 amino acids that is the most conserved part of some hypothetical proteins involved in loss of heterozygosity, and thus, tumour suppression []. The exact function of these proteins is not known.
Probab=48.51 E-value=70 Score=25.26 Aligned_cols=57 Identities=16% Similarity=0.363 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHHHHHHHH
Q 030692 108 LVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEE 167 (173)
Q Consensus 108 Lv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kYr~sVEe 167 (173)
|...+.+||..|-+-++.=-..|.++-..||. .+...-..+.+|...+++|-+-+++
T Consensus 32 Lc~R~Q~HL~~cA~~Va~~Q~~L~~riKevd~---~~~~l~~~~~erqk~~~k~ae~L~k 88 (131)
T PF10158_consen 32 LCSRYQEHLNQCAEAVAFDQNALAKRIKEVDQ---EIAKLLQQMVERQKRFAKFAEQLEK 88 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33455566666666655444444444344443 2333344555566666665554443
No 39
>PRK08307 stage III sporulation protein SpoAB; Provisional
Probab=47.59 E-value=1.3e+02 Score=24.09 Aligned_cols=79 Identities=16% Similarity=0.296 Sum_probs=50.1
Q ss_pred HHHHHHHHHHHhhhCCccccchHHHHHHHHHH------HHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHH----H
Q 030692 85 LLHLMENLADAIENGTRDQQSDALVNELNNHF------EKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQ----R 154 (173)
Q Consensus 85 L~~Lve~LaDaie~GtRDQ~sDaLv~ELts~F------~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~q----R 154 (173)
+-.+....|+.++.++.+--.++.-+.+.... +.=..+|..++.+|+ ..++++|.+.++-+...|+. -
T Consensus 67 ~~~~f~~~a~~L~~~~g~s~~eaw~~~~~~~~~~~~L~~~d~eiL~~lg~~LG--~~D~e~Q~k~i~L~~e~L~~~~~~a 144 (171)
T PRK08307 67 ISTLFQRFSERLESGEGETAYEAWEKALEENWKNTALKKEDIEILLQFGKTLG--QSDREGQQKHIRLALEHLEREEEEA 144 (171)
T ss_pred HHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhhhccCCCHHHHHHHHHHHHHHC--cCcHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455667777777765555555544443321 122567788888877 47999999998877666554 4
Q ss_pred HHHHHHHHHHH
Q 030692 155 KELIDKYMNSV 165 (173)
Q Consensus 155 rdli~kYr~sV 165 (173)
|+-..||.|+.
T Consensus 145 ~~~~~k~~Kmy 155 (171)
T PRK08307 145 EEEQKKNEKMY 155 (171)
T ss_pred HHHHHhCCcHH
Confidence 56666666554
No 40
>PRK07701 flgL flagellar hook-associated protein FlgL; Validated
Probab=46.75 E-value=93 Score=25.97 Aligned_cols=65 Identities=15% Similarity=0.325 Sum_probs=40.9
Q ss_pred hHHHHHHHHHHHhhhCCccccchHHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHH
Q 030692 84 HLLHLMENLADAIENGTRDQQSDALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQ 153 (173)
Q Consensus 84 hL~~Lve~LaDaie~GtRDQ~sDaLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~q 153 (173)
.++..+.++..+++.|+.+.- ......|+++..=|+..-+.|+++...|+..+..+++..-.|..
T Consensus 190 ~v~~~l~~~~~~l~~~~~~~~-----~~al~~l~~a~~~v~~~~a~iG~~~~~l~~~~~~~~~~~~~l~~ 254 (298)
T PRK07701 190 NLFEMLDNLENALDSGDTQGV-----SNLLSDIDQHIDNVLAVRAELGARSNRLELIENRLSDQEVNATK 254 (298)
T ss_pred hHHHHHHHHHHHHHCCChhHH-----HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence 578888888888888875433 23334566666655555566666666666666666655555443
No 41
>cd07596 BAR_SNX The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=46.53 E-value=1.3e+02 Score=22.78 Aligned_cols=82 Identities=13% Similarity=0.108 Sum_probs=53.6
Q ss_pred HHHHHHHHHhhhCCccccchHHHHHHHHHHHHHHHHHhhhhhccccc-ccchhhhhcchHHHHHHHHHHHHHHHHHHHHH
Q 030692 87 HLMENLADAIENGTRDQQSDALVNELNNHFEKCQQLLSSISESLDTK-AMTVEGQRRKLEESEQLLNQRKELIDKYMNSV 165 (173)
Q Consensus 87 ~Lve~LaDaie~GtRDQ~sDaLv~ELts~F~kcQQlLnSiS~Si~sk-~~tV~gQk~~LeEseqlL~qRrdli~kYr~sV 165 (173)
.-+..|++.=+..+ ..-...++.+...|++|..++...+.....+ .-++.-..+-+...+..|..|..++.+|....
T Consensus 46 ~~~~~Ls~~e~~~~--~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~L~~y~~~~~s~k~~l~~R~~~~~~~~~~~ 123 (218)
T cd07596 46 KALIKLAKCEEEVG--GELGEALSKLGKAAEELSSLSEAQANQELVKLLEPLKEYLRYCQAVKETLDDRADALLTLQSLK 123 (218)
T ss_pred HHHHHHHhhccccc--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33555555422222 3345667777778888888887777554322 22566666777778888999998888888777
Q ss_pred HHHHh
Q 030692 166 EELIE 170 (173)
Q Consensus 166 Eel~~ 170 (173)
..+-+
T Consensus 124 ~~l~~ 128 (218)
T cd07596 124 KDLAS 128 (218)
T ss_pred HHHHH
Confidence 66654
No 42
>PF10828 DUF2570: Protein of unknown function (DUF2570); InterPro: IPR022538 This entry is represented by Bacteriophage IME08, pseT.3. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a family of proteins with unknown function.
Probab=44.64 E-value=1.1e+02 Score=22.81 Aligned_cols=33 Identities=18% Similarity=0.339 Sum_probs=23.1
Q ss_pred hcchHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 030692 141 RRKLEESEQLLNQRKELIDKYMNSVEELIEYEP 173 (173)
Q Consensus 141 k~~LeEseqlL~qRrdli~kYr~sVEel~~~~p 173 (173)
++-+++-...=+++|.=.+++++.+..++|.+|
T Consensus 59 r~~~~~~~~~~qq~r~~~e~~~e~ik~~lk~d~ 91 (110)
T PF10828_consen 59 RQAVEEQQKREQQLRQQSEERRESIKTALKDDP 91 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCc
Confidence 334444444556667777889999999999876
No 43
>PF03114 BAR: BAR domain; InterPro: IPR004148 Endocytosis and intracellular transport involve several mechanistic steps: (1) for the internalisation of cargo molecules, the membrane needs to bend to form a vesicular structure, which requires membrane curvature and a rearrangement of the cytoskeleton; (2) following its formation, the vesicle has to be pinched off the membrane; (3) the cargo has to be subsequently transported through the cell and the vesicle must fuse with the correct cellular compartment. Members of the Amphiphysin protein family are key regulators in the early steps of endocytosis, involved in the formation of clathrin-coated vesicles by promoting the assembly of a protein complex at the plasma membrane and directly assist in the induction of the high curvature of the membrane at the neck of the vesicle. Amphiphysins contain a characteristic domain, known as the BAR (Bin-Amphiphysin-Rvs)-domain, which is required for their in vivo function and their ability to tubulate membranes []. The crystal structure of these proteins suggest the domain forms a crescent-shaped dimer of a three-helix coiled coil with a characteristic set of conserved hydrophobic, aromatic and hydrophilic amino acids. Proteins containing this domain have been shown to homodimerise, heterodimerise or, in a few cases, interact with small GTPases. ; GO: 0005515 protein binding, 0005737 cytoplasm; PDB: 4AVM_A 2D4C_C 1X03_A 1X04_A 2RND_A 2RMY_A 2FIC_A 2C08_A 2Z0V_A 3SOG_A ....
Probab=44.45 E-value=1.3e+02 Score=22.37 Aligned_cols=83 Identities=7% Similarity=0.141 Sum_probs=36.2
Q ss_pred HHHHHHHHHhhhCCccccchHHHHHHHHHHHHHHHHHhhhhhccccccc----chhhhhcchHHHHHHHHHHHHHHHHHH
Q 030692 87 HLMENLADAIENGTRDQQSDALVNELNNHFEKCQQLLSSISESLDTKAM----TVEGQRRKLEESEQLLNQRKELIDKYM 162 (173)
Q Consensus 87 ~Lve~LaDaie~GtRDQ~sDaLv~ELts~F~kcQQlLnSiS~Si~sk~~----tV~gQk~~LeEseqlL~qRrdli~kYr 162 (173)
-|.+.|.++...-..|......+..+..-+..+..+...+...+.+.-+ .+-..-..+.+....++.++-=.+.|+
T Consensus 72 ~l~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~i~~~~~~~~~~~~~~vi~pl~~~~~~~~~i~~~~kkr~~~~ldyd~~~ 151 (229)
T PF03114_consen 72 ELADALIELGSEFSDDSSLGNALEKFGEAMQEIEEARKELESQIESTVIDPLKEFLKEFKEIKKLIKKREKKRLDYDSAR 151 (229)
T ss_dssp HHHHHHHHHHHCTSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhccccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Confidence 3444444443333333333334455555555555555555555443222 111333333444444444444444445
Q ss_pred HHHHHHH
Q 030692 163 NSVEELI 169 (173)
Q Consensus 163 ~sVEel~ 169 (173)
+.|+.+-
T Consensus 152 ~k~~k~~ 158 (229)
T PF03114_consen 152 SKLEKLR 158 (229)
T ss_dssp HHHHHCH
T ss_pred HHHHHHH
Confidence 5555443
No 44
>TIGR02135 phoU_full phosphate transport system regulatory protein PhoU. This model describes PhoU, a regulatory protein of unknown mechanism for high-affinity phosphate ABC transporter systems. The protein consists of two copies of the domain described by Pfam model pfam01895. Deletion of PhoU activates constitutive expression of the phosphate ABC transporter and allows phosphate transport, but causes a growth defect and so likely has some second function.
Probab=44.36 E-value=1.2e+02 Score=22.56 Aligned_cols=28 Identities=14% Similarity=0.145 Sum_probs=22.3
Q ss_pred hHHHHHHHHHHHHHHHHHhhhhhccccc
Q 030692 106 DALVNELNNHFEKCQQLLSSISESLDTK 133 (173)
Q Consensus 106 DaLv~ELts~F~kcQQlLnSiS~Si~sk 133 (173)
+....||..=++.|...++.....+.+.
T Consensus 112 ~~~~~el~~m~~~v~~~l~~a~~al~~~ 139 (212)
T TIGR02135 112 PKHLEELEKMGKLALKMLKDALDAFLNK 139 (212)
T ss_pred CccHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 7788888888999999888877666543
No 45
>KOG3598 consensus Thyroid hormone receptor-associated protein complex, subunit TRAP230 [Transcription]
Probab=43.23 E-value=17 Score=39.80 Aligned_cols=10 Identities=10% Similarity=-0.064 Sum_probs=5.1
Q ss_pred cceeccCCCC
Q 030692 9 SWNMMPSIPS 18 (173)
Q Consensus 9 SwtMiPs~~~ 18 (173)
+=-|+|.++|
T Consensus 2062 ~~~~~~~m~p 2071 (2220)
T KOG3598|consen 2062 NEMNRPLMNP 2071 (2220)
T ss_pred cccchhhccc
Confidence 3345555554
No 46
>cd00522 Hemerythrin Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the muscle tissue of sipunculids as well as in polycheate and oligocheate annelids. In addition to oxygen transport, Mhr proteins are involved in cadmium fixation and host anti-bacterial defense. Hr and Mhr proteins have the same "four alpha helix bundle" motif and active site structure. Hr forms oligomers, the octameric form being most prevalent, while Mhr is monomeric.
Probab=42.06 E-value=1.3e+02 Score=21.83 Aligned_cols=45 Identities=18% Similarity=0.276 Sum_probs=37.2
Q ss_pred hhhHHHHHHHHHHHhhhCCccccchHHHHHHHHHHHHHHHHHhhhhhc
Q 030692 82 NFHLLHLMENLADAIENGTRDQQSDALVNELNNHFEKCQQLLSSISES 129 (173)
Q Consensus 82 HfhL~~Lve~LaDaie~GtRDQ~sDaLv~ELts~F~kcQQlLnSiS~S 129 (173)
|=.|+.++.+|.+|++. ..-.+.|..-...||..=+.++..+.-+
T Consensus 19 H~~L~~l~n~l~~a~~~---~~~l~~L~~y~~~HF~~EE~~M~~~~yp 63 (113)
T cd00522 19 HKTLFNGINDLSEANNR---ADNLKELVDYTVKHFKDEEALMEAAGYP 63 (113)
T ss_pred HHHHHHHHHHHHHHHhH---HHHHHHHHHHHHHHHHHHHHHHHHcCCC
Confidence 66799999999999986 4556778888888999999999887744
No 47
>PF10925 DUF2680: Protein of unknown function (DUF2680); InterPro: IPR024485 Members in this family of proteins are annotated as YckD however currently no function is known.
Probab=41.87 E-value=35 Score=23.69 Aligned_cols=26 Identities=35% Similarity=0.677 Sum_probs=20.7
Q ss_pred hhhhcchHHHH-HHHHHHHHHHHHHHH
Q 030692 138 EGQRRKLEESE-QLLNQRKELIDKYMN 163 (173)
Q Consensus 138 ~gQk~~LeEse-qlL~qRrdli~kYr~ 163 (173)
+-||.+|++.. +.++.|+++|.||-+
T Consensus 3 ~~Qk~el~~l~~qm~e~kK~~idk~Ve 29 (59)
T PF10925_consen 3 DQQKKELKALYKQMLELKKQIIDKYVE 29 (59)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45888888864 678999999999843
No 48
>PF14966 DNA_repr_REX1B: DNA repair REX1-B
Probab=41.58 E-value=79 Score=23.61 Aligned_cols=59 Identities=19% Similarity=0.325 Sum_probs=45.0
Q ss_pred HHHHHHhhhCCccccchHHHHHHHHHHHHHHHHHhhhhhccc--ccccchhhhhcchHHHHH
Q 030692 90 ENLADAIENGTRDQQSDALVNELNNHFEKCQQLLSSISESLD--TKAMTVEGQRRKLEESEQ 149 (173)
Q Consensus 90 e~LaDaie~GtRDQ~sDaLv~ELts~F~kcQQlLnSiS~Si~--sk~~tV~gQk~~LeEseq 149 (173)
++.++-..+|.- -....++.++|..|..|=.=++.|...|. ...-.+.+--+.|.+.|.
T Consensus 24 ~gf~~yl~~~~~-~~y~~~~~~iT~~f~~~S~ei~~ie~~L~~~~~~~~la~~i~~lQ~~Ek 84 (97)
T PF14966_consen 24 EGFKKYLRSGPE-EAYRQLCHEITQEFSAISKEILAIEAELRDEHERPDLAELIRELQEQEK 84 (97)
T ss_pred HHHHHHHhcCCh-HHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHHH
Confidence 456666666666 66799999999999999988888888886 444566777777776664
No 49
>PF02609 Exonuc_VII_S: Exonuclease VII small subunit; InterPro: IPR003761 Exonuclease VII is composed of two non-identical subunits; one large subunit and 4 small ones []. This enzyme catalyses exonucleolytic cleavage in either 5'-3' or 3'-5' direction to yield nucleoside 5'-phosphates.; GO: 0008855 exodeoxyribonuclease VII activity, 0006308 DNA catabolic process, 0009318 exodeoxyribonuclease VII complex; PDB: 1VP7_F.
Probab=41.21 E-value=1e+02 Score=20.22 Aligned_cols=51 Identities=22% Similarity=0.391 Sum_probs=26.2
Q ss_pred HHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHHHHHHHHH
Q 030692 118 KCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEEL 168 (173)
Q Consensus 118 kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kYr~sVEel 168 (173)
.+-.=|..|...|.+..++++-=-...++-..++..=++.+.+.+.-|+.|
T Consensus 3 e~~~~Le~Iv~~Le~~~~sLdes~~lyeeg~~l~~~c~~~L~~~e~~i~~l 53 (53)
T PF02609_consen 3 EAMERLEEIVEKLESGELSLDESLKLYEEGMELIKKCQERLEEAEQKIEEL 53 (53)
T ss_dssp HHHHHHHHHHHHHHTT-S-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 333334444444445555565555555555556666666666666665544
No 50
>TIGR00293 prefoldin, archaeal alpha subunit/eukaryotic subunit 5. This model finds a set of small proteins from the Archaea and from Aquifex aeolicus that may represent two orthologous groups. The proteins are predicted to be mostly coiled coil, and may hit large numbers of proteins that contain coiled coil regions.
Probab=40.81 E-value=1.2e+02 Score=22.18 Aligned_cols=28 Identities=25% Similarity=0.474 Sum_probs=23.0
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030692 142 RKLEESEQLLNQRKELIDKYMNSVEELI 169 (173)
Q Consensus 142 ~~LeEseqlL~qRrdli~kYr~sVEel~ 169 (173)
++++|....|+.|.+.+.+-.+.+++.+
T Consensus 82 ~~~~eA~~~l~~~~~~l~~~~~~l~~~l 109 (126)
T TIGR00293 82 KDAEEAIEFLKKRIEELEKAIEKLQEAL 109 (126)
T ss_pred ecHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 7899999999999998887777776554
No 51
>KOG3691 consensus Exocyst complex subunit Sec8 [Intracellular trafficking, secretion, and vesicular transport]
Probab=40.64 E-value=63 Score=33.56 Aligned_cols=65 Identities=23% Similarity=0.352 Sum_probs=46.6
Q ss_pred chHHHHHHHH----HHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHH-------HHHHHHHHHH
Q 030692 105 SDALVNELNN----HFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELID-------KYMNSVEELI 169 (173)
Q Consensus 105 sDaLv~ELts----~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~-------kYr~sVEel~ 169 (173)
+|+.++||.+ .|++|=-.--.|+.+|..---.+-.=|..|++...+|+-|||=+. +||+++|=|.
T Consensus 62 ~~a~Lq~lv~~H~q~~t~~i~sy~~i~s~It~~rerI~~vK~~L~~~k~ll~~~rdeLqklw~~~~q~K~Vi~vL~ 137 (982)
T KOG3691|consen 62 FGAALQELVHTHKQDFTTGISSYGEISSGITNCRERIHNVKNNLEACKELLNTRRDELQKLWAENSQYKKVIEVLK 137 (982)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhhhhHHHHHHHHH
Confidence 4555666554 499998777777777654333455568999999999999988664 5888875444
No 52
>cd00446 GrpE GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding. In eukaryotes, only the mitochondrial Hsp70, not the cytosolic form, is GrpE dependent.
Probab=40.58 E-value=77 Score=24.00 Aligned_cols=44 Identities=20% Similarity=0.400 Sum_probs=32.2
Q ss_pred hHHHHHHHHHHHhhhCCccccchHHHHHHHHHHHHHHHHHhhhh
Q 030692 84 HLLHLMENLADAIENGTRDQQSDALVNELNNHFEKCQQLLSSIS 127 (173)
Q Consensus 84 hL~~Lve~LaDaie~GtRDQ~sDaLv~ELts~F~kcQQlLnSiS 127 (173)
-|++++++|..|++.+..+....+++.-+..=+.++..+|....
T Consensus 40 ~ll~v~D~le~a~~~~~~~~~~~~~~~g~~~i~~~l~~~L~~~G 83 (137)
T cd00446 40 DLLPVLDNLERALEAAKKEEELKNLVEGVEMTLKQLLDVLEKHG 83 (137)
T ss_pred HHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHHHHHHCC
Confidence 48999999999999988774545666666666666666666554
No 53
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=40.25 E-value=1.7e+02 Score=28.82 Aligned_cols=50 Identities=18% Similarity=0.255 Sum_probs=32.1
Q ss_pred ccccchHHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHH
Q 030692 101 RDQQSDALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQR 154 (173)
Q Consensus 101 RDQ~sDaLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qR 154 (173)
.+...+.||.+|...=...++....+..-+. .++-.++.|++-+..|+++
T Consensus 514 ~~~~~~~li~~l~~~~~~~e~~~~~~~~~~~----e~~~~~~~l~~~~~~l~~~ 563 (782)
T PRK00409 514 DKEKLNELIASLEELERELEQKAEEAEALLK----EAEKLKEELEEKKEKLQEE 563 (782)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHH
Confidence 4457789999999887666666666654433 5556666666555544443
No 54
>PF13949 ALIX_LYPXL_bnd: ALIX V-shaped domain binding to HIV ; PDB: 2XS1_A 2XS8_A 2R03_A 2R02_A 2OEX_B 2OEV_A 2OJQ_A 2R05_A.
Probab=40.10 E-value=67 Score=26.22 Aligned_cols=79 Identities=22% Similarity=0.304 Sum_probs=41.0
Q ss_pred HHHHHHHHhhhCCccccchHHHHHHHHHHHHHHHHHhhhhhcccccccchhh------hhcchHHHHHHHHHHHHHHHHH
Q 030692 88 LMENLADAIENGTRDQQSDALVNELNNHFEKCQQLLSSISESLDTKAMTVEG------QRRKLEESEQLLNQRKELIDKY 161 (173)
Q Consensus 88 Lve~LaDaie~GtRDQ~sDaLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~g------Qk~~LeEseqlL~qRrdli~kY 161 (173)
|++..+.+...|.- ......+.+|..-..+|...|+.+..-|..-..+-+. -+=+...|..+-..=++-|.+|
T Consensus 11 l~~~~~~v~~~~g~-~~l~~~l~~l~~~~~~~~~~L~e~~~~L~~E~~ed~~~r~~~g~~W~r~~S~~~~~~l~~~l~~~ 89 (296)
T PF13949_consen 11 LLEKSEEVRSEGGI-EKLEESLQELPELSQEVRSILDEIEEMLDEEEREDEQLRAKYGERWTRPPSSELNASLRKELQKY 89 (296)
T ss_dssp HHHHHHHHHHTTTH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSTTTCGSS-HHHHCHHHHHHHHHH
T ss_pred HHHHHHHHHhCCCh-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCCcHhhHHHHHHHHHHH
Confidence 45566666655442 3335566666666777777777666555433332222 2222334444444445555666
Q ss_pred HHHHHH
Q 030692 162 MNSVEE 167 (173)
Q Consensus 162 r~sVEe 167 (173)
++.++.
T Consensus 90 ~~~L~~ 95 (296)
T PF13949_consen 90 REYLEQ 95 (296)
T ss_dssp HHHHHH
T ss_pred HHHHHH
Confidence 666654
No 55
>PF05852 DUF848: Gammaherpesvirus protein of unknown function (DUF848); InterPro: IPR008566 This family consists of several uncharacterised proteins from the Gammaherpesvirinae.
