Query 028678
Match_columns 205
No_of_seqs 98 out of 100
Neff 4.3
Searched_HMMs 46136
Date Fri Mar 29 15:16:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028678.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028678hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4173 Alpha-SNAP protein [In 98.4 3E-08 6.5E-13 86.7 -1.6 67 14-80 81-154 (253)
2 PF13894 zf-C2H2_4: C2H2-type 97.0 0.00028 6.1E-09 39.2 0.9 24 39-62 1-24 (24)
3 PF00096 zf-C2H2: Zinc finger, 97.0 0.00025 5.4E-09 40.2 0.7 23 39-62 1-23 (23)
4 PF04959 ARS2: Arsenite-resist 95.8 0.0027 5.8E-08 55.5 0.1 34 35-68 74-107 (214)
5 PF12171 zf-C2H2_jaz: Zinc-fin 95.2 0.0088 1.9E-07 35.4 1.0 23 38-60 1-23 (27)
6 smart00355 ZnF_C2H2 zinc finge 95.2 0.012 2.6E-07 32.6 1.4 24 39-63 1-24 (26)
7 PF13912 zf-C2H2_6: C2H2-type 94.9 0.012 2.6E-07 34.3 1.1 24 39-62 2-25 (27)
8 PF12874 zf-met: Zinc-finger o 94.0 0.025 5.5E-07 32.4 0.9 22 39-60 1-22 (25)
9 PHA00733 hypothetical protein 93.6 0.092 2E-06 42.2 3.8 43 22-64 81-125 (128)
10 PHA00616 hypothetical protein 93.2 0.033 7.2E-07 37.8 0.5 26 39-64 2-27 (44)
11 PF12756 zf-C2H2_2: C2H2 type 90.8 0.12 2.6E-06 37.1 1.3 28 38-65 50-78 (100)
12 PHA02768 hypothetical protein; 90.8 0.14 3E-06 36.3 1.5 24 39-62 6-29 (55)
13 PF12273 RCR: Chitin synthesis 89.0 0.22 4.8E-06 39.5 1.5 28 163-190 5-32 (130)
14 PF15018 InaF-motif: TRP-inter 85.9 0.78 1.7E-05 30.4 2.5 24 156-179 9-32 (38)
15 PHA00732 hypothetical protein 85.0 0.56 1.2E-05 35.0 1.6 33 23-58 10-44 (79)
16 smart00451 ZnF_U1 U1-like zinc 84.2 0.62 1.3E-05 28.3 1.3 24 38-61 3-26 (35)
17 PF05605 zf-Di19: Drought indu 84.0 0.75 1.6E-05 31.3 1.8 26 38-64 2-27 (54)
18 PHA00732 hypothetical protein 81.5 1.7 3.6E-05 32.4 3.0 26 39-64 2-27 (79)
19 KOG2482 Predicted C2H2-type Zn 81.4 1 2.2E-05 42.7 2.2 35 35-69 192-226 (423)
20 PF09777 OSTMP1: Osteopetrosis 79.5 3.1 6.7E-05 36.8 4.5 27 160-186 192-218 (237)
21 PF13465 zf-H2C2_2: Zinc-finge 79.3 0.91 2E-05 26.8 0.8 20 31-50 7-26 (26)
22 PF09237 GAGA: GAGA factor; I 77.5 1 2.2E-05 32.0 0.7 31 35-65 21-51 (54)
23 PF10537 WAC_Acf1_DNA_bd: ATP- 77.4 1.7 3.6E-05 34.0 2.0 29 19-47 8-39 (102)
24 KOG2462 C2H2-type Zn-finger pr 77.2 1.2 2.7E-05 40.6 1.4 49 10-60 213-265 (279)
25 PF12756 zf-C2H2_2: C2H2 type 77.0 0.77 1.7E-05 32.8 0.0 28 40-67 1-28 (100)
26 PF13913 zf-C2HC_2: zinc-finge 73.2 1.9 4.2E-05 25.4 1.0 20 39-59 3-22 (25)
27 KOG1074 Transcriptional repres 70.1 1.5 3.1E-05 45.7 0.0 52 12-65 353-408 (958)
28 PF02699 YajC: Preprotein tran 69.9 2.4 5.3E-05 31.5 1.2 37 164-200 5-41 (82)
29 PHA00733 hypothetical protein 69.2 3.7 8.1E-05 32.9 2.2 25 36-60 71-95 (128)
30 PF00672 HAMP: HAMP domain; I 68.5 3.7 7.9E-05 27.8 1.8 37 161-197 3-39 (70)
31 KOG2462 C2H2-type Zn-finger pr 67.7 2.9 6.3E-05 38.3 1.4 40 22-61 169-210 (279)
32 PF13908 Shisa: Wnt and FGF in 67.2 6.9 0.00015 32.3 3.5 10 138-147 49-58 (179)
33 TIGR00739 yajC preprotein tran 66.4 2.4 5.1E-05 31.9 0.5 36 164-199 6-41 (84)
34 PRK05585 yajC preprotein trans 66.1 2.8 6E-05 32.9 0.9 35 166-200 23-57 (106)
35 PF07874 DUF1660: Prophage pro 64.9 1.6 3.5E-05 31.9 -0.6 40 13-59 3-64 (64)
36 KOG4628 Predicted E3 ubiquitin 64.9 3 6.6E-05 39.2 1.0 51 154-204 164-216 (348)
37 PF11027 DUF2615: Protein of u 61.5 27 0.00058 27.7 5.6 53 123-176 17-72 (103)
38 KOG3623 Homeobox transcription 60.3 4.4 9.5E-05 42.0 1.3 48 12-61 240-304 (1007)
39 PF13909 zf-H2C2_5: C2H2-type 59.9 3.9 8.4E-05 23.1 0.5 24 39-63 1-24 (24)
40 PF15145 DUF4577: Domain of un 59.2 15 0.00033 29.9 4.0 45 154-198 58-102 (128)
41 TIGR01478 STEVOR variant surfa 58.2 8.6 0.00019 35.6 2.7 86 27-115 82-179 (295)
42 PTZ00370 STEVOR; Provisional 57.8 8.7 0.00019 35.5 2.6 37 76-115 143-179 (296)
43 COG4736 CcoQ Cbb3-type cytochr 57.6 11 0.00024 27.2 2.6 27 162-189 10-37 (60)
44 PRK05886 yajC preprotein trans 57.0 5.2 0.00011 31.8 0.9 29 166-194 9-37 (109)
45 PF06024 DUF912: Nucleopolyhed 56.8 11 0.00023 29.1 2.7 27 157-184 62-89 (101)
46 TIGR02736 cbb3_Q_epsi cytochro 56.8 9.6 0.00021 27.3 2.2 30 168-198 9-39 (56)
47 PF12273 RCR: Chitin synthesis 56.6 6.4 0.00014 31.1 1.4 19 166-184 5-23 (130)
48 COG1862 YajC Preprotein transl 55.7 5.1 0.00011 31.3 0.7 32 161-192 9-40 (97)
49 PF03597 CcoS: Cytochrome oxid 55.6 17 0.00037 24.6 3.1 27 158-184 2-28 (45)
50 PF12669 P12: Virus attachment 54.7 6.4 0.00014 27.8 1.0 18 166-183 5-23 (58)
51 PHA02819 hypothetical protein; 54.3 27 0.00058 26.1 4.2 21 160-180 47-67 (71)
52 PHA02650 hypothetical protein; 53.2 35 0.00075 26.1 4.8 20 160-179 50-69 (81)
53 PF02892 zf-BED: BED zinc fing 53.1 8.9 0.00019 24.5 1.4 28 35-62 13-44 (45)
54 COG1327 Predicted transcriptio 52.7 7 0.00015 33.1 1.1 40 13-52 1-42 (156)
55 PF12575 DUF3753: Protein of u 51.9 35 0.00077 25.5 4.6 21 160-180 49-69 (72)
56 PF02009 Rifin_STEVOR: Rifin/s 51.8 11 0.00025 34.6 2.4 8 72-79 95-102 (299)
57 cd03737 SOCS_SOCS3 SOCS (suppr 51.7 21 0.00045 23.9 3.1 32 101-132 3-36 (42)
58 PHA03054 IMV membrane protein; 51.1 36 0.00077 25.5 4.5 21 160-180 49-69 (72)
59 smart00734 ZnF_Rad18 Rad18-lik 51.1 9.9 0.00021 22.7 1.3 21 40-61 3-23 (26)
60 KOG3408 U1-like Zn-finger-cont 50.9 6.8 0.00015 32.2 0.7 27 35-61 54-80 (129)
61 PF05545 FixQ: Cbb3-type cytoc 50.7 22 0.00048 23.7 3.1 22 165-186 13-35 (49)
62 PHA02768 hypothetical protein; 50.5 7.6 0.00016 27.5 0.8 37 13-51 6-44 (55)
63 PHA02844 putative transmembran 49.9 34 0.00073 25.9 4.2 21 160-180 49-69 (75)
64 TIGR00847 ccoS cytochrome oxid 49.2 27 0.00059 24.3 3.4 27 158-184 3-29 (51)
65 PF04780 DUF629: Protein of un 49.2 8.7 0.00019 37.5 1.3 32 37-68 56-87 (466)
66 PF04995 CcmD: Heme exporter p 49.1 8.2 0.00018 25.7 0.8 39 161-200 6-44 (46)
67 PF04024 PspC: PspC domain; I 49.0 21 0.00046 25.3 3.0 28 156-184 31-58 (61)
68 PRK00464 nrdR transcriptional 48.1 7.3 0.00016 32.6 0.5 43 13-56 1-46 (154)
69 PRK06531 yajC preprotein trans 46.6 7.7 0.00017 31.0 0.4 33 166-199 8-40 (113)
70 PHA02975 hypothetical protein; 46.1 43 0.00093 24.9 4.2 21 160-180 45-65 (69)
71 KOG3993 Transcription factor ( 45.9 7.1 0.00015 38.1 0.1 30 37-66 355-384 (500)
72 PF06796 NapE: Periplasmic nit 45.8 27 0.00058 24.9 3.0 19 165-183 31-49 (56)
73 KOG1074 Transcriptional repres 45.1 14 0.00031 38.7 2.1 48 23-70 888-939 (958)
74 smart00614 ZnF_BED BED zinc fi 44.8 11 0.00023 25.2 0.9 28 37-64 17-49 (50)
75 PHA02291 hypothetical protein 43.6 25 0.00054 28.6 2.9 30 155-184 4-33 (132)
76 PF05443 ROS_MUCR: ROS/MUCR tr 42.6 11 0.00024 30.8 0.8 28 33-63 67-94 (132)
77 PF15102 TMEM154: TMEM154 prot 40.6 13 0.00027 31.3 0.8 27 158-184 58-84 (146)
78 PLN03086 PRLI-interacting fact 40.6 18 0.00039 36.2 2.0 24 39-63 454-477 (567)
79 KOG3576 Ovo and related transc 40.0 10 0.00022 34.1 0.2 40 24-63 155-198 (267)
80 TIGR02972 TMAO_torE trimethyla 39.5 40 0.00087 23.3 3.0 18 165-182 23-40 (47)
81 KOG3608 Zn finger proteins [Ge 39.5 8 0.00017 37.2 -0.6 46 14-61 209-260 (467)
82 TIGR02978 phageshock_pspC phag 39.1 32 0.00069 27.7 2.9 27 158-184 33-60 (121)
83 TIGR02973 nitrate_rd_NapE peri 38.9 43 0.00092 22.7 3.0 18 165-182 18-35 (42)
84 PHA03099 epidermal growth fact 38.5 43 0.00093 27.9 3.6 39 154-192 94-136 (139)
85 PF01102 Glycophorin_A: Glycop 38.2 35 0.00075 27.6 3.0 18 160-177 71-88 (122)
86 PF00957 Synaptobrevin: Synapt 38.1 41 0.00089 24.6 3.1 18 163-180 69-86 (89)
87 PF14004 DUF4227: Protein of u 37.7 38 0.00083 25.1 2.9 21 161-181 8-28 (71)
88 PF00558 Vpu: Vpu protein; In 37.6 30 0.00066 26.3 2.4 38 160-197 8-48 (81)
89 PF04246 RseC_MucC: Positive r 37.2 33 0.00072 27.0 2.7 22 165-186 101-122 (135)
90 PF12907 zf-met2: Zinc-binding 37.1 18 0.00038 24.1 0.9 25 40-64 3-30 (40)
91 TIGR00244 transcriptional regu 36.8 16 0.00034 30.7 0.8 42 13-54 1-44 (147)
92 PF05337 CSF-1: Macrophage col 36.5 12 0.00025 34.6 0.0 31 156-186 225-255 (285)
93 COG5236 Uncharacterized conser 35.3 18 0.00039 34.8 1.0 49 39-87 221-292 (493)
94 KOG3576 Ovo and related transc 35.3 15 0.00033 33.0 0.5 28 37-65 116-143 (267)
95 COG3087 FtsN Cell division pro 35.0 91 0.002 28.6 5.4 57 147-205 5-61 (264)
96 PHA02849 putative transmembran 35.0 47 0.001 25.4 3.0 19 162-180 19-37 (82)
97 PHA03164 hypothetical protein; 34.2 51 0.0011 25.3 3.1 30 155-184 56-86 (88)
98 PF05568 ASFV_J13L: African sw 34.2 34 0.00075 29.3 2.4 27 162-188 33-59 (189)
99 PF00672 HAMP: HAMP domain; I 33.6 40 0.00087 22.6 2.3 32 164-195 2-33 (70)
100 PF05702 Herpes_UL49_5: Herpes 33.5 53 0.0012 25.9 3.2 69 111-186 23-94 (98)
101 PHA02662 ORF131 putative membr 33.5 1.1E+02 0.0024 27.5 5.5 77 93-175 114-206 (226)
102 PRK12387 formate hydrogenlyase 33.0 27 0.00058 29.0 1.6 24 35-58 111-134 (180)
103 PF15330 SIT: SHP2-interacting 33.0 47 0.001 26.2 2.9 30 161-190 4-33 (107)
104 PF09451 ATG27: Autophagy-rela 32.4 69 0.0015 28.4 4.2 26 171-196 213-238 (268)
105 PF11395 DUF2873: Protein of u 32.2 78 0.0017 21.3 3.4 15 159-173 9-23 (43)
106 PF06422 PDR_CDR: CDR ABC tran 32.2 78 0.0017 24.3 4.0 30 153-184 47-76 (103)
107 cd03745 SOCS_WSB2_SWIP2 SOCS ( 32.0 45 0.00097 22.0 2.2 31 102-132 4-37 (39)
108 cd03738 SOCS_SOCS4 SOCS (suppr 31.5 70 0.0015 22.8 3.3 32 103-134 5-39 (56)
109 PF03918 CcmH: Cytochrome C bi 31.5 72 0.0016 26.4 3.9 40 90-135 48-87 (148)
110 PHA02657 hypothetical protein; 31.2 57 0.0012 25.5 3.0 19 162-180 29-47 (95)
111 PF15202 Adipogenin: Adipogeni 31.1 74 0.0016 24.0 3.5 22 160-181 16-37 (81)
112 CHL00066 psbH photosystem II p 31.0 70 0.0015 24.0 3.4 35 145-179 23-58 (73)
113 PF01102 Glycophorin_A: Glycop 31.0 59 0.0013 26.3 3.2 30 158-187 65-94 (122)
114 PRK00159 putative septation in 30.8 71 0.0015 24.7 3.5 29 156-184 28-56 (87)
115 PF02419 PsbL: PsbL protein; 30.8 92 0.002 20.6 3.5 24 154-177 13-36 (37)
116 PLN00055 photosystem II reacti 30.7 74 0.0016 23.9 3.4 35 145-179 23-58 (73)
117 PF05393 Hum_adeno_E3A: Human 30.2 59 0.0013 25.5 3.0 24 163-186 39-62 (94)
118 PF15168 TRIQK: Triple QxxK/R 30.2 64 0.0014 24.6 3.0 18 164-181 55-72 (79)
119 PHA02692 hypothetical protein; 30.2 1.1E+02 0.0023 22.9 4.2 15 166-180 53-67 (70)
120 PF05439 JTB: Jumping transloc 29.9 17 0.00038 29.1 0.0 58 137-197 52-112 (114)
121 PRK13415 flagella biosynthesis 29.9 64 0.0014 28.8 3.5 22 163-184 72-93 (219)
122 PRK02251 putative septation in 29.7 65 0.0014 24.8 3.1 28 155-182 28-55 (87)
123 PF06143 Baculo_11_kDa: Baculo 29.6 62 0.0013 24.9 2.9 25 161-185 39-63 (84)
124 TIGR00859 ENaC sodium channel 29.6 75 0.0016 31.6 4.3 41 131-171 5-45 (595)
125 cd03746 SOCS_WSB1_SWIP1 SOCS ( 29.4 32 0.00069 22.6 1.2 32 101-132 3-37 (40)
126 PF15179 Myc_target_1: Myc tar 29.2 96 0.0021 27.3 4.4 32 168-202 34-65 (197)
127 PRK02624 psbH photosystem II r 29.0 75 0.0016 23.3 3.1 35 145-179 11-46 (64)
128 PRK11677 hypothetical protein; 28.8 47 0.001 27.3 2.3 26 160-185 3-28 (134)
129 PF00858 ASC: Amiloride-sensit 28.0 85 0.0018 28.1 4.0 36 135-170 1-36 (439)
130 TIGR03141 cytochro_ccmD heme e 27.7 31 0.00068 22.9 0.9 31 166-197 12-42 (45)
131 PF09538 FYDLN_acid: Protein o 27.3 23 0.00051 27.9 0.3 14 37-50 8-21 (108)
132 PF10320 7TM_GPCR_Srsx: Serpen 26.8 45 0.00098 28.9 2.0 43 155-197 144-187 (257)
133 PF14257 DUF4349: Domain of un 26.7 80 0.0017 27.5 3.6 13 171-183 250-262 (262)
134 PF06024 DUF912: Nucleopolyhed 26.6 42 0.00091 25.8 1.6 27 158-184 66-92 (101)
135 COG3105 Uncharacterized protei 26.6 85 0.0018 26.2 3.5 33 154-186 2-34 (138)
136 PRK11100 sensory histidine kin 26.5 31 0.00068 30.7 1.0 37 161-197 186-222 (475)
137 PRK11486 flagellar biosynthesi 26.4 83 0.0018 25.6 3.3 17 168-184 26-42 (124)
138 cd03735 SOCS_SOCS1 SOCS (suppr 26.4 1E+02 0.0022 20.7 3.2 31 103-133 5-38 (43)
139 TIGR00915 2A0602 The (Largely 26.2 84 0.0018 33.2 4.2 20 160-179 1009-1028(1044)
140 PF07423 DUF1510: Protein of u 26.1 51 0.0011 29.1 2.2 13 154-166 11-23 (217)
141 PRK09731 putative general secr 26.1 74 0.0016 27.3 3.1 21 160-180 38-58 (178)
142 PF02009 Rifin_STEVOR: Rifin/s 26.0 37 0.00079 31.3 1.4 19 14-34 23-41 (299)
143 KOG2754 Oligosaccharyltransfer 25.9 36 0.00077 33.0 1.3 28 160-187 407-434 (443)
144 PF01299 Lamp: Lysosome-associ 25.9 71 0.0015 28.7 3.2 27 158-184 271-297 (306)
145 COG5189 SFP1 Putative transcri 25.9 30 0.00065 33.0 0.8 52 11-62 348-422 (423)
146 PF07219 HemY_N: HemY protein 25.9 19 0.00042 27.5 -0.4 18 166-183 22-39 (108)
147 COG4459 NapE Periplasmic nitra 25.7 60 0.0013 23.6 2.1 26 158-183 24-52 (62)
148 PF04277 OAD_gamma: Oxaloaceta 25.3 1.5E+02 0.0033 21.0 4.3 12 169-180 17-28 (79)
149 PF08374 Protocadherin: Protoc 24.9 77 0.0017 28.3 3.1 30 154-183 35-64 (221)
150 PLN02971 tryptophan N-hydroxyl 24.8 1E+02 0.0023 29.3 4.3 34 152-185 18-51 (543)
151 smart00834 CxxC_CXXC_SSSS Puta 24.8 25 0.00054 21.8 0.0 15 37-51 4-18 (41)
152 PRK09678 DNA-binding transcrip 24.8 28 0.00061 25.8 0.3 40 13-52 2-43 (72)
153 PF03381 CDC50: LEM3 (ligand-e 24.7 92 0.002 28.0 3.6 28 157-184 246-273 (278)
154 PRK08222 hydrogenase 4 subunit 24.3 47 0.001 27.9 1.6 28 34-61 110-137 (181)
155 PF02148 zf-UBP: Zn-finger in 24.0 33 0.00072 23.8 0.6 36 35-70 8-47 (63)
156 PHA03030 hypothetical protein; 23.7 75 0.0016 25.7 2.6 10 168-177 12-21 (122)
157 cd02669 Peptidase_C19M A subfa 23.7 43 0.00094 31.6 1.4 41 35-75 25-71 (440)
158 PF00737 PsbH: Photosystem II 23.6 1.3E+02 0.0028 21.3 3.4 13 166-178 30-42 (52)
159 TIGR01477 RIFIN variant surfac 23.3 64 0.0014 30.7 2.4 23 162-184 313-335 (353)
160 PTZ00208 65 kDa invariant surf 23.2 83 0.0018 30.7 3.2 38 155-192 383-420 (436)
161 KOG3970 Predicted E3 ubiquitin 23.2 1.1E+02 0.0024 28.1 3.7 31 159-189 249-279 (299)
162 PF14276 DUF4363: Domain of un 23.2 73 0.0016 24.5 2.4 23 160-182 1-23 (121)
163 PTZ00046 rifin; Provisional 23.0 65 0.0014 30.6 2.4 23 162-184 318-340 (358)
164 PF07438 DUF1514: Protein of u 22.9 34 0.00075 25.2 0.5 7 160-166 2-8 (66)
165 PRK10697 DNA-binding transcrip 22.8 85 0.0018 25.3 2.7 15 170-184 51-65 (118)
166 PF11742 DUF3302: Protein of u 22.7 1.1E+02 0.0023 23.3 3.0 22 160-181 3-24 (78)
167 PF14610 DUF4448: Protein of u 22.6 36 0.00077 28.5 0.6 24 163-186 163-186 (189)
168 PRK09467 envZ osmolarity senso 22.5 61 0.0013 28.9 2.1 33 165-197 161-193 (435)
169 PRK00753 psbL photosystem II r 22.5 1E+02 0.0022 20.6 2.6 24 154-177 15-38 (39)
170 PRK09470 cpxA two-component se 22.5 47 0.001 29.7 1.4 33 165-197 174-206 (461)
171 COG5035 CDC50 Cell cycle contr 22.4 90 0.0019 29.7 3.2 27 156-183 332-358 (372)
172 CHL00038 psbL photosystem II p 22.4 1.1E+02 0.0025 20.2 2.8 23 154-176 14-36 (38)
173 COG4049 Uncharacterized protei 22.2 28 0.0006 25.3 -0.1 30 38-67 17-46 (65)
174 KOG3608 Zn finger proteins [Ge 22.1 56 0.0012 31.7 1.8 60 11-70 318-384 (467)
175 PF12768 Rax2: Cortical protei 22.0 92 0.002 28.2 3.1 23 162-184 235-257 (281)
176 PRK13254 cytochrome c-type bio 22.0 1.2E+02 0.0026 25.2 3.5 28 156-184 6-33 (148)
177 TIGR02588 conserved hypothetic 21.9 1.1E+02 0.0023 25.0 3.2 32 160-192 5-36 (122)
178 PF01286 XPA_N: XPA protein N- 21.9 20 0.00044 23.1 -0.8 17 38-54 3-19 (34)
179 cd03739 SOCS_SOCS5 SOCS (suppr 21.7 1.3E+02 0.0027 21.6 3.1 31 104-134 6-39 (57)
180 PRK00893 aspartate carbamoyltr 21.5 43 0.00094 28.2 0.9 50 3-52 90-148 (152)
181 PF15168 TRIQK: Triple QxxK/R 21.3 90 0.002 23.8 2.4 25 154-178 49-73 (79)
182 PF10883 DUF2681: Protein of u 21.1 1.2E+02 0.0027 23.3 3.2 19 159-177 4-22 (87)
183 PF06305 DUF1049: Protein of u 21.0 53 0.0011 22.6 1.1 16 180-195 45-60 (68)
184 PHA03240 envelope glycoprotein 20.7 1.1E+02 0.0024 27.7 3.3 22 155-176 210-231 (258)
185 PRK00888 ftsB cell division pr 20.7 86 0.0019 24.3 2.3 14 163-176 5-18 (105)
186 PF06781 UPF0233: Uncharacteri 20.3 1.6E+02 0.0034 22.6 3.7 30 155-184 27-56 (87)
187 cd03734 SOCS_CIS1 SOCS (suppre 20.3 1.6E+02 0.0034 19.5 3.2 32 102-133 4-36 (41)
188 PRK10755 sensor protein BasS/P 20.3 81 0.0018 27.5 2.4 13 183-195 87-99 (356)
189 PRK13453 F0F1 ATP synthase sub 20.3 1.2E+02 0.0026 25.1 3.2 7 154-160 17-23 (173)
190 KOG2927 Membrane component of 20.2 1.2E+02 0.0026 29.1 3.6 25 160-184 228-252 (372)
191 PHA02844 putative transmembran 20.1 1.1E+02 0.0025 23.0 2.7 25 154-178 47-71 (75)
No 1
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=98.40 E-value=3e-08 Score=86.73 Aligned_cols=67 Identities=24% Similarity=0.601 Sum_probs=59.4
Q ss_pred CCCCCCCCccCCchHhhhhhh-cCcccccccccccCCchhhHhhhhhhcccccccCC--cc----Cchhhhccc
Q 028678 14 KCRLHPDNDMFRDQEQHKIHV-DINEWRCGYCKKSFRAEKFLDQHFDNRHNNLLNVS--HG----KCLADLCGA 80 (205)
Q Consensus 14 ~C~L~P~~D~F~~~E~~k~h~-~~h~~rC~~C~K~F~sE~~LDlHidnrH~~ll~~~--~~----~CLad~C~~ 80 (205)
.|+.--.-.+|..-+.||.|| ..|.+-|.+|+|.|||.+.||.||-|-|+++.++. |+ .||+|+|..
T Consensus 81 ~cqvagc~~~~d~lD~~E~hY~~~h~~sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~ 154 (253)
T KOG4173|consen 81 ACQVAGCCQVFDALDDYEHHYHTLHGNSCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTE 154 (253)
T ss_pred cccccchHHHHhhhhhHHHhhhhcccchhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhh
Confidence 577666667899999999999 88999999999999999999999999999988754 43 899999974
No 2
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.00 E-value=0.00028 Score=39.20 Aligned_cols=24 Identities=42% Similarity=0.848 Sum_probs=20.7
Q ss_pred cccccccccCCchhhHhhhhhhcc
Q 028678 39 WRCGYCKKSFRAEKFLDQHFDNRH 62 (205)
Q Consensus 39 ~rC~~C~K~F~sE~~LDlHidnrH 62 (205)
|+|.+|++.|++..-|..|+...|
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~H 24 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTHH 24 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHHS
T ss_pred CCCcCCCCcCCcHHHHHHHHHhhC
Confidence 689999999999999999999877
No 3
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 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. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=96.99 E-value=0.00025 Score=40.18 Aligned_cols=23 Identities=35% Similarity=0.833 Sum_probs=21.4
Q ss_pred cccccccccCCchhhHhhhhhhcc
Q 028678 39 WRCGYCKKSFRAEKFLDQHFDNRH 62 (205)
Q Consensus 39 ~rC~~C~K~F~sE~~LDlHidnrH 62 (205)
++|..|+|.|++...|..||.. |
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~-H 23 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRR-H 23 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHH-H
T ss_pred CCCCCCCCccCCHHHHHHHHhH-C
Confidence 5899999999999999999987 5
No 4
>PF04959 ARS2: Arsenite-resistance protein 2; InterPro: IPR007042 This entry represents Arsenite-resistance protein 2 (also known as Serrate RNA effector molecule homolog) which is thought to play a role in arsenite resistance [], although does not directly confer arsenite resistance but rather modulates arsenic sensitivity []. Arsenite is a carcinogenic compound which can act as a comutagen by inhibiting DNA repair. It is also involved in cell cycle progression at S phase. ; PDB: 3AX1_A.