Probab=40.09 E-value=1.1e+02 Score=25.06 Aligned_cols=59 Identities=24% Similarity=0.370 Sum_probs=45.7
Q ss_pred ccccchHHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030692 101 RDQQSDALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEELI 169 (173)
Q Consensus 101 RDQ~sDaLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kYr~sVEel~ 169 (173)
+..++..+|..+...+..|+.-|..+++ ++ ++|+++.|.|-+.=.||=++..--|+.+-
T Consensus 55 ~~~~~~~~v~~~~~~i~~k~~El~~L~~-~d---------~~kv~~~E~L~d~v~eLkeel~~el~~l~ 113 (146)
T PF05852_consen 55 EECEIKNKVSSLETEISEKKKELSHLKK-FD---------RKKVEDLEKLTDRVEELKEELEFELERLQ 113 (146)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh-cC---------HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3445677888888999999999888876 54 78899999998887777777666666553
No 56
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=39.74 E-value=1e+02 Score=26.40 Aligned_cols=51 Identities=29% Similarity=0.436 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHHHHHHHHH
Q 030692 111 ELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEEL 168 (173)
Q Consensus 111 ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kYr~sVEel 168 (173)
+|.+.-..-+.+.+.|-..++ .+++=-.-|+|+++. +.+|+.+|+.-||+|
T Consensus 5 ~ir~K~~~lek~k~~i~~e~~----~~e~ee~~L~e~~kE---~~~L~~Er~~h~eeL 55 (230)
T PF10146_consen 5 EIRNKTLELEKLKNEILQEVE----SLENEEKCLEEYRKE---MEELLQERMAHVEEL 55 (230)
T ss_pred HHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHH---HHHHHHHHHHHHHHH
Confidence 333333333344444444433 334444555555432 334444444444444
No 57
>PF02601 Exonuc_VII_L: Exonuclease VII, large subunit; InterPro: IPR020579 Exonuclease VII 3.1.11.6 from EC is composed of two nonidentical subunits; one large subunit and 4 small ones []. Exonuclease VII catalyses exonucleolytic cleavage in either 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. The large subunit also contains the OB-fold domains (IPR004365 from INTERPRO) that bind to nucleic acids at the N terminus. This entry represents Exonuclease VII, large subunit, C-terminal. ; GO: 0008855 exodeoxyribonuclease VII activity
Probab=39.51 E-value=1.4e+02 Score=25.05 Aligned_cols=62 Identities=19% Similarity=0.359 Sum_probs=42.4
Q ss_pred hHHHHHHHHHHHHHHHHHhhhhhcccccc-----cchhhhhcchHHHHHHHHH-HHHHHHHHHHHHHH
Q 030692 106 DALVNELNNHFEKCQQLLSSISESLDTKA-----MTVEGQRRKLEESEQLLNQ-RKELIDKYMNSVEE 167 (173)
Q Consensus 106 DaLv~ELts~F~kcQQlLnSiS~Si~sk~-----~tV~gQk~~LeEseqlL~q-Rrdli~kYr~sVEe 167 (173)
+.|...+...+++..+-|+.++..+.... ..++..+.+|++.++.|+. =+..|..++..++.
T Consensus 157 ~~l~~~~~~~l~~~~~~L~~l~~~l~~~~~~~p~~~l~~~~~~Ld~l~~rL~~~~~~~l~~~~~~L~~ 224 (319)
T PF02601_consen 157 QRLNRAMRNRLQRKRQRLNQLAKRLQLQSRRLPERKLEQQQQRLDELKQRLKQAIQQKLQRKRQRLQN 224 (319)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55667777778888888888887776554 3577788888888777765 34445555554444
No 58
>PF07304 SRA1: Steroid receptor RNA activator (SRA1); InterPro: IPR009917 This entry consists of several hypothetical mammalian steroid receptor RNA activator proteins. The SRA-RNAs encode stable proteins that are widely expressed and upregulated in breast cancer cell lines. SRA-RNA is a steroid receptor co-activator which acts as a functional RNA. This domain is also found at the C terminus of Sec31, a component of the coat protein complex II (COPII, which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). COPII has two main functions, the physical deformation of the endoplasmic reticulum membrane into vesicles and the selection of cargo molecules. ; PDB: 2YRU_A.
Probab=38.80 E-value=23 Score=28.23 Aligned_cols=43 Identities=16% Similarity=0.434 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHhhhCCccccchHHHHHHHHHHHHHHHHHhhhh
Q 030692 85 LLHLMENLADAIENGTRDQQSDALVNELNNHFEKCQQLLSSIS 127 (173)
Q Consensus 85 L~~Lve~LaDaie~GtRDQ~sDaLv~ELts~F~kcQQlLnSiS 127 (173)
+..-+..|+.|++.|..|....--+.=+++|++.|-+|+-.|-
T Consensus 90 v~~~L~~L~~aL~~~d~~~A~~Ih~~L~t~h~~E~~~WmvGVK 132 (157)
T PF07304_consen 90 VVDKLHQLAQALQARDYDAADEIHVDLMTDHVDECGNWMVGVK 132 (157)
T ss_dssp HHHHHHHHHHHHHHT-HHHHHHHHHHHHHSSHHHHTTTHHHHH
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccHHHhhhHHHHHH
Confidence 4455667788888888888766666666777888888876553
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=38.71 E-value=1e+02 Score=28.31 Aligned_cols=59 Identities=19% Similarity=0.353 Sum_probs=44.7
Q ss_pred HHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030692 109 VNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEELI 169 (173)
Q Consensus 109 v~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kYr~sVEel~ 169 (173)
+.+|..+.++|+..|..+.. +...-.+..+...|++.-..|..|+++|.++-+.++...
T Consensus 172 l~~L~~qi~~~~~~l~~~~~--~~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~l~~l~~~~ 230 (475)
T PF10359_consen 172 LDELEEQIEKHEEKLGELEL--NPDDPELKSDIEELERHISSLKERIEFLENMLEDLEDSE 230 (475)
T ss_pred HHHHHHHHHHHHHhhhcccc--ccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 56788888888888888765 233445667777777777888999999999888776654
No 60
>PRK12718 flgL flagellar hook-associated protein FlgL; Provisional
Probab=38.44 E-value=1.5e+02 Score=28.17 Aligned_cols=81 Identities=17% Similarity=0.204 Sum_probs=48.7
Q ss_pred hHHHHHHHHHHHhhhCCcc-c-cchHHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHH
Q 030692 84 HLLHLMENLADAIENGTRD-Q-QSDALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKY 161 (173)
Q Consensus 84 hL~~Lve~LaDaie~GtRD-Q-~sDaLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kY 161 (173)
.+|.-|..|.++++.++.+ - ...+|.++|..-....-.-|+.|+..-+ .|.+....||..+.....+.-...+-
T Consensus 392 svf~Tl~~~i~aL~~p~~~~~~~~~~~~~~l~~al~~ld~a~~~v~~~ra----~vGaRln~ld~~~~~~~~~~l~~~~~ 467 (510)
T PRK12718 392 DVFDTLNDLIGALDTPISGDPQAAAALANTLATANKKLNLSLDNVLTVQA----SVGARLNELEALGNTGAQKGLSYVKQ 467 (510)
T ss_pred cHHHHHHHHHHHHhCCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHhHHHHHHHHHHhhhhhHHHHHHHH
Confidence 6888888888888876653 2 2345777777666666666666652221 44555555555555555555555555
Q ss_pred HHHHHHH
Q 030692 162 MNSVEEL 168 (173)
Q Consensus 162 r~sVEel 168 (173)
++.+|+|
T Consensus 468 lS~leDl 474 (510)
T PRK12718 468 LSDLEDV 474 (510)
T ss_pred Hhhhhcc
Confidence 5555543
No 61
>PF13964 Kelch_6: Kelch motif
Probab=38.33 E-value=19 Score=22.12 Aligned_cols=13 Identities=23% Similarity=0.994 Sum_probs=10.7
Q ss_pred CCcceeccCCCCC
Q 030692 7 SGSWNMMPSIPSH 19 (173)
Q Consensus 7 gGSwtMiPs~~~~ 19 (173)
-++|+.+|++|.+
T Consensus 37 t~~W~~~~~mp~p 49 (50)
T PF13964_consen 37 TNTWEQLPPMPTP 49 (50)
T ss_pred CCcEEECCCCCCC
Confidence 4789999999854
No 62
>PF05377 FlaC_arch: Flagella accessory protein C (FlaC); InterPro: IPR008039 Although archaeal flagella appear superficially similar to those of bacteria, they are quite distinct []. In several archaea, the flagellin genes are followed immediately by the flagellar accessory genes flaCDEFGHIJ. The gene products may have a role in translocation, secretion, or assembly of the flagellum. FlaC is a protein whose exact role is unknown but it has been shown to be membrane-associated (by immuno-blotting fractionated cells) [].
Probab=38.01 E-value=73 Score=22.43 Aligned_cols=35 Identities=29% Similarity=0.539 Sum_probs=16.4
Q ss_pred HhhhhhcccccccchhhhhcchHHHHHHHHHH-HHHHHHH
Q 030692 123 LSSISESLDTKAMTVEGQRRKLEESEQLLNQR-KELIDKY 161 (173)
Q Consensus 123 LnSiS~Si~sk~~tV~gQk~~LeEseqlL~qR-rdli~kY 161 (173)
|.+|+.+|+ ||+.+-..|-++=..+++. |+||+=|
T Consensus 9 ~~~~~~~i~----tvk~en~~i~~~ve~i~envk~ll~lY 44 (55)
T PF05377_consen 9 LPRIESSIN----TVKKENEEISESVEKIEENVKDLLSLY 44 (55)
T ss_pred HHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555544 4544444443333333332 5666666
No 63
>PF12072 DUF3552: Domain of unknown function (DUF3552); InterPro: IPR022711 This presumed domain is functionally uncharacterised. This domain is found in bacteria, archaea and eukaryotes. This domain is about 200 amino acids in length. This domain is found associated with PF00013 from PFAM, PF01966 from PFAM. This domain has a single completely conserved residue A that may be functionally important. ; GO: 0008663 2',3'-cyclic-nucleotide 2'-phosphodiesterase activity
Probab=38.00 E-value=1.5e+02 Score=24.01 Aligned_cols=55 Identities=29% Similarity=0.447 Sum_probs=35.0
Q ss_pred HHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHHHHHHHHH
Q 030692 114 NHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEEL 168 (173)
Q Consensus 114 s~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kYr~sVEel 168 (173)
+.+.+-+.-|..-...|+.+.-.++.-.+.|++-+..|+.+++.+.+=+.-++++
T Consensus 78 ~el~~~E~rl~~rE~~L~~~~~~L~~~e~~l~~~~~~l~~~~~~l~~~~~e~~~~ 132 (201)
T PF12072_consen 78 KELQRLEKRLQQREEQLDRRLEQLEKREEELEKKEEELEQRKEELEEREEELEEL 132 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344455555555566666666777777777777777777777666655555443
No 64
>PF14703 DUF4463: Domain of unknown function (DUF4463)
Probab=37.70 E-value=81 Score=21.32 Aligned_cols=30 Identities=17% Similarity=0.349 Sum_probs=24.0
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 030692 142 RKLEESEQLLNQRKELIDKYMNSVEELIEY 171 (173)
Q Consensus 142 ~~LeEseqlL~qRrdli~kYr~sVEel~~~ 171 (173)
++..+.+.|.++|..++.+.....-.+++.
T Consensus 3 rd~~~L~~Lv~~R~~~~~kLE~a~~~~~~~ 32 (85)
T PF14703_consen 3 RDWSKLEKLVEEREKAVRKLESAESKYLKN 32 (85)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 456788899999999999888887776653
No 65
>COG3945 Uncharacterized conserved protein [Function unknown]
Probab=37.64 E-value=1.5e+02 Score=25.48 Aligned_cols=84 Identities=21% Similarity=0.391 Sum_probs=57.6
Q ss_pred HHHHHHHHHHHhhhCCccccchH------HHHHHHHHHHHHHHHHhhhhhc-ccccccchhhhhcchHHHHHHHHHHHHH
Q 030692 85 LLHLMENLADAIENGTRDQQSDA------LVNELNNHFEKCQQLLSSISES-LDTKAMTVEGQRRKLEESEQLLNQRKEL 157 (173)
Q Consensus 85 L~~Lve~LaDaie~GtRDQ~sDa------Lv~ELts~F~kcQQlLnSiS~S-i~sk~~tV~gQk~~LeEseqlL~qRrdl 157 (173)
+.+-++..-..+++|.-|-+.|. -++-+..|++|=.+-|=+++.+ +|-.-..|+-+.++-+|-+ -+..+
T Consensus 96 i~r~lee~~~~~kngd~~~~~~~i~~A~~y~~likrHIdkEdnvlfp~a~~~~s~e~~~v~~e~~~~~ee~----~ke~i 171 (189)
T COG3945 96 IIRDLEEAYERLKNGDEDSKDDVIDYAVAYLNLIKRHIDKEDNVLFPFAESTLSEELNEVNSECFRFDEET----FKETI 171 (189)
T ss_pred HHHHHHHHHHHHHccccchHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHhhhhh----hhhhH
Confidence 45566777778888877766543 3455667899988888777744 4422234555666655544 57788
Q ss_pred HHHHHHHHHHHHhcC
Q 030692 158 IDKYMNSVEELIEYE 172 (173)
Q Consensus 158 i~kYr~sVEel~~~~ 172 (173)
.++|-+..|+|-|+.
T Consensus 172 ~e~y~~lle~l~ks~ 186 (189)
T COG3945 172 HERYAKLLEELEKSY 186 (189)
T ss_pred HHHHHHHHHHHHHhh
Confidence 999999999998864
No 66
>cd09237 V_ScBro1_like Protein-interacting V-domain of Saccharomyces cerevisiae Bro1 and related domains. This family contains the V-shaped (V) domain of Saccharomyces cerevisiae Bro1, and related domains. It belongs to the V_Alix_like superfamily which also includes the V-domain of Saccharomyces cerevisiae Rim20 (also known as PalA), mammalian Alix (apoptosis-linked gene-2 interacting protein X), His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), and related domains. Bro1 interacts with the ESCRT (Endosomal Sorting Complexes Required for Transport) system, and participates in endosomal trafficking. The mammalian Alix V-domain (belonging to a different family) contains a binding site, partially conserved in the superfamily, for the retroviral late assembly (L) domain YPXnL motif. The Alix V-domain is also a dimerization domain. Bro1 also has an N-terminal Bro1-like domain, which binds Snf7, a component of the ESCRT-III complex, and a C-terminal proline-rich
Probab=36.97 E-value=97 Score=26.96 Aligned_cols=75 Identities=21% Similarity=0.219 Sum_probs=47.4
Q ss_pred hhhCCccccchHHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHH------HHHHHHHHHHHHHHHHHHHHHHH
Q 030692 96 IENGTRDQQSDALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEE------SEQLLNQRKELIDKYMNSVEELI 169 (173)
Q Consensus 96 ie~GtRDQ~sDaLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeE------seqlL~qRrdli~kYr~sVEel~ 169 (173)
|..+......+..+.+|...-..|..+|.+....|....-..+.-+.+.-+ |..+-..=|+=+.+||+.+++--
T Consensus 62 i~~~~g~~~~~~~~~~l~~l~~~~~~~l~~~~~~L~~E~~ed~~~R~k~g~~Wtr~~S~~~~~~l~~~~~k~~~~L~~A~ 141 (356)
T cd09237 62 IVSGLKSSSVDSQLELLRPQSASWVNEIDSSYNDLDEEMKEIEKMRKKILAKWTQSPSSSLTASLREDLVKLKKSLVEAS 141 (356)
T ss_pred HHHhccCCCcchhHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccchhhhHHHHHHHHHHHHHHHHHH
Confidence 344444556678888888888888888888777766555444444444432 34444455566777887776544
Q ss_pred h
Q 030692 170 E 170 (173)
Q Consensus 170 ~ 170 (173)
.
T Consensus 142 ~ 142 (356)
T cd09237 142 A 142 (356)
T ss_pred h
Confidence 3
No 67
>TIGR02550 flagell_flgL flagellar hook-associated protein 3. This protein family consists of flagellar hook-associated proteins designated FlgL (or HAP3) encoded in bacterial flagellar operons. A N-terminal region of about 150 residues and a C-terminal region of about 85 residues are conserved. Members show considerable length heterogeneity between these two well-conserved terminal regions; members of the family vary between 287 to over 500 residues in length. This model distinguishes FlgL from the flagellin gene product FliC.
Probab=35.96 E-value=97 Score=25.52 Aligned_cols=53 Identities=15% Similarity=0.209 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHHHHHHH
Q 030692 107 ALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVE 166 (173)
Q Consensus 107 aLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kYr~sVE 166 (173)
+.+......++....=|...-+.|++....|+..+ ..+..+...+.+.++.+|
T Consensus 217 ~~~~~al~~l~~a~~~l~~~~a~lG~~~~rle~~~-------~~~~~~~~~l~~~~s~l~ 269 (306)
T TIGR02550 217 AALSASLNELDKALDNVLSARAEVGARLNRLENLE-------NRLSEQKLQLTEVLSDLE 269 (306)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH-------HhhhhHHHHHHHHHHhhh
Confidence 44444444555555555555555555444444444 444444555555544443
No 68
>PF01031 Dynamin_M: Dynamin central region; InterPro: IPR000375 Dynamin is a microtubule-associated force-producing protein of 100 Kd which is involved in the production of microtubule bundles. At the N terminus of dynamin is a GTPase domain (see IPR001401 from INTERPRO), and at the C terminus is a PH domain (see IPR001849 from INTERPRO). Between these two domains lies a central region of unknown function, which this entry represents.; GO: 0005525 GTP binding; PDB: 3ZVR_A 2AKA_B 2X2F_D 2X2E_D 3SNH_A 3ZYS_D 3ZYC_D 1JWY_B 1JX2_B 3SZR_A ....
Probab=35.67 E-value=1.2e+02 Score=25.22 Aligned_cols=77 Identities=18% Similarity=0.257 Sum_probs=51.2
Q ss_pred hhhHHHHHHHHHHHhhhCCccccchHHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHH
Q 030692 82 NFHLLHLMENLADAIENGTRDQQSDALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKY 161 (173)
Q Consensus 82 HfhL~~Lve~LaDaie~GtRDQ~sDaLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kY 161 (173)
.+=.-.|..+|......-.++. .+.|+.+|.....+|+.-|..+..... .|.+.+ +..| ..++.+|
T Consensus 56 ~~G~~~L~~~L~~~L~~~I~~~-LP~l~~~I~~~l~~~~~eL~~lG~~~~---~~~~~~-------~~~l---~~~~~~f 121 (295)
T PF01031_consen 56 RCGTPALRKRLSELLVEHIRKS-LPSLKSEIQKKLQEAEKELKRLGPPRP---ETPEEQ-------RAYL---LQIISKF 121 (295)
T ss_dssp GSSHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHTHHHCSS---SCHHHH-------HHHH---HHHHHHH
T ss_pred ccchHHHHHHHHHHHHHHHHHh-CcHHHHHHHHHHHHHHHHHHHhCCCCC---CCHHHH-------HHHH---HHHHHHH
Confidence 3334456677766666666554 488899999999999999998887644 222222 2222 3578888
Q ss_pred HHHHHHHHhcC
Q 030692 162 MNSVEELIEYE 172 (173)
Q Consensus 162 r~sVEel~~~~ 172 (173)
...+...+.|.
T Consensus 122 ~~~~~~~i~G~ 132 (295)
T PF01031_consen 122 SRIFKDAIDGE 132 (295)
T ss_dssp HHHHHHHHTT-
T ss_pred HHHHHHHhcCC
Confidence 88888887764
No 69
>PRK01917 cation-binding hemerythrin HHE family protein; Provisional
Probab=35.37 E-value=2e+02 Score=21.87 Aligned_cols=71 Identities=17% Similarity=0.268 Sum_probs=45.7
Q ss_pred hhhHHHHHHHHHHHhhhCCccccchHHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHH
Q 030692 82 NFHLLHLMENLADAIENGTRDQQSDALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKY 161 (173)
Q Consensus 82 HfhL~~Lve~LaDaie~GtRDQ~sDaLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kY 161 (173)
|=.|+.+|.+|.++...+- ..-.+.|++-...||..=+.+...+.=+ ..+.-| .+++..+..=+++.+++
T Consensus 21 H~~Lf~lin~l~~~~~~~i-~~~l~~L~~y~~~HF~~EE~lM~~~~YP------~~~~H~---~eH~~fl~~v~~l~~~~ 90 (139)
T PRK01917 21 HAEFVQLLNAVARADDADF-LQALDAWIDHTRHHFAQEERWMEATKFG------PRHCHR---AEHDEVLAVAADVREKV 90 (139)
T ss_pred HHHHHHHHHHHHcCCHHHH-HHHHHHHHHHHHHHHHHHHHHHHHcCCC------ChHHHH---HHHHHHHHHHHHHHHHH
Confidence 4468889999988866553 2345667777788999999999887754 223333 45555555555555554
Q ss_pred H
Q 030692 162 M 162 (173)
Q Consensus 162 r 162 (173)
+
T Consensus 91 ~ 91 (139)
T PRK01917 91 A 91 (139)
T ss_pred H
Confidence 4
No 70
>PF10498 IFT57: Intra-flagellar transport protein 57 ; InterPro: IPR019530 Eukaryotic cilia and flagella are specialised organelles found at the periphery of cells of diverse organisms. Intra-flagellar transport (IFT) is required for the assembly and maintenance of eukaryotic cilia and flagella, and consists of the bi-directional movement of large protein particles between the base and the distal tip of the organelle. IFT particles contain multiple copies of two distinct protein complexes, A and B, which contain at least 6 and 11 protein subunits. IFT57 is part of complex B but is not, however, required for the core subunits to stay associated []. This protein is known as Huntington-interacting protein-1 in humans.
Probab=35.36 E-value=1e+02 Score=27.95 Aligned_cols=59 Identities=25% Similarity=0.438 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHHHHhhhhhccccccc-------chhhhhcchHHHHHHHHHH-HHHHHHHHHHHHHH
Q 030692 110 NELNNHFEKCQQLLSSISESLDTKAM-------TVEGQRRKLEESEQLLNQR-KELIDKYMNSVEEL 168 (173)
Q Consensus 110 ~ELts~F~kcQQlLnSiS~Si~sk~~-------tV~gQk~~LeEseqlL~qR-rdli~kYr~sVEel 168 (173)
.+-.+|++.+.++..+|+..+..-.. .+.....+++-.|+-||.+ ..++.+||...++|
T Consensus 216 kDWR~hleqm~~~~~~I~~~~~~~~~~L~kl~~~i~~~lekI~sREk~iN~qle~l~~eYr~~~~~l 282 (359)
T PF10498_consen 216 KDWRSHLEQMKQHKKSIESALPETKSQLDKLQQDISKTLEKIESREKYINNQLEPLIQEYRSAQDEL 282 (359)
T ss_pred chHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence 45567777777777777766541111 2223344455556666654 45777777766554
No 71
>PF08376 NIT: Nitrate and nitrite sensing; InterPro: IPR013587 The nitrate and nitrite-sensing (NIT) domain is a (~250 aa) sensor domain found in various receptor components of signal transduction pathways from different bacterial lineages []. The NIT domain is predicted to be all alpha-helical in structure []. Proteins containing a NIT domain belong to one of four known classes of prokaryotic signal transduction proteins: intracellular transcription anti-termination regulators, sensor histidine kinases, methyl-accepting chemotaxis proteins, diguanylate cyclases/phosphodiesterases. NIT-containing receptors regulate cellular functions such as gene expression (transcription anti-terminators and histidine kinases), cell motility (chemotaxis receptors), and enzyme activity (diguanylate cyclases/phosphodiesterases), in response to changes in nitrate and/or nitrite concentrations. The NIT domain is found as both an extracellular and an intracellular sensor. The NIT domain can be found in combination with other signalling domains, such as ANTAR, HAMP (IPR003660 from INTERPRO), MCP, Hemerythrins (IPR002063 from INTERPRO), CHASE (IPR006189 from INTERPRO), GGDEF (IPR000160 from INTERPRO), PAS (IPR000014 from INTERPRO), EAL (IPR001633 from INTERPRO), HK (IPR005467 from INTERPRO), GAF, REC and Hpt (IPR008207 from INTERPRO).; PDB: 4AKK_A.
Probab=34.77 E-value=1.6e+02 Score=22.64 Aligned_cols=55 Identities=20% Similarity=0.394 Sum_probs=38.6
Q ss_pred HHHHHHHHhhhhhc-----ccccccchhhhhcchHHHHHHHHHH----HHHHHHHHHHHHHHHh
Q 030692 116 FEKCQQLLSSISES-----LDTKAMTVEGQRRKLEESEQLLNQR----KELIDKYMNSVEELIE 170 (173)
Q Consensus 116 F~kcQQlLnSiS~S-----i~sk~~tV~gQk~~LeEseqlL~qR----rdli~kYr~sVEel~~ 170 (173)
++.-...+..+..+ +...--.+.+.-.+|.+.|...+.+ .+.+..|...++.|+.
T Consensus 41 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~~R~~vd~~~~~~~~~~~~Y~~~i~~ll~ 104 (247)
T PF08376_consen 41 IAELRRALADIDDSDSDEELRDRLQEILNALDQLPQLRQQVDNRSIDPDEAFDAYTELIDSLLD 104 (247)
T ss_dssp HHHHHHHHHHHCTT--HH-HHHHHHHHHHHGGGHHHHHHHHHHT-S-HHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHhccccccchhHHHHHHHHHHHHHhHHHHHHHHhcCCCChHHHHHHHHHHHHHHHH
Confidence 55555555554333 2223346778888899999998887 5789999999988874
No 72
>PF00015 MCPsignal: Methyl-accepting chemotaxis protein (MCP) signalling domain; InterPro: IPR004089 Methyl-accepting chemotaxis proteins (MCPs) are a family of bacterial receptors that mediate chemotaxis to diverse signals, responding to changes in the concentration of attractants and repellents in the environment by altering swimming behaviour []. Environmental diversity gives rise to diversity in bacterial signalling receptors, and consequently there are many genes encoding MCPs []. For example, there are four well-characterised MCPs found in Escherichia coli: Tar (taxis towards aspartate and maltose, away from nickel and cobalt), Tsr (taxis towards serine, away from leucine, indole and weak acids), Trg (taxis towards galactose and ribose) and Tap (taxis towards dipeptides). MCPs share similar topology and signalling mechanisms. MCPs either bind ligands directly or interact with ligand-binding proteins, transducing the signal to downstream signalling proteins in the cytoplasm. MCPs undergo two covalent modifications: deamidation and reversible methylation at a number of glutamate residues. Attractants increase the level of methylation, while repellents decrease it. The methyl groups are added by the methyl-transferase cheR and are removed by the methylesterase cheB. Most MCPs are homodimers that contain the following organisation: an N-terminal signal sequence that acts as a transmembrane domain in the mature protein; a poorly-conserved periplasmic receptor (ligand-binding) domain; a second transmembrane domain; and a highly-conserved C-terminal cytoplasmic domain that interacts with downstream signalling components. The C-terminal domain contains the glycosylated glutamate residues. This entry represents the signalling domain found in several methyl-accepting chemotaxis proteins. This domain is thought to transduce the signal to CheA since it is highly conserved in very diverse MCPs.; GO: 0004871 signal transducer activity, 0007165 signal transduction, 0016020 membrane; PDB: 2CH7_A 3ZX6_B 1QU7_A 3G6B_B 3UR1_C 3G67_B.
Probab=34.56 E-value=1.5e+02 Score=22.25 Aligned_cols=61 Identities=21% Similarity=0.339 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHHHHHHHHH
Q 030692 108 LVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEEL 168 (173)
Q Consensus 108 Lv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kYr~sVEel 168 (173)
.++++...|..+...+..+...+..=.-.++-+....++...-+..=.++..+....++++
T Consensus 129 ~~~~~~~~l~~i~~~~~~i~~~i~~i~~~~~~~~~~~~~i~~~i~~i~~~~~~~~~~~~~~ 189 (213)
T PF00015_consen 129 SVEETSESLEEIAESVEEISDSIEEISESAEEQSESIEQINESIEEISEISEQISASSEEI 189 (213)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cchhcchhhhhhhhhhhHHhhhhHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444444444433333444555555555555544455555555555444
No 73
>PRK10404 hypothetical protein; Provisional
Probab=34.36 E-value=2e+02 Score=21.67 Aligned_cols=68 Identities=13% Similarity=0.282 Sum_probs=38.6
Q ss_pred hHHHHHHHHHHHHHHHHHhhhhhcccccccchhhh-hcchHHHHHHH-HHHHHHHHHHHHHH---HHHHhcCC
Q 030692 106 DALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQ-RRKLEESEQLL-NQRKELIDKYMNSV---EELIEYEP 173 (173)
Q Consensus 106 DaLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQ-k~~LeEseqlL-~qRrdli~kYr~sV---Eel~~~~p 173 (173)
+.|..+|.+=-+....||.+.+..-..+.-.++.. ...|++.+..| +-.+++.+++|..+ ++.|+..|
T Consensus 8 ~~l~~dl~~L~~dle~Ll~~~~~~a~e~~~~lR~r~~~~L~~ar~~l~~~~~~~~~~~k~aa~~td~yV~e~P 80 (101)
T PRK10404 8 TRIDDDLTLLSETLEEVLRSSGDPADQKYVELKARAEKALDDVKKRVSQASDSYYYRAKQAVYRADDYVHEKP 80 (101)
T ss_pred hHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhCc
Confidence 56777777777777888877775533232233222 12355555333 33444566677766 66666554
No 74
>PHA02562 46 endonuclease subunit; Provisional
Probab=34.23 E-value=1.8e+02 Score=25.85 Aligned_cols=24 Identities=21% Similarity=0.238 Sum_probs=12.0
Q ss_pred hhhhhcchHHHHHHHHHHHHHHHH
Q 030692 137 VEGQRRKLEESEQLLNQRKELIDK 160 (173)
Q Consensus 137 V~gQk~~LeEseqlL~qRrdli~k 160 (173)
.+....+++|.++.++.+|+-|..
T Consensus 332 ~~~~~~~i~el~~~i~~~~~~i~~ 355 (562)
T PHA02562 332 FNEQSKKLLELKNKISTNKQSLIT 355 (562)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455555555555555554433
No 75
>PF02828 L27: L27 domain; InterPro: IPR014775 The L27 domain is found in receptor targeting proteins Lin-2 and Lin-7, as well as some protein kinases and human MPP2 protein.; PDB: 1ZL8_B 1VA8_A 3LRA_A 3UIT_A 1Y74_D 1RSO_B.
Probab=33.77 E-value=1.4e+02 Score=19.56 Aligned_cols=47 Identities=17% Similarity=0.296 Sum_probs=33.6
Q ss_pred HHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHH--HHHHHHHHHHHHHHHh
Q 030692 117 EKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQR--KELIDKYMNSVEELIE 170 (173)
Q Consensus 117 ~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qR--rdli~kYr~sVEel~~ 170 (173)
.++..+|..|.++.+.+ +.++.|...+|+.+ +.|+.-|-+..+..+.
T Consensus 3 ~~~~e~L~~L~~~~~~~-------~~~~~eL~~lL~~p~~~aLl~~hD~va~~~~~ 51 (56)
T PF02828_consen 3 QRVLELLEELQSLSSAS-------QEDAQELQQLLQSPHFQALLEVHDKVAQKVYE 51 (56)
T ss_dssp HHHHHHHHHHHHHTSST-------HHHHHHHHHHHHSHHHHHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHhccCCC-------hHHHHHHHHHHcCHHHHHHHHHHHHHHhhcCC
Confidence 46777888888775533 56788888888876 5777777777766543
No 76
>PF09392 MxiH: Type III secretion needle MxiH like; InterPro: IPR021123 This entry represents bacterial type III secretion system needle-like proteins. Type III secretion systems are essential virulence determinants for many Gram-negative bacterial pathogens, acting to translocate proteins, usually virulence factors, out across both inner and outer membranes of bacteria and into the cytoplasm of the host cell. These proteins include: Needle proteins, including MxiH, YscF, EscF, PscF, EprI, that form the needle of the injection apparatus. For instance, MxiH is an extracellular alpha helical needle that is required for translocation of effector proteins into host cells, and once inside, the effector proteins subvert normal cell function to aid infection []. YscI (Yop proteins translocation protein I) in Yersinia and HrpB (hypersensitivity response and pathogenicity protein B) in plant pathogens such as Pseudomonas syringae. YscI is involved in the translocation of Yop proteins across the bacterial membrane or in the specific control of this function. ; GO: 0009405 pathogenesis, 0015031 protein transport; PDB: 2UWJ_F 2CA5_B 3J0R_A 2P58_B 3ZQB_B 3ZQE_B 2G0U_A 2LPZ_S 2JOW_A 2X9C_A ....
Probab=33.66 E-value=1.7e+02 Score=20.66 Aligned_cols=30 Identities=23% Similarity=0.346 Sum_probs=21.2
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 030692 142 RKLEESEQLLNQRKELIDKYMNSVEELIEY 171 (173)
Q Consensus 142 ~~LeEseqlL~qRrdli~kYr~sVEel~~~ 171 (173)
..|-++--..+---.++.|++.+||-|+|+
T Consensus 61 ~~l~qysl~~~l~sk~v~~~~q~i~~L~km 90 (90)
T PF09392_consen 61 FALSQYSLQVNLQSKLVKKMKQSIETLVKM 90 (90)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHT-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 345555556666677788899999999864
No 77
>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.
Probab=32.66 E-value=1.5e+02 Score=24.42 Aligned_cols=48 Identities=17% Similarity=0.199 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHH
Q 030692 112 LNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELID 159 (173)
Q Consensus 112 Lts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~ 159 (173)
|..+++....=+.++..-...-...|+.|+.++++.++.++...+.-.
T Consensus 54 L~~e~~~l~~e~e~L~~~~~~l~~~v~~q~~el~~L~~qi~~~~~~~~ 101 (251)
T PF11932_consen 54 LLAEYRQLEREIENLEVYNEQLERQVASQEQELASLEQQIEQIEETRQ 101 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333343333333333333333334677777777777776666554333
No 78
>cd08915 V_Alix_like Protein-interacting V-domain of mammalian Alix and related domains. This superfamily contains the V-shaped (V) domain of mammalian Alix (apoptosis-linked gene-2 interacting protein X), His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), Bro1 and Rim20 (also known as PalA) from Saccharomyces cerevisiae, and related domains. Alix, HD-PTP, Bro1, and Rim20 all interact with the ESCRT (Endosomal Sorting Complexes Required for Transport) system. Alix, also known as apoptosis-linked gene-2 interacting protein 1 (AIP1), participates in membrane remodeling processes during the budding of enveloped viruses, vesicle budding inside late endosomal multivesicular bodies (MVBs), and the abscission reactions of mammalian cell division. It also functions in apoptosis. HD-PTP functions in cell migration and endosomal trafficking, Bro1 in endosomal trafficking, and Rim20 in the response to the external pH via the Rim101 pathway. The Alix V-domain contains
Probab=31.92 E-value=1.6e+02 Score=25.28 Aligned_cols=28 Identities=21% Similarity=0.311 Sum_probs=18.7
Q ss_pred cchHHHHHHHHHHHHHHHHHhhhhhccc
Q 030692 104 QSDALVNELNNHFEKCQQLLSSISESLD 131 (173)
Q Consensus 104 ~sDaLv~ELts~F~kcQQlLnSiS~Si~ 131 (173)
.....+++|..-..+|..+|+.+-.-|.
T Consensus 74 ~l~~~~~~l~~l~~~~~~~l~~~~~~L~ 101 (342)
T cd08915 74 NIEQSFKELSKLRQNVEELLQECEELLE 101 (342)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4456667777777778777776665544
No 79
>PRK11115 transcriptional regulator PhoU; Provisional
Probab=31.84 E-value=2.6e+02 Score=22.06 Aligned_cols=43 Identities=14% Similarity=0.182 Sum_probs=26.7
Q ss_pred HHHHHHhhhCCccccchHHHHHHHHHHHHHHHHHhhhhhccccc
Q 030692 90 ENLADAIENGTRDQQSDALVNELNNHFEKCQQLLSSISESLDTK 133 (173)
Q Consensus 90 e~LaDaie~GtRDQ~sDaLv~ELts~F~kcQQlLnSiS~Si~sk 133 (173)
.++|+.+....++. .+..+.+|..-++.|...+...-.++.+.
T Consensus 107 ~nia~~~~~~~~~~-~~~~~~~l~~l~~~v~~~l~~a~~a~~~~ 149 (236)
T PRK11115 107 DKIARTALEKFSQQ-HQPLLVSLESLGRHTIQMLHDVLDAFARM 149 (236)
T ss_pred HHHHHHHHHhccCC-CCcchHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 33444344433322 35677888888999999887766665543
No 80
>PRK09039 hypothetical protein; Validated
Probab=31.82 E-value=1.6e+02 Score=26.10 Aligned_cols=57 Identities=18% Similarity=0.297 Sum_probs=41.7
Q ss_pred HHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHH----HHHHHHHHHHH
Q 030692 109 VNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQR----KELIDKYMNSV 165 (173)
Q Consensus 109 v~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qR----rdli~kYr~sV 165 (173)
|.-|+++++....=|.+|...|..-.-.-..++.++++.+..|+.- -.=++.||+-+
T Consensus 139 V~~L~~qI~aLr~Qla~le~~L~~ae~~~~~~~~~i~~L~~~L~~a~~~~~~~l~~~~~~~ 199 (343)
T PRK09039 139 VELLNQQIAALRRQLAALEAALDASEKRDRESQAKIADLGRRLNVALAQRVQELNRYRSEF 199 (343)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence 5566677776666677777777655555578888899888888765 34578999988
No 81
>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=31.79 E-value=2.2e+02 Score=25.88 Aligned_cols=61 Identities=20% Similarity=0.308 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhcccc---cccchhh-------hhcchHHHHHHHHHHHHHHHHHHHHHHH
Q 030692 107 ALVNELNNHFEKCQQLLSSISESLDT---KAMTVEG-------QRRKLEESEQLLNQRKELIDKYMNSVEE 167 (173)
Q Consensus 107 aLv~ELts~F~kcQQlLnSiS~Si~s---k~~tV~g-------Qk~~LeEseqlL~qRrdli~kYr~sVEe 167 (173)
++|.|-..-=.||.-|=+-++--|++ +-++||+ .+..|...+...+-=+--|.|||+++|.
T Consensus 158 El~~ERD~yk~K~~RLN~ELn~~L~g~~~rivDIDaLi~ENRyL~erl~q~qeE~~l~k~~i~KYK~~le~ 228 (319)
T PF09789_consen 158 ELVTERDAYKCKAHRLNHELNYILNGDENRIVDIDALIMENRYLKERLKQLQEEKELLKQTINKYKSALER 228 (319)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34444444445555554444444443 4446766 4555555666666667779999999994
No 82
>COG1694 MazG Predicted pyrophosphatase [General function prediction only]
Probab=31.54 E-value=1.9e+02 Score=20.60 Aligned_cols=42 Identities=19% Similarity=0.240 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHhhhCCccccchHHHHHHHHHHHHHHHHHhhhhhc
Q 030692 85 LLHLMENLADAIENGTRDQQSDALVNELNNHFEKCQQLLSSISES 129 (173)
Q Consensus 85 L~~Lve~LaDaie~GtRDQ~sDaLv~ELts~F~kcQQlLnSiS~S 129 (173)
|.--+--+++||..++ ..+++..||..-+.-+=-+.|.+...
T Consensus 35 l~eE~gEv~eai~~~~---~~~~l~eELgDvL~~v~~~a~~~~~~ 76 (102)
T COG1694 35 LVEEAGEVAEAIRKEE---DLEDLKEELGDVLADVLFLANLLDID 76 (102)
T ss_pred HHHHHHHHHHHHHhcC---cHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5555667889999887 55678888877766665555555444
No 83
>PF05944 Phage_term_smal: Phage small terminase subunit; InterPro: IPR010270 This entry is represented by Bacteriophage P2, GpM. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several phage small terminase subunit proteins as well as some related bacterial sequences []. M protein is probably an endonuclease which directs cos cleavage. The Q, P and M proteins are needed to package DNA into proheads and for the conversion of proheads to capsids.; GO: 0003677 DNA binding, 0004519 endonuclease activity, 0019069 viral capsid assembly
Probab=31.40 E-value=61 Score=25.62 Aligned_cols=30 Identities=23% Similarity=0.425 Sum_probs=23.7
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 030692 143 KLEESEQLLNQRKELIDKYMNSVEELIEYE 172 (173)
Q Consensus 143 ~LeEseqlL~qRrdli~kYr~sVEel~~~~ 172 (173)
++.-.|.+.+-.|+||-||.--||..+++.
T Consensus 14 ~iqs~e~K~~~Kr~lLP~Y~p~v~g~L~~g 43 (132)
T PF05944_consen 14 QIQSIERKAEYKRELLPKYLPWVEGVLASG 43 (132)
T ss_pred hcccHHHHHHHHHHHHHhHHHHHHHHHHcC
Confidence 344456677778889999999999999754
No 84
>PF08557 Lipid_DES: Sphingolipid Delta4-desaturase (DES); InterPro: IPR013866 Sphingolipids are important membrane signalling molecules involved in many different cellular functions in eukaryotes. Sphingolipid delta 4-desaturase catalyses the formation of (E)-sphing-4-enine []. Some proteins in this entry have bifunctional delta 4-desaturase/C-4-hydroxylase activity. Delta 4-desaturated sphingolipids may play a role in early signalling required for entry into meiotic and spermatid differentiation pathways during Drosophila spermatogenesis []. This small protein associates with FA_desaturase IPR005804 from INTERPRO and appears to be specific to sphingolipid delta 4-desaturase. ; GO: 0016705 oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 0006633 fatty acid biosynthetic process, 0055114 oxidation-reduction process, 0016021 integral to membrane
Probab=31.38 E-value=38 Score=22.41 Aligned_cols=21 Identities=29% Similarity=0.615 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHHHHHhcCC
Q 030692 152 NQRKELIDKYMNSVEELIEYEP 173 (173)
Q Consensus 152 ~qRrdli~kYr~sVEel~~~~p 173 (173)
..||++|+|| --|.+|+.-||
T Consensus 17 ~RRk~IL~k~-PeIk~L~G~dp 37 (39)
T PF08557_consen 17 SRRKEILKKH-PEIKKLMGPDP 37 (39)
T ss_pred HHHHHHHHhC-hHHHHHhCCCC
Confidence 4689999999 66777877665
No 85
>TIGR01069 mutS2 MutS2 family protein. Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.
Probab=31.37 E-value=1.5e+02 Score=29.26 Aligned_cols=64 Identities=16% Similarity=0.207 Sum_probs=36.5
Q ss_pred ccccchHHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHH-HHHHHHHHHHHHHH
Q 030692 101 RDQQSDALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQR-KELIDKYMNSVEEL 168 (173)
Q Consensus 101 RDQ~sDaLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qR-rdli~kYr~sVEel 168 (173)
.+...+.|+.+|...=.+.++....+..-+. .++-.++.|++-+..|+.+ ++++.+.++-.+++
T Consensus 509 ~~~~~~~li~~L~~~~~~~e~~~~~~~~~~~----e~~~~~~~l~~~~~~l~~~~~~~~~~a~~ea~~~ 573 (771)
T TIGR01069 509 FKEEINVLIEKLSALEKELEQKNEHLEKLLK----EQEKLKKELEQEMEELKERERNKKLELEKEAQEA 573 (771)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4446678888887776666666666554433 5666666666655555443 33444444433333
No 86
>PF14735 HAUS4: HAUS augmin-like complex subunit 4
Probab=31.19 E-value=2.7e+02 Score=23.98 Aligned_cols=64 Identities=17% Similarity=0.304 Sum_probs=41.2
Q ss_pred hHHHHHHHHH-HHHHHHHHhhhh--hccccccc----------chhhhhcchHHHHHHH----HHHHHHHHHHHHHHHHH
Q 030692 106 DALVNELNNH-FEKCQQLLSSIS--ESLDTKAM----------TVEGQRRKLEESEQLL----NQRKELIDKYMNSVEEL 168 (173)
Q Consensus 106 DaLv~ELts~-F~kcQQlLnSiS--~Si~sk~~----------tV~gQk~~LeEseqlL----~qRrdli~kYr~sVEel 168 (173)
..|+.||.+| -+||-.||+-+- ...++..+ .|++-|+.+++-+..+ -.+.+-.+.|....++.
T Consensus 39 ~~L~~eiE~~Lk~KC~~Lls~~~p~~~~~s~~l~~ak~~~L~~~l~~ek~~~~~~k~~~~e~~~~l~~q~~~y~~vL~~c 118 (238)
T PF14735_consen 39 QRLPREIEERLKKKCFSLLSYHQPDSESSSEGLKAAKSWQLPELLREEKQRLEKEKAQLRELLVLLERQFATYYQVLLQC 118 (238)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCCCccccchhhHhHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5788999999 689999998874 22223222 6788888888654433 33445555666665443
Q ss_pred H
Q 030692 169 I 169 (173)
Q Consensus 169 ~ 169 (173)
|
T Consensus 119 l 119 (238)
T PF14735_consen 119 L 119 (238)
T ss_pred H
Confidence 3
No 87
>PF01025 GrpE: GrpE; InterPro: IPR000740 Molecular chaperones are a diverse family of proteins that function to protect proteins in the intracellular milieu from irreversible aggregation during synthesis and in times of cellular stress. The bacterial molecular chaperone DnaK is an enzyme that couples cycles of ATP binding, hydrolysis, and ADP release by an N-terminal ATP-hydrolysing domain to cycles of sequestration and release of unfolded proteins by a C-terminal substrate binding domain. In prokaryotes the grpE protein. Dimeric GrpE is the co-chaperone for DnaK, and acts as a nucleotide exchange factor, stimulating the rate of ADP release 5000-fold []. DnaK is itself a weak ATPase; ATP hydrolysis by DnaK is stimulated by its interaction with another co-chaperone, DnaJ. Thus the co-chaperones DnaJ and GrpE are capable of tightly regulating the nucleotide-bound and substrate-bound state of DnaK in ways that are necessary for the normal housekeeping functions and stress-related functions of the DnaK molecular chaperone cycle. The X-ray crystal structure of GrpE in complex with the ATPase domain of DnaK revealed that GrpE is an asymmetric homodimer, bent in a manner that favours extensive contacts with only one DnaKATPase monomer []. GrpE does not actively compete for the atomic positions occupied by the nucleotide. GrpE and ADP mutually reduce one another's affinity for DnaK 200-fold, and ATP instantly dissociates GrpE from DnaK.; GO: 0000774 adenyl-nucleotide exchange factor activity, 0042803 protein homodimerization activity, 0051087 chaperone binding, 0006457 protein folding; PDB: 3A6M_A 4ANI_A 1DKG_B.