Probab=95.75 E-value=0.0027 Score=55.54 Aligned_cols=34 Identities=32% Similarity=0.787 Sum_probs=28.0
Q ss_pred cCcccccccccccCCchhhHhhhhhhcccccccC
Q 028678 35 DINEWRCGYCKKSFRAEKFLDQHFDNRHNNLLNV 68 (205)
Q Consensus 35 ~~h~~rC~~C~K~F~sE~~LDlHidnrH~~ll~~ 68 (205)
..+.|+|..|+|-|..++|+-+||.++|.++|..
T Consensus 74 ~~~K~~C~lc~KlFkg~eFV~KHI~nKH~e~ve~ 107 (214)
T PF04959_consen 74 DEDKWRCPLCGKLFKGPEFVRKHIFNKHPEKVEE 107 (214)
T ss_dssp SSEEEEE-SSS-EESSHHHHHHHHHHH-HHHHHH
T ss_pred cCCEECCCCCCcccCChHHHHHHHhhcCHHHHHH
Confidence 4478999999999999999999999999998763
No 5
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=95.19 E-value=0.0088 Score=35.44 Aligned_cols=23 Identities=35% Similarity=0.755 Sum_probs=20.5
Q ss_pred ccccccccccCCchhhHhhhhhh
Q 028678 38 EWRCGYCKKSFRAEKFLDQHFDN 60 (205)
Q Consensus 38 ~~rC~~C~K~F~sE~~LDlHidn 60 (205)
++.|..|+|.|.+|..|+.|+..
T Consensus 1 q~~C~~C~k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 1 QFYCDACDKYFSSENQLKQHMKS 23 (27)
T ss_dssp -CBBTTTTBBBSSHHHHHCCTTS
T ss_pred CCCcccCCCCcCCHHHHHHHHcc
Confidence 47899999999999999999864
No 6
>smart00355 ZnF_C2H2 zinc finger.
Probab=95.15 E-value=0.012 Score=32.56 Aligned_cols=24 Identities=33% Similarity=0.797 Sum_probs=21.2
Q ss_pred cccccccccCCchhhHhhhhhhccc
Q 028678 39 WRCGYCKKSFRAEKFLDQHFDNRHN 63 (205)
Q Consensus 39 ~rC~~C~K~F~sE~~LDlHidnrH~ 63 (205)
++|..|++.|.+...|..|+. .|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~-~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMR-THX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHH-Hhc
Confidence 479999999999999999998 554
No 7
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=94.94 E-value=0.012 Score=34.35 Aligned_cols=24 Identities=25% Similarity=0.541 Sum_probs=21.5
Q ss_pred cccccccccCCchhhHhhhhhhcc
Q 028678 39 WRCGYCKKSFRAEKFLDQHFDNRH 62 (205)
Q Consensus 39 ~rC~~C~K~F~sE~~LDlHidnrH 62 (205)
.+|..|++.|.++..|-.|+...|
T Consensus 2 ~~C~~C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 2 FECDECGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp EEETTTTEEESSHHHHHHHHCTTT
T ss_pred CCCCccCCccCChhHHHHHhHHhc
Confidence 589999999999999999996654
No 8
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=93.96 E-value=0.025 Score=32.36 Aligned_cols=22 Identities=41% Similarity=0.831 Sum_probs=20.3
Q ss_pred cccccccccCCchhhHhhhhhh
Q 028678 39 WRCGYCKKSFRAEKFLDQHFDN 60 (205)
Q Consensus 39 ~rC~~C~K~F~sE~~LDlHidn 60 (205)
|.|..|++.|.++..|..|+.-
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s 22 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRS 22 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTT
T ss_pred CCCCCCCCCcCCHHHHHHHHCc
Confidence 7899999999999999999863
No 9
>PHA00733 hypothetical protein
Probab=93.56 E-value=0.092 Score=42.17 Aligned_cols=43 Identities=26% Similarity=0.330 Sum_probs=34.2
Q ss_pred ccCCchHhhhhhhc--CcccccccccccCCchhhHhhhhhhcccc
Q 028678 22 DMFRDQEQHKIHVD--INEWRCGYCKKSFRAEKFLDQHFDNRHNN 64 (205)
Q Consensus 22 D~F~~~E~~k~h~~--~h~~rC~~C~K~F~sE~~LDlHidnrH~~ 64 (205)
-.|......+.|.. .+.+.|..|+|.|.....|..|+.+.|+-
T Consensus 81 k~Fss~s~L~~H~r~h~~~~~C~~CgK~F~~~~sL~~H~~~~h~~ 125 (128)
T PHA00733 81 MPFSSSVSLKQHIRYTEHSKVCPVCGKEFRNTDSTLDHVCKKHNI 125 (128)
T ss_pred CcCCCHHHHHHHHhcCCcCccCCCCCCccCCHHHHHHHHHHhcCc
Confidence 36888888887775 45678888888888888888888888874
No 10
>PHA00616 hypothetical protein
Probab=93.16 E-value=0.033 Score=37.83 Aligned_cols=26 Identities=27% Similarity=0.517 Sum_probs=23.5
Q ss_pred cccccccccCCchhhHhhhhhhcccc
Q 028678 39 WRCGYCKKSFRAEKFLDQHFDNRHNN 64 (205)
Q Consensus 39 ~rC~~C~K~F~sE~~LDlHidnrH~~ 64 (205)
.+|+.|||.|.....|..|+-..|..
T Consensus 2 YqC~~CG~~F~~~s~l~~H~r~~hg~ 27 (44)
T PHA00616 2 YQCLRCGGIFRKKKEVIEHLLSVHKQ 27 (44)
T ss_pred CccchhhHHHhhHHHHHHHHHHhcCC
Confidence 58999999999999999999777764
No 11
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=90.84 E-value=0.12 Score=37.11 Aligned_cols=28 Identities=36% Similarity=0.930 Sum_probs=23.2
Q ss_pred ccccccccccCCchhhHhhhhhhc-cccc
Q 028678 38 EWRCGYCKKSFRAEKFLDQHFDNR-HNNL 65 (205)
Q Consensus 38 ~~rC~~C~K~F~sE~~LDlHidnr-H~~l 65 (205)
.|+|..|++.|.+..-|..||... |...
T Consensus 50 ~~~C~~C~~~f~s~~~l~~Hm~~~~H~~~ 78 (100)
T PF12756_consen 50 SFRCPYCNKTFRSREALQEHMRSKHHKKR 78 (100)
T ss_dssp SEEBSSSS-EESSHHHHHHHHHHTTTTC-
T ss_pred CCCCCccCCCCcCHHHHHHHHcCccCCCc
Confidence 499999999999999999999975 5544
No 12
>PHA02768 hypothetical protein; Provisional
Probab=90.75 E-value=0.14 Score=36.29 Aligned_cols=24 Identities=17% Similarity=0.499 Sum_probs=21.7
Q ss_pred cccccccccCCchhhHhhhhhhcc
Q 028678 39 WRCGYCKKSFRAEKFLDQHFDNRH 62 (205)
Q Consensus 39 ~rC~~C~K~F~sE~~LDlHidnrH 62 (205)
++|.+|||.|.....|-.|+...+
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~ 29 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHN 29 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcC
Confidence 589999999999999999999855
No 13
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=89.05 E-value=0.22 Score=39.52 Aligned_cols=28 Identities=25% Similarity=0.462 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHHhhhheecccccccc
Q 028678 163 ISILTLMLLPIFYLIVYLYQREMRGGTQ 190 (205)
Q Consensus 163 ~~~~~l~~l~~fY~~v~~~~r~~~~~~~ 190 (205)
++||++++|++|.++.+.-+|.+|+|.+
T Consensus 5 ~~iii~~i~l~~~~~~~~~rRR~r~G~~ 32 (130)
T PF12273_consen 5 FAIIIVAILLFLFLFYCHNRRRRRRGLQ 32 (130)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcCCC
Confidence 3333333333444444444555454433
No 14
>PF15018 InaF-motif: TRP-interacting helix
Probab=85.88 E-value=0.78 Score=30.36 Aligned_cols=24 Identities=29% Similarity=0.578 Sum_probs=19.2
Q ss_pred ccHHHHHHHHHHHHHHHHHHHhhh
Q 028678 156 PSVFYLSISILTLMLLPIFYLIVY 179 (205)
Q Consensus 156 ~~~~y~~~~~~~l~~l~~fY~~v~ 179 (205)
+-+.|++..-+..++|.+||+++|
T Consensus 9 tV~~Yl~~VSl~Ai~LsiYY~f~W 32 (38)
T PF15018_consen 9 TVVAYLFSVSLAAIVLSIYYIFFW 32 (38)
T ss_pred HHHHHHHHHHHHHHHHHHHHheee
Confidence 335588777778889999999988
No 15
>PHA00732 hypothetical protein
Probab=85.00 E-value=0.56 Score=34.98 Aligned_cols=33 Identities=33% Similarity=0.449 Sum_probs=17.1
Q ss_pred cCCchHhhhhhhc--CcccccccccccCCchhhHhhhh
Q 028678 23 MFRDQEQHKIHVD--INEWRCGYCKKSFRAEKFLDQHF 58 (205)
Q Consensus 23 ~F~~~E~~k~h~~--~h~~rC~~C~K~F~sE~~LDlHi 58 (205)
.|......+.|.. ....+|..|||.|. .|..|+
T Consensus 10 ~F~s~s~Lk~H~r~~H~~~~C~~CgKsF~---~l~~H~ 44 (79)
T PHA00732 10 TTVTLFALKQHARRNHTLTKCPVCNKSYR---RLNQHF 44 (79)
T ss_pred ccCCHHHHHHHhhcccCCCccCCCCCEeC---Chhhhh
Confidence 4555555555552 22345555555555 255555
No 16
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=84.21 E-value=0.62 Score=28.27 Aligned_cols=24 Identities=21% Similarity=0.620 Sum_probs=21.2
Q ss_pred ccccccccccCCchhhHhhhhhhc
Q 028678 38 EWRCGYCKKSFRAEKFLDQHFDNR 61 (205)
Q Consensus 38 ~~rC~~C~K~F~sE~~LDlHidnr 61 (205)
.+.|..|++.|.++..+..|+..+
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~gk 26 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKGK 26 (35)
T ss_pred CeEccccCCccCCHHHHHHHHChH
Confidence 478999999999999999998654
No 17
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=83.97 E-value=0.75 Score=31.29 Aligned_cols=26 Identities=31% Similarity=0.629 Sum_probs=22.5
Q ss_pred ccccccccccCCchhhHhhhhhhcccc
Q 028678 38 EWRCGYCKKSFRAEKFLDQHFDNRHNN 64 (205)
Q Consensus 38 ~~rC~~C~K~F~sE~~LDlHidnrH~~ 64 (205)
.++|.+||| -.++.-|-.|+++.|..
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~~~H~~ 27 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCEDEHRS 27 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHHhHCcC
Confidence 578999999 56678899999999986
No 18
>PHA00732 hypothetical protein
Probab=81.47 E-value=1.7 Score=32.42 Aligned_cols=26 Identities=23% Similarity=0.345 Sum_probs=23.1
Q ss_pred cccccccccCCchhhHhhhhhhcccc
Q 028678 39 WRCGYCKKSFRAEKFLDQHFDNRHNN 64 (205)
Q Consensus 39 ~rC~~C~K~F~sE~~LDlHidnrH~~ 64 (205)
.+|..|||.|.+...|..|+...|.+
T Consensus 2 y~C~~Cgk~F~s~s~Lk~H~r~~H~~ 27 (79)
T PHA00732 2 FKCPICGFTTVTLFALKQHARRNHTL 27 (79)
T ss_pred ccCCCCCCccCCHHHHHHHhhcccCC
Confidence 47999999999999999999876764
No 19
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=81.39 E-value=1 Score=42.72 Aligned_cols=35 Identities=29% Similarity=0.673 Sum_probs=28.4
Q ss_pred cCcccccccccccCCchhhHhhhhhhcccccccCC
Q 028678 35 DINEWRCGYCKKSFRAEKFLDQHFDNRHNNLLNVS 69 (205)
Q Consensus 35 ~~h~~rC~~C~K~F~sE~~LDlHidnrH~~ll~~~ 69 (205)
.-+.++|+||.|.|++...|--||.++-.--|+++
T Consensus 192 kL~r~~CLyCekifrdkntLkeHMrkK~HrrinPk 226 (423)
T KOG2482|consen 192 KLERLRCLYCEKIFRDKNTLKEHMRKKRHRRINPK 226 (423)
T ss_pred HHhhheeeeeccccCCcHHHHHHHHhccCcccCCC
Confidence 55899999999999999999999987544444443
No 20
>PF09777 OSTMP1: Osteopetrosis-associated transmembrane protein 1 precursor; InterPro: IPR019172 Osteopetrosis-associated transmembrane protein 1 (OSTM1) is required for osteoclast and melanocyte maturation and function. Mutations in OSTM1 give rise to autosomal recessive osteopetrosis, also called autosomal recessive Albers-Schonberg disease [, ].
Probab=79.50 E-value=3.1 Score=36.76 Aligned_cols=27 Identities=30% Similarity=0.610 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHHHHHhhhheecccc
Q 028678 160 YLSISILTLMLLPIFYLIVYLYQREMR 186 (205)
Q Consensus 160 y~~~~~~~l~~l~~fY~~v~~~~r~~~ 186 (205)
.++++.+++++.++||+.+|++.+...
T Consensus 192 ~i~v~~~vl~lpv~FY~~s~~~~~~~~ 218 (237)
T PF09777_consen 192 VIAVSVFVLFLPVLFYLSSYLHSERKK 218 (237)
T ss_pred HHHHHHHHHHHHHHHHHhheeeecccc
Confidence 455666666777899999999988755
No 21
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=79.25 E-value=0.91 Score=26.77 Aligned_cols=20 Identities=35% Similarity=0.876 Sum_probs=16.1
Q ss_pred hhhhcCcccccccccccCCc
Q 028678 31 KIHVDINEWRCGYCKKSFRA 50 (205)
Q Consensus 31 k~h~~~h~~rC~~C~K~F~s 50 (205)
+.|...-.+.|.+|+|.|.+
T Consensus 7 ~~H~~~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 7 RTHTGEKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHSSSSSEEESSSSEEESS
T ss_pred hhcCCCCCCCCCCCcCeeCc
Confidence 45666677999999999974
No 22
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 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. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=77.47 E-value=1 Score=31.98 Aligned_cols=31 Identities=23% Similarity=0.400 Sum_probs=23.6
Q ss_pred cCcccccccccccCCchhhHhhhhhhccccc
Q 028678 35 DINEWRCGYCKKSFRAEKFLDQHFDNRHNNL 65 (205)
Q Consensus 35 ~~h~~rC~~C~K~F~sE~~LDlHidnrH~~l 65 (205)
+.+--+|..|+-+++++.-|.+|++-+|...
T Consensus 21 S~~PatCP~C~a~~~~srnLrRHle~~H~~k 51 (54)
T PF09237_consen 21 SEQPATCPICGAVIRQSRNLRRHLEIRHFKK 51 (54)
T ss_dssp TS--EE-TTT--EESSHHHHHHHHHHHTTTS
T ss_pred cCCCCCCCcchhhccchhhHHHHHHHHhccc
Confidence 6678899999999999999999999999753
No 23
>PF10537 WAC_Acf1_DNA_bd: ATP-utilising chromatin assembly and remodelling N-terminal; InterPro: IPR013136 ACF (for ATP-utilising chromatin assembly and remodeling factor) is a chromatin-remodeling complex that catalyzes the ATP-dependent assembly of periodic nucleosome arrays. This reaction utilises the energy of ATP hydrolysis by ISWI, the smaller of the two subunits of ACF. Acf1, the large subunit of ACF, is essential for the full activity of the complex. The WAC (WSTF/Acf1/cbp146) domain is an ~110-residue module present at the N-termini of Acf1-related proteins in a variety of organisms. It is found in association with other domains such as the bromodomain, the PHD-type zinc finger, DDT or WAKS. The DNA-binding region of Acf1 includes the WAC domain, which is necessary for the efficient binding of ACF complex to DNA. It seems probable that the WAC domain will be involved in DNA binding in other related factors [, ]. Some proteins known to contain a WAC domain are the Drosophila melanogaster (Fruit fly) ATP-dependent chromatin assembly factor large subunit Acf1, human WSTF (Williams syndrome transcription factor), mouse cbp146, yeast imitation switch two complex protein 1 (ITC1 or YGL133w), and yeast protein YPL216w.
Probab=77.36 E-value=1.7 Score=34.01 Aligned_cols=29 Identities=28% Similarity=0.508 Sum_probs=25.2
Q ss_pred CCCccCCchHhhhhhh---cCccccccccccc
Q 028678 19 PDNDMFRDQEQHKIHV---DINEWRCGYCKKS 47 (205)
Q Consensus 19 P~~D~F~~~E~~k~h~---~~h~~rC~~C~K~ 47 (205)
..+++|++||+|-..+ +...|.|...||+
T Consensus 8 ~T~EiF~dYe~Y~~R~~~y~~~vwtC~~TGk~ 39 (102)
T PF10537_consen 8 FTGEIFRDYEEYLKRMILYNQRVWTCEITGKS 39 (102)
T ss_pred CCCcccCCHHHHHHHHHHHhCCeeEEecCCCC
Confidence 4478999999998876 8899999999984
No 24
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=77.20 E-value=1.2 Score=40.64 Aligned_cols=49 Identities=24% Similarity=0.546 Sum_probs=40.2
Q ss_pred cCCCCCCCCCCCccCCchHhhhhhhcCc----ccccccccccCCchhhHhhhhhh
Q 028678 10 EISSKCRLHPDNDMFRDQEQHKIHVDIN----EWRCGYCKKSFRAEKFLDQHFDN 60 (205)
Q Consensus 10 ~l~~~C~L~P~~D~F~~~E~~k~h~~~h----~~rC~~C~K~F~sE~~LDlHidn 60 (205)
+=|..|+ -.+-.|++-..+..|.++| .++|..|+|.|---.||++|.|-
T Consensus 213 EKPF~C~--hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 213 EKPFSCP--HCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred CCCccCC--cccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHhhhh
Confidence 3466777 2356899999999998665 57999999999999999999874
No 25
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=77.02 E-value=0.77 Score=32.84 Aligned_cols=28 Identities=29% Similarity=0.555 Sum_probs=0.0
Q ss_pred ccccccccCCchhhHhhhhhhccccccc
Q 028678 40 RCGYCKKSFRAEKFLDQHFDNRHNNLLN 67 (205)
Q Consensus 40 rC~~C~K~F~sE~~LDlHidnrH~~ll~ 67 (205)
+|.+|+..|.+..-|-.||.+.|.-.+.
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~ 28 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDIP 28 (100)
T ss_dssp ----------------------------
T ss_pred Cccccccccccccccccccccccccccc
Confidence 5999999999999999999999985544
No 26
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=73.19 E-value=1.9 Score=25.45 Aligned_cols=20 Identities=25% Similarity=0.554 Sum_probs=16.7
Q ss_pred cccccccccCCchhhHhhhhh
Q 028678 39 WRCGYCKKSFRAEKFLDQHFD 59 (205)
Q Consensus 39 ~rC~~C~K~F~sE~~LDlHid 59 (205)
-.|..||+.| ....|..|+.
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHH
Confidence 4699999999 7778888875
No 27
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=70.13 E-value=1.5 Score=45.69 Aligned_cols=52 Identities=23% Similarity=0.584 Sum_probs=44.1
Q ss_pred CCCCCCCCCCccCCchHhhhhhhcCcc----cccccccccCCchhhHhhhhhhccccc
Q 028678 12 SSKCRLHPDNDMFRDQEQHKIHVDINE----WRCGYCKKSFRAEKFLDQHFDNRHNNL 65 (205)
Q Consensus 12 ~~~C~L~P~~D~F~~~E~~k~h~~~h~----~rC~~C~K~F~sE~~LDlHidnrH~~l 65 (205)
.-+|+|. ..+|..+...++|++.|+ ++|..||-.|-|.--|..|+...|...
T Consensus 353 khkCr~C--akvfgS~SaLqiHlRSHTGERPfqCnvCG~~FSTkGNLKvH~~rH~e~~ 408 (958)
T KOG1074|consen 353 KHKCRFC--AKVFGSDSALQIHLRSHTGERPFQCNVCGNRFSTKGNLKVHFQRHREKY 408 (958)
T ss_pred cchhhhh--HhhcCchhhhhhhhhccCCCCCeeecccccccccccceeeeeeeccccC
Confidence 3466665 369999999999997776 789999999999999999999887754
No 28
>PF02699 YajC: Preprotein translocase subunit; InterPro: IPR003849 Secretion across the inner membrane in some Gram-negative bacteria occurs via the preprotein translocase pathway. Proteins are produced in the cytoplasm as precursors, and require a chaperone subunit to direct them to the translocase component []. From there, the mature proteins are either targeted to the outer membrane, or remain as periplasmic proteins []. The translocase protein subunits are encoded on the bacterial chromosome. The translocase itself comprises 7 proteins, including a chaperone (SecB), ATPase (SecA), an integral membrane complex (SecY, SecE and SecG), and two additional membrane proteins that promote the release of the mature peptide into the periplasm (SecD and SecF) []. Other cytoplasmic/periplasmic proteins play a part in preprotein translocase activity, namely YidC and YajC []. The latter is bound in a complex to SecD and SecF, and plays a part in stabilising and regulating secretion through the SecYEG integral membrane component via SecA []. Homologues of the YajC gene have been found in a range of pathogenic and commensal microbes. Brucella abortis YajC- and SecD-like proteins were shown to stimulate a Th1 cell-mediated immune response in mice, and conferred protection when challenged with B.abortis []. Therefore, these proteins may have an antigenic role as well as a secretory one in virulent bacteria []. A number of previously uncharacterised "hypothetical" proteins also show similarity to E.coli YajC, suggesting that this family is wider than first thought []. More recently, the precise interactions between the E.coli SecYEG complex, SecD, SecF, YajC and YidC have been studied []. Rather than acting individually, the four proteins form a heterotetrameric complex and associate with the SecYEG heterotrimeric complex []. The SecF and YajC subunits link the complex to the integral membrane translocase. ; PDB: 2RDD_B.
Probab=69.86 E-value=2.4 Score=31.51 Aligned_cols=37 Identities=22% Similarity=0.354 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHhhhheecccccccccccccccccc
Q 028678 164 SILTLMLLPIFYLIVYLYQREMRGGTQELKRIPRVGR 200 (205)
Q Consensus 164 ~~~~l~~l~~fY~~v~~~~r~~~~~~~~l~r~~~~~~ 200 (205)
++++++++++||++.+.-|+.-++..+++...=+.|.
T Consensus 5 li~lv~~~~i~yf~~~rpqkk~~k~~~~m~~~Lk~Gd 41 (82)
T PF02699_consen 5 LIPLVIIFVIFYFLMIRPQKKQQKEHQEMLASLKPGD 41 (82)
T ss_dssp HHHHHHHHHHHHHHTHHHHHHHHHHHTTGGG------
T ss_pred HHHHHHHHHHHhhheecHHHHHHHHHHHHHHcCCCCC
Confidence 3455577788898888777765555666555444443
No 29
>PHA00733 hypothetical protein
Probab=69.16 E-value=3.7 Score=32.89 Aligned_cols=25 Identities=24% Similarity=0.534 Sum_probs=22.3
Q ss_pred CcccccccccccCCchhhHhhhhhh
Q 028678 36 INEWRCGYCKKSFRAEKFLDQHFDN 60 (205)
Q Consensus 36 ~h~~rC~~C~K~F~sE~~LDlHidn 60 (205)
...+.|..|||.|.+...|.+|+..
T Consensus 71 ~kPy~C~~Cgk~Fss~s~L~~H~r~ 95 (128)
T PHA00733 71 VSPYVCPLCLMPFSSSVSLKQHIRY 95 (128)
T ss_pred CCCccCCCCCCcCCCHHHHHHHHhc
Confidence 3478999999999999999999973
No 30
>PF00672 HAMP: HAMP domain; InterPro: IPR003660 The HAMP linker domain (present in Histidine kinases, Adenyl cyclases, Methyl-accepting proteins and Phosphatases) is an approximately 50-amino acid alpha-helical region. It is found in bacterial sensor and chemotaxis proteins and in eukaryotic histidine kinases. The bacterial proteins are usually integral membrane proteins and part of a two-component signal transduction pathway. One or several copies of the HAMP domain can be found in association with other domains, such as the histidine kinase domain, the bacterial chemotaxis sensory transducer domain, the PAS repeat, the EAL domain, the GGDEF domain, the protein phosphatase 2C-like domain, the guanylate cyclase domain, or the response regulatory domain. It has been suggested that the HAMP domain possesses a role of regulating the phosphorylation or methylation of homodimeric receptors by transmitting the conformational changes in periplasmic ligand-binding domains to cytoplasmic signalling kinase and methyl-acceptor domains.; GO: 0004871 signal transducer activity, 0007165 signal transduction, 0016021 integral to membrane; PDB: 3PJX_A 3PJW_A 3ZX6_B 2Y20_B 2Y0Q_D 2Y21_H 3ZRW_C 2L7H_B 2LFS_B 2L7I_B ....
Probab=68.47 E-value=3.7 Score=27.82 Aligned_cols=37 Identities=22% Similarity=0.369 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHHHHHhhhheeccccccccccccccc
Q 028678 161 LSISILTLMLLPIFYLIVYLYQREMRGGTQELKRIPR 197 (205)
Q Consensus 161 ~~~~~~~l~~l~~fY~~v~~~~r~~~~~~~~l~r~~~ 197 (205)
+++++++++++++.|++.....+..++.++.++++++
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~i~~pl~~l~~~~~~i~~ 39 (70)
T PF00672_consen 3 VLFLIILLLSLLLAWLLARRITRPLRRLSDAMQRIAQ 39 (70)
T ss_dssp HHHHHHHHHHHHHHHH--HTTCCCHHHHHHHCCCCHT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
Confidence 3444555666667777777777777777777777763
No 31
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=67.73 E-value=2.9 Score=38.31 Aligned_cols=40 Identities=23% Similarity=0.538 Sum_probs=35.5
Q ss_pred ccCCchHhhhhhhcCcc--cccccccccCCchhhHhhhhhhc
Q 028678 22 DMFRDQEQHKIHVDINE--WRCGYCKKSFRAEKFLDQHFDNR 61 (205)
Q Consensus 22 D~F~~~E~~k~h~~~h~--~rC~~C~K~F~sE~~LDlHidnr 61 (205)
-.|.+.-+++-|+++|. ..|+.|||.|---++|.-||.-.
T Consensus 169 K~YvSmpALkMHirTH~l~c~C~iCGKaFSRPWLLQGHiRTH 210 (279)
T KOG2462|consen 169 KVYVSMPALKMHIRTHTLPCECGICGKAFSRPWLLQGHIRTH 210 (279)
T ss_pred ceeeehHHHhhHhhccCCCcccccccccccchHHhhcccccc
Confidence 37999999999998886 78999999999999999999764
No 32
>PF13908 Shisa: Wnt and FGF inhibitory regulator
Probab=67.16 E-value=6.9 Score=32.35 Aligned_cols=10 Identities=20% Similarity=0.521 Sum_probs=5.2
Q ss_pred CCCCCCCCcc
Q 028678 138 AHKCPRKSQP 147 (205)
Q Consensus 138 ~~TC~~~~~~ 147 (205)
+.+|+.+..+
T Consensus 49 q~~C~~~~~~ 58 (179)
T PF13908_consen 49 QGSCDNYDTP 58 (179)
T ss_pred cccccccccc
Confidence 4456664443
No 33
>TIGR00739 yajC preprotein translocase, YajC subunit. While this protein is part of the preprotein translocase in Escherichia coli, it is not essential for viability or protein secretion. The N-terminus region contains a predicted membrane-spanning region followed by a region consisting almost entirely of residues with charged (acidic, basic, or zwitterionic) side chains. This small protein is about 100 residues in length, and is restricted to bacteria; however, this protein is absent from some lineages, including spirochetes and Mycoplasmas.