Probab=31.05 E-value=1.1e+02 Score=23.23 Aligned_cols=43 Identities=21% Similarity=0.444 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHhhhCCccccchHHHHHHHHHHHHHHHHHhhhh
Q 030692 85 LLHLMENLADAIENGTRDQQSDALVNELNNHFEKCQQLLSSIS 127 (173)
Q Consensus 85 L~~Lve~LaDaie~GtRDQ~sDaLv~ELts~F~kcQQlLnSiS 127 (173)
|++++++|..|++....+...+.++.-+..=......+|....
T Consensus 67 ll~v~D~l~~a~~~~~~~~~~~~~~~g~~~~~~~l~~~L~~~G 109 (165)
T PF01025_consen 67 LLPVLDNLERALEAAKSNEEEESLLEGLEMILKQLEDILEKNG 109 (165)
T ss_dssp HHHHHHHHHHHHCC-SHHCTCHHHHHHHHHHHHHHHHHHHTTT
T ss_pred HHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHHHHHHHCC
Confidence 8899999999999877556667888888887888888887766
No 88
>PTZ00419 valyl-tRNA synthetase-like protein; Provisional
Probab=30.83 E-value=1.6e+02 Score=29.54 Aligned_cols=59 Identities=15% Similarity=0.201 Sum_probs=45.9
Q ss_pred chHHHHHHHHHHHHHHHHHhhhhhccccccc-------chhhhhcchHHHHHHHHHHHHHHHHHHH
Q 030692 105 SDALVNELNNHFEKCQQLLSSISESLDTKAM-------TVEGQRRKLEESEQLLNQRKELIDKYMN 163 (173)
Q Consensus 105 sDaLv~ELts~F~kcQQlLnSiS~Si~sk~~-------tV~gQk~~LeEseqlL~qRrdli~kYr~ 163 (173)
.++.+..|..+.+|.+.-+..+..-|++... .|+--|.||++++..|..=++.|+.+++
T Consensus 927 ~~~E~~rL~K~l~kl~~ei~~~~~kL~N~~F~~kAp~~vve~e~~kl~~~~~~l~~l~~~l~~l~~ 992 (995)
T PTZ00419 927 LKKELAKLEKKLAKLQKSLESYLKKISIPNYEDKVPEDVRKLNDEKIDELNEEIKQLEQAIEELKS 992 (995)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhCCchhhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3566778889999999999999988887664 5777788888888777777777766663
No 89
>COG2973 TrpR Trp operon repressor [Transcription]
Probab=30.79 E-value=55 Score=25.85 Aligned_cols=20 Identities=35% Similarity=0.415 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHHHHHHHHhcC
Q 030692 152 NQRKELIDKYMNSVEELIEYE 172 (173)
Q Consensus 152 ~qRrdli~kYr~sVEel~~~~ 172 (173)
++|.+|+..|+ +|+||+.+|
T Consensus 41 dEReal~~Rv~-Iv~eLL~ge 60 (103)
T COG2973 41 DEREALGTRVR-IVEELLRGE 60 (103)
T ss_pred hHHHHHHHHHH-HHHHHHhcc
Confidence 68999999986 799999876
No 90
>PF13418 Kelch_4: Galactose oxidase, central domain; PDB: 2UVK_B.
Probab=30.55 E-value=22 Score=21.66 Aligned_cols=12 Identities=42% Similarity=1.146 Sum_probs=6.7
Q ss_pred CCcceeccCCCC
Q 030692 7 SGSWNMMPSIPS 18 (173)
Q Consensus 7 gGSwtMiPs~~~ 18 (173)
.++|+-||++||
T Consensus 38 ~~~W~~~~~~P~ 49 (49)
T PF13418_consen 38 TNTWTRLPSMPS 49 (49)
T ss_dssp TTEEEE--SS--
T ss_pred CCEEEECCCCCC
Confidence 478999988875
No 91
>PF14523 Syntaxin_2: Syntaxin-like protein; PDB: 2DNX_A.
Probab=30.47 E-value=1.9e+02 Score=20.11 Aligned_cols=82 Identities=23% Similarity=0.366 Sum_probs=47.5
Q ss_pred HHHHHHHHHHhhhCCccccchHHHHHHHHHHHHHHHHHhhhhhcccccc-c--chhhhhcchHHHHHHHHHHHHHHHHHH
Q 030692 86 LHLMENLADAIENGTRDQQSDALVNELNNHFEKCQQLLSSISESLDTKA-M--TVEGQRRKLEESEQLLNQRKELIDKYM 162 (173)
Q Consensus 86 ~~Lve~LaDaie~GtRDQ~sDaLv~ELts~F~kcQQlLnSiS~Si~sk~-~--tV~gQk~~LeEseqlL~qRrdli~kYr 162 (173)
+..++++...++ +.+| +..|-+.|..--++|.++...|+..|..=. + .-.+-+...-..+.|.+.=++++.+|.
T Consensus 12 v~~l~k~~~~lG-t~~D--s~~lR~~i~~~~~~~~~l~k~~~~~l~~l~~~~~~~~~~~~~k~~~~KL~~df~~~l~~fq 88 (102)
T PF14523_consen 12 VSQLEKLVNQLG-TPRD--SQELREKIHQLIQKTNQLIKEISELLKKLNSLSSDRSNDRQQKLQREKLSRDFKEALQEFQ 88 (102)
T ss_dssp HHHHHHHHHHH--SSS----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSH----HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhC-Cccc--cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 344566666666 3344 578888887778999999999886544210 0 112223333344556666667777777
Q ss_pred HHHHHHHh
Q 030692 163 NSVEELIE 170 (173)
Q Consensus 163 ~sVEel~~ 170 (173)
+...++.+
T Consensus 89 ~~q~~~~~ 96 (102)
T PF14523_consen 89 KAQRRYAE 96 (102)
T ss_dssp HHHHHHHH
T ss_pred HHHHHHHH
Confidence 76666554
No 92
>PF06782 UPF0236: Uncharacterised protein family (UPF0236); InterPro: IPR009620 This is a group of proteins of unknown function.
Probab=30.40 E-value=1.6e+02 Score=27.09 Aligned_cols=72 Identities=17% Similarity=0.279 Sum_probs=50.7
Q ss_pred HHHHHHHHHHHhhhCCccccchHHHHHHHHH-HHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHHHH
Q 030692 85 LLHLMENLADAIENGTRDQQSDALVNELNNH-FEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMN 163 (173)
Q Consensus 85 L~~Lve~LaDaie~GtRDQ~sDaLv~ELts~-F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kYr~ 163 (173)
.|||...|.+++... ++ .-+.+...|... +.+...+|+.+.+.+ ..+..+.++++...-|..+++-|.-|+.
T Consensus 286 ~FHl~k~i~~~~~~~-~~-~~~~~~~al~~~d~~~l~~~L~~~~~~~-----~~~~~~~~i~~~~~Yl~~n~~~i~~y~~ 358 (470)
T PF06782_consen 286 RFHLNKKIKQALSHD-PE-LKEKIRKALKKGDKKKLETVLDTAESCA-----KDEEERKKIRKLRKYLLNNWDGIKPYRE 358 (470)
T ss_pred HHHHHHHHHHHhhhC-hH-HHHHHHHHHHhcCHHHHHHHHHHHHHhh-----hchHHHHHHHHHHHHHHHCHHHhhhhhh
Confidence 478888888888543 33 224344555544 677777887776553 4456788899999999999998888875
No 93
>PRK11637 AmiB activator; Provisional
Probab=30.19 E-value=1.8e+02 Score=25.84 Aligned_cols=38 Identities=16% Similarity=0.315 Sum_probs=14.1
Q ss_pred HHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHH
Q 030692 117 EKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQR 154 (173)
Q Consensus 117 ~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qR 154 (173)
...++-|+.+..-|....-.++..+.+|++.+..|..|
T Consensus 92 ~~~~~~i~~~~~ei~~l~~eI~~~q~~l~~~~~~l~~r 129 (428)
T PRK11637 92 RETQNTLNQLNKQIDELNASIAKLEQQQAAQERLLAAQ 129 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333333333333333333333333333333334333
No 94
>PHA02562 46 endonuclease subunit; Provisional
Probab=30.05 E-value=2.5e+02 Score=25.02 Aligned_cols=34 Identities=21% Similarity=0.212 Sum_probs=18.4
Q ss_pred chhhhhcchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030692 136 TVEGQRRKLEESEQLLNQRKELIDKYMNSVEELI 169 (173)
Q Consensus 136 tV~gQk~~LeEseqlL~qRrdli~kYr~sVEel~ 169 (173)
.++..++++++....+...++.|.+.++.+++++
T Consensus 324 ~~~~~~~~~~~~~~~i~el~~~i~~~~~~i~~~~ 357 (562)
T PHA02562 324 ELEEIMDEFNEQSKKLLELKNKISTNKQSLITLV 357 (562)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444455555555555556666666665544
No 95
>PF02607 B12-binding_2: B12 binding domain; InterPro: IPR003759 Cobalamin-dependent methionine synthase (2.1.1.13 from EC) is a large modular protein that catalyses methyl transfer from methyltetrahydrofolate (CH3-H4folate) to homocysteine. During the catalytic cycle, it supports three distinct methyl transfer reactions, each involving the cobalamin (vitamin B12) cofactor and a substrate bound to its own functional unit []. The cobalamin cofactor plays an essential role in this reaction, accepting the methyl group from CH3-H4folate to form methylcob(III)alamin, and in turn donating the methyl group to homocysteine to generate methionine and cob(I)alamin. Methionine synthase is a large enzyme composed of four structurally and functionally distinct modules: the first two modules bind homocysteine and CH3-H4folate, the third module binds the cobalamin cofactor and the C-terminal module binds S-adenosylmethionine. The cobalamin-binding module is composed of two structurally distinct domains: a 4-helical bundle cap domain (residues 651-740 in the Escherichia coli enzyme) and an alpha/beta B12-binding domain (residues 741-896) (IPR006158 from INTERPRO). The 4-helical bundle forms a cap over the alpha/beta domain, which acts to shield the methyl ligand of cobalamin from solvent []. Furthermore, in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO). The alpha/beta domain is a common cobalamin-binding motif, whereas the 4-helical bundle domain with its methyl cap is a distinctive feature of methionine synthases. This entry represents the 4-helical bundle cap domain. This domain is also present in other shorter proteins that bind to B12, and is always found N terminus to the alpha/beta B12-binding domain.; GO: 0008705 methionine synthase activity, 0031419 cobalamin binding, 0046872 metal ion binding, 0009086 methionine biosynthetic process; PDB: 3EZX_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 2I2X_P.
Probab=29.96 E-value=1.4e+02 Score=19.73 Aligned_cols=27 Identities=33% Similarity=0.526 Sum_probs=19.9
Q ss_pred HHHHHHHHHhhhCCccccchHHHHHHHH
Q 030692 87 HLMENLADAIENGTRDQQSDALVNELNN 114 (173)
Q Consensus 87 ~Lve~LaDaie~GtRDQ~sDaLv~ELts 114 (173)
+++++|.+++-.|.+|.- .++++++-+
T Consensus 3 ~~~~~l~~al~~~d~~~~-~~~~~~~l~ 29 (79)
T PF02607_consen 3 ELIERLLDALLAGDEEEA-EALLEEALA 29 (79)
T ss_dssp HHHHHHHHHHHTT-CCHH-HHHHHHHHH
T ss_pred HHHHHHHHHHHhCCHHHH-HHHHHHHHH
Confidence 688999999999999987 555555443
No 96
>PF09325 Vps5: Vps5 C terminal like; InterPro: IPR015404 Vps5 is a sorting nexin that functions in membrane trafficking. This is the C-terminal dimerisation domain [].
Probab=29.91 E-value=2.7e+02 Score=21.77 Aligned_cols=67 Identities=22% Similarity=0.321 Sum_probs=50.1
Q ss_pred chHHHHHHHHHHHHHHHHHhhhhhccccc-ccchhhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 030692 105 SDALVNELNNHFEKCQQLLSSISESLDTK-AMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEELIEY 171 (173)
Q Consensus 105 sDaLv~ELts~F~kcQQlLnSiS~Si~sk-~~tV~gQk~~LeEseqlL~qRrdli~kYr~sVEel~~~ 171 (173)
...+...+..-|++|..+++..+.....+ ..+++--.+-++-.+..|+.|..++..|-....+|-+.
T Consensus 80 l~~~l~~l~~~~~~~~~~~~~~a~~~~~~l~~~L~ey~~~~~svk~~l~~R~~~~~~~~~a~~~l~kk 147 (236)
T PF09325_consen 80 LSEALSQLAEAFEKISELLEEQANQEEETLGEPLREYLRYIESVKEALNRRDKKLIEYQNAEKELQKK 147 (236)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45667788888999999998887543211 13566667777888889999999999998888777653
No 97
>PF06295 DUF1043: Protein of unknown function (DUF1043); InterPro: IPR009386 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=29.77 E-value=90 Score=23.96 Aligned_cols=23 Identities=30% Similarity=0.479 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 030692 145 EESEQLLNQRKELIDKYMNSVEE 167 (173)
Q Consensus 145 eEseqlL~qRrdli~kYr~sVEe 167 (173)
.+.++.|++.+.=++.||..|++
T Consensus 28 ~~l~~eL~~~k~el~~yk~~V~~ 50 (128)
T PF06295_consen 28 AKLEQELEQAKQELEQYKQEVND 50 (128)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 46667777888888888888866
No 98
>TIGR00996 Mtu_fam_mce virulence factor Mce family protein. Members of this paralogous family are found as six tandem homologous proteins in the same orientation per cassette, in four separate cassettes in Mycobacterium tuberculosis. The six members of each cassette represent six subfamilies. One subfamily includes the protein mce (mycobacterial cell entry), a virulence protein required for invasion of non-phagocytic cells.
Probab=29.67 E-value=1.6e+02 Score=24.26 Aligned_cols=14 Identities=14% Similarity=0.242 Sum_probs=5.7
Q ss_pred HHHHHHHHHhhhCC
Q 030692 87 HLMENLADAIENGT 100 (173)
Q Consensus 87 ~Lve~LaDaie~Gt 100 (173)
.|+.++.++++..+
T Consensus 134 ~ll~~~~~ll~~~~ 147 (291)
T TIGR00996 134 DLLGSLTRLLNGLD 147 (291)
T ss_pred HHHHHHHHHHhcCC
Confidence 34444444444433
No 99
>PRK10328 DNA binding protein, nucleoid-associated; Provisional
Probab=29.27 E-value=1.1e+02 Score=24.40 Aligned_cols=29 Identities=21% Similarity=0.438 Sum_probs=17.5
Q ss_pred hhhhhcchHHHHHHHHHHHHHHHHHHHHH
Q 030692 137 VEGQRRKLEESEQLLNQRKELIDKYMNSV 165 (173)
Q Consensus 137 V~gQk~~LeEseqlL~qRrdli~kYr~sV 165 (173)
|+--+..-++-+.....|.+.|++|+.++
T Consensus 37 v~er~~~~~~~~~~~~er~~~l~~i~~~~ 65 (134)
T PRK10328 37 TKERREEEEQQQRELAERQEKINTWLELM 65 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444444555556666777777777765
No 100
>COG1293 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]
Probab=29.13 E-value=65 Score=30.50 Aligned_cols=84 Identities=19% Similarity=0.206 Sum_probs=54.2
Q ss_pred hhhhhhhHHHHHHHHHHHhhhCCccccchHHHHHHHHHHHH------HHHHHhhhhhcccccccchhhhhcchHHHHHHH
Q 030692 78 SLASNFHLLHLMENLADAIENGTRDQQSDALVNELNNHFEK------CQQLLSSISESLDTKAMTVEGQRRKLEESEQLL 151 (173)
Q Consensus 78 sLASHfhL~~Lve~LaDaie~GtRDQ~sDaLv~ELts~F~k------cQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL 151 (173)
.|.++ +++|+.....+....... +.+++-.+++ .-+....+...+..+..+++-+...+++....+
T Consensus 325 ll~an---~~~i~~~~~~v~~~~~~~-----~~~i~i~l~~~~~~~~~~~~~~~~~~klk~~~~~~~~~~~~~~~~~~y~ 396 (564)
T COG1293 325 LLYAN---LQLIEEGLKSVRLADFYG-----NEEIKIELDKSKTPSENAQRYFKKYKKLKGAKVNLDRQLSELKEAIAYY 396 (564)
T ss_pred HHHHH---HHHhhhhhhhhehhhhcc-----ccceeeccCcCcccchhhHHHhhhhhhccCceeehhhhhhhhHHHHHHH
Confidence 45555 445555555555443333 2333333332 344555566667778889999999999999999
Q ss_pred HHHHHHHHHHH--HHHHHHH
Q 030692 152 NQRKELIDKYM--NSVEELI 169 (173)
Q Consensus 152 ~qRrdli~kYr--~sVEel~ 169 (173)
+.++.++.+=. +.|||+-
T Consensus 397 e~~~~~lek~~~~~~ieei~ 416 (564)
T COG1293 397 ESAKTALEKAEGKKAIEEIR 416 (564)
T ss_pred HHHHHHHHhccchhhHHHHH
Confidence 99998888777 5777653
No 101
>PF08580 KAR9: Yeast cortical protein KAR9; InterPro: IPR013889 The KAR9 protein in Saccharomyces cerevisiae (Baker's yeast) is a cytoskeletal protein required for karyogamy, correct positioning of the mitotic spindle and for orientation of cytoplasmic microtubules []. KAR9 localises at the shmoo tip in mating cells and at the tip of the growing bud in anaphase [].
Probab=29.03 E-value=2.1e+02 Score=28.20 Aligned_cols=77 Identities=26% Similarity=0.310 Sum_probs=0.0
Q ss_pred hHHHHHHHHHHHhhhCCccccchHHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHHHH
Q 030692 84 HLLHLMENLADAIENGTRDQQSDALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMN 163 (173)
Q Consensus 84 hL~~Lve~LaDaie~GtRDQ~sDaLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kYr~ 163 (173)
||+.|||.-..+||.+.-+..... .+-.-|+.|-|++..|-..|. .|-.|-.--=|+|.+.| ++|..--.
T Consensus 68 ~~l~lIe~~v~~ie~~q~r~di~~---~~~dl~e~vsqm~~~vK~~L~----~vK~qveiAmE~~EL~~---~vlg~l~~ 137 (683)
T PF08580_consen 68 RFLDLIEVYVSAIEDLQLREDIAN---SLFDLIEEVSQMELDVKKTLI----SVKKQVEIAMEWEELWN---DVLGDLDN 137 (683)
T ss_pred HHHHHHHhhccccccccccccccc---cHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHhHHHHHH---HHHHHHHH
Q ss_pred HHHHHHh
Q 030692 164 SVEELIE 170 (173)
Q Consensus 164 sVEel~~ 170 (173)
-||++++
T Consensus 138 EIe~~~~ 144 (683)
T PF08580_consen 138 EIEECIR 144 (683)
T ss_pred HHHHHHH
No 102
>PF04716 ETC_C1_NDUFA5: ETC complex I subunit conserved region; InterPro: IPR006806 This is a family of eukaryotic NADH-ubiquinone oxidoreductase subunits (1.6.5.3 from EC) (1.6.99.3 from EC) from complex I of the electron transport chain initially identified in Neurospora crassa as a 29.9 kDa protein. The conserved region is found at the N terminus of the member proteins [].; GO: 0016651 oxidoreductase activity, acting on NADH or NADPH, 0022904 respiratory electron transport chain, 0005743 mitochondrial inner membrane
Probab=28.96 E-value=37 Score=23.42 Aligned_cols=12 Identities=17% Similarity=0.313 Sum_probs=9.3
Q ss_pred HHHHHHHHHHHh
Q 030692 159 DKYMNSVEELIE 170 (173)
Q Consensus 159 ~kYr~sVEel~~ 170 (173)
+-||++||.|++
T Consensus 25 a~YR~~tE~it~ 36 (57)
T PF04716_consen 25 AAYRQYTEAITK 36 (57)
T ss_pred cHHHHHHHHHHH
Confidence 458888888875
No 103
>PRK10328 DNA binding protein, nucleoid-associated; Provisional
Probab=28.88 E-value=85 Score=24.98 Aligned_cols=62 Identities=23% Similarity=0.302 Sum_probs=47.0
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030692 107 ALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEELIE 170 (173)
Q Consensus 107 aLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kYr~sVEel~~ 170 (173)
+.+.||+ |+--..+|.-+..-++-+.-..+-.++...|-+..|++=+++|+.|-=+++||+.
T Consensus 16 a~~re~~--~e~Lee~~ekl~~vv~er~~~~~~~~~~~~er~~~l~~i~~~~~~~Git~eeL~~ 77 (134)
T PRK10328 16 AMAREFS--IDVLEEMLEKFRVVTKERREEEEQQQRELAERQEKINTWLELMKADGINPEELLG 77 (134)
T ss_pred HHHHhCC--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHhh
Confidence 3444442 5556666666666666666677778888889999999999999999999999974
No 104
>PF05565 Sipho_Gp157: Siphovirus Gp157; InterPro: IPR008840 This family contains both viral and bacterial proteins which are related to the Gp157 protein of the Streptococcus thermophilus SFi bacteriophage. It is thought that bacteria possessing the gene coding for this protein have an increased resistance to the bacteriophage [].
Probab=28.85 E-value=2.7e+02 Score=21.98 Aligned_cols=23 Identities=26% Similarity=0.382 Sum_probs=10.1
Q ss_pred HHhhhhhcccccccchhhhhcch
Q 030692 122 LLSSISESLDTKAMTVEGQRRKL 144 (173)
Q Consensus 122 lLnSiS~Si~sk~~tV~gQk~~L 144 (173)
.|.+|.+.+..|.-.+..--+++
T Consensus 30 tLe~i~~~~~~K~~~~~~~Ik~~ 52 (162)
T PF05565_consen 30 TLESIEDEIEEKADNIAKVIKNL 52 (162)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Confidence 34444455555544433333333
No 105
>PF03127 GAT: GAT domain; InterPro: IPR004152 The GAT domain is responsible for binding of GGA proteins to several members of the ARF family including ARF1 [] and ARF3. The GAT domain stabilises membrane bound ARF1 in its GTP bound state, by interfering with GAP proteins [].; GO: 0006886 intracellular protein transport, 0005622 intracellular; PDB: 1YD8_H 1WR6_C 1WRD_A 1O3X_A 1J2J_B 1NWM_X 1X79_A 1OXZ_A 1NAF_A.
Probab=28.65 E-value=2.2e+02 Score=20.40 Aligned_cols=71 Identities=17% Similarity=0.341 Sum_probs=39.8
Q ss_pred HHHHHHHHhhhCCccccchHHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHHHHHHH
Q 030692 88 LMENLADAIENGTRDQQSDALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVE 166 (173)
Q Consensus 88 Lve~LaDaie~GtRDQ~sDaLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kYr~sVE 166 (173)
|+..+-+....|......++++.||...-.+.+.-|-.+....+ +.. -|.+.=..-+.--.++.+|...+.
T Consensus 22 lL~emL~~~~~~~~~~~~~el~~eL~~~ck~~r~~i~~li~~~~------dee--~l~~lL~~ND~L~~~l~~Y~~l~~ 92 (100)
T PF03127_consen 22 LLNEMLDNYDPGEESSSDNELIQELYESCKSMRPRIQRLIEEVE------DEE--LLGELLQANDELNQALERYDRLVK 92 (100)
T ss_dssp HHHHHHHHTTTTTSTHHHHHHHHHHHHHHHHHHHHHHHHHHTST------TCH--HHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHhcCCCCCCccchHHHHHHHHHHHHHHHHHHHHHhhcC------cHH--HHHHHHHHHHHHHHHHHHHHHHHc
Confidence 34444444444554444336777776555555554444443322 222 566666666777788999987764
No 106
>PRK10947 global DNA-binding transcriptional dual regulator H-NS; Provisional
Probab=28.61 E-value=80 Score=25.16 Aligned_cols=22 Identities=9% Similarity=0.238 Sum_probs=13.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHH
Q 030692 144 LEESEQLLNQRKELIDKYMNSV 165 (173)
Q Consensus 144 LeEseqlL~qRrdli~kYr~sV 165 (173)
-++-.....+|.+.|++||.++
T Consensus 44 ~~~~~~~~~er~~kl~~~r~~m 65 (135)
T PRK10947 44 ESAAAAEVEERTRKLQQYREML 65 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3344445556666677777665
No 107
>KOG3091 consensus Nuclear pore complex, p54 component (sc Nup57) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=28.56 E-value=2.5e+02 Score=27.37 Aligned_cols=57 Identities=21% Similarity=0.255 Sum_probs=38.8
Q ss_pred HHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHHHHHHHH
Q 030692 110 NELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEE 167 (173)
Q Consensus 110 ~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kYr~sVEe 167 (173)
|||..|.+...-++..+++++.++.+++-- ++++.|...-|.++-|.|.+.-+.|..
T Consensus 431 nq~k~Rl~~L~e~~r~q~~~~~~~~~~~iD-~~~~~e~~e~lt~~~e~l~~Lv~Ilk~ 487 (508)
T KOG3091|consen 431 NQLKARLDELYEILRMQNSQLKLQESYWID-FDKLIEMKEHLTQEQEALTKLVNILKG 487 (508)
T ss_pred HHHHHHHHHHHHHHHhhcchhccccceeec-hhhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence 455555556666666666677777765533 567888888888888888887666643
No 108
>PF07996 T4SS: Type IV secretion system proteins; InterPro: IPR014158 This entry contains VirB5, a protein that is involved in the type IV DNA secretion systems typified by the Agrobacterium Ti plasmid vir system where it interacts with several other proteins essential for proper pilus formation []. VirB5 is homologous to the IncN (N-type) conjugation system protein TraC [] as well as the P-type protein TrbJ and the F-type protein TraE [].; PDB: 1R8I_A.
Probab=28.51 E-value=1.4e+02 Score=23.25 Aligned_cols=53 Identities=23% Similarity=0.423 Sum_probs=32.9
Q ss_pred hHHHHHHHHHHHHHHHHHhhhhhccccccc------------chhhhhcchHHHHHHHHHHHHHH
Q 030692 106 DALVNELNNHFEKCQQLLSSISESLDTKAM------------TVEGQRRKLEESEQLLNQRKELI 158 (173)
Q Consensus 106 DaLv~ELts~F~kcQQlLnSiS~Si~sk~~------------tV~gQk~~LeEseqlL~qRrdli 158 (173)
+...+++..+|++.+.|++-|..+-.-|.+ .+...+.+|+-.+.+.+..+.|+
T Consensus 125 ~~~~~~~~~r~~~i~~L~~~i~~a~d~K~~~DLq~rI~~E~a~iqne~~~lq~~~~~~~aq~~l~ 189 (195)
T PF07996_consen 125 EQAYKQAEQRLEQIQQLMQQINSAKDPKEIADLQNRIQAEQAMIQNEQAKLQMAQMLQEAQERLI 189 (195)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHTTS--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445567888899999999888877555543 44445555555555555555544
No 109
>PF02561 FliS: Flagellar protein FliS; InterPro: IPR003713 The fliD operon of several bacteria consists of three flagellar genes, fliD, fliS, and fliT, and is transcribed in this order []. In Bacillus subtilis the operon encoding the flagellar proteins FliD, FliS, and FliT is sigma D-dependent [].; GO: 0009296 flagellum assembly, 0009288 bacterial-type flagellum; PDB: 1VH6_A 3IQC_B 3K1I_B 1ORJ_B 1ORY_A.
Probab=28.44 E-value=2.5e+02 Score=20.78 Aligned_cols=38 Identities=29% Similarity=0.546 Sum_probs=24.8
Q ss_pred HHHHHHHHhhhCCccccchHHHHHHHHHHHHHHHHHhhhhhccccc
Q 030692 88 LMENLADAIENGTRDQQSDALVNELNNHFEKCQQLLSSISESLDTK 133 (173)
Q Consensus 88 Lve~LaDaie~GtRDQ~sDaLv~ELts~F~kcQQlLnSiS~Si~sk 133 (173)
.++...++++.|..+ +-..++.||+.++.-+-.+|+-.
T Consensus 32 ~l~~a~~a~~~~~~~--------~~~~~l~ka~~Ii~~L~~~Ld~e 69 (122)
T PF02561_consen 32 FLKQAKEAIEQGDIE--------EKNEALQKAQDIITELQSSLDFE 69 (122)
T ss_dssp HHHHHHHHHHTTHHH--------HHHHHHHHHHHHHHHHHHTCCTT
T ss_pred HHHHHHHHHHcCCHH--------HHHHHHHHHHHHHHHHHhhcCCC
Confidence 334444455555443 34556789999999999888854
No 110
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=28.34 E-value=78 Score=20.60 Aligned_cols=18 Identities=56% Similarity=0.842 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHHHHHh
Q 030692 153 QRKELIDKYMNSVEELIE 170 (173)
Q Consensus 153 qRrdli~kYr~sVEel~~ 170 (173)
.|.+||.+|+..+++|-+
T Consensus 34 ~~~~li~~~~~~i~~~~~ 51 (54)
T PF04423_consen 34 HRQELIKKYKSEIEELPE 51 (54)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhhhh
Confidence 458899999999987743
No 111
>PHA01794 hypothetical protein
Probab=28.27 E-value=3.1e+02 Score=22.58 Aligned_cols=70 Identities=20% Similarity=0.377 Sum_probs=47.4
Q ss_pred HHHHHHHhhhC-CccccchHHHHHHHHH-----H--HHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHH
Q 030692 89 MENLADAIENG-TRDQQSDALVNELNNH-----F--EKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDK 160 (173)
Q Consensus 89 ve~LaDaie~G-tRDQ~sDaLv~ELts~-----F--~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~k 160 (173)
+++++|.|++- .-|-.+.+|..||-.+ | .|+..|++.+.-++. .| .- |..-| +.+...=+|+|.+
T Consensus 56 ~~aI~d~v~~~~~Ee~~~e~lF~eleqEm~~SGFF~~ki~kyien~EK~~~--yl--~~-k~~~E--~~Q~~a~kdl~~r 128 (134)
T PHA01794 56 LDAIADFVETFEDEEGTTEGLFAELEKEMVDSGFFRAKIKKYIENMEKSAR--YL--KA-KDDTE--ATQAKAIKDLIGR 128 (134)
T ss_pred HHHHHHHHHHhhhhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHH--Hh--hc-cCcHH--HHHHHHHHHHHHH
Confidence 46677777554 3566677777777665 2 578999999987743 22 22 33333 4677888999999
Q ss_pred HHHHH
Q 030692 161 YMNSV 165 (173)
Q Consensus 161 Yr~sV 165 (173)
-|++|
T Consensus 129 mKk~l 133 (134)
T PHA01794 129 MKKAV 133 (134)
T ss_pred HHhhc
Confidence 98875
No 112
>PF05769 DUF837: Protein of unknown function (DUF837); InterPro: IPR008555 This family consists of several eukaryotic proteins of unknown function. One of the family members (O02197 from SWISSPROT) is a circulating cathodic antigen (CCA) found in Schistosoma mansoni (Blood fluke) [].
Probab=28.16 E-value=3.4e+02 Score=22.32 Aligned_cols=67 Identities=25% Similarity=0.404 Sum_probs=33.6
Q ss_pred ccccchHHHHHH---HHHHHHH------HHHHhhhhhcccccccch-hhhhc-----------chHHHHHHHHHHHHHHH
Q 030692 101 RDQQSDALVNEL---NNHFEKC------QQLLSSISESLDTKAMTV-EGQRR-----------KLEESEQLLNQRKELID 159 (173)
Q Consensus 101 RDQ~sDaLv~EL---ts~F~kc------QQlLnSiS~Si~sk~~tV-~gQk~-----------~LeEseqlL~qRrdli~ 159 (173)
+|..-|+|+.+. .++++-| -+.||.++..-..-.+.. +.|-+ .|+|++.-|+ -+|+
T Consensus 22 ~d~~ad~Ll~qa~~l~~~i~sm~~y~eei~~l~~~~~~~~~~~l~~En~qi~~Lq~EN~eL~~~leEhq~ale---lIM~ 98 (181)
T PF05769_consen 22 HDNAADSLLSQAEALNKQIESMRQYQEEIQELNELSKNRPRAGLQQENRQIRQLQQENRELRQSLEEHQSALE---LIMS 98 (181)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccchhHHHhhHHHHHHHHHHHHHHHHHHHHHHHHH---HHHH
Confidence 466667887654 3445444 366787775311100111 11111 2334433332 3577
Q ss_pred HHHHHHHHHHh
Q 030692 160 KYMNSVEELIE 170 (173)
Q Consensus 160 kYr~sVEel~~ 170 (173)
|||+-+..++.
T Consensus 99 KyReq~~~l~~ 109 (181)
T PF05769_consen 99 KYREQMSQLMM 109 (181)
T ss_pred HHHHHHHHHHH
Confidence 88888877764
No 113
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=27.90 E-value=4.6e+02 Score=24.55 Aligned_cols=61 Identities=18% Similarity=0.281 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030692 109 VNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEELI 169 (173)
Q Consensus 109 v~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kYr~sVEel~ 169 (173)
+..+..+++.+..-+..+...++.+.+....=+..+++....|+.=.+-..+++++|++|-
T Consensus 350 ~~~lekeL~~Le~~~~~~~~~i~~~~~~ysel~e~leel~e~leeie~eq~ei~e~l~~Lr 410 (569)
T PRK04778 350 VRQLEKQLESLEKQYDEITERIAEQEIAYSELQEELEEILKQLEEIEKEQEKLSEMLQGLR 410 (569)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444444455555444444444455555555444444455555554443
No 114
>COG3352 FlaC Putative archaeal flagellar protein C [Cell motility and secretion]
Probab=27.90 E-value=2.3e+02 Score=23.85 Aligned_cols=45 Identities=22% Similarity=0.502 Sum_probs=25.0
Q ss_pred HHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHH----HHHHHHH
Q 030692 117 EKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQR----KELIDKY 161 (173)
Q Consensus 117 ~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qR----rdli~kY 161 (173)
+-.--.++-|++-|++-..-.+|+|+.+.++...|+.= ++|+.-|
T Consensus 47 d~imer~~~ieNdlg~~~~~~~g~kk~~~~~~eelerLe~~iKdl~~ly 95 (157)
T COG3352 47 DAIMERMTDIENDLGKVKIEIEGQKKQLQDIKEELERLEENIKDLVSLY 95 (157)
T ss_pred HHHHHHHHHHHhhcccccccccchhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344455555555555555678888776666555543 4444444
No 115
>smart00502 BBC B-Box C-terminal domain. Coiled coil region C-terminal to (some) B-Box domains
Probab=27.82 E-value=2.1e+02 Score=19.67 Aligned_cols=67 Identities=18% Similarity=0.268 Sum_probs=36.7
Q ss_pred cchHHHHHHHHHHHHHHHHHhhhhhcccccccch-hhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030692 104 QSDALVNELNNHFEKCQQLLSSISESLDTKAMTV-EGQRRKLEESEQLLNQRKELIDKYMNSVEELIE 170 (173)
Q Consensus 104 ~sDaLv~ELts~F~kcQQlLnSiS~Si~sk~~tV-~gQk~~LeEseqlL~qRrdli~kYr~sVEel~~ 170 (173)
+.+...+.|.+.|++.-.+|+.--..+-++--.+ +.-...|++-...|+...+-+..--..+|++++
T Consensus 36 ~~~~~~~~I~~~f~~l~~~L~~~e~~ll~~l~~~~~~~~~~l~~q~~~l~~~l~~l~~~~~~~e~~l~ 103 (127)
T smart00502 36 NAADVEAQIKAAFDELRNALNKRKKQLLEDLEEQKENKLKVLEQQLESLTQKQEKLSHAINFTEEALN 103 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4577888888888888777776554432111111 112234444444555555555555555666655
No 116
>PRK10947 global DNA-binding transcriptional dual regulator H-NS; Provisional
Probab=27.63 E-value=1.2e+02 Score=24.17 Aligned_cols=62 Identities=18% Similarity=0.240 Sum_probs=43.7
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030692 107 ALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEELIE 170 (173)
Q Consensus 107 aLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kYr~sVEel~~ 170 (173)
+.+.||+ |+--..+|.-+..-|+-+.-..+-.....+|-+..|++=|++|+.|-=+++||+.
T Consensus 16 a~~re~~--~e~Lee~~ekl~~vv~er~ee~~~~~~~~~er~~kl~~~r~~m~~~Gis~~eL~~ 77 (135)
T PRK10947 16 AQARECT--LETLEEMLEKLEVVVNERREEESAAAAEVEERTRKLQQYREMLIADGIDPNELLN 77 (135)
T ss_pred HHHHHCC--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHhc
Confidence 3444442 4555555555555555555555666777788888999999999999999999974
No 117
>KOG2629 consensus Peroxisomal membrane anchor protein (peroxin) [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]
Probab=27.56 E-value=3.7e+02 Score=24.66 Aligned_cols=52 Identities=15% Similarity=0.308 Sum_probs=37.4
Q ss_pred HHhhhCCccccchHHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHH
Q 030692 94 DAIENGTRDQQSDALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEE 146 (173)
Q Consensus 94 Daie~GtRDQ~sDaLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeE 146 (173)
-.+-.+..| +-.+-++.|...|.++.+.||.|..++..-+--...|+++|.+
T Consensus 110 P~~l~~~~~-k~e~~k~~Ld~~~~~~~~~~~~l~~~va~v~q~~~~qq~Els~ 161 (300)
T KOG2629|consen 110 PRFLGESKD-KLEADKRQLDDQFDKAAKSLNALMDEVAQVSQLLATQQSELSR 161 (300)
T ss_pred HHhhCccch-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334455566 5588899999999999999999998766444445556655443
No 118
>PF09969 DUF2203: Uncharacterized conserved protein (DUF2203); InterPro: IPR018699 This family has no known function.
Probab=27.44 E-value=2.9e+02 Score=21.32 Aligned_cols=24 Identities=21% Similarity=0.252 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 030692 146 ESEQLLNQRKELIDKYMNSVEELI 169 (173)
Q Consensus 146 EseqlL~qRrdli~kYr~sVEel~ 169 (173)
+...+....+.+.+..+..|++|-
T Consensus 44 ~~~~~~~~~~~~~~~~~~~i~~i~ 67 (120)
T PF09969_consen 44 EVNGLEAELEELEARLRELIDEIE 67 (120)
T ss_pred hHHhHHHHHHHHHHHHHHHHHHHH
Confidence 444455555666667777776653
No 119
>cd07647 F-BAR_PSTPIP The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Proline-Serine-Threonine Phosphatase-Interacting Proteins. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Vetebrates contain two Proline-Serine-Threonine Phosphatase-Interacting Proteins (PSTPIPs), PSTPIP1 and PSTPIP2. PSTPIPs are mainly expressed in hematopoietic cells and are involved in the regulation of cell adhesion and motility. Mutations in PSTPIPs have been shown to cause autoinflammatory disorders. PSTPIP1 contains an N-terminal F-BAR domain, PEST motifs, and a C-terminal SH3 domain, while PSTPIP2 contains only the N-terminal F-BAR domain. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged lipid membranes. They can induce membrane deformation in the form of long tubules.
Probab=27.36 E-value=3.5e+02 Score=22.21 Aligned_cols=29 Identities=24% Similarity=0.230 Sum_probs=21.4
Q ss_pred hhcchHHHHHHHHHHHHHH----HHHHHHHHHH
Q 030692 140 QRRKLEESEQLLNQRKELI----DKYMNSVEEL 168 (173)
Q Consensus 140 Qk~~LeEseqlL~qRrdli----~kYr~sVEel 168 (173)
.++.+|..+..|+.++.-+ .+|+..|+.+
T Consensus 151 ~~ke~eK~~~K~~k~~~~~~~a~~~Y~~~v~~l 183 (239)
T cd07647 151 QPKEAEKLKKKAAQCKTSAEEADSAYKSSIGCL 183 (239)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3467888888888876544 6788898765
No 120
>PF13339 AATF-Che1: Apoptosis antagonizing transcription factor
Probab=27.29 E-value=2.6e+02 Score=20.85 Aligned_cols=25 Identities=28% Similarity=0.338 Sum_probs=22.6
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHH
Q 030692 142 RKLEESEQLLNQRKELIDKYMNSVE 166 (173)
Q Consensus 142 ~~LeEseqlL~qRrdli~kYr~sVE 166 (173)
..++++..-++.+-.-+..||+.|=
T Consensus 101 ~~~~~~~~~~~~~~~~~~~~R~~~L 125 (131)
T PF13339_consen 101 RSLEEYWEEIQKLDKRLEPYRNSTL 125 (131)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4899999999999999999999873
No 121
>cd07589 BAR_DNMBP The Bin/Amphiphysin/Rvs (BAR) domain of Dynamin Binding Protein. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. DyNamin Binding Protein (DNMBP), also called Tuba, is a Cdc42-specific Guanine nucleotide Exchange Factor (GEF) that binds dynamin and various actin regulatory proteins. It serves as a link between dynamin function, Rho GTPase signaling, and actin dynamics. It plays an important role in regulating cell junction configuration. DNMBP contains BAR and SH3 domains as well as a Dbl Homology domain (DH domain), which harbors GEF activity. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions. The BAR domain of DNMBP may be involved in binding to membranes. The gene encoding DNMBP is a candidate gene for late onset Alzheimer's disease.
Probab=27.29 E-value=1.3e+02 Score=24.21 Aligned_cols=31 Identities=19% Similarity=0.295 Sum_probs=24.2
Q ss_pred CccccchHHHHHHHHHHHHHHHHHhhhhhcc
Q 030692 100 TRDQQSDALVNELNNHFEKCQQLLSSISESL 130 (173)
Q Consensus 100 tRDQ~sDaLv~ELts~F~kcQQlLnSiS~Si 130 (173)
|.|..+|++...+...+..++.|...+.+-+
T Consensus 2 t~D~~fd~~e~rF~~~e~~~~~l~kd~k~Y~ 32 (195)
T cd07589 2 TKDKEFDELEKKFGSLEKQVQLVVRNVELYL 32 (195)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6788888998888888888888777666443
No 122
>PF00611 FCH: Fes/CIP4, and EFC/F-BAR homology domain; InterPro: IPR001060 The FCH domain is a short conserved region of around 60 amino acids first described as a region of homology between FER and CIP4 proteins []. Many proteins containing an FCH domain are involved in the regulation of cytoskeletal rearrangements, vesicular transport and endocytosis. In the CIP4 protein the FCH domain binds to microtubules []. The FCH domain is always found N-terminally and is followed by a coiled-coil region. Proteins containing an FCH domain can be divided in 3 classes []: A subfamily of protein kinases usually associated with an SH2 domain: Fps/fes (Fujimani poultry sarcoma/feline sarcoma) proto-oncogenes. They are non-receptor protein-tyrosine kinases preferentially expressed in myeloid lineage. The viral oncogene has an unregulated kinase activity which abrogates the need for cytokines and influences differentiation of haematopoietic progenitor cells. Fes related protein (fer). It is an ubiquitously expressed homologue of Fes. Adaptor proteins usually associated with a C-terminal SH3 domain: Schizosaccharomyces pombe CDC15 protein. It mediates cytoskeletal rearrangements required for cytokinesis. It is essential for viability. CD2 cytoplasmic domain binding protein. Mammalian Cdc42-interacting protein 4 (CIP4). It may act as a link between Cdc42 signaling and regulation of the actin cytoskeleton. Mammalian PACSIN proteins. A family of cytoplasmic phosphoproteins playing a role in vesicle formation and transport. A subfamily of Rho-GAP proteins: Mammalian RhoGAP4 proteins. They may down-regulate Rho-like GTPases in hematopoietic cells. Yeast hypothetical protein YBR260C. Caenorhabditis elegans hypothetical protein ZK669.1. ; PDB: 2EFK_A 2EFL_A 2X3W_A 2X3X_C 2X3V_C 3I2W_A 3ABH_B 3Q0K_B 3HAJ_A 3ACO_B ....
Probab=27.11 E-value=1.7e+02 Score=19.33 Aligned_cols=33 Identities=24% Similarity=0.426 Sum_probs=24.3
Q ss_pred hhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030692 138 EGQRRKLEESEQLLNQRKELIDKYMNSVEELIE 170 (173)
Q Consensus 138 ~gQk~~LeEseqlL~qRrdli~kYr~sVEel~~ 170 (173)
+.-..-+++....+.+|.++=.+|-+....|.+
T Consensus 19 ~~~~~~~~~l~~~~keRa~lE~~Yak~L~kl~~ 51 (91)
T PF00611_consen 19 KQGIKLLEELASFFKERASLEEEYAKSLQKLAK 51 (91)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334456777788888888888888888877765
No 123
>PRK12333 nucleoside triphosphate pyrophosphohydrolase; Reviewed
Probab=27.11 E-value=78 Score=27.07 Aligned_cols=35 Identities=34% Similarity=0.498 Sum_probs=25.2
Q ss_pred HHHHhhhhhhhHHHHHHHHHHHhhhCCccccchHHHHHHHH
Q 030692 74 QHHQSLASNFHLLHLMENLADAIENGTRDQQSDALVNELNN 114 (173)
Q Consensus 74 q~hqsLASHfhL~~Lve~LaDaie~GtRDQ~sDaLv~ELts 114 (173)
|-|.||..+ |+-=+-.+.|||++|+. +.|.+||..