Probab=66.38 E-value=2.4 Score=31.92 Aligned_cols=36 Identities=22% Similarity=0.409 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHhhhheeccccccccccccccccc
Q 028678 164 SILTLMLLPIFYLIVYLYQREMRGGTQELKRIPRVG 199 (205)
Q Consensus 164 ~~~~l~~l~~fY~~v~~~~r~~~~~~~~l~r~~~~~ 199 (205)
++++++++++||++++.=||.-++..+++...-+.|
T Consensus 6 l~~~vv~~~i~yf~~~rpqkK~~k~~~~m~~~L~~G 41 (84)
T TIGR00739 6 LLPLVLIFLIFYFLIIRPQRKRRKAHKKLIESLKKG 41 (84)
T ss_pred HHHHHHHHHHHHHheechHHHHHHHHHHHHHhCCCC
Confidence 344555677888888765555444445554444444
No 34
>PRK05585 yajC preprotein translocase subunit YajC; Validated
Probab=66.08 E-value=2.8 Score=32.94 Aligned_cols=35 Identities=14% Similarity=0.296 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHhhhheecccccccccccccccccc
Q 028678 166 LTLMLLPIFYLIVYLYQREMRGGTQELKRIPRVGR 200 (205)
Q Consensus 166 ~~l~~l~~fY~~v~~~~r~~~~~~~~l~r~~~~~~ 200 (205)
.+++++++||++++.=||..++..+++..--+.|-
T Consensus 23 ~lvii~~i~yf~~~RpqkK~~k~~~~~~~~Lk~Gd 57 (106)
T PRK05585 23 PLVVFFAIFYFLIIRPQQKRQKEHKKMLSSLAKGD 57 (106)
T ss_pred HHHHHHHHHHHHhccHHHHHHHHHHHHHHhcCCCC
Confidence 44556668888888766665656666666555553
No 35
>PF07874 DUF1660: Prophage protein (DUF1660); InterPro: IPR012455 This entry is represented by Bacteriophage bIL285, Orf33. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=64.88 E-value=1.6 Score=31.94 Aligned_cols=40 Identities=35% Similarity=0.746 Sum_probs=26.0
Q ss_pred CCCCCCCCCccCCchHhhhhhhcCcccccccc----------------------cccCCchhhHhhhhh
Q 028678 13 SKCRLHPDNDMFRDQEQHKIHVDINEWRCGYC----------------------KKSFRAEKFLDQHFD 59 (205)
Q Consensus 13 ~~C~L~P~~D~F~~~E~~k~h~~~h~~rC~~C----------------------~K~F~sE~~LDlHid 59 (205)
.-|.|.-|.-.|..++. +-.|.|.-| ++.|| |+-||+|||
T Consensus 3 L~CKLFGHKw~~~~~~~------~~~~~C~RC~~~k~~~~~~~~~~NrsDlDesenv~~-ekwldkhmd 64 (64)
T PF07874_consen 3 LMCKLFGHKWTFNPYGM------YMEWKCERCKIVKATANRFAADFNRSDLDESENVFP-EKWLDKHMD 64 (64)
T ss_pred chhhhcCCCCCCCCccc------chhHHHHHHHHHHhhHhhhhhhhccccccccccccH-HHHhhhhcC
Confidence 35677666544444433 445666666 45688 999999997
No 36
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=64.87 E-value=3 Score=39.21 Aligned_cols=51 Identities=22% Similarity=0.299 Sum_probs=37.1
Q ss_pred CCccHHHH-HHHHHHHHHHHHHHHhhhheeccccccc-ccccccccccccCCC
Q 028678 154 KQPSVFYL-SISILTLMLLPIFYLIVYLYQREMRGGT-QELKRIPRVGRKAKP 204 (205)
Q Consensus 154 ~~~~~~y~-~~~~~~l~~l~~fY~~v~~~~r~~~~~~-~~l~r~~~~~~~~~~ 204 (205)
..|+.+++ ++++++++.+++-|.++|.+.++.+.+. +.++|..|+-.|+-|
T Consensus 164 ~~ws~~~~~~i~~l~v~~il~~~f~i~~~~~~~~~r~~~~~~r~~k~~l~~~p 216 (348)
T KOG4628|consen 164 SPWSILAISLISLLTVVAILVTCFFIYRIRRLIRARNRLRRNRLIKRLLKKLP 216 (348)
T ss_pred CcchhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHhhCC
Confidence 34556654 7777888888888899998888875444 477788877666655
No 37
>PF11027 DUF2615: Protein of unknown function (DUF2615); InterPro: IPR020309 This entry represents a group of uncharacterised protein from the Metazoa, including CD034 (or C4orf34) and YQF4 (or C34C12.4).
Probab=61.46 E-value=27 Score=27.66 Aligned_cols=53 Identities=13% Similarity=0.486 Sum_probs=25.6
Q ss_pred chHHHHHHHHH--hhccCCCC-CCCCccCCCCCCCCccHHHHHHHHHHHHHHHHHHH
Q 028678 123 SASRLHELFLR--QFCDAHKC-PRKSQPFPKGGRKQPSVFYLSISILTLMLLPIFYL 176 (205)
Q Consensus 123 sa~~L~~~f~~--~~Cd~~TC-~~~~~~f~~~~~~~~~~~y~~~~~~~l~~l~~fY~ 176 (205)
+=.||-.++.. ++|.-..| .+..+ .+++......-++.++.+.+++++++|++
T Consensus 17 AMrRLl~~LRqsQ~~CTDteC~~d~~g-~p~~~~~~~~~~~~~~~~w~~~A~~ly~~ 72 (103)
T PF11027_consen 17 AMRRLLNLLRQSQNYCTDTECLQDLPG-LPQSSGDGGNSMFMMMMLWMVLAMALYLL 72 (103)
T ss_pred HHHHHHHHHHHhhCccCcchhhccCCC-CCCcCCCCCccHHHHHHHHHHHHHHHHHc
Confidence 44577774432 36888888 44443 22221122223344455555555555543
No 38
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=60.31 E-value=4.4 Score=42.03 Aligned_cols=48 Identities=23% Similarity=0.528 Sum_probs=38.4
Q ss_pred CCCCCCCCCCccCCchHhhhhhhcCc-----------------ccccccccccCCchhhHhhhhhhc
Q 028678 12 SSKCRLHPDNDMFRDQEQHKIHVDIN-----------------EWRCGYCKKSFRAEKFLDQHFDNR 61 (205)
Q Consensus 12 ~~~C~L~P~~D~F~~~E~~k~h~~~h-----------------~~rC~~C~K~F~sE~~LDlHidnr 61 (205)
...|+|. .-.|+..++++.|+..| .+.|.+|||.|.=.|+|.-|+.-+
T Consensus 240 nfsC~lC--sytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKCtECgKAFKfKHHLKEHlRIH 304 (1007)
T KOG3623|consen 240 NFSCMLC--SYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKCTECGKAFKFKHHLKEHLRIH 304 (1007)
T ss_pred CCcchhh--hhhhhhHHHHHHHHHhhcCCCcccccccchhhhccccccccchhhhhHHHHHhhheee
Confidence 3446665 25799999999998553 478999999999999999998644
No 39
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=59.93 E-value=3.9 Score=23.06 Aligned_cols=24 Identities=25% Similarity=0.591 Sum_probs=18.3
Q ss_pred cccccccccCCchhhHhhhhhhccc
Q 028678 39 WRCGYCKKSFRAEKFLDQHFDNRHN 63 (205)
Q Consensus 39 ~rC~~C~K~F~sE~~LDlHidnrH~ 63 (205)
.+|..|.=+-. +.-|..|+...|.
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H~ 24 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHHP 24 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHHS
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhCc
Confidence 47899998777 8899999998874
No 40
>PF15145 DUF4577: Domain of unknown function (DUF4577)
Probab=59.19 E-value=15 Score=29.92 Aligned_cols=45 Identities=13% Similarity=0.317 Sum_probs=25.6
Q ss_pred CCccHHHHHHHHHHHHHHHHHHHhhhheecccccccccccccccc
Q 028678 154 KQPSVFYLSISILTLMLLPIFYLIVYLYQREMRGGTQELKRIPRV 198 (205)
Q Consensus 154 ~~~~~~y~~~~~~~l~~l~~fY~~v~~~~r~~~~~~~~l~r~~~~ 198 (205)
..+++|++.++|+++|-|++.-+++|+...-..+--+--||+.--
T Consensus 58 g~~~lffvglii~LivSLaLVsFvIFLiiQTgnkMddvSrRL~aE 102 (128)
T PF15145_consen 58 GSRSLFFVGLIIVLIVSLALVSFVIFLIIQTGNKMDDVSRRLTAE 102 (128)
T ss_pred CceeehHHHHHHHHHHHHHHHHHHHHheeeccchHHHHHHHHHhc
Confidence 456777777777777777766666665433323343334444433
No 41
>TIGR01478 STEVOR variant surface antigen, stevor family. This model represents the stevor branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of stevor sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 8 bits.
Probab=58.24 E-value=8.6 Score=35.56 Aligned_cols=86 Identities=19% Similarity=0.192 Sum_probs=40.8
Q ss_pred hHhhhhhhcCccccc-ccccccCCc--h-----hhHhhhhhhcc---cccccCCc-cCchhhhccccccccccccCCCCC
Q 028678 27 QEQHKIHVDINEWRC-GYCKKSFRA--E-----KFLDQHFDNRH---NNLLNVSH-GKCLADLCGALHCDFVMNSKSSRS 94 (205)
Q Consensus 27 ~E~~k~h~~~h~~rC-~~C~K~F~s--E-----~~LDlHidnrH---~~ll~~~~-~~CLad~C~~L~Cd~~~~~~~~~~ 94 (205)
+|+|+..+....-.| +.|+|.-.+ | .|-..-=||+| .+=+.+.. +.=-...|+ |.-.++.+..++
T Consensus 82 f~e~~e~~~k~~~K~k~~~d~e~~~klEKel~e~~~~~fg~e~~imlksgm~~n~d~~s~ss~ce---ctd~n~~~l~~~ 158 (295)
T TIGR01478 82 YEQLQELVEKNRTKSTGGNGAEPMSTIEKELLEKYEEMFGDESHIMLKSGMYTNDDDKLKDKSCE---CTNQKIELLSST 158 (295)
T ss_pred HHHHHHHHHhcCCcccccCCcchhhHHHHHHHHHHHHHhCCccchhhhcCCCCCccccccCCcee---eeccccchhhhc
Confidence 567777774444444 467777653 2 22222223444 11111111 100134555 655555555555
Q ss_pred CCCHHHHHHHHHHHHHHhhcc
Q 028678 95 KCNPAAVAKNRHLCESLANRC 115 (205)
Q Consensus 95 ~C~~~~~~~~r~~Ce~l~~sC 115 (205)
+=...=...++|.|-.=+-+|
T Consensus 159 Kg~DkYLkhLK~rC~~gi~~C 179 (295)
T TIGR01478 159 KVHDNYLKNLKKGCTAGVGTC 179 (295)
T ss_pred ccchHHHHhhhccCCCeeEee
Confidence 555555566666665544444
No 42
>PTZ00370 STEVOR; Provisional
Probab=57.76 E-value=8.7 Score=35.54 Aligned_cols=37 Identities=22% Similarity=0.423 Sum_probs=20.3
Q ss_pred hhccccccccccccCCCCCCCCHHHHHHHHHHHHHHhhcc
Q 028678 76 DLCGALHCDFVMNSKSSRSKCNPAAVAKNRHLCESLANRC 115 (205)
Q Consensus 76 d~C~~L~Cd~~~~~~~~~~~C~~~~~~~~r~~Ce~l~~sC 115 (205)
..|+ |.-.++.+..+++=...=...+++.|-.=+-+|
T Consensus 143 s~ce---ctd~n~~~l~~~kg~DkYLkhLK~rC~~gi~~C 179 (296)
T PTZ00370 143 STCE---CTDINNVKLAKTKGRDKYLKHLKHRCTGGICSC 179 (296)
T ss_pred Ccee---eeecccchhhhcccchHHHhhhhccCCCeeEee
Confidence 3555 655555554555555555566666665544444
No 43
>COG4736 CcoQ Cbb3-type cytochrome oxidase, subunit 3 [Posttranslational modification, protein turnover, chaperones]
Probab=57.55 E-value=11 Score=27.17 Aligned_cols=27 Identities=19% Similarity=0.408 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHHHHHhhhh-eeccccccc
Q 028678 162 SISILTLMLLPIFYLIVYL-YQREMRGGT 189 (205)
Q Consensus 162 ~~~~~~l~~l~~fY~~v~~-~~r~~~~~~ 189 (205)
+-++.++++.++||.++|. |.++ +|+.
T Consensus 10 a~a~~t~~~~l~fiavi~~ayr~~-~K~~ 37 (60)
T COG4736 10 ADAWGTIAFTLFFIAVIYFAYRPG-KKGE 37 (60)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccc-chhh
Confidence 3455666667777777764 4444 4443
No 44
>PRK05886 yajC preprotein translocase subunit YajC; Validated
Probab=56.97 E-value=5.2 Score=31.84 Aligned_cols=29 Identities=21% Similarity=0.206 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHhhhheecccccccccccc
Q 028678 166 LTLMLLPIFYLIVYLYQREMRGGTQELKR 194 (205)
Q Consensus 166 ~~l~~l~~fY~~v~~~~r~~~~~~~~l~r 194 (205)
.+++++++||+++..=|+..++..+++..
T Consensus 9 ~lv~i~~i~yF~~iRPQkKr~K~~~~m~~ 37 (109)
T PRK05886 9 PFLLIMGGFMYFASRRQRKAMQATIDLHE 37 (109)
T ss_pred HHHHHHHHHHHHHccHHHHHHHHHHHHHH
Confidence 33445667787766555443333334433
No 45
>PF06024 DUF912: Nucleopolyhedrovirus protein of unknown function (DUF912); InterPro: IPR009261 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf78; it is a family of uncharacterised viral proteins.
Probab=56.85 E-value=11 Score=29.09 Aligned_cols=27 Identities=26% Similarity=0.485 Sum_probs=14.3
Q ss_pred cHHHHHHHHHHHHHHHHHHHhhhhe-ecc
Q 028678 157 SVFYLSISILTLMLLPIFYLIVYLY-QRE 184 (205)
Q Consensus 157 ~~~y~~~~~~~l~~l~~fY~~v~~~-~r~ 184 (205)
.++++ +.+.++.+++|+|+|.|++ -||
T Consensus 62 ~iili-~lls~v~IlVily~IyYFVILRe 89 (101)
T PF06024_consen 62 NIILI-SLLSFVCILVILYAIYYFVILRE 89 (101)
T ss_pred cchHH-HHHHHHHHHHHHhhheEEEEEec
Confidence 34333 3333355556667777754 455
No 46
>TIGR02736 cbb3_Q_epsi cytochrome c oxidase, cbb3-type, CcoQ subunit, epsilon-Proteobacterial. Members of this protein family are restricted to the epsilon branch of the Proteobacteria. All members are found in operons containing the other three structural subunits of the cbb3 type of cytochrome c oxidase. These small proteins show remote sequence similarity to the CcoQ subunit in other cytochrome c oxidase systems, so this family is assumed to represent the epsilonproteobacterial variant of CcoQ.
Probab=56.78 E-value=9.6 Score=27.27 Aligned_cols=30 Identities=20% Similarity=0.537 Sum_probs=17.4
Q ss_pred HHHHHHHHHh-hhheecccccccccccccccc
Q 028678 168 LMLLPIFYLI-VYLYQREMRGGTQELKRIPRV 198 (205)
Q Consensus 168 l~~l~~fY~~-v~~~~r~~~~~~~~l~r~~~~ 198 (205)
+++++++|.. .-+|+++ |+|..|-.+-++.
T Consensus 9 i~lvv~LYgY~yhLYrse-k~G~rdYEKY~~L 39 (56)
T TIGR02736 9 LLLVIFLYAYIYHLYRSQ-KKGERDYEKYANL 39 (56)
T ss_pred HHHHHHHHHHHHHhhhhh-cccccCHHHHhhh
Confidence 3333444444 4477777 6687877665554
No 47
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=56.55 E-value=6.4 Score=31.14 Aligned_cols=19 Identities=11% Similarity=0.572 Sum_probs=7.5
Q ss_pred HHHHHHHHHHHhhhheecc
Q 028678 166 LTLMLLPIFYLIVYLYQRE 184 (205)
Q Consensus 166 ~~l~~l~~fY~~v~~~~r~ 184 (205)
|++++++||-+|+.++++-
T Consensus 5 ~~iii~~i~l~~~~~~~~~ 23 (130)
T PF12273_consen 5 FAIIIVAILLFLFLFYCHN 23 (130)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3333333443344444443
No 48
>COG1862 YajC Preprotein translocase subunit YajC [Intracellular trafficking and secretion]
Probab=55.69 E-value=5.1 Score=31.25 Aligned_cols=32 Identities=28% Similarity=0.486 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHHHHhhhheecccccccccc
Q 028678 161 LSISILTLMLLPIFYLIVYLYQREMRGGTQEL 192 (205)
Q Consensus 161 ~~~~~~~l~~l~~fY~~v~~~~r~~~~~~~~l 192 (205)
+..++.+++++++||+++|.=||.-.+..|++
T Consensus 9 ~~~ll~~vl~~~ifyFli~RPQrKr~K~~~~m 40 (97)
T COG1862 9 LVLLLPLVLIFAIFYFLIIRPQRKRMKEHQEL 40 (97)
T ss_pred HHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHH
Confidence 34455567777899999998777644444444
No 49
>PF03597 CcoS: Cytochrome oxidase maturation protein cbb3-type; InterPro: IPR004714 Cytochrome cbb3 oxidases are found almost exclusively in Proteobacteria, and represent a distinctive class of proton-pumping respiratory haem-copper oxidases (HCO) that lack many of the key structural features that contribute to the reaction cycle of the intensely studied mitochondrial cytochrome c oxidase (CcO). Expression of cytochrome cbb3 oxidase allows human pathogens to colonise anoxic tissues and agronomically important diazotrophs to sustain nitrogen fixation []. Genes encoding a cytochrome cbb3 oxidase were initially designated fixNOQP (ccoNOQP), the ccoNOQP operon is always found close to a second gene cluster, known as fixGHIS (ccoGHIS) whose expression is necessary for the assembly of a functional cbb3 oxidase. On the basis of their derived amino acid sequences each of the four proteins encoded by the ccoGHIS operon are thought to be membrane-bound. It has been suggested that they may function in concert as a multi-subunit complex, possibly playing a role in the uptake and metabolism of copper required for the assembly of the binuclear centre of cytochrome cbb3 oxidase.
Probab=55.63 E-value=17 Score=24.63 Aligned_cols=27 Identities=11% Similarity=0.288 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhheecc
Q 028678 158 VFYLSISILTLMLLPIFYLIVYLYQRE 184 (205)
Q Consensus 158 ~~y~~~~~~~l~~l~~fY~~v~~~~r~ 184 (205)
++|+++.+-++++++..+.++|-.++|
T Consensus 2 ~l~~lip~sl~l~~~~l~~f~Wavk~G 28 (45)
T PF03597_consen 2 ILYILIPVSLILGLIALAAFLWAVKSG 28 (45)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHHccC
Confidence 456666666677777778888887776
No 50
>PF12669 P12: Virus attachment protein p12 family
Probab=54.70 E-value=6.4 Score=27.78 Aligned_cols=18 Identities=11% Similarity=0.213 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHh-hhheec
Q 028678 166 LTLMLLPIFYLI-VYLYQR 183 (205)
Q Consensus 166 ~~l~~l~~fY~~-v~~~~r 183 (205)
.++|+++++|++ .+++++
T Consensus 5 ~~Ii~~~~~~v~~r~~~k~ 23 (58)
T PF12669_consen 5 GIIILAAVAYVAIRKFIKD 23 (58)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 344555566654 555544
No 51
>PHA02819 hypothetical protein; Provisional
Probab=54.29 E-value=27 Score=26.12 Aligned_cols=21 Identities=33% Similarity=0.626 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHHHHHHhhhh
Q 028678 160 YLSISILTLMLLPIFYLIVYL 180 (205)
Q Consensus 160 y~~~~~~~l~~l~~fY~~v~~ 180 (205)
|++++++++++++++.++.|+
T Consensus 47 ~~~ii~l~~~~~~~~~~flYL 67 (71)
T PHA02819 47 YYLIIGLVTIVFVIIFIIFYL 67 (71)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 444445556666666666664
No 52
>PHA02650 hypothetical protein; Provisional
Probab=53.18 E-value=35 Score=26.12 Aligned_cols=20 Identities=5% Similarity=0.099 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHHHHHHHhhh
Q 028678 160 YLSISILTLMLLPIFYLIVY 179 (205)
Q Consensus 160 y~~~~~~~l~~l~~fY~~v~ 179 (205)
|++++++++++++++.++.|
T Consensus 50 ~~~ii~i~~v~i~~l~~flY 69 (81)
T PHA02650 50 QNFIFLIFSLIIVALFSFFV 69 (81)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 44444455555555555555
No 53
>PF02892 zf-BED: BED zinc finger; InterPro: IPR003656 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 predicted BED-type zinc finger domains. The BED finger which was named after the Drosophila proteins BEAF and DREF, is found in one or more copies in cellular regulatory factors and transposases from plants, animals and fungi. The BED finger is an about 50 to 60 amino acid residues domain that contains a characteristic motif with two highly conserved aromatic positions, as well as a shared pattern of cysteines and histidines that is predicted to form a zinc finger. As diverse BED fingers are able to bind DNA, it has been suggested that DNA-binding is the general function of this domain []. Some proteins known to contain a BED domain include animal, plant and fungi AC1 and Hobo-like transposases; Caenorhabditis elegans Dpy-20 protein, a predicted cuticular gene transcriptional regulator; Drosophila BEAF (boundary element-associated factor), thought to be involved in chromatin insulation; Drosophila DREF, a transcriptional regulator for S-phase genes; and tobacco 3AF1 and tomato E4/E8-BP1, light- and ethylene-regulated DNA binding proteins that contain two BED fingers. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding; PDB: 2DJR_A 2CT5_A.
Probab=53.06 E-value=8.9 Score=24.53 Aligned_cols=28 Identities=29% Similarity=0.681 Sum_probs=19.3
Q ss_pred cCcccccccccccCCch----hhHhhhhhhcc
Q 028678 35 DINEWRCGYCKKSFRAE----KFLDQHFDNRH 62 (205)
Q Consensus 35 ~~h~~rC~~C~K~F~sE----~~LDlHidnrH 62 (205)
.....+|.+|+|.+... .-|-.|+.+.|
T Consensus 13 ~~~~a~C~~C~~~~~~~~~~ts~l~~HL~~~h 44 (45)
T PF02892_consen 13 DKKKAKCKYCGKVIKYSSGGTSNLKRHLKKKH 44 (45)
T ss_dssp CSS-EEETTTTEE-----SSTHHHHHHHHHTT
T ss_pred CcCeEEeCCCCeEEeeCCCcHHHHHHhhhhhC
Confidence 45778999999999876 67888987776
No 54
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=52.65 E-value=7 Score=33.14 Aligned_cols=40 Identities=15% Similarity=0.279 Sum_probs=24.9
Q ss_pred CCCCCCCCCc--cCCchHhhhhhhcCcccccccccccCCchh
Q 028678 13 SKCRLHPDND--MFRDQEQHKIHVDINEWRCGYCKKSFRAEK 52 (205)
Q Consensus 13 ~~C~L~P~~D--~F~~~E~~k~h~~~h~~rC~~C~K~F~sE~ 52 (205)
|.|||..|.| +-.+-..-+-.--.-.-.|..||+.|.|=.
T Consensus 1 M~CPfC~~~~tkViDSR~~edg~aIRRRReC~~C~~RFTTfE 42 (156)
T COG1327 1 MKCPFCGHEDTKVIDSRPAEEGNAIRRRRECLECGERFTTFE 42 (156)
T ss_pred CCCCCCCCCCCeeeecccccccchhhhhhcccccccccchhh
Confidence 7899998876 333322222211223467999999999844
No 55
>PF12575 DUF3753: Protein of unknown function (DUF3753); InterPro: IPR009175 This group represents an uncharacterised conserved protein belonging to poxvirus family I2.
Probab=51.87 E-value=35 Score=25.53 Aligned_cols=21 Identities=19% Similarity=0.458 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHHHHHHHhhhh
Q 028678 160 YLSISILTLMLLPIFYLIVYL 180 (205)
Q Consensus 160 y~~~~~~~l~~l~~fY~~v~~ 180 (205)
|++++.+++++++++..++|+
T Consensus 49 ~~~ii~ii~v~ii~~l~flYL 69 (72)
T PF12575_consen 49 IILIISIIFVLIIVLLTFLYL 69 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHh
Confidence 333333334444444455554
No 56
>PF02009 Rifin_STEVOR: Rifin/stevor family; InterPro: IPR002858 Malaria is still a major cause of mortality in many areas of the world. Plasmodium falciparum causes the most severe human form of the disease and is responsible for most fatalities. Severe cases of malaria can occur when the parasite invades and then proliferates within red blood cell erythrocytes. The parasite produces many variant antigenic proteins, encoded by multigene families, which are present on the surface of the infected erythrocyte and play important roles in virulence. A crucial survival mechanism for the malaria parasite is its ability to evade the immune response by switching these variant surface antigens. The high virulence of P. falciparum relative to other malarial parasites is in large part due to the fact that in this organism many of these surface antigens mediate the binding of infected erythrocytes to the vascular endothelium (cytoadherence) and non-infected erythrocytes (rosetting). This can lead to the accumulation of infected cells in the vasculature of a variety of organs, blocking the blood flow and reducing the oxygen supply. Clinical symptoms of severe infection can include fever, progressive anaemia, multi-organ dysfunction and coma. For more information see []. Several multicopy gene families have been described in Plasmodium falciparum, including the stevor family of subtelomeric open reading frames and the rif interspersed repetitive elements. Both families contain three predicted transmembrane segments. It has been proposed that stevor and rif are members of a larger superfamily that code for variant surface antigens [].
Probab=51.76 E-value=11 Score=34.58 Aligned_cols=8 Identities=50% Similarity=1.020 Sum_probs=5.1
Q ss_pred Cchhhhcc
Q 028678 72 KCLADLCG 79 (205)
Q Consensus 72 ~CLad~C~ 79 (205)
.||--+|.
T Consensus 95 ~CL~Cg~~ 102 (299)
T PF02009_consen 95 GCLKCGCG 102 (299)
T ss_pred hhhhhcCc
Confidence 67766655
No 57
>cd03737 SOCS_SOCS3 SOCS (suppressors of cytokine signaling) box of SOCS3-like proteins. Together with CIS1, the CIS/SOCS family of proteins is characterized by the presence of a C-terminal SOCS box and a central SH2 domain. SOCS3, like CIS1 and SOCS1, is involved in the down-regulation of the JAK/STAT pathway. SOCS3 inhibits JAK activity indirectly through recruitment to the cytokine receptors. SOCS3 has been shown to play an essential role in placental development and a non-essential role in embryo development. The general function of the SOCS box is the recruitment of the ubiquitin-transferase system. The SOCS box interacts with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions.
Probab=51.69 E-value=21 Score=23.90 Aligned_cols=32 Identities=19% Similarity=0.298 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHhhccCCCCCCcch--HHHHHHHH
Q 028678 101 VAKNRHLCESLANRCFPINQGPSA--SRLHELFL 132 (205)
Q Consensus 101 ~~~~r~~Ce~l~~sCFP~~~g~sa--~~L~~~f~ 132 (205)
+..++|+|+..++.+.+..++-.. .+|.+|+.
T Consensus 3 v~SLQHLCR~~In~~~~~~~~~~~LP~~Lk~yL~ 36 (42)
T cd03737 3 VSTLQHLCRKTVNGHLDSYEKRTQLPLPIKEFLD 36 (42)
T ss_pred cccHHHHHHHHHHHhcCcccchhhccHHHHHHHH
Confidence 356899999999999875433211 36888754
No 58
>PHA03054 IMV membrane protein; Provisional
Probab=51.08 E-value=36 Score=25.53 Aligned_cols=21 Identities=29% Similarity=0.641 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHHHHHhhhh
Q 028678 160 YLSISILTLMLLPIFYLIVYL 180 (205)
Q Consensus 160 y~~~~~~~l~~l~~fY~~v~~ 180 (205)
|++++++++++++++.++.|+
T Consensus 49 ~~~ii~l~~v~~~~l~~flYL 69 (72)
T PHA03054 49 YWLIIIFFIVLILLLLIYLYL 69 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 444455556666666666664
No 59
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=51.08 E-value=9.9 Score=22.71 Aligned_cols=21 Identities=24% Similarity=0.711 Sum_probs=18.2
Q ss_pred ccccccccCCchhhHhhhhhhc
Q 028678 40 RCGYCKKSFRAEKFLDQHFDNR 61 (205)
Q Consensus 40 rC~~C~K~F~sE~~LDlHidnr 61 (205)
.|.-|++.+ ++..++.|+|..
T Consensus 3 ~CPiC~~~v-~~~~in~HLD~C 23 (26)
T smart00734 3 QCPVCFREV-PENLINSHLDSC 23 (26)
T ss_pred cCCCCcCcc-cHHHHHHHHHHh
Confidence 588999999 889999999953
No 60
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=50.90 E-value=6.8 Score=32.22 Aligned_cols=27 Identities=26% Similarity=0.520 Sum_probs=24.1
Q ss_pred cCcccccccccccCCchhhHhhhhhhc
Q 028678 35 DINEWRCGYCKKSFRAEKFLDQHFDNR 61 (205)
Q Consensus 35 ~~h~~rC~~C~K~F~sE~~LDlHidnr 61 (205)
...++.|.+|-+.|-++.-|+.|+...
T Consensus 54 G~GqfyCi~CaRyFi~~~~l~~H~ktK 80 (129)
T KOG3408|consen 54 GGGQFYCIECARYFIDAKALKTHFKTK 80 (129)
T ss_pred CCceeehhhhhhhhcchHHHHHHHhcc
Confidence 448999999999999999999999743
No 61
>PF05545 FixQ: Cbb3-type cytochrome oxidase component FixQ; InterPro: IPR008621 This family consists of several Cbb3-type cytochrome oxidase components (FixQ/CcoQ). FixQ is found in nitrogen fixing bacteria. Since nitrogen fixation is an energy-consuming process, effective symbioses depend on operation of a respiratory chain with a high affinity for O2, closely coupled to ATP production. This requirement is fulfilled by a special three-subunit terminal oxidase (cytochrome terminal oxidase cbb3), which was first identified in Bradyrhizobium japonicum as the product of the fixNOQP operon [].
Probab=50.67 E-value=22 Score=23.71 Aligned_cols=22 Identities=18% Similarity=0.458 Sum_probs=10.9
Q ss_pred HHHHHHHHHHHH-hhhheecccc
Q 028678 165 ILTLMLLPIFYL-IVYLYQREMR 186 (205)
Q Consensus 165 ~~~l~~l~~fY~-~v~~~~r~~~ 186 (205)
+.+++++++|+. ++|.|.++-|
T Consensus 13 ~~~v~~~~~F~gi~~w~~~~~~k 35 (49)
T PF05545_consen 13 IGTVLFFVFFIGIVIWAYRPRNK 35 (49)
T ss_pred HHHHHHHHHHHHHHHHHHcccch
Confidence 344444455544 4556655533
No 62
>PHA02768 hypothetical protein; Provisional
Probab=50.50 E-value=7.6 Score=27.53 Aligned_cols=37 Identities=11% Similarity=0.326 Sum_probs=28.9
Q ss_pred CCCCCCCCCccCCchHhhhhhhcCcc--cccccccccCCch
Q 028678 13 SKCRLHPDNDMFRDQEQHKIHVDINE--WRCGYCKKSFRAE 51 (205)
Q Consensus 13 ~~C~L~P~~D~F~~~E~~k~h~~~h~--~rC~~C~K~F~sE 51 (205)
..|+-- ...|..-+.+..|..+|+ .+|..|+|.|..-
T Consensus 6 y~C~~C--GK~Fs~~~~L~~H~r~H~k~~kc~~C~k~f~~~ 44 (55)
T PHA02768 6 YECPIC--GEIYIKRKSMITHLRKHNTNLKLSNCKRISLRT 44 (55)
T ss_pred cCcchh--CCeeccHHHHHHHHHhcCCcccCCcccceeccc
Confidence 355533 468999999999996665 8999999999843
No 63
>PHA02844 putative transmembrane protein; Provisional
Probab=49.86 E-value=34 Score=25.86 Aligned_cols=21 Identities=19% Similarity=0.450 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHHHHHHHhhhh
Q 028678 160 YLSISILTLMLLPIFYLIVYL 180 (205)
Q Consensus 160 y~~~~~~~l~~l~~fY~~v~~ 180 (205)
+++++++++++++++.+++|+
T Consensus 49 ~~~ii~i~~v~~~~~~~flYL 69 (75)
T PHA02844 49 KIWILTIIFVVFATFLTFLYL 69 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 333344555555555555554
No 64
>TIGR00847 ccoS cytochrome oxidase maturation protein, cbb3-type. CcoS from Rhodobacter capsulatus has been shown essential for incorporation of redox-active prosthetic groups (heme, Cu) into cytochrome cbb(3) oxidase. FixS of Bradyrhizobium japonicum appears to have the same function. Members of this family are found so far in organisms with a cbb3-type cytochrome oxidase, including Neisseria meningitidis, Helicobacter pylori, Campylobacter jejuni, Caulobacter crescentus, Bradyrhizobium japonicum, and Rhodobacter capsulatus.
Probab=49.24 E-value=27 Score=24.34 Aligned_cols=27 Identities=11% Similarity=0.071 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhheecc
Q 028678 158 VFYLSISILTLMLLPIFYLIVYLYQRE 184 (205)
Q Consensus 158 ~~y~~~~~~~l~~l~~fY~~v~~~~r~ 184 (205)
++|+++.+-++++++..+.++|-.++|
T Consensus 3 il~~LIpiSl~l~~~~l~~f~Wavk~G 29 (51)
T TIGR00847 3 ILTILIPISLLLGGVGLVAFLWSLKSG 29 (51)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHccC
Confidence 567777777777777778888887766
No 65
>PF04780 DUF629: Protein of unknown function (DUF629); InterPro: IPR006865 This domain represents a region of several plant proteins of unknown function. A C2H2 zinc finger is predicted in this region in some family members, but the spacing between the cysteine residues is not conserved throughout the family.
Probab=49.21 E-value=8.7 Score=37.51 Aligned_cols=32 Identities=25% Similarity=0.476 Sum_probs=28.3
Q ss_pred cccccccccccCCchhhHhhhhhhcccccccC
Q 028678 37 NEWRCGYCKKSFRAEKFLDQHFDNRHNNLLNV 68 (205)
Q Consensus 37 h~~rC~~C~K~F~sE~~LDlHidnrH~~ll~~ 68 (205)
--|.|..|.|.|.+..-+-.||++.|..-+.+
T Consensus 56 rFWiCp~CskkF~d~~~~~~H~~~eH~~~l~P 87 (466)
T PF04780_consen 56 RFWICPRCSKKFSDAESCLSHMEQEHPAGLKP 87 (466)
T ss_pred eEeeCCcccceeCCHHHHHHHHHHhhhhhcCh
Confidence 46899999999999999999999999976544
No 66
>PF04995 CcmD: Heme exporter protein D (CcmD); InterPro: IPR007078 The CcmD protein is part of a C-type cytochrome biogenesis operon []. The exact function of this protein is uncertain. It has been proposed that CcmC, CcmD and CcmE interact directly with each other, establishing a cytoplasm to periplasm haem delivery pathway for cytochrome c maturation []. This protein is found fused to CcmE in P52224 from SWISSPROT. These proteins contain a predicted transmembrane helix.; GO: 0006810 transport, 0016021 integral to membrane
Probab=49.13 E-value=8.2 Score=25.72 Aligned_cols=39 Identities=28% Similarity=0.273 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHHHHHhhhheecccccccccccccccccc
Q 028678 161 LSISILTLMLLPIFYLIVYLYQREMRGGTQELKRIPRVGR 200 (205)
Q Consensus 161 ~~~~~~~l~~l~~fY~~v~~~~r~~~~~~~~l~r~~~~~~ 200 (205)
|+.+...+.++++..++++.+.+. |+..++|+|....++
T Consensus 6 yVW~sYg~t~~~l~~l~~~~~~~~-r~~~~~l~~~~~r~~ 44 (46)
T PF04995_consen 6 YVWSSYGVTALVLAGLIVWSLRRR-RRLRKELKRLEAREQ 44 (46)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHhHc
Confidence 344445566666667777777666 667788887665554
No 67
>PF04024 PspC: PspC domain; InterPro: IPR007168 This domain is found in Phage shock protein C (PspC) that is thought to be a transcriptional regulator. The presumed domain is 60 amino acid residues in length.
Probab=48.96 E-value=21 Score=25.27 Aligned_cols=28 Identities=18% Similarity=0.368 Sum_probs=18.0
Q ss_pred ccHHHHHHHHHHHHHHHHHHHhhhheecc
Q 028678 156 PSVFYLSISILTLMLLPIFYLIVYLYQRE 184 (205)
Q Consensus 156 ~~~~y~~~~~~~l~~l~~fY~~v~~~~r~ 184 (205)
..+.++++++++.. .++.|+++|+.-.+
T Consensus 31 vRl~~v~l~~~~~~-~~l~Y~~~w~~lP~ 58 (61)
T PF04024_consen 31 VRLIFVVLTFFTGG-GILLYLILWLLLPK 58 (61)
T ss_pred HHHHHHHHHHHHhH-HHHHHHHHHHHcCC
Confidence 34445555555444 78999999986543
No 68
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=48.13 E-value=7.3 Score=32.55 Aligned_cols=43 Identities=16% Similarity=0.268 Sum_probs=26.7
Q ss_pred CCCCCCCCCc-cCCchHhhhh--hhcCcccccccccccCCchhhHhh
Q 028678 13 SKCRLHPDND-MFRDQEQHKI--HVDINEWRCGYCKKSFRAEKFLDQ 56 (205)
Q Consensus 13 ~~C~L~P~~D-~F~~~E~~k~--h~~~h~~rC~~C~K~F~sE~~LDl 56 (205)
|.||+.-+.| --.+-..+.. ++..+ .+|..||+.|.+=.-+..
T Consensus 1 m~cp~c~~~~~~~~~s~~~~~~~~~~~~-~~c~~c~~~f~~~e~~~~ 46 (154)
T PRK00464 1 MRCPFCGHPDTRVIDSRPAEDGNAIRRR-RECLACGKRFTTFERVEL 46 (154)
T ss_pred CcCCCCCCCCCEeEeccccCCCCceeee-eeccccCCcceEeEeccC
Confidence 6788887655 2223333333 45444 899999999977544443
No 69
>PRK06531 yajC preprotein translocase subunit YajC; Validated
Probab=46.57 E-value=7.7 Score=31.01 Aligned_cols=33 Identities=12% Similarity=0.227 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHhhhheeccccccccccccccccc
Q 028678 166 LTLMLLPIFYLIVYLYQREMRGGTQELKRIPRVG 199 (205)
Q Consensus 166 ~~l~~l~~fY~~v~~~~r~~~~~~~~l~r~~~~~ 199 (205)
++++++++||+ ++.=|+.-.+..+++..--+.|
T Consensus 8 ~~vv~~~i~yf-~iRPQkKr~Ke~~em~~sLk~G 40 (113)
T PRK06531 8 MFVVMLGLIFF-MQRQQKKQAQERQNQLNAIQKG 40 (113)
T ss_pred HHHHHHHHHHh-eechHHHHHHHHHHHHHhcCCC
Confidence 33445556664 3433333222334444433433
No 70
>PHA02975 hypothetical protein; Provisional
Probab=46.11 E-value=43 Score=24.92 Aligned_cols=21 Identities=14% Similarity=0.354 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHHHHHHhhhh
Q 028678 160 YLSISILTLMLLPIFYLIVYL 180 (205)
Q Consensus 160 y~~~~~~~l~~l~~fY~~v~~ 180 (205)
+++++++++++++++.+++|+
T Consensus 45 ~~~ii~i~~v~~~~~~~flYL 65 (69)
T PHA02975 45 IILIIFIIFITCIAVFTFLYL 65 (69)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 333444445555555555554
No 71
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=45.91 E-value=7.1 Score=38.11 Aligned_cols=30 Identities=27% Similarity=0.546 Sum_probs=26.0
Q ss_pred cccccccccccCCchhhHhhhhhhcccccc
Q 028678 37 NEWRCGYCKKSFRAEKFLDQHFDNRHNNLL 66 (205)
Q Consensus 37 h~~rC~~C~K~F~sE~~LDlHidnrH~~ll 66 (205)
.-+-|.+|+|.|+...||-+|.-..|....
T Consensus 355 gi~~C~~C~KkFrRqAYLrKHqlthq~~~~ 384 (500)
T KOG3993|consen 355 GIFSCHTCGKKFRRQAYLRKHQLTHQRAPL 384 (500)
T ss_pred ceeecHHhhhhhHHHHHHHHhHHhhhcccc
Confidence 468899999999999999999888887543
No 72
>PF06796 NapE: Periplasmic nitrate reductase protein NapE; InterPro: IPR010649 This family consists of several bacterial periplasmic nitrate reductase NapE proteins. Seven genes, napKEFDABC, encoding the periplasmic nitrate reductase system were cloned from the denitrifying phototrophic bacterium Rhodobacter sphaeroides. NapE is thought to be a transmembrane protein [].
Probab=45.79 E-value=27 Score=24.93 Aligned_cols=19 Identities=32% Similarity=0.578 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHhhhheec
Q 028678 165 ILTLMLLPIFYLIVYLYQR 183 (205)
Q Consensus 165 ~~~l~~l~~fY~~v~~~~r 183 (205)
++.++++..|-++||++|=
T Consensus 31 iL~v~~Vg~YGF~VWm~Q~ 49 (56)
T PF06796_consen 31 ILAVAFVGGYGFIVWMYQI 49 (56)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3455666789999999874
No 73
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=45.05 E-value=14 Score=38.73 Aligned_cols=48 Identities=17% Similarity=0.355 Sum_probs=39.0
Q ss_pred cCCchHhhhhhhcCcc----cccccccccCCchhhHhhhhhhcccccccCCc
Q 028678 23 MFRDQEQHKIHVDINE----WRCGYCKKSFRAEKFLDQHFDNRHNNLLNVSH 70 (205)
Q Consensus 23 ~F~~~E~~k~h~~~h~----~rC~~C~K~F~sE~~LDlHidnrH~~ll~~~~ 70 (205)
-|.+.-++++|.++|. +.|.+|++.|-+.--|..||...|-.--..+|
T Consensus 888 ~FsSSsALqiH~rTHtg~KPF~C~fC~~aFttrgnLKvHMgtH~w~q~~srr 939 (958)
T KOG1074|consen 888 QFSSSAALEIHMRTHTGPKPFFCHFCEEAFTTRGNLKVHMGTHMWVQPPSRR 939 (958)
T ss_pred cccchHHHHHhhhcCCCCCCccchhhhhhhhhhhhhhhhhccccccCCCccC
Confidence 6999999999997754 89999999999999999999955544333333
No 74
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=44.85 E-value=11 Score=25.16 Aligned_cols=28 Identities=25% Similarity=0.610 Sum_probs=23.0
Q ss_pred cccccccccccCCch-----hhHhhhhhhcccc
Q 028678 37 NEWRCGYCKKSFRAE-----KFLDQHFDNRHNN 64 (205)
Q Consensus 37 h~~rC~~C~K~F~sE-----~~LDlHidnrH~~ 64 (205)
..-.|.+|+|.+... ..|-.|+.++|..
T Consensus 17 ~~a~C~~C~~~l~~~~~~gTs~L~rHl~~~h~~ 49 (50)
T smart00614 17 QRAKCKYCGKKLSRSSKGGTSNLRRHLRRKHPA 49 (50)
T ss_pred eEEEecCCCCEeeeCCCCCcHHHHHHHHhHCcC
Confidence 356899999999776 4899999988753
No 75
>PHA02291 hypothetical protein
Probab=43.63 E-value=25 Score=28.64 Aligned_cols=30 Identities=20% Similarity=0.662 Sum_probs=22.7
Q ss_pred CccHHHHHHHHHHHHHHHHHHHhhhheecc
Q 028678 155 QPSVFYLSISILTLMLLPIFYLIVYLYQRE 184 (205)
Q Consensus 155 ~~~~~y~~~~~~~l~~l~~fY~~v~~~~r~ 184 (205)
+.++||+++.|+++..+..||.--++|-..
T Consensus 4 K~~iFYiL~~~VL~~si~sY~~sS~~Y~~~ 33 (132)
T PHA02291 4 KASIFYILVVIVLAFSISSYYISSFMYHDK 33 (132)
T ss_pred chhhHHHHHHHHHHHHHHHHhhheeeeecc
Confidence 344889999888888888888777766543
No 76
>PF05443 ROS_MUCR: ROS/MUCR transcriptional regulator protein; InterPro: IPR008807 This family consists of several ROS/MUCR transcriptional regulator proteins. The ros chromosomal gene is present in octopine and nopaline strains of Agrobacterium tumefaciens as well as in Rhizobium meliloti (Sinorhizobium meliloti). This gene encodes a 15.5 kDa protein that specifically represses the virC and virD operons in the virulence region of the Ti plasmid [] and is necessary for succinoglycan production []. S. meliloti can produce two types of acidic exopolysaccharides, succinoglycan and galactoglucan, that are interchangeable for infection of Medicago sativa (Alfalfa) nodules. MucR from S. meliloti acts as a transcriptional repressor that blocks the expression of the exp genes responsible for galactoglucan production therefore allowing the exclusive production of succinoglycan [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2JSP_A.
Probab=42.58 E-value=11 Score=30.84 Aligned_cols=28 Identities=25% Similarity=0.539 Sum_probs=17.5
Q ss_pred hhcCcccccccccccCCchhhHhhhhhhccc
Q 028678 33 HVDINEWRCGYCKKSFRAEKFLDQHFDNRHN 63 (205)
Q Consensus 33 h~~~h~~rC~~C~K~F~sE~~LDlHidnrH~ 63 (205)
-++...-.|.+|||.|.+ |..|+..+|+
T Consensus 67 SI~~d~i~clecGk~~k~---LkrHL~~~~g 94 (132)
T PF05443_consen 67 SITPDYIICLECGKKFKT---LKRHLRTHHG 94 (132)
T ss_dssp TB-SS-EE-TBT--EESB---HHHHHHHTT-
T ss_pred ccccCeeEEccCCcccch---HHHHHHHccC
Confidence 345677899999999976 5888888876
No 77
>PF15102 TMEM154: TMEM154 protein family
Probab=40.58 E-value=13 Score=31.26 Aligned_cols=27 Identities=19% Similarity=0.456 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhheecc
Q 028678 158 VFYLSISILTLMLLPIFYLIVYLYQRE 184 (205)
Q Consensus 158 ~~y~~~~~~~l~~l~~fY~~v~~~~r~ 184 (205)
++++++-+++|++|+|+-.++..+.|.
T Consensus 58 iLmIlIP~VLLvlLLl~vV~lv~~~kR 84 (146)
T PF15102_consen 58 ILMILIPLVLLVLLLLSVVCLVIYYKR 84 (146)
T ss_pred EEEEeHHHHHHHHHHHHHHHheeEEee
Confidence 555555545555555555555555544
No 78
>PLN03086 PRLI-interacting factor K; Provisional
Probab=40.56 E-value=18 Score=36.16 Aligned_cols=24 Identities=21% Similarity=0.576 Sum_probs=20.6
Q ss_pred cccccccccCCchhhHhhhhhhccc
Q 028678 39 WRCGYCKKSFRAEKFLDQHFDNRHN 63 (205)
Q Consensus 39 ~rC~~C~K~F~sE~~LDlHidnrH~ 63 (205)
|.|.+||+.|+ ...|..|+...|.
T Consensus 454 ~~C~~Cgk~f~-~s~LekH~~~~Hk 477 (567)
T PLN03086 454 VHCEKCGQAFQ-QGEMEKHMKVFHE 477 (567)
T ss_pred ccCCCCCCccc-hHHHHHHHHhcCC
Confidence 69999999997 5668999999873
No 79
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=40.05 E-value=10 Score=34.06 Aligned_cols=40 Identities=28% Similarity=0.595 Sum_probs=20.9
Q ss_pred CCchHhhhhhhcCc----ccccccccccCCchhhHhhhhhhccc
Q 028678 24 FRDQEQHKIHVDIN----EWRCGYCKKSFRAEKFLDQHFDNRHN 63 (205)
Q Consensus 24 F~~~E~~k~h~~~h----~~rC~~C~K~F~sE~~LDlHidnrH~ 63 (205)
|.+-=+.|.|.++| -++|..|+|.|...--|.-|...-|.
T Consensus 155 fndtfdlkrh~rthtgvrpykc~~c~kaftqrcsleshl~kvhg 198 (267)
T KOG3576|consen 155 FNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHLKKVHG 198 (267)
T ss_pred ccchhhhhhhhccccCccccchhhhhHHHHhhccHHHHHHHHcC
Confidence 33333444444333 35566666666666666666655554
No 80
>TIGR02972 TMAO_torE trimethylamine N-oxide reductase system, TorE protein. Members of this small, apparent transmembrane protein are designated TorE and occur in operons for the trimethylamine N-oxide (TMAO) reductase system. Members are closely related to the NapE protein of the related periplasmic nitrate reductase system. It may be that TorE is an integral membrane subunit of a complex with the reductase TorA.
Probab=39.49 E-value=40 Score=23.32 Aligned_cols=18 Identities=22% Similarity=0.408 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHhhhhee
Q 028678 165 ILTLMLLPIFYLIVYLYQ 182 (205)
Q Consensus 165 ~~~l~~l~~fY~~v~~~~ 182 (205)
++.++++..|-++||++|
T Consensus 23 iLsV~~Vg~YGF~vWm~Q 40 (47)
T TIGR02972 23 ILSVAGIGGYGFIIWMIQ 40 (47)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 345566678999999988
No 81
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=39.48 E-value=8 Score=37.17 Aligned_cols=46 Identities=28% Similarity=0.603 Sum_probs=36.2
Q ss_pred CCCCCCCCccCCchHhhhhhh------cCcccccccccccCCchhhHhhhhhhc
Q 028678 14 KCRLHPDNDMFRDQEQHKIHV------DINEWRCGYCKKSFRAEKFLDQHFDNR 61 (205)
Q Consensus 14 ~C~L~P~~D~F~~~E~~k~h~------~~h~~rC~~C~K~F~sE~~LDlHidnr 61 (205)
.||+- -.+|+.-..+=.|. .++-++|..|.|.|-+|+.|-.|+-+.
T Consensus 209 ACp~C--g~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rH 260 (467)
T KOG3608|consen 209 ACPHC--GELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRH 260 (467)
T ss_pred ecchH--HHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHh
Confidence 45543 35787777777776 347789999999999999999999765
No 82
>TIGR02978 phageshock_pspC phage shock protein C. All members of this protein family are the phage shock protein PspC. These proteins contain a PspC domain, as do other members of the larger family of proteins described by Pfam model pfam04024. The phage shock regulon is restricted to the Proteobacteria and somewhat sparsely distributed there. It is expressed, under positive control of a sigma-54-dependent transcription factor, PspF, which binds and is modulated by PspA. Stresses that induce the psp regulon include phage secretin overexpression, ethanol, heat shock, and protein export defects.
Probab=39.07 E-value=32 Score=27.71 Aligned_cols=27 Identities=11% Similarity=0.275 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHH-HHHHHHHhhhheecc
Q 028678 158 VFYLSISILTLM-LLPIFYLIVYLYQRE 184 (205)
Q Consensus 158 ~~y~~~~~~~l~-~l~~fY~~v~~~~r~ 184 (205)
++++++++++.. ++++.|+++|++--.
T Consensus 33 l~~vl~~~~~~~~~~ll~Y~i~w~~lp~ 60 (121)
T TIGR02978 33 ILVVSALLFGGGFFVLVAYIALWLLLDK 60 (121)
T ss_pred HHHHHHHHHHhhhHHHHHHHHHHHHHhc
Confidence 444444444332 234569999987654
No 83
>TIGR02973 nitrate_rd_NapE periplasmic nitrate reductase, NapE protein. NapE, homologous to TorE (TIGR02972), is a membrane protein of unknown function that is part of the periplasmic nitrate reductase system; it may be part of the enzyme complex. The periplasmic nitrate reductase allows for nitrate respiration in anaerobic conditions.
Probab=38.91 E-value=43 Score=22.68 Aligned_cols=18 Identities=22% Similarity=0.563 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHhhhhee
Q 028678 165 ILTLMLLPIFYLIVYLYQ 182 (205)
Q Consensus 165 ~~~l~~l~~fY~~v~~~~ 182 (205)
+++++++..|-++||++|
T Consensus 18 iLsV~~V~~YGF~vWm~Q 35 (42)
T TIGR02973 18 VLSVITVGGYGFAVWMYQ 35 (42)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 455666778999999998
No 84
>PHA03099 epidermal growth factor-like protein (EGF-like protein); Provisional
Probab=38.48 E-value=43 Score=27.92 Aligned_cols=39 Identities=18% Similarity=0.380 Sum_probs=24.1
Q ss_pred CCccHHHHH----HHHHHHHHHHHHHHhhhheecccccccccc
Q 028678 154 KQPSVFYLS----ISILTLMLLPIFYLIVYLYQREMRGGTQEL 192 (205)
Q Consensus 154 ~~~~~~y~~----~~~~~l~~l~~fY~~v~~~~r~~~~~~~~l 192 (205)
..+..-|++ +++++++++..+-+++|-|-|..+.--||.
T Consensus 94 ~n~~t~Yia~~~il~il~~i~is~~~~~~yr~~r~~~~~~~~~ 136 (139)
T PHA03099 94 PNTTTSYIPSPGIVLVLVGIIITCCLLSVYRFTRRTKLPLQDM 136 (139)
T ss_pred ccchhhhhhhhHHHHHHHHHHHHHHHHhhheeeecccCchhhc
Confidence 344444666 555555556666677777777766666664
No 85
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=38.21 E-value=35 Score=27.64 Aligned_cols=18 Identities=22% Similarity=0.263 Sum_probs=7.4
Q ss_pred HHHHHHHHHHHHHHHHHh
Q 028678 160 YLSISILTLMLLPIFYLI 177 (205)
Q Consensus 160 y~~~~~~~l~~l~~fY~~ 177 (205)
+-+++.+++++|+|+|++
T Consensus 71 ~gv~aGvIg~Illi~y~i 88 (122)
T PF01102_consen 71 FGVMAGVIGIILLISYCI 88 (122)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333333444444444443
No 86
>PF00957 Synaptobrevin: Synaptobrevin; InterPro: IPR001388 Synaptobrevin is an intrinsic membrane protein of small synaptic vesicles [], specialised secretory organelles of neurons that actively accumulate neurotransmitters and participate in their calcium-dependent release by exocytosis. Vesicle function is mediated by proteins in their membranes, although the precise nature of the protein-protein interactions underlying this are still uncertain []. Synaptobrevin may play a role in the molecular events underlying neurotransmitter release and vesicle recycling and may be involved in the regulation of membrane flow in the nerve terminal, a process mediated by interaction with low molecular weight GTP-binding proteins []. Synaptic vesicle-associated membrane proteins (VAMPs) from Torpedo californica (Pacific electric ray) and SNC1 from yeast are related to synaptobrevin.; GO: 0016192 vesicle-mediated transport, 0016021 integral to membrane; PDB: 3EGX_C 2NUP_C 3EGD_C 2NUT_C 1IOU_A 1H8M_A 3B5N_A 3ZYM_A 2NPS_A 1SFC_E ....