T Consensus 23 QT~~SL~~y--llEE~yEv~dAI~~~d~----~~l~EELGD 57 (204)
T PRK12333 23 QTHESLRPY--LLEEAAEAVDALSEGDP----QELAEELGD 57 (204)
T ss_pred cCHHHHHHH--HHHHHHHHHHHHHcCCH----HHHHHHHHH
Confidence 457788776 55555567888988765 688888875
No 124
>PF05546 She9_MDM33: She9 / Mdm33 family; InterPro: IPR008839 Members of this family are mitochondrial inner membrane proteins with a role in inner mitochondrial membrane organisation and biogenesis []. The yeast Mdm33 protein assembles into an oligomeric complex in the inner membrane where it performs homotypic protein-protein interactions. It has been suggested that Mdm33 plays a distinct role, possibly involved in fission of the mitochondrial inner membrane [].
Probab=26.91 E-value=2.6e+02 Score=24.23 Aligned_cols=54 Identities=15% Similarity=0.233 Sum_probs=39.9
Q ss_pred chHHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHHHH
Q 030692 105 SDALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMN 163 (173)
Q Consensus 105 sDaLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kYr~ 163 (173)
.......|.+.|-.+-+-||.+.|= + -|+.=|+..++.|..|...|..+...|.
T Consensus 7 ~~~~~d~lq~~i~~as~~lNd~TGY-s----~Ie~LK~~i~~~E~~l~~~r~~~~~aK~ 60 (207)
T PF05546_consen 7 LSFYMDSLQETIFTASQALNDVTGY-S----EIEKLKKSIEELEDELEAARQEVREAKA 60 (207)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccCh-H----HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566777888888899999999872 2 5777788888888888877666554333
No 125
>PLN02381 valyl-tRNA synthetase
Probab=26.75 E-value=2e+02 Score=29.43 Aligned_cols=59 Identities=17% Similarity=0.221 Sum_probs=47.6
Q ss_pred chHHHHHHHHHHHHHHHHHhhhhhccccccc-------chhhhhcchHHHHHHHHHHHHHHHHHHH
Q 030692 105 SDALVNELNNHFEKCQQLLSSISESLDTKAM-------TVEGQRRKLEESEQLLNQRKELIDKYMN 163 (173)
Q Consensus 105 sDaLv~ELts~F~kcQQlLnSiS~Si~sk~~-------tV~gQk~~LeEseqlL~qRrdli~kYr~ 163 (173)
.++-+..|..+.++.+.-+.++..-|++... .|+.-+.||++++..+..=++.|+..+.
T Consensus 995 ~~~E~~rL~K~l~klekei~~~~~kLsN~~F~~KAP~~vve~e~~kl~~~~~~l~~l~~~l~~l~~ 1060 (1066)
T PLN02381 995 AEAELEKLRNKMDEIQKQQEKLEKKMNASGYKEKVPANIQEEDARKLTKLLQELEFFEKESKRLEA 1060 (1066)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhcCCchhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3566778889999999999999988887653 6888888999888888877777777654
No 126
>PLN02943 aminoacyl-tRNA ligase
Probab=26.72 E-value=1.8e+02 Score=29.26 Aligned_cols=59 Identities=22% Similarity=0.295 Sum_probs=47.0
Q ss_pred chHHHHHHHHHHHHHHHHHhhhhhccccccc-------chhhhhcchHHHHHHHHHHHHHHHHHHH
Q 030692 105 SDALVNELNNHFEKCQQLLSSISESLDTKAM-------TVEGQRRKLEESEQLLNQRKELIDKYMN 163 (173)
Q Consensus 105 sDaLv~ELts~F~kcQQlLnSiS~Si~sk~~-------tV~gQk~~LeEseqlL~qRrdli~kYr~ 163 (173)
.++-+..|..+.+|.+.-+..+..-|+++.. .|+.-+.||++.+..|..=++.|+++++
T Consensus 887 ~~~E~~rL~K~l~klekei~~~~~kLsN~~F~~KAP~evv~~e~~kl~~~~~~l~~~~~~l~~l~~ 952 (958)
T PLN02943 887 ISAEVERLSKRLSKMQTEYDALAARLSSPKFVEKAPEDVVRGVREKAAEAEEKIKLTKNRLAFLKS 952 (958)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhCCchhhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4577788999999999999999988887654 5788888888888887777777777664
No 127
>cd00179 SynN Syntaxin N-terminus domain; syntaxins are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane; they are a family of receptors for intracellular transport vesicles; each target membrane may be identified by a specific member of the syntaxin family; syntaxins contain a moderately well conserved amino-terminal domain, called Habc, whose structure is an antiparallel three-helix bundle; a linker of about 30 amino acids connects this to the carboxy-terminal region, designated H3 (t_SNARE), of the syntaxin cytoplasmic domain; the highly conserved H3 region forms a single, long alpha-helix when it is part of the core SNARE complex and anchors the protein on the cytoplasmic surface of cellular membranes; H3 is not included in defining this domain
Probab=26.56 E-value=2.6e+02 Score=20.49 Aligned_cols=42 Identities=17% Similarity=0.300 Sum_probs=23.8
Q ss_pred HHHHHHHHHhhhCCc-cc----cchHHHHHHHHHHHHHHHHHhhhhh
Q 030692 87 HLMENLADAIENGTR-DQ----QSDALVNELNNHFEKCQQLLSSISE 128 (173)
Q Consensus 87 ~Lve~LaDaie~GtR-DQ----~sDaLv~ELts~F~kcQQlLnSiS~ 128 (173)
--|++|-..+.+.+. |. ..+.++.+.+..+..|...|..+..
T Consensus 23 ~~l~~l~~~~~t~~~~~~~~~~~l~~~~~~~~~~~~~ik~~lk~l~~ 69 (151)
T cd00179 23 EELQKLHSQLLTAPDADPELKQELESLVQEIKKLAKEIKGKLKELEE 69 (151)
T ss_pred HHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555555544433 21 2256666666777777777777664
No 128
>TIGR00295 conserved hypothetical protein TIGR00295. This set of orthologs is narrowly defined, comprising proteins found in three Archaea but not in Pyrococcus horikoshii. The closest homologs are other archaeal proteins that appear to be represent distinct orthologous clusters.
Probab=26.56 E-value=78 Score=24.73 Aligned_cols=31 Identities=19% Similarity=0.317 Sum_probs=14.5
Q ss_pred HHHHHHHHHHhhhCCccccchHHHHHHHHHH
Q 030692 86 LHLMENLADAIENGTRDQQSDALVNELNNHF 116 (173)
Q Consensus 86 ~~Lve~LaDaie~GtRDQ~sDaLv~ELts~F 116 (173)
...|=.+||.+..|+|+-.-++.+..+..+|
T Consensus 113 ea~IV~~AD~l~~~~~~~~~e~~~~~~~~~~ 143 (164)
T TIGR00295 113 EEKIVAHADNLIMGVREVTIDEVIKKLEERL 143 (164)
T ss_pred HHHHHHHHHHhccccccccHHHHHHHHHHHh
Confidence 3334445555555555554444444444433
No 129
>cd07591 BAR_Rvs161p The Bin/Amphiphysin/Rvs (BAR) domain of Saccharomyces cerevisiae Reduced viability upon starvation protein 161 and similar proteins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. This subfamily is composed of fungal proteins with similarity to Saccharomyces cerevisiae Reduced viability upon starvation protein 161 (Rvs161p) and Schizosaccharomyces pombe Hob3 (homolog of Bin3). S. cerevisiae Rvs161p plays a role in regulating cell polarity, actin cytoskeleton polarization, vesicle trafficking, endocytosis, bud formation, and the mating response. It forms a heterodimer with another BAR domain protein Rvs167p. Rvs161p and Rvs167p share common functions but are not interchangeable. Their BAR domains cannot be replaced with each other and the overexpression of one cannot suppress the mutant phenotypes of the other. S. pombe Hob3 is important in regulating filamentous actin localization an
Probab=25.67 E-value=1.1e+02 Score=25.61 Aligned_cols=25 Identities=12% Similarity=0.036 Sum_probs=11.5
Q ss_pred CccccchHHHHHHHHHHHHHHHHHh
Q 030692 100 TRDQQSDALVNELNNHFEKCQQLLS 124 (173)
Q Consensus 100 tRDQ~sDaLv~ELts~F~kcQQlLn 124 (173)
|.|..+|.+++.+...-..|..|..
T Consensus 8 T~D~~F~~~e~~f~~~e~~~~kL~k 32 (224)
T cd07591 8 TVDREFEFEERRYRTMEKASTKLQK 32 (224)
T ss_pred cCchHHHHHHHHHHHHHHHHHHHHH
Confidence 4454445554444444444444433
No 130
>COG5200 LUC7 U1 snRNP component, mediates U1 snRNP association with cap-binding complex [RNA processing and modification]
Probab=25.24 E-value=3.2e+02 Score=24.56 Aligned_cols=32 Identities=31% Similarity=0.378 Sum_probs=25.0
Q ss_pred chhhhhcchHHHHHHHHHHHHHHHHHHHHHHH
Q 030692 136 TVEGQRRKLEESEQLLNQRKELIDKYMNSVEE 167 (173)
Q Consensus 136 tV~gQk~~LeEseqlL~qRrdli~kYr~sVEe 167 (173)
-|+-=-.-.-|.+.+...|+++-..|.+|||-
T Consensus 145 ~V~~a~~~f~el~rl~~~rkei~~~v~sm~en 176 (258)
T COG5200 145 LVERACSAFNELERLREERKEIKEAVYSMVEN 176 (258)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 34444445567889999999999999999974
No 131
>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope. They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....
Probab=25.24 E-value=2.7e+02 Score=23.05 Aligned_cols=23 Identities=35% Similarity=0.534 Sum_probs=13.8
Q ss_pred hHHHHHHHHHHHHH---HHHHHHHHH
Q 030692 144 LEESEQLLNQRKEL---IDKYMNSVE 166 (173)
Q Consensus 144 LeEseqlL~qRrdl---i~kYr~sVE 166 (173)
+.|++.||+-+-.| |+.||+.+|
T Consensus 282 ~~ey~~Ll~~K~~Ld~EIatYR~LLE 307 (312)
T PF00038_consen 282 LREYQELLDVKLALDAEIATYRKLLE 307 (312)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHh
Confidence 34555666655555 677777664
No 132
>COG1463 Ttg2C ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=25.21 E-value=3.2e+02 Score=23.87 Aligned_cols=57 Identities=18% Similarity=0.185 Sum_probs=30.7
Q ss_pred HHHHHHHHHhhhhhcccccccchhhhhcch----H-HHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 030692 115 HFEKCQQLLSSISESLDTKAMTVEGQRRKL----E-ESEQLLNQRKELIDKYMNSVEELIEYE 172 (173)
Q Consensus 115 ~F~kcQQlLnSiS~Si~sk~~tV~gQk~~L----e-EseqlL~qRrdli~kYr~sVEel~~~~ 172 (173)
+|.+-..-|++....++..+.++++-..+. - ..++ |+.=..++.+|+..+++++..-
T Consensus 233 ~~~~~~~~l~~~l~~~~~~~~~~~~ll~~~r~~l~~~l~~-l~~~~~~~~~~~~~~~~ll~~~ 294 (359)
T COG1463 233 ALAARRDALDDALAALSALAATVNDLLAENRPNLNQALAN-LRPLATLLVDYLPGLEQLLHGL 294 (359)
T ss_pred HHhhchHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHH-HHHHHHHHHhhHHHHHHHHHhc
Confidence 344444444444444444444555443332 2 2223 5555666779999999998754
No 133
>PF06785 UPF0242: Uncharacterised protein family (UPF0242); InterPro: IPR009623 This is a group of proteins of unknown function.
Probab=25.09 E-value=1.5e+02 Score=28.16 Aligned_cols=64 Identities=25% Similarity=0.357 Sum_probs=37.9
Q ss_pred hHHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030692 106 DALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEELI 169 (173)
Q Consensus 106 DaLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kYr~sVEel~ 169 (173)
|+++.|....-+..+.|..-++..+--++.--+-+-..+-|-..-|+-|..-|.|-++-|.+|.
T Consensus 151 ~~l~~e~~Ekeeesq~LnrELaE~layqq~L~~eyQatf~eq~~ml~kRQ~yI~~LEsKVqDLm 214 (401)
T PF06785_consen 151 DALQQECGEKEEESQTLNRELAEALAYQQELNDEYQATFVEQHSMLDKRQAYIGKLESKVQDLM 214 (401)
T ss_pred HHHHHHHhHhHHHHHHHHHHHHHHHHHHHHHHHHhhcccccchhhhHHHHHHHHHHHHHHHHHH
Confidence 4444444444455555555555444433333344444444556678889999999988888753
No 134
>PF05615 THOC7: Tho complex subunit 7; InterPro: IPR008501 The Tho complex (THOC) is involved in transcription elongation and mRNA export from the nucleus []. This entry represents the subunit THOC7, which is found in higher eukaryotes, and the non-homologous subunit Mft1p found in yeast. The funtions of these subunits are unknown, and it is not known if these subunits are functionally equivalent.
Probab=25.08 E-value=3e+02 Score=20.70 Aligned_cols=33 Identities=24% Similarity=0.308 Sum_probs=20.6
Q ss_pred HHHHHHhhhCCccccchHHHHHHHHHHHHHHHH
Q 030692 90 ENLADAIENGTRDQQSDALVNELNNHFEKCQQL 122 (173)
Q Consensus 90 e~LaDaie~GtRDQ~sDaLv~ELts~F~kcQQl 122 (173)
.++.+.+..|..+.....+...+...|+.|+--
T Consensus 29 ~~~~~~~~~~~~~e~~~~~~e~~l~~l~~~e~~ 61 (139)
T PF05615_consen 29 CNLSDSILSGQPSEESQFLYERLLKELAQFEFS 61 (139)
T ss_pred HhhhccccccccchhHHHHHHHHHHHHHHHHHH
Confidence 445555555555566777777777777766543
No 135
>PF13949 ALIX_LYPXL_bnd: ALIX V-shaped domain binding to HIV ; PDB: 2XS1_A 2XS8_A 2R03_A 2R02_A 2OEX_B 2OEV_A 2OJQ_A 2R05_A.
Probab=24.60 E-value=3.2e+02 Score=22.27 Aligned_cols=25 Identities=28% Similarity=0.515 Sum_probs=19.3
Q ss_pred hcchHHHHHHHHHHHHHHHHHHHHH
Q 030692 141 RRKLEESEQLLNQRKELIDKYMNSV 165 (173)
Q Consensus 141 k~~LeEseqlL~qRrdli~kYr~sV 165 (173)
+.-|++.+.+..+|.++|.+.|+.+
T Consensus 147 ~~ll~~l~~l~~eR~~~~~~lk~~~ 171 (296)
T PF13949_consen 147 RELLNKLEELKKEREELLEQLKEKL 171 (296)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH--
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4567777888889999999998855
No 136
>PRK02292 V-type ATP synthase subunit E; Provisional
Probab=24.49 E-value=3.5e+02 Score=21.16 Aligned_cols=24 Identities=17% Similarity=0.246 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 030692 146 ESEQLLNQRKELIDKYMNSVEELI 169 (173)
Q Consensus 146 EseqlL~qRrdli~kYr~sVEel~ 169 (173)
.+.-.+..||.++...+.++++++
T Consensus 63 ~s~a~~~~rr~~L~~r~~~l~~v~ 86 (188)
T PRK02292 63 LSSAKLEAKRERLNARKEVLEDVR 86 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344445555555555555555444
No 137
>PF07851 TMPIT: TMPIT-like protein; InterPro: IPR012926 A number of members of this family are annotated as being transmembrane proteins induced by tumour necrosis factor alpha, but no literature was found to support this. ; GO: 0016021 integral to membrane
Probab=24.42 E-value=2e+02 Score=26.23 Aligned_cols=10 Identities=30% Similarity=0.717 Sum_probs=3.8
Q ss_pred hhhhhcchHH
Q 030692 137 VEGQRRKLEE 146 (173)
Q Consensus 137 V~gQk~~LeE 146 (173)
++.||+.|.+
T Consensus 41 I~~QkkrLk~ 50 (330)
T PF07851_consen 41 ISHQKKRLKE 50 (330)
T ss_pred HHHHHHHHHH
Confidence 3333333333
No 138
>PRK14162 heat shock protein GrpE; Provisional
Probab=24.33 E-value=1.6e+02 Score=24.75 Aligned_cols=53 Identities=17% Similarity=0.276 Sum_probs=29.3
Q ss_pred hHHHHHHHHHHHhhhCCccccchHHHHHHHHHHHHHHHHHhhhhhcccccccchhhh
Q 030692 84 HLLHLMENLADAIENGTRDQQSDALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQ 140 (173)
Q Consensus 84 hL~~Lve~LaDaie~GtRDQ~sDaLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQ 140 (173)
-||++++||.-|+..+..|....++ ..-|+-+...|.++=...+=+.|...|.
T Consensus 94 ~LLpV~DnLerAl~~~~~~~~~~~l----~~Gvemi~k~l~~vL~~~GV~~I~~~G~ 146 (194)
T PRK14162 94 DVLPAMDNLERALAVKADDEAAKQL----KKGVQMTLDHLVKALKDHGVTEIKADGE 146 (194)
T ss_pred HHhhHHhHHHHHHhccccchhHHHH----HHHHHHHHHHHHHHHHHCCCEEeCCCCC
Confidence 4999999999999886544333333 3344444433333333334334433344
No 139
>PF09720 Unstab_antitox: Putative addiction module component; InterPro: IPR013406 This entry defines several short bacterial proteins, typically about 75 amino acids long, which are always found as part of a pair (at least) of small genes. The other protein in the pair always belongs to a family of plasmid stabilisation proteins (IPR007712 from INTERPRO). It is likely that this protein and its partner comprise some form of addiction module - a pair of genes consisting of a stable toxin and an unstable antitoxin which mediate programmed cell death [] - although these gene pairs are usually found on the bacterial main chromosome.
Probab=24.29 E-value=2e+02 Score=18.58 Aligned_cols=33 Identities=18% Similarity=0.300 Sum_probs=23.4
Q ss_pred HHHHHHHHHhhhCCccccchHHHHHHHHHHHHHH
Q 030692 87 HLMENLADAIENGTRDQQSDALVNELNNHFEKCQ 120 (173)
Q Consensus 87 ~Lve~LaDaie~GtRDQ~sDaLv~ELts~F~kcQ 120 (173)
-||+.|-+.+... .+.-.++-+.||..|++.+.
T Consensus 9 ~L~e~L~~sl~~~-~~~~~~~w~~el~rR~~~~~ 41 (54)
T PF09720_consen 9 ELAEELWDSLDDP-DSEVEAWWKEELERRLAEYE 41 (54)
T ss_pred HHHHHHHHHhccc-cccCcHHHHHHHHHHHHHHH
Confidence 4677777777776 44566777888888877654
No 140
>KOG3182 consensus Predicted cation transporter [Inorganic ion transport and metabolism]
Probab=24.03 E-value=86 Score=27.44 Aligned_cols=41 Identities=20% Similarity=0.365 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHhhhCCccccchHHHHHHHHHHHHHHHHHhhh
Q 030692 85 LLHLMENLADAIENGTRDQQSDALVNELNNHFEKCQQLLSSI 126 (173)
Q Consensus 85 L~~Lve~LaDaie~GtRDQ~sDaLv~ELts~F~kcQQlLnSi 126 (173)
||.|.++|++..- |.+|.|.-+|++++.....+|+++...+
T Consensus 156 Lf~La~am~~l~p-~~~D~hl~eL~~~Vrk~l~~~~~~~~al 196 (212)
T KOG3182|consen 156 LFNLAKAMRQLFP-GAEDEHLFELENEVRKYLVESRPLVHAL 196 (212)
T ss_pred HHHHHHHHHHcCC-CchhHHHHHHHHHHHHHHhccchhhhhh
Confidence 6777777776544 8999999999999999988887776655
No 141
>TIGR01220 Pmev_kin_Gr_pos phosphomevalonate kinase, ERG8-type, Gram-positive branch. This enzyme is part of the mevalonate pathway, one of two alternative pathways for the biosynthesis of IPP. In an example of nonorthologous gene displacement, two different types of phosphomevalonate kinase are found - the animal type and this ERG8 type. This model represents the low GC Gram-positive organism forms of the ERG8 type of phosphomevalonate kinase.
Probab=23.99 E-value=1.2e+02 Score=26.42 Aligned_cols=34 Identities=21% Similarity=0.407 Sum_probs=27.3
Q ss_pred HHHHHHHHHhhhCCccccchHHHHHHHHHHHHHHHHHhhhhh
Q 030692 87 HLMENLADAIENGTRDQQSDALVNELNNHFEKCQQLLSSISE 128 (173)
Q Consensus 87 ~Lve~LaDaie~GtRDQ~sDaLv~ELts~F~kcQQlLnSiS~ 128 (173)
.+++.+.++++.|+ +++|...+.+.+.+|.+++.
T Consensus 256 ~i~~~~~~al~~~d--------~~~lg~~~~~~~~lL~~l~~ 289 (358)
T TIGR01220 256 DCVESAITAFETGD--------ITSLQKEIRRNRQELARLDD 289 (358)
T ss_pred HHHHHHHHHHHhCC--------HHHHHHHHHHHHHHHHHhhc
Confidence 56777778888774 66788889999999999865
No 142
>PRK00977 exodeoxyribonuclease VII small subunit; Provisional
Probab=23.70 E-value=2.9e+02 Score=19.98 Aligned_cols=56 Identities=21% Similarity=0.306 Sum_probs=43.2
Q ss_pred HHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 030692 116 FEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEELIEY 171 (173)
Q Consensus 116 F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kYr~sVEel~~~ 171 (173)
|+.+-.=|..|-..|.+..++++.=-...++--.++..=+..|.+.+.-|+.|+..
T Consensus 12 fEea~~~LEeIv~~LE~~~l~Lees~~lyeeg~~L~k~C~~~L~~ae~ki~~l~~~ 67 (80)
T PRK00977 12 FEEALAELEEIVTRLESGDLPLEESLAAFERGVALARQCQKKLQQAEQRVEKLLDE 67 (80)
T ss_pred HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 66666666666666777778888777777777888888888888998888888754
No 143
>PF05769 DUF837: Protein of unknown function (DUF837); InterPro: IPR008555 This family consists of several eukaryotic proteins of unknown function. One of the family members (O02197 from SWISSPROT) is a circulating cathodic antigen (CCA) found in Schistosoma mansoni (Blood fluke) [].