Probab=38.06 E-value=41 Score=24.56 Aligned_cols=18 Identities=17% Similarity=0.501 Sum_probs=8.0
Q ss_pred HHHHHHHHHHHHHHhhhh
Q 028678 163 ISILTLMLLPIFYLIVYL 180 (205)
Q Consensus 163 ~~~~~l~~l~~fY~~v~~ 180 (205)
.+++++++++++|++++.
T Consensus 69 ~~i~~~iv~~~~~~i~~~ 86 (89)
T PF00957_consen 69 YIIIIIIVIIIILIIIIV 86 (89)
T ss_dssp HHHHHHHHHHHHHHHHHT
T ss_pred HHhHHhhhhhhhhHHHHH
Confidence 333444444444444443
No 87
>PF14004 DUF4227: Protein of unknown function (DUF4227)
Probab=37.71 E-value=38 Score=25.10 Aligned_cols=21 Identities=19% Similarity=0.301 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHHhhhhe
Q 028678 161 LSISILTLMLLPIFYLIVYLY 181 (205)
Q Consensus 161 ~~~~~~~l~~l~~fY~~v~~~ 181 (205)
.++++|+...++.||.++|+-
T Consensus 8 k~~~LF~~~T~lfYy~~~w~~ 28 (71)
T PF14004_consen 8 KFFLLFTGCTLLFYYAILWVS 28 (71)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 345667777777888898863
No 88
>PF00558 Vpu: Vpu protein; InterPro: IPR008187 The Human immunodeficiency virus 1 (HIV-1) Vpu protein acts in the degradation of CD4 in the endoplasmic reticulum and in the enhancement of virion release from the plasma membrane of infected cells [].; GO: 0019076 release of virus from host; PDB: 2JPX_A 1PI8_A 2GOH_A 2GOF_A 1PI7_A 1PJE_A 1VPU_A 2K7Y_A.
Probab=37.60 E-value=30 Score=26.34 Aligned_cols=38 Identities=21% Similarity=0.417 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHHHhhhheecccccc---ccccccccc
Q 028678 160 YLSISILTLMLLPIFYLIVYLYQREMRGG---TQELKRIPR 197 (205)
Q Consensus 160 y~~~~~~~l~~l~~fY~~v~~~~r~~~~~---~~~l~r~~~ 197 (205)
-++++++++++.++.+.+||...|..++. -+-++||+.
T Consensus 8 ~iialiv~~iiaIvvW~iv~ieYrk~~rqrkId~li~RIre 48 (81)
T PF00558_consen 8 AIIALIVALIIAIVVWTIVYIEYRKIKRQRKIDRLIERIRE 48 (81)
T ss_dssp HHHHHHHHHHHHHHHHHHH------------CHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHc
Confidence 34455555555667777777555554433 233444443
No 89
>PF04246 RseC_MucC: Positive regulator of sigma(E), RseC/MucC; InterPro: IPR007359 This bacterial family of integral membrane proteins represents a positive regulator of the sigma(E) transcription factor, namely RseC/MucC. The sigma(E) transcription factor is up-regulated by cell envelope protein misfolding, and regulates the expression of genes that are collectively termed ECF (devoted to Extra-Cellular Functions) []. In Pseudomonas aeruginosa, derepression of sigma(E) is associated with the alginate-overproducing phenotype characteristic of chronic respiratory tract colonization in cystic fibrosis patients. The mechanism by which RseC/MucC positively regulates the sigma(E) transcription factor is unknown. RseC is also thought to have a role in thiamine biosynthesis in Salmonella typhimurium []. In addition, this family also includes an N-terminal part of RnfF, a Rhodobacter capsulatus protein, of unknown function, that is essential for nitrogen fixation. This protein also contains a domain found in ApbE protein IPR003374 from INTERPRO, which is itself involved in thiamine biosynthesis.
Probab=37.25 E-value=33 Score=27.01 Aligned_cols=22 Identities=27% Similarity=0.535 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHhhhheecccc
Q 028678 165 ILTLMLLPIFYLIVYLYQREMR 186 (205)
Q Consensus 165 ~~~l~~l~~fY~~v~~~~r~~~ 186 (205)
++.++++++.|++++++.|..+
T Consensus 101 l~~l~~l~~~~~~~~~~~~~~~ 122 (135)
T PF04246_consen 101 LGGLLGLALGFLILRLFDRRLK 122 (135)
T ss_pred HHHHHHHHHHHHHHHHHHhhhc
Confidence 3445566778888888877755
No 90
>PF12907 zf-met2: Zinc-binding
Probab=37.14 E-value=18 Score=24.11 Aligned_cols=25 Identities=32% Similarity=0.752 Sum_probs=20.5
Q ss_pred ccccccccC---CchhhHhhhhhhcccc
Q 028678 40 RCGYCKKSF---RAEKFLDQHFDNRHNN 64 (205)
Q Consensus 40 rC~~C~K~F---~sE~~LDlHidnrH~~ 64 (205)
.|..|.-.| .++.-|..|.||.|.-
T Consensus 3 ~C~iC~qtF~~t~~~~~L~eH~enKHpK 30 (40)
T PF12907_consen 3 ICKICRQTFMQTTNEPQLKEHAENKHPK 30 (40)
T ss_pred CcHHhhHHHHhcCCHHHHHHHHHccCCC
Confidence 688888544 6778999999999985
No 91
>TIGR00244 transcriptional regulator NrdR. Members of this almost entirely bacterial family contain an ATP cone domain (PFAM:PF03477). There is never more than one member per genome. Common gene symbols given include nrdR, ybaD, ribX and ytcG. The member from Streptomyces coelicolor is found upstream in the operon of the class II oxygen-independent ribonucleotide reductase gene nrdJ and was shown to repress nrdJ expression. Many members of this family are found near genes for riboflavin biosynthesis in Gram-negative bacteria, suggesting a role in that pathway. However, a phylogenetic profiling study associates members of this family with the presence of a palindromic signal with consensus acaCwAtATaTwGtgt, termed the NrdR-box, an upstream element for most operons for ribonucleotide reductase of all three classes in bacterial genomes.
Probab=36.78 E-value=16 Score=30.72 Aligned_cols=42 Identities=10% Similarity=0.183 Sum_probs=24.5
Q ss_pred CCCCCCCCCc--cCCchHhhhhhhcCcccccccccccCCchhhH
Q 028678 13 SKCRLHPDND--MFRDQEQHKIHVDINEWRCGYCKKSFRAEKFL 54 (205)
Q Consensus 13 ~~C~L~P~~D--~F~~~E~~k~h~~~h~~rC~~C~K~F~sE~~L 54 (205)
|.||+..+.| +-.+-..-+-..---.-.|..||+.|.|-.-+
T Consensus 1 M~CP~C~~~dtkViDSR~~~dg~~IRRRReC~~C~~RFTTyErv 44 (147)
T TIGR00244 1 MHCPFCQHHNTRVLDSRLVEDGQSIRRRRECLECHERFTTFERA 44 (147)
T ss_pred CCCCCCCCCCCEeeeccccCCCCeeeecccCCccCCccceeeec
Confidence 7899887755 33222211111112346799999999986544
No 92
>PF05337 CSF-1: Macrophage colony stimulating factor-1 (CSF-1); InterPro: IPR008001 Colony stimulating factor 1 (CSF-1) is a homodimeric polypeptide growth factor whose primary function is to regulate the survival, proliferation, differentiation, and function of cells of the mononuclear phagocytic lineage. This lineage includes mononuclear phagocytic precursors, blood monocytes, tissue macrophages, osteoclasts, and microglia of the brain, all of which possess cell surface receptors for CSF-1. The protein has also been linked with male fertility [] and mutations in the Csf-1 gene have been found to cause osteopetrosis and failure of tooth eruption [].; GO: 0005125 cytokine activity, 0008083 growth factor activity, 0016021 integral to membrane; PDB: 3EJJ_A.
Probab=36.47 E-value=12 Score=34.55 Aligned_cols=31 Identities=32% Similarity=0.473 Sum_probs=0.0
Q ss_pred ccHHHHHHHHHHHHHHHHHHHhhhheecccc
Q 028678 156 PSVFYLSISILTLMLLPIFYLIVYLYQREMR 186 (205)
Q Consensus 156 ~~~~y~~~~~~~l~~l~~fY~~v~~~~r~~~ 186 (205)
..+||+++--+++|+|++=-|..|.|+|..+
T Consensus 225 ~~vf~lLVPSiILVLLaVGGLLfYr~rrRs~ 255 (285)
T PF05337_consen 225 GFVFYLLVPSIILVLLAVGGLLFYRRRRRSH 255 (285)
T ss_dssp -------------------------------
T ss_pred cccccccccchhhhhhhccceeeeccccccc
Confidence 4688999999999999999999888888544
No 93
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=35.33 E-value=18 Score=34.84 Aligned_cols=49 Identities=22% Similarity=0.387 Sum_probs=36.6
Q ss_pred cccccccccCCchhhHhhhhhhccc-----ccccCCcc------------------Cchhhhcccccccccc
Q 028678 39 WRCGYCKKSFRAEKFLDQHFDNRHN-----NLLNVSHG------------------KCLADLCGALHCDFVM 87 (205)
Q Consensus 39 ~rC~~C~K~F~sE~~LDlHidnrH~-----~ll~~~~~------------------~CLad~C~~L~Cd~~~ 87 (205)
..|.+|.+.||++.-|-.|+.++|. +.++...- .|-+..|-.-.|-++.
T Consensus 221 P~C~FC~~~FYdDDEL~~HcR~~HE~ChICD~v~p~~~QYFK~Y~~Le~HF~~~hy~ct~qtc~~~k~~vf~ 292 (493)
T COG5236 221 PLCIFCKIYFYDDDELRRHCRLRHEACHICDMVGPIRYQYFKSYEDLEAHFRNAHYCCTFQTCRVGKCYVFP 292 (493)
T ss_pred chhhhccceecChHHHHHHHHhhhhhhhhhhccCccchhhhhCHHHHHHHhhcCceEEEEEEEecCcEEEec
Confidence 5799999999999999999999997 33332211 6667777666676653
No 94
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=35.26 E-value=15 Score=33.05 Aligned_cols=28 Identities=25% Similarity=0.769 Sum_probs=23.5
Q ss_pred cccccccccccCCchhhHhhhhhhccccc
Q 028678 37 NEWRCGYCKKSFRAEKFLDQHFDNRHNNL 65 (205)
Q Consensus 37 h~~rC~~C~K~F~sE~~LDlHidnrH~~l 65 (205)
..+.|..|||.|.-.+.|+.||. .|.++
T Consensus 116 d~ftCrvCgK~F~lQRmlnrh~k-ch~~v 143 (267)
T KOG3576|consen 116 DSFTCRVCGKKFGLQRMLNRHLK-CHSDV 143 (267)
T ss_pred CeeeeehhhhhhhHHHHHHHHhh-hccHH
Confidence 67899999999999999999996 45543
No 95
>COG3087 FtsN Cell division protein [Cell division and chromosome partitioning]
Probab=34.98 E-value=91 Score=28.58 Aligned_cols=57 Identities=9% Similarity=-0.024 Sum_probs=27.8
Q ss_pred cCCCCCCCCccHHHHHHHHHHHHHHHHHHHhhhheecccccccccccccccccccCCCC
Q 028678 147 PFPKGGRKQPSVFYLSISILTLMLLPIFYLIVYLYQREMRGGTQELKRIPRVGRKAKPS 205 (205)
Q Consensus 147 ~f~~~~~~~~~~~y~~~~~~~l~~l~~fY~~v~~~~r~~~~~~~~l~r~~~~~~~~~~~ 205 (205)
.+++.++...+.++..+.+-++++++++|++.-.+...-.--++.=+ .+++..-||+
T Consensus 5 ~~s~r~~~~~~~~~~~i~~~viv~~~~~~~~~t~~~~~~~p~~~~~~--t~~~lp~~Pe 61 (264)
T COG3087 5 STSRRARPQVGPTFVAIAAAVIVTFIGGLYFITHHKKAPIPFLSNQG--TGSLLPNKPE 61 (264)
T ss_pred ccCccccchhhhHHHHHHHHHHHHHHHHHHHHHhhccccccccccCC--ccCCCCCCCc
Confidence 34454444455555555555566666666655555544332222211 4455555553
No 96
>PHA02849 putative transmembrane protein; Provisional
Probab=34.96 E-value=47 Score=25.43 Aligned_cols=19 Identities=21% Similarity=0.585 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHHHHhhhh
Q 028678 162 SISILTLMLLPIFYLIVYL 180 (205)
Q Consensus 162 ~~~~~~l~~l~~fY~~v~~ 180 (205)
+++++++++.++-|+++|+
T Consensus 19 vi~v~v~vI~i~~flLlyL 37 (82)
T PHA02849 19 VILVFVLVISFLAFMLLYL 37 (82)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3444445555544444443
No 97
>PHA03164 hypothetical protein; Provisional
Probab=34.21 E-value=51 Score=25.30 Aligned_cols=30 Identities=23% Similarity=0.401 Sum_probs=13.2
Q ss_pred CccHHHH-HHHHHHHHHHHHHHHhhhheecc
Q 028678 155 QPSVFYL-SISILTLMLLPIFYLIVYLYQRE 184 (205)
Q Consensus 155 ~~~~~y~-~~~~~~l~~l~~fY~~v~~~~r~ 184 (205)
+++.|.+ ..+++.+++.++|-+.||-..|+
T Consensus 56 ktftFlvLtgLaIamILfiifvlyvFnVnr~ 86 (88)
T PHA03164 56 KTFTFLVLTGLAIAMILFIIFVLYVFNVNRG 86 (88)
T ss_pred heeehHHHHHHHHHHHHHHHHHHHheeeccC
Confidence 3334333 33334444444555555554444
No 98
>PF05568 ASFV_J13L: African swine fever virus J13L protein; InterPro: IPR008385 This family consists of several African swine fever virus (ASFV) j13L proteins [, , ].
Probab=34.18 E-value=34 Score=29.27 Aligned_cols=27 Identities=22% Similarity=0.465 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHHHHHhhhheecccccc
Q 028678 162 SISILTLMLLPIFYLIVYLYQREMRGG 188 (205)
Q Consensus 162 ~~~~~~l~~l~~fY~~v~~~~r~~~~~ 188 (205)
++++-++|++++|++.+|++.+..|+.
T Consensus 33 tILiaIvVliiiiivli~lcssRKkKa 59 (189)
T PF05568_consen 33 TILIAIVVLIIIIIVLIYLCSSRKKKA 59 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhhHHH
Confidence 344444556667777777776665543
No 99
>PF00672 HAMP: HAMP domain; InterPro: IPR003660 The HAMP linker domain (present in Histidine kinases, Adenyl cyclases, Methyl-accepting proteins and Phosphatases) is an approximately 50-amino acid alpha-helical region. It is found in bacterial sensor and chemotaxis proteins and in eukaryotic histidine kinases. The bacterial proteins are usually integral membrane proteins and part of a two-component signal transduction pathway. One or several copies of the HAMP domain can be found in association with other domains, such as the histidine kinase domain, the bacterial chemotaxis sensory transducer domain, the PAS repeat, the EAL domain, the GGDEF domain, the protein phosphatase 2C-like domain, the guanylate cyclase domain, or the response regulatory domain. It has been suggested that the HAMP domain possesses a role of regulating the phosphorylation or methylation of homodimeric receptors by transmitting the conformational changes in periplasmic ligand-binding domains to cytoplasmic signalling kinase and methyl-acceptor domains.; GO: 0004871 signal transducer activity, 0007165 signal transduction, 0016021 integral to membrane; PDB: 3PJX_A 3PJW_A 3ZX6_B 2Y20_B 2Y0Q_D 2Y21_H 3ZRW_C 2L7H_B 2LFS_B 2L7I_B ....
Probab=33.62 E-value=40 Score=22.57 Aligned_cols=32 Identities=22% Similarity=0.387 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHHHhhhheeccccccccccccc
Q 028678 164 SILTLMLLPIFYLIVYLYQREMRGGTQELKRI 195 (205)
Q Consensus 164 ~~~~l~~l~~fY~~v~~~~r~~~~~~~~l~r~ 195 (205)
++++++++++..++.|++.|...+.-+.|.+.
T Consensus 2 ~~~~~~~~~~~~~~~~~~~~~i~~pl~~l~~~ 33 (70)
T PF00672_consen 2 LVLFLIILLLSLLLAWLLARRITRPLRRLSDA 33 (70)
T ss_dssp HHHHHHHHHHHHHHHHH--HTTCCCHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566777777777888877755555555443
No 100
>PF05702 Herpes_UL49_5: Herpesvirus UL49.5 envelope/tegument protein; InterPro: IPR008647 UL49.5 protein consists of 98 amino acids with a calculated molecular mass of 10,155 Da. It contains putative signal peptide and transmembrane domains but lacks a consensus sequence for N glycosylation. UL49.5 protein is an O-glycosylated structural component of the viral envelope [].
Probab=33.54 E-value=53 Score=25.91 Aligned_cols=69 Identities=16% Similarity=0.171 Sum_probs=36.2
Q ss_pred HhhccCCCCCCcchHH-HHHHHHHhhccCCCCCCCCccCCCCCCCCccHHHHHHHHHHHHHHHH--HHHhhhheecccc
Q 028678 111 LANRCFPINQGPSASR-LHELFLRQFCDAHKCPRKSQPFPKGGRKQPSVFYLSISILTLMLLPI--FYLIVYLYQREMR 186 (205)
Q Consensus 111 l~~sCFP~~~g~sa~~-L~~~f~~~~Cd~~TC~~~~~~f~~~~~~~~~~~y~~~~~~~l~~l~~--fY~~v~~~~r~~~ 186 (205)
+....+|++.-+.+.+ =.+-|++- +|.... +|-..+...++++|+.++.++++|+. |-.+.=++.+++-
T Consensus 23 l~~~~~~~~~~~~~~~e~~~~FW~a-----~CSArG--v~i~~~s~asV~FY~sL~aV~vall~~aY~aCfRlft~s~~ 94 (98)
T PF05702_consen 23 LSRAASPDGALDIAREESRRDFWSA-----ACSARG--VPIDFPSAASVLFYVSLLAVCVALLAYAYRACFRLFTASMF 94 (98)
T ss_pred HHHhcCCCCccchhHhHHHhccccc-----ccccCc--eecCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence 3445666654444321 11236554 455554 33444466778877777766666653 2333335555543
No 101
>PHA02662 ORF131 putative membrane protein; Provisional
Probab=33.50 E-value=1.1e+02 Score=27.50 Aligned_cols=77 Identities=14% Similarity=0.240 Sum_probs=39.6
Q ss_pred CCCCCHHHHHHHHHHHHHH-hhccCCC----------CCCcchH-----HHHHHHHHhhccCCCCCCCCccCCCCCCCCc
Q 028678 93 RSKCNPAAVAKNRHLCESL-ANRCFPI----------NQGPSAS-----RLHELFLRQFCDAHKCPRKSQPFPKGGRKQP 156 (205)
Q Consensus 93 ~~~C~~~~~~~~r~~Ce~l-~~sCFP~----------~~g~sa~-----~L~~~f~~~~Cd~~TC~~~~~~f~~~~~~~~ 156 (205)
..+|+..+.-.+.=.=+.+ +..|.-+ |.|.+++ .+-+-+++.+=+ ..-+|..+|-..|
T Consensus 114 Dq~C~A~A~vnN~IdIQ~i~IgeC~AP~g~~~~~qfINSGtA~aNCgl~~I~~~ltkr~~~------nr~~~~~~~~~~W 187 (226)
T PHA02662 114 DPACAGESALAQNIDVQTLDLGDCGDPRGRRLRVALVNSGHAAANCALARVATALTRRVPA------SRHGLAEGGTPPW 187 (226)
T ss_pred CCccchhhhhccceeeeeeecccccCCCCceEEEEEEecCchhhhhhHHHHHHHHhhhccc------cccccccCCCCcc
Confidence 3688777665443333332 4578764 5555544 244444554333 2335666555566
Q ss_pred cHHHHHHHHHHHHHHHHHH
Q 028678 157 SVFYLSISILTLMLLPIFY 175 (205)
Q Consensus 157 ~~~y~~~~~~~l~~l~~fY 175 (205)
.+++.++.++++.++++-+
T Consensus 188 ~i~~~v~~i~~i~vv~i~~ 206 (226)
T PHA02662 188 TLLLAVAAVTVLGVVAVSL 206 (226)
T ss_pred hhHHHHHHHHHHHHHHHHH
Confidence 6666655455444444433
No 102
>PRK12387 formate hydrogenlyase complex iron-sulfur subunit; Provisional
Probab=33.04 E-value=27 Score=28.99 Aligned_cols=24 Identities=21% Similarity=0.505 Sum_probs=19.6
Q ss_pred cCcccccccccccCCchhhHhhhh
Q 028678 35 DINEWRCGYCKKSFRAEKFLDQHF 58 (205)
Q Consensus 35 ~~h~~rC~~C~K~F~sE~~LDlHi 58 (205)
.....+|..|||-|.+...++.=+
T Consensus 111 ~~~~~~C~~CG~~f~~~~~i~~~~ 134 (180)
T PRK12387 111 EFALCNCRVCGRPFAVQKEIDYAI 134 (180)
T ss_pred eeCcccchhhCCccccHHHHHHHH
Confidence 457789999999999998777443
No 103
>PF15330 SIT: SHP2-interacting transmembrane adaptor protein, SIT
Probab=32.96 E-value=47 Score=26.18 Aligned_cols=30 Identities=23% Similarity=0.272 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHHHHhhhheecccccccc
Q 028678 161 LSISILTLMLLPIFYLIVYLYQREMRGGTQ 190 (205)
Q Consensus 161 ~~~~~~~l~~l~~fY~~v~~~~r~~~~~~~ 190 (205)
+++++++|++++++=+++|...+.-++..+
T Consensus 4 l~il~llLll~l~asl~~wr~~~rq~k~~~ 33 (107)
T PF15330_consen 4 LGILALLLLLSLAASLLAWRMKQRQKKAGQ 33 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhccccC
Confidence 445556667777888888865544333333
No 104
>PF09451 ATG27: Autophagy-related protein 27; InterPro: IPR018939 Autophagy is a degradative transport pathway that delivers cytosolic proteins to the lysosome (vacuole) [] and is induced by starvation []. Cytosolic proteins appear inside the vacuole enclosed in autophagic vesicles. Autophagy significantly differs from other transport pathways by using double membrane layered transport intermediates, called autophagosomes [, ]. The breakdown of vesicular transport intermediates is a unique feature of autophagy []. Autophagy can also function in the elimination of invading bacteria and antigens []. There are more than 25 AuTophaGy-related (ATG) genes that are essential for autophagy, although it is still not known how the autophagosome is made. Atg9 is a potential membrane carrier to deliver lipids that are used to form the vesicle. Atg27 is another transmembrane protein, and is a cycling protein []. It acts as an effector of VPS34 phosphatidylinositol 3-phosphate kinase signalling and regulates the cytoplasm to vacuole transport (Cvt) vesicle formation. It is also required for autophagy-dependent cycling of ATG9.
Probab=32.36 E-value=69 Score=28.40 Aligned_cols=26 Identities=27% Similarity=0.327 Sum_probs=14.2
Q ss_pred HHHHHHhhhheecccccccccccccc
Q 028678 171 LPIFYLIVYLYQREMRGGTQELKRIP 196 (205)
Q Consensus 171 l~~fY~~v~~~~r~~~~~~~~l~r~~ 196 (205)
.++.|+|+-.|.+-.+.+..+.--|+
T Consensus 213 ~~~~Y~i~g~~~n~~~~g~~g~e~iP 238 (268)
T PF09451_consen 213 FLAAYLIFGSWYNYNRYGARGFELIP 238 (268)
T ss_pred HHHHHhhhhhheeeccCCCCCceecc
Confidence 33667777666555455555544333
No 105
>PF11395 DUF2873: Protein of unknown function (DUF2873); InterPro: IPR021532 This entry is represented by the human SARS coronavirus, Orf7b; it is a family of uncharacterised viral proteins.
Probab=32.22 E-value=78 Score=21.25 Aligned_cols=15 Identities=40% Similarity=0.656 Sum_probs=6.6
Q ss_pred HHHHHHHHHHHHHHH
Q 028678 159 FYLSISILTLMLLPI 173 (205)
Q Consensus 159 ~y~~~~~~~l~~l~~ 173 (205)
+|+.+..+++.+++|
T Consensus 9 fylc~l~~llflv~i 23 (43)
T PF11395_consen 9 FYLCFLSFLLFLVII 23 (43)
T ss_pred HHHHHHHHHHHHHHH
Confidence 455444444433333
No 106
>PF06422 PDR_CDR: CDR ABC transporter; InterPro: IPR010929 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). In yeast, the PDR and CDR ABC transporters display extensive sequence homology, and confer resistance to several anti-fungal compounds by actively transporting their substrates out of the cell. These transporters have two homologous halves, each with an N-terminal intracellular hydrophilic region that contains an ATP-binding site, followed by a C-terminal membrane-associated region containing six transmembrane segments []. This entry represents a domain of the PDR/CDR ABC transporter comprising extracellular loop 3, transmembrane segment 6 and a linker region.; GO: 0005524 ATP binding, 0042626 ATPase activity, coupled to transmembrane movement of substances, 0006810 transport, 0016021 integral to membrane
Probab=32.19 E-value=78 Score=24.28 Aligned_cols=30 Identities=10% Similarity=-0.003 Sum_probs=14.8
Q ss_pred CCCccHHHHHHHHHHHHHHHHHHHhhhheecc
Q 028678 153 RKQPSVFYLSISILTLMLLPIFYLIVYLYQRE 184 (205)
Q Consensus 153 ~~~~~~~y~~~~~~~l~~l~~fY~~v~~~~r~ 184 (205)
..|++++.+++.+++ -+++.++.+.+...+
T Consensus 47 h~WRN~GIli~f~i~--f~~~~~~~~e~~~~~ 76 (103)
T PF06422_consen 47 HRWRNFGILIAFWIF--FIVLTLLATEFIKFE 76 (103)
T ss_pred chhhhHHHHHHHHHH--HHHHHHHHHHHhccc
Confidence 367776655444443 333444444444444
No 107
>cd03745 SOCS_WSB2_SWIP2 SOCS (suppressors of cytokine signaling) box of WSB2/SWiP2-like proteins. This family consists of WSB-2 (SOCS-box-containing WD-40 protein) and SWiP-2 (SOCS box and WD-repeats in Protein). No functional information is available for WSB2 or SWiP-2, but limited information is available for the isoforms WSB-1 and SWiP-1. The general function of the SOCS box is the recruitment of the ubiquitin-transferase system. The SOCS box interacts with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions.
Probab=32.03 E-value=45 Score=21.97 Aligned_cols=31 Identities=19% Similarity=0.355 Sum_probs=21.9
Q ss_pred HHHHHHHHHHhhccCCCCCCcc---hHHHHHHHH
Q 028678 102 AKNRHLCESLANRCFPINQGPS---ASRLHELFL 132 (205)
Q Consensus 102 ~~~r~~Ce~l~~sCFP~~~g~s---a~~L~~~f~ 132 (205)
..++|+|+..++.+.+..+..+ -.+|.+|+.
T Consensus 4 ~SLQHLCR~~I~~~~~~~~~~~LPLP~~Lk~yL~ 37 (39)
T cd03745 4 PSLRHLCRKALRHFLTTYQVLALPIPKKMKEFLT 37 (39)
T ss_pred ccHHHHHHHHHHHhccccccccCCCcHHHHHHHc
Confidence 4589999999999986544321 147888754
No 108
>cd03738 SOCS_SOCS4 SOCS (suppressors of cytokine signaling) box of SOCS4-like proteins. Together with CIS1, the CIS/SOCS family of proteins is characterized by the presence of a C-terminal SOCS box and a central SH2 domain. The general function of the SOCS box is the recruitment of the ubiquitin-transferase system. The SOCS box interacts with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions.
Probab=31.54 E-value=70 Score=22.83 Aligned_cols=32 Identities=16% Similarity=0.393 Sum_probs=23.2
Q ss_pred HHHHHHHHHhhccCCCCC-C--cchHHHHHHHHHh
Q 028678 103 KNRHLCESLANRCFPINQ-G--PSASRLHELFLRQ 134 (205)
Q Consensus 103 ~~r~~Ce~l~~sCFP~~~-g--~sa~~L~~~f~~~ 134 (205)
.++|+|+..++++.+.++ + |=-.+|.+|+.+.
T Consensus 5 SLQHLCR~~I~~~t~~~~I~~LPLP~~LK~YLkeY 39 (56)
T cd03738 5 SLQHICRTVICNCTTYDGIDALPIPSSMKLYLKEY 39 (56)
T ss_pred CHHHHHHHHHHhcCCccccccCCCCHHHHHHHHhC
Confidence 379999999999998653 1 2225888986653
No 109
>PF03918 CcmH: Cytochrome C biogenesis protein; InterPro: IPR005616 Members of this family include NrfF, CcmH, CycL, Ccl2.; PDB: 2KW0_A 2HL7_A.
Probab=31.51 E-value=72 Score=26.35 Aligned_cols=40 Identities=15% Similarity=0.306 Sum_probs=29.6
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHhhccCCCCCCcchHHHHHHHHHhh
Q 028678 90 KSSRSKCNPAAVAKNRHLCESLANRCFPINQGPSASRLHELFLRQF 135 (205)
Q Consensus 90 ~~~~~~C~~~~~~~~r~~Ce~l~~sCFP~~~g~sa~~L~~~f~~~~ 135 (205)
+..-+-|+...+..+|..=+.++. +|-|.....+||+..|
T Consensus 48 ~qsi~~s~a~~A~dmR~~I~~~l~------~G~s~~eI~~~~v~rY 87 (148)
T PF03918_consen 48 NQSIADSNAPIARDMRREIREMLA------EGKSDEEIIDYFVERY 87 (148)
T ss_dssp S-CTTT--SHHHHHHHHHHHHHHH------HT--HHHHHHHHHHHH
T ss_pred CCchhhcCcHHHHHHHHHHHHHHH------cCCCHHHHHHHHHHhc
Confidence 356677888888889988888886 6888899999999998
No 110
>PHA02657 hypothetical protein; Provisional
Probab=31.19 E-value=57 Score=25.49 Aligned_cols=19 Identities=26% Similarity=0.728 Sum_probs=10.3
Q ss_pred HHHHHHHHHHHHHHHhhhh
Q 028678 162 SISILTLMLLPIFYLIVYL 180 (205)
Q Consensus 162 ~~~~~~l~~l~~fY~~v~~ 180 (205)
+++++++++.++-|+++|+
T Consensus 29 Vitvfv~vI~il~flLLYL 47 (95)
T PHA02657 29 VFTIFIFVVCILIYLLIYL 47 (95)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4455555555555555554
No 111
>PF15202 Adipogenin: Adipogenin
Probab=31.09 E-value=74 Score=24.01 Aligned_cols=22 Identities=32% Similarity=0.454 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHHHHHhhhhe
Q 028678 160 YLSISILTLMLLPIFYLIVYLY 181 (205)
Q Consensus 160 y~~~~~~~l~~l~~fY~~v~~~ 181 (205)
++++-+.+-|+|++|-+|||+.
T Consensus 16 flvfwlclpv~lllfl~ivwlr 37 (81)
T PF15202_consen 16 FLVFWLCLPVGLLLFLLIVWLR 37 (81)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 5556667778899999999963
No 112
>CHL00066 psbH photosystem II protein H
Probab=31.05 E-value=70 Score=24.04 Aligned_cols=35 Identities=17% Similarity=0.335 Sum_probs=17.5
Q ss_pred CccCCCC-CCCCccHHHHHHHHHHHHHHHHHHHhhh
Q 028678 145 SQPFPKG-GRKQPSVFYLSISILTLMLLPIFYLIVY 179 (205)
Q Consensus 145 ~~~f~~~-~~~~~~~~y~~~~~~~l~~l~~fY~~v~ 179 (205)
.||+..+ |+..++..-..+-+++++++++|.+|+-
T Consensus 23 LKPLNSeyGkvapgWGTtp~Mgv~m~lf~vfl~iiL 58 (73)
T CHL00066 23 LKPLNSEYGKVAPGWGTTPLMGVAMALFAVFLSIIL 58 (73)
T ss_pred ccccccccCcccCCccchHHHHHHHHHHHHHHHHHH
Confidence 4565443 4443333333344455566666666654
No 113
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=31.03 E-value=59 Score=26.34 Aligned_cols=30 Identities=20% Similarity=0.128 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhheeccccc
Q 028678 158 VFYLSISILTLMLLPIFYLIVYLYQREMRG 187 (205)
Q Consensus 158 ~~y~~~~~~~l~~l~~fY~~v~~~~r~~~~ 187 (205)
..-+|++.++..++++.-+|+|+.+|-.|+
T Consensus 65 ~i~~Ii~gv~aGvIg~Illi~y~irR~~Kk 94 (122)
T PF01102_consen 65 AIIGIIFGVMAGVIGIILLISYCIRRLRKK 94 (122)
T ss_dssp CHHHHHHHHHHHHHHHHHHHHHHHHHHS--
T ss_pred ceeehhHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 444555555555555666777877666444
No 114
>PRK00159 putative septation inhibitor protein; Reviewed
Probab=30.82 E-value=71 Score=24.68 Aligned_cols=29 Identities=28% Similarity=0.505 Sum_probs=22.5
Q ss_pred ccHHHHHHHHHHHHHHHHHHHhhhheecc
Q 028678 156 PSVFYLSISILTLMLLPIFYLIVYLYQRE 184 (205)
Q Consensus 156 ~~~~y~~~~~~~l~~l~~fY~~v~~~~r~ 184 (205)
.+-.+++...+.++++.+.+++||-...+
T Consensus 28 ~sp~W~~~~m~glm~~GllWlvvyYl~~~ 56 (87)
T PRK00159 28 PSSVWYVVLMLGLMLIGLAWLVVNYLAGP 56 (87)
T ss_pred CCCccHHHHHHHHHHHHHHHHHHHhhccC
Confidence 34457888888999999999999876543
No 115
>PF02419 PsbL: PsbL protein; InterPro: IPR003372 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight transmembrane protein PsbL found in PSII. PsbL is located in a gene cluster with PsbE, PsbF and PsbJ (PsbEFJL). Both PsbL and PsbJ (IPR002682 from INTERPRO) are essential for proper assembly of the OEC. Mutations in PsbL prevent the formation of both PSII core dimers and PSII-light harvesting complex []. In addition, both PsbL and PsbJ are involved in the unidirectional flow of electrons, where PsbJ regulates the forward electron flow from D2 (Qa) to the plastoquinone pool, and PsbL prevents the reduction of PSII by back electron flow from plastoquinol protecting PSII from photo-inactivation [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane; PDB: 3A0H_L 3A0B_l 3ARC_l 1S5L_l 2AXT_l 3BZ2_L 4FBY_L 3PRQ_L 3PRR_L 3KZI_L ....
Probab=30.79 E-value=92 Score=20.60 Aligned_cols=24 Identities=21% Similarity=0.380 Sum_probs=15.7
Q ss_pred CCccHHHHHHHHHHHHHHHHHHHh
Q 028678 154 KQPSVFYLSISILTLMLLPIFYLI 177 (205)
Q Consensus 154 ~~~~~~y~~~~~~~l~~l~~fY~~ 177 (205)
..+++.+-+++|+++.+|.--|++
T Consensus 13 NRTSLY~GLllifvl~vLFssyff 36 (37)
T PF02419_consen 13 NRTSLYWGLLLIFVLAVLFSSYFF 36 (37)
T ss_dssp -CCHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHhHHHHHHHHHHHHHHhhhhhc
Confidence 467776777777777777666653
No 116
>PLN00055 photosystem II reaction center protein H; Provisional
Probab=30.72 E-value=74 Score=23.92 Aligned_cols=35 Identities=17% Similarity=0.335 Sum_probs=17.1
Q ss_pred CccCCCC-CCCCccHHHHHHHHHHHHHHHHHHHhhh
Q 028678 145 SQPFPKG-GRKQPSVFYLSISILTLMLLPIFYLIVY 179 (205)
Q Consensus 145 ~~~f~~~-~~~~~~~~y~~~~~~~l~~l~~fY~~v~ 179 (205)
.||+..+ |+..++.+-..+-+++++++++|.+|+-
T Consensus 23 LKPLNSeyGkvapgWGTtp~Mg~~m~lf~vfl~iil 58 (73)
T PLN00055 23 LKPLNSEYGKVAPGWGTTPLMGVAMALFAVFLSIIL 58 (73)
T ss_pred ccccccccCcccCCccchhHHHHHHHHHHHHHHHHH
Confidence 4566443 4443333333344455555566666554
No 117
>PF05393 Hum_adeno_E3A: Human adenovirus early E3A glycoprotein; InterPro: IPR008652 This family consists of several early glycoproteins (E3A), from human adenovirus type 2.; GO: 0016021 integral to membrane
Probab=30.23 E-value=59 Score=25.46 Aligned_cols=24 Identities=17% Similarity=0.339 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHHHhhhheecccc
Q 028678 163 ISILTLMLLPIFYLIVYLYQREMR 186 (205)
Q Consensus 163 ~~~~~l~~l~~fY~~v~~~~r~~~ 186 (205)
+.++++++++|.|++-|+-+|.-|
T Consensus 39 vI~~iFil~VilwfvCC~kRkrsR 62 (94)
T PF05393_consen 39 VICGIFILLVILWFVCCKKRKRSR 62 (94)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhcc
Confidence 333445666677888787666544
No 118
>PF15168 TRIQK: Triple QxxK/R motif-containing protein family
Probab=30.22 E-value=64 Score=24.57 Aligned_cols=18 Identities=39% Similarity=0.573 Sum_probs=11.1
Q ss_pred HHHHHHHHHHHHHhhhhe
Q 028678 164 SILTLMLLPIFYLIVYLY 181 (205)
Q Consensus 164 ~~~~l~~l~~fY~~v~~~ 181 (205)
++.++++|+.||.+.|+.
T Consensus 55 l~ail~lL~a~Ya~fyl~ 72 (79)
T PF15168_consen 55 LAAILVLLLAFYAFFYLN 72 (79)
T ss_pred HHHHHHHHHHHHHHHHHh
Confidence 344456666777777754
No 119
>PHA02692 hypothetical protein; Provisional
Probab=30.16 E-value=1.1e+02 Score=22.90 Aligned_cols=15 Identities=20% Similarity=0.354 Sum_probs=7.0
Q ss_pred HHHHHHHHHHHhhhh
Q 028678 166 LTLMLLPIFYLIVYL 180 (205)
Q Consensus 166 ~~l~~l~~fY~~v~~ 180 (205)
+++++++++.+++|+
T Consensus 53 ~~~~~~~vll~flYL 67 (70)
T PHA02692 53 LIAAAIGVLLCFHYL 67 (70)
T ss_pred HHHHHHHHHHHHHHH
Confidence 344444444455543
No 120
>PF05439 JTB: Jumping translocation breakpoint protein (JTB); InterPro: IPR008657 This family contains several jumping translocation breakpoint proteins or JTBs. Jumping translocation (JT) is an unbalanced translocation that comprises amplified chromosomal segments jumping to various telomeres. JTB, located at 1q21, has been found to fuse with the telomeric repeats of acceptor telomeres in a case of JT. hJTB (Homo sapiens JTB) encodes a transmembrane protein that is highly conserved among divergent eukaryotic species. JT results in a hJTB truncation, which potentially produces an hJTB product devoid of the transmembrane domain. hJTB is located in a gene-rich region at 1q21, called EDC (Epidermal Differentiation Complex) []. JTB has also been implicated in prostatic carcinomas [].; GO: 0016021 integral to membrane; PDB: 2KJX_A.
Probab=29.93 E-value=17 Score=29.11 Aligned_cols=58 Identities=21% Similarity=0.377 Sum_probs=7.9
Q ss_pred cCCCCCCCCccCCCCCC---CCccHHHHHHHHHHHHHHHHHHHhhhheeccccccccccccccc
Q 028678 137 DAHKCPRKSQPFPKGGR---KQPSVFYLSISILTLMLLPIFYLIVYLYQREMRGGTQELKRIPR 197 (205)
Q Consensus 137 d~~TC~~~~~~f~~~~~---~~~~~~y~~~~~~~l~~l~~fY~~v~~~~r~~~~~~~~l~r~~~ 197 (205)
+.+.|+.......+.=+ ..... |+.+-++.+++++++|++||+=+|-+. .+-..|+++
T Consensus 52 e~v~C~~s~~~~~rSCr~~~~e~~~-Fw~Fe~~~l~i~l~s~~~v~~R~r~Ld--r~~~~rv~r 112 (114)
T PF05439_consen 52 EVVKCKSSETTVYRSCRSAWMEERN-FWKFEGFMLVIGLLSYLVVVLRQRQLD--RRAYERVQR 112 (114)
T ss_dssp EEEEETTTTEEEEEE--HHHHS------------------------------------------
T ss_pred hhhcccCCCCceEEeccchHhhhhh-hhhhhHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHh
Confidence 56677765542222111 11223 444555667888899999998777654 333445443
No 121
>PRK13415 flagella biosynthesis protein FliZ; Provisional
Probab=29.90 E-value=64 Score=28.75 Aligned_cols=22 Identities=23% Similarity=0.504 Sum_probs=13.4
Q ss_pred HHHHHHHHHHHHHHhhhheecc
Q 028678 163 ISILTLMLLPIFYLIVYLYQRE 184 (205)
Q Consensus 163 ~~~~~l~~l~~fY~~v~~~~r~ 184 (205)
+..+++|++++|++.-|+.+|-
T Consensus 72 i~aL~~VI~Liy~l~rwL~rR~ 93 (219)
T PRK13415 72 IGATLFVIFLIYALVKWLNKRN 93 (219)
T ss_pred HHHHHHHHHHHHHHHHHHHHhc
Confidence 3334455556666666988875
No 122
>PRK02251 putative septation inhibitor protein; Reviewed
Probab=29.74 E-value=65 Score=24.84 Aligned_cols=28 Identities=18% Similarity=0.480 Sum_probs=21.9
Q ss_pred CccHHHHHHHHHHHHHHHHHHHhhhhee
Q 028678 155 QPSVFYLSISILTLMLLPIFYLIVYLYQ 182 (205)
Q Consensus 155 ~~~~~y~~~~~~~l~~l~~fY~~v~~~~ 182 (205)
..+-.+++...+.++++.+.|++||-..
T Consensus 28 ~~sP~W~~~~m~~lm~~Gl~WlvvyYl~ 55 (87)
T PRK02251 28 KSNPRWFVPLFVALMIIGLIWLVVYYLS 55 (87)
T ss_pred CCCCchHHHHHHHHHHHHHHHHHHHhhh
Confidence 3444588888889999999999998764
No 123
>PF06143 Baculo_11_kDa: Baculovirus 11 kDa family; InterPro: IPR009313 This is a family of uncharacterised Baculovirus proteins that are all about 11 kDa in size.
Probab=29.58 E-value=62 Score=24.86 Aligned_cols=25 Identities=16% Similarity=0.491 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHHHHHhhhheeccc
Q 028678 161 LSISILTLMLLPIFYLIVYLYQREM 185 (205)
Q Consensus 161 ~~~~~~~l~~l~~fY~~v~~~~r~~ 185 (205)
++.+++++|+..+|+++++...+.+
T Consensus 39 Vic~~lVfVii~lFi~ll~~i~~~~ 63 (84)
T PF06143_consen 39 VICCFLVFVIIVLFILLLYNINKNA 63 (84)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5556667777788888888776654
No 124
>TIGR00859 ENaC sodium channel transporter. This model is designed from the vertebrate members of the ENaC family.
Probab=29.57 E-value=75 Score=31.62 Aligned_cols=41 Identities=20% Similarity=0.355 Sum_probs=30.2
Q ss_pred HHHhhccCCCCCCCCccCCCCCCCCccHHHHHHHHHHHHHH
Q 028678 131 FLRQFCDAHKCPRKSQPFPKGGRKQPSVFYLSISILTLMLL 171 (205)
Q Consensus 131 f~~~~Cd~~TC~~~~~~f~~~~~~~~~~~y~~~~~~~l~~l 171 (205)
++..||+.-|+-|....+..++...+.++|+++.++.++++
T Consensus 5 l~~~f~~~ttlHG~~~i~~~~~~~~rr~~W~l~~l~s~~~~ 45 (595)
T TIGR00859 5 LLVWFCNNTTTHGAIRIVCSRGGRLKRALWALLTLLALALL 45 (595)
T ss_pred HHHHHHcCCCccChhhhhcCCCCcHHHHHHHHHHHHHHHHH
Confidence 67889999999999988877544556677876666544433
No 125
>cd03746 SOCS_WSB1_SWIP1 SOCS (suppressors of cytokine signaling) box of WSB1/SWiP1-like proteins. This subfamily contains WSB-1 (SOCS-box-containing WD-40 protein), part of an E3 ubiquitin ligase for the thyroid-hormone-activating type 2 iodothyronine deiodinase (D2) and SWiP-1 (SOCS box and WD-repeats in Protein), a WD40-containing protein that is expressed in embryonic structures of chickens and regulated by Sonic Hedgehog (Shh). The general function of the SOCS box is the recruitment of the ubiquitin-transferase system. The SOCS box interacts with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions.
Probab=29.36 E-value=32 Score=22.63 Aligned_cols=32 Identities=34% Similarity=0.520 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHhhccCCCCCCcc---hHHHHHHHH
Q 028678 101 VAKNRHLCESLANRCFPINQGPS---ASRLHELFL 132 (205)
Q Consensus 101 ~~~~r~~Ce~l~~sCFP~~~g~s---a~~L~~~f~ 132 (205)
+..++|+|+..++.+++...-.. -.+|.+|+.
T Consensus 3 v~sLQhLCR~~Ir~~~~~~~i~~LpLP~~Lk~YL~ 37 (40)
T cd03746 3 VASLQHLCRMAIRRVMPTQQVKELPIPSKLLEFLT 37 (40)
T ss_pred CcCHHHHHHHHHHHHccccccccCCCCHHHHHHHh
Confidence 45689999999999998653211 247777765
No 126
>PF15179 Myc_target_1: Myc target protein 1
Probab=29.18 E-value=96 Score=27.27 Aligned_cols=32 Identities=16% Similarity=0.309 Sum_probs=18.9
Q ss_pred HHHHHHHHHhhhheecccccccccccccccccccC
Q 028678 168 LMLLPIFYLIVYLYQREMRGGTQELKRIPRVGRKA 202 (205)
Q Consensus 168 l~~l~~fY~~v~~~~r~~~~~~~~l~r~~~~~~~~ 202 (205)
+++-+||-+++|+.+|. .+.-+-|-+..-.+.
T Consensus 34 viG~li~~LltwlSRRR---ASa~Isr~s~~~~~~ 65 (197)
T PF15179_consen 34 VIGALIWALLTWLSRRR---ASARISRWSSSRSRR 65 (197)
T ss_pred HHHHHHHHHHHHHHhcc---ccccccccCcccccc
Confidence 44445677788888654 566565555544443
No 127
>PRK02624 psbH photosystem II reaction center protein H; Provisional
Probab=28.98 E-value=75 Score=23.34 Aligned_cols=35 Identities=20% Similarity=0.389 Sum_probs=17.2
Q ss_pred CccCCCC-CCCCccHHHHHHHHHHHHHHHHHHHhhh
Q 028678 145 SQPFPKG-GRKQPSVFYLSISILTLMLLPIFYLIVY 179 (205)
Q Consensus 145 ~~~f~~~-~~~~~~~~y~~~~~~~l~~l~~fY~~v~ 179 (205)
.||+..+ |+..++..-..+-+++++++++|.+|+-
T Consensus 11 LkpLNSEyGKVaPGWGTTplMgv~m~Lf~vFl~iiL 46 (64)
T PRK02624 11 LKPLNSEYGKVVPGWGTTPVMAVFMVLFLVFLLIIL 46 (64)
T ss_pred ccccccccCcccCCccchHHHHHHHHHHHHHHHHHH
Confidence 4566544 4443333333334455555566666554
No 128
>PRK11677 hypothetical protein; Provisional
Probab=28.76 E-value=47 Score=27.30 Aligned_cols=26 Identities=12% Similarity=-0.013 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHHHHHHHhhhheeccc
Q 028678 160 YLSISILTLMLLPIFYLIVYLYQREM 185 (205)
Q Consensus 160 y~~~~~~~l~~l~~fY~~v~~~~r~~ 185 (205)
|++++|.++|+++|=|++..+..+..
T Consensus 3 W~~a~i~livG~iiG~~~~R~~~~~~ 28 (134)
T PRK11677 3 WEYALIGLVVGIIIGAVAMRFGNRKL 28 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHhhccchh
Confidence 66677777888888888887766553
No 129
>PF00858 ASC: Amiloride-sensitive sodium channel; InterPro: IPR001873 The apical membrane of many tight epithelia contains sodium channels that are primarily characterised by their high affinity to the diuretic blocker amiloride [, , , ]. These channels mediate the first step of active sodium reabsorption essential for the maintenance of body salt and water homeostasis []. In vertebrates, the channels control reabsorption of sodium in kidney, colon, lung and sweat glands; they also play a role in taste perception. Members of the epithelial Na+ channel (ENaC) family fall into four subfamilies, termed alpha, beta, gamma and delta []. The proteins exhibit the same apparent topology, each with two transmembrane (TM) spanning segments, separated by a large extracellular loop. In most ENaC proteins studied to date, the extracellular domains are highly conserved and contain numerous cysteine residues, with flanking C-terminal amphipathic TM regions, postulated to contribute to the formation of the hydrophilic pores of the oligomeric channel protein complexes. It is thought that the well-conserved extracellular domains serve as receptors to control the activities of the channels. Vertebrate ENaC proteins are similar to degenerins of Caenorhabditis elegans []: deg-1, del-1, mec-4, mec-10 and unc-8. These proteins can be mutated to cause neuronal degradation, and are also thought to form sodium channels. Structurally, the proteins that belong to this family consist of about 510 to 920 amino acid residues. They are made of an intracellular N terminus region followed by a transmembrane domain, a large extracellular loop, a second transmembrane segment and a C-terminal intracellular tail [].; GO: 0005272 sodium channel activity, 0006814 sodium ion transport, 0016020 membrane; PDB: 2QTS_B 3S3W_C 3IJ4_A 3S3X_A 3HGC_A 2K2B_A.
Probab=28.00 E-value=85 Score=28.06 Aligned_cols=36 Identities=17% Similarity=0.367 Sum_probs=17.1
Q ss_pred hccCCCCCCCCccCCCCCCCCccHHHHHHHHHHHHH
Q 028678 135 FCDAHKCPRKSQPFPKGGRKQPSVFYLSISILTLML 170 (205)
Q Consensus 135 ~Cd~~TC~~~~~~f~~~~~~~~~~~y~~~~~~~l~~ 170 (205)
||+.-|.-|....+....+....++|+++.++.+++
T Consensus 1 F~~~Ts~HG~~~i~~~~~~~~~R~~W~~~~~~~~~~ 36 (439)
T PF00858_consen 1 FCENTSLHGLRYIFDSKTSWFERLFWLLVVVVSFIL 36 (439)
T ss_dssp HTS-SS-SS--SSS------HCHHHHHHHHHHHHHH
T ss_pred CCCccchhcHHHHhcCCCcchHHHHHHHHHHHHHHH
Confidence 577778888887775544456667777665554333
No 130
>TIGR03141 cytochro_ccmD heme exporter protein CcmD. The model for this protein family describes a small, hydrophobic, and only moderately well-conserved protein, tricky to identify accurately for all of these reasons. However, members are found as part of large operons involved in heme export across the inner membrane for assembly of c-type cytochromes in a large number of bacteria. The gray zone between the trusted cutoff (13.0) and noise cutoff (4.75) includes both low-scoring examples and false-positive matches to hydrophobic domains of longer proteins.
Probab=27.72 E-value=31 Score=22.89 Aligned_cols=31 Identities=23% Similarity=0.271 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHhhhheeccccccccccccccc
Q 028678 166 LTLMLLPIFYLIVYLYQREMRGGTQELKRIPR 197 (205)
Q Consensus 166 ~~l~~l~~fY~~v~~~~r~~~~~~~~l~r~~~ 197 (205)
..+.++++.-++++.+.+. |+..++|++.-+
T Consensus 12 Yg~t~l~l~~li~~~~~~~-r~~~~~l~~~~~ 42 (45)
T TIGR03141 12 YGITALVLAGLILWSLLDR-RRLLRELRRLEA 42 (45)
T ss_pred HHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHH
Confidence 3344444556667766666 556677766543
No 131
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=27.31 E-value=23 Score=27.92 Aligned_cols=14 Identities=21% Similarity=0.546 Sum_probs=11.5
Q ss_pred cccccccccccCCc
Q 028678 37 NEWRCGYCKKSFRA 50 (205)
Q Consensus 37 h~~rC~~C~K~F~s 50 (205)
..++|..||+.||.
T Consensus 8 tKR~Cp~CG~kFYD 21 (108)
T PF09538_consen 8 TKRTCPSCGAKFYD 21 (108)
T ss_pred CcccCCCCcchhcc
Confidence 35789999999985
No 132
>PF10320 7TM_GPCR_Srsx: Serpentine type 7TM GPCR chemoreceptor Srsx; InterPro: IPR019424 G-protein-coupled receptors, GPCRs, constitute a vast protein family that encompasses a wide range of functions (including various autocrine, paracrine and endocrine processes). They show considerable diversity at the sequence level, on the basis of which they can be separated into distinct groups. We use the term clan to describe the GPCRs, as they embrace a group of families for which there are indications of evolutionary relationship, but between which there is no statistically significant similarity in sequence []. The currently known clan members include the rhodopsin-like GPCRs, the secretin-like GPCRs, the cAMP receptors, the fungal mating pheromone receptors, and the metabotropic glutamate receptor family. There is a specialised database for GPCRs (http://www.gpcr.org/7tm/). The nematode Caenorhabditis elegans has only 14 types of chemosensory neuron, yet is able to sense and respond to several hundred different chemicals because each neuron detects several stimuli []. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf' []. Chemoreception in C. elegans is mediated by members of the seven-transmembrane G-protein-coupled receptor class (7TM GPCRs). More than 1300 potential chemoreceptor genes have been identified in C. elegans, which are generally prefixed sr for serpentine receptor. The receptor superfamilies include Sra (Sra, Srb, Srab, Sre), Str (Srh, Str, Sri, Srd, Srj, Srm, Srn) and Srg (Srx, Srt, Srg, Sru, Srv, Srxa), as well as the families Srw, Srz, Srbc, Srsx and Srr [, , ]. Many of these proteins have homologues in Caenorhabditis briggsae. This entry represents serpentine receptor class sx (Srsx), which is a solo family amongst the superfamilies of chemoreceptors. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf' [].