Probab=23.64 E-value=1.1e+02 Score=25.15 Aligned_cols=14 Identities=7% Similarity=0.275 Sum_probs=8.2
Q ss_pred HHHHHHHHHHHHHh
Q 030692 157 LIDKYMNSVEELIE 170 (173)
Q Consensus 157 li~kYr~sVEel~~ 170 (173)
.+++|...+|-|..
T Consensus 85 ~leEhq~alelIM~ 98 (181)
T PF05769_consen 85 SLEEHQSALELIMS 98 (181)
T ss_pred HHHHHHHHHHHHHH
Confidence 45666666665554
No 144
>PF11101 DUF2884: Protein of unknown function (DUF2884); InterPro: IPR021307 Some members in this bacterial family of proteins are annotated as YggN which currently has no known function.
Probab=23.43 E-value=2.5e+02 Score=23.43 Aligned_cols=69 Identities=20% Similarity=0.337 Sum_probs=42.4
Q ss_pred HHHHHHHHHhhhCCccccchHHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHH
Q 030692 87 HLMENLADAIENGTRDQQSDALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRK 155 (173)
Q Consensus 87 ~Lve~LaDaie~GtRDQ~sDaLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRr 155 (173)
-++.++...+..+.-|.+.+++-+-+..==++.+.=+++-+..|..|+-.+-+.-..|++.|+.|.+|=
T Consensus 151 ~i~~~l~~~m~~~~G~~~l~~~~~~m~~l~~~ie~~~~~q~~~le~~a~~lC~~l~~L~~~E~~L~~~I 219 (229)
T PF11101_consen 151 SILQALGNEMGSSEGDQNLQAFEQRMEGLQQQIEQEMEAQAQELEQKAQALCDSLQQLDQQEQQLQQRI 219 (229)
T ss_pred HHHHHHHHHHHccCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 345566666644444455444444444434455555666777777777777777777888887777664
No 145
>PF12022 DUF3510: Domain of unknown function (DUF3510); InterPro: IPR024603 The COG complex comprises eight proteins (COG1-8) and plays critical roles in Golgi structure and function []. This uncharacterised domain is found in the C-terminal of COG complex subunit 2 proteins.
Probab=23.37 E-value=1.4e+02 Score=22.82 Aligned_cols=15 Identities=47% Similarity=0.609 Sum_probs=10.4
Q ss_pred cchHHHHHHHHHHHH
Q 030692 142 RKLEESEQLLNQRKE 156 (173)
Q Consensus 142 ~~LeEseqlL~qRrd 156 (173)
+|.|||=+.|..+|+
T Consensus 87 ~KtEeSL~rlkk~~~ 101 (125)
T PF12022_consen 87 RKTEESLKRLKKRRK 101 (125)
T ss_pred HHHHHHHHHHHHhhc
Confidence 466787777777753
No 146
>KOG1883 consensus Cofactor required for Sp1 transcriptional activation, subunit 3 [Transcription]
Probab=23.37 E-value=68 Score=34.58 Aligned_cols=7 Identities=43% Similarity=0.254 Sum_probs=3.0
Q ss_pred Cccccccc
Q 030692 26 SNQDNLFL 33 (173)
Q Consensus 26 snQdnL~L 33 (173)
|+|- +++
T Consensus 1407 S~q~-p~~ 1413 (1517)
T KOG1883|consen 1407 SLQA-PLL 1413 (1517)
T ss_pred cccC-ccC
Confidence 4444 444
No 147
>KOG2911 consensus Uncharacterized conserved protein [Function unknown]
Probab=23.27 E-value=2.8e+02 Score=26.60 Aligned_cols=62 Identities=21% Similarity=0.323 Sum_probs=44.0
Q ss_pred HHHHHHHHHHHHHHHhhhhhccccccc------------chhhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 030692 109 VNELNNHFEKCQQLLSSISESLDTKAM------------TVEGQRRKLEESEQLLNQRKELIDKYMNSVEELIEY 171 (173)
Q Consensus 109 v~ELts~F~kcQQlLnSiS~Si~sk~~------------tV~gQk~~LeEseqlL~qRrdli~kYr~sVEel~~~ 171 (173)
++.+++...+.+.+|+.|..|-++|-+ .+-++--+-|..|-.|++=+|.++.|+. ||+++.+
T Consensus 289 ~er~~~~l~~l~~vl~~Id~s~~nkvvl~AyksGs~alK~il~~~~s~ekVed~Ldev~et~d~~~E-V~~~la~ 362 (439)
T KOG2911|consen 289 LERKVSSLNNLETVLSQIDNSQTNKVVLQAYKSGSEALKAILAQGGSTEKVEDVLDEVNETLDRQEE-VEDALAS 362 (439)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcccHHHHHHHHHhHHHHHHHHhccCChhhHHHHHHHHHHHHhhHHH-HHHHHhc
Confidence 344555566778888888888776644 3445555667788899999999999986 6666554
No 148
>PRK13456 DNA protection protein DPS; Provisional
Probab=23.06 E-value=3.9e+02 Score=22.66 Aligned_cols=60 Identities=20% Similarity=0.226 Sum_probs=37.1
Q ss_pred HHHHHHHHHHhhhhhccccccc---c---------hhhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 030692 114 NHFEKCQQLLSSISESLDTKAM---T---------VEGQRRKLEESEQLLNQRKELIDKYMNSVEELIEYEP 173 (173)
Q Consensus 114 s~F~kcQQlLnSiS~Si~sk~~---t---------V~gQk~~LeEseqlL~qRrdli~kYr~sVEel~~~~p 173 (173)
+||+.+-.=+.-+.|+....+- + .+.-.--.+=.++.|.-=|..|+-|+++++.+-.+||
T Consensus 67 ~HA~~lAeRI~qLGG~P~~~p~~~~~ls~~~~~~~p~d~tdv~~mL~~~L~AEr~AI~~Y~eii~~~~~kDp 138 (186)
T PRK13456 67 NHFEALVPRIYELGGKLPRDIREFHDISACPDAYLPENPTDPKEILKVLLEAERCAIRTYTEICDMTAGKDP 138 (186)
T ss_pred HHHHHHHHHHHHhCCCCCCChHHHhhhhcCccccCCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCc
Confidence 5666655555555566554443 1 1211123344678888889999999999977665554
No 149
>cd03415 CbiX_CbiC Archaeal sirohydrochlorin cobalt chelatase (CbiX) single domain. Proteins in this subgroup contain a single CbiX domain N-terminal to a precorrin-8X methylmutase (CbiC) domain. CbiX is a cobaltochelatase, responsible for the chelation of Co2+ into sirohydrochlorin, while CbiC catalyzes the conversion of cobalt-precorrin 8 to cobyrinic acid by methyl rearrangement. Both CbiX and CbiC are involved in vitamin B12 biosynthesis.
Probab=23.06 E-value=52 Score=25.29 Aligned_cols=23 Identities=22% Similarity=0.358 Sum_probs=20.1
Q ss_pred hhhCCccccchHHHHHHHHHHHH
Q 030692 96 IENGTRDQQSDALVNELNNHFEK 118 (173)
Q Consensus 96 ie~GtRDQ~sDaLv~ELts~F~k 118 (173)
|.+|+||....+.+++|...+.+
T Consensus 6 vgHGSR~~~~~~~~~~la~~l~~ 28 (125)
T cd03415 6 ITHGSRRNTFNEDMEEWAAYLER 28 (125)
T ss_pred EecCCCChHHHHHHHHHHHHHHh
Confidence 67999999999999999888763
No 150
>KOG0083 consensus GTPase Rab26/Rab37, small G protein superfamily [General function prediction only]
Probab=22.98 E-value=39 Score=28.75 Aligned_cols=38 Identities=29% Similarity=0.470 Sum_probs=29.7
Q ss_pred HHHHHHhhhCCccccchHHHHHHHHH--HHHHHHHHhhhh
Q 030692 90 ENLADAIENGTRDQQSDALVNELNNH--FEKCQQLLSSIS 127 (173)
Q Consensus 90 e~LaDaie~GtRDQ~sDaLv~ELts~--F~kcQQlLnSiS 127 (173)
|+...++..--||-+.=-|+-.++|+ |+.||-||..|-
T Consensus 58 erfrsvt~ayyrda~allllydiankasfdn~~~wlsei~ 97 (192)
T KOG0083|consen 58 ERFRSVTHAYYRDADALLLLYDIANKASFDNCQAWLSEIH 97 (192)
T ss_pred HHHhhhhHhhhcccceeeeeeecccchhHHHHHHHHHHHH
Confidence 44555666667887766778888888 999999999886
No 151
>PF05983 Med7: MED7 protein; InterPro: IPR009244 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This family consists of several eukaryotic proteins, which are homologues of the yeast MED7 protein. Activation of gene transcription in metazoans is a multistep process that is triggered by factors that recognise transcriptional enhancer sites in DNA. These factors work with co-activators such as MED7 to direct transcriptional initiation by the RNA polymerase II apparatus [].; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex; PDB: 3FBI_C 3FBN_A 1YKH_A 1YKE_A.
Probab=22.87 E-value=4e+02 Score=21.36 Aligned_cols=55 Identities=22% Similarity=0.309 Sum_probs=39.2
Q ss_pred cchHHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhc-ch-HHHHHHHHHHHHHHHHHHHHHHHH
Q 030692 104 QSDALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRR-KL-EESEQLLNQRKELIDKYMNSVEEL 168 (173)
Q Consensus 104 ~sDaLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~-~L-eEseqlL~qRrdli~kYr~sVEel 168 (173)
..+.-|..|..-|--.-.|||.+--- |-| .| .-.|.++++||+.|++-|+.++++
T Consensus 101 ~~~~ki~~i~~L~~NmhhllNeyRPh----------QARetLi~~me~Ql~~kr~~i~~i~~~~~~~ 157 (162)
T PF05983_consen 101 QYERKIEDIRLLFINMHHLLNEYRPH----------QARETLIMMMEEQLEEKREEIEEIRKVCEKA 157 (162)
T ss_dssp CHHHHHHHHHHHHHHHHHHHHHTHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHHHHHHHHhCHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34557888888888888999986521 111 11 235778899999999999888765
No 152
>KOG4369 consensus RTK signaling protein MASK/UNC-44 [Signal transduction mechanisms]
Probab=22.66 E-value=54 Score=35.83 Aligned_cols=9 Identities=67% Similarity=0.638 Sum_probs=3.7
Q ss_pred HHHHHHHhh
Q 030692 71 QQNQHHQSL 79 (173)
Q Consensus 71 QQqq~hqsL 79 (173)
++=++|++.
T Consensus 1884 ~~~~q~~sq 1892 (2131)
T KOG4369|consen 1884 QQYQQHQSQ 1892 (2131)
T ss_pred HHHhcccCC
Confidence 333444443
No 153
>KOG0809 consensus SNARE protein TLG2/Syntaxin 16 [Intracellular trafficking, secretion, and vesicular transport]
Probab=22.64 E-value=2.6e+02 Score=25.65 Aligned_cols=25 Identities=36% Similarity=0.709 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhccc
Q 030692 107 ALVNELNNHFEKCQQLLSSISESLD 131 (173)
Q Consensus 107 aLv~ELts~F~kcQQlLnSiS~Si~ 131 (173)
.|-.++|--|.||+.++--++++++
T Consensus 104 ~ltq~Itqll~~cqk~iq~~~a~~n 128 (305)
T KOG0809|consen 104 ELTQEITQLLQKCQKLIQRLSASLN 128 (305)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccC
Confidence 4455566669999999999999987
No 154
>PF12128 DUF3584: Protein of unknown function (DUF3584); InterPro: IPR021979 This family consist of uncharacterised bacterial proteins.
Probab=22.62 E-value=2.5e+02 Score=28.79 Aligned_cols=57 Identities=11% Similarity=0.221 Sum_probs=38.2
Q ss_pred HHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHH---HHHHHHHHHHHHHHHHHHHh
Q 030692 114 NHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQL---LNQRKELIDKYMNSVEELIE 170 (173)
Q Consensus 114 s~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseql---L~qRrdli~kYr~sVEel~~ 170 (173)
.+...|+++++.==.+.+-.+-+|.+=+++++..+.. .+.+|..+.+|+.-+++...
T Consensus 750 ~~~~~le~~~~~eL~~~GvD~~~I~~l~~~i~~L~~~l~~ie~~r~~V~eY~~~~~~~~~ 809 (1201)
T PF12128_consen 750 EQLKELEQQYNQELAGKGVDPERIQQLKQEIEQLEKELKRIEERRAEVIEYEDWLQEEWD 809 (1201)
T ss_pred HHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Confidence 4556677776643334444444666666666666655 46799999999999887754
No 155
>TIGR01280 xseB exodeoxyribonuclease VII, small subunit. This protein is the small subunit for exodeoxyribonuclease VII. Exodeoxyribonuclease VII is made of a complex of four small subunits to one large subunit. The complex degrades single-stranded DNA into large acid-insoluble oligonucleotides. These nucleotides are then degraded further into acid-soluble oligonucleotides.
Probab=22.02 E-value=2.9e+02 Score=19.35 Aligned_cols=56 Identities=18% Similarity=0.272 Sum_probs=39.0
Q ss_pred HHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 030692 116 FEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEELIEY 171 (173)
Q Consensus 116 F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kYr~sVEel~~~ 171 (173)
|+.+-.=|..|-..|.+..+.++-=-...++--.+++.=++.+.+.+.-|..|+..
T Consensus 3 fEe~l~~Le~Iv~~LE~~~l~Leesl~lyeeG~~L~k~c~~~L~~ae~kv~~l~~~ 58 (67)
T TIGR01280 3 FEEALSELEQIVQKLESGDLALEEALNLFERGMALARRCEKKLAQAEQRVRKLLKE 58 (67)
T ss_pred HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 45555555555556666667777666666777778888888888888888888753
No 156
>KOG1684 consensus Enoyl-CoA hydratase [Lipid transport and metabolism]
Probab=21.91 E-value=2.6e+02 Score=26.56 Aligned_cols=90 Identities=19% Similarity=0.239 Sum_probs=47.1
Q ss_pred HHhhhhhhhHHHHHHHHHHHhh-hCCccccchHHHHHHHHHHHHH--------HHHHhhhhhcccccccchhhhhcchHH
Q 030692 76 HQSLASNFHLLHLMENLADAIE-NGTRDQQSDALVNELNNHFEKC--------QQLLSSISESLDTKAMTVEGQRRKLEE 146 (173)
Q Consensus 76 hqsLASHfhL~~Lve~LaDaie-~GtRDQ~sDaLv~ELts~F~kc--------QQlLnSiS~Si~sk~~tV~gQk~~LeE 146 (173)
+.-||.||=-..-+..|-+++. .=+.|-. +-|+|.-..|..- .-.++-|+...+.+ |||.=-..|.+
T Consensus 212 ~~GlATHyv~S~~l~~Lee~L~~~l~~dp~--~~I~~~l~~y~~~~~~~~~~~~~~~~~i~~~Fs~~--tVeeIie~lk~ 287 (401)
T KOG1684|consen 212 RCGLATHYVPSEKLPSLEERLLKNLNDDPQ--SVINETLEKYASPAKDESFSLSLKLDVINKCFSAN--TVEEIIEALKN 287 (401)
T ss_pred HhcchhhccchhhhhHHHHHHhhhcCCCcH--HHHHHHHHHhcccCCCccccchhhHHHHHHhhccc--cHHHHHHHHHH
Confidence 4568999976666666666666 3333332 2255555544321 23455555554333 67655554444
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 030692 147 SEQLLNQRKELIDKYMNSVEELIEYEP 173 (173)
Q Consensus 147 seqlL~qRrdli~kYr~sVEel~~~~p 173 (173)
+++ -++.-+=-++.+..|.|+.|
T Consensus 288 ~q~----~~~~~ewak~tlk~L~k~SP 310 (401)
T KOG1684|consen 288 YQQ----SADGSEWAKETLKTLKKMSP 310 (401)
T ss_pred Hhh----hhhHHHHHHHHHHHHhhcCC
Confidence 433 33444444556666666654
No 157
>PRK14159 heat shock protein GrpE; Provisional
Probab=21.90 E-value=1.9e+02 Score=23.86 Aligned_cols=42 Identities=19% Similarity=0.290 Sum_probs=25.1
Q ss_pred hHHHHHHHHHHHhhhCCccccchHHHHHHHHHHHHHHHHHhh
Q 030692 84 HLLHLMENLADAIENGTRDQQSDALVNELNNHFEKCQQLLSS 125 (173)
Q Consensus 84 hL~~Lve~LaDaie~GtRDQ~sDaLv~ELts~F~kcQQlLnS 125 (173)
-|||++++|.-|+.....|....+++.-+.--..+.-.+|..
T Consensus 78 ~LLpV~DnlerAl~~~~~~~~~~~l~~Gv~mi~k~l~~vL~k 119 (176)
T PRK14159 78 DLLDVLDALEAAVNVECHDEISLKIKEGVQNTLDLFLKKLEK 119 (176)
T ss_pred HHhhHHhHHHHHHhcccccchHHHHHHHHHHHHHHHHHHHHH
Confidence 489999999999987665544344444443333333333433
No 158
>PF01017 STAT_alpha: STAT protein, all-alpha domain; InterPro: IPR013800 The STAT protein (Signal Transducers and Activators of Transcription) family contains transcription factors that are specifically activated to regulate gene transcription when cells encounter cytokines and growth factors, hence they act as signal transducers in the cytoplasm and transcription activators in the nucleus []. Binding of these factors to cell-surface receptors leads to receptor autophosphorylation at a tyrosine, the phosphotyrosine being recognised by the STAT SH2 domain, which mediates the recruitment of STAT proteins from the cytosol and their association with the activated receptor. The STAT proteins are then activated by phosphorylation via members of the JAK family of protein kinases, causing them to dimerise and translocated to the nucleus, where they bind to specific promoter sequences in target genes. In mammals, STATs comprise a family of seven structurally and functionally related proteins: Stat1, Stat2, Stat3, Stat4, Stat5a and Stat5b, Stat6. STAT proteins play a critical role in regulating innate and acquired host immune responses. Dysregulation of at least two STAT signalling cascades (i.e. Stat3 and Stat5) is associated with cellular transformation. Signalling through the JAK/STAT pathway is initiated when a cytokine binds to its corresponding receptor. This leads to conformational changes in the cytoplasmic portion of the receptor, initiating activation of receptor associated members of the JAK family of kinases. The JAKs, in turn, mediate phosphorylation at the specific receptor tyrosine residues, which then serve as docking sites for STATs and other signalling molecules. Once recruited to the receptor, STATs also become phosphorylated by JAKs, on a single tyrosine residue. Activated STATs dissociate from the receptor, dimerise, translocate to the nucleus and bind to members of the GAS (gamma activated site) family of enhancers. The seven STAT proteins identified in mammals range in size from 750 and 850 amino acids. The chromosomal distribution of these STATs, as well as the identification of STATs in more primitive eukaryotes, suggest that this family arose from a single primordial gene. STATs share structurally and functionally conserved domains including: an N-terminal domain that strengthens interactions between STAT dimers on adjacent DNA-binding sites; a coiled-coil STAT domain that is implicated in protein-protein interactions; a DNA-binding domain with an immunoglobulin-like fold similar to p53 tumour suppressor protein; an EF-hand-like linker domain connecting the DNA-binding and SH2 domains; an SH2 domain (IPR000980 from INTERPRO) that acts as a phosphorylation-dependent switch to control receptor recognition and DNA-binding; and a C-terminal transactivation domain []. The crystal structure of the N terminus of Stat4 reveals a dimer. The interface of this dimer is formed by a ring-shaped element consisting of five short helices. Several studies suggest that this N-terminal dimerisation promotes cooperativity of binding to tandem GAS elements and with the transcriptional coactivator CBP/p300. This entry represents the all-alpha helical domain, which consists of four long helices arranged in a bundle with a left-handed twist (coiled-coil), which in turn forms a right-handed superhelix.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0004871 signal transducer activity, 0006355 regulation of transcription, DNA-dependent, 0007165 signal transduction, 0005634 nucleus; PDB: 1YVL_A 1BF5_A 3CWG_B 1BG1_A 1Y1U_B.
Probab=21.88 E-value=1.7e+02 Score=23.46 Aligned_cols=19 Identities=32% Similarity=0.473 Sum_probs=13.7
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 030692 149 QLLNQRKELIDKYMNSVEE 167 (173)
Q Consensus 149 qlL~qRrdli~kYr~sVEe 167 (173)
.+...|++++.++++.|..
T Consensus 72 ~L~~~R~~lv~~l~~~~~~ 90 (182)
T PF01017_consen 72 ELDQKRKELVSKLKETLNC 90 (182)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4555677888888888743
No 159
>PRK14149 heat shock protein GrpE; Provisional
Probab=21.88 E-value=1.9e+02 Score=24.30 Aligned_cols=30 Identities=23% Similarity=0.415 Sum_probs=20.4
Q ss_pred hHHHHHHHHHHHhhhCCccccchHHHHHHH
Q 030692 84 HLLHLMENLADAIENGTRDQQSDALVNELN 113 (173)
Q Consensus 84 hL~~Lve~LaDaie~GtRDQ~sDaLv~ELt 113 (173)
-||+++++|.-|+.....|....++++-+.
T Consensus 91 ~LLpVlDnLerAl~~~~~~~~~~~l~~Gv~ 120 (191)
T PRK14149 91 DLLPVIDALLGALKSAAEVDKESALTKGLE 120 (191)
T ss_pred HHhhHHhHHHHHHhccccccchHHHHHHHH
Confidence 388999999999987776544444444433
No 160
>TIGR01013 2a58 Phosphate:Na+ Symporter (PNaS) Family.
Probab=21.82 E-value=5.8e+02 Score=22.95 Aligned_cols=54 Identities=9% Similarity=-0.225 Sum_probs=40.7
Q ss_pred hhhhhhhHHHHHHHHHHHhhhC-C------cc---ccchHHHHHHHHHHHHHHHHHhhhhhccc
Q 030692 78 SLASNFHLLHLMENLADAIENG-T------RD---QQSDALVNELNNHFEKCQQLLSSISESLD 131 (173)
Q Consensus 78 sLASHfhL~~Lve~LaDaie~G-t------RD---Q~sDaLv~ELts~F~kcQQlLnSiS~Si~ 131 (173)
..+.-.++.+.+||++|.+++- - .+ .-|+....|+..-++.+...+|-+..-+.
T Consensus 336 ~~~~~i~~~~~lerigd~~~~l~~~~~~~~~~~~~~fs~~~~~el~~~~~~v~~~f~~a~~~l~ 399 (456)
T TIGR01013 336 RSALQIAYCHNLFNISGIVLFYPLPCTRKPIAAARGFGDDGSKYRWFLIVYLVLNFLLAPSLLF 399 (456)
T ss_pred hHHHHHHHHHHHHHHHHHHHHhchHHhhhhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4456788999999999998886 2 12 35677788888889999888887665433
No 161
>PF08855 DUF1825: Domain of unknown function (DUF1825); InterPro: IPR014954 These roteins are uncharacterised and are principally found in cyanobacteria.