Probab=26.79 E-value=45 Score=28.87 Aligned_cols=43 Identities=16% Similarity=0.298 Sum_probs=26.8
Q ss_pred CccHHHHHHHHHHHHHHHHHHHhhhheeccc-cccccccccccc
Q 028678 155 QPSVFYLSISILTLMLLPIFYLIVYLYQREM-RGGTQELKRIPR 197 (205)
Q Consensus 155 ~~~~~y~~~~~~~l~~l~~fY~~v~~~~r~~-~~~~~~l~r~~~ 197 (205)
.....|..+.+++-+++.+.|.++|..-+.. ++.+++.||+-|
T Consensus 144 ~~~~~~~~~~~~inv~tvivY~i~~~~~~~k~~~~~~~~~kv~k 187 (257)
T PF10320_consen 144 TASQIWSYSNIIINVITVIVYIITIIIFKRKSRSNSSRSKKVFK 187 (257)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccchhHHHHHH
Confidence 3345566667777777788888888654432 334666666544
No 133
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=26.67 E-value=80 Score=27.46 Aligned_cols=13 Identities=31% Similarity=0.437 Sum_probs=6.2
Q ss_pred HHHHHHhhhheec
Q 028678 171 LPIFYLIVYLYQR 183 (205)
Q Consensus 171 l~~fY~~v~~~~r 183 (205)
+++.++++|++.|
T Consensus 250 ~~~~~~~~~~~~R 262 (262)
T PF14257_consen 250 ILIIGLLVRFVRR 262 (262)
T ss_pred HHHHHHHHheEeC
Confidence 3344445555544
No 134
>PF06024 DUF912: Nucleopolyhedrovirus protein of unknown function (DUF912); InterPro: IPR009261 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf78; it is a family of uncharacterised viral proteins.
Probab=26.62 E-value=42 Score=25.82 Aligned_cols=27 Identities=19% Similarity=0.493 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhheecc
Q 028678 158 VFYLSISILTLMLLPIFYLIVYLYQRE 184 (205)
Q Consensus 158 ~~y~~~~~~~l~~l~~fY~~v~~~~r~ 184 (205)
+..+++..+++++.+|||+++-.=++.
T Consensus 66 i~lls~v~IlVily~IyYFVILRer~~ 92 (101)
T PF06024_consen 66 ISLLSFVCILVILYAIYYFVILRERQK 92 (101)
T ss_pred HHHHHHHHHHHHHhhheEEEEEecccc
Confidence 445555556667777888877665555
No 135
>COG3105 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.61 E-value=85 Score=26.18 Aligned_cols=33 Identities=18% Similarity=0.062 Sum_probs=27.6
Q ss_pred CCccHHHHHHHHHHHHHHHHHHHhhhheecccc
Q 028678 154 KQPSVFYLSISILTLMLLPIFYLIVYLYQREMR 186 (205)
Q Consensus 154 ~~~~~~y~~~~~~~l~~l~~fY~~v~~~~r~~~ 186 (205)
.|+...|.+++|-++|+++|=|+|+=+-.+-.+
T Consensus 2 nwt~~~W~~a~igLvvGi~IG~li~Rlt~~~~k 34 (138)
T COG3105 2 NWTFMTWEYALIGLVVGIIIGALIARLTNRKLK 34 (138)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHcchhhh
Confidence 356667999999999999999999988777655
No 136
>PRK11100 sensory histidine kinase CreC; Provisional
Probab=26.53 E-value=31 Score=30.70 Aligned_cols=37 Identities=19% Similarity=0.130 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHHHHHHhhhheeccccccccccccccc
Q 028678 161 LSISILTLMLLPIFYLIVYLYQREMRGGTQELKRIPR 197 (205)
Q Consensus 161 ~~~~~~~l~~l~~fY~~v~~~~r~~~~~~~~l~r~~~ 197 (205)
.++++++++++++.+++.+...|..++....++++.+
T Consensus 186 ~~~~~~~~~~~~~~~~~~~~i~~~l~~l~~~~~~i~~ 222 (475)
T PRK11100 186 WAGALLLGIALLIGAGVVWWLNRSIRRLTRYADAVTE 222 (475)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 3444555666667777777777766655555555543
No 137
>PRK11486 flagellar biosynthesis protein FliO; Provisional
Probab=26.38 E-value=83 Score=25.63 Aligned_cols=17 Identities=12% Similarity=0.344 Sum_probs=12.1
Q ss_pred HHHHHHHHHhhhheecc
Q 028678 168 LMLLPIFYLIVYLYQRE 184 (205)
Q Consensus 168 l~~l~~fY~~v~~~~r~ 184 (205)
+++|++.+++.|+.+|=
T Consensus 26 ~lVl~lI~~~aWLlkR~ 42 (124)
T PRK11486 26 IGIIALILAAAWLVKRL 42 (124)
T ss_pred HHHHHHHHHHHHHHHHc
Confidence 45556667788999883
No 138
>cd03735 SOCS_SOCS1 SOCS (suppressors of cytokine signaling) box of SOCS1-like proteins. Together with CIS1, the CIS/SOCS family of proteins is characterized by the presence of a C-terminal SOCS box and a central SH2 domain. SOCS1, like CIS1 and SOCS3, is involved in the down-regulation of the JAK/STAT pathway. SOCS1 has a dual function as a direct potent JAK kinase inhibitor and as a component of an E3 ubiquitin-ligase complex recruiting substrates to the protein degradation machinery.
Probab=26.36 E-value=1e+02 Score=20.74 Aligned_cols=31 Identities=16% Similarity=0.204 Sum_probs=22.2
Q ss_pred HHHHHHHHHhhccCCCCC---CcchHHHHHHHHH
Q 028678 103 KNRHLCESLANRCFPINQ---GPSASRLHELFLR 133 (205)
Q Consensus 103 ~~r~~Ce~l~~sCFP~~~---g~sa~~L~~~f~~ 133 (205)
-++|+|+..++++....+ -+=-..|.+|+.+
T Consensus 5 sLQhLCR~tI~~~~~~~~i~~lpLP~~LKdyL~~ 38 (43)
T cd03735 5 PLQELCRKSIVATFGRENLARIPLNPVLKDYLKS 38 (43)
T ss_pred CHHHHHHHHHHHhcCccccccCcCCHHHHHHHHh
Confidence 489999999999987542 1223578887764
No 139
>TIGR00915 2A0602 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family. This family is one of several subfamilies within the scope of pfam model pfam00873.
Probab=26.21 E-value=84 Score=33.20 Aligned_cols=20 Identities=25% Similarity=0.856 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHHHHHHhhh
Q 028678 160 YLSISILTLMLLPIFYLIVY 179 (205)
Q Consensus 160 y~~~~~~~l~~l~~fY~~v~ 179 (205)
.+++.+++|+++|++|.++.
T Consensus 1009 L~~st~ltL~vvP~ly~~~~ 1028 (1044)
T TIGR00915 1009 MVTATVLAIFFVPLFYVVVR 1028 (1044)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 45667888999999988744
No 140
>PF07423 DUF1510: Protein of unknown function (DUF1510); InterPro: IPR009988 This family consists of several hypothetical bacterial proteins of around 200 residues in length. The function of this family is unknown.
Probab=26.14 E-value=51 Score=29.15 Aligned_cols=13 Identities=23% Similarity=0.519 Sum_probs=5.8
Q ss_pred CCccHHHHHHHHH
Q 028678 154 KQPSVFYLSISIL 166 (205)
Q Consensus 154 ~~~~~~y~~~~~~ 166 (205)
+...+|=++++|+
T Consensus 11 K~N~iLNiaI~IV 23 (217)
T PF07423_consen 11 KTNKILNIAIGIV 23 (217)
T ss_pred hhhhhHHHHHHHH
Confidence 4454554444333
No 141
>PRK09731 putative general secretion pathway protein YghD; Provisional
Probab=26.12 E-value=74 Score=27.30 Aligned_cols=21 Identities=5% Similarity=0.368 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHHHHHHhhhh
Q 028678 160 YLSISILTLMLLPIFYLIVYL 180 (205)
Q Consensus 160 y~~~~~~~l~~l~~fY~~v~~ 180 (205)
.+++.+.++++++|+|..+|-
T Consensus 38 ~ll~~~g~vL~l~i~Y~~iWq 58 (178)
T PRK09731 38 GMLLAAVVFLFSVGYYVLIWQ 58 (178)
T ss_pred HHHHHHHHHHHHHHHHHHHHh
Confidence 344555556677788888883
No 142
>PF02009 Rifin_STEVOR: Rifin/stevor family; InterPro: IPR002858 Malaria is still a major cause of mortality in many areas of the world. Plasmodium falciparum causes the most severe human form of the disease and is responsible for most fatalities. Severe cases of malaria can occur when the parasite invades and then proliferates within red blood cell erythrocytes. The parasite produces many variant antigenic proteins, encoded by multigene families, which are present on the surface of the infected erythrocyte and play important roles in virulence. A crucial survival mechanism for the malaria parasite is its ability to evade the immune response by switching these variant surface antigens. The high virulence of P. falciparum relative to other malarial parasites is in large part due to the fact that in this organism many of these surface antigens mediate the binding of infected erythrocytes to the vascular endothelium (cytoadherence) and non-infected erythrocytes (rosetting). This can lead to the accumulation of infected cells in the vasculature of a variety of organs, blocking the blood flow and reducing the oxygen supply. Clinical symptoms of severe infection can include fever, progressive anaemia, multi-organ dysfunction and coma. For more information see []. Several multicopy gene families have been described in Plasmodium falciparum, including the stevor family of subtelomeric open reading frames and the rif interspersed repetitive elements. Both families contain three predicted transmembrane segments. It has been proposed that stevor and rif are members of a larger superfamily that code for variant surface antigens [].
Probab=25.96 E-value=37 Score=31.31 Aligned_cols=19 Identities=16% Similarity=0.389 Sum_probs=8.8
Q ss_pred CCCCCCCCccCCchHhhhhhh
Q 028678 14 KCRLHPDNDMFRDQEQHKIHV 34 (205)
Q Consensus 14 ~C~L~P~~D~F~~~E~~k~h~ 34 (205)
+|-|.- ..|....|+|...
T Consensus 23 ECely~--snYDNDPeMK~Vm 41 (299)
T PF02009_consen 23 ECELYT--SNYDNDPEMKSVM 41 (299)
T ss_pred hhcccc--cCCCCcHHHHHHH
Confidence 454443 2344445555444
No 143
>KOG2754 consensus Oligosaccharyltransferase, beta subunit [Posttranslational modification, protein turnover, chaperones]
Probab=25.92 E-value=36 Score=33.01 Aligned_cols=28 Identities=18% Similarity=0.332 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHHHHHHHhhhheeccccc
Q 028678 160 YLSISILTLMLLPIFYLIVYLYQREMRG 187 (205)
Q Consensus 160 y~~~~~~~l~~l~~fY~~v~~~~r~~~~ 187 (205)
=|.+++|.+|+-.+++.+||++.++...
T Consensus 407 pYyas~fs~m~g~~~Fs~vfL~~k~~~~ 434 (443)
T KOG2754|consen 407 PYYASCFSMMAGFFLFSFVFLYHKDVPV 434 (443)
T ss_pred hHHHHHHHHHHHHheeeEEEEEecCCcc
Confidence 3447778888888999999999998763
No 144
>PF01299 Lamp: Lysosome-associated membrane glycoprotein (Lamp); InterPro: IPR002000 Lysosome-associated membrane glycoproteins (lamp) [] are integral membrane proteins, specific to lysosomes, and whose exact biological function is not yet clear. Structurally, the lamp proteins consist of two internally homologous lysosome-luminal domains separated by a proline-rich hinge region; at the C-terminal extremity there is a transmembrane region (TM) followed by a very short cytoplasmic tail (C). In each of the duplicated domains, there are two conserved disulphide bonds. This structure is schematically represented in the figure below. +-----+ +-----+ +-----+ +-----+ | | | | | | | | xCxxxxxCxxxxxxxxxxxxCxxxxxCxxxxxxxxxCxxxxxCxxxxxxxxxxxxCxxxxxCxxxxxxxx +--------------------------++Hinge++--------------------------++TM++C+ In mammals, there are two closely related types of lamp: lamp-1 and lamp-2, which form major components of the lysosome membrane. In chicken lamp-1 is known as LEP100. Also included in this entry is the macrophage protein CD68 (or macrosialin) [] is a heavily glycosylated integral membrane protein whose structure consists of a mucin-like domain followed by a proline-rich hinge; a single lamp-like domain; a transmembrane region and a short cytoplasmic tail. Similar to CD68, mammalian lamp-3, which is expressed in lymphoid organs, dendritic cells and in lung, contains all the C-terminal regions but lacks the N-terminal lamp-like region []. In a lamp-family protein from nematodes [] only the part C-terminal to the hinge is conserved. ; GO: 0016020 membrane
Probab=25.89 E-value=71 Score=28.68 Aligned_cols=27 Identities=26% Similarity=0.176 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhheecc
Q 028678 158 VFYLSISILTLMLLPIFYLIVYLYQRE 184 (205)
Q Consensus 158 ~~y~~~~~~~l~~l~~fY~~v~~~~r~ 184 (205)
.+-=|+.+++|++|+|.=||+|++-|.
T Consensus 271 ~~vPIaVG~~La~lvlivLiaYli~Rr 297 (306)
T PF01299_consen 271 DLVPIAVGAALAGLVLIVLIAYLIGRR 297 (306)
T ss_pred chHHHHHHHHHHHHHHHHHHhheeEec
Confidence 333444455567777777888888775
No 145
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=25.88 E-value=30 Score=32.99 Aligned_cols=52 Identities=25% Similarity=0.480 Sum_probs=41.7
Q ss_pred CCCCCCCCCCCccCCchHhhhhhh-cCc----------------------ccccccccccCCchhhHhhhhhhcc
Q 028678 11 ISSKCRLHPDNDMFRDQEQHKIHV-DIN----------------------EWRCGYCKKSFRAEKFLDQHFDNRH 62 (205)
Q Consensus 11 l~~~C~L~P~~D~F~~~E~~k~h~-~~h----------------------~~rC~~C~K~F~sE~~LDlHidnrH 62 (205)
-|-.||.+-+...|..|..+|-|. ..| -+||..|+|.+.+-.-|.-|+.-.|
T Consensus 348 KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~Hsh 422 (423)
T COG5189 348 KPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRKHSH 422 (423)
T ss_pred ceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceecccccC
Confidence 466899998888899988888776 333 4699999999999888888876655
No 146
>PF07219 HemY_N: HemY protein N-terminus; InterPro: IPR010817 This entry represents the N terminus (approximately 150 residues) of bacterial HemY porphyrin biosynthesis proteins. These are membrane protein involved in a late step of protoheme IX synthesis [].
Probab=25.86 E-value=19 Score=27.52 Aligned_cols=18 Identities=39% Similarity=0.807 Sum_probs=8.8
Q ss_pred HHHHHHHHHHHhhhheec
Q 028678 166 LTLMLLPIFYLIVYLYQR 183 (205)
Q Consensus 166 ~~l~~l~~fY~~v~~~~r 183 (205)
+++++++++|++++++..
T Consensus 22 ~l~~~~~~l~ll~~ll~~ 39 (108)
T PF07219_consen 22 LLLLLFVVLYLLLRLLRR 39 (108)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 334444555555555443
No 147
>COG4459 NapE Periplasmic nitrate reductase system, NapE component [Energy production and conversion]
Probab=25.67 E-value=60 Score=23.61 Aligned_cols=26 Identities=15% Similarity=0.529 Sum_probs=15.5
Q ss_pred HHHHHHHHHHH---HHHHHHHHhhhheec
Q 028678 158 VFYLSISILTL---MLLPIFYLIVYLYQR 183 (205)
Q Consensus 158 ~~y~~~~~~~l---~~l~~fY~~v~~~~r 183 (205)
.+++++.|+-+ ..+.-|-+|||++|-
T Consensus 24 Fl~la~~l~PilsV~~VG~yGFiVWM~Qi 52 (62)
T COG4459 24 FLFLAFGLFPILSVAFVGGYGFIVWMFQI 52 (62)
T ss_pred HHHHHHHHHHHHHHHHhcchhHHHHHHHH
Confidence 33444444333 333468899999984
No 148
>PF04277 OAD_gamma: Oxaloacetate decarboxylase, gamma chain ; InterPro: IPR005899 This family comprises distantly related, low complexity, hydrophobic small subunits of several related sodium ion-pumping decarboxylases. These include oxaloacetate decarboxylase gamma subunit and methylmalonyl-CoA decarboxylase delta subunit [].; GO: 0008948 oxaloacetate decarboxylase activity, 0015081 sodium ion transmembrane transporter activity, 0071436 sodium ion export, 0016020 membrane
Probab=25.30 E-value=1.5e+02 Score=20.97 Aligned_cols=12 Identities=25% Similarity=0.622 Sum_probs=4.7
Q ss_pred HHHHHHHHhhhh
Q 028678 169 MLLPIFYLIVYL 180 (205)
Q Consensus 169 ~~l~~fY~~v~~ 180 (205)
++|++.++++++
T Consensus 17 ~~L~lL~~~i~l 28 (79)
T PF04277_consen 17 LVLILLILVISL 28 (79)
T ss_pred HHHHHHHHHHHH
Confidence 333344444443
No 149
>PF08374 Protocadherin: Protocadherin; InterPro: IPR013585 The structure of protocadherins is similar to that of classic cadherins (IPR002126 from INTERPRO), but they also have some unique features associated with the cytoplasmic domains. They are expressed in a variety of organisms and are found in high concentrations in the brain where they seem to be localised mainly at cell-cell contact sites. Their expression seems to be developmentally regulated [].
Probab=24.92 E-value=77 Score=28.35 Aligned_cols=30 Identities=17% Similarity=0.325 Sum_probs=21.5
Q ss_pred CCccHHHHHHHHHHHHHHHHHHHhhhheec
Q 028678 154 KQPSVFYLSISILTLMLLPIFYLIVYLYQR 183 (205)
Q Consensus 154 ~~~~~~y~~~~~~~l~~l~~fY~~v~~~~r 183 (205)
....+++-+++.++.|+|+||-..++.++|
T Consensus 35 d~~~I~iaiVAG~~tVILVI~i~v~vR~CR 64 (221)
T PF08374_consen 35 DYVKIMIAIVAGIMTVILVIFIVVLVRYCR 64 (221)
T ss_pred cceeeeeeeecchhhhHHHHHHHHHHHHHh
Confidence 345566777777778888888877777665
No 150
>PLN02971 tryptophan N-hydroxylase
Probab=24.85 E-value=1e+02 Score=29.31 Aligned_cols=34 Identities=15% Similarity=0.298 Sum_probs=25.8
Q ss_pred CCCCccHHHHHHHHHHHHHHHHHHHhhhheeccc
Q 028678 152 GRKQPSVFYLSISILTLMLLPIFYLIVYLYQREM 185 (205)
Q Consensus 152 ~~~~~~~~y~~~~~~~l~~l~~fY~~v~~~~r~~ 185 (205)
|....+.+|+.+.+.+++++.++++++|...+..
T Consensus 18 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 51 (543)
T PLN02971 18 GTSSFTNMYLLTTLQALVAITLLMILKKLKSSSR 51 (543)
T ss_pred CCccHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 3345668899888888888888888888766653
No 151
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=24.84 E-value=25 Score=21.82 Aligned_cols=15 Identities=33% Similarity=0.802 Sum_probs=11.6
Q ss_pred cccccccccccCCch
Q 028678 37 NEWRCGYCKKSFRAE 51 (205)
Q Consensus 37 h~~rC~~C~K~F~sE 51 (205)
.+.+|..||+.|.-.
T Consensus 4 Y~y~C~~Cg~~fe~~ 18 (41)
T smart00834 4 YEYRCEDCGHTFEVL 18 (41)
T ss_pred EEEEcCCCCCEEEEE
Confidence 467999999988643
No 152
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=24.84 E-value=28 Score=25.80 Aligned_cols=40 Identities=15% Similarity=0.219 Sum_probs=26.6
Q ss_pred CCCCCCCCCccCCchHhhhhhhcCcccccc--cccccCCchh
Q 028678 13 SKCRLHPDNDMFRDQEQHKIHVDINEWRCG--YCKKSFRAEK 52 (205)
Q Consensus 13 ~~C~L~P~~D~F~~~E~~k~h~~~h~~rC~--~C~K~F~sE~ 52 (205)
|.||+--+.+.-++-......+..-.++|. +||..|.+-.
T Consensus 2 m~CP~Cg~~a~irtSr~~s~~~~~~Y~qC~N~eCg~tF~t~e 43 (72)
T PRK09678 2 FHCPLCQHAAHARTSRYITDTTKERYHQCQNVNCSATFITYE 43 (72)
T ss_pred ccCCCCCCccEEEEChhcChhhheeeeecCCCCCCCEEEEEE
Confidence 678888776633333333333566778998 9999997643
No 153
>PF03381 CDC50: LEM3 (ligand-effect modulator 3) family / CDC50 family; InterPro: IPR005045 Members of this family have no known function. They have predicted transmembrane helices.; GO: 0016020 membrane
Probab=24.71 E-value=92 Score=28.00 Aligned_cols=28 Identities=32% Similarity=0.575 Sum_probs=16.1
Q ss_pred cHHHHHHHHHHHHHHHHHHHhhhheecc
Q 028678 157 SVFYLSISILTLMLLPIFYLIVYLYQRE 184 (205)
Q Consensus 157 ~~~y~~~~~~~l~~l~~fY~~v~~~~r~ 184 (205)
+++|++++++.+++.++|.++-+...|.
T Consensus 246 gi~ylvvg~i~~v~~i~~~~~~~~~~r~ 273 (278)
T PF03381_consen 246 GIAYLVVGGICLVLAIIFLIIHYFKPRK 273 (278)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCCCC
Confidence 4557777776665555555555554443
No 154
>PRK08222 hydrogenase 4 subunit H; Validated
Probab=24.30 E-value=47 Score=27.89 Aligned_cols=28 Identities=18% Similarity=0.371 Sum_probs=22.6
Q ss_pred hcCcccccccccccCCchhhHhhhhhhc
Q 028678 34 VDINEWRCGYCKKSFRAEKFLDQHFDNR 61 (205)
Q Consensus 34 ~~~h~~rC~~C~K~F~sE~~LDlHidnr 61 (205)
...+.-+|..|||-|-+++.++.=++.-
T Consensus 110 ~~~~~~~C~~Cg~~f~~~k~i~~~~~~l 137 (181)
T PRK08222 110 ATFHLQRCSRCERPFAPQKTVALAAELL 137 (181)
T ss_pred cccccCcCcccCCccCcHhHHHHHHHHh
Confidence 3567889999999999999888665543
No 155
>PF02148 zf-UBP: Zn-finger in ubiquitin-hydrolases and other protein; InterPro: IPR001607 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 UBP-type zinc finger domains, which display some similarity with the Zn-binding domain of the insulinase family. The UBP-type zinc finger domain is found only in a small subfamily of ubiquitin C-terminal hydrolases (deubiquitinases or UBP) [, ], All members of this subfamily are isopeptidase-T, which are known to cleave isopeptide bonds between ubiquitin moieties. Some of the proteins containing an UBP zinc finger include: Homo sapiens (Human) deubiquitinating enzyme 13 (UBPD) Human deubiquitinating enzyme 5 (UBP5) Dictyostelium discoideum (Slime mold) deubiquitinating enzyme A (UBPA) Saccharomyces cerevisiae (Baker's yeast) deubiquitinating enzyme 8 (UBP8) Yeast deubiquitinating enzyme 14 (UBP14) More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3GV4_A 3PHD_B 3C5K_A 2UZG_A 3IHP_B 2G43_B 2G45_D 2I50_A 3MHH_A 3MHS_A ....
Probab=24.04 E-value=33 Score=23.82 Aligned_cols=36 Identities=19% Similarity=0.317 Sum_probs=23.6
Q ss_pred cCcccccccccccCCch---hhHhhhhhhc-ccccccCCc
Q 028678 35 DINEWRCGYCKKSFRAE---KFLDQHFDNR-HNNLLNVSH 70 (205)
Q Consensus 35 ~~h~~rC~~C~K~F~sE---~~LDlHidnr-H~~ll~~~~ 70 (205)
....|.|+.||+.+=.. ...-.|+++. |.-.++...
T Consensus 8 ~~~lw~CL~Cg~~~C~~~~~~Ha~~H~~~~~H~l~v~~~~ 47 (63)
T PF02148_consen 8 NSNLWLCLTCGYVGCGRYSNGHALKHYKETGHPLAVSLST 47 (63)
T ss_dssp SSSEEEETTTS-EEETTTSTSHHHHHHHHHT--EEEETTT
T ss_pred CCceEEeCCCCcccccCCcCcHHHHhhcccCCeEEEECCC
Confidence 35789999999998764 6677888774 444555444
No 156
>PHA03030 hypothetical protein; Provisional
Probab=23.73 E-value=75 Score=25.67 Aligned_cols=10 Identities=40% Similarity=0.892 Sum_probs=4.6
Q ss_pred HHHHHHHHHh
Q 028678 168 LMLLPIFYLI 177 (205)
Q Consensus 168 l~~l~~fY~~ 177 (205)
++.|.+||+|
T Consensus 12 fifl~iffYI 21 (122)
T PHA03030 12 FIFLFIFFYI 21 (122)
T ss_pred HHHHHHHHHh
Confidence 4444455544
No 157
>cd02669 Peptidase_C19M A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=23.67 E-value=43 Score=31.56 Aligned_cols=41 Identities=24% Similarity=0.566 Sum_probs=29.3
Q ss_pred cCcccccccccccCC----chhhHhhhhhhcccccccCCcc--Cchh
Q 028678 35 DINEWRCGYCKKSFR----AEKFLDQHFDNRHNNLLNVSHG--KCLA 75 (205)
Q Consensus 35 ~~h~~rC~~C~K~F~----sE~~LDlHidnrH~~ll~~~~~--~CLa 75 (205)
+.+.|-|+.|||.|- +.|.+.=-.+..|.-+++.+.+ -|+.
T Consensus 25 ~~n~~~CL~cg~~~~g~~~~~ha~~H~~~~~H~~~v~l~t~~~yc~~ 71 (440)
T cd02669 25 NLNVYACLVCGKYFQGRGKGSHAYTHSLEDNHHVFLNLETLKFYCLP 71 (440)
T ss_pred CCcEEEEcccCCeecCCCCCcHHHHHhhccCCCEEEECCCCCEEEeC
Confidence 567899999999876 4456654467778877776543 6664
No 158
>PF00737 PsbH: Photosystem II 10 kDa phosphoprotein; InterPro: IPR001056 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight phosphoprotein PsbH found in PSII. The phosphorylation site of PsbH is located in the N terminus, where reversible phosphorylation is light-dependent and redox-controlled. PsbH is necessary for the photoprotection of PSII, being required for: (1) the rapid degradation of photodamaged D1 core protein to prevent further oxidative damage to the PSII core, and (2) the insertion of newly synthesised D1 protein into the thylakoid membrane []. PsbH may also regulate the transfer of electrons from D2 (Qa) to D1 (Qb) in the reaction core.; GO: 0042301 phosphate ion binding, 0015979 photosynthesis, 0050821 protein stabilization, 0009523 photosystem II, 0016020 membrane; PDB: 3PRR_H 2AXT_h 3BZ2_H 3BZ1_H 4FBY_W 3PRQ_H 3KZI_H 1S5L_h 3A0H_H 3ARC_H ....
Probab=23.56 E-value=1.3e+02 Score=21.30 Aligned_cols=13 Identities=31% Similarity=0.748 Sum_probs=5.7
Q ss_pred HHHHHHHHHHHhh
Q 028678 166 LTLMLLPIFYLIV 178 (205)
Q Consensus 166 ~~l~~l~~fY~~v 178 (205)
++++++++|.+|+
T Consensus 30 ~~m~lf~vfl~ii 42 (52)
T PF00737_consen 30 VFMALFAVFLLII 42 (52)
T ss_dssp HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 3344444444444
No 159
>TIGR01477 RIFIN variant surface antigen, rifin family. This model represents the rifin branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of rifin sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 20 bits.
Probab=23.28 E-value=64 Score=30.67 Aligned_cols=23 Identities=26% Similarity=0.586 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHHHHhhhheecc
Q 028678 162 SISILTLMLLPIFYLIVYLYQRE 184 (205)
Q Consensus 162 ~~~~~~l~~l~~fY~~v~~~~r~ 184 (205)
++|++++|+++|..+|+||.-|=
T Consensus 313 iaSiIAIvvIVLIMvIIYLILRY 335 (353)
T TIGR01477 313 IASIIAILIIVLIMVIIYLILRY 335 (353)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Confidence 34455555555555666655554
No 160
>PTZ00208 65 kDa invariant surface glycoprotein; Provisional
Probab=23.18 E-value=83 Score=30.67 Aligned_cols=38 Identities=11% Similarity=0.361 Sum_probs=26.5
Q ss_pred CccHHHHHHHHHHHHHHHHHHHhhhheecccccccccc
Q 028678 155 QPSVFYLSISILTLMLLPIFYLIVYLYQREMRGGTQEL 192 (205)
Q Consensus 155 ~~~~~y~~~~~~~l~~l~~fY~~v~~~~r~~~~~~~~l 192 (205)
+.+.+.+++.++-.++|++.-..++++.|..|.-++|+
T Consensus 383 ~~~~~i~~avl~p~~il~~~~~~~~~~v~rrr~~~~dv 420 (436)
T PTZ00208 383 QRTAMIILAVLVPAIILAIIAVAFFIMVKRRRNSSEDV 420 (436)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHhheeeeeccCCchhc
Confidence 45566666666666777766666777777767788887
No 161
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=23.17 E-value=1.1e+02 Score=28.05 Aligned_cols=31 Identities=23% Similarity=0.228 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHHHHHhhhheeccccccc
Q 028678 159 FYLSISILTLMLLPIFYLIVYLYQREMRGGT 189 (205)
Q Consensus 159 ~y~~~~~~~l~~l~~fY~~v~~~~r~~~~~~ 189 (205)
.+-.+..+++++++.|-.||++..|-.|.|.
T Consensus 249 ~~~ra~fli~lgvLafi~~i~lM~rlGr~g~ 279 (299)
T KOG3970|consen 249 AKKRALFLIFLGVLAFITIIMLMKRLGRSGE 279 (299)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccccc
Confidence 3444555556666667777777777666554
No 162
>PF14276 DUF4363: Domain of unknown function (DUF4363)
Probab=23.16 E-value=73 Score=24.51 Aligned_cols=23 Identities=22% Similarity=0.332 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHHHHHhhhhee
Q 028678 160 YLSISILTLMLLPIFYLIVYLYQ 182 (205)
Q Consensus 160 y~~~~~~~l~~l~~fY~~v~~~~ 182 (205)
|+++++|++++++.+|..-|+-.
T Consensus 1 ~i~~~i~~lii~~~~~~~~~l~~ 23 (121)
T PF14276_consen 1 IIVIIIFILIIALSIFSNNYLNN 23 (121)
T ss_pred ChHHHHHHHHHHHHHHHHhhhhh
Confidence 35667777777778887777654
No 163
>PTZ00046 rifin; Provisional
Probab=23.04 E-value=65 Score=30.65 Aligned_cols=23 Identities=26% Similarity=0.540 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHHHhhhheecc
Q 028678 162 SISILTLMLLPIFYLIVYLYQRE 184 (205)
Q Consensus 162 ~~~~~~l~~l~~fY~~v~~~~r~ 184 (205)
++|++++|+++|..+|+||.-|=
T Consensus 318 iaSiiAIvVIVLIMvIIYLILRY 340 (358)
T PTZ00046 318 IASIVAIVVIVLIMVIIYLILRY 340 (358)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Confidence 34455555555555666655554
No 164
>PF07438 DUF1514: Protein of unknown function (DUF1514); InterPro: IPR009999 This entry is represented by Bacteriophage phi PVL, Orf60. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several Staphylococcus aureus and related bacteriophage proteins of around 65 residues in length. The function of this family is unknown.
Probab=22.95 E-value=34 Score=25.21 Aligned_cols=7 Identities=43% Similarity=0.814 Sum_probs=3.3
Q ss_pred HHHHHHH
Q 028678 160 YLSISIL 166 (205)
Q Consensus 160 y~~~~~~ 166 (205)
|++++|+
T Consensus 2 WIiiSIv 8 (66)
T PF07438_consen 2 WIIISIV 8 (66)
T ss_pred hhhHHHH
Confidence 4444444
No 165
>PRK10697 DNA-binding transcriptional activator PspC; Provisional
Probab=22.81 E-value=85 Score=25.32 Aligned_cols=15 Identities=13% Similarity=0.248 Sum_probs=10.8
Q ss_pred HHHHHHHhhhheecc
Q 028678 170 LLPIFYLIVYLYQRE 184 (205)
Q Consensus 170 ~l~~fY~~v~~~~r~ 184 (205)
..++.|+++|+.-..
T Consensus 51 ~~~~~Yi~l~~~lp~ 65 (118)
T PRK10697 51 FTLVAYIILSFALDP 65 (118)
T ss_pred HHHHHHHHHHHhccC
Confidence 345679999987654
No 166
>PF11742 DUF3302: Protein of unknown function (DUF3302); InterPro: IPR011223 This is a family of uncharacterised bacterial proteins, restricted to the Gammaproteobacteria.
Probab=22.67 E-value=1.1e+02 Score=23.29 Aligned_cols=22 Identities=18% Similarity=0.469 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHHHhhhhe
Q 028678 160 YLSISILTLMLLPIFYLIVYLY 181 (205)
Q Consensus 160 y~~~~~~~l~~l~~fY~~v~~~ 181 (205)
|.+..++++++++++|.++.++
T Consensus 3 ~~a~~vli~~~~~~~~~~~~lh 24 (78)
T PF11742_consen 3 YFALVVLIFVVIVLIYGFWKLH 24 (78)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 5566666677777888876654
No 167
>PF14610 DUF4448: Protein of unknown function (DUF4448)
Probab=22.61 E-value=36 Score=28.48 Aligned_cols=24 Identities=13% Similarity=0.364 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHHHhhhheecccc
Q 028678 163 ISILTLMLLPIFYLIVYLYQREMR 186 (205)
Q Consensus 163 ~~~~~l~~l~~fY~~v~~~~r~~~ 186 (205)
++.++++++++.-++.|++.|+.|
T Consensus 163 ~lPvvv~~~~~~~~~~~~~~R~~R 186 (189)
T PF14610_consen 163 ALPVVVVVLALIMYGFFFWNRKKR 186 (189)
T ss_pred EccHHHHHHHHHHHhhheeeccce
Confidence 333444444444445555566645
No 168
>PRK09467 envZ osmolarity sensor protein; Provisional
Probab=22.55 E-value=61 Score=28.95 Aligned_cols=33 Identities=9% Similarity=0.151 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHHhhhheeccccccccccccccc
Q 028678 165 ILTLMLLPIFYLIVYLYQREMRGGTQELKRIPR 197 (205)
Q Consensus 165 ~~~l~~l~~fY~~v~~~~r~~~~~~~~l~r~~~ 197 (205)
+++++++++.|++++...|-.++.++.++++.+
T Consensus 161 ~~~l~~~~~~~~~~r~~~~pl~~l~~~~~~~~~ 193 (435)
T PRK09467 161 AIGLLSVAGGWLFIRIQNRPLVALEHAALQVGK 193 (435)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhC
Confidence 333444444555566566666667777777654
No 169
>PRK00753 psbL photosystem II reaction center L; Provisional
Probab=22.55 E-value=1e+02 Score=20.59 Aligned_cols=24 Identities=17% Similarity=0.286 Sum_probs=15.3
Q ss_pred CCccHHHHHHHHHHHHHHHHHHHh
Q 028678 154 KQPSVFYLSISILTLMLLPIFYLI 177 (205)
Q Consensus 154 ~~~~~~y~~~~~~~l~~l~~fY~~ 177 (205)
.+||+.|=+++++++.+|.--|++
T Consensus 15 NRTSLy~GlLlifvl~vLFssYff 38 (39)
T PRK00753 15 NRTSLYLGLLLVFVLGILFSSYFF 38 (39)
T ss_pred chhhHHHHHHHHHHHHHHHHhhcc
Confidence 467776666666766666665543
No 170
>PRK09470 cpxA two-component sensor protein; Provisional
Probab=22.54 E-value=47 Score=29.67 Aligned_cols=33 Identities=9% Similarity=0.263 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHhhhheeccccccccccccccc
Q 028678 165 ILTLMLLPIFYLIVYLYQREMRGGTQELKRIPR 197 (205)
Q Consensus 165 ~~~l~~l~~fY~~v~~~~r~~~~~~~~l~r~~~ 197 (205)
+++++++++.|++++...|-.+..++.++.+++
T Consensus 174 ~~~~~~~~~~~~~~~~i~~pl~~l~~~~~~i~~ 206 (461)
T PRK09470 174 VTMLVSTPLLLWLAWSLAKPARKLKNAADEVAQ 206 (461)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 334444555566777777766666666666654
No 171
>COG5035 CDC50 Cell cycle control protein [Cell division and chromosome partitioning / Transcription / Signal transduction mechanisms]
Probab=22.41 E-value=90 Score=29.68 Aligned_cols=27 Identities=26% Similarity=0.572 Sum_probs=21.0
Q ss_pred ccHHHHHHHHHHHHHHHHHHHhhhheec
Q 028678 156 PSVFYLSISILTLMLLPIFYLIVYLYQR 183 (205)
Q Consensus 156 ~~~~y~~~~~~~l~~l~~fY~~v~~~~r 183 (205)
-|++|++++++ .+++++.|++-|+++-
T Consensus 332 LGI~ylivg~i-cal~~~if~~~~~f~p 358 (372)
T COG5035 332 LGIVYLIVGGI-CALLGLIFLIKWLFKP 358 (372)
T ss_pred hhhHHHHHHHH-HHHHHHHHHHHHhhCC
Confidence 45667776665 8888899999998864
No 172
>CHL00038 psbL photosystem II protein L
Probab=22.36 E-value=1.1e+02 Score=20.24 Aligned_cols=23 Identities=22% Similarity=0.378 Sum_probs=14.5
Q ss_pred CCccHHHHHHHHHHHHHHHHHHH
Q 028678 154 KQPSVFYLSISILTLMLLPIFYL 176 (205)
Q Consensus 154 ~~~~~~y~~~~~~~l~~l~~fY~ 176 (205)
.+||+.|=+++|+++.+|.--|+
T Consensus 14 NRTSLy~GLLlifvl~vlfssyf 36 (38)
T CHL00038 14 NRTSLYWGLLLIFVLAVLFSNYF 36 (38)
T ss_pred hhhhHHHHHHHHHHHHHHHHHHh
Confidence 45777666666666666665554
No 173
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=22.16 E-value=28 Score=25.35 Aligned_cols=30 Identities=30% Similarity=0.465 Sum_probs=24.4
Q ss_pred ccccccccccCCchhhHhhhhhhccccccc
Q 028678 38 EWRCGYCKKSFRAEKFLDQHFDNRHNNLLN 67 (205)
Q Consensus 38 ~~rC~~C~K~F~sE~~LDlHidnrH~~ll~ 67 (205)
-.+|.-||+.|...+-...|...-|.-+.+
T Consensus 17 ~lrCPRC~~~FR~~K~Y~RHVNKaH~~~~~ 46 (65)
T COG4049 17 FLRCPRCGMVFRRRKDYIRHVNKAHGWLFG 46 (65)
T ss_pred eeeCCchhHHHHHhHHHHHHhhHHhhhhhc
Confidence 468899999999988888888888876554
No 174
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=22.11 E-value=56 Score=31.65 Aligned_cols=60 Identities=22% Similarity=0.389 Sum_probs=50.4
Q ss_pred CCCCCCCCCCCccCCchHhhhhhh-cCc------ccccccccccCCchhhHhhhhhhcccccccCCc
Q 028678 11 ISSKCRLHPDNDMFRDQEQHKIHV-DIN------EWRCGYCKKSFRAEKFLDQHFDNRHNNLLNVSH 70 (205)
Q Consensus 11 l~~~C~L~P~~D~F~~~E~~k~h~-~~h------~~rC~~C~K~F~sE~~LDlHidnrH~~ll~~~~ 70 (205)
+.-.|-.+-....|+.+-+++.|+ ..| -+.|--|.|-|.+-..|..|+-..|.--++.+.
T Consensus 318 ~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np~~Y~CH~Cdr~ft~G~~L~~HL~kkH~f~~PsGh 384 (467)
T KOG3608|consen 318 TVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNPILYACHCCDRFFTSGKSLSAHLMKKHGFRLPSGH 384 (467)
T ss_pred cceecCCCCCcHHHHHHHHHHHHHHHhccCCCCCceeeecchhhhccchhHHHHHHHhhcccCCCCC
Confidence 445788776677899999999998 554 468999999999999999999999998877764
No 175
>PF12768 Rax2: Cortical protein marker for cell polarity
Probab=22.05 E-value=92 Score=28.22 Aligned_cols=23 Identities=26% Similarity=0.418 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHHHHHhhhheecc
Q 028678 162 SISILTLMLLPIFYLIVYLYQRE 184 (205)
Q Consensus 162 ~~~~~~l~~l~~fY~~v~~~~r~ 184 (205)
++++-++++|.+.++|+..++|.
T Consensus 235 AiALG~v~ll~l~Gii~~~~~r~ 257 (281)
T PF12768_consen 235 AIALGTVFLLVLIGIILAYIRRR 257 (281)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhh
Confidence 34444456666778888777766
No 176
>PRK13254 cytochrome c-type biogenesis protein CcmE; Reviewed
Probab=22.02 E-value=1.2e+02 Score=25.18 Aligned_cols=28 Identities=14% Similarity=0.218 Sum_probs=14.0
Q ss_pred ccHHHHHHHHHHHHHHHHHHHhhhheecc
Q 028678 156 PSVFYLSISILTLMLLPIFYLIVYLYQRE 184 (205)
Q Consensus 156 ~~~~y~~~~~~~l~~l~~fY~~v~~~~r~ 184 (205)
...++++++++ +++.++.||+++-++..
T Consensus 6 ~~rl~~~~~~~-~~~~~~~~L~~~a~~~~ 33 (148)
T PRK13254 6 RRRLLIILGAL-AALGLAVALVLYALRQN 33 (148)
T ss_pred hhHHHHHHHHH-HHHHHHHHHHHHHHHhC
Confidence 33444444444 34444666777654443
No 177
>TIGR02588 conserved hypothetical protein TIGR02588. The function of this protein is unknown. It is always found as part of a two-gene operon with TIGR02587, a protein that appears to span the membrane seven times. It is found in Nostoc sp. PCC 7120, Agrobacterium tumefaciens, Sinorhizobium meliloti, and Gloeobacter violaceus, so far, all of which are bacterial.
Probab=21.90 E-value=1.1e+02 Score=25.03 Aligned_cols=32 Identities=28% Similarity=0.474 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHHHHHHhhhheecccccccccc
Q 028678 160 YLSISILTLMLLPIFYLIVYLYQREMRGGTQEL 192 (205)
Q Consensus 160 y~~~~~~~l~~l~~fY~~v~~~~r~~~~~~~~l 192 (205)
|+.++|-++++++++-+++|.|..+ +...-+|
T Consensus 5 Wvt~~Is~~ill~viglv~y~~l~~-~~~pp~l 36 (122)
T TIGR02588 5 WVTFGISTLILAAMFGLVAYDWLRY-SNKAAVL 36 (122)
T ss_pred hhhHHHHHHHHHHHHHHHHHHhhcc-CCCCCeE
Confidence 5666677777777888888877766 3344444
No 178
>PF01286 XPA_N: XPA protein N-terminal; InterPro: IPR022652 Xeroderma pigmentosum (XP) [] is a human autosomal recessive disease, characterised by a high incidence of sunlight-induced skin cancer. Skin cells of individual's with this condition are hypersensitive to ultraviolet light, due to defects in the incision step of DNA excision repair. There are a minimum of seven genetic complementation groups involved in this pathway: XP-A to XP-G. XP-A is the most severe form of the disease and is due to defects in a 30 kDa nuclear protein called XPA (or XPAC) []. The sequence of the XPA protein is conserved from higher eukaryotes [] to yeast (gene RAD14) []. XPA is a hydrophilic protein of 247 to 296 amino-acid residues which has a C4-type zinc finger motif in its central section. This entry contains the zinc-finger containing region in the XPA protein. It is found N-terminal to PF05181 from PFAM ; PDB: 1D4U_A 1XPA_A.
Probab=21.88 E-value=20 Score=23.09 Aligned_cols=17 Identities=29% Similarity=0.530 Sum_probs=8.8
Q ss_pred ccccccccccCCchhhH
Q 028678 38 EWRCGYCKKSFRAEKFL 54 (205)
Q Consensus 38 ~~rC~~C~K~F~sE~~L 54 (205)
.-.|.+|||.|-..+++
T Consensus 3 ~~~C~eC~~~f~dSyL~ 19 (34)
T PF01286_consen 3 YPKCDECGKPFMDSYLL 19 (34)
T ss_dssp -EE-TTT--EES-SSCC
T ss_pred CchHhHhCCHHHHHHHH
Confidence 35799999999765544
No 179
>cd03739 SOCS_SOCS5 SOCS (suppressors of cytokine signaling) box of SOCS5-like proteins. Together with CIS1, the CIS/SOCS family of proteins is characterized by the presence of a C-terminal SOCS box and a central SH2 domain. SOCS5 inhibits Th2 differentiation by inhibiting IL-4 signaling. The general function of the SOCS box is the recruitment of the ubiquitin-transferase system. The SOCS box interacts with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions.
Probab=21.70 E-value=1.3e+02 Score=21.62 Aligned_cols=31 Identities=19% Similarity=0.391 Sum_probs=21.8
Q ss_pred HHHHHHHHhhccCCCCC---CcchHHHHHHHHHh
Q 028678 104 NRHLCESLANRCFPINQ---GPSASRLHELFLRQ 134 (205)
Q Consensus 104 ~r~~Ce~l~~sCFP~~~---g~sa~~L~~~f~~~ 134 (205)
|+|+|+..++++...++ -+=-.+|.+|+.+.
T Consensus 6 LQhLCR~~In~~t~~~~I~~LPLP~~LKdyLkeY 39 (57)
T cd03739 6 LQYICRAVICRCTTYDGIDALPLPSMLQDFLKEY 39 (57)
T ss_pred HHHHHHHHHHHhcCCCCcccCcCCHHHHHHHHhC
Confidence 79999999999976442 12224788886554
No 180
>PRK00893 aspartate carbamoyltransferase regulatory subunit; Reviewed
Probab=21.50 E-value=43 Score=28.20 Aligned_cols=50 Identities=24% Similarity=0.427 Sum_probs=28.2
Q ss_pred ccccccccCCC------CCCCCCCCccCCchHhhhhhh---cCcccccccccccCCchh
Q 028678 3 FVEQVQYEISS------KCRLHPDNDMFRDQEQHKIHV---DINEWRCGYCKKSFRAEK 52 (205)
Q Consensus 3 ~ve~~~~~l~~------~C~L~P~~D~F~~~E~~k~h~---~~h~~rC~~C~K~F~sE~ 52 (205)
+++|.++.+|. +|+=|-+-.--.+.=+.+-+. .....||.||++.|..+.
T Consensus 90 VveK~~v~lP~~i~gi~kC~Np~CITn~~E~v~~~F~v~~~~~~~~rC~YCe~~~~~~~ 148 (152)
T PRK00893 90 VVEKRKVELPEEIEGVLKCPNPNCITNTNEPVESRFYVVDKEPIKLRCKYCEKEFSEDI 148 (152)
T ss_pred EEEeccCCCCccccceEECCCCCCcCCCCcCcCcEEEEEeCCCCEEEeeCCCCEechhh
Confidence 45666676665 577555411001111122222 445899999999987654
No 181
>PF15168 TRIQK: Triple QxxK/R motif-containing protein family
Probab=21.31 E-value=90 Score=23.78 Aligned_cols=25 Identities=28% Similarity=0.509 Sum_probs=18.7
Q ss_pred CCccHHHHHHHHHHHHHHHHHHHhh
Q 028678 154 KQPSVFYLSISILTLMLLPIFYLIV 178 (205)
Q Consensus 154 ~~~~~~y~~~~~~~l~~l~~fY~~v 178 (205)
+...++..+++.+++..-++||+.+
T Consensus 49 kev~l~l~ail~lL~a~Ya~fyl~l 73 (79)
T PF15168_consen 49 KEVALVLAAILVLLLAFYAFFYLNL 73 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4455667777788888888999875
No 182
>PF10883 DUF2681: Protein of unknown function (DUF2681); InterPro: IPR020274 This entry contains membrane proteins with no known function.
Probab=21.05 E-value=1.2e+02 Score=23.25 Aligned_cols=19 Identities=16% Similarity=0.202 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHHHHHHHHh
Q 028678 159 FYLSISILTLMLLPIFYLI 177 (205)
Q Consensus 159 ~y~~~~~~~l~~l~~fY~~ 177 (205)
+++++.+++++++++.|+.
T Consensus 4 l~iv~~~~~v~~~i~~y~~ 22 (87)
T PF10883_consen 4 LQIVGGVGAVVALILAYLW 22 (87)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3554455555555555544
No 183
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=20.96 E-value=53 Score=22.55 Aligned_cols=16 Identities=31% Similarity=0.497 Sum_probs=7.7
Q ss_pred heeccccccccccccc
Q 028678 180 LYQREMRGGTQELKRI 195 (205)
Q Consensus 180 ~~~r~~~~~~~~l~r~ 195 (205)
-++++.|+..+++++.
T Consensus 45 ~~r~~~~~~~k~l~~l 60 (68)
T PF06305_consen 45 RLRRRIRRLRKELKKL 60 (68)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3345555555555444
No 184
>PHA03240 envelope glycoprotein M; Provisional
Probab=20.71 E-value=1.1e+02 Score=27.72 Aligned_cols=22 Identities=14% Similarity=0.611 Sum_probs=15.2
Q ss_pred CccHHHHHHHHHHHHHHHHHHH
Q 028678 155 QPSVFYLSISILTLMLLPIFYL 176 (205)
Q Consensus 155 ~~~~~y~~~~~~~l~~l~~fY~ 176 (205)
.+-.+|++++++++++++||.+
T Consensus 210 aaH~~WIiilIIiIiIIIL~cf 231 (258)
T PHA03240 210 AAHIAWIFIAIIIIIVIILFFF 231 (258)
T ss_pred cchHhHHHHHHHHHHHHHHHHH
Confidence 5667788777777766666654
No 185
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=20.68 E-value=86 Score=24.34 Aligned_cols=14 Identities=21% Similarity=0.266 Sum_probs=5.1
Q ss_pred HHHHHHHHHHHHHH
Q 028678 163 ISILTLMLLPIFYL 176 (205)
Q Consensus 163 ~~~~~l~~l~~fY~ 176 (205)
+++++++++.+.|.
T Consensus 5 ~~vll~ll~~l~y~ 18 (105)
T PRK00888 5 TLLLLALLVWLQYS 18 (105)
T ss_pred HHHHHHHHHHHHHH
Confidence 33333333333333
No 186
>PF06781 UPF0233: Uncharacterised protein family (UPF0233); InterPro: IPR009619 This is a group of proteins of unknown function.
Probab=20.32 E-value=1.6e+02 Score=22.61 Aligned_cols=30 Identities=30% Similarity=0.563 Sum_probs=23.9
Q ss_pred CccHHHHHHHHHHHHHHHHHHHhhhheecc
Q 028678 155 QPSVFYLSISILTLMLLPIFYLIVYLYQRE 184 (205)
Q Consensus 155 ~~~~~y~~~~~~~l~~l~~fY~~v~~~~r~ 184 (205)
..+-.|++...++++++.+.+++||....+
T Consensus 27 ~~sp~W~~p~m~~lmllGL~WiVvyYi~~~ 56 (87)
T PF06781_consen 27 KPSPRWYAPLMLGLMLLGLLWIVVYYISGG 56 (87)
T ss_pred CCCCccHHHHHHHHHHHHHHHHhhhhcccC
Confidence 345558888889999999999999877655
No 187
>cd03734 SOCS_CIS1 SOCS (suppressors of cytokine signaling) box of CIS (cytokine-inducible SH2 protein) 1-like proteins. Together with the SOCS proteins, the CIS/SOCS family of proteins is characterized by the presence of a C-terminal SOCS box and a central SH2 domain. CIS1, like SOCS1 and SOCS3, is involved in the down-regulation of the JAK/STAT pathway. CIS1 binds to cytokine receptors at STAT5-docking sites, which prohibits recruitment of STAT5 to the receptor signaling complex and results in the down-regulation of activation by STAT5.
Probab=20.30 E-value=1.6e+02 Score=19.55 Aligned_cols=32 Identities=22% Similarity=0.368 Sum_probs=21.7
Q ss_pred HHHHHHHHHHhhccCCCCCC-cchHHHHHHHHH
Q 028678 102 AKNRHLCESLANRCFPINQG-PSASRLHELFLR 133 (205)
Q Consensus 102 ~~~r~~Ce~l~~sCFP~~~g-~sa~~L~~~f~~ 133 (205)
..++|+|+..++++...-+. +--..|.+|+.+
T Consensus 4 ~sLQHLCR~~I~~~~~~i~~LpLP~~L~~yL~~ 36 (41)
T cd03734 4 RSLQHLCRLVINRLVTDVDCLPLPRRMADYLRQ 36 (41)
T ss_pred ccHHHHHHHHHHHhcCCcccCCCCHHHHHHHHH
Confidence 46899999999988742111 222478887764
No 188
>PRK10755 sensor protein BasS/PmrB; Provisional
Probab=20.27 E-value=81 Score=27.51 Aligned_cols=13 Identities=23% Similarity=0.220 Sum_probs=5.4
Q ss_pred ccccccccccccc
Q 028678 183 REMRGGTQELKRI 195 (205)
Q Consensus 183 r~~~~~~~~l~r~ 195 (205)
|..+...+.++.+
T Consensus 87 ~pl~~l~~~~~~~ 99 (356)
T PRK10755 87 RPLAELQKELEAR 99 (356)
T ss_pred hHHHHHHHHHHhc
Confidence 3333444444443
No 189
>PRK13453 F0F1 ATP synthase subunit B; Provisional
Probab=20.27 E-value=1.2e+02 Score=25.09 Aligned_cols=7 Identities=14% Similarity=0.083 Sum_probs=2.7
Q ss_pred CCccHHH
Q 028678 154 KQPSVFY 160 (205)
Q Consensus 154 ~~~~~~y 160 (205)
.|+.++|
T Consensus 17 ~~~t~~~ 23 (173)
T PRK13453 17 EWGTVIV 23 (173)
T ss_pred CHHHHHH
Confidence 3443333
No 190
>KOG2927 consensus Membrane component of ER protein translocation complex [Intracellular trafficking, secretion, and vesicular transport]
Probab=20.24 E-value=1.2e+02 Score=29.06 Aligned_cols=25 Identities=12% Similarity=0.362 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHHHHHHHhhhheecc
Q 028678 160 YLSISILTLMLLPIFYLIVYLYQRE 184 (205)
Q Consensus 160 y~~~~~~~l~~l~~fY~~v~~~~r~ 184 (205)
+++.+++++|+=+|.|.|+|+...|
T Consensus 228 fl~~IlvLaIvRlILF~I~~il~~g 252 (372)
T KOG2927|consen 228 FLAFILVLAIVRLILFGITWILTGG 252 (372)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 4444555555556888899988876
No 191
>PHA02844 putative transmembrane protein; Provisional
Probab=20.12 E-value=1.1e+02 Score=23.05 Aligned_cols=25 Identities=16% Similarity=0.188 Sum_probs=15.5
Q ss_pred CCccHHHHHHHHHHHHHHHHHHHhh
Q 028678 154 KQPSVFYLSISILTLMLLPIFYLIV 178 (205)
Q Consensus 154 ~~~~~~y~~~~~~~l~~l~~fY~~v 178 (205)
.|+.+...++++++++++..+|+=+
T Consensus 47 ~~~~~ii~i~~v~~~~~~~flYLK~ 71 (75)
T PHA02844 47 STKIWILTIIFVVFATFLTFLYLKA 71 (75)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHhe
Confidence 4555556666666666666777644
Done!