Probab=21.78 E-value=4e+02 Score=20.95 Aligned_cols=55 Identities=29% Similarity=0.416 Sum_probs=35.6
Q ss_pred cchHHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHHHHHHHHH
Q 030692 104 QSDALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEEL 168 (173)
Q Consensus 104 ~sDaLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kYr~sVEel 168 (173)
+||-.-.|+..=|+.-|.|..-.+ .++ .++.+|.+.-+|..+. ||+|||-..-+|
T Consensus 6 ~SeiVq~e~~~if~~yq~l~~~~~-~~~--~fd~egK~~~Id~m~~-------LidkqkiF~~Rl 60 (108)
T PF08855_consen 6 DSEIVQDELQDIFEDYQELMQMGS-KYG--KFDREGKKIHIDKMEE-------LIDKQKIFYKRL 60 (108)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHh-hcc--cCCHHHHHHHHHHHHH-------HHHHHHHHHHHH
Confidence 356666778777888777654443 222 4788888887777665 566666555444
No 162
>PF07904 Eaf7: Chromatin modification-related protein EAF7; InterPro: IPR012423 The Saccharomyces cerevisiae (Baker's yeast) member of this family P53911 from SWISSPROT is part of NuA4, the only essential histone acetyltransferase complex in S. cerevisiae involved in global histone acetylation []. ; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus, 0043189 H4/H2A histone acetyltransferase complex
Probab=21.77 E-value=88 Score=23.05 Aligned_cols=35 Identities=17% Similarity=0.324 Sum_probs=23.8
Q ss_pred hhhhHHHHHHHHHHH--hhhCCccccchHHHHHHHHH
Q 030692 81 SNFHLLHLMENLADA--IENGTRDQQSDALVNELNNH 115 (173)
Q Consensus 81 SHfhL~~Lve~LaDa--ie~GtRDQ~sDaLv~ELts~ 115 (173)
-|||++.+++.|... .....+.=.++.+-+.|.+-
T Consensus 20 KHF~M~~I~~~l~~~~~~~~~~~~~t~~~IW~kL~~~ 56 (91)
T PF07904_consen 20 KHFHMICIVERLNNPGFDPKLNKHFTIDDIWKKLRTL 56 (91)
T ss_pred hHHHHHHHHHHHhccccCCccCCcCCHHHHHHHHHHh
Confidence 399999999999887 22334444556666666655
No 163
>COG3879 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.73 E-value=3.4e+02 Score=24.05 Aligned_cols=55 Identities=25% Similarity=0.332 Sum_probs=38.2
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHHHHHH
Q 030692 107 ALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSV 165 (173)
Q Consensus 107 aLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kYr~sV 165 (173)
.|++|+++.=+|..+|.+.+..- +++.-.+. ++-.+....++.|=+.+.++-.+|
T Consensus 54 ~L~~e~~s~Q~~~~~L~~ev~~~-~~~~~s~~---~~~~t~~~~ie~~l~~l~~~aG~v 108 (247)
T COG3879 54 DLVKELRSLQKKVNTLAAEVEDL-ENKLDSVR---RSVLTDDAALEDRLEKLRMLAGSV 108 (247)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHH---HhHHhHHHHHHHHHHHHHHHhccC
Confidence 78899999889999999888753 22222333 666677777777777666665554
No 164
>COG1390 NtpE Archaeal/vacuolar-type H+-ATPase subunit E [Energy production and conversion]
Probab=21.71 E-value=1.6e+02 Score=24.43 Aligned_cols=30 Identities=27% Similarity=0.490 Sum_probs=21.8
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 030692 142 RKLEESEQLLNQRKELIDKYMNSVEELIEY 171 (173)
Q Consensus 142 ~~LeEseqlL~qRrdli~kYr~sVEel~~~ 171 (173)
-+++.-..+|+-|.++|..|.++|+|-|+.
T Consensus 67 A~le~r~~~Le~~ee~l~~~~~~~~e~L~~ 96 (194)
T COG1390 67 ALLEARRKLLEAKEEILESVFEAVEEKLRN 96 (194)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 356666677888888888888888777653
No 165
>PF07445 priB_priC: Primosomal replication protein priB and priC; InterPro: IPR010890 This family contains the bacterial primosomal replication proteins priB and priC (approximately 180 residues long). In Escherichia coli, these function in the assembly of the primosome [].
Probab=21.42 E-value=4.4e+02 Score=21.26 Aligned_cols=57 Identities=23% Similarity=0.266 Sum_probs=26.6
Q ss_pred hHHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHHHHHH
Q 030692 106 DALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSV 165 (173)
Q Consensus 106 DaLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kYr~sV 165 (173)
.-|.+-|.++|+-.+.-|...+ |..+...-.. +.++.+..+.|.+-.|....-..||
T Consensus 69 ~~laEkL~~Q~~AL~r~l~t~~--lr~~~~~~~~-~~~~~~Lyq~L~~hqe~erRL~~mi 125 (173)
T PF07445_consen 69 AFLAEKLVAQIEALQRELATQS--LRKKESKPSS-RKPIHQLYQRLAQHQEYERRLLAMI 125 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHhcc--CccCCccccc-cCchhHHHHHHHHHHHHHHHHHHHH
Confidence 4455555556555555554443 2222222211 4555555555555444444444444
No 166
>cd09235 V_Alix Middle V-domain of mammalian Alix and related domains are dimerization and protein interaction modules. This family contains the middle V-shaped (V) domain of mammalian Alix (apoptosis-linked gene-2 interacting protein X) and related domains. It belongs to the V_Alix_like superfamily which includes the V-domains of Bro1 and Rim20 (also known as PalA) from Saccharomyces cerevisiae, mammalian His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), and related domains. Alix, also known as apoptosis-linked gene-2 interacting protein 1 (AIP1), is part of the ESCRT (Endosomal Sorting Complexes Required for Transport) system, and participates in membrane remodeling processes, including the budding of enveloped viruses, vesicle budding inside late endosomal multivesicular bodies (MVBs), the abscission reactions of mammalian cell division, and in apoptosis. The Alix V-domain is a dimerization domain, and contains a binding site, partially conserved in the
Probab=21.31 E-value=4.3e+02 Score=23.08 Aligned_cols=45 Identities=27% Similarity=0.434 Sum_probs=26.1
Q ss_pred HHHHHHHHhhhCCccccchHHHHHHHHHHHHHHHHHhhhhhccccc
Q 030692 88 LMENLADAIENGTRDQQSDALVNELNNHFEKCQQLLSSISESLDTK 133 (173)
Q Consensus 88 Lve~LaDaie~GtRDQ~sDaLv~ELts~F~kcQQlLnSiS~Si~sk 133 (173)
|++.-+++...|.-+. ....+.+|..-...|..+|..+...|...
T Consensus 58 l~~~~~~i~~~gg~~~-l~~~l~~L~~l~~~~~~~L~e~~~~Ld~E 102 (339)
T cd09235 58 LLEKSRTVIEKGGIQT-IDQLIKELPELLQRNREILDEALRMLDEE 102 (339)
T ss_pred HHHHHHHHHhCCChHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3444444444444332 25566777777777777777766666543
No 167
>PF10046 BLOC1_2: Biogenesis of lysosome-related organelles complex-1 subunit 2 ; InterPro: IPR019269 This entry represents a family of proteins that play a role in cellular proliferation, as well as in the biogenesis of specialised organelles of the endosomal-lysosomal system [].
Probab=21.31 E-value=3.4e+02 Score=19.87 Aligned_cols=35 Identities=14% Similarity=0.371 Sum_probs=18.3
Q ss_pred HHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHH
Q 030692 115 HFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQ 153 (173)
Q Consensus 115 ~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~q 153 (173)
+|.+-..+.++|+..++ .+++.-..|+.+-+.|++
T Consensus 36 kY~~~~~~~~~l~~~~~----~l~~k~~~l~~~l~~Id~ 70 (99)
T PF10046_consen 36 KYKKMKDIAAGLEKNLE----DLNQKYEELQPYLQQIDQ 70 (99)
T ss_pred HHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHH
Confidence 36666666666665544 444444444444444443
No 168
>PF13675 PilJ: Type IV pili methyl-accepting chemotaxis transducer N-term; PDB: 3EZI_D 3EZH_B.
Probab=21.24 E-value=1.8e+02 Score=20.25 Aligned_cols=35 Identities=31% Similarity=0.330 Sum_probs=16.6
Q ss_pred hhCCccccchHHHHHHHHHHHHHHHHHhhhhhccc
Q 030692 97 ENGTRDQQSDALVNELNNHFEKCQQLLSSISESLD 131 (173)
Q Consensus 97 e~GtRDQ~sDaLv~ELts~F~kcQQlLnSiS~Si~ 131 (173)
..|..+...-+.+++....|++.-+-|......++
T Consensus 36 ~~~~~~~~~~~~l~~~~~~f~~~l~~L~~~~~~~~ 70 (112)
T PF13675_consen 36 AAGPDDAQARAELREAIAEFEQSLQALQNGDPSLG 70 (112)
T ss_dssp S--GGGHHHHHHHHHHHT------HHHHHHHHH--
T ss_pred cCCCCcHHHHHHHHHHHHHHHHHHHHHHcCCcccc
Confidence 44444444456777888889988887777776644
No 169
>PLN02430 long-chain-fatty-acid-CoA ligase
Probab=21.20 E-value=1.5e+02 Score=27.27 Aligned_cols=62 Identities=19% Similarity=0.294 Sum_probs=37.1
Q ss_pred hHHHHHHHHHHHHHH--HHHhhhh----hcccccccchhhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 030692 106 DALVNELNNHFEKCQ--QLLSSIS----ESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEELIEY 171 (173)
Q Consensus 106 DaLv~ELts~F~kcQ--QlLnSiS----~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kYr~sVEel~~~ 171 (173)
+.+..++.+.++++- .=|+... .-|..+..||++-..+ -.+--.|+.+..+|+.-+|+|+..
T Consensus 587 ~~~~~~i~~~i~~~~~~~~l~~~e~i~~~~l~~~~~~~~~g~lT----~t~K~~R~~i~~~y~~~i~~ly~~ 654 (660)
T PLN02430 587 PELKEHILSELKSTAEKNKLRGFEYIKGVILETKPFDVERDLVT----ATLKKRRNNLLKYYQVEIDEMYRK 654 (660)
T ss_pred HHHHHHHHHHHHHHHHHhCCCCceeeeEEEEECCCCCCcCCcCC----hhhhhhhHHHHHHHHHHHHHHHHh
Confidence 456666666666662 2244432 2344566666654211 122235788889999999999864
No 170
>KOG4407 consensus Predicted Rho GTPase-activating protein [General function prediction only]
Probab=21.16 E-value=50 Score=36.16 Aligned_cols=17 Identities=35% Similarity=0.427 Sum_probs=9.8
Q ss_pred ccccchhhhhcchHHHH
Q 030692 132 TKAMTVEGQRRKLEESE 148 (173)
Q Consensus 132 sk~~tV~gQk~~LeEse 148 (173)
+-+|-|++=-..++|+.
T Consensus 423 sa~~~~~rsls~~~~~q 439 (1973)
T KOG4407|consen 423 SAAMEVERSLSSLEDYQ 439 (1973)
T ss_pred hhhhccccccccCccch
Confidence 45566666666666653
No 171
>TIGR02609 doc_partner putative addiction module antidote. Members of this protein family are putative addiction module antidote proteins that appear recurringly in two-gene operons with members of the Doc (death-on-curing) family TIGR01550. Members of this family contain a SpoVT/AbrB-like domain (pfam04014). Note that the gene pairs with a member of this family tend to be found on bacterial chromosomes, not on plasmids.
Probab=21.16 E-value=1.5e+02 Score=20.62 Aligned_cols=26 Identities=23% Similarity=0.423 Sum_probs=20.1
Q ss_pred HHHHHHHH-HHHHHHHHHHHHHHHHHh
Q 030692 145 EESEQLLN-QRKELIDKYMNSVEELIE 170 (173)
Q Consensus 145 eEseqlL~-qRrdli~kYr~sVEel~~ 170 (173)
++.+.... -=++.|.+|+..+++|.+
T Consensus 48 ~~~~~~~~~~~~~~~~~y~~~l~~La~ 74 (74)
T TIGR02609 48 KELEKKMQMAVERAMSKYDEALKELAD 74 (74)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 45666555 567899999999999874
No 172
>PF08429 PLU-1: PLU-1-like protein; InterPro: IPR013637 This domain is found in the central region of lysine-specific demethylases, which are nuclear proteins that may have a role in DNA-binding and transcription, and are associated with malignant cancer phenotypes []. The domain is also found in various other Jumonji/ARID domain-containing proteins (see IPR013129 from INTERPRO, IPR001606 from INTERPRO). ; GO: 0016706 oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors, 0055114 oxidation-reduction process
Probab=20.95 E-value=5.1e+02 Score=21.82 Aligned_cols=62 Identities=24% Similarity=0.373 Sum_probs=35.2
Q ss_pred HHHHHHHhhhCCccccchHHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHH
Q 030692 89 MENLADAIENGTRDQQSDALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKEL 157 (173)
Q Consensus 89 ve~LaDaie~GtRDQ~sDaLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdl 157 (173)
++.+.+.++.|..=--.=.=+..|....++|. |++.....++... +-+|++.+.+++.=.++
T Consensus 134 ~~~le~Ll~~g~s~~v~lpel~~L~~~l~~~~-W~~~~~~~~~~~~------~~tL~~l~~Ll~~g~~l 195 (335)
T PF08429_consen 134 LEELEELLEEGESFGVDLPELDQLRRRLEQLE-WLEEAREILSDPD------RLTLDELRELLDEGERL 195 (335)
T ss_pred HHHHHHHHHhcccCceeChhHHHHHHHHHHHH-HHHHHHHHhcccc------CCcHHHHHHHHHhhhcC
Confidence 45556666666442221122455666777764 8887776665443 55667777776654444
No 173
>PRK14140 heat shock protein GrpE; Provisional
Probab=20.95 E-value=2.4e+02 Score=23.63 Aligned_cols=26 Identities=27% Similarity=0.497 Sum_probs=18.2
Q ss_pred hHHHHHHHHHHHhhhCCccccchHHH
Q 030692 84 HLLHLMENLADAIENGTRDQQSDALV 109 (173)
Q Consensus 84 hL~~Lve~LaDaie~GtRDQ~sDaLv 109 (173)
-|||++++|.-|+...+.+....+++
T Consensus 92 ~LLpvlDnLerAl~~~~~~~~~~~i~ 117 (191)
T PRK14140 92 DLLPALDNFERALQIEADDEQTKSLL 117 (191)
T ss_pred HHHHHHHHHHHHHhccCccchHHHHH
Confidence 48999999999998765544333333
No 174
>PF06152 Phage_min_cap2: Phage minor capsid protein 2; InterPro: IPR009319 This entry is represented by Bacteriophage A118, Gp4, the minor capsid protein. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.; GO: 0005198 structural molecule activity, 0019028 viral capsid
Probab=20.80 E-value=4.8e+02 Score=23.35 Aligned_cols=36 Identities=36% Similarity=0.379 Sum_probs=29.1
Q ss_pred ccchhhhhcchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030692 134 AMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEELI 169 (173)
Q Consensus 134 ~~tV~gQk~~LeEseqlL~qRrdli~kYr~sVEel~ 169 (173)
+-+.+-|..+|.+...+-..=.++|++|-+..++-|
T Consensus 43 ~~~~~WQ~~kL~~lg~~~~~i~k~I~~~~~~s~~~i 78 (361)
T PF06152_consen 43 TNTADWQIEKLQELGMLNKEIKKIIAKYLGISEEEI 78 (361)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 457888999999999998888899999877665443
No 175
>TIGR03319 YmdA_YtgF conserved hypothetical protein YmdA/YtgF.
Probab=20.73 E-value=3.2e+02 Score=25.74 Aligned_cols=16 Identities=19% Similarity=0.391 Sum_probs=5.7
Q ss_pred hhhhcchHHHHHHHHH
Q 030692 138 EGQRRKLEESEQLLNQ 153 (173)
Q Consensus 138 ~gQk~~LeEseqlL~q 153 (173)
+.....|+.-++.|+.
T Consensus 93 ekr~e~Lekre~~Le~ 108 (514)
T TIGR03319 93 DRKMESLDKKEENLEK 108 (514)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3333333333333333
No 176
>PF00435 Spectrin: Spectrin repeat; InterPro: IPR002017 Spectrin repeats [] are found in several proteins involved in cytoskeletal structure. These include spectrin alpha and beta subunits [, ], alpha-actinin [] and dystrophin. The spectrin repeat forms a three-helix bundle. The second helix is interrupted by proline in some sequences. The repeats are defined by a characteristic tryptophan (W) residue at position 17 in helix A and a leucine (L) at 2 residues from the carboxyl end of helix C.; GO: 0005515 protein binding; PDB: 1HCI_A 1QUU_A 3FB2_B 1S35_A 1U5P_A 1U4Q_A 1CUN_B 1YDI_B 3EDV_A 1AJ3_A ....
Probab=20.69 E-value=2.4e+02 Score=17.98 Aligned_cols=15 Identities=27% Similarity=0.492 Sum_probs=5.8
Q ss_pred HHHHHHHHHHHHhhh
Q 030692 112 LNNHFEKCQQLLSSI 126 (173)
Q Consensus 112 Lts~F~kcQQlLnSi 126 (173)
+.....+|+.+...|
T Consensus 36 ~~~~~~~~~~~~~ei 50 (105)
T PF00435_consen 36 LEEQLKKHKELQEEI 50 (105)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHhhhhhHH
Confidence 333333444443333
No 177
>PF11945 WASH_WAHD: WAHD domain of WASH complex; InterPro: IPR021854 This entry represents a component of the WASH complex. The WASH complex is present at the surface of endosomes and recruits and activates the Arp2/3 complex to induce actin polymerisation. The WASH complex plays a key role in the fission of tubules that serve as transport intermediates during endosome sorting []. The WASH complex's subunit structure: F-actin-capping protein subunit alpha (CAPZA1, CAPZA2 or CAPZA3), F-actin-capping protein subunit beta (CAPZB), WASH (WASH1, WASH2P, WASH3P, WASH4P, WASH5P or WASH6P), FAM21 (FAM21A, FAM21B or FAM21C), KIAA1033, KIAA0196 (strumpellin) and CCDC53. This entry represents the WASH subunit of the WASH complex. WASH genes duplicated to multiple chromosomal ends during primate evolution, with highest copy number reached in humans, whose WASH repertoires probably vary extensively among individuals []. It is therefore difficult to determine which gene is functional or not. The telomeric region of chromosome 9p is paralogous to the pericentromeric regions of chromosome 9 as well as to 2q. Paralogous regions contain 7 transcriptional units. Duplicated WASH genes are also present in the Xq/Yq pseudoautosomal region, as well as on chromosome 1 and 15. The chromosome 16 copy seems to be a pseudogene.
Probab=20.67 E-value=90 Score=27.69 Aligned_cols=29 Identities=24% Similarity=0.352 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhcccccccch
Q 030692 107 ALVNELNNHFEKCQQLLSSISESLDTKAMTV 137 (173)
Q Consensus 107 aLv~ELts~F~kcQQlLnSiS~Si~sk~~tV 137 (173)
.=+..|+.|.++||.=++.|-|| .|++||
T Consensus 50 ~~l~~i~~Ri~~~qaKi~~l~gs--~kAi~v 78 (297)
T PF11945_consen 50 ERLQAIQQRIEVAQAKIEKLQGS--KKAITV 78 (297)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCC--CccEEE
Confidence 44667889999999999999998 888866
No 178
>TIGR00208 fliS flagellar biosynthetic protein FliS. The function of this protein in flagellar biosynthesis is unknown, but appears to be regulatory. The member of this family in Vibrio parahaemolyticus is designated FlaJ (creating a synonym for FliS) and was shown essential for flagellin biosynthesis.
Probab=20.46 E-value=3.9e+02 Score=20.30 Aligned_cols=64 Identities=16% Similarity=0.291 Sum_probs=37.0
Q ss_pred HHHHHHHHHHHHHHHhhhhhcccccc-cchhhhhcchH-------------HHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 030692 109 VNELNNHFEKCQQLLSSISESLDTKA-MTVEGQRRKLE-------------ESEQLLNQRKELIDKYMNSVEELIEYE 172 (173)
Q Consensus 109 v~ELts~F~kcQQlLnSiS~Si~sk~-~tV~gQk~~Le-------------EseqlL~qRrdli~kYr~sVEel~~~~ 172 (173)
+.+-..++.||+.+|.-+.+||+-+. -.|...-..|= ..-..|++=+.+|..-|..-++++++|
T Consensus 47 ~~~~~~~i~ka~~Ii~eL~~~Ld~e~ggeiA~nL~~LY~y~~~~L~~An~~~d~~~l~ev~~~l~~Lr~aW~e~~~~~ 124 (124)
T TIGR00208 47 IERKNENLIKAQNIIQELNFTLDREKNIELSASLGALYDYMYRRLVQANIKNDTSKLAEVEGYVRDFRDAWKEAIQSE 124 (124)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHHHhhCc
Confidence 34556678899999999999997532 23333222221 112234455556666666666666653
No 179
>PHA01076 putative encapsidation protein
Probab=20.13 E-value=82 Score=29.20 Aligned_cols=23 Identities=35% Similarity=0.606 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCC
Q 030692 151 LNQRKELIDKYMNSVEELIEYEP 173 (173)
Q Consensus 151 L~qRrdli~kYr~sVEel~~~~p 173 (173)
|-.---|+.+|+.+||||+...|
T Consensus 40 L~RH~tL~D~~~~~i~EII~~~~ 62 (378)
T PHA01076 40 LSRHYTLRDAYRDFIEEIIDENP 62 (378)
T ss_pred eehhhhHHHHHHHHHHHHHhccC
Confidence 34445789999999999997644
No 180
>PF03452 Anp1: Anp1; InterPro: IPR005109 The members of this family (Anp1, Van1 and Mnn9) are membrane proteins required for proper Golgi function. These proteins colocalize within the cis Golgi, where they are physically associated in two distinct complexes [].
Probab=20.05 E-value=1.4e+02 Score=26.39 Aligned_cols=17 Identities=12% Similarity=0.245 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHH
Q 030692 149 QLLNQRKELIDKYMNSV 165 (173)
Q Consensus 149 qlL~qRrdli~kYr~sV 165 (173)
..-..||.+|+++|+++
T Consensus 118 ~~Q~~RR~~mAraRN~L 134 (269)
T PF03452_consen 118 EVQRPRRRAMARARNFL 134 (269)
T ss_pred hhHHHHHHHHHHHHHHH
Confidence 34567999999999985
Done!